CmaCh16G011040 (gene) Cucurbita maxima (Rimu) v1.1

Overview


Name	CmaCh16G011040
Type	gene
Organism	Cucurbita maxima (Cucurbita maxima (Rimu) v1.1)
Description	light-harvesting complex-like protein 3 isotype 1, chloroplastic
Location	Cma_Chr16: 8495173 .. 8498340 (-)
RNA-Seq Expression	CmaCh16G011040
Synteny	CmaCh16G011040

Sequences

The following sequences are available for this feature:

Gene sequence (with intron)

Legend: polypeptideexonCDSthree_prime_UTR

Hold the cursor over a type above to highlight its positions in the sequence below.

ATGCCGGAAAAGTCCCCGAAGACGCTGCCACCGGCGAAAGGGATGAGAAAATTAGTGGAAAGCTGCGCCGTTCTCAGAGAGGAGGAGGACAATGACAACGTCCGGTTCGATTATCAATGGCGATATTCTGTTGGAAAGCGCGAAGCTGGAGGCAGTGGTGGCGACCTCCATGGCTATAAAACCTTGAAGAAGCAGAACGATAACCAAGCTGGAGGAGCGAAAATGGGAGATTTGTGGGCTTTTGAAGGTAATGGCTTAGGCCCAGCCCAAATCATTTTTTTTTCAAATATAGATTTTGTACCTATAAAAAAATTTAGACTTAAAAATAAATAAATTAATATCTAAATGAACCTAGCTTACATTTGAATGGAACCGATCTTAAGGAAAAGATTAAAATAACGGAAAGTTTCTATTTATACCAACAAGGTACACCGGTTCAATCACAGAAACTTCATGATTAAACGTACTCAGACCAATTCTATATTAAGTGATCTCTTATGAGTTTTTTAAAGATGTATGTGAGTGATGACAAAACATACTAGAAGAATTCGTGTTAATTGTGGGAATAGTTTTCCCTTCAGGGTATTATTAAAAAACTTTAAAATTCTAGAAAAAAGTTTATAAGGGTATTTTATTATTTTACACAAAATTAAACAATTTAGCTTCATCTTAATAATCATTACATATGAATTAAAAAAACATATTAAACAAGCTTGTGTTTAACCTTTTAATATAAAATTTAAAGAATTTAATAATATATTCCTTTCCACTTATTAATTTTAAAAAATATTTATATTATATTGTTTAAAATAAAAATTATTATTAGATTAAAATATCATTTTAATTTTTATAGATATCTAATTTTAGTTAAATAAATCTAAATTCAGTTTTATTTGATTTTTTTAGTAAAAAAAGTTCTTTATTTAACATTTTTTTTTAAATATATTCACCTAAGTATTTTAAGACTATTATTATTATTTAATAAATTTTGAAATACTAGATTTATTAGAATTAAATTTAATAATATTATTATTTAATCAACTTTATATATATATATTTATTTATTTATTTTTTAAGCAAGCACATTTATTATGGGCGAAAGTGCAAAGCTTCCCTATCCATCATAATTACAAGGCTGAGGATAGAGCTTTGAAGAGGAGGAGCTCTCTCTTCTTCTTCCTTCCACACCAAAACAATGTCTTCCATGGCTTTGTTTTCTCCTCCCTCCCGTCTTTCCTCTCTCTCTCCTTCTTCACATCACCGAACCCACTTCCCCTCCAGACCCTTTTCCTCTCTCAGGTCCAGAAACCCTTCTTCTTGGGTCGCTGCTGACAATGGCGCCGGAATTTCAGGTGGTTCCGTCGCTGTAGAACCCGCCGTCGTACAGAAGGATCCGGAGCCGGCGGTGGAAAAGAAAGAGAGCCTTGCTGAAACCAATGGGTCGGTGGCGGCTGTGGAAGAAGTGGTGGTGGTTAGCAAATTTGAAGACCCTAAATGGGTTAATGGGACTTGGGATTTGAATCAGTTCCGGAAAGATGGAAGTACTGATTGGGATGCTGTTATTGATGCTGGTAATCTTCGTAAACCCTACATTTTCTGTTGATTTTGCTTCTAATTGCATTACGAAATCTGGATGTACATAGATACATGCAATGTCTGAGAAGCTTTTTTGGGGAAATCTTGATCTGCAAGTTTTGATGATGTTTAGATTGTAATGGATTTCTTGGCGATGTTTGAGCAATTACTTGATGTTTGAATCAGAGGCTAGGAGGAGGAAATGGCTGGAAAACAATCCAGAATCATCAAGTAATGAGGACCCTGTGCTGTTTGACACATCCATAGTTCCTTGGTGGGCTTGGATTAAGCGCTACCATCTGCCAGAGGCTGAGATTCTCAATGGTATAAAACATGTTTCTATGATTGCTTATCTTGTTTTCTTAAAGCTTGTCTGTGTGAAATAATGGCTAAATGTGAATGTTTGAAAATCGTGTTTAGAAGTGTAAAATTGAATATTAATTTGATTTTGAATGTTTAAACACATGTTCTTGAGTGATTATGAACGTGAATGACTGATTTTAACCATTTGAAAATCACTCAAACGTATTTCTTGTTCTTTCGTTCATGTCTGTGAATCATGATTTCTACATGTTCATTGTATTGGCTTCTCTGTATGAAAATCATGTTTAAAAGTGTAAAATCATACATGGAAGTTGATTTTGAATGTTTAAACACATGTTCTTGAGTGATTTTGAGCATGTTCTTGAGTGATTTTGAACGTGAAGGACCGATTTTAACCATTTGAAAATCACTCGATCGTATTTTTTGTTCTTTCTTTCACGTCTGTGGATCATGATTTCTACTTGTTCATAACATTGGCTTCTCCATATGAAAATCACGTTTAAAAGCGTAAAATCATACATTAAGATGATTTTGAATGTTCAAACGCATGTTCTTGACGTGAATGACTGATTTTAACCATTTGAAAATCACTCAAACGTATTTTTTGATGATTTTGAATGTTCAAACGCATGTTCTTGAGTGATTTTGAACGTGAATGACTGATTTTAACCATTTGAAAATCACTCGATCATACTTTGTTCTTGAGTATTTCTACGTATAACGTTGGCTTCTCTGTAACTTACAAGTAATATTGTGTCAAGTAAAGTATTGAATCTACTATAACATTGAAGTAAATTTGAGCGGTGCAATGGTTTCGATGCAGGCCGTGCAGCCATGGTGGGGTTTTTCATGGCTTACTTCGTCGATAGCTTGACGGGGGTAGGACTAGTAGGTCAAATGGGCAACTTCTTCTGCAAAACTTTGTTATTTGTTGCAGTGGTGGGAGTTCTTTTGATCAGAAAGAATGAAGATATAGAGACTCTAAAGAAGTTGATTGATGAGACGACATTTTATGATAAACAATGGCAAGCAACTTGGCAGGATGAAACCAAAGGCTCAGGCAAAGTGTAATGTGGCAAAGTTGCCTGTGTTCTTGTTTTGCTTTAATTATGTTTGCATCTCATAAGATTTGGGCTTAGTAGAGAAGGATAATGTGAGCTCTGAAAGATATTGAACGTTTAGGCCTCAGTTTGTTAATGTTTCTTGAAGTTGTTGAGGGTTTCAATGAAAAATCTCTCTCTAAAAGGTTGGGTTTTCTGAAAAAAAAAA

mRNA sequence

ATGCCGGAAAAGTCCCCGAAGACGCTGCCACCGGCGAAAGGGATGAGAAAATTAGTGGAAAGCTGCGCCGTTCTCAGAGAGGAGGAGGACAATGACAACGTCCGGTTCGATTATCAATGGCGATATTCTGTTGGAAAGCGCGAAGCTGGAGGCAGTGGTGGCGACCTCCATGGCTATAAAACCTTGAAGAAGCAGAACGATAACCAAGCTGGAGGAGCGAAAATGGGAGATTTGTGGGCTTTTGAAGGAGGAGCTCTCTCTTCTTCTTCCTTCCACACCAAAACAATGTCTTCCATGGCTTTGTTTTCTCCTCCCTCCCGTCTTTCCTCTCTCTCTCCTTCTTCACATCACCGAACCCACTTCCCCTCCAGACCCTTTTCCTCTCTCAGGTCCAGAAACCCTTCTTCTTGGGTCGCTGCTGACAATGGCGCCGGAATTTCAGGTGGTTCCGTCGCTGTAGAACCCGCCGTCGTACAGAAGGATCCGGAGCCGGCGGTGGAAAAGAAAGAGAGCCTTGCTGAAACCAATGGGTCGGTGGCGGCTGTGGAAGAAGTGGTGGTGGTTAGCAAATTTGAAGACCCTAAATGGGTTAATGGGACTTGGGATTTGAATCAGTTCCGGAAAGATGGAAGTACTGATTGGGATGCTGTTATTGATGCTGAGGCTAGGAGGAGGAAATGGCTGGAAAACAATCCAGAATCATCAAGTAATGAGGACCCTGTGCTGTTTGACACATCCATAGTTCCTTGGTGGGCTTGGATTAAGCGCTACCATCTGCCAGAGGCTGAGATTCTCAATGGCCGTGCAGCCATGGTGGGGTTTTTCATGGCTTACTTCGTCGATAGCTTGACGGGGGTAGGACTAGTAGGTCAAATGGGCAACTTCTTCTGCAAAACTTTGTTATTTGTTGCAGTGGTGGGAGTTCTTTTGATCAGAAAGAATGAAGATATAGAGACTCTAAAGAAGTTGATTGATGAGACGACATTTTATGATAAACAATGGCAAGCAACTTGGCAGGATGAAACCAAAGGCTCAGGCAAAGTGTAATGTGGCAAAGTTGCCTGTGTTCTTGTTTTGCTTTAATTATGTTTGCATCTCATAAGATTTGGGCTTAGTAGAGAAGGATAATGTGAGCTCTGAAAGATATTGAACGTTTAGGCCTCAGTTTGTTAATGTTTCTTGAAGTTGTTGAGGGTTTCAATGAAAAATCTCTCTCTAAAAGGTTGGGTTTTCTGAAAAAAAAAA

Coding sequence (CDS)

ATGCCGGAAAAGTCCCCGAAGACGCTGCCACCGGCGAAAGGGATGAGAAAATTAGTGGAAAGCTGCGCCGTTCTCAGAGAGGAGGAGGACAATGACAACGTCCGGTTCGATTATCAATGGCGATATTCTGTTGGAAAGCGCGAAGCTGGAGGCAGTGGTGGCGACCTCCATGGCTATAAAACCTTGAAGAAGCAGAACGATAACCAAGCTGGAGGAGCGAAAATGGGAGATTTGTGGGCTTTTGAAGGAGGAGCTCTCTCTTCTTCTTCCTTCCACACCAAAACAATGTCTTCCATGGCTTTGTTTTCTCCTCCCTCCCGTCTTTCCTCTCTCTCTCCTTCTTCACATCACCGAACCCACTTCCCCTCCAGACCCTTTTCCTCTCTCAGGTCCAGAAACCCTTCTTCTTGGGTCGCTGCTGACAATGGCGCCGGAATTTCAGGTGGTTCCGTCGCTGTAGAACCCGCCGTCGTACAGAAGGATCCGGAGCCGGCGGTGGAAAAGAAAGAGAGCCTTGCTGAAACCAATGGGTCGGTGGCGGCTGTGGAAGAAGTGGTGGTGGTTAGCAAATTTGAAGACCCTAAATGGGTTAATGGGACTTGGGATTTGAATCAGTTCCGGAAAGATGGAAGTACTGATTGGGATGCTGTTATTGATGCTGAGGCTAGGAGGAGGAAATGGCTGGAAAACAATCCAGAATCATCAAGTAATGAGGACCCTGTGCTGTTTGACACATCCATAGTTCCTTGGTGGGCTTGGATTAAGCGCTACCATCTGCCAGAGGCTGAGATTCTCAATGGCCGTGCAGCCATGGTGGGGTTTTTCATGGCTTACTTCGTCGATAGCTTGACGGGGGTAGGACTAGTAGGTCAAATGGGCAACTTCTTCTGCAAAACTTTGTTATTTGTTGCAGTGGTGGGAGTTCTTTTGATCAGAAAGAATGAAGATATAGAGACTCTAAAGAAGTTGATTGATGAGACGACATTTTATGATAAACAATGGCAAGCAACTTGGCAGGATGAAACCAAAGGCTCAGGCAAAGTGTAA

Protein sequence

MPEKSPKTLPPAKGMRKLVESCAVLREEEDNDNVRFDYQWRYSVGKREAGGSGGDLHGYKTLKKQNDNQAGGAKMGDLWAFEGGALSSSSFHTKTMSSMALFSPPSRLSSLSPSSHHRTHFPSRPFSSLRSRNPSSWVAADNGAGISGGSVAVEPAVVQKDPEPAVEKKESLAETNGSVAAVEEVVVVSKFEDPKWVNGTWDLNQFRKDGSTDWDAVIDAEARRRKWLENNPESSSNEDPVLFDTSIVPWWAWIKRYHLPEAEILNGRAAMVGFFMAYFVDSLTGVGLVGQMGNFFCKTLLFVAVVGVLLIRKNEDIETLKKLIDETTFYDKQWQATWQDETKGSGKV

Homology

[Close]

BLAST of CmaCh16G011040 vs. ExPASy Swiss-Prot
Match: Q9SYX1 (Light-harvesting complex-like protein 3 isotype 1, chloroplastic OS=Arabidopsis thaliana OX=3702 GN=LIL3.1 PE=1 SV=1)

HSP 1 Score: 292.4 bits (747), Expect = 7.0e-78
Identity = 159/265 (60.00%), Postives = 189/265 (71.32%), Query Frame = 0


Query: 99  MALFSPPSRLSSLSPSSHHRTHFPSRPFSSLRSRNPS----SWVAADNGAGISGGSVAVE 158
           MALFSPP   SSL     +    P   FS L S   S    +  ++D+G+     +V+VE
Sbjct: 1   MALFSPPISSSSL----QNPNFIPKFSFSLLSSNRFSLLSVTRASSDSGSTSPTAAVSVE 60

Query: 159 P----AVVQKDP---EPAVEKKESLAETNGSVAAVEEVVV--VSKFEDPKWVNGTWDLNQ 218
                 V+ K+P    PAV+K+E+    N +V   E      V KF+D +W+NGTWDL Q
Sbjct: 61  APEPVEVIVKEPPQSTPAVKKEETATAKNVAVEGEEMKTTESVVKFQDARWINGTWDLKQ 120

Query: 219 FRKDGSTDWDAVIDAEARRRKWLENNPESSSNEDPVLFDTSIVPWWAWIKRYHLPEAEIL 278
           F KDG TDWD+VI AEA+RRKWLE NPE++SN++PVLFDTSI+PWWAWIKRYHLPEAE+L
Sbjct: 121 FEKDGKTDWDSVIVAEAKRRKWLEENPETTSNDEPVLFDTSIIPWWAWIKRYHLPEAELL 180

Query: 279 NGRAAMVGFFMAYFVDSLTGVGLVGQMGNFFCKTLLFVAVVGVLLIRKNEDIETLKKLID 338
           NGRAAM+GFFMAYFVDSLTGVGLV QMGNFFCKTLLFVAV GVL IRKNED++ LK L D
Sbjct: 181 NGRAAMIGFFMAYFVDSLTGVGLVDQMGNFFCKTLLFVAVAGVLFIRKNEDVDKLKNLFD 240

Query: 339 ETTFYDKQWQATWQ---DETKGSGK 348
           ETT YDKQWQA W+   DE+ GS K
Sbjct: 241 ETTLYDKQWQAAWKNDDDESLGSKK 261

[Close]

BLAST of CmaCh16G011040 vs. ExPASy Swiss-Prot
Match: Q6NKS4 (Light-harvesting complex-like protein 3 isotype 2, chloroplastic OS=Arabidopsis thaliana OX=3702 GN=LIL3.2 PE=1 SV=1)

HSP 1 Score: 271.9 bits (694), Expect = 9.8e-72
Identity = 145/251 (57.77%), Postives = 177/251 (70.52%), Query Frame = 0


Query: 98  SMALFSPPSRLSSLSPSSHHRTHFPSRPFSSLRSRNPSSWVAADNGAGISGGSVAV---- 157
           SMALFSPP   S  +P      +   +  +SL S    S ++    +  +G +  V    
Sbjct: 4   SMALFSPPISSSLQNP------NLIPKISTSLLSTKRFSLISVPRASSDNGTTSPVVEIP 63

Query: 158 EPAVVQKDPEPAVEKKE-SLAETNGSV---AAVEEVVVVSKFEDPKWVNGTWDLNQFRKD 217
           +PA V  +  P     E S A  NG+V   A       V K+++ KWVNGTWDL QF KD
Sbjct: 64  KPASVAVEEVPVKSPAESSSASENGAVGGEATDSSTETVIKYQNAKWVNGTWDLKQFEKD 123

Query: 218 GSTDWDAVIDAEARRRKWLENNPESSSNEDPVLFDTSIVPWWAWIKRYHLPEAEILNGRA 277
           G TDWD+VI +EA+RRKWLE+NPE++SN++ V+FDTSI+PWWAW+KRYHLPEAE+LNGRA
Sbjct: 124 GKTDWDSVIVSEAKRRKWLEDNPETTSNDELVVFDTSIIPWWAWMKRYHLPEAELLNGRA 183

Query: 278 AMVGFFMAYFVDSLTGVGLVGQMGNFFCKTLLFVAVVGVLLIRKNEDIETLKKLIDETTF 337
           AM+GFFMAYFVDSLTGVGLV QMGNFFCKTLLFVAV GVL IRKNED++ LK L DETT 
Sbjct: 184 AMIGFFMAYFVDSLTGVGLVDQMGNFFCKTLLFVAVAGVLFIRKNEDLDKLKDLFDETTL 243

Query: 338 YDKQWQATWQD 341
           YDKQWQA W++
Sbjct: 244 YDKQWQAAWKE 248

[Close]

BLAST of CmaCh16G011040 vs. TAIR 10
Match: AT4G17600.1 (Chlorophyll A-B binding family protein )

HSP 1 Score: 292.4 bits (747), Expect = 5.0e-79
Identity = 159/265 (60.00%), Postives = 189/265 (71.32%), Query Frame = 0


Query: 99  MALFSPPSRLSSLSPSSHHRTHFPSRPFSSLRSRNPS----SWVAADNGAGISGGSVAVE 158
           MALFSPP   SSL     +    P   FS L S   S    +  ++D+G+     +V+VE
Sbjct: 1   MALFSPPISSSSL----QNPNFIPKFSFSLLSSNRFSLLSVTRASSDSGSTSPTAAVSVE 60

Query: 159 P----AVVQKDP---EPAVEKKESLAETNGSVAAVEEVVV--VSKFEDPKWVNGTWDLNQ 218
                 V+ K+P    PAV+K+E+    N +V   E      V KF+D +W+NGTWDL Q
Sbjct: 61  APEPVEVIVKEPPQSTPAVKKEETATAKNVAVEGEEMKTTESVVKFQDARWINGTWDLKQ 120

Query: 219 FRKDGSTDWDAVIDAEARRRKWLENNPESSSNEDPVLFDTSIVPWWAWIKRYHLPEAEIL 278
           F KDG TDWD+VI AEA+RRKWLE NPE++SN++PVLFDTSI+PWWAWIKRYHLPEAE+L
Sbjct: 121 FEKDGKTDWDSVIVAEAKRRKWLEENPETTSNDEPVLFDTSIIPWWAWIKRYHLPEAELL 180

Query: 279 NGRAAMVGFFMAYFVDSLTGVGLVGQMGNFFCKTLLFVAVVGVLLIRKNEDIETLKKLID 338
           NGRAAM+GFFMAYFVDSLTGVGLV QMGNFFCKTLLFVAV GVL IRKNED++ LK L D
Sbjct: 181 NGRAAMIGFFMAYFVDSLTGVGLVDQMGNFFCKTLLFVAVAGVLFIRKNEDVDKLKNLFD 240

Query: 339 ETTFYDKQWQATWQ---DETKGSGK 348
           ETT YDKQWQA W+   DE+ GS K
Sbjct: 241 ETTLYDKQWQAAWKNDDDESLGSKK 261

[Close]

BLAST of CmaCh16G011040 vs. TAIR 10
Match: AT5G47110.1 (Chlorophyll A-B binding family protein )

HSP 1 Score: 271.9 bits (694), Expect = 6.9e-73
Identity = 145/251 (57.77%), Postives = 177/251 (70.52%), Query Frame = 0


Query: 98  SMALFSPPSRLSSLSPSSHHRTHFPSRPFSSLRSRNPSSWVAADNGAGISGGSVAV---- 157
           SMALFSPP   S  +P      +   +  +SL S    S ++    +  +G +  V    
Sbjct: 4   SMALFSPPISSSLQNP------NLIPKISTSLLSTKRFSLISVPRASSDNGTTSPVVEIP 63

Query: 158 EPAVVQKDPEPAVEKKE-SLAETNGSV---AAVEEVVVVSKFEDPKWVNGTWDLNQFRKD 217
           +PA V  +  P     E S A  NG+V   A       V K+++ KWVNGTWDL QF KD
Sbjct: 64  KPASVAVEEVPVKSPAESSSASENGAVGGEATDSSTETVIKYQNAKWVNGTWDLKQFEKD 123

Query: 218 GSTDWDAVIDAEARRRKWLENNPESSSNEDPVLFDTSIVPWWAWIKRYHLPEAEILNGRA 277
           G TDWD+VI +EA+RRKWLE+NPE++SN++ V+FDTSI+PWWAW+KRYHLPEAE+LNGRA
Sbjct: 124 GKTDWDSVIVSEAKRRKWLEDNPETTSNDELVVFDTSIIPWWAWMKRYHLPEAELLNGRA 183

Query: 278 AMVGFFMAYFVDSLTGVGLVGQMGNFFCKTLLFVAVVGVLLIRKNEDIETLKKLIDETTF 337
           AM+GFFMAYFVDSLTGVGLV QMGNFFCKTLLFVAV GVL IRKNED++ LK L DETT 
Sbjct: 184 AMIGFFMAYFVDSLTGVGLVDQMGNFFCKTLLFVAVAGVLFIRKNEDLDKLKDLFDETTL 243

Query: 338 YDKQWQATWQD 341
           YDKQWQA W++
Sbjct: 244 YDKQWQAAWKE 248

The following BLAST results are available for this feature:

BLAST of CmaCh16G011040 vs. ExPASy Swiss-Prot


Match Name	E-value	Identity	Description
Q9SYX1	7.0e-78	60.00	Light-harvesting complex-like protein 3 isotype 1, chloroplastic OS=Arabidopsis ...	[more]
Q6NKS4	9.8e-72	57.77	Light-harvesting complex-like protein 3 isotype 2, chloroplastic OS=Arabidopsis ...	[more]

BLAST of CmaCh16G011040 vs. TAIR 10


Match Name	E-value	Identity	Description
AT4G17600.1	5.0e-79	60.00	Chlorophyll A-B binding family protein	[more]
AT5G47110.1	6.9e-73	57.77	Chlorophyll A-B binding family protein	[more]

InterPro

Analysis Name: InterPro Annotations of Cucurbita maxima (Rimu) v1.1
Date Performed: 2021-10-25


IPR Term	IPR Description	Source	Source Term	Source Description	Alignment
None	No IPR available	PANTHER	PTHR14154:SF87	LIGHT-HARVESTING COMPLEX-LIKE PROTEIN 3 ISOTYPE 1, CHLOROPLASTIC-RELATED	coord: 125..346
None	No IPR available	PANTHER	PTHR14154	UPF0041 BRAIN PROTEIN 44-RELATED	coord: 125..346
None	No IPR available	SUPERFAMILY	103511	Chlorophyll a-b binding protein	coord: 201..297

Relationships

The following mRNA feature(s) are a part of this gene:


Feature Name	Unique Name	Type
CmaCh16G011040.1	CmaCh16G011040.1	mRNA

GO Annotation

GO Assignments

This gene is annotated with the following GO terms.

Category	Term Accession	Term Name
cellular_component	GO:0009535	chloroplast thylakoid membrane
cellular_component	GO:0016021	integral component of membrane
molecular_function	GO:0046872	metal ion binding