Citrus Sinensis ID: 029541

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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-------160-------170-------180-------190--
Protein Sequence
MAEAQSDKTPSLAEDYLLEKEKQDVATKPVEVKEVESAVTASSVEGATDKVEETPAAAAVEESKEDAPAPAPEESTEASSASPEDSTSDTAPAAAEESSETTEEENSGDQEASEETPDIKLETAPADFRFPTTNQTRHCFTRYIEYHRCVAAKGEGAPECDKFAKYYRALCPSDWIEKWNEQRENGTFPGPL
Secondary Structure (PSIPRED)
ccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccHHHHHHHHHHHHHHHHHcccHHHHHHHHHHHHHHccHHHHHHHHHHHHHccccccc
Secondary Structure Prediction (SSPRO)
cccccccccccHHHHHcccccccccccccEEEEEEEcccccccccccccccccccccccHHHHccccccccccccccccccccccccHHccccccccccccccccccccHHHHccccccccccccccccccccEcHHHHHHHHHHHHHHHHHcccccHHHHHHHHHHHHcccHHHHHHHHHHHHcccccccc
Coil and Loop (DISEMBL)
maeaqsdktpsLAEDYLLEKekqdvatkpvevKEVESAVTassvegatdkveetpaaaaveeskedapapapeesteassaspedstsdtapaaaeessetteeensgdqeaseetpdikletapadfrfpttnqtrhCFTRYIEYHRcvaakgegapecDKFAKYYRALCPSDWIEKWNeqrengtfpgpl
Flexible Loop (DISEMBL)
maeaqsdktpslaedyllekekqdvatkpvevKEVEsavtassvegatdkveeTPAAaaveeskedapapapeesteassaspedstsdtapaaaeessetteeensgdqeaseetpdikletapadfrfpttnQTRHCFTRYIEYHRCVAAKGEGAPECDKFAKYYRALCPSDWIEKWNEqrengtfpgpl
Low Complexity Region (SEG)
MAEAQSDKTPSLAEDYLLEKEKQDVATKPVEVKEVESAVTASSVEGATDKveetpaaaaveeskedapapapeesteassaspedstsdtapaaaeessetteeeNSGDQEASEETPDIKLETAPADFRFPTTNQTRHCFTRYIEYHRCVAAKGEGAPECDKFAKYYRALCPSDWIEKWNEQRENGTFPGPL
Disordered region (IsUnstruct)
*******************************************************************************************************************************FRFPTTNQTRHCFTRYIEYHRCVAAKGEGAPECDKFAKYYRALCPSDWIEKWN************
Disordered Region (DISOPRED)
*************************************************************************************************************************ETAPADFRFPTTNQTRHCFTRYIEYHRCVAAKGEGAPECDKFAKYYRALCPSDWIEKWNEQRENGTFPGPL
Disordered Region (DISEMBL)
**********SLAEDYLLEKEKQDVATKPVEVKEVESAVTASSVEGATDKV*****************************************************************PDIKLETAPADFRFPTTNQTRHCFTRYIEYHRCVAAKGEGAPECDKFAKYYRALCPSDWIEKWNEQR*********
Disordered Region (DISPRO)
*******************KE*QDVATKPVEVKEVESA*******************************************************************************DIKLETAPADFRFPTTNQTRHCFTRYIEYHRCVAAKGEGAPECDKFAKYYRALCPSDWIEKWNEQRENGTFP***
Transmembrane Helix (TMHMM)
oooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooo
Transmembrane Helix (HMMTOP)
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Transmembrane Helix (MEMSAT)
ooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooohhhhhhhhhhhhhhhhhhhiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiii
TM Helix, Signal Peptide (MEMSAT_SVM)
iiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiihhhhhhhhhhhhhhhhooooooooooooo
TM Helix, Signal Peptide (Phobius)
oooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooo
Signal Peptide (SignalP HMM Mode)
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Signal Peptide (SignalP NN Mode)
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Coiled Coils (COILS)
MAEAQSDKTPSLAEDYLLEKEKQDVATKPVEVKEVESAVTASSVEGATDKVEETPAAAAVEESKEDAPAPAPEESTEASSASPEDSTSDTAPAAAEESSETTEEENSGDQEASEETPDIKLETAPADFRFPTTNQTRHCFTRYIEYHRCVAAKGEGAPECDKFAKYYRALCPSDWIEKWNEQRENGTFPGPL
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	192	2.2.26 [Sep-21-2011]
Q9S7L9	191	Cytochrome c oxidase subu	yes	no	0.932	0.937	0.576	5e-53
Q9SUD3	78	Cytochrome c oxidase subu	no	no	0.390	0.961	0.8	4e-34
Q945L0	78	Cytochrome c oxidase subu	no	no	0.390	0.961	0.773	2e-33
O94581	86	Cytochrome c oxidase subu	yes	no	0.421	0.941	0.523	2e-21
Q01519	83	Cytochrome c oxidase subu	yes	no	0.375	0.867	0.541	3e-19
P14854	86	Cytochrome c oxidase subu	yes	no	0.406	0.906	0.444	2e-16
Q5RCT0	86	Cytochrome c oxidase subu	no	no	0.406	0.906	0.444	2e-16
Q53CG4	87	Cytochrome c oxidase subu	yes	no	0.406	0.896	0.432	3e-16
Q4R374	87	Cytochrome c oxidase subu	N/A	no	0.406	0.896	0.432	3e-16
Q6YFQ1	88	Cytochrome c oxidase subu	yes	no	0.364	0.795	0.438	1e-15

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

 Score =  207 bits (526), Expect = 5e-53,   Method: Compositional matrix adjust.
 Identities = 117/203 (57%), Positives = 144/203 (70%), Gaps = 24/203 (11%)

Query: 1   MAEAQSDKTPSLAEDYLLEKE-KQDVATKPVEVKEVESAVTASSVEGATDKVEETPAAAA 59
           MA+A + +TPSL+E Y LEKE KQD + KPVEVKEV   VT  + E  T           
Sbjct: 1   MADAVNAQTPSLSEQYHLEKEVKQDTSAKPVEVKEVAPEVTTQAEEVKT----------- 49

Query: 60  VEESKEDAPAPAPEESTEASSASPEDST--SDTAPAAAEESSET-------TEEENSGDQ 110
            E++KE++P        E  S S  +ST  +  APAAAE+++E          +EN+  +
Sbjct: 50  -EQAKEESPVEEAVSVVEEKSESAPESTEVASEAPAAAEDNAEETPAAAEENNDENAS-E 107

Query: 111 EASEETPD-IKLETAPADFRFPTTNQTRHCFTRYIEYHRCVAAKGEGAPECDKFAKYYRA 169
           E +EETPD IKLETAPADFRFPTTNQTRHCFTRY+EYHRCVAAKG+ APECDKFAK+YR+
Sbjct: 108 EVAEETPDEIKLETAPADFRFPTTNQTRHCFTRYVEYHRCVAAKGDDAPECDKFAKFYRS 167

Query: 170 LCPSDWIEKWNEQRENGTFPGPL 192
           LCPS+W+++WNEQRENGTFPGPL
Sbjct: 168 LCPSEWVDRWNEQRENGTFPGPL 190

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 =  144 bits (363), Expect = 4e-34,   Method: Compositional matrix adjust.
 Identities = 60/75 (80%), Positives = 69/75 (92%)

Query: 118 DIKLETAPADFRFPTTNQTRHCFTRYIEYHRCVAAKGEGAPECDKFAKYYRALCPSDWIE 177
           +I+L+TAPADFRFPTTNQTRHCFTRYIE+HRC  AKGE A EC++FAKYYRALCP +W++
Sbjct: 4   EIELKTAPADFRFPTTNQTRHCFTRYIEFHRCTTAKGEDANECERFAKYYRALCPGEWVD 63

Query: 178 KWNEQRENGTFPGPL 192
           KWNEQRE GTFPGPL
Sbjct: 64  KWNEQRETGTFPGPL 78

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

 Score =  141 bits (356), Expect = 2e-33,   Method: Compositional matrix adjust.
 Identities = 58/75 (77%), Positives = 70/75 (93%)

Query: 118 DIKLETAPADFRFPTTNQTRHCFTRYIEYHRCVAAKGEGAPECDKFAKYYRALCPSDWIE 177
           +I+L+TAPADFRFPTTNQTRHCFTRYIE+HRC  AKGE + +C++FAKYYRALCP +W++
Sbjct: 4   EIELKTAPADFRFPTTNQTRHCFTRYIEFHRCTTAKGEESNDCERFAKYYRALCPGEWVD 63

Query: 178 KWNEQRENGTFPGPL 192
           KWNEQRE+GTFPGPL
Sbjct: 64  KWNEQRESGTFPGPL 78

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

 Score =  101 bits (252), Expect = 2e-21,   Method: Compositional matrix adjust.
 Identities = 44/84 (52%), Positives = 57/84 (67%), Gaps = 3/84 (3%)

Query: 109 DQEASEETPDIKLETAPADFRFPTTNQTRHCFTRYIEYHRCVAAKGEGAPECDKFAKYYR 168
           DQEA ++       T   D RFP TNQT+HCF  YI+Y RC+ AKGE    C +F   Y+
Sbjct: 6   DQEAPKQ---FTFGTVGFDARFPNTNQTKHCFQSYIDYFRCIKAKGEDFVPCKQFWHAYQ 62

Query: 169 ALCPSDWIEKWNEQRENGTFPGPL 192
           +LCP +W+E+W+EQRENGTFP P+
Sbjct: 63  SLCPMEWVERWDEQRENGTFPAPI 86

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)

>sp|Q01519|COX12_YEAST Cytochrome c oxidase subunit 6B OS=Saccharomyces cerevisiae (strain ATCC 204508 / S288c) GN=COX12 PE=1 SV=2

 Score = 95.1 bits (235), Expect = 3e-19,   Method: Compositional matrix adjust.
 Identities = 39/72 (54%), Positives = 47/72 (65%)

Query: 121 LETAPADFRFPTTNQTRHCFTRYIEYHRCVAAKGEGAPECDKFAKYYRALCPSDWIEKWN 180
           L T   D RFP  NQT+HC+  Y++YH+CV  KGE    C  F K Y ALCP DWIEKW+
Sbjct: 9   LHTVGFDARFPQQNQTKHCWQSYVDYHKCVNMKGEDFAPCKVFWKTYNALCPLDWIEKWD 68

Query: 181 EQRENGTFPGPL 192
           +QRE G F G +
Sbjct: 69  DQREKGIFAGDI 80

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.

Saccharomyces cerevisiae (strain ATCC 204508 / S288c) (taxid: 559292)

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

 Score = 85.5 bits (210), Expect = 2e-16,   Method: Compositional matrix adjust.
 Identities = 36/81 (44%), Positives = 52/81 (64%), Gaps = 3/81 (3%)

Query: 115 ETPDIKLETAPADFRFPTTNQTRHCFTRYIEYHRC---VAAKGEGAPECDKFAKYYRALC 171
           ET     +TAP D RFP  NQTR+C+  Y+++HRC   + AKG     C+ + + Y++LC
Sbjct: 6   ETKIKNYKTAPFDSRFPNQNQTRNCWQNYLDFHRCQKAMTAKGGDISVCEWYQRVYQSLC 65

Query: 172 PSDWIEKWNEQRENGTFPGPL 192
           P+ W+  W+EQR  GTFPG +
Sbjct: 66  PTSWVTDWDEQRAEGTFPGKI 86

Connects the two COX monomers into the physiological dimeric form.

Homo sapiens (taxid: 9606)

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

 Score = 85.1 bits (209), Expect = 2e-16,   Method: Compositional matrix adjust.
 Identities = 36/81 (44%), Positives = 52/81 (64%), Gaps = 3/81 (3%)

Query: 115 ETPDIKLETAPADFRFPTTNQTRHCFTRYIEYHRC---VAAKGEGAPECDKFAKYYRALC 171
           ET     +TAP D RFP  NQTR+C+  Y+++HRC   + AKG     C+ + + Y++LC
Sbjct: 6   ETKLKNYKTAPFDSRFPNQNQTRNCWQNYLDFHRCQKAMTAKGGDISVCEWYQRVYQSLC 65

Query: 172 PSDWIEKWNEQRENGTFPGPL 192
           P+ W+  W+EQR  GTFPG +
Sbjct: 66  PTSWVTDWDEQRAEGTFPGKI 86

Connects the two COX monomers into the physiological dimeric form.

Pongo abelii (taxid: 9601)

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

 Score = 85.1 bits (209), Expect = 3e-16,   Method: Compositional matrix adjust.
 Identities = 35/81 (43%), Positives = 51/81 (62%), Gaps = 3/81 (3%)

Query: 115 ETPDIKLETAPADFRFPTTNQTRHCFTRYIEYHRC---VAAKGEGAPECDKFAKYYRALC 171
           ET     +TAP D RFP  NQTR+C+  Y+++HRC   +  KG     C+ + + Y++LC
Sbjct: 7   ETKIKNYKTAPFDSRFPNQNQTRNCWQNYLDFHRCQKAMTTKGGNVSVCEWYQRVYQSLC 66

Query: 172 PSDWIEKWNEQRENGTFPGPL 192
           P+ W+  W+EQR  GTFPG +
Sbjct: 67  PTSWVTDWDEQRAEGTFPGKI 87

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 = 85.1 bits (209), Expect = 3e-16,   Method: Compositional matrix adjust.
 Identities = 35/81 (43%), Positives = 51/81 (62%), Gaps = 3/81 (3%)

Query: 115 ETPDIKLETAPADFRFPTTNQTRHCFTRYIEYHRC---VAAKGEGAPECDKFAKYYRALC 171
           ET     +TAP D RFP  NQTR+C+  Y+++HRC   +  KG     C+ + + Y++LC
Sbjct: 7   ETKIKNYKTAPFDSRFPNQNQTRNCWQNYLDFHRCQKAMTTKGGNVSVCEWYQRVYQSLC 66

Query: 172 PSDWIEKWNEQRENGTFPGPL 192
           P+ W+  W+EQR  GTFPG +
Sbjct: 67  PTSWVTDWDEQRAEGTFPGKI 87

Connects the two COX monomers into the physiological dimeric form.

Macaca fascicularis (taxid: 9541)

>sp|Q6YFQ1|CX6B2_RAT Cytochrome c oxidase subunit 6B2 OS=Rattus norvegicus GN=Cox6b2 PE=2 SV=1

 Score = 82.8 bits (203), Expect = 1e-15,   Method: Compositional matrix adjust.
 Identities = 32/73 (43%), Positives = 48/73 (65%), Gaps = 3/73 (4%)

Query: 123 TAPADFRFPTTNQTRHCFTRYIEYHRCVAA---KGEGAPECDKFAKYYRALCPSDWIEKW 179
           T P D RFP  NQTR+C+  +++YHRCV     +G+    CD + + + +LCP  W+++W
Sbjct: 16  TPPFDPRFPNQNQTRNCYQNFLDYHRCVKTMDRRGKNTQACDYYFRVFHSLCPVSWVQRW 75

Query: 180 NEQRENGTFPGPL 192
           NEQ + GTFPG +
Sbjct: 76  NEQIKQGTFPGKI 88

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.

Rattus norvegicus (taxid: 10116)

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	192
255545796	191	cytochrome C oxidase polypeptide vib, pu	0.947	0.952	0.677	2e-56
356552918	175	PREDICTED: cytochrome c oxidase subunit	0.895	0.982	0.620	3e-56
118488086	183	unknown [Populus trichocarpa]	0.921	0.967	0.693	6e-56
449469835	195	PREDICTED: cytochrome c oxidase subunit	0.973	0.958	0.6	3e-54
351734496	174	uncharacterized protein LOC100306272 [Gl	0.906	1.0	0.609	5e-54
388508352	177	unknown [Lotus japonicus]	0.895	0.971	0.578	2e-51
15219886	191	cytochrome C oxidase 6B [Arabidopsis tha	0.932	0.937	0.576	3e-51
21554378	191	cytochrome c oxidase subunit, putative [	0.932	0.937	0.571	5e-51
297845268	192	hypothetical protein ARALYDRAFT_889753 [	0.942	0.942	0.628	1e-49
357489749	183	Subunit 6b of cytochrome c oxidase [Medi	0.869	0.912	0.571	2e-48

>gi|255545796|ref|XP_002513958.1| cytochrome C oxidase polypeptide vib, putative [Ricinus communis] gi|223547044|gb|EEF48541.1| cytochrome C oxidase polypeptide vib, putative [Ricinus communis]

 Score =  224 bits (570), Expect = 2e-56,   Method: Compositional matrix adjust.
 Identities = 126/186 (67%), Positives = 148/186 (79%), Gaps = 4/186 (2%)

Query: 9   TPSLAEDYLLE--KEKQDVATKPVEVKEVESAVTASSVEGATDKVEETPAAAAVEESKED 66
           TPSL+E YLL+  +EK DV  KPVEVKE     T  SV+ A  K EE PAAAA E++++ 
Sbjct: 8   TPSLSEQYLLKDKEEKPDVGPKPVEVKEDVKPETIVSVDAAVVKAEEEPAAAAEEKAEDT 67

Query: 67  APAPAPEESTEASSASPEDSTSDTAPAAAEESSETTEEENSGDQEASEETPDIKLETAPA 126
           A   A EEST  + A+  +S+S+  PA   ESSETTEE+NS +QEA+EETP IKLETAPA
Sbjct: 68  AGGGATEESTITNPAA--ESSSEDTPAVDTESSETTEEQNSTEQEAAEETPKIKLETAPA 125

Query: 127 DFRFPTTNQTRHCFTRYIEYHRCVAAKGEGAPECDKFAKYYRALCPSDWIEKWNEQRENG 186
           DFRFPTTNQTRHCFTRY+EYHRC AAKGEGAPECDKFAK+YR+LCP +WI++WNEQRENG
Sbjct: 126 DFRFPTTNQTRHCFTRYVEYHRCTAAKGEGAPECDKFAKFYRSLCPGEWIDRWNEQRENG 185

Query: 187 TFPGPL 192
           TFPGPL
Sbjct: 186 TFPGPL 191

Source: Ricinus communis

Species: Ricinus communis

Genus: Ricinus

Family: Euphorbiaceae

Order: Malpighiales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|356552918|ref|XP_003544809.1| PREDICTED: cytochrome c oxidase subunit 6b-1-like [Glycine max]

 Score =  223 bits (568), Expect = 3e-56,   Method: Compositional matrix adjust.
 Identities = 121/195 (62%), Positives = 141/195 (72%), Gaps = 23/195 (11%)

Query: 1   MAEAQSDKTPSLAEDYLLEKEKQDVATKPVEVKEVESAVTASSVEGATDKV--EETPAAA 58
           MAE   DK+ SLAE+Y ++ ++  V  KPVEVKEVE+   A+S E   +K   E TP A 
Sbjct: 1   MAETAVDKSQSLAEEYYVKDKQTAVVEKPVEVKEVENPEEAASEEPVAEKTVEETTPVAP 60

Query: 59  AV-EESKEDAPAPAPEESTEASSASPEDSTSDTAPAAAEESSETTEEENSGDQEASEETP 117
           AV +ES E  P PA EESTE                   E S    EENSG+++A+EETP
Sbjct: 61  AVAQESSEVTPPPA-EESTE-------------------EQSSGNVEENSGNEDAAEETP 100

Query: 118 DIKLETAPADFRFPTTNQTRHCFTRYIEYHRCVAAKGEGAPECDKFAKYYRALCPSDWIE 177
           +IKLETAPADFRFPTTNQTRHCFTRY+EYHRCVAAKGEGAPECDKFAKYYR+LCP +WI+
Sbjct: 101 EIKLETAPADFRFPTTNQTRHCFTRYVEYHRCVAAKGEGAPECDKFAKYYRSLCPGEWID 160

Query: 178 KWNEQRENGTFPGPL 192
           +WNEQRENGTFPGPL
Sbjct: 161 RWNEQRENGTFPGPL 175

Source: Glycine max

Species: Glycine max

Genus: Glycine

Family: Fabaceae

Order: Fabales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|118488086|gb|ABK95863.1| unknown [Populus trichocarpa]

 Score =  222 bits (565), Expect = 6e-56,   Method: Compositional matrix adjust.
 Identities = 129/186 (69%), Positives = 150/186 (80%), Gaps = 9/186 (4%)

Query: 9   TPSLAEDYLLE--KEKQDVATKPVEVKEVESAVTASSVEGATDKVEETPAAAAVEESKED 66
           TP+L+E Y L+  +EK DV +KPVEVKE E   TA S E A +K EETP  AA EE  ED
Sbjct: 5   TPTLSERYELKGKEEKTDVVSKPVEVKEEEKPATAVS-EEAVEKAEETPPLAA-EEKTED 62

Query: 67  APAPAPEESTEASSASPEDSTSDTAPAAAEESSETTEEENSGDQEASEETPDIKLETAPA 126
            PA A EESTEA +   ++S+S+ APAAAEE+SE TEE NSG++ A E+  +IKLETAPA
Sbjct: 63  TPAAA-EESTEAPTT--DESSSEDAPAAAEETSEGTEE-NSGEEAAEEKK-EIKLETAPA 117

Query: 127 DFRFPTTNQTRHCFTRYIEYHRCVAAKGEGAPECDKFAKYYRALCPSDWIEKWNEQRENG 186
           D+RFPTTNQTRHCFTRYIEYHRCVAAKGEGA ECDKFAKYYR+LCPS+W+E+WNEQR NG
Sbjct: 118 DYRFPTTNQTRHCFTRYIEYHRCVAAKGEGASECDKFAKYYRSLCPSEWVERWNEQRANG 177

Query: 187 TFPGPL 192
           TFPGPL
Sbjct: 178 TFPGPL 183

Source: Populus trichocarpa

Species: Populus trichocarpa

Genus: Populus

Family: Salicaceae

Order: Malpighiales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|449469835|ref|XP_004152624.1| PREDICTED: cytochrome c oxidase subunit 6b-1-like [Cucumis sativus] gi|449503913|ref|XP_004162224.1| PREDICTED: cytochrome c oxidase subunit 6b-1-like [Cucumis sativus]

 Score =  216 bits (551), Expect = 3e-54,   Method: Compositional matrix adjust.
 Identities = 120/200 (60%), Positives = 146/200 (73%), Gaps = 13/200 (6%)

Query: 1   MAEAQSDKTPSLAEDY-LLEKEKQDVATKPVEVKEVESAVTASSVEGATDKVEETPAAAA 59
           MAEAQS +TPSL+E Y L EKE++    +P EVKEVE++  A+  E      E  P   A
Sbjct: 1   MAEAQSQQTPSLSEQYSLKEKEEKVDIPQPSEVKEVENSENAAPAEVVVKNDE--PPVEA 58

Query: 60  VEESKEDAPAPAPEESTEASSASPEDSTSDTAPAAAEESSETTEEE-------NSGDQEA 112
           V +   D P PA E + ++S+A+ EDS  +T+PAA  +S    EE        NSGDQE+
Sbjct: 59  VADQSSDIP-PAEESNGDSSAAAVEDS--ETSPAAENDSGAAEEESSGAGEEENSGDQES 115

Query: 113 SEETPDIKLETAPADFRFPTTNQTRHCFTRYIEYHRCVAAKGEGAPECDKFAKYYRALCP 172
           ++E P+IKLETAP DFRFPTTNQTRHCFTRYIE+HRC  AKGEGAPEC+KFAKYYR+LCP
Sbjct: 116 TDERPEIKLETAPVDFRFPTTNQTRHCFTRYIEFHRCTQAKGEGAPECEKFAKYYRSLCP 175

Query: 173 SDWIEKWNEQRENGTFPGPL 192
           S+W+EKWNEQRENGTFPGPL
Sbjct: 176 SEWVEKWNEQRENGTFPGPL 195

Source: Cucumis sativus

Species: Cucumis sativus

Genus: Cucumis

Family: Cucurbitaceae

Order: Cucurbitales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|351734496|ref|NP_001236320.1| uncharacterized protein LOC100306272 [Glycine max] gi|255628065|gb|ACU14377.1| unknown [Glycine max]

 Score =  216 bits (549), Expect = 5e-54,   Method: Compositional matrix adjust.
 Identities = 117/192 (60%), Positives = 140/192 (72%), Gaps = 18/192 (9%)

Query: 1   MAEAQSDKTPSLAEDYLLEKEKQDVATKPVEVKEVESAVTASSVEGATDKVEETPAAAAV 60
           MAE  +DK+ SLAE+Y +  ++  V  K VEVKEVE+   A+S        EE  A   V
Sbjct: 1   MAET-ADKSQSLAEEYYVNDKQTTVVEKAVEVKEVENPKVAAS--------EEPVAEKTV 51

Query: 61  EESKEDAPAPAPEESTEASSASPEDSTSDTAPAAAEESSETTEEENSGDQEASEETPDIK 120
           EE+   APA A +ES+E +    E+ST        EE S    EENSG+++ +EETP+IK
Sbjct: 52  EETTPVAPAVA-QESSEVTPPPTEEST--------EEQSSGNVEENSGNEDVAEETPEIK 102

Query: 121 LETAPADFRFPTTNQTRHCFTRYIEYHRCVAAKGEGAPECDKFAKYYRALCPSDWIEKWN 180
           LETAPADFRFPTTNQTRHCFTRYIEYHRCVAAKGEGAPECDKFAKYYR+LCP +W+++WN
Sbjct: 103 LETAPADFRFPTTNQTRHCFTRYIEYHRCVAAKGEGAPECDKFAKYYRSLCPGEWVDRWN 162

Query: 181 EQRENGTFPGPL 192
           EQRENGTFPGPL
Sbjct: 163 EQRENGTFPGPL 174

Source: Glycine max

Species: Glycine max

Genus: Glycine

Family: Fabaceae

Order: Fabales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|388508352|gb|AFK42242.1| unknown [Lotus japonicus]

 Score =  207 bits (526), Expect = 2e-51,   Method: Compositional matrix adjust.
 Identities = 114/197 (57%), Positives = 135/197 (68%), Gaps = 25/197 (12%)

Query: 1   MAEAQSDKTPSLAEDYLLEKEKQDVATKPVEVKEVESAVTASSV---EGATDKV--EETP 55
           MAE   + +P+LAE Y + K+KQ+      +  EV+   T   V   E   +K   E TP
Sbjct: 1   MAEPAVENSPTLAEQYYV-KDKQEEKVVVEKPVEVKEVETPKEVAPEETVVEKTVEETTP 59

Query: 56  AAAAVEESKEDAPAPAPEESTEASSASPEDSTSDTAPAAAEESSETTEEENSGDQEASEE 115
            A AV E   + P P+ EESTE                   ++SE+ EEENSGDQEA+EE
Sbjct: 60  VAPAVVEESSEVP-PSAEESTEV------------------QTSESVEEENSGDQEAAEE 100

Query: 116 TPDIKLETAPADFRFPTTNQTRHCFTRYIEYHRCVAAKGEGAPECDKFAKYYRALCPSDW 175
           TP+IKLETAP DFRFPTTNQTRHCFTRYIEYHRCVAAKG+GAPECDKFAKYYRALCP +W
Sbjct: 101 TPEIKLETAPVDFRFPTTNQTRHCFTRYIEYHRCVAAKGDGAPECDKFAKYYRALCPGEW 160

Query: 176 IEKWNEQRENGTFPGPL 192
           +++WNEQRENGTFPGPL
Sbjct: 161 VDRWNEQRENGTFPGPL 177

Source: Lotus japonicus

Species: Lotus japonicus

Genus: Lotus

Family: Fabaceae

Order: Fabales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|15219886|ref|NP_173661.1| cytochrome C oxidase 6B [Arabidopsis thaliana] gi|75193983|sp|Q9S7L9.1|CX6B1_ARATH RecName: Full=Cytochrome c oxidase subunit 6b-1; Short=AtCOX6b-1 gi|6587843|gb|AAF18532.1|AC006551_18 Subunit 6b of cytochrome c oxidase [Arabidopsis thaliana] gi|6518353|dbj|BAA87883.1| subunit 6b of cytochrome c oxidase [Arabidopsis thaliana] gi|17381082|gb|AAL36353.1| putative cytochrome c oxidase subunit [Arabidopsis thaliana] gi|20465723|gb|AAM20330.1| putative cytochrome c oxidase subunit [Arabidopsis thaliana] gi|332192122|gb|AEE30243.1| cytochrome C oxidase 6B [Arabidopsis thaliana]

 Score =  207 bits (526), Expect = 3e-51,   Method: Compositional matrix adjust.
 Identities = 117/203 (57%), Positives = 144/203 (70%), Gaps = 24/203 (11%)

Query: 1   MAEAQSDKTPSLAEDYLLEKE-KQDVATKPVEVKEVESAVTASSVEGATDKVEETPAAAA 59
           MA+A + +TPSL+E Y LEKE KQD + KPVEVKEV   VT  + E  T           
Sbjct: 1   MADAVNAQTPSLSEQYHLEKEVKQDTSAKPVEVKEVAPEVTTQAEEVKT----------- 49

Query: 60  VEESKEDAPAPAPEESTEASSASPEDST--SDTAPAAAEESSET-------TEEENSGDQ 110
            E++KE++P        E  S S  +ST  +  APAAAE+++E          +EN+  +
Sbjct: 50  -EQAKEESPVEEAVSVVEEKSESAPESTEVASEAPAAAEDNAEETPAAAEENNDENAS-E 107

Query: 111 EASEETPD-IKLETAPADFRFPTTNQTRHCFTRYIEYHRCVAAKGEGAPECDKFAKYYRA 169
           E +EETPD IKLETAPADFRFPTTNQTRHCFTRY+EYHRCVAAKG+ APECDKFAK+YR+
Sbjct: 108 EVAEETPDEIKLETAPADFRFPTTNQTRHCFTRYVEYHRCVAAKGDDAPECDKFAKFYRS 167

Query: 170 LCPSDWIEKWNEQRENGTFPGPL 192
           LCPS+W+++WNEQRENGTFPGPL
Sbjct: 168 LCPSEWVDRWNEQRENGTFPGPL 190

Source: Arabidopsis thaliana

Species: Arabidopsis thaliana

Genus: Arabidopsis

Family: Brassicaceae

Order: Brassicales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|21554378|gb|AAM63485.1| cytochrome c oxidase subunit, putative [Arabidopsis thaliana]

 Score =  206 bits (523), Expect = 5e-51,   Method: Compositional matrix adjust.
 Identities = 116/203 (57%), Positives = 144/203 (70%), Gaps = 24/203 (11%)

Query: 1   MAEAQSDKTPSLAEDYLLEKE-KQDVATKPVEVKEVESAVTASSVEGATDKVEETPAAAA 59
           MA+A + +TPSL+E Y LEKE KQD + KPVEVKEV   VT  + E  T           
Sbjct: 1   MADAVNAQTPSLSEQYHLEKEVKQDTSAKPVEVKEVAPEVTTQAEEVKT----------- 49

Query: 60  VEESKEDAPAPAPEESTEASSASPEDST--SDTAPAAAEESSET-------TEEENSGDQ 110
            E++KE++P        E  S S  +ST  +  APAAA++++E          +EN+  +
Sbjct: 50  -EQAKEESPVEEAVSVVEEKSESAPESTEVASEAPAAAQDNAEETPAAAEENNDENAS-E 107

Query: 111 EASEETPD-IKLETAPADFRFPTTNQTRHCFTRYIEYHRCVAAKGEGAPECDKFAKYYRA 169
           E +EETPD IKLETAPADFRFPTTNQTRHCFTRY+EYHRCVAAKG+ APECDKFAK+YR+
Sbjct: 108 EVAEETPDEIKLETAPADFRFPTTNQTRHCFTRYVEYHRCVAAKGDDAPECDKFAKFYRS 167

Query: 170 LCPSDWIEKWNEQRENGTFPGPL 192
           LCPS+W+++WNEQRENGTFPGPL
Sbjct: 168 LCPSEWVDRWNEQRENGTFPGPL 190

Source: Arabidopsis thaliana

Species: Arabidopsis thaliana

Genus: Arabidopsis

Family: Brassicaceae

Order: Brassicales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|297845268|ref|XP_002890515.1| hypothetical protein ARALYDRAFT_889753 [Arabidopsis lyrata subsp. lyrata] gi|297336357|gb|EFH66774.1| hypothetical protein ARALYDRAFT_889753 [Arabidopsis lyrata subsp. lyrata]

 Score =  201 bits (511), Expect = 1e-49,   Method: Compositional matrix adjust.
 Identities = 127/202 (62%), Positives = 147/202 (72%), Gaps = 21/202 (10%)

Query: 1   MAEAQSDKTPSLAEDYLLEKE-KQDVATKPVEVKEVESAVTASSVEGATDKV-EETP--- 55
           MAEA + +TPSL+E Y LEKE KQD + KPVEVKEV   VT  + E  TD+  EE+P   
Sbjct: 1   MAEAVTAQTPSLSEQYHLEKEVKQDTSAKPVEVKEVVPEVTTQAEEVTTDQTKEESPVEE 60

Query: 56  AAAAVEESKEDAPAPAPEESTEASSASPEDSTSD----TAPAAAEESSETTEEENSGDQE 111
           A +AVEE  E AP     ESTE +S +P  +  D    T PA  E + E T EE      
Sbjct: 61  AVSAVEEKSESAP-----ESTEVTSEAPAAAAEDNAEETPPAIEENNDENTSEE------ 109

Query: 112 ASEETPD-IKLETAPADFRFPTTNQTRHCFTRYIEYHRCVAAKGEGAPECDKFAKYYRAL 170
            +EETPD IKLETAPADFRFPTTNQTRHCFTRYIEYHRCVAAKG+ APECDKFAK+YR+L
Sbjct: 110 VAEETPDEIKLETAPADFRFPTTNQTRHCFTRYIEYHRCVAAKGDDAPECDKFAKFYRSL 169

Query: 171 CPSDWIEKWNEQRENGTFPGPL 192
           CPS+W+++WNEQRENGTFPGPL
Sbjct: 170 CPSEWVDRWNEQRENGTFPGPL 191

Source: Arabidopsis lyrata subsp. lyrata

Species: Arabidopsis lyrata

Genus: Arabidopsis

Family: Brassicaceae

Order: Brassicales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|357489749|ref|XP_003615162.1| Subunit 6b of cytochrome c oxidase [Medicago truncatula] gi|355516497|gb|AES98120.1| Subunit 6b of cytochrome c oxidase [Medicago truncatula] gi|388493660|gb|AFK34896.1| unknown [Medicago truncatula]

 Score =  197 bits (500), Expect = 2e-48,   Method: Compositional matrix adjust.
 Identities = 108/189 (57%), Positives = 131/189 (69%), Gaps = 22/189 (11%)

Query: 11  SLAEDYLLE--KEKQDVATKPVEVKEVESAVTASSVEGATDKVEETPAAAAVEESKEDAP 68
           +LAE+Y ++  +EK++VA KPV V   E  V    VE      E TP  A VE++ E+  
Sbjct: 10  TLAEEYYVKDKQEKKEVAEKPVAV---EKPVAVEEVEKPK---EATPVEAVVEKTVEETI 63

Query: 69  APAPEESTEASSASPEDSTSDTAPAAAEESSETTEEE-----NSGDQEASEETPDIKLET 123
             AP  + E         +S+  P AAEE+++    E     NSGDQE +EE P+IKLET
Sbjct: 64  PAAPVVAEE---------SSEVTPPAAEENAQEESSETVVEENSGDQEEAEEKPEIKLET 114

Query: 124 APADFRFPTTNQTRHCFTRYIEYHRCVAAKGEGAPECDKFAKYYRALCPSDWIEKWNEQR 183
           AP DFRFPTTNQTRHCFTRYIEYHRCVAAKG+ APECDKFAKYYRALCP +W+++WNEQR
Sbjct: 115 APVDFRFPTTNQTRHCFTRYIEYHRCVAAKGDDAPECDKFAKYYRALCPGEWVDRWNEQR 174

Query: 184 ENGTFPGPL 192
           ENGTFPGPL
Sbjct: 175 ENGTFPGPL 183

Source: Medicago truncatula

Species: Medicago truncatula

Genus: Medicago

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	192
TAIR|locus:2009497	191	COX6B "cytochrome C oxidase 6B	0.447	0.450	0.816	6.8e-51
TAIR|locus:505006698	78	AT5G57815 [Arabidopsis thalian	0.390	0.961	0.773	6.7e-33
POMBASE|SPCC1442.08c	86	cox12 "cytochrome c oxidase su	0.437	0.976	0.511	5.5e-22
FB|FBgn0031066	96	CoVIb "Cytochrome c oxidase su	0.437	0.875	0.494	8e-21
SGD|S000004028	83	COX12 "Subunit VIb of cytochro	0.375	0.867	0.541	6.5e-19
ZFIN|ZDB-GENE-040718-448	86	cox6b1 "cytochrome c oxidase s	0.380	0.848	0.518	1.7e-18
ZFIN|ZDB-GENE-040426-1566	86	cox6b2 "cytochrome c oxidase s	0.364	0.813	0.452	2e-17
UNIPROTKB|P14854	86	COX6B1 "Cytochrome c oxidase s	0.406	0.906	0.444	3.2e-17
ASPGD|ASPL0000002106	84	AN6255 [Emericella nidulans (t	0.343	0.785	0.515	4.1e-17
UNIPROTKB|Q6YFQ2	88	COX6B2 "Cytochrome c oxidase s	0.432	0.943	0.413	1.4e-16

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

 Score = 423 (154.0 bits), Expect = 6.8e-51, Sum P(2) = 6.8e-51
 Identities = 71/87 (81%), Positives = 82/87 (94%)

Query:   107 SGDQEASEETPD-IKLETAPADFRFPTTNQTRHCFTRYIEYHRCVAAKGEGAPECDKFAK 165
             +  +E +EETPD IKLETAPADFRFPTTNQTRHCFTRY+EYHRCVAAKG+ APECDKFAK
Sbjct:   104 NASEEVAEETPDEIKLETAPADFRFPTTNQTRHCFTRYVEYHRCVAAKGDDAPECDKFAK 163

Query:   166 YYRALCPSDWIEKWNEQRENGTFPGPL 192
             +YR+LCPS+W+++WNEQRENGTFPGPL
Sbjct:   164 FYRSLCPSEWVDRWNEQRENGTFPGPL 190

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

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

 Score = 359 (131.4 bits), Expect = 6.7e-33, P = 6.7e-33
 Identities = 58/75 (77%), Positives = 70/75 (93%)

Query:   118 DIKLETAPADFRFPTTNQTRHCFTRYIEYHRCVAAKGEGAPECDKFAKYYRALCPSDWIE 177
             +I+L+TAPADFRFPTTNQTRHCFTRYIE+HRC  AKGE + +C++FAKYYRALCP +W++
Sbjct:     4 EIELKTAPADFRFPTTNQTRHCFTRYIEFHRCTTAKGEESNDCERFAKYYRALCPGEWVD 63

Query:   178 KWNEQRENGTFPGPL 192
             KWNEQRE+GTFPGPL
Sbjct:    64 KWNEQRESGTFPGPL 78

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

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

 Score = 256 (95.2 bits), Expect = 5.5e-22, P = 5.5e-22
 Identities = 43/84 (51%), Positives = 55/84 (65%)

Query:   109 DQEASEETPDIKLETAPADFRFPTTNQTRHCFTRYIEYHRCVAAKGEGAPECDKFAKYYR 168
             +QE  E        T   D RFP TNQT+HCF  YI+Y RC+ AKGE    C +F   Y+
Sbjct:     3 EQEDQEAPKQFTFGTVGFDARFPNTNQTKHCFQSYIDYFRCIKAKGEDFVPCKQFWHAYQ 62

Query:   169 ALCPSDWIEKWNEQRENGTFPGPL 192
             +LCP +W+E+W+EQRENGTFP P+
Sbjct:    63 SLCPMEWVERWDEQRENGTFPAPI 86

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

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

 Score = 245 (91.3 bits), Expect = 8.0e-21, P = 8.0e-21
 Identities = 42/85 (49%), Positives = 58/85 (68%)

Query:   107 SGDQEA-SEETPDIKLETAPADFRFPTTNQTRHCFTRYIEYHRCVAAKGEGAPECDKFAK 165
             S D+ + S      KLETAP D RFP  N TR+C+  YI++HRC   +GE    C+ F K
Sbjct:    10 SSDKSSDSSNMSAYKLETAPFDPRFPNQNVTRYCYQSYIDFHRCQKKRGEDFAPCNYFQK 69

Query:   166 YYRALCPSDWIEKWNEQRENGTFPG 190
              Y+++CP+ W+EKW++QRE+GTFPG
Sbjct:    70 VYKSMCPNAWVEKWDDQRESGTFPG 94

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

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

GO:0022008 "neurogenesis" evidence=IMP

SGD|S000004028 COX12 "Subunit VIb of cytochrome c oxidase" [Saccharomyces cerevisiae (taxid:4932)]

 Score = 227 (85.0 bits), Expect = 6.5e-19, P = 6.5e-19
 Identities = 39/72 (54%), Positives = 47/72 (65%)

Query:   121 LETAPADFRFPTTNQTRHCFTRYIEYHRCVAAKGEGAPECDKFAKYYRALCPSDWIEKWN 180
             L T   D RFP  NQT+HC+  Y++YH+CV  KGE    C  F K Y ALCP DWIEKW+
Sbjct:     9 LHTVGFDARFPQQNQTKHCWQSYVDYHKCVNMKGEDFAPCKVFWKTYNALCPLDWIEKWD 68

Query:   181 EQRENGTFPGPL 192
             +QRE G F G +
Sbjct:    69 DQREKGIFAGDI 80

GO:0005758 "mitochondrial intermembrane space" evidence=IDA

GO:0005739 "mitochondrion" evidence=IEA;IDA

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

GO:0016021 "integral to membrane" evidence=ISM

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

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

ZFIN|ZDB-GENE-040718-448 cox6b1 "cytochrome c oxidase subunit VIb polypeptide 1" [Danio rerio (taxid:7955)]

 Score = 223 (83.6 bits), Expect = 1.7e-18, P = 1.7e-18
 Identities = 41/79 (51%), Positives = 52/79 (65%)

Query:   120 KLE---TAPADFRFPTTNQTRHCFTRYIEYHRC---VAAKGEGAPECDKFAKYYRALCPS 173
             KLE   TAP D RFP  NQTR+C+  Y++YHRC   + AKG     CD + + Y++LCP 
Sbjct:     8 KLENYRTAPFDARFPNQNQTRNCWQNYLDYHRCQKALDAKGVDTAPCDWYKRVYKSLCPL 67

Query:   174 DWIEKWNEQRENGTFPGPL 192
              WIEKW+ QRE G FPG +
Sbjct:    68 SWIEKWDTQREEGNFPGKI 86

GO:0005739 "mitochondrion" evidence=IEA

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

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

 Score = 213 (80.0 bits), Expect = 2.0e-17, P = 2.0e-17
 Identities = 33/73 (45%), Positives = 52/73 (71%)

Query:   123 TAPADFRFPTTNQTRHCFTRYIEYHRC---VAAKGEGAPECDKFAKYYRALCPSDWIEKW 179
             TAP D RFP TNQTR+C+  Y+++HRC   +++KG+    C+ + + Y++LCP  W+ KW
Sbjct:    14 TAPFDARFPNTNQTRNCYQNYLDFHRCNKALSSKGQDTSPCEWYQRVYKSLCPISWVGKW 73

Query:   180 NEQRENGTFPGPL 192
             + Q E+G+FPG +
Sbjct:    74 DSQIEDGSFPGKI 86

GO:0005739 "mitochondrion" evidence=IEA

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

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

 Score = 211 (79.3 bits), Expect = 3.2e-17, P = 3.2e-17
 Identities = 36/81 (44%), Positives = 52/81 (64%)

Query:   115 ETPDIKLETAPADFRFPTTNQTRHCFTRYIEYHRC---VAAKGEGAPECDKFAKYYRALC 171
             ET     +TAP D RFP  NQTR+C+  Y+++HRC   + AKG     C+ + + Y++LC
Sbjct:     6 ETKIKNYKTAPFDSRFPNQNQTRNCWQNYLDFHRCQKAMTAKGGDISVCEWYQRVYQSLC 65

Query:   172 PSDWIEKWNEQRENGTFPGPL 192
             P+ W+  W+EQR  GTFPG +
Sbjct:    66 PTSWVTDWDEQRAEGTFPGKI 86

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

ASPGD|ASPL0000002106 AN6255 [Emericella nidulans (taxid:162425)]

 Score = 210 (79.0 bits), Expect = 4.1e-17, P = 4.1e-17
 Identities = 34/66 (51%), Positives = 45/66 (68%)

Query:   127 DFRFPTTNQTRHCFTRYIEYHRCVAAKGEGAPECDKFAKYYRALCPSDWIEKWNEQRENG 186
             D RFP  NQT+HC+  Y++YH+CV AKGE    C +F   +R+LCP  W ++W+EQRE G
Sbjct:    17 DARFPQQNQTKHCWQNYVDYHKCVNAKGEDFRPCRQFYLAFRSLCPKPWTDRWDEQREAG 76

Query:   187 TFPGPL 192
              FP  L
Sbjct:    77 NFPARL 82

GO:0006091 "generation of precursor metabolites and energy" evidence=RCA

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

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

GO:0005634 "nucleus" evidence=IEA

GO:0005829 "cytosol" evidence=IEA

GO:0005758 "mitochondrial intermembrane space" evidence=IEA

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

UNIPROTKB|Q6YFQ2 COX6B2 "Cytochrome c oxidase subunit 6B2" [Homo sapiens (taxid:9606)]

 Score = 205 (77.2 bits), Expect = 1.4e-16, P = 1.4e-16
 Identities = 36/87 (41%), Positives = 53/87 (60%)

Query:   109 DQEASEETPDIKLETAPADFRFPTTNQTRHCFTRYIEYHRCVAAK---GEGAPECDKFAK 165
             D EA +E P  K  T P D RFP+ NQ R+C+  +++YHRC+  +   G+    C+ + +
Sbjct:     3 DVEA-QEPPKGKWSTPPFDPRFPSQNQIRNCYQNFLDYHRCLKTRTRRGKSTQPCEYYFR 61

Query:   166 YYRALCPSDWIEKWNEQRENGTFPGPL 192
              Y +LCP  W+E WNEQ +NG F G +
Sbjct:    62 VYHSLCPISWVESWNEQIKNGIFAGKI 88

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

GO:0005758 "mitochondrial intermembrane space" evidence=IEA

GO:0030061 "mitochondrial crista" evidence=IDA

---

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)
Q9S7L9	CX6B1_ARATH	No assigned EC number	0.5763	0.9322	0.9371	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:
	COX6B	COX6B (CYTOCHROME C OXIDASE 6B); cytochrome-c oxidase; subunit 6b of cytochrome c oxidase (191 aa)
		(Arabidopsis thaliana)
Predicted Functional Partners:
	NDA1	NDA1 (ALTERNATIVE NAD(P)H DEHYDROGENASE 1); NADH dehydrogenase; Internal NAD(P)H dehydrogenase [...] (510 aa)							•		0.953
	NDB2	NDB2 (NAD(P)H dehydrogenase B2); FAD binding / disulfide oxidoreductase/ oxidoreductase; NAD(P) [...] (582 aa)							•		0.927
	NDB1	NDB1 (NAD(P)H dehydrogenase B1); NADH dehydrogenase/ disulfide oxidoreductase; NAD(P)H dehydrog [...] (571 aa)							•		0.913
	NDA2	NDA2 (ALTERNATIVE NAD(P)H DEHYDROGENASE 2); FAD binding / NADH dehydrogenase/ oxidoreductase; A [...] (508 aa)							•		0.909
	NDB4	NDB4 (NAD(P)H dehydrogenase B4); NADH dehydrogenase; NAD(P)H dehydrogenase B4 (NDB4); FUNCTIONS [...] (582 aa)							•		0.907
	AT1G80230	cytochrome c oxidase family protein; cytochrome c oxidase family protein; FUNCTIONS IN- cytochr [...] (171 aa)				•		•	•		0.811
	AOX1C	AOX1C; alternative oxidase; encodes an isoform of alternate oxidase. expressed in all tissues e [...] (329 aa)							•		0.790
	AHK2	AHK2 (ARABIDOPSIS HISTIDINE KINASE 2); cytokinin receptor/ osmosensor/ protein histidine kinase [...] (1176 aa)					•				0.736
	EMB1467	EMB1467 (embryo defective 1467); NADH dehydrogenase (ubiquinone)/ NADH dehydrogenase/ electron [...] (748 aa)				•			•		0.694
	AT5G14030	translocon-associated protein beta (TRAPB) family protein; translocon-associated protein beta ( [...] (195 aa)				•					0.694

---

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	192
cd00926	75	cd00926, Cyt_c_Oxidase_VIb, Cytochrome c oxidase s	1e-40
pfam02297	66	pfam02297, COX6B, Cytochrome oxidase c subunit VIb	1e-25
PRK10811	1068	PRK10811, rne, ribonuclease E; Reviewed	7e-04
PRK13108	460	PRK13108, PRK13108, prolipoprotein diacylglyceryl	0.001
PRK13108	460	PRK13108, PRK13108, prolipoprotein diacylglyceryl	0.003
PRK10811	1068	PRK10811, rne, ribonuclease E; Reviewed	0.004

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

 Score =  132 bits (333), Expect = 1e-40
 Identities = 44/73 (60%), Positives = 54/73 (73%)

Query: 119 IKLETAPADFRFPTTNQTRHCFTRYIEYHRCVAAKGEGAPECDKFAKYYRALCPSDWIEK 178
             L TAP D RFP  NQT+HC+ RY++YHRC+ AKGE A  C KF + Y +LCP +W+EK
Sbjct: 3   GPLTTAPFDPRFPNQNQTKHCWQRYVDYHRCIKAKGEDASPCKKFRRVYESLCPQEWLEK 62

Query: 179 WNEQRENGTFPGP 191
           W+EQRE GTFPG 
Sbjct: 63  WDEQREEGTFPGK 75

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 = 93.6 bits (233), Expect = 1e-25
 Identities = 28/65 (43%), Positives = 39/65 (60%), Gaps = 4/65 (6%)

Query: 129 RFPTTNQTRHCFTRYIEYHRCVAAKGEGAPECDKFAKYYRALCPSDWIEKWNEQR----E 184
           RFP  NQ +HC+    ++ +C+   GE    C KF K Y +LCP+ W+E ++EQR    E
Sbjct: 2   RFPNQNQRKHCWQARDDFFKCLDKNGEDNSPCKKFKKNYESLCPASWVEYFDEQRVDLRE 61

Query: 185 NGTFP 189
            GTFP
Sbjct: 62  EGTFP 66

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

>gnl|CDD|236766 PRK10811, rne, ribonuclease E; Reviewed

 Score = 39.3 bits (92), Expect = 7e-04
 Identities = 20/119 (16%), Positives = 32/119 (26%), Gaps = 17/119 (14%)

Query: 26   ATKPVEVKEVESAVTASSVEGATDKVEET-----------------PAAAAVEESKEDAP 68
              + V     E  V A         VE T                  +  AV +   +  
Sbjct: 887  VVEAVAEVVEEPVVVAEPQPEEVVVVETTHPEVIAAPVTEQPQVITESDVAVAQEVAEHA 946

Query: 69   APAPEESTEASSASPEDSTSDTAPAAAEESSETTEEENSGDQEASEETPDIKLETAPAD 127
             P  E   E +       T++   A  E  ++      +      E    ++ E APA 
Sbjct: 947  EPVVEPQDETADIEEAAETAEVVVAEPEVVAQPAAPVVAEVAAEVETVTAVEPEVAPAQ 1005

Length = 1068

>gnl|CDD|237284 PRK13108, PRK13108, prolipoprotein diacylglyceryl transferase; Reviewed

 Score = 38.4 bits (89), Expect = 0.001
 Identities = 23/109 (21%), Positives = 32/109 (29%), Gaps = 4/109 (3%)

Query: 23  QDVATKPVEVKEVESAVTASSVEG----ATDKVEETPAAAAVEESKEDAPAPAPEESTEA 78
           + V  +  EV +  +A +   V      +T  VEET  A    E   D    AP      
Sbjct: 331 EAVKAEVAEVTDEVAAESVVQVADRDGESTPAVEETSEADIEREQPGDLAGQAPAAHQVD 390

Query: 79  SSASPEDSTSDTAPAAAEESSETTEEENSGDQEASEETPDIKLETAPAD 127
           + A+        A A+        E             PD      P D
Sbjct: 391 AEAASAAPEEPAALASEAHDETEPEVPEKAAPIPDPAKPDELAVAGPGD 439

Length = 460

>gnl|CDD|237284 PRK13108, PRK13108, prolipoprotein diacylglyceryl transferase; Reviewed

 Score = 37.3 bits (86), Expect = 0.003
 Identities = 19/89 (21%), Positives = 33/89 (37%), Gaps = 3/89 (3%)

Query: 38  AVTASSVEGATDKVEETPAAAAVEESKEDA-PAPAPEESTEASSASPEDSTSDTAPAAAE 96
            V  +      +  +E  A + V+ +  D    PA EE++EA     +    D A  A  
Sbjct: 328 DVAEAVKAEVAEVTDEVAAESVVQVADRDGESTPAVEETSEADIEREQ--PGDLAGQAPA 385

Query: 97  ESSETTEEENSGDQEASEETPDIKLETAP 125
                 E  ++  +E +    +   ET P
Sbjct: 386 AHQVDAEAASAAPEEPAALASEAHDETEP 414

Length = 460

>gnl|CDD|236766 PRK10811, rne, ribonuclease E; Reviewed

 Score = 36.9 bits (86), Expect = 0.004
 Identities = 19/124 (15%), Positives = 31/124 (25%), Gaps = 5/124 (4%)

Query: 9   TPSLAEDYLLEKEKQDVATKPVEVKEVESAVTASSVEGATDKVEETPAAAAVEESKEDAP 68
            P   +     + ++      V    V +AV         + V E      V    +   
Sbjct: 849 RPQDVQVEEQREAEEVQVQPVVAEVPVAAAVEPVVSAPVVEAVAEVVEEPVVVAEPQPEE 908

Query: 69  APAPEESTEASSASPEDS-----TSDTAPAAAEESSETTEEENSGDQEASEETPDIKLET 123
               E +     A+P        T      A E +          D+ A  E      E 
Sbjct: 909 VVVVETTHPEVIAAPVTEQPQVITESDVAVAQEVAEHAEPVVEPQDETADIEEAAETAEV 968

Query: 124 APAD 127
             A+
Sbjct: 969 VVAE 972

Length = 1068

Conserved Domains Detected by HHsearch

Original result of HHsearch against CDD database

ID	Length	Definition	Probability
Query	192
KOG3057	112	consensus Cytochrome c oxidase, subunit VIb/COX12	100.0
cd00926	75	Cyt_c_Oxidase_VIb Cytochrome c oxidase subunit VIb	100.0
PF02297	76	COX6B: Cytochrome oxidase c subunit VIb; InterPro:	99.91
PF06747	35	CHCH: CHCH domain; InterPro: IPR010625 A conserved	92.43
KOG4618	74	consensus Uncharacterized conserved protein [Funct	92.06

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

Probab=100.00  E-value=5.8e-37  Score=240.26  Aligned_cols=80  Identities=65%  Similarity=1.292  Sum_probs=76.4

Q ss_pred             cccCCCcccccCCCCCCCCChHHHHHHHHhhhhhhhhhhhcCCChhhHHHHHHHHHhhChHHHHHHHHHhhhcCCCCCCC
Q 029541          113 SEETPDIKLETAPADFRFPTTNQTRHCFTRYIEYHRCVAAKGEGAPECDKFAKYYRALCPSDWIEKWNEQRENGTFPGPL  192 (192)
Q Consensus       113 ~~~~~~~~l~TaP~DpRFPn~NQrK~CW~~YddY~rCl~~kGED~s~Ckkfrk~YeSlCP~sWVE~WDEqRe~GtFpgki  192 (192)
                      ......+.|.|+|+|+||||+|||||||++|+|||||++++|+|+..|++|+++|+|+||.+||++||+||++|+|||+|
T Consensus        32 ~~~~~~~~l~tap~d~RFP~~nqtrhCf~~y~dyhrC~~~~geD~~~Ck~f~~~y~SlCP~~WV~kWdeqre~G~Fpg~~  111 (112)
T KOG3057|consen   32 PETPKSKLLTTAPVDARFPNTNQTRHCFQRYVDYHRCIKAKGEDANPCKKFQKVYRSLCPGEWVEKWDEQRENGTFPGPI  111 (112)
T ss_pred             cccccccccccccccccCCCcchhHHHHHHHHHHHHHHHHhcccchhHHHHHHHHHHhCcHHHHHHHHHhhhcCCCCCCC
Confidence            35566778999999999999999999999999999999999999999999999999999999999999999999999986

>cd00926 Cyt_c_Oxidase_VIb Cytochrome c oxidase subunit VIb

Probab=100.00  E-value=3.6e-36  Score=220.02  Aligned_cols=73  Identities=60%  Similarity=1.257  Sum_probs=71.4

Q ss_pred             cccccCCCCCCCCChHHHHHHHHhhhhhhhhhhhcCCChhhHHHHHHHHHhhChHHHHHHHHHhhhcCCCCCC
Q 029541          119 IKLETAPADFRFPTTNQTRHCFTRYIEYHRCVAAKGEGAPECDKFAKYYRALCPSDWIEKWNEQRENGTFPGP  191 (192)
Q Consensus       119 ~~l~TaP~DpRFPn~NQrK~CW~~YddY~rCl~~kGED~s~Ckkfrk~YeSlCP~sWVE~WDEqRe~GtFpgk  191 (192)
                      +.|+|+|+||||||+|||+|||++||+||+||+++|+|+++|++|++.|+++||.+||++|++||++|+||++
T Consensus         3 ~~~~t~~~D~RfP~~nq~k~Cw~~y~~y~~Cl~~~ged~~~C~~~~~~~es~Cp~~Wve~w~ekR~~g~f~~~   75 (75)
T cd00926           3 GPLTTAPFDPRFPNQNQTKHCWQRYVDYHRCIKAKGEDASPCKKFRRVYESLCPQEWLEKWDEQREEGTFPGK   75 (75)
T ss_pred             ccccCCCCCCCCCChHHHHHHHHHHHHHHHHHHHcCCchHHHHHHHHHHHHhCcHHHHHHHHHHHHhCCCCCC
Confidence            5699999999999999999999999999999999999999999999999999999999999999999999986

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.

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

Probab=99.91  E-value=3.5e-25  Score=160.53  Aligned_cols=60  Identities=33%  Similarity=0.814  Sum_probs=50.4

Q ss_pred             CCCCChHHHHHHHHhhhhhhhhhhhcCC---------ChhhHHHHHHHHHhhChHHHHHHHHHhhhcCC
Q 029541          128 FRFPTTNQTRHCFTRYIEYHRCVAAKGE---------GAPECDKFAKYYRALCPSDWIEKWNEQRENGT  187 (192)
Q Consensus       128 pRFPn~NQrK~CW~~YddY~rCl~~kGE---------D~s~Ckkfrk~YeSlCP~sWVE~WDEqRe~Gt  187 (192)
                      ||||++|||++||++||+||+||+.+|+         +.+.|+.|++.|+++||.+||+||+++|.+.+
T Consensus         1 ~rfP~~~~r~~Cw~arD~y~~Cl~~~~~~~~~~~~~~~~~~C~~~~~~ye~~Cp~sWv~~f~~~R~~~~   69 (76)
T PF02297_consen    1 PRFPNRNQRKKCWQARDDYFKCLDKNGEPDSEKEKKKDESACKYFRKNYESNCPSSWVKYFDEKRVYDQ   69 (76)
T ss_dssp             -TS-SSB-HHHHHHHHHHHHHHHHHHHH------TTTTGGGGHHHHHHHHHHS-HHHHHHHHHH-----
T ss_pred             CCCCChHHHHHHHHHHHHHHHHHHHcCccccccccccchhhhHHHHHHHHHhCcHHHHHHHHHHhhHHH
Confidence            7999999999999999999999999999         89999999999999999999999999955443

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 ....

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

Probab=92.43  E-value=0.098  Score=32.17  Aligned_cols=31  Identities=23%  Similarity=0.436  Sum_probs=26.4

Q ss_pred             HHHhhhhhhhhhhhcCCChhhHHHHHHHHHh
Q 029541          139 CFTRYIEYHRCVAAKGEGAPECDKFAKYYRA  169 (192)
Q Consensus       139 CW~~YddY~rCl~~kGED~s~Ckkfrk~YeS  169 (192)
                      |-.-...|+.|++.++.+...|.++.+.|+.
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            4556788999999999999999999999986

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.

>KOG4618 consensus Uncharacterized conserved protein [Function unknown]

Probab=92.06  E-value=0.26  Score=37.05  Aligned_cols=47  Identities=19%  Similarity=0.511  Sum_probs=41.4

Q ss_pred             HHHHHhhhhhhhhhhhcCCChhhHHHHHHHHHhhChHHHHHHHHHhhh
Q 029541          137 RHCFTRYIEYHRCVAAKGEGAPECDKFAKYYRALCPSDWIEKWNEQRE  184 (192)
Q Consensus       137 K~CW~~YddY~rCl~~kGED~s~Ckkfrk~YeSlCP~sWVE~WDEqRe  184 (192)
                      .-|...+..=++||..+|-|-+.|..++..|+ .|-..|.+-=-++|.
T Consensus        22 nPCl~es~aSfkCLeennyDRsKCq~yFd~Yk-eCKkfwn~ar~errk   68 (74)
T KOG4618|consen   22 NPCLLESSASFKCLEENNYDRSKCQDYFDVYK-ECKKFWNEARLERRK   68 (74)
T ss_pred             ChHHHHHHHHHHHHHhcCccHHHHHHHHHHHH-HHHHHHHHHHHHHhh
Confidence            56999999999999999999999999999997 599999887666654

---

Homologous Structure Templates

Structure Templates Detected by BLAST

Original result of BLAST against Protein Data Bank

ID	Length	Definition	E-value
Query	192
2y69_H	86	Bovine Heart Cytochrome C Oxidase Re-Refined With M		4e-16
1occ_H	85	Structure Of Bovine Heart Cytochrome C Oxidase At T		5e-16

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

Iteration: 1
 Score = 80.9 bits (198), Expect = 4e-16,   Method: Compositional matrix adjust.
 Identities = 32/74 (43%), Positives = 49/74 (66%), Gaps = 3/74 (4%)
Query: 122 ETAPADFRFPTTNQTRHCFTRYIEYHRC---VAAKGEGAPECDKFAKYYRALCPSDWIEK 178
           +TAP D RFP  NQTR+C+  Y+++HRC   + AKG     C+ + + Y++LCP  W+  
Sbjct: 13  QTAPFDSRFPNQNQTRNCWQNYLDFHRCEKAMTAKGGDVSVCEWYRRVYKSLCPISWVST 72
Query: 179 WNEQRENGTFPGPL 192
           W+++R  GTFPG +
Sbjct: 73  WDDRRAEGTFPGKI 86

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

Iteration: 1
 Score = 80.9 bits (198), Expect = 5e-16,   Method: Compositional matrix adjust.
 Identities = 32/74 (43%), Positives = 49/74 (66%), Gaps = 3/74 (4%)
Query: 122 ETAPADFRFPTTNQTRHCFTRYIEYHRC---VAAKGEGAPECDKFAKYYRALCPSDWIEK 178
           +TAP D RFP  NQTR+C+  Y+++HRC   + AKG     C+ + + Y++LCP  W+  
Sbjct: 12  QTAPFDSRFPNQNQTRNCWQNYLDFHRCEKAMTAKGGDVSVCEWYRRVYKSLCPISWVST 71
Query: 179 WNEQRENGTFPGPL 192
           W+++R  GTFPG +
Sbjct: 72  WDDRRAEGTFPGKI 85
  Database: pdbaa

Structure Templates Detected by RPS-BLAST

Original result of RPS-BLAST against PDB70 database

ID	Length	Definition	E-value
Query	192
1v54_H	85	AED, cytochrome C oxidase polypeptide VIB; oxidore	1e-38

>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 =  126 bits (319), Expect = 1e-38
 Identities = 32/83 (38%), Positives = 50/83 (60%), Gaps = 3/83 (3%)

Query: 113 SEETPDIKLETAPADFRFPTTNQTRHCFTRYIEYHRC---VAAKGEGAPECDKFAKYYRA 169
             +      +TAP D RFP  NQTR+C+  Y+++HRC   + AKG     C+ + + Y++
Sbjct: 3   DIQAKIKNYQTAPFDSRFPNQNQTRNCWQNYLDFHRCEKAMTAKGGDVSVCEWYRRVYKS 62

Query: 170 LCPSDWIEKWNEQRENGTFPGPL 192
           LCP  W+  W+++R  GTFPG +
Sbjct: 63  LCPISWVSTWDDRRAEGTFPGKI 85

Structure Templates Detected by HHsearch

Original result of HHsearch against PDB70 database

ID	Length	Definition	Probability
Query	192
1v54_H	85	AED, cytochrome C oxidase polypeptide VIB; oxidore	100.0
2lqt_A	85	Coiled-coil-helix-coiled-coil-helix domain-contai	97.0
1ei0_A	38	P8MTCP1; helix-turn-helix, disulfide bridges, cell	88.81
2lql_A	113	Coiled-coil-helix-coiled-coil-helix domain-contai	84.74
1hp8_A	68	HU-P8; leukemia, cysteine motif; NMR {Homo sapiens	80.94

>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=7.5e-38  Score=233.00  Aligned_cols=77  Identities=42%  Similarity=1.011  Sum_probs=72.5

Q ss_pred             CCCcccccCCCCCCCCChHHHHHHHHhhhhhhhhhhh---cCCChhhHHHHHHHHHhhChHHHHHHHHHhhhcCCCCCCC
Q 029541          116 TPDIKLETAPADFRFPTTNQTRHCFTRYIEYHRCVAA---KGEGAPECDKFAKYYRALCPSDWIEKWNEQRENGTFPGPL  192 (192)
Q Consensus       116 ~~~~~l~TaP~DpRFPn~NQrK~CW~~YddY~rCl~~---kGED~s~Ckkfrk~YeSlCP~sWVE~WDEqRe~GtFpgki  192 (192)
                      ++..+|+|+|+||||||+|||+|||++|++||+|+++   +|+|.++|++|++.|+++||.+||++||+||++|+|||+|
T Consensus         6 ~~~~~~~tap~D~rFPn~nq~k~Cw~~y~df~~C~~~l~~~ged~~~C~~~~~~y~slCP~sWVe~wdeqR~~g~f~~k~   85 (85)
T 1v54_H            6 AKIKNYQTAPFDSRFPNQNQTRNCWQNYLDFHRCEKAMTAKGGDVSVCEWYRRVYKSLCPISWVSTWDDRRAEGTFPGKI   85 (85)
T ss_dssp             -CCCCCCSCCCCTTSCSSBCHHHHHHHHHHHHHHHHHHHHHTCCGGGGHHHHHHHHHHSCHHHHHHHHHHHHHTCCCSCC
T ss_pred             ccccccccCCCCCCCCChHHHHHHHHHHHHHHHHHHHHHhcCCchHHHHHHHHHHHHcChHHHHHHHHHHHHhCCCCCCC
Confidence            4556799999999999999999999999999999555   9999999999999999999999999999999999999997

>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=97.00  E-value=0.00073  Score=50.57  Aligned_cols=52  Identities=21%  Similarity=0.448  Sum_probs=48.6

Q ss_pred             HHHHhhhhhhhhhhhcCCChhhHHHHHHHHHhhChHHHHHHHHHhhhcCCCCC
Q 029541          138 HCFTRYIEYHRCVAAKGEGAPECDKFAKYYRALCPSDWIEKWNEQRENGTFPG  190 (192)
Q Consensus       138 ~CW~~YddY~rCl~~kGED~s~Ckkfrk~YeSlCP~sWVE~WDEqRe~GtFpg  190 (192)
                      -|...+..=++||+.++.|.+.|..|+..|+ .|-..|++.=.++|.+|+.|.
T Consensus        15 PC~~e~~~S~kCL~~n~yDr~~C~~yF~~Yk-~CKk~W~~v~~eRRr~Gi~P~   66 (85)
T 2lqt_A           15 PCLSESDASTRCLDENNYDRERCSTYFLRYK-NCRRFWNSIVMQRRKNGVKPF   66 (85)
T ss_dssp             CCHHHHHHHHHHHHHTTTCTTTTHHHHHHHH-HHHHHHHHHHHHHHTTCCSCS
T ss_pred             ccHHHHHHHHHHHHHcCccHHHHHHHHHHHH-HHHHHHHHHHHHHHHCCCCCC
Confidence            3999999999999999999999999999997 599999999999999999885

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

Probab=88.81  E-value=0.26  Score=31.32  Aligned_cols=33  Identities=15%  Similarity=0.374  Sum_probs=28.1

Q ss_pred             HHHhhhhhhhhhhhcCCChhhHHHHHHHHHhhC
Q 029541          139 CFTRYIEYHRCVAAKGEGAPECDKFAKYYRALC  171 (192)
Q Consensus       139 CW~~YddY~rCl~~kGED~s~Ckkfrk~YeSlC  171 (192)
                      |-...-.|..||..+|-|.+.|..+...|+.-|
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            455567899999999999999999988888655

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

Probab=84.74  E-value=0.36  Score=36.88  Aligned_cols=37  Identities=8%  Similarity=0.391  Sum_probs=32.6

Q ss_pred             hHHHHHHHHhhhhhhhhhhhcCCChhhHHHHHHHHHh
Q 029541          133 TNQTRHCFTRYIEYHRCVAAKGEGAPECDKFAKYYRA  169 (192)
Q Consensus       133 ~NQrK~CW~~YddY~rCl~~kGED~s~Ckkfrk~YeS  169 (192)
                      +.=+++|-.-+..|+.||+.+..+...|.+..+.|+.
T Consensus        55 ~~I~~~C~~ef~~y~~CL~~n~~~~~~Cr~~~~~f~~   91 (113)
T 2lql_A           55 RQIRQACAQPFEAFEECLRQNEAAVGNCAEHMRRFLQ   91 (113)
T ss_dssp             HHHHHHTHHHHHHHHHHHHHCTTCTTTCCSHHHHHHH
T ss_pred             HHHHHHhHHHHHHHHHHHHHccccHHHHHHHHHHHHH
Confidence            5567899999999999999999999999988888765

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

Probab=80.94  E-value=1  Score=32.21  Aligned_cols=35  Identities=20%  Similarity=0.469  Sum_probs=29.6

Q ss_pred             HHHHHhhhhhhhhhhhcCCChhhHHHHHHHHHhhC
Q 029541          137 RHCFTRYIEYHRCVAAKGEGAPECDKFAKYYRALC  171 (192)
Q Consensus       137 K~CW~~YddY~rCl~~kGED~s~Ckkfrk~YeSlC  171 (192)
                      .-|-..--.|..||..+|-|.+.|..+...|+.-|
T Consensus         5 dPC~~~AcaiQ~CL~~N~yd~skCq~~id~L~eCc   39 (68)
T 1hp8_A            5 DPCQKQACEIQKCLQANSYMESKCQAVIQELRKCC   39 (68)
T ss_dssp             CTTHHHHHHHHHHHHHTTTCHHHHHHHHHHHHHHH
T ss_pred             CchHHHHHHHHHHHHHcCCcHHHHHHHHHHHHHHH
Confidence            34667778999999999999999999988887644

---

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	192
d1v54h_	79	a.51.1.1 (H:) Cytochrome c oxidase subunit h {Cow	6e-43

>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 =  136 bits (344), Expect = 6e-43
 Identities = 32/76 (42%), Positives = 49/76 (64%), Gaps = 3/76 (3%)

Query: 120 KLETAPADFRFPTTNQTRHCFTRYIEYHRC---VAAKGEGAPECDKFAKYYRALCPSDWI 176
             +TAP D RFP  NQTR+C+  Y+++HRC   + AKG     C+ + + Y++LCP  W+
Sbjct: 4   NYQTAPFDSRFPNQNQTRNCWQNYLDFHRCEKAMTAKGGDVSVCEWYRRVYKSLCPISWV 63

Query: 177 EKWNEQRENGTFPGPL 192
             W+++R  GTFPG +
Sbjct: 64  STWDDRRAEGTFPGKI 79

Homologous Domains Detected by HHsearch

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

ID	Length	Definition	Probability
Query	192
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=6.2e-40  Score=241.19  Aligned_cols=73  Identities=44%  Similarity=1.113  Sum_probs=70.6

Q ss_pred             ccccCCCCCCCCChHHHHHHHHhhhhhhhh---hhhcCCChhhHHHHHHHHHhhChHHHHHHHHHhhhcCCCCCCC
Q 029541          120 KLETAPADFRFPTTNQTRHCFTRYIEYHRC---VAAKGEGAPECDKFAKYYRALCPSDWIEKWNEQRENGTFPGPL  192 (192)
Q Consensus       120 ~l~TaP~DpRFPn~NQrK~CW~~YddY~rC---l~~kGED~s~Ckkfrk~YeSlCP~sWVE~WDEqRe~GtFpgki  192 (192)
                      +++|+|+|+||||+||+||||++|+|||||   +.++|+|+++|++|+++|+||||.+||++||+||++|+|||+|
T Consensus         4 ~~~TaP~D~RFPn~NQTrhC~~~Y~dyhrC~K~~~~kGed~~~C~~f~~~y~sLCP~~WiekWdeqr~~GtFpg~i   79 (79)
T d1v54h_           4 NYQTAPFDSRFPNQNQTRNCWQNYLDFHRCEKAMTAKGGDVSVCEWYRRVYKSLCPISWVSTWDDRRAEGTFPGKI   79 (79)
T ss_dssp             CCCSCCCCTTSCSSBCHHHHHHHHHHHHHHHHHHHHHTCCGGGGHHHHHHHHHHSCHHHHHHHHHHHHHTCCCSCC
T ss_pred             cccCCCCCccCCcchhhHHHHHHHHHHHHHHHHHHhcCCCchHHHHHHHHHHHhCCHHHHHHHHHHHHcCCCCCCC
Confidence            499999999999999999999999999999   5578999999999999999999999999999999999999997