Citrus Sinensis ID: 031683

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Local Sequence Feature Prediction

Residue Number Marker
--------10--------20--------30--------40--------50--------60--------70--------80--------90-------100-------110-------120-------130-------140-------150-----
Protein Sequence
MASSSSLSSATPSQLCSSKGGMFCPSRAFLVKPARTQMVTKNPMGMKIKCQATSIPADRVPDMGKRQLMNLLLLGAVSLPTGFMLVPYATFFAPPGLGSAGGGTTAKDAIGNDIIAADWLNTHGPGDRTLTEGLKVQINFFENYCLVHCKLDSWF
Secondary Structure (PSIPRED)
ccccccccccccccccccccccccccccccccHHHHHcccccccccEEEEccccccccccccccHHHHHHHHHHHHHHHccccccccEEEEEEccccccccccccHHHHcccccHHHHHHHHcccccHHHHccccccccHHccccEEEEEEcccc
Secondary Structure Prediction (SSPRO)
cccccccccccHHHHcccccccccccHHEcccccccccccccccccEEEEEEccccccccccHcHHHHHHHHHHHHHHHHHHHHHcHHHEEEccccccccccccEcEcccccEcEHHHHHHHcccccEEEEEcHHcccHHHHHccEEEEcccccc
Coil and Loop (DISEMBL)
masssslssatpsqlcsskggmfcpsraflvkpartqmvtknpmgmkikcqatsipadrvpdmgKRQLMNLLLLGavslptgfmlvpyatffappglgsagggttakdaigndiiaadwlnthgpgdrtlTEGLKVQINFFENYCLVhckldswf
Flexible Loop (DISEMBL)
masssslssatpsqlcsskggmfCPSRAFLVKPARTQmvtknpmgmkikcQATSIPADRVPDMGKRQLMNLLLLGAVSLPTGFMLVPYATFFAPPGLGSAGGGTTAKDAIGNDIIAADWLNTHGPGDRTLTEGLKVQINFFENYCLVHCKLDSWF
Low Complexity Region (SEG)
MAsssslssatpsqlcssKGGMFCPSRAFLVKPARTQMVTKNPMGMKIKCQATSIPADRVPDMGKRQLMNLLLLGAVSLPTGFMLVPYATFFAPPGLGSAGGGTTAKDAIGNDIIAADWLNTHGPGDRTLTEGLKVQINFFENYCLVHCKLDSWF
Disordered region (IsUnstruct)
*********************MFCPSRAFLVKPARTQMV*****GMKIKCQATSIPADRVPDMGKRQLMNLLLLGAVSLPTGFMLVPYATFFAPPGLGSAGGGTTAKDAIGNDIIAADWLNTHGPGDRTLTEGLKVQINFFENYCLVHCKLDSW*
Disordered Region (DISOPRED)
****************************************************************KRQLMNLLLLGAVSLPTGFMLVPYATFFAPPG*******TTAKDAIGNDIIAADWLNTHGPGDRTLTEGLKVQINFFENYCLVHCKLDSWF
Disordered Region (DISEMBL)
*****************SKGGMFCPSRAFLVKPARTQMVTKNPMGMKIKCQATSIPADRVPDMGKRQLMNLLLLGAVSLPTGFMLVPYATFFAPPGLGSAGGGTTAKDAIGNDIIAADWLNTHGPGDRTLTEGLKVQINFFENYCLVHCKLDSWF
Disordered Region (DISPRO)
***********************C*SRAFLVKPART******PMGMKIKCQATSIPADRVPDMGKRQLMNLLLLGAVSLPTGFMLVPYATFFAPPGLGSAGGGTTAKDAIGNDIIAADWLNTHGPGDRTLTEGLKVQINFFENYCLVHCKLDSWF
Transmembrane Helix (TMHMM)
iiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiHHHHHHHHHHHHHHHHHHHHHHHoooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooo
Transmembrane Helix (HMMTOP)
iiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiHHHHHHHHHHHHHHHHHHHooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooo
Transmembrane Helix (MEMSAT)
iiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiHHHHHHHHHHHHHHHHHHHHHHHHHooooooooooooooooooooooooooooooooooooooooooooooooooooooooooo
TM Helix, Signal Peptide (MEMSAT_SVM)
SSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSiiiiiiiiiiiiiiiiiiiiiiiiiiiiHHHHHHHHHHHHHHHHHHHHHHHooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooo
TM Helix, Signal Peptide (Phobius)
iiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiHHHHHHHHHHHHHHHHHHHHHHoooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooo
Signal Peptide (SignalP HMM Mode)
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Signal Peptide (SignalP NN Mode)
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Coiled Coils (COILS)
MASSSSLSSATPSQLCSSKGGMFCPSRAFLVKPARTQMVTKNPMGMKIKCQATSIPADRVPDMGKRQLMNLLLLGAVSLPTGFMLVPYATFFAPPGLGSAGGGTTAKDAIGNDIIAADWLNTHGPGDRTLTEGLKVQINFFENYCLVHCKLDSWF
Positional Conservation
no confident homologs detected

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Close Homologs for Annotation Transfer

Close Homologs in SWISS-PROT Database Detected by BLAST

Original result of BLAST against SWISS-PROT Database

ID	Length	Definition	RBH(Q2H)	RBH(H2Q)	Q cover	H cover	Identity	E-value
Query	155	2.2.26 [Sep-21-2011]
P26291	230	Cytochrome b6-f complex i	N/A	no	0.858	0.578	0.691	2e-42
P08980	230	Cytochrome b6-f complex i	N/A	no	0.851	0.573	0.681	1e-35
O49078	230	Cytochrome b6-f complex i	N/A	no	0.870	0.586	0.629	4e-35
Q69S39	225	Cytochrome b6-f complex i	yes	no	0.838	0.577	0.558	5e-35
Q7X9A6	222	Cytochrome b6-f complex i	N/A	no	0.825	0.576	0.518	1e-32
Q9ZR03	229	Cytochrome b6-f complex i	yes	no	0.845	0.572	0.659	3e-32
Q69GY7	230	Cytochrome b6-f complex i	N/A	no	0.838	0.565	0.637	2e-27
Q02585	228	Cytochrome b6-f complex i	N/A	no	0.825	0.561	0.630	3e-25
P30361	228	Cytochrome b6-f complex i	N/A	no	0.825	0.561	0.623	1e-24
Q9SBN3	206	Cytochrome b6-f complex i	N/A	no	0.645	0.485	0.466	1e-17

>sp|P26291|UCRIA_PEA Cytochrome b6-f complex iron-sulfur subunit, chloroplastic OS=Pisum sativum GN=petC PE=2 SV=1

 Score =  171 bits (433), Expect = 2e-42,   Method: Compositional matrix adjust.
 Identities = 92/133 (69%), Positives = 106/133 (79%)

Query: 3   SSSSLSSATPSQLCSSKGGMFCPSRAFLVKPARTQMVTKNPMGMKIKCQATSIPADRVPD 62
           SS++LS  TPSQLCS K G+ CPS A LVKP RTQM  +   GMKI CQATSIPADRVPD
Sbjct: 2   SSTTLSPTTPSQLCSGKSGISCPSIALLVKPTRTQMTGRGNKGMKITCQATSIPADRVPD 61

Query: 63  MGKRQLMNLLLLGAVSLPTGFMLVPYATFFAPPGLGSAGGGTTAKDAIGNDIIAADWLNT 122
           M KR+ +NLLLLGA+SLPT  MLVPY +F  PPG GS+ GGT AKDA+GND++A +WL T
Sbjct: 62  MSKRKTLNLLLLGALSLPTAGMLVPYGSFLVPPGSGSSTGGTVAKDAVGNDVVATEWLKT 121

Query: 123 HGPGDRTLTEGLK 135
           H PGDRTLT+GLK
Sbjct: 122 HAPGDRTLTQGLK 134

Component of the cytochrome b6-f complex, which mediates electron transfer between photosystem II (PSII) and photosystem I (PSI), cyclic electron flow around PSI, and state transitions.
Pisum sativum (taxid: 3888)
EC: 1EC: .EC: 1EC: 0EC: .EC: 9EC: .EC: 1

>sp|P08980|UCRIA_SPIOL Cytochrome b6-f complex iron-sulfur subunit, chloroplastic OS=Spinacia oleracea GN=petC PE=1 SV=2

 Score =  148 bits (374), Expect = 1e-35,   Method: Compositional matrix adjust.
 Identities = 92/135 (68%), Positives = 110/135 (81%), Gaps = 3/135 (2%)

Query: 3   SSSSLSSATPSQLCSSKGGMFCPSRAFLVKPARTQ-MVTKNPM-GMKIKCQATSIPADRV 60
           +S +LSSATPSQLCSSK GMF PS A L K  R   +++K  + GMK+ CQATSIPAD V
Sbjct: 2   ASFTLSSATPSQLCSSKNGMFAPSLA-LAKAGRVNVLISKERIRGMKLTCQATSIPADNV 60

Query: 61  PDMGKRQLMNLLLLGAVSLPTGFMLVPYATFFAPPGLGSAGGGTTAKDAIGNDIIAADWL 120
           PDM KR+ +NLLLLGA+SLPTG+ML+PYA+FF PPG G+  GGT AKDA+GND+IAA+WL
Sbjct: 61  PDMQKRETLNLLLLGALSLPTGYMLLPYASFFVPPGGGAGTGGTIAKDALGNDVIAAEWL 120

Query: 121 NTHGPGDRTLTEGLK 135
            TH PGDRTLT+GLK
Sbjct: 121 KTHAPGDRTLTQGLK 135

Component of the cytochrome b6-f complex, which mediates electron transfer between photosystem II (PSII) and photosystem I (PSI), cyclic electron flow around PSI, and state transitions.

Spinacia oleracea (taxid: 3562)

EC: 1

EC: .

EC: 1

EC: 0

EC: .

EC: 9

EC: .

EC: 1

>sp|O49078|UCRIA_FRIAG Cytochrome b6-f complex iron-sulfur subunit, chloroplastic OS=Fritillaria agrestis GN=petC PE=2 SV=1

 Score =  146 bits (369), Expect = 4e-35,   Method: Compositional matrix adjust.
 Identities = 85/135 (62%), Positives = 100/135 (74%)

Query: 1   MASSSSLSSATPSQLCSSKGGMFCPSRAFLVKPARTQMVTKNPMGMKIKCQATSIPADRV 60
           MAS++  ++ TPSQL ++K G + PSRA L K AR     K  +  K+ CQATSIPADRV
Sbjct: 1   MASTTLSATPTPSQLSAAKNGAYSPSRALLGKTARGLYPEKEMVSRKVTCQATSIPADRV 60

Query: 61  PDMGKRQLMNLLLLGAVSLPTGFMLVPYATFFAPPGLGSAGGGTTAKDAIGNDIIAADWL 120
           PDMGKRQ MNLLLLGA+SLPT  ML+PY  FF PP  G  GGG  AKDA+GNDI+AA WL
Sbjct: 61  PDMGKRQTMNLLLLGALSLPTAGMLIPYGAFFVPPSSGGGGGGIVAKDAVGNDIVAAAWL 120

Query: 121 NTHGPGDRTLTEGLK 135
            THGPGDRTL +GL+
Sbjct: 121 KTHGPGDRTLAQGLR 135

Component of the cytochrome b6-f complex, which mediates electron transfer between photosystem II (PSII) and photosystem I (PSI), cyclic electron flow around PSI, and state transitions.

Fritillaria agrestis (taxid: 64177)

EC: 1

EC: .

EC: 1

EC: 0

EC: .

EC: 9

EC: .

EC: 1

>sp|Q69S39|UCRIA_ORYSJ Cytochrome b6-f complex iron-sulfur subunit, chloroplastic OS=Oryza sativa subsp. japonica GN=petC PE=1 SV=1

 Score =  146 bits (368), Expect = 5e-35,   Method: Compositional matrix adjust.
 Identities = 76/136 (55%), Positives = 93/136 (68%), Gaps = 6/136 (4%)

Query: 1   MASSSSLSSATPSQLCSSKGGMFCPSRAFLVKPARTQMVTKNPMGMKIKCQA-TSIPADR 59
           MAS++  +++ P+QLC S+  +  P +       R            I CQA +SIPADR
Sbjct: 1   MASTALSTASNPTQLCRSRASLGKPVKGLGFGRERVPRTATT-----ITCQAASSIPADR 55

Query: 60  VPDMGKRQLMNLLLLGAVSLPTGFMLVPYATFFAPPGLGSAGGGTTAKDAIGNDIIAADW 119
           VPDMGKRQLMNLLLLGA+SLPT  MLVPY  FF P G G+AGGG  AKD +GND++A +W
Sbjct: 56  VPDMGKRQLMNLLLLGAISLPTVGMLVPYGAFFIPAGSGNAGGGQVAKDKLGNDVLAEEW 115

Query: 120 LNTHGPGDRTLTEGLK 135
           L THGP DRTLT+GLK
Sbjct: 116 LKTHGPNDRTLTQGLK 131

Component of the cytochrome b6-f complex, which mediates electron transfer between photosystem II (PSII) and photosystem I (PSI), cyclic electron flow around PSI, and state transitions.

Oryza sativa subsp. japonica (taxid: 39947)

EC: 1

EC: .

EC: 1

EC: 0

EC: .

EC: 9

EC: .

EC: 1

>sp|Q7X9A6|UCRIA_WHEAT Cytochrome b6-f complex iron-sulfur subunit, chloroplastic OS=Triticum aestivum GN=petC PE=2 SV=1

 Score =  138 bits (348), Expect = 1e-32,   Method: Compositional matrix adjust.
 Identities = 70/135 (51%), Positives = 87/135 (64%), Gaps = 7/135 (5%)

Query: 1   MASSSSLSSATPSQLCSSKGGMFCPSRAFLVKPARTQMVTKNPMGMKIKCQATSIPADRV 60
           MAS++  +++ P+QLC ++    C       KP +     +  +   I C A SI ADRV
Sbjct: 1   MASTALSTASNPTQLCRTRASSLC-------KPVKGLGFGRERIPRNITCMAGSISADRV 53

Query: 61  PDMGKRQLMNLLLLGAVSLPTGFMLVPYATFFAPPGLGSAGGGTTAKDAIGNDIIAADWL 120
           PDM KR+LMNLLLLGA+SLPT  MLVPY +F  P G GS  GG  AKD +GNDI+  DWL
Sbjct: 54  PDMSKRELMNLLLLGAISLPTFGMLVPYGSFLVPAGSGSNAGGVAAKDKLGNDILVEDWL 113

Query: 121 NTHGPGDRTLTEGLK 135
            THGP DRTL +GLK
Sbjct: 114 KTHGPNDRTLAQGLK 128

Component of the cytochrome b6-f complex, which mediates electron transfer between photosystem II (PSII) and photosystem I (PSI), cyclic electron flow around PSI, and state transitions.

Triticum aestivum (taxid: 4565)

EC: 1

EC: .

EC: 1

EC: 0

EC: .

EC: 9

EC: .

EC: 1

>sp|Q9ZR03|UCRIA_ARATH Cytochrome b6-f complex iron-sulfur subunit, chloroplastic OS=Arabidopsis thaliana GN=petC PE=1 SV=1

 Score =  137 bits (344), Expect = 3e-32,   Method: Compositional matrix adjust.
 Identities = 89/135 (65%), Positives = 106/135 (78%), Gaps = 4/135 (2%)

Query: 3   SSSSLSSATPSQLCSSKGGMFCPSRAFLVKPART--QMVTKNPMGMKIKCQATSIPADRV 60
           +SSSLS AT  QL SS+  +   S    VKP +   QMV K  +G++I CQA+SIPADRV
Sbjct: 2   ASSSLSPAT--QLGSSRSALMAMSSGLFVKPTKMNHQMVRKEKIGLRISCQASSIPADRV 59

Query: 61  PDMGKRQLMNLLLLGAVSLPTGFMLVPYATFFAPPGLGSAGGGTTAKDAIGNDIIAADWL 120
           PDM KR+ +NLLLLGA+SLPTG+MLVPYATFF PPG G  GGGT AKDA+GND++AA+WL
Sbjct: 60  PDMEKRKTLNLLLLGALSLPTGYMLVPYATFFVPPGTGGGGGGTPAKDALGNDVVAAEWL 119

Query: 121 NTHGPGDRTLTEGLK 135
            THGPGDRTLT+GLK
Sbjct: 120 KTHGPGDRTLTQGLK 134

Essential protein for photoautotrophism. Confers resistance to photo-oxidative damages by contributing to the thermal dissipation of light energy and to lumenal acidification (increase of pH gradient). Component of the cytochrome b6-f complex, which mediates electron transfer between photosystem II (PSII) and photosystem I (PSI), cyclic electron flow around PSI, and state transitions.

Arabidopsis thaliana (taxid: 3702)

EC: 1

EC: .

EC: 1

EC: 0

EC: .

EC: 9

EC: .

EC: 1

>sp|Q69GY7|UCRIA_SOLTU Cytochrome b6-f complex iron-sulfur subunit, chloroplastic OS=Solanum tuberosum GN=petC PE=2 SV=1

 Score =  121 bits (303), Expect = 2e-27,   Method: Compositional matrix adjust.
 Identities = 88/138 (63%), Positives = 101/138 (73%), Gaps = 8/138 (5%)

Query: 3   SSSSLSSATPSQLCSSKGGMFCPSRAFLVKPARTQMVTKNPMG----MKIKCQATSIPAD 58
           +SS+LS  TPSQLCSSK G+   S+A LVKP +   +  + MG    MK KC A SIPAD
Sbjct: 2   ASSTLSHVTPSQLCSSKSGVSSVSQALLVKPMK---INGHGMGKDKRMKAKCMAASIPAD 58

Query: 59  -RVPDMGKRQLMNLLLLGAVSLPTGFMLVPYATFFAPPGLGSAGGGTTAKDAIGNDIIAA 117
            RVPDM KR LMNLLLLGA++LPTG MLVPYATFFAPPG G    GT AKDA GND++  
Sbjct: 59  DRVPDMEKRNLMNLLLLGALALPTGGMLVPYATFFAPPGSGGGSSGTIAKDANGNDVVVT 118

Query: 118 DWLNTHGPGDRTLTEGLK 135
           +WL TH PG RTLT+GLK
Sbjct: 119 EWLKTHSPGTRTLTQGLK 136

Component of the cytochrome b6-f complex, which mediates electron transfer between photosystem II (PSII) and photosystem I (PSI), cyclic electron flow around PSI, and state transitions.

Solanum tuberosum (taxid: 4113)

EC: 1

EC: .

EC: 1

EC: 0

EC: .

EC: 9

EC: .

EC: 1

>sp|Q02585|UCRIB_TOBAC Cytochrome b6-f complex iron-sulfur subunit 2, chloroplastic OS=Nicotiana tabacum GN=petC2 PE=2 SV=1

 Score =  114 bits (284), Expect = 3e-25,   Method: Compositional matrix adjust.
 Identities = 87/138 (63%), Positives = 104/138 (75%), Gaps = 10/138 (7%)

Query: 3   SSSSLSSATPSQLCSSKGGMFCPSRAFLVKPARTQMVTKNPMG----MKIKCQATSIPAD 58
           +SS+LS  T  QLCSSK G+   S+  L+KP +   +  + +G    MK+KC ATSIPAD
Sbjct: 2   ASSTLSPVT--QLCSSKSGLSSVSQCLLLKPMK---INSHGLGKDKRMKVKCMATSIPAD 56

Query: 59  -RVPDMGKRQLMNLLLLGAVSLPTGFMLVPYATFFAPPGLGSAGGGTTAKDAIGNDIIAA 117
            RVPDM KR LMNLLLLGA+SLPT  MLVPYATFFAPPG G   GGT AKDA+GND+IA+
Sbjct: 57  DRVPDMEKRNLMNLLLLGALSLPTAGMLVPYATFFAPPGSGGGSGGTPAKDALGNDVIAS 116

Query: 118 DWLNTHGPGDRTLTEGLK 135
           +WL TH PG+RTLT+GLK
Sbjct: 117 EWLKTHPPGNRTLTQGLK 134

Component of the cytochrome b6-f complex, which mediates electron transfer between photosystem II (PSII) and photosystem I (PSI), cyclic electron flow around PSI, and state transitions.

Nicotiana tabacum (taxid: 4097)

EC: 1

EC: .

EC: 1

EC: 0

EC: .

EC: 9

EC: .

EC: 1

>sp|P30361|UCRIA_TOBAC Cytochrome b6-f complex iron-sulfur subunit 1, chloroplastic OS=Nicotiana tabacum GN=petC1 PE=2 SV=2

 Score =  112 bits (279), Expect = 1e-24,   Method: Compositional matrix adjust.
 Identities = 86/138 (62%), Positives = 102/138 (73%), Gaps = 10/138 (7%)

Query: 3   SSSSLSSATPSQLCSSKGGMFCPSRAFLVKPARTQMVTKNPMG----MKIKCQATSIPAD 58
           +SS+LS  T  QLCSSK G+   S+  LVKP +   +  + +G    MK+KC ATSIPAD
Sbjct: 2   ASSTLSPVT--QLCSSKSGLSSVSQCLLVKPMK---INSHGLGKDKRMKVKCMATSIPAD 56

Query: 59  -RVPDMGKRQLMNLLLLGAVSLPTGFMLVPYATFFAPPGLGSAGGGTTAKDAIGNDIIAA 117
            RVPDM KR LMNLLLLGA+SLPT  MLVPY TFF PPG G   GGT AKDA+GND+IA+
Sbjct: 57  DRVPDMEKRNLMNLLLLGALSLPTAGMLVPYGTFFVPPGSGGGSGGTPAKDALGNDVIAS 116

Query: 118 DWLNTHGPGDRTLTEGLK 135
           +WL TH PG+RTLT+GLK
Sbjct: 117 EWLKTHPPGNRTLTQGLK 134

Component of the cytochrome b6-f complex, which mediates electron transfer between photosystem II (PSII) and photosystem I (PSI), cyclic electron flow around PSI, and state transitions.

Nicotiana tabacum (taxid: 4097)

EC: 1

EC: .

EC: 1

EC: 0

EC: .

EC: 9

EC: .

EC: 1

>sp|Q9SBN3|UCRIA_VOLCA Cytochrome b6-f complex iron-sulfur subunit, chloroplastic OS=Volvox carteri GN=petC PE=2 SV=1

 Score = 89.0 bits (219), Expect = 1e-17,   Method: Compositional matrix adjust.
 Identities = 48/103 (46%), Positives = 62/103 (60%), Gaps = 3/103 (2%)

Query: 33  PARTQMVTKNPMGMKIKCQATSIPADRVPDMGKRQLMNLLLLGAVSLPTGFMLVPYATFF 92
           P + Q   ++ +   ++  A S     VPDM KR +MNL+LLG  SLP G + + Y  FF
Sbjct: 12  PCKAQATRRSRVMSVVRAAAVS---SEVPDMNKRNIMNLILLGGASLPVGSLALGYGAFF 68

Query: 93  APPGLGSAGGGTTAKDAIGNDIIAADWLNTHGPGDRTLTEGLK 135
            PP  G   GG  AKDA+GNDI A  WL TH  GDR+L++GLK
Sbjct: 69  VPPSSGGGSGGQAAKDALGNDIKANAWLATHQKGDRSLSQGLK 111

Component of the cytochrome b6-f complex, which mediates electron transfer between photosystem II (PSII) and photosystem I (PSI), cyclic electron flow around PSI, and state transitions.

Volvox carteri (taxid: 3067)

EC: 1

EC: .

EC: 1

EC: 0

EC: .

EC: 9

EC: .

EC: 1

Close Homologs in the Non-Redundant Database Detected by BLAST

Original result of BLAST against Nonredundant Database

GI	Length	Definition	Q cover	H cover	Identity	E-value
Query	155
255627487	227	unknown [Glycine max]	0.851	0.581	0.691	5e-47
359493904	244	PREDICTED: cytochrome b6-f complex iron-	0.967	0.614	0.591	1e-46
255640787	262	unknown [Glycine max]	0.851	0.503	0.684	5e-46
225461287	228	PREDICTED: cytochrome b6-f complex iron-	0.858	0.583	0.699	6e-46
356549980	227	PREDICTED: cytochrome b6-f complex iron-	0.851	0.581	0.684	9e-46
351726724	227	Rieske iron-sulphur protein precursor [G	0.851	0.581	0.684	1e-45
356544886	134	PREDICTED: LOW QUALITY PROTEIN: cytochro	0.858	0.992	0.671	3e-45
388490498	227	unknown [Lotus japonicus]	0.851	0.581	0.736	8e-45
315364830	227	chloroplast Rieske-type ion-sulfur prote	0.851	0.581	0.676	3e-41
136707	230	RecName: Full=Cytochrome b6-f complex ir	0.858	0.578	0.691	1e-40

>gi|255627487|gb|ACU14088.1| unknown [Glycine max]

 Score =  192 bits (487), Expect = 5e-47,   Method: Compositional matrix adjust.
 Identities = 92/133 (69%), Positives = 109/133 (81%), Gaps = 1/133 (0%)

Query: 3   SSSSLSSATPSQLCSSKGGMFCPSRAFLVKPARTQMVTKNPMGMKIKCQATSIPADRVPD 62
           +S++LS  TPSQLCS K G+F PS+A LVKP + QM+ K+  GM+I CQATSIPADRVPD
Sbjct: 2   ASTTLSPTTPSQLCSGKSGIFSPSQALLVKPVKRQMMGKS-KGMRIACQATSIPADRVPD 60

Query: 63  MGKRQLMNLLLLGAVSLPTGFMLVPYATFFAPPGLGSAGGGTTAKDAIGNDIIAADWLNT 122
           MGKRQLMNLLLLGA+SLP+  ML+PY  FF PPG GS+ GGT AKDA+GND+IA +WL  
Sbjct: 61  MGKRQLMNLLLLGAISLPSAGMLIPYTYFFVPPGSGSSAGGTVAKDAVGNDVIAENWLKA 120

Query: 123 HGPGDRTLTEGLK 135
           HGPGDRTL +GLK
Sbjct: 121 HGPGDRTLAQGLK 133

Source: Glycine max

Species: Glycine max

Genus: Glycine

Family: Fabaceae

Order: Fabales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|359493904|ref|XP_003634690.1| PREDICTED: cytochrome b6-f complex iron-sulfur subunit, chloroplastic isoform 2 [Vitis vinifera]

 Score =  191 bits (484), Expect = 1e-46,   Method: Compositional matrix adjust.
 Identities = 97/164 (59%), Positives = 117/164 (71%), Gaps = 14/164 (8%)

Query: 3   SSSSLSSATPSQLCSSKGGMFCPSRAFLVKPARTQMVTKNPMGMKIKCQATSIPADRVPD 62
           ++S+LS AT SQLCS + G+  PS A L K  RT        G+KIKCQATSIPADRVPD
Sbjct: 2   AASTLSPATSSQLCSIRNGVLSPSHALLPKLTRTSPFVGKGKGLKIKCQATSIPADRVPD 61

Query: 63  MGKRQLMNLLLLGAVSLPTGFMLVPYATFFAPPGLGSAGGGTTAKDAIGNDIIAADWLNT 122
           MGKR+LMNLLLLGA+SLP+  ML+PYATFFAPPG GSAGGG  AKDA+GND+IA +WL T
Sbjct: 62  MGKRKLMNLLLLGAISLPSAGMLIPYATFFAPPGTGSAGGGIVAKDALGNDVIADEWLKT 121

Query: 123 HGPGDRTLTEGLK--------------VQINFFENYCLVHCKLD 152
           HGPGDRTLT+GLK              +  + F+N CL+   ++
Sbjct: 122 HGPGDRTLTQGLKSFISATAIHPGVSLIDFSLFKNKCLMTTPIE 165

Source: Vitis vinifera

Species: Vitis vinifera

Genus: Vitis

Family: Vitaceae

Order: Vitales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|255640787|gb|ACU20677.1| unknown [Glycine max]

 Score =  189 bits (479), Expect = 5e-46,   Method: Compositional matrix adjust.
 Identities = 91/133 (68%), Positives = 108/133 (81%), Gaps = 1/133 (0%)

Query: 3   SSSSLSSATPSQLCSSKGGMFCPSRAFLVKPARTQMVTKNPMGMKIKCQATSIPADRVPD 62
           +S++LS  TPSQLCS K G+F  S+A LVKP + QM+ K+  G++I CQATSI ADRVPD
Sbjct: 2   ASTTLSPTTPSQLCSGKSGIFSSSQALLVKPVKRQMMGKSK-GLRIACQATSISADRVPD 60

Query: 63  MGKRQLMNLLLLGAVSLPTGFMLVPYATFFAPPGLGSAGGGTTAKDAIGNDIIAADWLNT 122
           MGKRQLMNLLLLGA+SLPT  ML+PY  FF PPG GS+ GGT AKDA+GND+IA +WL  
Sbjct: 61  MGKRQLMNLLLLGAISLPTAGMLIPYTYFFVPPGSGSSAGGTVAKDAVGNDVIAENWLKA 120

Query: 123 HGPGDRTLTEGLK 135
           HGPGDRTLT+GLK
Sbjct: 121 HGPGDRTLTQGLK 133

Source: Glycine max

Species: Glycine max

Genus: Glycine

Family: Fabaceae

Order: Fabales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|225461287|ref|XP_002284361.1| PREDICTED: cytochrome b6-f complex iron-sulfur subunit, chloroplastic isoform 1 [Vitis vinifera] gi|147826727|emb|CAN66108.1| hypothetical protein VITISV_020089 [Vitis vinifera] gi|302143099|emb|CBI20394.3| unnamed protein product [Vitis vinifera]

 Score =  188 bits (478), Expect = 6e-46,   Method: Compositional matrix adjust.
 Identities = 93/133 (69%), Positives = 107/133 (80%)

Query: 3   SSSSLSSATPSQLCSSKGGMFCPSRAFLVKPARTQMVTKNPMGMKIKCQATSIPADRVPD 62
           ++S+LS AT SQLCS + G+  PS A L K  RT        G+KIKCQATSIPADRVPD
Sbjct: 2   AASTLSPATSSQLCSIRNGVLSPSHALLPKLTRTSPFVGKGKGLKIKCQATSIPADRVPD 61

Query: 63  MGKRQLMNLLLLGAVSLPTGFMLVPYATFFAPPGLGSAGGGTTAKDAIGNDIIAADWLNT 122
           MGKR+LMNLLLLGA+SLP+  ML+PYATFFAPPG GSAGGG  AKDA+GND+IA +WL T
Sbjct: 62  MGKRKLMNLLLLGAISLPSAGMLIPYATFFAPPGTGSAGGGIVAKDALGNDVIADEWLKT 121

Query: 123 HGPGDRTLTEGLK 135
           HGPGDRTLT+GLK
Sbjct: 122 HGPGDRTLTQGLK 134

Source: Vitis vinifera

Species: Vitis vinifera

Genus: Vitis

Family: Vitaceae

Order: Vitales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|356549980|ref|XP_003543368.1| PREDICTED: cytochrome b6-f complex iron-sulfur subunit, chloroplastic-like [Glycine max]

 Score =  187 bits (476), Expect = 9e-46,   Method: Compositional matrix adjust.
 Identities = 91/133 (68%), Positives = 108/133 (81%), Gaps = 1/133 (0%)

Query: 3   SSSSLSSATPSQLCSSKGGMFCPSRAFLVKPARTQMVTKNPMGMKIKCQATSIPADRVPD 62
           +S++LS  TPSQLCS K G+F  S+A LVKP + QM+ K+  G++I CQATSI ADRVPD
Sbjct: 2   ASTTLSPTTPSQLCSGKSGIFSSSQALLVKPVKRQMMGKS-KGLRIACQATSISADRVPD 60

Query: 63  MGKRQLMNLLLLGAVSLPTGFMLVPYATFFAPPGLGSAGGGTTAKDAIGNDIIAADWLNT 122
           MGKRQLMNLLLLGA+SLPT  ML+PY  FF PPG GS+ GGT AKDA+GND+IA +WL  
Sbjct: 61  MGKRQLMNLLLLGAISLPTAGMLIPYTYFFVPPGSGSSAGGTVAKDAVGNDVIAENWLKA 120

Query: 123 HGPGDRTLTEGLK 135
           HGPGDRTLT+GLK
Sbjct: 121 HGPGDRTLTQGLK 133

Source: Glycine max

Species: Glycine max

Genus: Glycine

Family: Fabaceae

Order: Fabales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|351726724|ref|NP_001237648.1| Rieske iron-sulphur protein precursor [Glycine max] gi|158935079|emb|CAM57107.1| Rieske iron-sulphur protein precursor [Glycine max]

 Score =  187 bits (476), Expect = 1e-45,   Method: Compositional matrix adjust.
 Identities = 91/133 (68%), Positives = 108/133 (81%), Gaps = 1/133 (0%)

Query: 3   SSSSLSSATPSQLCSSKGGMFCPSRAFLVKPARTQMVTKNPMGMKIKCQATSIPADRVPD 62
           +S++LS  TPSQLCS K G+F  S+A LVKP + QM+ K+  G++I CQATSI ADRVPD
Sbjct: 2   ASTTLSPTTPSQLCSGKSGIFSSSQALLVKPVKRQMMGKS-KGLRIACQATSISADRVPD 60

Query: 63  MGKRQLMNLLLLGAVSLPTGFMLVPYATFFAPPGLGSAGGGTTAKDAIGNDIIAADWLNT 122
           MGKRQLMNLLLLGA+SLPT  ML+PY  FF PPG GS+ GGT AKDA+GND+IA +WL  
Sbjct: 61  MGKRQLMNLLLLGAISLPTAGMLIPYTYFFVPPGSGSSAGGTVAKDAVGNDVIAENWLKA 120

Query: 123 HGPGDRTLTEGLK 135
           HGPGDRTLT+GLK
Sbjct: 121 HGPGDRTLTQGLK 133

Source: Glycine max

Species: Glycine max

Genus: Glycine

Family: Fabaceae

Order: Fabales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|356544886|ref|XP_003540878.1| PREDICTED: LOW QUALITY PROTEIN: cytochrome b6-f complex iron-sulfur subunit, chloroplastic-like [Glycine max]

 Score =  186 bits (472), Expect = 3e-45,   Method: Compositional matrix adjust.
 Identities = 90/134 (67%), Positives = 107/134 (79%), Gaps = 1/134 (0%)

Query: 3   SSSSLSSATPSQLCSSKGGMFCPSRAFLVKPARTQMVTKNPMGMKIKCQATSIPADRVPD 62
           +S++LS+ATPSQLCS K G+FCPS+A  VKP ++QM  K   G++I  QATS PADR+PD
Sbjct: 2   ASTTLSAATPSQLCSGKSGIFCPSQALFVKPMKSQMXGKG-KGVRITYQATSFPADRIPD 60

Query: 63  MGKRQLMNLLLLGAVSLPTGFMLVPYATFFAPPGLGSAGGGTTAKDAIGNDIIAADWLNT 122
           +GKRQLMNLLLLGA SLPT  ML+PY  FF PPG G + GGT AKD IGND+IA  WL T
Sbjct: 61  IGKRQLMNLLLLGAXSLPTSSMLLPYTYFFVPPGAGPSTGGTVAKDPIGNDVIAEKWLET 120

Query: 123 HGPGDRTLTEGLKV 136
           HGPGDRTLT+GLK+
Sbjct: 121 HGPGDRTLTQGLKM 134

Source: Glycine max

Species: Glycine max

Genus: Glycine

Family: Fabaceae

Order: Fabales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|388490498|gb|AFK33315.1| unknown [Lotus japonicus]

 Score =  184 bits (468), Expect = 8e-45,   Method: Compositional matrix adjust.
 Identities = 98/133 (73%), Positives = 111/133 (83%), Gaps = 1/133 (0%)

Query: 3   SSSSLSSATPSQLCSSKGGMFCPSRAFLVKPARTQMVTKNPMGMKIKCQATSIPADRVPD 62
           SS++LS  TPSQLCS K G+FCPS+A LVKPAR QMV K   G++I C ATSIPADRVPD
Sbjct: 2   SSTTLSPVTPSQLCSGKSGIFCPSQALLVKPARNQMVGKA-KGIRIACMATSIPADRVPD 60

Query: 63  MGKRQLMNLLLLGAVSLPTGFMLVPYATFFAPPGLGSAGGGTTAKDAIGNDIIAADWLNT 122
           M KR+L+NLLLLGA+SLP+  MLVPYATFFAPPG GSA GGT AKDAIGND++A  WL  
Sbjct: 61  MEKRKLLNLLLLGAISLPSAGMLVPYATFFAPPGSGSATGGTIAKDAIGNDVVAEQWLKA 120

Query: 123 HGPGDRTLTEGLK 135
           HGPGDRTLT+GLK
Sbjct: 121 HGPGDRTLTQGLK 133

Source: Lotus japonicus

Species: Lotus japonicus

Genus: Lotus

Family: Fabaceae

Order: Fabales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|315364830|gb|ADU05416.1| chloroplast Rieske-type ion-sulfur protein [Citrullus lanatus]

 Score =  172 bits (437), Expect = 3e-41,   Method: Compositional matrix adjust.
 Identities = 90/133 (67%), Positives = 105/133 (78%), Gaps = 1/133 (0%)

Query: 3   SSSSLSSATPSQLCSSKGGMFCPSRAFLVKPARTQMVTKNPMGMKIKCQATSIPADRVPD 62
           +SS+LSSATPSQLC+S+  +FCPS+A L KP  TQM  K    +KI CQATSIPADRVPD
Sbjct: 2   ASSTLSSATPSQLCASRSALFCPSQALLRKPKNTQMGAKG-KEVKISCQATSIPADRVPD 60

Query: 63  MGKRQLMNLLLLGAVSLPTGFMLVPYATFFAPPGLGSAGGGTTAKDAIGNDIIAADWLNT 122
           MGKR+ MNLLLLGA+ LPT  ML PY  FF PPG G AGGG  AKDA+GND++A +WL  
Sbjct: 61  MGKRKTMNLLLLGAIGLPTATMLYPYTYFFVPPGTGGAGGGIVAKDALGNDVLAEEWLKA 120

Query: 123 HGPGDRTLTEGLK 135
           HGPGDRTLT+GL+
Sbjct: 121 HGPGDRTLTQGLR 133

Source: Citrullus lanatus

Species: Citrullus lanatus

Genus: Citrullus

Family: Cucurbitaceae

Order: Cucurbitales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|136707|sp|P26291.1|UCRIA_PEA RecName: Full=Cytochrome b6-f complex iron-sulfur subunit, chloroplastic; AltName: Full=Plastohydroquinone:plastocyanin oxidoreductase iron-sulfur protein; AltName: Full=Rieske iron-sulfur protein; Short=ISP; Short=RISP; Flags: Precursor gi|20832|emb|CAA45151.1| chloroplast Rieske FeS protein [Pisum sativum]

 Score =  171 bits (433), Expect = 1e-40,   Method: Compositional matrix adjust.
 Identities = 92/133 (69%), Positives = 106/133 (79%)

Query: 3   SSSSLSSATPSQLCSSKGGMFCPSRAFLVKPARTQMVTKNPMGMKIKCQATSIPADRVPD 62
           SS++LS  TPSQLCS K G+ CPS A LVKP RTQM  +   GMKI CQATSIPADRVPD
Sbjct: 2   SSTTLSPTTPSQLCSGKSGISCPSIALLVKPTRTQMTGRGNKGMKITCQATSIPADRVPD 61

Query: 63  MGKRQLMNLLLLGAVSLPTGFMLVPYATFFAPPGLGSAGGGTTAKDAIGNDIIAADWLNT 122
           M KR+ +NLLLLGA+SLPT  MLVPY +F  PPG GS+ GGT AKDA+GND++A +WL T
Sbjct: 62  MSKRKTLNLLLLGALSLPTAGMLVPYGSFLVPPGSGSSTGGTVAKDAVGNDVVATEWLKT 121

Query: 123 HGPGDRTLTEGLK 135
           H PGDRTLT+GLK
Sbjct: 122 HAPGDRTLTQGLK 134

Source: Pisum sativum

Species: Pisum sativum

Genus: Pisum

Family: Fabaceae

Order: Fabales

Phylum: Streptophyta

Superkingdom: Eukaryota

---

Prediction of Gene Ontology (GO) Terms

Close Homologs with Gene Ontology terms Detected by BLAST

Original result of BLAST against Gene Ontology (AMIGO)

ID	Length	Definition	Q cover	H cover	Identity	E-value
Query	155
TAIR|locus:2005534	229	PETC "photosynthetic electron	0.754	0.510	0.655	6.8e-40

TAIR|locus:2005534 PETC "photosynthetic electron transfer C" [Arabidopsis thaliana (taxid:3702)]

 Score = 425 (154.7 bits), Expect = 6.8e-40, P = 6.8e-40
 Identities = 78/119 (65%), Positives = 94/119 (78%)

Query:    19 KGGMFCPSRAFLVKPART--QMVTKNPMGMKIKCQATSIPADRVPDMGKRQLMNLLLLGA 76
             +  +   S    VKP +   QMV K  +G++I CQA+SIPADRVPDM KR+ +NLLLLGA
Sbjct:    16 RSALMAMSSGLFVKPTKMNHQMVRKEKIGLRISCQASSIPADRVPDMEKRKTLNLLLLGA 75

Query:    77 VSLPTGFMLVPYATFFAPPGLGSAGGGTTAKDAIGNDIIAADWLNTHGPGDRTLTEGLK 135
             +SLPTG+MLVPYATFF PPG G  GGGT AKDA+GND++AA+WL THGPGDRTLT+GLK
Sbjct:    76 LSLPTGYMLVPYATFFVPPGTGGGGGGTPAKDALGNDVVAAEWLKTHGPGDRTLTQGLK 134


Parameters:
  V=100
  filter=SEG
  E=0.001

  ctxfactor=1.00

  Query                        -----  As Used  -----    -----  Computed  ----
  Frame  MatID Matrix name     Lambda    K       H      Lambda    K       H
   +0      0   BLOSUM62        0.323   0.139   0.443    same    same    same
               Q=9,R=2         0.244   0.0300  0.180     n/a     n/a     n/a

  Query
  Frame  MatID  Length  Eff.Length     E     S W   T  X   E2     S2
   +0      0      155       139   0.00091  102 3  11 22  0.40    31
                                                     30  0.46    33


Statistics:

  Database:  /share/blast/go-seqdb.fasta
   Title:  go_20130330-seqdb.fasta
   Posted:  5:47:42 AM PDT Apr 1, 2013
   Created:  5:47:42 AM PDT Apr 1, 2013
   Format:  XDF-1
   # of letters in database:  169,044,731
   # of sequences in database:  368,745
   # of database sequences satisfying E:  1
  No. of states in DFA:  607 (65 KB)
  Total size of DFA:  142 KB (2086 KB)
  Time to generate neighborhood:  0.00u 0.00s 0.00t   Elapsed:  00:00:00
  No. of threads or processors used:  24
  Search cpu time:  13.49u 0.08s 13.57t   Elapsed:  00:00:03
  Total cpu time:  13.49u 0.08s 13.57t   Elapsed:  00:00:03
  Start:  Thu May  9 19:19:46 2013   End:  Thu May  9 19:19:49 2013

GO:0008121 "ubiquinol-cytochrome-c reductase activity" evidence=IEA

GO:0009496 "plastoquinol--plastocyanin reductase activity" evidence=IEA

GO:0009507 "chloroplast" evidence=ISM;IDA

GO:0016491 "oxidoreductase activity" evidence=IEA

GO:0016679 "oxidoreductase activity, acting on diphenols and related substances as donors" evidence=IEA

GO:0051537 "2 iron, 2 sulfur cluster binding" evidence=IEA

GO:0055114 "oxidation-reduction process" evidence=IEA

GO:0010196 "nonphotochemical quenching" evidence=IMP

GO:0009512 "cytochrome b6f complex" evidence=TAS

GO:0009535 "chloroplast thylakoid membrane" evidence=IDA;TAS

GO:0009767 "photosynthetic electron transport chain" evidence=TAS

GO:0046028 "electron transporter, transferring electrons from cytochrome b6/f complex of photosystem II activity" evidence=TAS

GO:0005515 "protein binding" evidence=IPI

GO:0009941 "chloroplast envelope" evidence=IDA

GO:0009579 "thylakoid" evidence=IDA

GO:0005886 "plasma membrane" evidence=IDA

GO:0042742 "defense response to bacterium" evidence=IEP;RCA

GO:0016020 "membrane" evidence=IDA

GO:0009534 "chloroplast thylakoid" evidence=IDA

GO:0080167 "response to karrikin" evidence=IEP

GO:0000165 "MAPK cascade" evidence=RCA

GO:0006098 "pentose-phosphate shunt" evidence=RCA

GO:0006364 "rRNA processing" evidence=RCA

GO:0006612 "protein targeting to membrane" evidence=RCA

GO:0009409 "response to cold" evidence=RCA

GO:0009595 "detection of biotic stimulus" evidence=RCA

GO:0009657 "plastid organization" evidence=RCA

GO:0009697 "salicylic acid biosynthetic process" evidence=RCA

GO:0009814 "defense response, incompatible interaction" evidence=RCA

GO:0009862 "systemic acquired resistance, salicylic acid mediated signaling pathway" evidence=RCA

GO:0009867 "jasmonic acid mediated signaling pathway" evidence=RCA

GO:0010200 "response to chitin" evidence=RCA

GO:0010207 "photosystem II assembly" evidence=RCA

GO:0010310 "regulation of hydrogen peroxide metabolic process" evidence=RCA

GO:0010363 "regulation of plant-type hypersensitive response" evidence=RCA

GO:0019684 "photosynthesis, light reaction" evidence=RCA

GO:0031348 "negative regulation of defense response" evidence=RCA

GO:0043900 "regulation of multi-organism process" evidence=RCA

GO:0050832 "defense response to fungus" evidence=RCA

---

Prediction of Enzyme Commission (EC) Number

EC Number Prediction by Annotation Transfer from SWISS-PROT Entries

Original result of BLAST against SWISS-PROT

No confident hit for EC number transfering in SWISSPROT detected by BLAST

EC Number Prediction by Ezypred Server

Original result from Ezypred Server

Fail to connect to Ezypred Server

EC Number Prediction by EFICAz Software

Prediction Level	EC number	Confidence of Prediction
4th Layer	1.10.99.1	0.914
3rd Layer	1.10.99	0.921

---

Prediction of Functionally Associated Proteins

Functionally Associated Proteins Detected by STRING

Original result from the STRING server

Your Input:
	GSVIVG00027575001	SubName- Full=Putative uncharacterized protein (Chromosome chr19 scaffold_4, whole genome shotgun sequence); (228 aa)
		(Vitis vinifera)
Predicted Functional Partners:
	GSVIVG00035655001	SubName- Full=Chromosome undetermined scaffold_79, whole genome shotgun sequence; (188 aa)	•		•				•		0.496
	GSVIVG00029966001	SubName- Full=Chromosome undetermined scaffold_51, whole genome shotgun sequence; (129 aa)	•		•				•		0.471
	GSVIVG00018133001	SubName- Full=Chromosome chr13 scaffold_17, whole genome shotgun sequence; (106 aa)			•						0.452
	GSVIVG00035255001	SubName- Full=Chromosome chr10 scaffold_76, whole genome shotgun sequence; (192 aa)	•		•				•		0.433
	GSVIVG00012660001	SubName- Full=Chromosome undetermined scaffold_3171, whole genome shotgun sequence; (161 aa)					•		•		0.429

---

Conserved Domains and Related Protein Families

Conserved Domains Detected by RPS-BLAST

Original result of RPS-BLAST against CDD database part I

ID	Length	Definition	E-value
Query	155
PRK13474	178	PRK13474, PRK13474, cytochrome b6-f complex iron-s	6e-29
pfam08802	36	pfam08802, CytB6-F_Fe-S, Cytochrome B6-F complex F	7e-14
cd03471	126	cd03471, Rieske_cytochrome_b6f, Iron-sulfur protei	2e-11

>gnl|CDD|237392 PRK13474, PRK13474, cytochrome b6-f complex iron-sulfur subunit; Provisional

 Score =  104 bits (261), Expect = 6e-29
 Identities = 44/82 (53%), Positives = 53/82 (64%), Gaps = 1/82 (1%)

Query: 54  SIPADRVPDMGKRQLMNLLLLGAVSLPTGFMLVPYATFFAPPGLGSAGGGTTAKDAIGND 113
           S  +D VP MG+RQ MNLL  G V+      L P   +F PP  G AGGGTTAKD +GND
Sbjct: 4   SGSSD-VPSMGRRQFMNLLTFGTVTGVALGALYPVVKYFIPPSAGGAGGGTTAKDELGND 62

Query: 114 IIAADWLNTHGPGDRTLTEGLK 135
           I A+ +L TH  GDR+L +GLK
Sbjct: 63  IPASQFLATHPAGDRSLVQGLK 84

Length = 178

>gnl|CDD|220024 pfam08802, CytB6-F_Fe-S, Cytochrome B6-F complex Fe-S subunit

 Score = 61.5 bits (150), Expect = 7e-14
 Identities = 26/36 (72%), Positives = 28/36 (77%)

Query: 60 VPDMGKRQLMNLLLLGAVSLPTGFMLVPYATFFAPP 95
          VPDMG+RQLMNLLLLGAV+LP    L PY  FF PP
Sbjct: 1  VPDMGRRQLMNLLLLGAVALPALGALYPYVKFFIPP 36

The cytochrome B6-F complex mediates electron transfer between photosystem II (PSII) and photosystem I (PSI), cyclic electron flow around PSI, and state transitions. This domain corresponds to the alpha helical transmembrane domain of the cytochrome B6-F complex iron-sulphur subunit. Length = 36

>gnl|CDD|239553 cd03471, Rieske_cytochrome_b6f, Iron-sulfur protein (ISP) component of the b6f complex family, Rieske domain; The Rieske domain is a [2Fe-2S] cluster binding domain involved in electron transfer

 Score = 57.4 bits (139), Expect = 2e-11
 Identities = 20/32 (62%), Positives = 24/32 (75%)

Query: 104 TTAKDAIGNDIIAADWLNTHGPGDRTLTEGLK 135
             AKDA+GNDI  + WL TH PGDR+L +GLK
Sbjct: 1   VAAKDALGNDIKVSKWLATHNPGDRSLVQGLK 32

The cytochrome b6f complex from Mastigocladus laminosus, a thermophilic cyanobacterium, contains four large subunits, including cytochrome f, cytochrome b6, the Rieske ISP, and subunit IV; as well as four small hydrophobic subunits, PetG, PetL, PetM, and PetN. Rieske ISP, one of the large subunits of the cytochrome bc-type complexes, is involved in respiratory and photosynthetic electron transfer. The core of the chloroplast b6f complex is similar to the analogous respiratory cytochrome bc(1) complex, but the domain arrangement outside the core and the complement of prosthetic groups are strikingly different. Length = 126

Conserved Domains Detected by HHsearch

Original result of HHsearch against CDD database

ID	Length	Definition	Probability
Query	155
PRK13474	178	cytochrome b6-f complex iron-sulfur subunit; Provi	99.89
PF08802	39	CytB6-F_Fe-S: Cytochrome B6-F complex Fe-S subunit	99.82
TIGR03171	321	soxL2 Rieske iron-sulfur protein SoxL2. This iron-	99.67
KOG1671	210	consensus Ubiquinol cytochrome c reductase, subuni	99.33
cd03471	126	Rieske_cytochrome_b6f Iron-sulfur protein (ISP) co	99.02
COG0723	177	QcrA Rieske Fe-S protein [Energy production and co	97.42
TIGR01416	174	Rieske_proteo ubiquinol-cytochrome c reductase, ir	96.64
PF10399	41	UCR_Fe-S_N: Ubiquitinol-cytochrome C reductase Fe-	95.5
TIGR02811	66	formate_TAT formate dehydrogenase region TAT targe	86.32
PF10518	26	TAT_signal: TAT (twin-arginine translocation) path	84.49

>PRK13474 cytochrome b6-f complex iron-sulfur subunit; Provisional

Probab=99.89  E-value=3.5e-24  Score=169.26  Aligned_cols=90  Identities=47%  Similarity=0.737  Sum_probs=85.6

Q ss_pred             cCCCCCCCCchhHHHHHHHhhhccccccceeccceEEEeecCCCCCCCCccccccccCCcchhhhhhccCCCCCchhhcc
Q 031683           54 SIPADRVPDMGKRQLMNLLLLGAVSLPTGFMLVPYATFFAPPGLGSAGGGTTAKDAIGNDIIAADWLNTHGPGDRTLTEG  133 (155)
Q Consensus        54 s~~~~~vPDM~RRqlMNlLl~Gava~~a~g~LyP~v~fFVPP~sgGggGGv~AKDalGNdI~as~wL~th~pGdR~LvqG  133 (155)
                      +..+++||||+||+|||.+++|++++.++++++|+++||+||.+++++|+.+|||++||+|++++|+++|++|++.++++
T Consensus         3 ~~~~~~~~d~~RR~FL~~~~~~~gg~~a~~~~~P~v~~~~Pp~~~~~~g~~~a~d~~G~~I~~s~~~~~~~~g~~~~v~~   82 (178)
T PRK13474          3 QSGSSDVPSMGRRQFMNLLTFGTVTGVALGALYPVVKYFIPPSAGGAGGGTTAKDELGNDIPASQFLATHPAGDRSLVQG   82 (178)
T ss_pred             ccccCCCCCccHHHHHHHHHHHHHHHHHHHHHHHhhheeCChhHccCCCcceeecccCCeeehhhccccCCCCCcEEEEE
Confidence            45568999999999999999999999999999999999999999989999999999999999999999999999999999


Q ss_pred             cCCCceeeee
Q 031683          134 LKVQINFFEN  143 (155)
Q Consensus       134 LKGDpTYLi~  143 (155)
                      ++|+++|||-
T Consensus        83 ~~g~~~~lv~   92 (178)
T PRK13474         83 LKGDPTYLVV   92 (178)
T ss_pred             cCCCeEEEEE
Confidence            9999988874

>PF08802 CytB6-F_Fe-S: Cytochrome B6-F complex Fe-S subunit ; InterPro: IPR014909 The cytochrome b6-f complex mediates electron transfer between photosystem II (PSII) and photosystem I (PSI), cyclic electron flow around PSI, and state transitions

Probab=99.82  E-value=2.3e-22  Score=129.65  Aligned_cols=39  Identities=69%  Similarity=1.169  Sum_probs=31.0

Q ss_pred             CCCCCchhHHHHHHHhhhccccccceeccceEEEeecCC
Q 031683           58 DRVPDMGKRQLMNLLLLGAVSLPTGFMLVPYATFFAPPG   96 (155)
Q Consensus        58 ~~vPDM~RRqlMNlLl~Gava~~a~g~LyP~v~fFVPP~   96 (155)
                      |+|||||||||||+|++|++++++++++|||++|||||+
T Consensus         1 d~VPdm~RR~lmN~ll~Gava~~a~~~lyP~~~ffvPP~   39 (39)
T PF08802_consen    1 DRVPDMSRRQLMNLLLGGAVAVPAGGMLYPYVKFFVPPS   39 (39)
T ss_dssp             -----HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHS---
T ss_pred             CCCCChhHHHHHHHHHHhhHHHHHHHHhhhheeEecCCC
Confidence            579999999999999999999999999999999999995

The cytochrome b6-f complex has 4 large subunits, these are: cytochrome b6, subunit IV (17 kDa polypeptide, PetD), cytochrome f and the Rieske protein, while the 4 small subunits are: PetG, PetL, PetM and PetN. The complex functions as a dimer. This protein corresponds to the alpha helical transmembrane domain of the cytochrome b6-f complex Rieske iron-sulphur subunit. ; GO: 0009496 plastoquinol-plastocyanin reductase activity, 0051537 2 iron, 2 sulfur cluster binding, 0055114 oxidation-reduction process, 0042651 thylakoid membrane; PDB: 1Q90_R 1VF5_D 2E75_D 2E74_D 2E76_D 2D2C_Q 2ZT9_D.

>TIGR03171 soxL2 Rieske iron-sulfur protein SoxL2

Probab=99.67  E-value=1.3e-17  Score=145.02  Aligned_cols=84  Identities=21%  Similarity=0.302  Sum_probs=74.7

Q ss_pred             CCCchhHHHHHHHhhhccccccceeccceEEEeecCCCCCCC--CccccccccCCcchhhhhhccCCCCCchhhcccCCC
Q 031683           60 VPDMGKRQLMNLLLLGAVSLPTGFMLVPYATFFAPPGLGSAG--GGTTAKDAIGNDIIAADWLNTHGPGDRTLTEGLKVQ  137 (155)
Q Consensus        60 vPDM~RRqlMNlLl~Gava~~a~g~LyP~v~fFVPP~sgGgg--GGv~AKDalGNdI~as~wL~th~pGdR~LvqGLKGD  137 (155)
                      -|||+||+|||++++|++++++++ ++|+++||+||..+.++  +.++|+|++||||.+|+ |..|.+.++.+.+++++|
T Consensus        58 ~vD~~RR~fL~~al~gAga~a~~~-avPlv~~l~PP~~a~atG~pk~La~D~~GnPIKASd-L~vnSp~~~lfeyPl~gd  135 (321)
T TIGR03171        58 GVDEGRRKFLKGLIFGIAAAAVVG-IIPGLRVLVPPTVAAASGFPKSLLVDSSGNPIKASS-IPVNSPIITIFEYPMTGE  135 (321)
T ss_pred             CCCccHHHHHHHHHHHHHHHHhhh-hhhheecccCchhhhccCCCceEEecCCCCeeeHHH-ccCCCcccccccCcCCCC
Confidence            479999999999999999976666 78999999999875544  45999999999999999 667999999999999999


Q ss_pred             ceeeeeeh
Q 031683          138 INFFENYC  145 (155)
Q Consensus       138 pTYLi~~~  145 (155)
                      |+|||+--
T Consensus       136 P~fLIklg  143 (321)
T TIGR03171       136 PNFLLNLG  143 (321)
T ss_pred             cHHHHHhh
Confidence            99999863

This iron-sulfur protein is found in a contiguous genomic region with subunits of cytochrome b558/566 in several archaeal species, and appears to be part of a cytochrome bc1-analogous system.

>KOG1671 consensus Ubiquinol cytochrome c reductase, subunit RIP1 [Energy production and conversion]

Probab=99.33  E-value=1.2e-12  Score=108.96  Aligned_cols=132  Identities=17%  Similarity=0.090  Sum_probs=120.4

Q ss_pred             CCCCCCCCCCCcccccccCCCCCcccccccccccc--ccccccCCCcceeeeeeccCCCCCCCCchhHHHHHHHhhhccc
Q 031683            1 MASSSSLSSATPSQLCSSKGGMFCPSRAFLVKPAR--TQMVTKNPMGMKIKCQATSIPADRVPDMGKRQLMNLLLLGAVS   78 (155)
Q Consensus         1 mas~~~ls~~~psql~~~~~~~~~~~~~l~~k~~~--~~~~~k~~~~~~~~~~a~s~~~~~vPDM~RRqlMNlLl~Gava   78 (155)
                      |+| +++|....+||-++..-+..|.-...+++..  .++.+++.|+....||..+..+..+++++.+-+.++...+|.+
T Consensus         2 ~~s-~s~~~~~s~~l~~~~t~~~~p~~~~~~~~~~~~~~~~~~~~k~~~sy~~~g~~~~~~a~~ak~~v~~fi~smsAsa   80 (210)
T KOG1671|consen    2 MSS-SSLSRVLSTGLGSSHTDLMVPDFSDYRRESVKDHQDTGEERKGFRSYLMVGAGAAGRAYAAKNLVTTFISSMSASA   80 (210)
T ss_pred             ccc-cccchhhccccccccccccCCCchhhhchhhhccccchhhhhceeeEEEecccceeehhhhhhhHHHHHHHhhhhh
Confidence            444 6777755679999999999999999998877  3556777667889999999999999999999999999999999


Q ss_pred             cccceeccceEEEeecCCCCCCCCccccccccCCcchhhhhhccCCCCCchhhcccCCCce
Q 031683           79 LPTGFMLVPYATFFAPPGLGSAGGGTTAKDAIGNDIIAADWLNTHGPGDRTLTEGLKVQIN  139 (155)
Q Consensus        79 ~~a~g~LyP~v~fFVPP~sgGggGGv~AKDalGNdI~as~wL~th~pGdR~LvqGLKGDpT  139 (155)
                      -+.+.+++||..++||+      |+..|++..|||+.+.+|+++|-+++|++-|+.++||+
T Consensus        81 dvlA~akiei~l~~IPe------Gk~~~~kwrGkpvfirhrt~~ei~~~r~V~~s~lrDPq  135 (210)
T KOG1671|consen   81 DVLAMAKIEIKLSDIPE------GKTVAFKWRGKPVFIRHRTKAEIEGERNVPQSTLRDPQ  135 (210)
T ss_pred             hhhhheeeeeeeecCCC------CCCcceeccCCceEEeeccccccccccccchhhccCch
Confidence            99999999999999999      78999999999999999999999999999999999997

>cd03471 Rieske_cytochrome_b6f Iron-sulfur protein (ISP) component of the b6f complex family, Rieske domain; The Rieske domain is a [2Fe-2S] cluster binding domain involved in electron transfer

Probab=99.02  E-value=9.5e-11  Score=89.91  Aligned_cols=40  Identities=50%  Similarity=0.865  Sum_probs=37.3

Q ss_pred             cccccccCCcchhhhhhccCCCCCchhhcccCCCceeeee
Q 031683          104 TTAKDAIGNDIIAADWLNTHGPGDRTLTEGLKVQINFFEN  143 (155)
Q Consensus       104 v~AKDalGNdI~as~wL~th~pGdR~LvqGLKGDpTYLi~  143 (155)
                      +.|||||||||++++||+||.|||+.++|+..+++.++|-
T Consensus         1 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~Ilv~   40 (126)
T cd03471           1 VAAKDALGNDIKVSKWLATHNPGDRSLVQGLKGDPTYLIV   40 (126)
T ss_pred             CccccccCCceeHHHHHhhCCCCCeEEEEEecCCeEEEEE
Confidence            4699999999999999999999999999999999988763

The cytochrome b6f complex from Mastigocladus laminosus, a thermophilic cyanobacterium, contains four large subunits, including cytochrome f, cytochrome b6, the Rieske ISP, and subunit IV; as well as four small hydrophobic subunits, PetG, PetL, PetM, and PetN. Rieske ISP, one of the large subunits of the cytochrome bc-type complexes, is involved in respiratory and photosynthetic electron transfer. The core of the chloroplast b6f complex is similar to the analogous respiratory cytochrome bc(1) complex, but the domain arrangement outside the core and the complement of prosthetic groups are strikingly different.

>COG0723 QcrA Rieske Fe-S protein [Energy production and conversion]

Probab=97.42  E-value=9.6e-05  Score=57.42  Aligned_cols=84  Identities=17%  Similarity=0.066  Sum_probs=70.7

Q ss_pred             CCCCCchhHHHHHHHhhhccccccceeccceEEEeecCCCC-CCCCccccccccCCcchhhhhhccCCCCCchhhcccCC
Q 031683           58 DRVPDMGKRQLMNLLLLGAVSLPTGFMLVPYATFFAPPGLG-SAGGGTTAKDAIGNDIIAADWLNTHGPGDRTLTEGLKV  136 (155)
Q Consensus        58 ~~vPDM~RRqlMNlLl~Gava~~a~g~LyP~v~fFVPP~sg-GggGGv~AKDalGNdI~as~wL~th~pGdR~LvqGLKG  136 (155)
                      ....++.||++|+.++.+.++..+..++||.+.++.|+..+ ..+..+.++|...+++.......+..|..+.+.....+
T Consensus         4 ~~~~~~~~~~~l~~~~~~~~~~~~~~~~~p~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~p~~~~~~~~~~~   83 (177)
T COG0723           4 AAATGLSRRDFLVLLTTGVGAVGAGAALYPAVESVDPPAGGGLAGAPIEVDDSGIGPGPLVTVPWRGKPVFLLRRTEYAG   83 (177)
T ss_pred             cccccccHHHhhhhhhccccccceeeeeeehhhcccCcccccccCCceeeeccCCccceEEEEecCCCCeeeEeeccccc
Confidence            35678999999999999999999999999999999997765 88888999999989999988888888888776665555


Q ss_pred             Cceee
Q 031683          137 QINFF  141 (155)
Q Consensus       137 DpTYL  141 (155)
                      +..|.
T Consensus        84 ~~~~~   88 (177)
T COG0723          84 PKGGV   88 (177)
T ss_pred             ccccc
Confidence            44443

>TIGR01416 Rieske_proteo ubiquinol-cytochrome c reductase, iron-sulfur subunit

Probab=96.64  E-value=0.00071  Score=53.80  Aligned_cols=38  Identities=13%  Similarity=0.159  Sum_probs=33.9

Q ss_pred             hhHHHHHHHhhhccccccceeccceEEEeecCCCCCCC
Q 031683           64 GKRQLMNLLLLGAVSLPTGFMLVPYATFFAPPGLGSAG  101 (155)
Q Consensus        64 ~RRqlMNlLl~Gava~~a~g~LyP~v~fFVPP~sgGgg  101 (155)
                      +||+||+.++.+++++.++++++|+++|+-|.....++
T Consensus         1 ~RR~fl~~~~~~~~~~~~~~~~~p~v~~~~P~~~~~a~   38 (174)
T TIGR01416         1 TRRDFLYAATGAVGAVGAAAAAVPFIDSMNPSASVKAA   38 (174)
T ss_pred             ChHHHHHHHHHHHHHHHHHHHHHHHHheeCcchhcccc
Confidence            59999999999999999999999999999887765554

Most members of this family have a recognizable twin-arginine translocation (tat) signal sequence (DeltaPh-dependent translocation in chloroplast) for transport across the membrane with the 2Fe-2S group already bound. These signal sequences include a motif resembling RRxFLK before the transmembrane helix.

>PF10399 UCR_Fe-S_N: Ubiquitinol-cytochrome C reductase Fe-S subunit TAT signal; InterPro: IPR019470 This entry represents the TAT-signal region found in the iron-sulphur subunit of Ubiquinol-cytochrome C reductase (also known as the cytochrome bc1 complex)

Probab=95.50  E-value=0.0011  Score=43.05  Aligned_cols=38  Identities=11%  Similarity=0.233  Sum_probs=28.7

Q ss_pred             CCCCCCchhHHHHHHHhhhccccccceeccceEEEeec
Q 031683           57 ADRVPDMGKRQLMNLLLLGAVSLPTGFMLVPYATFFAP   94 (155)
Q Consensus        57 ~~~vPDM~RRqlMNlLl~Gava~~a~g~LyP~v~fFVP   94 (155)
                      .++..|-+||.||.+.+.+++++-++++++|+++.+-|
T Consensus         3 ~~~~~~~~RRdFL~~at~~~gavG~~~~a~Pfv~s~~P   40 (41)
T PF10399_consen    3 SNEPVDPTRRDFLTIATSAVGAVGAAAAAWPFVSSMNP   40 (41)
T ss_dssp             -------HHHHHHHHHHHHHHHHHHHHHHHHHHHTTSS
T ss_pred             CCCCCCchHHHHHHHHHHHHHHHHHHHHHHHHHhccCC
Confidence            34567899999999999999999999999999887666

This enzymex is an oligomeric membrane protein complex that is a component of respiratory and photosynthetic electron transfer chains. It couples the transfer of electrons from ubiquinol to cytochrome c with the generation of a protein gradient across the membrane []. This entry is associated with IPR017941 from INTERPRO, IPR004192 from INTERPRO and IPR015248 from INTERPRO. ; GO: 0008121 ubiquinol-cytochrome-c reductase activity, 0055114 oxidation-reduction process; PDB: 1ZRT_R 2QJY_R 2FYN_L 2QJK_O 2QJP_I 2YIU_F.

>TIGR02811 formate_TAT formate dehydrogenase region TAT target

Probab=86.32  E-value=0.35  Score=33.86  Aligned_cols=28  Identities=21%  Similarity=0.177  Sum_probs=19.5

Q ss_pred             CCCCchhHHHHHHHhhhccccccceecc
Q 031683           59 RVPDMGKRQLMNLLLLGAVSLPTGFMLV   86 (155)
Q Consensus        59 ~vPDM~RRqlMNlLl~Gava~~a~g~Ly   86 (155)
                      .-++.+||+||-.|.+|++++.++...-
T Consensus         5 ~~~~~sRR~Flk~lg~~aaa~~aa~~~~   32 (66)
T TIGR02811         5 QKADPSRRDLLKGLGVGAAAGAVAAATG   32 (66)
T ss_pred             ccCCccHHHHHHHHHHHHHHHHHHHhcc
Confidence            4567899999998877666555544333

Members of this uncharacterized protein family are all small, extending 70 or fewer residues from their respective likely start codons. All have the twin-arginine-dependent tranport (TAT) signal sequence at the N-terminus and a conserved 20-residue C-terminal region that includes the motif Y-[HRK]-X-[TS]-X-H-[IV]-X-X-[YF]-Y. The TAT signal sequence suggests a bound cofactor. All members are encoded near genes for subunits of formate dehydrogenase, and may themselves be a subunit or accessory protein.

>PF10518 TAT_signal: TAT (twin-arginine translocation) pathway signal sequence; InterPro: IPR019546 The twin-arginine translocation (Tat) pathway serves the role of transporting folded proteins across energy-transducing membranes []

Probab=84.49  E-value=0.55  Score=27.53  Aligned_cols=22  Identities=18%  Similarity=0.202  Sum_probs=15.5

Q ss_pred             CchhHHHHHHHhhhccccccce
Q 031683           62 DMGKRQLMNLLLLGAVSLPTGF   83 (155)
Q Consensus        62 DM~RRqlMNlLl~Gava~~a~g   83 (155)
                      .|+|||||-.....+++..+++
T Consensus         1 ~~sRR~fLk~~~a~~a~~~~~~   22 (26)
T PF10518_consen    1 NLSRRQFLKGGAAAAAAAALGG   22 (26)
T ss_pred             CCcHHHHHHHHHHHHHHHHhcc
Confidence            4799999988766555554444

Homologues of the genes that encode the transport apparatus occur in archaea, bacteria, chloroplasts, and plant mitochondria []. In bacteria, the Tat pathway catalyses the export of proteins from the cytoplasm across the inner/cytoplasmic membrane. In chloroplasts, the Tat components are found in the thylakoid membrane and direct the import of proteins from the stroma. The Tat pathway acts separately from the general secretory (Sec) pathway, which transports proteins in an unfolded state []. It is generally accepted that the primary role of the Tat system is to translocate fully folded proteins across membranes. An example of proteins that need to be exported in their 3D conformation are redox proteins that have acquired complex multi-atom cofactors in the bacterial cytoplasm (or the chloroplast stroma or mitochondrial matrix). They include hydrogenases, formate dehydrogenases, nitrate reductases, trimethylamine N-oxide (TMAO) reductases and dimethyl sulphoxide (DMSO) reductases [, ]. The Tat system can also export whole heteroligomeric complexes in which some proteins have no Tat signal. This is the case of the DMSO reductase or formate dehydrogenase complexes. But there are also other cases where the physiological rationale for targeting a protein to the Tat signal is less obvious. Indeed, there are examples of homologous proteins that are in some cases targeted to the Tat pathway and in other cases to the Sec apparatus. Some examples are: copper nitrite reductases, flavin domains of flavocytochrome c and N-acetylmuramoyl-L-alanine amidases []. In halophilic archaea such as Halobacterium almost all secreted proteins appear to be Tat targeted. It has been proposed to be a response to the difficulties these organisms would otherwise face in successfully folding proteins extracellularly at high ionic strength []. The Tat signal peptide consists of three motifs: the positively charged N-terminal motif, the hydrophobic region and the C-terminal region that generally ends with a consensus short motif (A-x-A) specifying cleavage by signal peptidase. Sequence analysis revealed that signal peptides capable of targeting the Tat protein contain the consensus sequence [ST]-R-R-x-F-L-K. The nearly invariant twin-arginine gave rise to the pathway's name. In addition the h-region of Tat signal peptides is typically less hydrophobic than that of Sec-specific signal peptides [, ].

---

Homologous Structure Templates

Structure Templates Detected by BLAST

Original result of BLAST against Protein Data Bank

ID	Length	Definition	E-value
Query	155
2zt9_D	179	Crystal Structure Of The Cytochrome B6f Complex Fro		2e-12
2e74_D	179	Crystal Structure Of The Cytochrome B6f Complex Fro		2e-11
1vf5_D	179	Crystal Structure Of Cytochrome B6f Complex From M.		2e-11
1rfs_A	139	Rieske Soluble Fragment From Spinach Length = 139		5e-10
1q90_C	127	Structure Of The Cytochrome B6f (Plastohydroquinone		7e-06
1q90_R	49	Structure Of The Cytochrome B6f (Plastohydroquinone		1e-04
3azc_A	133	Crystal Structure Of The Soluble Part Of Cytochrome		2e-04

>pdb|2ZT9|D Chain D, Crystal Structure Of The Cytochrome B6f Complex From Nostoc Sp. Pcc 7120 Length = 179

Iteration: 1
 Score = 68.2 bits (165), Expect = 2e-12,   Method: Compositional matrix adjust.
 Identities = 41/76 (53%), Positives = 50/76 (65%)
Query: 60  VPDMGKRQLMNLLLLGAVSLPTGFMLVPYATFFAPPGLGSAGGGTTAKDAIGNDIIAADW 119
           VPDMG+RQ MNLL  G V+      L P   +F PP  G AGGGTTAKD +GND+  + +
Sbjct: 10  VPDMGRRQFMNLLTFGTVTGVALGALYPVVNYFIPPAAGGAGGGTTAKDELGNDVSVSKF 69
Query: 120 LNTHGPGDRTLTEGLK 135
           L +H  GDRTL +GLK
Sbjct: 70  LESHNVGDRTLVQGLK 85

>pdb|2E74|D Chain D, Crystal Structure Of The Cytochrome B6f Complex From M.Laminosus Length = 179

Iteration: 1
 Score = 64.7 bits (156), Expect = 2e-11,   Method: Compositional matrix adjust.
 Identities = 38/76 (50%), Positives = 49/76 (64%)
Query: 60  VPDMGKRQLMNLLLLGAVSLPTGFMLVPYATFFAPPGLGSAGGGTTAKDAIGNDIIAADW 119
           VPDMG+RQ MNLL  G V+      L P   +F PP  G+ GGGTTAKD +GN++  + +
Sbjct: 10  VPDMGRRQFMNLLAFGTVTGVALGALYPLVKYFIPPSGGAVGGGTTAKDKLGNNVKVSKF 69
Query: 120 LNTHGPGDRTLTEGLK 135
           L +H  GDR L +GLK
Sbjct: 70  LESHNAGDRVLVQGLK 85

>pdb|1VF5|D Chain D, Crystal Structure Of Cytochrome B6f Complex From M.Laminosus Length = 179

Iteration: 1
 Score = 64.7 bits (156), Expect = 2e-11,   Method: Compositional matrix adjust.
 Identities = 38/76 (50%), Positives = 49/76 (64%)
Query: 60  VPDMGKRQLMNLLLLGAVSLPTGFMLVPYATFFAPPGLGSAGGGTTAKDAIGNDIIAADW 119
           VPDMG+RQ MNLL  G V+      L P   +F PP  G+ GGGTTAKD +GN++  + +
Sbjct: 10  VPDMGRRQFMNLLAFGTVTGVALGALYPLVKYFIPPSGGAVGGGTTAKDKLGNNVKVSKF 69
Query: 120 LNTHGPGDRTLTEGLK 135
           L +H  GDR L +GLK
Sbjct: 70  LESHNAGDRVLVQGLK 85

>pdb|1RFS|A Chain A, Rieske Soluble Fragment From Spinach Length = 139

Iteration: 1
 Score = 60.1 bits (144), Expect = 5e-10,   Method: Compositional matrix adjust.
 Identities = 32/44 (72%), Positives = 37/44 (84%)
Query: 92  FAPPGLGSAGGGTTAKDAIGNDIIAADWLNTHGPGDRTLTEGLK 135
           F PPG G+  GGT AKDA+GND+IAA+WL TH PGDRTLT+GLK
Sbjct: 1   FVPPGGGAGTGGTIAKDALGNDVIAAEWLKTHAPGDRTLTQGLK 44

>pdb|1Q90|C Chain C, Structure Of The Cytochrome B6f (Plastohydroquinone : Plastocyanin Oxidoreductase) From Chlamydomonas Reinhardtii Length = 127

Iteration: 1
 Score = 46.2 bits (108), Expect = 7e-06,   Method: Compositional matrix adjust.
 Identities = 20/30 (66%), Positives = 25/30 (83%)
Query: 106 AKDAIGNDIIAADWLNTHGPGDRTLTEGLK 135
           AKDA+GNDI A +WL TH  GDR+L++GLK
Sbjct: 3   AKDALGNDIKAGEWLKTHLAGDRSLSQGLK 32

>pdb|1Q90|R Chain R, Structure Of The Cytochrome B6f (Plastohydroquinone : Plastocyanin Oxidoreductase) From Chlamydomonas Reinhardtii Length = 49

Iteration: 1
 Score = 42.0 bits (97), Expect = 1e-04,   Method: Compositional matrix adjust.
 Identities = 18/39 (46%), Positives = 23/39 (58%)
Query: 57 ADRVPDMGKRQLMNLLLLGAVSLPTGFMLVPYATFFAPP 95
          +  VPDM KR +MNL+L G   LP   + + Y  FF PP
Sbjct: 3  SSEVPDMNKRNIMNLILAGGAGLPITTLALGYGAFFVPP 41

>pdb|3AZC|A Chain A, Crystal Structure Of The Soluble Part Of Cytochrome B6f Complex Iron- Sulfur Subunit From Thermosynechococcus Elongatus Bp-1 Length = 133

Iteration: 1
 Score = 41.6 bits (96), Expect = 2e-04,   Method: Compositional matrix adjust.
 Identities = 18/34 (52%), Positives = 25/34 (73%)
Query: 102 GGTTAKDAIGNDIIAADWLNTHGPGDRTLTEGLK 135
           G   AKDA+GNDI  +++L  H PGDR+L +G+K
Sbjct: 5   GRAVAKDALGNDIKVSEYLAKHLPGDRSLAQGIK 38

Structure Templates Detected by RPS-BLAST

Original result of RPS-BLAST against PDB70 database

ID	Length	Definition	E-value
Query	155
1q90_R	49	Cytochrome B6-F complex iron-sulfur subunit; membr	6e-18
1vf5_D	179	Rieske iron-sulfur protein; photosynthesis, membra	1e-17
1rfs_A	139	Rieske protein; iron-sulfur protein, electron tran	3e-12

>1q90_R Cytochrome B6-F complex iron-sulfur subunit; membrane protein complex, photosynthesis, electron transfer, oxydoreductase, chlorophyll; HET: HEM CL1 BCR TDS SQD LFA LMG; 3.10A {Chlamydomonas reinhardtii} SCOP: f.23.12.1 Length = 49

 Score = 71.6 bits (175), Expect = 6e-18
 Identities = 22/47 (46%), Positives = 27/47 (57%)

Query: 57  ADRVPDMGKRQLMNLLLLGAVSLPTGFMLVPYATFFAPPGLGSAGGG 103
           +  VPDM KR +MNL+L G   LP   + + Y  FF PP  G  GGG
Sbjct: 3   SSEVPDMNKRNIMNLILAGGAGLPITTLALGYGAFFVPPSSGGGGGG 49

>1vf5_D Rieske iron-sulfur protein; photosynthesis, membrane protein complex, electron transfer complex; HET: HEM TDS PL9 OPC CLA BCR; 3.00A {Mastigocladus laminosus} SCOP: b.33.1.1 f.23.12.1 PDB: 2d2c_D* 2e74_D* 2e75_D* 2e76_D* 2zt9_D* Length = 179

 Score = 74.5 bits (183), Expect = 1e-17
 Identities = 39/86 (45%), Positives = 51/86 (59%)

Query: 52  ATSIPADRVPDMGKRQLMNLLLLGAVSLPTGFMLVPYATFFAPPGLGSAGGGTTAKDAIG 111
           A    +  VPDMG+RQ MNLL  G V+      L P   +F PP  G+ GGGTTAKD +G
Sbjct: 2   AQFTESMDVPDMGRRQFMNLLAFGTVTGVALGALYPLVKYFIPPSGGAVGGGTTAKDKLG 61

Query: 112 NDIIAADWLNTHGPGDRTLTEGLKVQ 137
           N++  + +L +H  GDR L +GLK  
Sbjct: 62  NNVKVSKFLESHNAGDRVLVQGLKGD 87

>1rfs_A Rieske protein; iron-sulfur protein, electron transport; 1.83A {Spinacia oleracea} SCOP: b.33.1.1 PDB: 1q90_C* Length = 139

 Score = 59.5 bits (144), Expect = 3e-12
 Identities = 32/44 (72%), Positives = 37/44 (84%)

Query: 92  FAPPGLGSAGGGTTAKDAIGNDIIAADWLNTHGPGDRTLTEGLK 135
           F PPG G+  GGT AKDA+GND+IAA+WL TH PGDRTLT+GLK
Sbjct: 1   FVPPGGGAGTGGTIAKDALGNDVIAAEWLKTHAPGDRTLTQGLK 44

Structure Templates Detected by HHsearch

Original result of HHsearch against PDB70 database

ID	Length	Definition	Probability
Query	155
1q90_R	49	Cytochrome B6-F complex iron-sulfur subunit; membr	99.84
1vf5_D	179	Rieske iron-sulfur protein; photosynthesis, membra	99.68
1rfs_A	139	Rieske protein; iron-sulfur protein, electron tran	98.54
3azc_A	133	Cytochrome B6-F complex iron-sulfur subunit; riesk	97.31
2qjy_C	187	Ubiquinol-cytochrome C reductase iron-sulfur SUBU;	97.95
3cx5_E	185	Cytochrome B-C1 complex subunit rieske, mitochondr	97.4
1pp9_E	196	Ubiquinol-cytochrome C reductase iron-sulfur SUBU	94.34

>1q90_R Cytochrome B6-F complex iron-sulfur subunit; membrane protein complex, photosynthesis, electron transfer, oxydoreductase, chlorophyll; HET: HEM CL1 BCR TDS SQD LFA LMG; 3.10A {Chlamydomonas reinhardtii} SCOP: f.23.12.1

Probab=99.84  E-value=3.6e-23  Score=137.13  Aligned_cols=48  Identities=46%  Similarity=0.921  Sum_probs=38.2

Q ss_pred             CCCCCCCchhHHHHHHHhhhccccccceeccceEEEeecCCCCCCCCc
Q 031683           56 PADRVPDMGKRQLMNLLLLGAVSLPTGFMLVPYATFFAPPGLGSAGGG  103 (155)
Q Consensus        56 ~~~~vPDM~RRqlMNlLl~Gava~~a~g~LyP~v~fFVPP~sgGggGG  103 (155)
                      ++++||||+||||||+|++|++++++++++|||++|||||++||+|||
T Consensus         2 ~~~~~pdm~RRqfln~l~~G~~a~~a~~~~~P~v~ffvpP~~gg~ggg   49 (49)
T 1q90_R            2 ASSEVPDMNKRNIMNLILAGGAGLPITTLALGYGAFFVPPSSGGGGGG   49 (49)
T ss_dssp             -CCCCCCHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHSCC--------
T ss_pred             CcccCCChHHHHHHHHHHHHHHHHHHHHHHHhhheeecCCccCCCCCC
Confidence            467899999999999999999999999999999999999999998886

>1vf5_D Rieske iron-sulfur protein; photosynthesis, membrane protein complex, electron transfer complex; HET: HEM TDS PL9 OPC CLA BCR; 3.00A {Mastigocladus laminosus} SCOP: b.33.1.1 f.23.12.1 PDB: 2d2c_D* 2e74_D* 2e75_D* 2e76_D* 2zt9_D*

Probab=99.68  E-value=1e-18  Score=134.62  Aligned_cols=91  Identities=43%  Similarity=0.710  Sum_probs=77.7

Q ss_pred             eccCCCCCCCCchhHHHHHHHhhhccccccceeccceEEEeecCCCCCCCCccccccccCCcchhhhhhccCCCCCchhh
Q 031683           52 ATSIPADRVPDMGKRQLMNLLLLGAVSLPTGFMLVPYATFFAPPGLGSAGGGTTAKDAIGNDIIAADWLNTHGPGDRTLT  131 (155)
Q Consensus        52 a~s~~~~~vPDM~RRqlMNlLl~Gava~~a~g~LyP~v~fFVPP~sgGggGGv~AKDalGNdI~as~wL~th~pGdR~Lv  131 (155)
                      +.+.+.+++|||+||+||+++++|++++.++++++|++++|.||.....+|+.+++|..|++|.+++|+.+.++|++.++
T Consensus         2 ~~~~~~~~~~~~~RR~Fl~~~~~~~~~~~~~~~~~p~~~~~~p~~~~~~~~~~v~~d~~g~~i~~~~~~~~l~~g~~~~~   81 (179)
T 1vf5_D            2 AQFTESMDVPDMGRRQFMNLLAFGTVTGVALGALYPLVKYFIPPSGGAVGGGTTAKDKLGNNVKVSKFLESHNAGDRVLV   81 (179)
T ss_dssp             ----------CCCCCTTSCTTHHHHHHHHHHHHHHHHHHHHSCCCCSSCCCCCCCCBTTSSCCCHHHHHHCCCTTCCCEE
T ss_pred             CcccCCCCCCCCcHHHHHHHHHHHHHHHHHHHHHHHHHHHhCCchhhcccCCcEEEccCCCeEehhhcccccCCCceEEE
Confidence            34566678999999999999999999999999999999999999998888899999999999999999999999999999


Q ss_pred             cccCCCceeee
Q 031683          132 EGLKVQINFFE  142 (155)
Q Consensus       132 qGLKGDpTYLi  142 (155)
                      ++++|++.|++
T Consensus        82 ~~~~g~~~~lv   92 (179)
T 1vf5_D           82 QGLKGDPTYIV   92 (179)
T ss_dssp             SCSSSSCEECC
T ss_pred             eccCCCeEEEE
Confidence            99999999875

>1rfs_A Rieske protein; iron-sulfur protein, electron transport; 1.83A {Spinacia oleracea} SCOP: b.33.1.1 PDB: 1q90_C*

Probab=98.54  E-value=2.2e-08  Score=74.70  Aligned_cols=51  Identities=63%  Similarity=1.101  Sum_probs=33.0

Q ss_pred             eecCCCCCCCCccccccccCCcchhhhhhccCCCCCchhhcccCCCceeee
Q 031683           92 FAPPGLGSAGGGTTAKDAIGNDIIAADWLNTHGPGDRTLTEGLKVQINFFE  142 (155)
Q Consensus        92 FVPP~sgGggGGv~AKDalGNdI~as~wL~th~pGdR~LvqGLKGDpTYLi  142 (155)
                      ||||++|++|||++|+|+.||.|.+++|+++-++|.+..+.++.|++.+++
T Consensus         1 ~~~~~~~~~~~~~~~~~~~g~~i~v~~~~~dlp~g~~~~~~~~~g~~~ilv   51 (139)
T 1rfs_A            1 FVPPGGGAGTGGTIAKDALGNDVIAAEWLKTHAPGDRTLTQGLKGDPTYLV   51 (139)
T ss_dssp             ------------CBCBCTTSCBCBHHHHHHHSCTTCEEEEECGGGCEEEEE
T ss_pred             CcCCccCcccceEEeecCCCCEEEeehhHhhCCCCccEEEEecCCCeEEEE
Confidence            899999999999999999999999999999999998887776666665443

>3azc_A Cytochrome B6-F complex iron-sulfur subunit; rieske, thermosynechococcus elongatu photosynthesis, electron transport; 2.00A {Thermosynechococcus elongatus}

Probab=97.31  E-value=5.8e-07  Score=67.57  Aligned_cols=42  Identities=43%  Similarity=0.741  Sum_probs=38.3

Q ss_pred             CCccccccccCCcchhhhhhccCCCCCchhhcccCCCceeee
Q 031683          101 GGGTTAKDAIGNDIIAADWLNTHGPGDRTLTEGLKVQINFFE  142 (155)
Q Consensus       101 gGGv~AKDalGNdI~as~wL~th~pGdR~LvqGLKGDpTYLi  142 (155)
                      |||++|||+.||+|++++||+..++|++.+++.|-|++..++
T Consensus         4 ~~~~~~~~~~g~~v~~~~~~~~l~~g~~~~v~~l~g~~~vlv   45 (133)
T 3azc_A            4 EGRAVAKDALGNDIKVSEYLAKHLPGDRSLAQGIKGDPTYVI   45 (133)
Confidence            689999999999999999999999999999998877776655

>2qjy_C Ubiquinol-cytochrome C reductase iron-sulfur SUBU; cytochrome B, 8 TM helixces cytochrome C1, 1 C-TERM TM helix 1 N-TERM TM helix; HET: BGL HEM SMA LOP UQ2; 2.40A {Rhodobacter sphaeroides} PDB: 2fyn_C* 2qjk_C* 2qjp_C* 1zrt_E* 2yiu_C*

Probab=97.95  E-value=8.4e-07  Score=69.30  Aligned_cols=43  Identities=19%  Similarity=0.151  Sum_probs=36.6

Q ss_pred             CCCchhHHHHHHHhhhccccccceeccceEEEeecCCCCCCCC
Q 031683           60 VPDMGKRQLMNLLLLGAVSLPTGFMLVPYATFFAPPGLGSAGG  102 (155)
Q Consensus        60 vPDM~RRqlMNlLl~Gava~~a~g~LyP~v~fFVPP~sgGggG  102 (155)
                      ..|++||+||++++++++++.++++++|+++|+.|+.+..+.+
T Consensus         6 ~~~~~RR~Fl~~~~~~~~~~~a~~~~~p~v~~~~p~~~~~a~~   48 (187)
T 2qjy_C            6 DHAGTRRDFLYYATAGAGAVATGAAVWPLINQMNPSADVQALA   48 (187)
T ss_dssp             ---CHHHHHHHHHHHHHHHHHHHHHHHHHHHTTSCCTTTSCCC
T ss_pred             CCCCcHHHHHHHHHHHHHHHHHHHHHHHHHHhcCCchhhcccc
Confidence            4689999999999999999999999999999999998876554

>3cx5_E Cytochrome B-C1 complex subunit rieske, mitochondrial; complex III, electron transfer complex, cytochrome BC1 complex, mitochondrialtransmembrane complex; HET: M3L SUC 6PH UMQ HEM SMA 8PE 9PE CN5 7PH CN3; 1.90A {Saccharomyces cerevisiae} SCOP: b.33.1.1 f.23.12.1 PDB: 1kb9_E* 1kyo_E* 1p84_E* 2ibz_E* 1ezv_E* 3cxh_E*

Probab=97.40  E-value=2.6e-05  Score=60.86  Aligned_cols=74  Identities=11%  Similarity=0.023  Sum_probs=47.9

Q ss_pred             CCCchhHHHHHHHhhhccccccceeccceEEEeecCCCCCCCCccccccccCCcchhhhhhccCCCCCchhhcccCCCce
Q 031683           60 VPDMGKRQLMNLLLLGAVSLPTGFMLVPYATFFAPPGLGSAGGGTTAKDAIGNDIIAADWLNTHGPGDRTLTEGLKVQIN  139 (155)
Q Consensus        60 vPDM~RRqlMNlLl~Gava~~a~g~LyP~v~fFVPP~sgGggGGv~AKDalGNdI~as~wL~th~pGdR~LvqGLKGDpT  139 (155)
                      ..+|+||+||++++++++++.+++++++++.|+.+....   ..+.|    ...|.+.  +.+-++|+...++ +.|.|.
T Consensus        17 ~~~~~RR~fl~~~~~~~~~~~~~~~~~~~~~~~~~~~p~---~~~~a----~~~v~V~--~s~l~~G~~~~v~-~~g~pv   86 (185)
T 3cx5_E           17 NDADKGRSYAYFMVGAMGLLSSAGAKSTVETFISSMTAT---ADVLA----MAKVEVN--LAAIPLGKNVVVK-WQGKPV   86 (185)
T ss_dssp             TCTTHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHTTSCC---GGGCC----CCCEEEE--GGGCCTTCEEEEE-ETTEEE
T ss_pred             CCCccHHHHHHHHHHHHHHHHHHHHHHHHHHHhhCcCCC---cchhc----cCcEEEE--HHHCCCCCeEEEE-ECCeEE
Confidence            468999999999999998888888888888777775332   12233    2233331  4555677765443 455555


Q ss_pred             eeee
Q 031683          140 FFEN  143 (155)
Q Consensus       140 YLi~  143 (155)
                      ++++
T Consensus        87 ~v~r   90 (185)
T 3cx5_E           87 FIRH   90 (185)
T ss_dssp             EEEE
T ss_pred             EEEE
Confidence            5554

>1pp9_E Ubiquinol-cytochrome C reductase iron-sulfur SUBU mitochondrial; cytochrome BC1, membrane protein, heme protein, rieske iron protein, cytochrome B, complex III; HET: BHG HEM HEC SMA UQ CDL PEE; 2.10A {Bos taurus} SCOP: b.33.1.1 f.23.12.1 PDB: 1bgy_E* 1be3_E* 1l0n_E* 1ntk_E* 1ntm_E* 1ntz_E* 1nu1_E* 1l0l_E* 1ppj_E* 1qcr_E* 1sqb_E* 1sqp_E* 1sqq_E* 1sqv_E* 1sqx_E* 2a06_E* 2fyu_E* 2ybb_E* 1bcc_E* 2bcc_E* ...

Probab=94.34  E-value=0.0019  Score=51.08  Aligned_cols=36  Identities=3%  Similarity=-0.000  Sum_probs=25.7

Q ss_pred             CCCchhHHHHHHHhhhccccccc---eeccceEEEeecC
Q 031683           60 VPDMGKRQLMNLLLLGAVSLPTG---FMLVPYATFFAPP   95 (155)
Q Consensus        60 vPDM~RRqlMNlLl~Gava~~a~---g~LyP~v~fFVPP   95 (155)
                      -.|++||.||++++++++++.++   .+++|++.++-|.
T Consensus        27 ~~~~~RR~fl~~~~~~~~~~~~~~~~~~~~~~~~~~~p~   65 (196)
T 1pp9_E           27 ESSEARKGFSYLVTATTTVGVAYAAKNVVSQFVSSMSAS   65 (196)
T ss_dssp             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHSCC
T ss_pred             cCCchHHHHHHHHHHHHHHHHHHHHHHHHHHHhhccCCC
Confidence            34789999999998876664444   4677777766553

---

Homologous Structure Domains

Structure Domains Detected by RPS-BLAST

Original result of RPS-BLAST against SCOP70(version1.75) database

ID	Length	Definition	E-value
Query	155
d1q90r_	39	f.23.12.1 (R:) ISP subunit from the cytochrome b6f	5e-17
d2e74d1	134	b.33.1.1 (D:46-179) ISP subunit from the cytochrom	5e-11
d1rfsa_	127	b.33.1.1 (A:) ISP subunit from chloroplast cytochr	5e-09
d2e74d2	34	f.23.12.1 (D:12-45) ISP subunit from the cytochrom	6e-05

>d1q90r_ f.23.12.1 (R:) ISP subunit from the cytochrome b6f complex, transmembrane anchor {Chlamydomonas reinhardtii [TaxId: 3055]} Length = 39

class: Membrane and cell surface proteins and peptides
fold: Single transmembrane helix
superfamily: ISP transmembrane anchor
family: ISP transmembrane anchor
domain: ISP subunit from the cytochrome b6f complex, transmembrane anchor
species: Chlamydomonas reinhardtii [TaxId: 3055]

 Score = 67.9 bits (166), Expect = 5e-17
 Identities = 18/39 (46%), Positives = 23/39 (58%)

Query: 57 ADRVPDMGKRQLMNLLLLGAVSLPTGFMLVPYATFFAPP 95
          +  VPDM KR +MNL+L G   LP   + + Y  FF PP
Sbjct: 1  SSEVPDMNKRNIMNLILAGGAGLPITTLALGYGAFFVPP 39

>d2e74d1 b.33.1.1 (D:46-179) ISP subunit from the cytochrome b6f complex, soluble domain {Mastigocladus laminosus [TaxId: 83541]} Length = 134

class: All beta proteins
fold: ISP domain
superfamily: ISP domain
family: Rieske iron-sulfur protein (ISP)
domain: ISP subunit from the cytochrome b6f complex, soluble domain
species: Mastigocladus laminosus [TaxId: 83541]

 Score = 54.7 bits (131), Expect = 5e-11
 Identities = 19/37 (51%), Positives = 27/37 (72%)

Query: 98  GSAGGGTTAKDAIGNDIIAADWLNTHGPGDRTLTEGL 134
           G+ GGGTTAKD +GN++  + +L +H  GDR L +GL
Sbjct: 3   GAVGGGTTAKDKLGNNVKVSKFLESHNAGDRVLVQGL 39

>d1rfsa_ b.33.1.1 (A:) ISP subunit from chloroplast cytochrome bf complex {Spinach (Spinacia oleracea) [TaxId: 3562]} Length = 127

class: All beta proteins
fold: ISP domain
superfamily: ISP domain
family: Rieske iron-sulfur protein (ISP)
domain: ISP subunit from chloroplast cytochrome bf complex
species: Spinach (Spinacia oleracea) [TaxId: 3562]

 Score = 49.3 bits (117), Expect = 5e-09
 Identities = 25/32 (78%), Positives = 29/32 (90%)

Query: 104 TTAKDAIGNDIIAADWLNTHGPGDRTLTEGLK 135
           T AKDA+GND+IAA+WL TH PGDRTLT+GLK
Sbjct: 1   TIAKDALGNDVIAAEWLKTHAPGDRTLTQGLK 32

>d2e74d2 f.23.12.1 (D:12-45) ISP subunit from the cytochrome b6f complex, transmembrane anchor {Mastigocladus laminosus [TaxId: 83541]} Length = 34

class: Membrane and cell surface proteins and peptides
fold: Single transmembrane helix
superfamily: ISP transmembrane anchor
family: ISP transmembrane anchor
domain: ISP subunit from the cytochrome b6f complex, transmembrane anchor
species: Mastigocladus laminosus [TaxId: 83541]

 Score = 36.4 bits (84), Expect = 6e-05
 Identities = 16/34 (47%), Positives = 19/34 (55%)

Query: 62 DMGKRQLMNLLLLGAVSLPTGFMLVPYATFFAPP 95
          DMG+RQ MNLL  G V+      L P   +F PP
Sbjct: 1  DMGRRQFMNLLAFGTVTGVALGALYPLVKYFIPP 34

Homologous Domains Detected by HHsearch

Original result of HHsearch against SCOP70(version1.75) database

ID	Length	Definition	Probability
Query	155
d1q90r_	39	ISP subunit from the cytochrome b6f complex, trans	99.83
d2e74d2	34	ISP subunit from the cytochrome b6f complex, trans	99.67
d2e74d1	134	ISP subunit from the cytochrome b6f complex, solub	98.72
d1rfsa_	127	ISP subunit from chloroplast cytochrome bf complex	98.52

>d1q90r_ f.23.12.1 (R:) ISP subunit from the cytochrome b6f complex, transmembrane anchor {Chlamydomonas reinhardtii [TaxId: 3055]}

class: Membrane and cell surface proteins and peptides
fold: Single transmembrane helix
superfamily: ISP transmembrane anchor
family: ISP transmembrane anchor
domain: ISP subunit from the cytochrome b6f complex, transmembrane anchor
species: Chlamydomonas reinhardtii [TaxId: 3055]

Probab=99.83  E-value=4.9e-23  Score=130.72  Aligned_cols=39  Identities=46%  Similarity=0.912  Sum_probs=37.9

Q ss_pred             CCCCCCchhHHHHHHHhhhccccccceeccceEEEeecC
Q 031683           57 ADRVPDMGKRQLMNLLLLGAVSLPTGFMLVPYATFFAPP   95 (155)
Q Consensus        57 ~~~vPDM~RRqlMNlLl~Gava~~a~g~LyP~v~fFVPP   95 (155)
                      ++|||||+||||||||++|++++++++++|||++|||||
T Consensus         1 s~~VpDMgrR~~MNLll~G~~~~~~~g~l~py~~fFvPP   39 (39)
T d1q90r_           1 SSEVPDMNKRNIMNLILAGGAGLPITTLALGYGAFFVPP   39 (39)
T ss_dssp             CCCCCCHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHSCC
T ss_pred             CCcccchhHHHHHHHHHHhccchhhhhhccceeEEecCC
Confidence            479999999999999999999999999999999999998

>d2e74d2 f.23.12.1 (D:12-45) ISP subunit from the cytochrome b6f complex, transmembrane anchor {Mastigocladus laminosus [TaxId: 83541]}

class: Membrane and cell surface proteins and peptides
fold: Single transmembrane helix
superfamily: ISP transmembrane anchor
family: ISP transmembrane anchor
domain: ISP subunit from the cytochrome b6f complex, transmembrane anchor
species: Mastigocladus laminosus [TaxId: 83541]

Probab=99.67  E-value=5.3e-19  Score=108.90  Aligned_cols=34  Identities=47%  Similarity=0.765  Sum_probs=33.6

Q ss_pred             CchhHHHHHHHhhhccccccceeccceEEEeecC
Q 031683           62 DMGKRQLMNLLLLGAVSLPTGFMLVPYATFFAPP   95 (155)
Q Consensus        62 DM~RRqlMNlLl~Gava~~a~g~LyP~v~fFVPP   95 (155)
                      ||+||||||+|++|+++++++|+|||+++|||||
T Consensus         1 dmgrrqfmnlltfgt~tg~alg~lypvvkyfipp   34 (34)
T d2e74d2           1 DMGRRQFMNLLAFGTVTGVALGALYPLVKYFIPP   34 (34)
T ss_dssp             CHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHSCC
T ss_pred             CccHHHHHHHHHHhhHHHHHHhhhhhHHhhcCCC
Confidence            8999999999999999999999999999999998

>d2e74d1 b.33.1.1 (D:46-179) ISP subunit from the cytochrome b6f complex, soluble domain {Mastigocladus laminosus [TaxId: 83541]}

class: All beta proteins
fold: ISP domain
superfamily: ISP domain
family: Rieske iron-sulfur protein (ISP)
domain: ISP subunit from the cytochrome b6f complex, soluble domain
species: Mastigocladus laminosus [TaxId: 83541]

Probab=98.72  E-value=2.1e-09  Score=78.73  Aligned_cols=47  Identities=43%  Similarity=0.751  Sum_probs=43.8

Q ss_pred             CCCCCCccccccccCCcchhhhhhccCCCCCchhhcccCCCceeeee
Q 031683           97 LGSAGGGTTAKDAIGNDIIAADWLNTHGPGDRTLTEGLKVQINFFEN  143 (155)
Q Consensus        97 sgGggGGv~AKDalGNdI~as~wL~th~pGdR~LvqGLKGDpTYLi~  143 (155)
                      .|..|||++|||++||+|.+++|++.+++|+|.|++++.|||.+++-
T Consensus         2 g~~~g~g~~a~d~~G~~v~~~~~~~~~~~g~~~l~~~~~g~~~~~~v   48 (134)
T d2e74d1           2 GGAVGGGTTAKDKLGNNVKVSKFLESHNAGDRVLVQGLKGDPTYIVV   48 (134)
T ss_dssp             SCSSCSCCBCCCTTSCCCCHHHHHHSSCSTTCEEEECGGGCEEEEC-
T ss_pred             CcccCCceEecccCCCcceecccccccCCCceEeeeecCCCceEEEE
Confidence            46778999999999999999999999999999999999999999873

>d1rfsa_ b.33.1.1 (A:) ISP subunit from chloroplast cytochrome bf complex {Spinach (Spinacia oleracea) [TaxId: 3562]}

class: All beta proteins
fold: ISP domain
superfamily: ISP domain
family: Rieske iron-sulfur protein (ISP)
domain: ISP subunit from chloroplast cytochrome bf complex
species: Spinach (Spinacia oleracea) [TaxId: 3562]

Probab=98.52  E-value=1.3e-08  Score=74.17  Aligned_cols=39  Identities=64%  Similarity=1.058  Sum_probs=37.2

Q ss_pred             cccccccCCcchhhhhhccCCCCCchhhcccCCCceeee
Q 031683          104 TTAKDAIGNDIIAADWLNTHGPGDRTLTEGLKVQINFFE  142 (155)
Q Consensus       104 v~AKDalGNdI~as~wL~th~pGdR~LvqGLKGDpTYLi  142 (155)
                      .+|||++||||.+++||+.+++|+|.|+++++||+..|+
T Consensus         1 ~~a~d~~gndi~~~~wl~~~~~G~~~l~~~~~g~~~~lv   39 (127)
T d1rfsa_           1 TIAKDALGNDVIAAEWLKTHAPGDRTLTQGLKGDPTYLV   39 (127)
T ss_dssp             CBCBCTTSCBCBHHHHHHHSCTTCEEEEECGGGCEEEEE
T ss_pred             CccccccCCcceecceecccCCCcceeeeeecCCceEEE
Confidence            479999999999999999999999999999999998877