Citrus Sinensis ID: 035149

---

Local Sequence Feature Prediction

Residue Number Marker
--------10--------20--------30--------40--------50--------60--------70--
Protein Sequence
MAADEIELKTAPADFRFPTTNQTRHCFTRYIEFHRCLAAKGEESNECERFAKYYRSLCPGDWVSILQFFECC
Secondary Structure (PSIPRED)
cccccccccccccccccccccHHHHHHHHHHHHHHHHHHHccccHHHHHHHHHHHHcccHHHHHHHcHHHHc
Secondary Structure Prediction (SSPRO)
cccccccEccccccccccccEcHHHHHHHHHHHHHHHHHcccccHHHHHHHHHHHHcccHHHHHHHHHHccc
Coil and Loop (DISEMBL)
maadeielktapadfrfpttnqtrhCFTRYIEFHRClaakgeesnECERFAKYYRSLCPGDWVSILQFFECC
Flexible Loop (DISEMBL)
maadeielktapadfrfpttnqTRHCFTRYIEFHRCLAAKGEESNECERFAKYYRSLCPGDWVSILQFFECC
Low Complexity Region (SEG)
MAADEIELKTAPADFRFPTTNQTRHCFTRYIEFHRCLAAKGEESNECERFAKYYRSLCPGDWVSILQFFECC
Disordered region (IsUnstruct)
**************FRFPTTNQTRHCFTRYIEFHRCLAAKGEESNECERFAKYYRSLCPGDWVSILQFFEC*
Disordered Region (DISOPRED)
*****IE*KTAPADFRFPTTNQTRHCFTRYIEFHRCLAAKGEESNECERFAKYYRSLCPGDWVSILQFFECC
Disordered Region (DISEMBL)
MAADEIELKTAPADFRFPTTNQTRHCFTRYIEFHRCLAAKGEESNECERFAKYYRSLCPGDWVSILQFFECC
Disordered Region (DISPRO)
*****IELKTAPADFRFPTTNQTRHCFTRYIEFHRCLAAKGEESNECERFAKYYRSLCPGDWVSILQFFECC
Transmembrane Helix (TMHMM)
oooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooo
Transmembrane Helix (HMMTOP)
oooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooo
Transmembrane Helix (MEMSAT)
oooooooooooooooooooooooooohhhhhhhhhhhhhhhhhhhiiiiiiiiiiiiiiiiiiiiiiiiiii
TM Helix, Signal Peptide (MEMSAT_SVM)
oooooooooooooooooooooooooooooooooooooooooooooooooooohhhhhhhhhhhhhhhhiiii
TM Helix, Signal Peptide (Phobius)
oooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooo
Signal Peptide (SignalP HMM Mode)
xxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxx
Signal Peptide (SignalP NN Mode)
xxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxx
Coiled Coils (COILS)
MAADEIELKTAPADFRFPTTNQTRHCFTRYIEFHRCLAAKGEESNECERFAKYYRSLCPGDWVSILQFFECC
Positional Conservation
no confident homologs detected

---

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	72	2.2.26 [Sep-21-2011]
Q945L0	78	Cytochrome c oxidase subu	yes	no	0.847	0.782	0.901	1e-27
Q9SUD3	78	Cytochrome c oxidase subu	no	no	0.847	0.782	0.885	3e-27
Q9S7L9	191	Cytochrome c oxidase subu	no	no	0.833	0.314	0.766	2e-25
Q7YRK6	86	Cytochrome c oxidase subu	N/A	no	0.777	0.651	0.525	1e-11
P14854	86	Cytochrome c oxidase subu	yes	no	0.777	0.651	0.508	2e-11
Q53CG4	87	Cytochrome c oxidase subu	yes	no	0.888	0.735	0.458	2e-11
Q4R374	87	Cytochrome c oxidase subu	N/A	no	0.888	0.735	0.458	2e-11
Q5RCT0	86	Cytochrome c oxidase subu	yes	no	0.777	0.651	0.508	2e-11
P56391	86	Cytochrome c oxidase subu	yes	no	0.777	0.651	0.508	2e-11
O94581	86	Cytochrome c oxidase subu	yes	no	0.861	0.720	0.483	2e-11

>sp|Q945L0|CX6B2_ARATH Cytochrome c oxidase subunit 6b-2 OS=Arabidopsis thaliana GN=COX6B-2 PE=2 SV=1

 Score =  121 bits (304), Expect = 1e-27,   Method: Compositional matrix adjust.
 Identities = 55/61 (90%), Positives = 58/61 (95%)

Query: 4  DEIELKTAPADFRFPTTNQTRHCFTRYIEFHRCLAAKGEESNECERFAKYYRSLCPGDWV 63
          DEIELKTAPADFRFPTTNQTRHCFTRYIEFHRC  AKGEESN+CERFAKYYR+LCPG+WV
Sbjct: 3  DEIELKTAPADFRFPTTNQTRHCFTRYIEFHRCTTAKGEESNDCERFAKYYRALCPGEWV 62

Query: 64 S 64
           
Sbjct: 63 D 63

This protein is one of the nuclear-coded polypeptide chains of cytochrome c oxidase, the terminal oxidase in mitochondrial electron transport. This protein may be one of the heme-binding subunits of the oxidase.
Arabidopsis thaliana (taxid: 3702)

>sp|Q9SUD3|CX6B3_ARATH Cytochrome c oxidase subunit 6b-3 OS=Arabidopsis thaliana GN=COX6B-3 PE=2 SV=2

 Score =  120 bits (300), Expect = 3e-27,   Method: Compositional matrix adjust.
 Identities = 54/61 (88%), Positives = 58/61 (95%)

Query: 4  DEIELKTAPADFRFPTTNQTRHCFTRYIEFHRCLAAKGEESNECERFAKYYRSLCPGDWV 63
          DEIELKTAPADFRFPTTNQTRHCFTRYIEFHRC  AKGE++NECERFAKYYR+LCPG+WV
Sbjct: 3  DEIELKTAPADFRFPTTNQTRHCFTRYIEFHRCTTAKGEDANECERFAKYYRALCPGEWV 62

Query: 64 S 64
           
Sbjct: 63 D 63

This protein is one of the nuclear-coded polypeptide chains of cytochrome c oxidase, the terminal oxidase in mitochondrial electron transport. This protein may be one of the heme-binding subunits of the oxidase.

Arabidopsis thaliana (taxid: 3702)

>sp|Q9S7L9|CX6B1_ARATH Cytochrome c oxidase subunit 6b-1 OS=Arabidopsis thaliana GN=COX6B-1 PE=2 SV=1

 Score =  114 bits (284), Expect = 2e-25,   Method: Compositional matrix adjust.
 Identities = 46/60 (76%), Positives = 58/60 (96%)

Query: 4   DEIELKTAPADFRFPTTNQTRHCFTRYIEFHRCLAAKGEESNECERFAKYYRSLCPGDWV 63
           DEI+L+TAPADFRFPTTNQTRHCFTRY+E+HRC+AAKG+++ EC++FAK+YRSLCP +WV
Sbjct: 115 DEIKLETAPADFRFPTTNQTRHCFTRYVEYHRCVAAKGDDAPECDKFAKFYRSLCPSEWV 174

This protein is one of the nuclear-coded polypeptide chains of cytochrome c oxidase, the terminal oxidase in mitochondrial electron transport. This protein may be one of the heme-binding subunits of the oxidase.

Arabidopsis thaliana (taxid: 3702)

>sp|Q7YRK6|CX6B1_TARSY Cytochrome c oxidase subunit 6B1 OS=Tarsius syrichta GN=COX6B1 PE=3 SV=3

 Score = 68.6 bits (166), Expect = 1e-11,   Method: Compositional matrix adjust.
 Identities = 31/59 (52%), Positives = 41/59 (69%), Gaps = 3/59 (5%)

Query: 9  KTAPADFRFPTTNQTRHCFTRYIEFHRC---LAAKGEESNECERFAKYYRSLCPGDWVS 64
          KTAP D RFP  NQTR+C+  Y++FHRC   + AKG + + CE + + Y+SLCP  WVS
Sbjct: 13 KTAPFDSRFPNQNQTRNCWQNYLDFHRCEKAMTAKGGDVSVCEWYRRVYKSLCPISWVS 71

This protein is one of the nuclear-coded polypeptide chains of cytochrome c oxidase, the terminal oxidase in mitochondrial electron transport. This protein may be one of the heme-binding subunits of the oxidase.

Tarsius syrichta (taxid: 9478)

>sp|P14854|CX6B1_HUMAN Cytochrome c oxidase subunit 6B1 OS=Homo sapiens GN=COX6B1 PE=1 SV=2

 Score = 67.8 bits (164), Expect = 2e-11,   Method: Compositional matrix adjust.
 Identities = 30/59 (50%), Positives = 41/59 (69%), Gaps = 3/59 (5%)

Query: 9  KTAPADFRFPTTNQTRHCFTRYIEFHRC---LAAKGEESNECERFAKYYRSLCPGDWVS 64
          KTAP D RFP  NQTR+C+  Y++FHRC   + AKG + + CE + + Y+SLCP  WV+
Sbjct: 13 KTAPFDSRFPNQNQTRNCWQNYLDFHRCQKAMTAKGGDISVCEWYQRVYQSLCPTSWVT 71

Connects the two COX monomers into the physiological dimeric form.

Homo sapiens (taxid: 9606)

>sp|Q53CG4|CX6B1_MACMU Cytochrome c oxidase subunit 6B1 OS=Macaca mulatta GN=COX6B1 PE=3 SV=3

 Score = 67.8 bits (164), Expect = 2e-11,   Method: Compositional matrix adjust.
 Identities = 33/72 (45%), Positives = 45/72 (62%), Gaps = 8/72 (11%)

Query: 1  MAADEIELK-----TAPADFRFPTTNQTRHCFTRYIEFHRC---LAAKGEESNECERFAK 52
          MA ++IE K     TAP D RFP  NQTR+C+  Y++FHRC   +  KG   + CE + +
Sbjct: 1  MAEEDIETKIKNYKTAPFDSRFPNQNQTRNCWQNYLDFHRCQKAMTTKGGNVSVCEWYQR 60

Query: 53 YYRSLCPGDWVS 64
           Y+SLCP  WV+
Sbjct: 61 VYQSLCPTSWVT 72

Connects the two COX monomers into the physiological dimeric form.

Macaca mulatta (taxid: 9544)

>sp|Q4R374|CX6B1_MACFA Cytochrome c oxidase subunit 6B1 OS=Macaca fascicularis GN=COX6B1 PE=3 SV=3

 Score = 67.8 bits (164), Expect = 2e-11,   Method: Compositional matrix adjust.
 Identities = 33/72 (45%), Positives = 45/72 (62%), Gaps = 8/72 (11%)

Query: 1  MAADEIELK-----TAPADFRFPTTNQTRHCFTRYIEFHRC---LAAKGEESNECERFAK 52
          MA ++IE K     TAP D RFP  NQTR+C+  Y++FHRC   +  KG   + CE + +
Sbjct: 1  MAEEDIETKIKNYKTAPFDSRFPNQNQTRNCWQNYLDFHRCQKAMTTKGGNVSVCEWYQR 60

Query: 53 YYRSLCPGDWVS 64
           Y+SLCP  WV+
Sbjct: 61 VYQSLCPTSWVT 72

Connects the two COX monomers into the physiological dimeric form.

Macaca fascicularis (taxid: 9541)

>sp|Q5RCT0|CX6B1_PONAB Cytochrome c oxidase subunit 6B1 OS=Pongo abelii GN=COX6B1 PE=3 SV=3

 Score = 67.8 bits (164), Expect = 2e-11,   Method: Compositional matrix adjust.
 Identities = 30/59 (50%), Positives = 41/59 (69%), Gaps = 3/59 (5%)

Query: 9  KTAPADFRFPTTNQTRHCFTRYIEFHRC---LAAKGEESNECERFAKYYRSLCPGDWVS 64
          KTAP D RFP  NQTR+C+  Y++FHRC   + AKG + + CE + + Y+SLCP  WV+
Sbjct: 13 KTAPFDSRFPNQNQTRNCWQNYLDFHRCQKAMTAKGGDISVCEWYQRVYQSLCPTSWVT 71

Connects the two COX monomers into the physiological dimeric form.

Pongo abelii (taxid: 9601)

>sp|P56391|CX6B1_MOUSE Cytochrome c oxidase subunit 6B1 OS=Mus musculus GN=Cox6b1 PE=1 SV=2

 Score = 67.8 bits (164), Expect = 2e-11,   Method: Compositional matrix adjust.
 Identities = 30/59 (50%), Positives = 41/59 (69%), Gaps = 3/59 (5%)

Query: 9  KTAPADFRFPTTNQTRHCFTRYIEFHRC---LAAKGEESNECERFAKYYRSLCPGDWVS 64
          KTAP D RFP  NQT++C+  Y++FHRC   + AKG + + CE + + Y+SLCP  WVS
Sbjct: 13 KTAPFDSRFPNQNQTKNCWQNYLDFHRCEKAMTAKGGDVSVCEWYRRVYKSLCPVSWVS 71

Connects the two COX monomers into the physiological dimeric form.

Mus musculus (taxid: 10090)

>sp|O94581|COX12_SCHPO Cytochrome c oxidase subunit 6B OS=Schizosaccharomyces pombe (strain 972 / ATCC 24843) GN=cox12 PE=3 SV=2

 Score = 67.4 bits (163), Expect = 2e-11,   Method: Compositional matrix adjust.
 Identities = 30/62 (48%), Positives = 40/62 (64%)

Query: 2  AADEIELKTAPADFRFPTTNQTRHCFTRYIEFHRCLAAKGEESNECERFAKYYRSLCPGD 61
          A  +    T   D RFP TNQT+HCF  YI++ RC+ AKGE+   C++F   Y+SLCP +
Sbjct: 9  APKQFTFGTVGFDARFPNTNQTKHCFQSYIDYFRCIKAKGEDFVPCKQFWHAYQSLCPME 68

Query: 62 WV 63
          WV
Sbjct: 69 WV 70

This protein is one of the nuclear-coded polypeptide chains of cytochrome c oxidase, the terminal oxidase in mitochondrial electron transport. This protein may be one of the heme-binding subunits of the oxidase.

Schizosaccharomyces pombe (strain 972 / ATCC 24843) (taxid: 284812)

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	72
255574605	78	cytochrome C oxidase polypeptide vib, pu	0.847	0.782	0.918	3e-26
297799172	78	hypothetical protein ARALYDRAFT_913717 [	0.847	0.782	0.901	5e-26
18424030	78	cytochrome c oxidase subunit VIb [Arabid	0.847	0.782	0.901	5e-26
356547849	77	PREDICTED: cytochrome c oxidase subunit	0.819	0.766	0.949	6e-26
356562523	77	PREDICTED: cytochrome c oxidase subunit	0.819	0.766	0.949	7e-26
449453930	77	PREDICTED: cytochrome c oxidase subunit	0.847	0.792	0.901	7e-26
334186988	78	cytochrome c oxidase, subunit 6b [Arabid	0.847	0.782	0.885	1e-25
21592329	78	cytochrome c oxidase subunit 6b [Arabido	0.847	0.782	0.885	1e-25
388500960	77	unknown [Lotus japonicus]	0.819	0.766	0.932	1e-25
255633956	77	unknown [Glycine max]	0.819	0.766	0.932	2e-25

>gi|255574605|ref|XP_002528213.1| cytochrome C oxidase polypeptide vib, putative [Ricinus communis] gi|223532374|gb|EEF34170.1| cytochrome C oxidase polypeptide vib, putative [Ricinus communis]

 Score =  122 bits (306), Expect = 3e-26,   Method: Compositional matrix adjust.
 Identities = 56/61 (91%), Positives = 59/61 (96%)

Query: 3  ADEIELKTAPADFRFPTTNQTRHCFTRYIEFHRCLAAKGEESNECERFAKYYRSLCPGDW 62
          ADEIELKTAPADFRFPTTNQTRHCFTRYIEFHRCLAAKGEE  EC+RFAKYYR+LCPG+W
Sbjct: 2  ADEIELKTAPADFRFPTTNQTRHCFTRYIEFHRCLAAKGEEPKECDRFAKYYRALCPGEW 61

Query: 63 V 63
          V
Sbjct: 62 V 62

Source: Ricinus communis

Species: Ricinus communis

Genus: Ricinus

Family: Euphorbiaceae

Order: Malpighiales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|297799172|ref|XP_002867470.1| hypothetical protein ARALYDRAFT_913717 [Arabidopsis lyrata subsp. lyrata] gi|297313306|gb|EFH43729.1| hypothetical protein ARALYDRAFT_913717 [Arabidopsis lyrata subsp. lyrata]

 Score =  121 bits (304), Expect = 5e-26,   Method: Compositional matrix adjust.
 Identities = 55/61 (90%), Positives = 58/61 (95%)

Query: 4  DEIELKTAPADFRFPTTNQTRHCFTRYIEFHRCLAAKGEESNECERFAKYYRSLCPGDWV 63
          DEIELKTAPADFRFPTTNQTRHCFTRYIEFHRC  AKGE+SNECERFAKYYR+LCPG+WV
Sbjct: 3  DEIELKTAPADFRFPTTNQTRHCFTRYIEFHRCTTAKGEDSNECERFAKYYRALCPGEWV 62

Query: 64 S 64
           
Sbjct: 63 D 63

Source: Arabidopsis lyrata subsp. lyrata

Species: Arabidopsis lyrata

Genus: Arabidopsis

Family: Brassicaceae

Order: Brassicales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|18424030|ref|NP_568867.1| cytochrome c oxidase subunit VIb [Arabidopsis thaliana] gi|75164320|sp|Q945L0.1|CX6B2_ARATH RecName: Full=Cytochrome c oxidase subunit 6b-2; Short=AtCOX6b-2 gi|15724312|gb|AAL06549.1|AF412096_1 AT4g28060/T13J8_170 [Arabidopsis thaliana] gi|21360507|gb|AAM47369.1| AT4g28060/T13J8_170 [Arabidopsis thaliana] gi|26450389|dbj|BAC42309.1| unknown protein [Arabidopsis thaliana] gi|110736679|dbj|BAF00303.1| hypothetical protein [Arabidopsis thaliana] gi|332009572|gb|AED96955.1| cytochrome c oxidase subunit VIb [Arabidopsis thaliana]

 Score =  121 bits (304), Expect = 5e-26,   Method: Compositional matrix adjust.
 Identities = 55/61 (90%), Positives = 58/61 (95%)

Query: 4  DEIELKTAPADFRFPTTNQTRHCFTRYIEFHRCLAAKGEESNECERFAKYYRSLCPGDWV 63
          DEIELKTAPADFRFPTTNQTRHCFTRYIEFHRC  AKGEESN+CERFAKYYR+LCPG+WV
Sbjct: 3  DEIELKTAPADFRFPTTNQTRHCFTRYIEFHRCTTAKGEESNDCERFAKYYRALCPGEWV 62

Query: 64 S 64
           
Sbjct: 63 D 63

Source: Arabidopsis thaliana

Species: Arabidopsis thaliana

Genus: Arabidopsis

Family: Brassicaceae

Order: Brassicales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|356547849|ref|XP_003542317.1| PREDICTED: cytochrome c oxidase subunit 6b-2-like [Glycine max]

 Score =  121 bits (303), Expect = 6e-26,   Method: Compositional matrix adjust.
 Identities = 56/59 (94%), Positives = 57/59 (96%)

Query: 5  EIELKTAPADFRFPTTNQTRHCFTRYIEFHRCLAAKGEESNECERFAKYYRSLCPGDWV 63
          EIELKTAPADFRFPTTNQTRHCFTRYIEFHRCLAAKGE S ECERFAKYYRSLCPG+WV
Sbjct: 3  EIELKTAPADFRFPTTNQTRHCFTRYIEFHRCLAAKGENSGECERFAKYYRSLCPGEWV 61

Source: Glycine max

Species: Glycine max

Genus: Glycine

Family: Fabaceae

Order: Fabales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|356562523|ref|XP_003549519.1| PREDICTED: cytochrome c oxidase subunit 6b-1-like [Glycine max]

 Score =  120 bits (302), Expect = 7e-26,   Method: Compositional matrix adjust.
 Identities = 56/59 (94%), Positives = 57/59 (96%)

Query: 5  EIELKTAPADFRFPTTNQTRHCFTRYIEFHRCLAAKGEESNECERFAKYYRSLCPGDWV 63
          EIELKTAPADFRFPTTNQTRHCFTRYIEFHRCLAAKGE S ECERFAKYYRSLCPG+WV
Sbjct: 3  EIELKTAPADFRFPTTNQTRHCFTRYIEFHRCLAAKGENSGECERFAKYYRSLCPGEWV 61

Source: Glycine max

Species: Glycine max

Genus: Glycine

Family: Fabaceae

Order: Fabales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|449453930|ref|XP_004144709.1| PREDICTED: cytochrome c oxidase subunit 6b-2-like isoform 2 [Cucumis sativus] gi|449453932|ref|XP_004144710.1| PREDICTED: cytochrome c oxidase subunit 6b-2-like isoform 3 [Cucumis sativus] gi|449506250|ref|XP_004162693.1| PREDICTED: cytochrome c oxidase subunit 6b-2-like isoform 2 [Cucumis sativus] gi|449506253|ref|XP_004162694.1| PREDICTED: cytochrome c oxidase subunit 6b-2-like isoform 3 [Cucumis sativus]

 Score =  120 bits (302), Expect = 7e-26,   Method: Compositional matrix adjust.
 Identities = 55/61 (90%), Positives = 57/61 (93%)

Query: 4  DEIELKTAPADFRFPTTNQTRHCFTRYIEFHRCLAAKGEESNECERFAKYYRSLCPGDWV 63
          DEIELKTAPADFRFPTTNQTRHCFTRYIEFHRCL  KGEES ECERFAKYYR+LCPG+WV
Sbjct: 2  DEIELKTAPADFRFPTTNQTRHCFTRYIEFHRCLTVKGEESGECERFAKYYRALCPGEWV 61

Query: 64 S 64
           
Sbjct: 62 D 62

Source: Cucumis sativus

Species: Cucumis sativus

Genus: Cucumis

Family: Cucurbitaceae

Order: Cucurbitales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|334186988|ref|NP_194535.2| cytochrome c oxidase, subunit 6b [Arabidopsis thaliana] gi|347602491|sp|Q9SUD3.2|CX6B3_ARATH RecName: Full=Cytochrome c oxidase subunit 6b-3; Short=AtCOX6b-3 gi|332660032|gb|AEE85432.1| cytochrome c oxidase, subunit 6b [Arabidopsis thaliana]

 Score =  120 bits (300), Expect = 1e-25,   Method: Compositional matrix adjust.
 Identities = 54/61 (88%), Positives = 58/61 (95%)

Query: 4  DEIELKTAPADFRFPTTNQTRHCFTRYIEFHRCLAAKGEESNECERFAKYYRSLCPGDWV 63
          DEIELKTAPADFRFPTTNQTRHCFTRYIEFHRC  AKGE++NECERFAKYYR+LCPG+WV
Sbjct: 3  DEIELKTAPADFRFPTTNQTRHCFTRYIEFHRCTTAKGEDANECERFAKYYRALCPGEWV 62

Query: 64 S 64
           
Sbjct: 63 D 63

Source: Arabidopsis thaliana

Species: Arabidopsis thaliana

Genus: Arabidopsis

Family: Brassicaceae

Order: Brassicales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|21592329|gb|AAM64280.1| cytochrome c oxidase subunit 6b [Arabidopsis thaliana]

 Score =  120 bits (300), Expect = 1e-25,   Method: Compositional matrix adjust.
 Identities = 54/61 (88%), Positives = 58/61 (95%)

Query: 4  DEIELKTAPADFRFPTTNQTRHCFTRYIEFHRCLAAKGEESNECERFAKYYRSLCPGDWV 63
          DEIELKTAPADFRFPTTNQTRHCFTRYI+FHRC  AKGEESN+CERFAKYYR+LCPG+WV
Sbjct: 3  DEIELKTAPADFRFPTTNQTRHCFTRYIKFHRCTTAKGEESNDCERFAKYYRALCPGEWV 62

Query: 64 S 64
           
Sbjct: 63 D 63

Source: Arabidopsis thaliana

Species: Arabidopsis thaliana

Genus: Arabidopsis

Family: Brassicaceae

Order: Brassicales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|388500960|gb|AFK38546.1| unknown [Lotus japonicus]

 Score =  120 bits (300), Expect = 1e-25,   Method: Compositional matrix adjust.
 Identities = 55/59 (93%), Positives = 56/59 (94%)

Query: 5  EIELKTAPADFRFPTTNQTRHCFTRYIEFHRCLAAKGEESNECERFAKYYRSLCPGDWV 63
          EIELKTAP DFRFPTTNQTRHCFTRYIEFHRCLA KGEES ECERFAKYYRSLCPG+WV
Sbjct: 3  EIELKTAPVDFRFPTTNQTRHCFTRYIEFHRCLAVKGEESGECERFAKYYRSLCPGEWV 61

Source: Lotus japonicus

Species: Lotus japonicus

Genus: Lotus

Family: Fabaceae

Order: Fabales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|255633956|gb|ACU17340.1| unknown [Glycine max]

 Score =  119 bits (299), Expect = 2e-25,   Method: Compositional matrix adjust.
 Identities = 55/59 (93%), Positives = 56/59 (94%)

Query: 5  EIELKTAPADFRFPTTNQTRHCFTRYIEFHRCLAAKGEESNECERFAKYYRSLCPGDWV 63
          EIELKTAPADFRFPTTNQTRHCFTRYIEFHRCL AKGE S ECERFAKYYRSLCPG+WV
Sbjct: 3  EIELKTAPADFRFPTTNQTRHCFTRYIEFHRCLVAKGENSGECERFAKYYRSLCPGEWV 61

Source: Glycine max

Species: Glycine max

Genus: Glycine

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	72
TAIR|locus:505006698	78	AT5G57815 [Arabidopsis thalian	0.833	0.769	0.916	9.1e-29
TAIR|locus:2009497	191	COX6B "cytochrome C oxidase 6B	0.833	0.314	0.766	2.9e-25
ZFIN|ZDB-GENE-040426-1566	86	cox6b2 "cytochrome c oxidase s	0.763	0.639	0.517	3.8e-14
FB|FBgn0031066	96	CoVIb "Cytochrome c oxidase su	0.791	0.593	0.508	4.4e-13
UNIPROTKB|P14854	86	COX6B1 "Cytochrome c oxidase s	0.777	0.651	0.508	5.6e-13
MGI|MGI:107460	86	Cox6b1 "cytochrome c oxidase,	0.777	0.651	0.508	5.6e-13
POMBASE|SPCC1442.08c	86	cox12 "cytochrome c oxidase su	0.861	0.720	0.483	5.6e-13
RGD|1584097	86	Cox6b1 "cytochrome c oxidase s	0.777	0.651	0.508	5.6e-13
RGD|1591649	86	LOC681754 "similar to cytochro	0.777	0.651	0.508	5.6e-13
UNIPROTKB|P00429	86	COX6B1 "Cytochrome c oxidase s	0.777	0.651	0.508	9.1e-13

TAIR|locus:505006698 AT5G57815 [Arabidopsis thaliana (taxid:3702)]

 Score = 320 (117.7 bits), Expect = 9.1e-29, P = 9.1e-29
 Identities = 55/60 (91%), Positives = 58/60 (96%)

Query:     4 DEIELKTAPADFRFPTTNQTRHCFTRYIEFHRCLAAKGEESNECERFAKYYRSLCPGDWV 63
             DEIELKTAPADFRFPTTNQTRHCFTRYIEFHRC  AKGEESN+CERFAKYYR+LCPG+WV
Sbjct:     3 DEIELKTAPADFRFPTTNQTRHCFTRYIEFHRCTTAKGEESNDCERFAKYYRALCPGEWV 62

GO:0004129 "cytochrome-c oxidase activity" evidence=IEA;ISS

GO:0005739 "mitochondrion" evidence=IEA;ISS

GO:0009507 "chloroplast" evidence=ISM

GO:0006661 "phosphatidylinositol biosynthetic process" evidence=RCA

TAIR|locus:2009497 COX6B "cytochrome C oxidase 6B" [Arabidopsis thaliana (taxid:3702)]

 Score = 287 (106.1 bits), Expect = 2.9e-25, P = 2.9e-25
 Identities = 46/60 (76%), Positives = 58/60 (96%)

Query:     4 DEIELKTAPADFRFPTTNQTRHCFTRYIEFHRCLAAKGEESNECERFAKYYRSLCPGDWV 63
             DEI+L+TAPADFRFPTTNQTRHCFTRY+E+HRC+AAKG+++ EC++FAK+YRSLCP +WV
Sbjct:   115 DEIKLETAPADFRFPTTNQTRHCFTRYVEYHRCVAAKGDDAPECDKFAKFYRSLCPSEWV 174

GO:0004129 "cytochrome-c oxidase activity" evidence=IEA;ISS

GO:0005739 "mitochondrion" evidence=IEA;ISS;IDA

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

GO:0009535 "chloroplast thylakoid membrane" evidence=IDA

GO:0009579 "thylakoid" evidence=IDA

GO:0009507 "chloroplast" evidence=IDA

GO:0009651 "response to salt stress" evidence=IEP

GO:0005507 "copper ion binding" evidence=IDA

GO:0009853 "photorespiration" evidence=RCA

ZFIN|ZDB-GENE-040426-1566 cox6b2 "cytochrome c oxidase subunit VIb polypeptide 2" [Danio rerio (taxid:7955)]

 Score = 182 (69.1 bits), Expect = 3.8e-14, P = 3.8e-14
 Identities = 30/58 (51%), Positives = 44/58 (75%)

Query:     9 KTAPADFRFPTTNQTRHCFTRYIEFHRC---LAAKGEESNECERFAKYYRSLCPGDWV 63
             +TAP D RFP TNQTR+C+  Y++FHRC   L++KG++++ CE + + Y+SLCP  WV
Sbjct:    13 RTAPFDARFPNTNQTRNCYQNYLDFHRCNKALSSKGQDTSPCEWYQRVYKSLCPISWV 70

GO:0005739 "mitochondrion" evidence=IEA

GO:0004129 "cytochrome-c oxidase activity" evidence=IEA

FB|FBgn0031066 CoVIb "Cytochrome c oxidase subunit VIb" [Drosophila melanogaster (taxid:7227)]

 Score = 172 (65.6 bits), Expect = 4.4e-13, P = 4.4e-13
 Identities = 29/57 (50%), Positives = 38/57 (66%)

Query:     7 ELKTAPADFRFPTTNQTRHCFTRYIEFHRCLAAKGEESNECERFAKYYRSLCPGDWV 63
             +L+TAP D RFP  N TR+C+  YI+FHRC   +GE+   C  F K Y+S+CP  WV
Sbjct:    24 KLETAPFDPRFPNQNVTRYCYQSYIDFHRCQKKRGEDFAPCNYFQKVYKSMCPNAWV 80

GO:0005751 "mitochondrial respiratory chain complex IV" evidence=ISS

GO:0004129 "cytochrome-c oxidase activity" evidence=ISS

GO:0022008 "neurogenesis" evidence=IMP

UNIPROTKB|P14854 COX6B1 "Cytochrome c oxidase subunit 6B1" [Homo sapiens (taxid:9606)]

 Score = 171 (65.3 bits), Expect = 5.6e-13, P = 5.6e-13
 Identities = 30/59 (50%), Positives = 41/59 (69%)

Query:     9 KTAPADFRFPTTNQTRHCFTRYIEFHRC---LAAKGEESNECERFAKYYRSLCPGDWVS 64
             KTAP D RFP  NQTR+C+  Y++FHRC   + AKG + + CE + + Y+SLCP  WV+
Sbjct:    13 KTAPFDSRFPNQNQTRNCWQNYLDFHRCQKAMTAKGGDISVCEWYQRVYQSLCPTSWVT 71

GO:0005758 "mitochondrial intermembrane space" evidence=IEA

GO:0004129 "cytochrome-c oxidase activity" evidence=NAS

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

GO:0005743 "mitochondrial inner membrane" evidence=TAS

GO:0022904 "respiratory electron transport chain" evidence=TAS

GO:0044281 "small molecule metabolic process" evidence=TAS

GO:0005739 "mitochondrion" evidence=IDA

MGI|MGI:107460 Cox6b1 "cytochrome c oxidase, subunit VIb polypeptide 1" [Mus musculus (taxid:10090)]

 Score = 171 (65.3 bits), Expect = 5.6e-13, P = 5.6e-13
 Identities = 30/59 (50%), Positives = 41/59 (69%)

Query:     9 KTAPADFRFPTTNQTRHCFTRYIEFHRC---LAAKGEESNECERFAKYYRSLCPGDWVS 64
             KTAP D RFP  NQT++C+  Y++FHRC   + AKG + + CE + + Y+SLCP  WVS
Sbjct:    13 KTAPFDSRFPNQNQTKNCWQNYLDFHRCEKAMTAKGGDVSVCEWYRRVYKSLCPVSWVS 71

GO:0004129 "cytochrome-c oxidase activity" evidence=IEA

GO:0005739 "mitochondrion" evidence=IDA

GO:0005743 "mitochondrial inner membrane" evidence=IDA

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

POMBASE|SPCC1442.08c cox12 "cytochrome c oxidase subunit VIb (predicted)" [Schizosaccharomyces pombe (taxid:4896)]

 Score = 171 (65.3 bits), Expect = 5.6e-13, P = 5.6e-13
 Identities = 30/62 (48%), Positives = 40/62 (64%)

Query:     2 AADEIELKTAPADFRFPTTNQTRHCFTRYIEFHRCLAAKGEESNECERFAKYYRSLCPGD 61
             A  +    T   D RFP TNQT+HCF  YI++ RC+ AKGE+   C++F   Y+SLCP +
Sbjct:     9 APKQFTFGTVGFDARFPNTNQTKHCFQSYIDYFRCIKAKGEDFVPCKQFWHAYQSLCPME 68

Query:    62 WV 63
             WV
Sbjct:    69 WV 70

GO:0005634 "nucleus" evidence=IDA

GO:0005751 "mitochondrial respiratory chain complex IV" evidence=ISO

GO:0005829 "cytosol" evidence=IDA

GO:0009060 "aerobic respiration" evidence=IC

GO:0033617 "mitochondrial respiratory chain complex IV assembly" evidence=ISO

GO:0004129 "cytochrome-c oxidase activity" evidence=ISO

RGD|1584097 Cox6b1 "cytochrome c oxidase subunit VIb polypeptide 1" [Rattus norvegicus (taxid:10116)]

 Score = 171 (65.3 bits), Expect = 5.6e-13, P = 5.6e-13
 Identities = 30/59 (50%), Positives = 41/59 (69%)

Query:     9 KTAPADFRFPTTNQTRHCFTRYIEFHRC---LAAKGEESNECERFAKYYRSLCPGDWVS 64
             KTAP D RFP  NQT++C+  Y++FHRC   + AKG + + CE + + Y+SLCP  WVS
Sbjct:    13 KTAPFDSRFPNQNQTKNCWQNYLDFHRCEKAMTAKGGDVSVCEWYRRVYKSLCPVSWVS 71

GO:0004129 "cytochrome-c oxidase activity" evidence=IEA

GO:0005739 "mitochondrion" evidence=IEA;ISO

GO:0005743 "mitochondrial inner membrane" evidence=ISO

RGD|1591649 LOC681754 "similar to cytochrome c oxidase, subunit VIb polypeptide 1" [Rattus norvegicus (taxid:10116)]

 Score = 171 (65.3 bits), Expect = 5.6e-13, P = 5.6e-13
 Identities = 30/59 (50%), Positives = 41/59 (69%)

Query:     9 KTAPADFRFPTTNQTRHCFTRYIEFHRC---LAAKGEESNECERFAKYYRSLCPGDWVS 64
             KTAP D RFP  NQT++C+  Y++FHRC   + AKG + + CE + + Y+SLCP  WVS
Sbjct:    13 KTAPFDSRFPNQNQTKNCWQNYLDFHRCEKAMTAKGGDVSVCEWYRRVYKSLCPVSWVS 71

GO:0004129 "cytochrome-c oxidase activity" evidence=IEA

GO:0005739 "mitochondrion" evidence=IEA

UNIPROTKB|P00429 COX6B1 "Cytochrome c oxidase subunit 6B1" [Bos taurus (taxid:9913)]

 Score = 169 (64.5 bits), Expect = 9.1e-13, P = 9.1e-13
 Identities = 30/59 (50%), Positives = 41/59 (69%)

Query:     9 KTAPADFRFPTTNQTRHCFTRYIEFHRC---LAAKGEESNECERFAKYYRSLCPGDWVS 64
             +TAP D RFP  NQTR+C+  Y++FHRC   + AKG + + CE + + Y+SLCP  WVS
Sbjct:    13 QTAPFDSRFPNQNQTRNCWQNYLDFHRCEKAMTAKGGDVSVCEWYRRVYKSLCPISWVS 71

GO:0005743 "mitochondrial inner membrane" evidence=ISS

GO:0005739 "mitochondrion" evidence=ISS

GO:0005758 "mitochondrial intermembrane space" evidence=IEA

GO:0004129 "cytochrome-c oxidase activity" evidence=IEA

---

Prediction of Enzyme Commission (EC) Number

EC Number Prediction by Annotation Transfer from SWISS-PROT Entries

Original result of BLAST against SWISS-PROT

ID	Name	Annotated EC number	Identity	Query coverage	Hit coverage	RBH(Q2H)	RBH(H2Q)
Q5RCT0	CX6B1_PONAB	No assigned EC number	0.5084	0.7777	0.6511	yes	no
P56391	CX6B1_MOUSE	No assigned EC number	0.5084	0.7777	0.6511	yes	no
Q945L0	CX6B2_ARATH	No assigned EC number	0.9016	0.8472	0.7820	yes	no
P14854	CX6B1_HUMAN	No assigned EC number	0.5084	0.7777	0.6511	yes	no

EC Number Prediction by Ezypred Server

Original result from Ezypred Server

Fail to connect to Ezypred Server

EC Number Prediction by EFICAz Software

No EC number assignment, probably not an enzyme!

---

Prediction of Functionally Associated Proteins

Functionally Associated Proteins Detected by STRING

Original result from the STRING server

Your Input:
	scaffold_701459.1	annotation not avaliable (78 aa)
		(Arabidopsis lyrata)
Predicted Functional Partners:
	fgenesh1_pg.C_scaffold_8000176	annotation not avaliable (257 aa)					•	•	•		0.629
	fgenesh2_kg.5__730__AT2G07687.1	annotation not avaliable (265 aa)					•	•	•		0.555
	scaffold_100176.1	annotation not avaliable (287 aa)						•	•		0.411

---

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	72
cd00926	75	cd00926, Cyt_c_Oxidase_VIb, Cytochrome c oxidase s	3e-26
pfam02297	66	pfam02297, COX6B, Cytochrome oxidase c subunit VIb	1e-17

>gnl|CDD|238466 cd00926, Cyt_c_Oxidase_VIb, Cytochrome c oxidase subunit VIb

 Score = 90.4 bits (225), Expect = 3e-26
 Identities = 31/61 (50%), Positives = 45/61 (73%)

Query: 4  DEIELKTAPADFRFPTTNQTRHCFTRYIEFHRCLAAKGEESNECERFAKYYRSLCPGDWV 63
          D   L TAP D RFP  NQT+HC+ RY+++HRC+ AKGE+++ C++F + Y SLCP +W+
Sbjct: 1  DAGPLTTAPFDPRFPNQNQTKHCWQRYVDYHRCIKAKGEDASPCKKFRRVYESLCPQEWL 60

Query: 64 S 64
           
Sbjct: 61 E 61

Cytochrome c oxidase (CcO), the terminal oxidase in the respiratory chains of eukaryotes and most bacteria, is a multi-chain transmembrane protein located in the inner membrane of mitochondria and the cell membrane of prokaryotes. It catalyzes the reduction of O2 and simultaneously pumps protons across the membrane. The number of subunits varies from three to five in bacteria and up to 13 in mammalian mitochondria. Subunits I, II, and III of mammalian CcO are encoded within the mitochondrial genome and the remaining 10 subunits are encoded within the nuclear genome. Found only in eukaryotes, subunit VIb is one of three mammalian subunits that lacks a transmembrane region. It is located on the cytosolic side of the membrane and helps form the dimer interface with the corresponding subunit on the other monomer complex. Length = 75

>gnl|CDD|216964 pfam02297, COX6B, Cytochrome oxidase c subunit VIb

 Score = 68.9 bits (169), Expect = 1e-17
 Identities = 22/48 (45%), Positives = 31/48 (64%)

Query: 16 RFPTTNQTRHCFTRYIEFHRCLAAKGEESNECERFAKYYRSLCPGDWV 63
          RFP  NQ +HC+    +F +CL   GE+++ C++F K Y SLCP  WV
Sbjct: 2  RFPNQNQRKHCWQARDDFFKCLDKNGEDNSPCKKFKKNYESLCPASWV 49

Cytochrome c oxidase, a 13 sub-unit complex, EC:1.9.3.1 is the terminal oxidase in the mitochondrial electron transport chain. This family is composed of the potentially heme-binding subunit IVb of the oxidase. Length = 66

Conserved Domains Detected by HHsearch

Original result of HHsearch against CDD database

ID	Length	Definition	Probability
Query	72
cd00926	75	Cyt_c_Oxidase_VIb Cytochrome c oxidase subunit VIb	100.0
KOG3057	112	consensus Cytochrome c oxidase, subunit VIb/COX12	100.0
PF02297	76	COX6B: Cytochrome oxidase c subunit VIb; InterPro:	99.93
KOG4618	74	consensus Uncharacterized conserved protein [Funct	95.0
PF06747	35	CHCH: CHCH domain; InterPro: IPR010625 A conserved	94.25

>cd00926 Cyt_c_Oxidase_VIb Cytochrome c oxidase subunit VIb

Probab=100.00  E-value=6.1e-36  Score=183.64  Aligned_cols=66  Identities=45%  Similarity=0.997  Sum_probs=63.4

Q ss_pred             ccccccCCCCCCCCChHHHHHHHHHhHHHHHHHhhhCCCchhHHHHHHHHHhcChHHHHHhhhhhh
Q 035149            5 EIELKTAPADFRFPTTNQTRHCFTRYIEFHRCLAAKGEESNECERFAKYYRSLCPGDWVSILQFFE   70 (72)
Q Consensus         5 ~~~~~t~p~D~RfPn~nQ~k~Cw~~y~dy~rC~~~~Ged~~~C~~~~~~y~slCP~~Wv~~wd~k~   70 (72)
                      ...+.|+|+||||||+|||+|||++|++||+|++++|+|.++|+++++.|+|+||++||++||++-
T Consensus         2 ~~~~~t~~~D~RfP~~nq~k~Cw~~y~~y~~Cl~~~ged~~~C~~~~~~~es~Cp~~Wve~w~ekR   67 (75)
T cd00926           2 AGPLTTAPFDPRFPNQNQTKHCWQRYVDYHRCIKAKGEDASPCKKFRRVYESLCPQEWLEKWDEQR   67 (75)
T ss_pred             CccccCCCCCCCCCChHHHHHHHHHHHHHHHHHHHcCCchHHHHHHHHHHHHhCcHHHHHHHHHHH
Confidence            356999999999999999999999999999999999999999999999999999999999999973

Cytochrome c oxidase (CcO), the terminal oxidase in the respiratory chains of eukaryotes and most bacteria, is a multi-chain transmembrane protein located in the inner membrane of mitochondria and the cell membrane of prokaryotes. It catalyzes the reduction of O2 and simultaneously pumps protons across the membrane. The number of subunits varies from three to five in bacteria and up to 13 in mammalian mitochondria. Subunits I, II, and III of mammalian CcO are encoded within the mitochondrial genome and the remaining 10 subunits are encoded within the nuclear genome. Found only in eukaryotes, subunit VIb is one of three mammalian subunits that lacks a transmembrane region. It is located on the cytosolic side of the membrane and helps form the dimer interface with the corresponding subunit on the other monomer complex.

>KOG3057 consensus Cytochrome c oxidase, subunit VIb/COX12 [Energy production and conversion]

Probab=100.00  E-value=4e-35  Score=191.62  Aligned_cols=65  Identities=58%  Similarity=1.161  Sum_probs=63.0

Q ss_pred             ccccccCCCCCCCCChHHHHHHHHHhHHHHHHHhhhCCCchhHHHHHHHHHhcChHHHHHhhhhh
Q 035149            5 EIELKTAPADFRFPTTNQTRHCFTRYIEFHRCLAAKGEESNECERFAKYYRSLCPGDWVSILQFF   69 (72)
Q Consensus         5 ~~~~~t~p~D~RfPn~nQ~k~Cw~~y~dy~rC~~~~Ged~~~C~~~~~~y~slCP~~Wv~~wd~k   69 (72)
                      ...|.|||+|+||||+|||+|||++|+|||||++++|+|..+|++|++.|+|+||.+||++||++
T Consensus        37 ~~~l~tap~d~RFP~~nqtrhCf~~y~dyhrC~~~~geD~~~Ck~f~~~y~SlCP~~WV~kWdeq  101 (112)
T KOG3057|consen   37 SKLLTTAPVDARFPNTNQTRHCFQRYVDYHRCIKAKGEDANPCKKFQKVYRSLCPGEWVEKWDEQ  101 (112)
T ss_pred             ccccccccccccCCCcchhHHHHHHHHHHHHHHHHhcccchhHHHHHHHHHHhCcHHHHHHHHHh
Confidence            35699999999999999999999999999999999999999999999999999999999999987

>PF02297 COX6B: Cytochrome oxidase c subunit VIb; InterPro: IPR003213 Cytochrome c oxidase (1

Probab=99.93  E-value=6.9e-27  Score=142.65  Aligned_cols=55  Identities=35%  Similarity=0.809  Sum_probs=50.0

Q ss_pred             CCCCChHHHHHHHHHhHHHHHHHhhhCC---------CchhHHHHHHHHHhcChHHHHHhhhhh
Q 035149           15 FRFPTTNQTRHCFTRYIEFHRCLAAKGE---------ESNECERFAKYYRSLCPGDWVSILQFF   69 (72)
Q Consensus        15 ~RfPn~nQ~k~Cw~~y~dy~rC~~~~Ge---------d~~~C~~~~~~y~slCP~~Wv~~wd~k   69 (72)
                      ||||++|||++||++||+||+||+.+|+         +.+.|+.+++.|+++||.+||++|+++
T Consensus         1 ~rfP~~~~r~~Cw~arD~y~~Cl~~~~~~~~~~~~~~~~~~C~~~~~~ye~~Cp~sWv~~f~~~   64 (76)
T PF02297_consen    1 PRFPNRNQRKKCWQARDDYFKCLDKNGEPDSEKEKKKDESACKYFRKNYESNCPSSWVKYFDEK   64 (76)
T ss_dssp             -TS-SSB-HHHHHHHHHHHHHHHHHHHH------TTTTGGGGHHHHHHHHHHS-HHHHHHHHHH
T ss_pred             CCCCChHHHHHHHHHHHHHHHHHHHcCccccccccccchhhhHHHHHHHHHhCcHHHHHHHHHH
Confidence            7999999999999999999999999998         899999999999999999999999987

9.3.1 from EC) is an oligomeric enzymatic complex that is a component of the respiratory chain complex and is involved in the transfer of electrons from cytochrome c to oxygen []. In eukaryotes this enzyme complex is located in the mitochondrial inner membrane; in aerobic prokaryotes it is found in the plasma membrane. In eukaryotes, in addition to the three large subunits, I, II and III, that form the catalytic centre of the enzyme complex, there are a variable number of small polypeptide subunits. One of these subunits is the potentially haem-binding subunit, VIb, which is encoded in the nucleus []. ; GO: 0004129 cytochrome-c oxidase activity, 0005739 mitochondrion; PDB: 1OCC_U 1OCR_U 2DYS_H 3ASO_H 3AG3_U 2EIL_H 2EIJ_U 3AG2_U 3ABM_U 2EIN_U ....

>KOG4618 consensus Uncharacterized conserved protein [Function unknown]

Probab=95.00  E-value=0.04  Score=33.98  Aligned_cols=41  Identities=17%  Similarity=0.537  Sum_probs=37.5

Q ss_pred             HHHHHHhHHHHHHHhhhCCCchhHHHHHHHHHhcChHHHHHh
Q 035149           24 RHCFTRYIEFHRCLAAKGEESNECERFAKYYRSLCPGDWVSI   65 (72)
Q Consensus        24 k~Cw~~y~dy~rC~~~~Ged~~~C~~~~~~y~slCP~~Wv~~   65 (72)
                      .-|...+..=++||+++|-|-+.|+.++.+|+ .|-..|.+.
T Consensus        22 nPCl~es~aSfkCLeennyDRsKCq~yFd~Yk-eCKkfwn~a   62 (74)
T KOG4618|consen   22 NPCLLESSASFKCLEENNYDRSKCQDYFDVYK-ECKKFWNEA   62 (74)
T ss_pred             ChHHHHHHHHHHHHHhcCccHHHHHHHHHHHH-HHHHHHHHH
Confidence            56999999999999999999999999999998 799988764

>PF06747 CHCH: CHCH domain; InterPro: IPR010625 A conserved motif was identified in the LOC118487 protein was called the CHCH motif

Probab=94.25  E-value=0.05  Score=27.82  Aligned_cols=31  Identities=19%  Similarity=0.472  Sum_probs=25.9

Q ss_pred             HHHHhHHHHHHHhhhCCCchhHHHHHHHHHh
Q 035149           26 CFTRYIEFHRCLAAKGEESNECERFAKYYRS   56 (72)
Q Consensus        26 Cw~~y~dy~rC~~~~Ged~~~C~~~~~~y~s   56 (72)
                      |-.-...|..|++.++.+...|..+.+.|..
T Consensus         1 C~~e~~~~~~Cl~~n~~~~~~C~~~~~~~~~   31 (35)
T PF06747_consen    1 CAEEMKAYLACLKENNFDWSKCRKEFKAYKE   31 (35)
T ss_dssp             THHHHHHHHHHHHCH-SSTCCCHHHHHHHHH
T ss_pred             CHHHHHHHHHHHHHCCCcHHhhHHHHHHHHH
Confidence            4455678999999999999999999999984

Alignment of this protein with related members showed the presence of three subgroups of proteins, which are called the S (Small), N (N-terminal extended) and C (C-terminal extended) subgroups. All three sub-groups of proteins have in common that they contain a predicted conserved [coiled coil 1]-[helix 1]-[coiled coil 2]-[helix 2] domain (CHCH domain). Within each helix of the CHCH domain, there are two cysteines present in a C-X9-C motif. The N-group contains an additional double helix domain, and each helix contains the C-X9-C motif. This family contains a number of characterised proteins: Cox19 protein - a nuclear gene of Saccharomyces cerevisiae, codes for an 11 kDa protein (Cox19p) required for expression of cytochrome oxidase. Because cox19 mutants are able to synthesise the mitochondrial and nuclear gene products of cytochrome oxidase, Cox19p probably functions post-translationally during assembly of the enzyme. Cox19p is present in the cytoplasm and mitochondria, where it exists as a soluble intermembrane protein. This dual location is similar to what was previously reported for Cox17p, a low molecular weight copper protein thought to be required for maturation of the CuA centre of subunit 2 of cytochrome oxidase. Cox19p have four conserved potential metal ligands, these are three cysteines and one histidine. Mrp10 - belongs to the class of yeast mitochondrial ribosomal proteins that are essential for translation []. Eukaryotic NADH-ubiquinone oxidoreductase 19 kDa (NDUFA8) subunit []. The CHCH domain was previously called DUF657 []. ; PDB: 2ZXT_A 3A3C_A 2L0Y_A 2K3J_A.

---

Homologous Structure Templates

Structure Templates Detected by BLAST

Original result of BLAST against Protein Data Bank

ID	Length	Definition	E-value
Query	72
2y69_H	86	Bovine Heart Cytochrome C Oxidase Re-Refined With M		2e-12
1occ_H	85	Structure Of Bovine Heart Cytochrome C Oxidase At T		2e-12

>pdb|2Y69|H Chain H, Bovine Heart Cytochrome C Oxidase Re-Refined With Molecular Oxygen Length = 86

Iteration: 1
 Score = 67.4 bits (163), Expect = 2e-12,   Method: Compositional matrix adjust.
 Identities = 33/70 (47%), Positives = 46/70 (65%), Gaps = 8/70 (11%)
Query: 3  ADEIELK-----TAPADFRFPTTNQTRHCFTRYIEFHRC---LAAKGEESNECERFAKYY 54
          A++I+ K     TAP D RFP  NQTR+C+  Y++FHRC   + AKG + + CE + + Y
Sbjct: 2  AEDIQAKIKNYQTAPFDSRFPNQNQTRNCWQNYLDFHRCEKAMTAKGGDVSVCEWYRRVY 61
Query: 55 RSLCPGDWVS 64
          +SLCP  WVS
Sbjct: 62 KSLCPISWVS 71

>pdb|1OCC|H Chain H, Structure Of Bovine Heart Cytochrome C Oxidase At The Fully Oxidized State Length = 85

Iteration: 1
 Score = 67.0 bits (162), Expect = 2e-12,   Method: Compositional matrix adjust.
 Identities = 33/70 (47%), Positives = 46/70 (65%), Gaps = 8/70 (11%)
Query: 3  ADEIELK-----TAPADFRFPTTNQTRHCFTRYIEFHRC---LAAKGEESNECERFAKYY 54
          A++I+ K     TAP D RFP  NQTR+C+  Y++FHRC   + AKG + + CE + + Y
Sbjct: 1  AEDIQAKIKNYQTAPFDSRFPNQNQTRNCWQNYLDFHRCEKAMTAKGGDVSVCEWYRRVY 60
Query: 55 RSLCPGDWVS 64
          +SLCP  WVS
Sbjct: 61 KSLCPISWVS 70

Structure Templates Detected by RPS-BLAST

Original result of RPS-BLAST against PDB70 database

ID	Length	Definition	E-value
Query	72
1v54_H	85	AED, cytochrome C oxidase polypeptide VIB; oxidore	2e-24

>1v54_H AED, cytochrome C oxidase polypeptide VIB; oxidoreductase; HET: FME TPO HEA TGL PGV CHD CDL PEK PSC DMU; 1.80A {Bos taurus} SCOP: a.51.1.1 PDB: 1oco_H* 1occ_H* 1ocz_H* 1ocr_H* 1v55_H* 2dyr_H* 2dys_H* 2eij_H* 2eik_H* 2eil_H* 2eim_H* 2ein_H* 2occ_H* 2ybb_S* 2zxw_H* 3abk_H* 3abl_H* 3abm_H* 3ag1_H* 3ag2_H* ... Length = 85

 Score = 86.1 bits (213), Expect = 2e-24
 Identities = 31/67 (46%), Positives = 43/67 (64%), Gaps = 3/67 (4%)

Query: 1  MAADEIELKTAPADFRFPTTNQTRHCFTRYIEFHRC---LAAKGEESNECERFAKYYRSL 57
          + A     +TAP D RFP  NQTR+C+  Y++FHRC   + AKG + + CE + + Y+SL
Sbjct: 4  IQAKIKNYQTAPFDSRFPNQNQTRNCWQNYLDFHRCEKAMTAKGGDVSVCEWYRRVYKSL 63

Query: 58 CPGDWVS 64
          CP  WVS
Sbjct: 64 CPISWVS 70

Structure Templates Detected by HHsearch

Original result of HHsearch against PDB70 database

ID	Length	Definition	Probability
Query	72
1v54_H	85	AED, cytochrome C oxidase polypeptide VIB; oxidore	100.0
2lqt_A	85	Coiled-coil-helix-coiled-coil-helix domain-contai	95.96
1ei0_A	38	P8MTCP1; helix-turn-helix, disulfide bridges, cell	91.54
2lql_A	113	Coiled-coil-helix-coiled-coil-helix domain-contai	86.08
1hp8_A	68	HU-P8; leukemia, cysteine motif; NMR {Homo sapiens	84.51

>1v54_H AED, cytochrome C oxidase polypeptide VIB; oxidoreductase; HET: FME TPO HEA TGL PGV CHD CDL PEK PSC DMU; 1.80A {Bos taurus} SCOP: a.51.1.1 PDB: 1oco_H* 1occ_H* 1ocz_H* 1ocr_H* 1v55_H* 2dyr_H* 2dys_H* 2eij_H* 2eik_H* 2eil_H* 2eim_H* 2ein_H* 2occ_H* 2ybb_S* 2zxw_H* 3abk_H* 3abl_H* 3abm_H* 3ag1_H* 3ag2_H* ...

Probab=100.00  E-value=5e-36  Score=187.03  Aligned_cols=65  Identities=46%  Similarity=0.909  Sum_probs=61.6

Q ss_pred             cccccCCCCCCCCChHHHHHHHHHhHHHHHHHhh---hCCCchhHHHHHHHHHhcChHHHHHhhhhhh
Q 035149            6 IELKTAPADFRFPTTNQTRHCFTRYIEFHRCLAA---KGEESNECERFAKYYRSLCPGDWVSILQFFE   70 (72)
Q Consensus         6 ~~~~t~p~D~RfPn~nQ~k~Cw~~y~dy~rC~~~---~Ged~~~C~~~~~~y~slCP~~Wv~~wd~k~   70 (72)
                      ..|+|+|+||||||+|||+|||++|++||+|+++   +|+|.++|++|++.|+|+||++||++||++-
T Consensus         9 ~~~~tap~D~rFPn~nq~k~Cw~~y~df~~C~~~l~~~ged~~~C~~~~~~y~slCP~sWVe~wdeqR   76 (85)
T 1v54_H            9 KNYQTAPFDSRFPNQNQTRNCWQNYLDFHRCEKAMTAKGGDVSVCEWYRRVYKSLCPISWVSTWDDRR   76 (85)
T ss_dssp             CCCCSCCCCTTSCSSBCHHHHHHHHHHHHHHHHHHHHHTCCGGGGHHHHHHHHHHSCHHHHHHHHHHH
T ss_pred             cccccCCCCCCCCChHHHHHHHHHHHHHHHHHHHHHhcCCchHHHHHHHHHHHHcChHHHHHHHHHHH
Confidence            5699999999999999999999999999999555   9999999999999999999999999999973

>2lqt_A Coiled-coil-helix-coiled-coil-helix domain-contai protein 7; CHCH domain, mitochondrial import, alpha-hairpin, MIA40-DEPE disulfide relay system; NMR {Homo sapiens}

Probab=95.96  E-value=0.0064  Score=37.54  Aligned_cols=39  Identities=23%  Similarity=0.555  Sum_probs=36.6

Q ss_pred             HHHHHhHHHHHHHhhhCCCchhHHHHHHHHHhcChHHHHH
Q 035149           25 HCFTRYIEFHRCLAAKGEESNECERFAKYYRSLCPGDWVS   64 (72)
Q Consensus        25 ~Cw~~y~dy~rC~~~~Ged~~~C~~~~~~y~slCP~~Wv~   64 (72)
                      -|......=.+||+.++.|.+.|..|+..|+ .|-..|++
T Consensus        15 PC~~e~~~S~kCL~~n~yDr~~C~~yF~~Yk-~CKk~W~~   53 (85)
T 2lqt_A           15 PCLSESDASTRCLDENNYDRERCSTYFLRYK-NCRRFWNS   53 (85)
T ss_dssp             CCHHHHHHHHHHHHHTTTCTTTTHHHHHHHH-HHHHHHHH
T ss_pred             ccHHHHHHHHHHHHHcCccHHHHHHHHHHHH-HHHHHHHH
Confidence            3999999999999999999999999999999 79999976

>1ei0_A P8MTCP1; helix-turn-helix, disulfide bridges, cell cycle; NMR {Synthetic} SCOP: j.77.1.1

Probab=91.54  E-value=0.17  Score=26.48  Aligned_cols=33  Identities=18%  Similarity=0.447  Sum_probs=27.3

Q ss_pred             HHHHhHHHHHHHhhhCCCchhHHHHHHHHHhcC
Q 035149           26 CFTRYIEFHRCLAAKGEESNECERFAKYYRSLC   58 (72)
Q Consensus        26 Cw~~y~dy~rC~~~~Ged~~~C~~~~~~y~slC   58 (72)
                      |-..--.|.+||..+|-|.+.|+.+...+..-|
T Consensus         3 C~~~a~a~q~CL~~n~~d~skCq~~id~l~~Cc   35 (38)
T 1ei0_A            3 CQKQAAEIQKCLQANSYLESKCQAVIQELKKCA   35 (38)
T ss_dssp             SHHHHHHHHHHHHHTTTCGGGTHHHHHHHHHHH
T ss_pred             hHHHHHHHHHHHHHCCCcHHHHHHHHHHHHHHH
Confidence            444556899999999999999999999887543

>2lql_A Coiled-coil-helix-coiled-coil-helix domain-contai protein 5; CHCH domain, mitochondrial import, MIA40-dependent disulfide system; NMR {Homo sapiens}

Probab=86.08  E-value=0.38  Score=30.34  Aligned_cols=36  Identities=14%  Similarity=0.441  Sum_probs=32.2

Q ss_pred             hHHHHHHHHHhHHHHHHHhhhCCCchhHHHHHHHHH
Q 035149           20 TNQTRHCFTRYIEFHRCLAAKGEESNECERFAKYYR   55 (72)
Q Consensus        20 ~nQ~k~Cw~~y~dy~rC~~~~Ged~~~C~~~~~~y~   55 (72)
                      +.-.++|-.-+..|+.||+.+..+...|....+.|.
T Consensus        55 ~~I~~~C~~ef~~y~~CL~~n~~~~~~Cr~~~~~f~   90 (113)
T 2lql_A           55 RQIRQACAQPFEAFEECLRQNEAAVGNCAEHMRRFL   90 (113)
T ss_dssp             HHHHHHTHHHHHHHHHHHHHCTTCTTTCCSHHHHHH
T ss_pred             HHHHHHhHHHHHHHHHHHHHccccHHHHHHHHHHHH
Confidence            556789999999999999999999999988888776

>1hp8_A HU-P8; leukemia, cysteine motif; NMR {Homo sapiens} SCOP: a.17.1.1 PDB: 2hp8_A

Probab=84.51  E-value=0.93  Score=26.60  Aligned_cols=33  Identities=21%  Similarity=0.457  Sum_probs=28.2

Q ss_pred             HHHHHhHHHHHHHhhhCCCchhHHHHHHHHHhc
Q 035149           25 HCFTRYIEFHRCLAAKGEESNECERFAKYYRSL   57 (72)
Q Consensus        25 ~Cw~~y~dy~rC~~~~Ged~~~C~~~~~~y~sl   57 (72)
                      -|-..--++..||..+|-|.+.|+.+...++.-
T Consensus         6 PC~~~AcaiQ~CL~~N~yd~skCq~~id~L~eC   38 (68)
T 1hp8_A            6 PCQKQACEIQKCLQANSYMESKCQAVIQELRKC   38 (68)
T ss_dssp             TTHHHHHHHHHHHHHTTTCHHHHHHHHHHHHHH
T ss_pred             chHHHHHHHHHHHHHcCCcHHHHHHHHHHHHHH
Confidence            366667789999999999999999999988843

---

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	72
d1v54h_	79	a.51.1.1 (H:) Cytochrome c oxidase subunit h {Cow	1e-27

>d1v54h_ a.51.1.1 (H:) Cytochrome c oxidase subunit h {Cow (Bos taurus) [TaxId: 9913]} Length = 79

class: All alpha proteins
fold: Cytochrome c oxidase subunit h
superfamily: Cytochrome c oxidase subunit h
family: Cytochrome c oxidase subunit h
domain: Cytochrome c oxidase subunit h
species: Cow (Bos taurus) [TaxId: 9913]

 Score = 92.9 bits (231), Expect = 1e-27
 Identities = 30/61 (49%), Positives = 41/61 (67%), Gaps = 3/61 (4%)

Query: 7  ELKTAPADFRFPTTNQTRHCFTRYIEFHRC---LAAKGEESNECERFAKYYRSLCPGDWV 63
            +TAP D RFP  NQTR+C+  Y++FHRC   + AKG + + CE + + Y+SLCP  WV
Sbjct: 4  NYQTAPFDSRFPNQNQTRNCWQNYLDFHRCEKAMTAKGGDVSVCEWYRRVYKSLCPISWV 63

Query: 64 S 64
          S
Sbjct: 64 S 64

Homologous Domains Detected by HHsearch

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

ID	Length	Definition	Probability
Query	72
d1v54h_	79	Cytochrome c oxidase subunit h {Cow (Bos taurus) [	100.0

>d1v54h_ a.51.1.1 (H:) Cytochrome c oxidase subunit h {Cow (Bos taurus) [TaxId: 9913]}

class: All alpha proteins
fold: Cytochrome c oxidase subunit h
superfamily: Cytochrome c oxidase subunit h
family: Cytochrome c oxidase subunit h
domain: Cytochrome c oxidase subunit h
species: Cow (Bos taurus) [TaxId: 9913]

Probab=100.00  E-value=2.4e-38  Score=194.13  Aligned_cols=64  Identities=47%  Similarity=0.934  Sum_probs=60.5

Q ss_pred             ccccCCCCCCCCChHHHHHHHHHhHHHHHHHh---hhCCCchhHHHHHHHHHhcChHHHHHhhhhhh
Q 035149            7 ELKTAPADFRFPTTNQTRHCFTRYIEFHRCLA---AKGEESNECERFAKYYRSLCPGDWVSILQFFE   70 (72)
Q Consensus         7 ~~~t~p~D~RfPn~nQ~k~Cw~~y~dy~rC~~---~~Ged~~~C~~~~~~y~slCP~~Wv~~wd~k~   70 (72)
                      .++|||+||||||+|||+|||++|+|||||++   ++|+|.++|++|++.|+||||++||++||++.
T Consensus         4 ~~~TaP~D~RFPn~NQTrhC~~~Y~dyhrC~K~~~~kGed~~~C~~f~~~y~sLCP~~WiekWdeqr   70 (79)
T d1v54h_           4 NYQTAPFDSRFPNQNQTRNCWQNYLDFHRCEKAMTAKGGDVSVCEWYRRVYKSLCPISWVSTWDDRR   70 (79)
T ss_dssp             CCCSCCCCTTSCSSBCHHHHHHHHHHHHHHHHHHHHHTCCGGGGHHHHHHHHHHSCHHHHHHHHHHH
T ss_pred             cccCCCCCccCCcchhhHHHHHHHHHHHHHHHHHHhcCCCchHHHHHHHHHHHhCCHHHHHHHHHHH
Confidence            38999999999999999999999999999954   67999999999999999999999999999863