Psyllid ID: psy516

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Local Sequence Feature Prediction

Residue Number Marker
--------10--------20--------30--------40--------50--------60--------70--------80
Protein Sequence
MPAEAATGKLPKPQLRNLLQSSIKVALVQGAVIAFGTAVAWKVLIMDPHKKAISEFYKTYDGEKDFERMKKAGLFEEYTL
Secondary Structure (PSIPRED)
cccccccccccccHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHccccHHHHHHHHHccccccccc
Secondary Structure Prediction (SSPRO)
ccccHHHHcccccccEcHHHHHHHHHHHHHHHHHHHHHHHHHHHcHHHHHHHHHHHcccccHHHHHHHHHHcccccEccc
Coil and Loop (DISEMBL)
mpaeaatgklpkpqlRNLLQSSIKVALVQGAVIAFGTAVAWKVLIMDPHKKAISEFYKTYDGEKDFERMKkaglfeeytl
Flexible Loop (DISEMBL)
mpaeaatgklpkpqlRNLLQSSIKVALVQGAVIAFGTAVAWKVLIMDPHKKAISEFyktydgekDFERMKkaglfeeytl
Low Complexity Region (SEG)
MPAEAATGKLPKPQLRNLLQSSIKVALVQGAVIAFGTAVAWKVLIMDPHKKAISEFYKTYDGEKDFERMKKAGLFEEYTL
Disordered region (IsUnstruct)
*****************LLQSSIKVALVQGAVIAFGTAVAWKVLIMDPHKKAISEFYKTYDG******************
Disordered Region (DISOPRED)
************PQLRNLLQSSIKVALVQGAVIAFGTAVAWKVLIMDPHKKAISEFYKTYDGEKDFERMKKAGLFEEYT*
Disordered Region (DISEMBL)
*********LPKPQLRNLLQSSIKVALVQGAVIAFGTAVAWKVLIMDPHKKAISEFYKTYDGEKDFERMKKAGLFEEYTL
Disordered Region (DISPRO)
*********LPKPQLRNLLQSSIKVALVQGAVIAFGTAVAWKVLIMDPHKKAISEFYKTYDGEKDFERMKKAGLFEE**L
Transmembrane Helix (TMHMM)
ooooooooooooooooooooooooHHHHHHHHHHHHHHHHHHHHiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiii
Transmembrane Helix (HMMTOP)
iiiiiiiiiiiiiiiiiiiiiiiiiiHHHHHHHHHHHHHHHHHHHHoooooooooooooooooooooooooooooooooo
Transmembrane Helix (MEMSAT)
iiiiiiiiiiiiiiiiiiiiiiiHHHHHHHHHHHHHHHHHHHHooooooooooooooooooooooooooooooooooooo
TM Helix, Signal Peptide (Phobius)
ooooooooooooooooooooooooHHHHHHHHHHHHHHHHHHHHHiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiii
Signal Peptide (SignalP HMM Mode)
SSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSooooooooooooooooooooooooooooooooooooooo
Signal Peptide (SignalP NN Mode)
xxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxx
Coiled Coils (COILS)
MPAEAATGKLPKPQLRNLLQSSIKVALVQGAVIAFGTAVAWKVLIMDPHKKAISEFYKTYDGEKDFERMKKAGLFEEYTL
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	80	2.2.26 [Sep-21-2011]
Q9CPQ1	76	Cytochrome c oxidase subu	yes	N/A	0.85	0.894	0.470	7e-14
P11951	76	Cytochrome c oxidase subu	yes	N/A	0.85	0.894	0.470	1e-13
Q0Q4Z0	76	Cytochrome c oxidase subu	N/A	N/A	0.85	0.894	0.470	1e-13
Q7YRK2	75	Cytochrome c oxidase subu	N/A	N/A	0.85	0.906	0.470	2e-13
Q7YRK1	75	Cytochrome c oxidase subu	N/A	N/A	0.837	0.893	0.447	2e-12
Q7YRK7	75	Cytochrome c oxidase subu	N/A	N/A	0.9	0.96	0.402	4e-12
Q7YRK0	75	Cytochrome c oxidase subu	N/A	N/A	0.887	0.946	0.450	4e-12
Q7YRJ9	75	Cytochrome c oxidase subu	N/A	N/A	0.887	0.946	0.450	1e-11
Q7YRJ8	75	Cytochrome c oxidase subu	N/A	N/A	0.9	0.96	0.402	2e-11
P09669	75	Cytochrome c oxidase subu	yes	N/A	0.837	0.893	0.417	1e-10

>sp|Q9CPQ1|COX6C_MOUSE Cytochrome c oxidase subunit 6C OS=Mus musculus GN=Cox6c PE=1 SV=3

 Score = 75.9 bits (185), Expect = 7e-14,   Method: Compositional matrix adjust.
 Identities = 32/68 (47%), Positives = 46/68 (67%)

Query: 10 LPKPQLRNLLQSSIKVALVQGAVIAFGTAVAWKVLIMDPHKKAISEFYKTYDGEKDFERM 69
          LPKPQ+R LL   ++V +    ++A G A A+K  + +P KKA +EFY+ YD  KDFE M
Sbjct: 7  LPKPQMRGLLAKRLRVHIAGAFIVALGVAAAYKFGVAEPRKKAYAEFYRNYDSMKDFEEM 66

Query: 70 KKAGLFEE 77
          +KAG+F+ 
Sbjct: 67 RKAGIFQS 74

This protein is one of the nuclear-coded polypeptide chains of cytochrome c oxidase, the terminal oxidase in mitochondrial electron transport.
Mus musculus (taxid: 10090)

>sp|P11951|CX6C2_RAT Cytochrome c oxidase subunit 6C-2 OS=Rattus norvegicus GN=Cox6c2 PE=1 SV=3

 Score = 75.1 bits (183), Expect = 1e-13,   Method: Compositional matrix adjust.
 Identities = 32/68 (47%), Positives = 47/68 (69%)

Query: 10 LPKPQLRNLLQSSIKVALVQGAVIAFGTAVAWKVLIMDPHKKAISEFYKTYDGEKDFERM 69
          LPKPQ+R LL   ++V +V   V+A G A A+K  + +P KKA ++FY+ YD  KDFE M
Sbjct: 7  LPKPQMRGLLAKRLRVHIVGAFVVALGVAAAYKFGVAEPRKKAYADFYRNYDSMKDFEEM 66

Query: 70 KKAGLFEE 77
          ++AG+F+ 
Sbjct: 67 RQAGVFQS 74

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

Rattus norvegicus (taxid: 10116)

>sp|Q0Q4Z0|COX6C_LAMPA Cytochrome c oxidase subunit 6C OS=Lama guanicoe pacos GN=COX6C PE=3 SV=1

 Score = 75.1 bits (183), Expect = 1e-13,   Method: Compositional matrix adjust.
 Identities = 32/68 (47%), Positives = 47/68 (69%)

Query: 10 LPKPQLRNLLQSSIKVALVQGAVIAFGTAVAWKVLIMDPHKKAISEFYKTYDGEKDFERM 69
          LPKPQ+R LL   ++V +V   V+A G A A+K  + +P KKA ++FY+ YD  KDFE M
Sbjct: 7  LPKPQMRGLLAKRLRVHIVGAFVVALGVAAAYKFGVAEPRKKAYADFYRNYDSMKDFEEM 66

Query: 70 KKAGLFEE 77
          ++AG+F+ 
Sbjct: 67 RQAGVFQS 74

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

Lama guanicoe pacos (taxid: 30538)

>sp|Q7YRK2|COX6C_MACSL Cytochrome c oxidase subunit 6C OS=Macaca silenus GN=COX6C PE=3 SV=1

 Score = 74.3 bits (181), Expect = 2e-13,   Method: Compositional matrix adjust.
 Identities = 32/68 (47%), Positives = 46/68 (67%)

Query: 10 LPKPQLRNLLQSSIKVALVQGAVIAFGTAVAWKVLIMDPHKKAISEFYKTYDGEKDFERM 69
          LPKPQ+R LL   ++  +V G V++ G A  +KV + D  KKA ++FY+ YD  KDFE M
Sbjct: 6  LPKPQMRGLLARRLRFHMVTGFVLSLGVAALYKVGVADKRKKAYADFYRNYDAMKDFEEM 65

Query: 70 KKAGLFEE 77
          +KAG+F+ 
Sbjct: 66 RKAGIFQS 73

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

Macaca silenus (taxid: 54601)

>sp|Q7YRK1|COX6C_TRACR Cytochrome c oxidase subunit 6C OS=Trachypithecus cristatus GN=COX6C PE=3 SV=1

 Score = 70.9 bits (172), Expect = 2e-12,   Method: Compositional matrix adjust.
 Identities = 30/67 (44%), Positives = 44/67 (65%)

Query: 10 LPKPQLRNLLQSSIKVALVQGAVIAFGTAVAWKVLIMDPHKKAISEFYKTYDGEKDFERM 69
          LPKPQ+R LL   ++  +V   V++ G A  +K  + D  KKA ++FY+ YD  KDFE M
Sbjct: 6  LPKPQMRGLLAKRLRFHMVTAFVLSLGVAALYKFRVADKRKKAYADFYRNYDAMKDFEEM 65

Query: 70 KKAGLFE 76
          +KAG+F+
Sbjct: 66 RKAGIFQ 72

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

Trachypithecus cristatus (taxid: 122765)

>sp|Q7YRK7|COX6C_TARSY Cytochrome c oxidase subunit 6C OS=Tarsius syrichta GN=COX6C PE=3 SV=1

 Score = 70.1 bits (170), Expect = 4e-12,   Method: Compositional matrix adjust.
 Identities = 29/72 (40%), Positives = 46/72 (63%)

Query: 6  ATGKLPKPQLRNLLQSSIKVALVQGAVIAFGTAVAWKVLIMDPHKKAISEFYKTYDGEKD 65
          ++G L KPQ+R LL   ++  +V    ++ G A  +K  + +P KKA ++FY+ YD  KD
Sbjct: 2  SSGALTKPQMRGLLAKRLRFHIVGAFAVSLGVAAFYKFAVAEPRKKAYADFYRNYDSMKD 61

Query: 66 FERMKKAGLFEE 77
          FE M+KAG+F+ 
Sbjct: 62 FEEMRKAGIFQS 73

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

Tarsius syrichta (taxid: 9478)

>sp|Q7YRK0|COX6C_CALDO Cytochrome c oxidase subunit 6C OS=Callicebus donacophilus GN=COX6C PE=3 SV=1

 Score = 70.1 bits (170), Expect = 4e-12,   Method: Compositional matrix adjust.
 Identities = 32/71 (45%), Positives = 46/71 (64%)

Query: 6  ATGKLPKPQLRNLLQSSIKVALVQGAVIAFGTAVAWKVLIMDPHKKAISEFYKTYDGEKD 65
          A+  L KPQ+R LL   +++ +V   +++ G A  +K  + +P KKA ++FYK Y  EKD
Sbjct: 2  ASEVLVKPQMRGLLARRLRIHMVGAFLVSLGVAALYKFGVAEPRKKAYADFYKNYSAEKD 61

Query: 66 FERMKKAGLFE 76
          FE MKKAGLF 
Sbjct: 62 FEEMKKAGLFR 72

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

Callicebus donacophilus (taxid: 230833)

>sp|Q7YRJ9|COX6C_SAISC Cytochrome c oxidase subunit 6C OS=Saimiri sciureus GN=COX6C PE=3 SV=1

 Score = 68.6 bits (166), Expect = 1e-11,   Method: Compositional matrix adjust.
 Identities = 32/71 (45%), Positives = 46/71 (64%)

Query: 6  ATGKLPKPQLRNLLQSSIKVALVQGAVIAFGTAVAWKVLIMDPHKKAISEFYKTYDGEKD 65
          A+  L KPQ+R LL   +++ +V   +I+ G A  +K  + +P KKA ++FYK Y  EKD
Sbjct: 2  ASEVLAKPQMRGLLARRLRIHMVGAFLISLGVAALYKFGVAEPRKKAYADFYKNYSPEKD 61

Query: 66 FERMKKAGLFE 76
          FE MKKAG+F 
Sbjct: 62 FEEMKKAGVFR 72

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

Saimiri sciureus (taxid: 9521)

>sp|Q7YRJ8|COX6C_NYCCO Cytochrome c oxidase subunit 6C OS=Nycticebus coucang GN=COX6C PE=3 SV=1

 Score = 68.2 bits (165), Expect = 2e-11,   Method: Compositional matrix adjust.
 Identities = 29/72 (40%), Positives = 46/72 (63%)

Query: 6  ATGKLPKPQLRNLLQSSIKVALVQGAVIAFGTAVAWKVLIMDPHKKAISEFYKTYDGEKD 65
          A+  L KPQ+R LL   +++ +V   V++ G A  +K  + +P KKA ++FY+ YD  K 
Sbjct: 2  ASSALAKPQMRGLLARRLRIHIVGAFVVSLGVAAFYKYAVAEPRKKAYADFYRNYDSVKY 61

Query: 66 FERMKKAGLFEE 77
          FE M+KAG+F+ 
Sbjct: 62 FEEMRKAGVFQS 73

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

Nycticebus coucang (taxid: 9470)

>sp|P09669|COX6C_HUMAN Cytochrome c oxidase subunit 6C OS=Homo sapiens GN=COX6C PE=1 SV=2

 Score = 64.7 bits (156), Expect = 1e-10,   Method: Compositional matrix adjust.
 Identities = 28/67 (41%), Positives = 43/67 (64%)

Query: 10 LPKPQLRNLLQSSIKVALVQGAVIAFGTAVAWKVLIMDPHKKAISEFYKTYDGEKDFERM 69
          LPKP++R LL   ++  +    V++ G A  +K  + D  KKA ++FY+ YD  KDFE M
Sbjct: 6  LPKPRMRGLLARRLRNHMAVAFVLSLGVAALYKFRVADQRKKAYADFYRNYDVMKDFEEM 65

Query: 70 KKAGLFE 76
          +KAG+F+
Sbjct: 66 RKAGIFQ 72

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

Homo sapiens (taxid: 9606)

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	80
193594280	82	PREDICTED: cytochrome c oxidase subunit	0.937	0.914	0.546	2e-13
395814610	75	PREDICTED: cytochrome c oxidase subunit	0.9	0.96	0.444	2e-12
16716343	76	cytochrome c oxidase subunit 6C [Mus mus	0.85	0.894	0.470	3e-12
321472365	80	hypothetical protein DAPPUDRAFT_301871 [	0.875	0.875	0.5	4e-12
160333459	76	cytochrome c oxidase subunit 6C-2 [Rattu	0.85	0.894	0.470	5e-12
301129221	75	cytochrome c oxidase subunit 6C [Macaca	0.85	0.906	0.470	9e-12
395845804	75	PREDICTED: cytochrome c oxidase subunit	0.9	0.96	0.444	1e-11
340728835	76	PREDICTED: cytochrome c oxidase subunit	0.925	0.973	0.445	1e-11
395819872	75	PREDICTED: cytochrome c oxidase subunit	0.9	0.96	0.430	1e-11
395817571	75	PREDICTED: cytochrome c oxidase subunit	0.9	0.96	0.430	1e-11

>gi|193594280|ref|XP_001945818.1| PREDICTED: cytochrome c oxidase subunit 6C-like [Acyrthosiphon pisum]

 Score = 80.1 bits (196), Expect = 2e-13,   Method: Compositional matrix adjust.
 Identities = 41/75 (54%), Positives = 47/75 (62%)

Query: 1  MPAEAATGKLPKPQLRNLLQSSIKVALVQGAVIAFGTAVAWKVLIMDPHKKAISEFYKTY 60
          M A A   KL KPQLR L     K  LV   V++ G  VA+K  I +P KKA +EFYK Y
Sbjct: 1  MSAGAVVQKLAKPQLRGLYDKKTKFHLVFSVVLSIGVGVAYKYGIGEPRKKAYAEFYKNY 60

Query: 61 DGEKDFERMKKAGLF 75
          D EKDFERM+K GLF
Sbjct: 61 DAEKDFERMRKLGLF 75

Source: Acyrthosiphon pisum

Species: Acyrthosiphon pisum

Genus: Acyrthosiphon

Family: Aphididae

Order: Hemiptera

Class: Insecta

Phylum: Arthropoda

Superkingdom: Eukaryota

>gi|395814610|ref|XP_003780838.1| PREDICTED: cytochrome c oxidase subunit 6C-like [Otolemur garnettii]

 Score = 76.3 bits (186), Expect = 2e-12,   Method: Compositional matrix adjust.
 Identities = 32/72 (44%), Positives = 49/72 (68%)

Query: 6  ATGKLPKPQLRNLLQSSIKVALVQGAVIAFGTAVAWKVLIMDPHKKAISEFYKTYDGEKD 65
          A+  LPKPQ+R LL   +++ +V   V++ G AV +K  + +P KKA ++FY+ YD  KD
Sbjct: 2  ASSALPKPQMRGLLARRLRIHIVGAFVVSLGVAVFYKFAVAEPRKKAYTDFYRNYDSMKD 61

Query: 66 FERMKKAGLFEE 77
          FE M+KAG+F+ 
Sbjct: 62 FEAMRKAGVFQS 73

Source: Otolemur garnettii

Species: Otolemur garnettii

Genus: Otolemur

Family: Galagidae

Order: Primates

Class: Mammalia

Phylum: Chordata

Superkingdom: Eukaryota

>gi|16716343|ref|NP_444301.1| cytochrome c oxidase subunit 6C [Mus musculus] gi|48428148|sp|Q9CPQ1.3|COX6C_MOUSE RecName: Full=Cytochrome c oxidase subunit 6C; AltName: Full=Cytochrome c oxidase polypeptide VIc gi|12849454|dbj|BAB28348.1| unnamed protein product [Mus musculus] gi|12850828|dbj|BAB28866.1| unnamed protein product [Mus musculus] gi|19354073|gb|AAH24666.1| Cytochrome c oxidase, subunit VIc [Mus musculus] gi|62948130|gb|AAH94413.1| Cytochrome c oxidase, subunit VIc [Mus musculus]

 Score = 75.9 bits (185), Expect = 3e-12,   Method: Compositional matrix adjust.
 Identities = 32/68 (47%), Positives = 46/68 (67%)

Query: 10 LPKPQLRNLLQSSIKVALVQGAVIAFGTAVAWKVLIMDPHKKAISEFYKTYDGEKDFERM 69
          LPKPQ+R LL   ++V +    ++A G A A+K  + +P KKA +EFY+ YD  KDFE M
Sbjct: 7  LPKPQMRGLLAKRLRVHIAGAFIVALGVAAAYKFGVAEPRKKAYAEFYRNYDSMKDFEEM 66

Query: 70 KKAGLFEE 77
          +KAG+F+ 
Sbjct: 67 RKAGIFQS 74

Source: Mus musculus

Species: Mus musculus

Genus: Mus

Family: Muridae

Order: Rodentia

Class: Mammalia

Phylum: Chordata

Superkingdom: Eukaryota

>gi|321472365|gb|EFX83335.1| hypothetical protein DAPPUDRAFT_301871 [Daphnia pulex]

 Score = 75.5 bits (184), Expect = 4e-12,   Method: Compositional matrix adjust.
 Identities = 35/70 (50%), Positives = 47/70 (67%)

Query: 6  ATGKLPKPQLRNLLQSSIKVALVQGAVIAFGTAVAWKVLIMDPHKKAISEFYKTYDGEKD 65
          A   L KP++R LL   IK  LV   V++FGT  A+K L+ D  K A +EFY+TYD EK+
Sbjct: 5  AVATLAKPKMRGLLTDQIKKNLVIATVLSFGTMFAYKFLVADKRKTAYAEFYRTYDIEKE 64

Query: 66 FERMKKAGLF 75
          + RMK+AG+F
Sbjct: 65 YNRMKQAGIF 74

Source: Daphnia pulex

Species: Daphnia pulex

Genus: Daphnia

Family: Daphniidae

Order: Diplostraca

Class: Branchiopoda

Phylum: Arthropoda

Superkingdom: Eukaryota

>gi|160333459|ref|NP_062233.2| cytochrome c oxidase subunit 6C-2 [Rattus norvegicus] gi|117119|sp|P11951.3|CX6C2_RAT RecName: Full=Cytochrome c oxidase subunit 6C-2; AltName: Full=Cytochrome c oxidase polypeptide VIc-2 gi|122142228|sp|Q0Q4Z0.1|COX6C_LAMPA RecName: Full=Cytochrome c oxidase subunit 6C; AltName: Full=Cytochrome c oxidase polypeptide VIc gi|203519|gb|AAA79271.1| cytochrome c oxidase subunit VIc [Rattus norvegicus] gi|203710|gb|AAA41011.1| cytochrome c oxidase subunit VIc [Rattus norvegicus] gi|34849861|gb|AAH58480.1| Cox6c protein [Rattus norvegicus] gi|110293367|gb|ABG66313.1| cytochrome c oxidase subunit VIc [Vicugna pacos] gi|149066530|gb|EDM16403.1| cytochrome c oxidase, subunit VIc, isoform CRA_b [Rattus norvegicus]

 Score = 75.1 bits (183), Expect = 5e-12,   Method: Compositional matrix adjust.
 Identities = 32/68 (47%), Positives = 47/68 (69%)

Query: 10 LPKPQLRNLLQSSIKVALVQGAVIAFGTAVAWKVLIMDPHKKAISEFYKTYDGEKDFERM 69
          LPKPQ+R LL   ++V +V   V+A G A A+K  + +P KKA ++FY+ YD  KDFE M
Sbjct: 7  LPKPQMRGLLAKRLRVHIVGAFVVALGVAAAYKFGVAEPRKKAYADFYRNYDSMKDFEEM 66

Query: 70 KKAGLFEE 77
          ++AG+F+ 
Sbjct: 67 RQAGVFQS 74

Source: Rattus norvegicus

Species: Rattus norvegicus

Genus: Rattus

Family: Muridae

Order: Rodentia

Class: Mammalia

Phylum: Chordata

Superkingdom: Eukaryota

>gi|301129221|ref|NP_001180313.1| cytochrome c oxidase subunit 6C [Macaca mulatta] gi|48428032|sp|Q7YRK2.1|COX6C_MACSL RecName: Full=Cytochrome c oxidase subunit 6C; AltName: Full=Cytochrome c oxidase polypeptide VIc gi|33285273|gb|AAP43954.1| cytochrome c oxidase subunit VIc [Macaca silenus] gi|56609189|gb|AAW03184.1| mitochondrial cytochrome c oxidase subunit 6C [Macaca silenus] gi|355698127|gb|EHH28675.1| hypothetical protein EGK_19163 [Macaca mulatta] gi|383415863|gb|AFH31145.1| cytochrome c oxidase subunit 6C proprotein [Macaca mulatta] gi|384945372|gb|AFI36291.1| cytochrome c oxidase subunit 6C proprotein [Macaca mulatta]

 Score = 74.3 bits (181), Expect = 9e-12,   Method: Compositional matrix adjust.
 Identities = 32/68 (47%), Positives = 46/68 (67%)

Query: 10 LPKPQLRNLLQSSIKVALVQGAVIAFGTAVAWKVLIMDPHKKAISEFYKTYDGEKDFERM 69
          LPKPQ+R LL   ++  +V G V++ G A  +KV + D  KKA ++FY+ YD  KDFE M
Sbjct: 6  LPKPQMRGLLARRLRFHMVTGFVLSLGVAALYKVGVADKRKKAYADFYRNYDAMKDFEEM 65

Query: 70 KKAGLFEE 77
          +KAG+F+ 
Sbjct: 66 RKAGIFQS 73

Source: Macaca mulatta

Species: Macaca mulatta

Genus: Macaca

Family: Cercopithecidae

Order: Primates

Class: Mammalia

Phylum: Chordata

Superkingdom: Eukaryota

>gi|395845804|ref|XP_003795611.1| PREDICTED: cytochrome c oxidase subunit 6C-like [Otolemur garnettii]

 Score = 73.9 bits (180), Expect = 1e-11,   Method: Compositional matrix adjust.
 Identities = 32/72 (44%), Positives = 48/72 (66%)

Query: 6  ATGKLPKPQLRNLLQSSIKVALVQGAVIAFGTAVAWKVLIMDPHKKAISEFYKTYDGEKD 65
          A+  L KPQ+R LL   +++ +V   V++ G AV +K  + +P KKA ++FY+ YD  KD
Sbjct: 2  ASSALAKPQMRGLLARRLRIHIVGAFVVSLGVAVFYKFAVAEPRKKAYADFYRNYDSMKD 61

Query: 66 FERMKKAGLFEE 77
          FE MKKAG+F+ 
Sbjct: 62 FEEMKKAGVFQS 73

Source: Otolemur garnettii

Species: Otolemur garnettii

Genus: Otolemur

Family: Galagidae

Order: Primates

Class: Mammalia

Phylum: Chordata

Superkingdom: Eukaryota

>gi|340728835|ref|XP_003402719.1| PREDICTED: cytochrome c oxidase subunit 6C-1-like isoform 1 [Bombus terrestris] gi|340728837|ref|XP_003402720.1| PREDICTED: cytochrome c oxidase subunit 6C-1-like isoform 2 [Bombus terrestris] gi|340728839|ref|XP_003402721.1| PREDICTED: cytochrome c oxidase subunit 6C-1-like isoform 3 [Bombus terrestris]

 Score = 73.6 bits (179), Expect = 1e-11,   Method: Compositional matrix adjust.
 Identities = 33/74 (44%), Positives = 48/74 (64%)

Query: 6  ATGKLPKPQLRNLLQSSIKVALVQGAVIAFGTAVAWKVLIMDPHKKAISEFYKTYDGEKD 65
          + G+LPKPQLRNL  S +K +L    V+     ++WK+L+ D +++ + EFYKTYD  K 
Sbjct: 2  SEGRLPKPQLRNLHVSKVKKSLGIVTVLCATVGLSWKMLVSDVYERRVEEFYKTYDPMKS 61

Query: 66 FERMKKAGLFEEYT 79
           +RM +AGL E Y 
Sbjct: 62 LQRMNEAGLMESYN 75

Source: Bombus terrestris

Species: Bombus terrestris

Genus: Bombus

Family: Apidae

Order: Hymenoptera

Class: Insecta

Phylum: Arthropoda

Superkingdom: Eukaryota

>gi|395819872|ref|XP_003783302.1| PREDICTED: cytochrome c oxidase subunit 6C-like [Otolemur garnettii]

 Score = 73.6 bits (179), Expect = 1e-11,   Method: Compositional matrix adjust.
 Identities = 31/72 (43%), Positives = 48/72 (66%)

Query: 6  ATGKLPKPQLRNLLQSSIKVALVQGAVIAFGTAVAWKVLIMDPHKKAISEFYKTYDGEKD 65
          A+  L KPQ+R LL   +++ +V   V++ G AV +K  + +P KKA ++FY+ YD  KD
Sbjct: 2  ASSALAKPQMRGLLARHLRIHIVGAFVVSLGVAVFYKFAVAEPRKKAYADFYRNYDSMKD 61

Query: 66 FERMKKAGLFEE 77
          FE M+KAG+F+ 
Sbjct: 62 FEEMRKAGVFQS 73

Source: Otolemur garnettii

Species: Otolemur garnettii

Genus: Otolemur

Family: Galagidae

Order: Primates

Class: Mammalia

Phylum: Chordata

Superkingdom: Eukaryota

>gi|395817571|ref|XP_003782241.1| PREDICTED: cytochrome c oxidase subunit 6C-like [Otolemur garnettii] gi|395818142|ref|XP_003782496.1| PREDICTED: cytochrome c oxidase subunit 6C-like [Otolemur garnettii] gi|395827946|ref|XP_003787149.1| PREDICTED: cytochrome c oxidase subunit 6C-like [Otolemur garnettii] gi|395842199|ref|XP_003793906.1| PREDICTED: cytochrome c oxidase subunit 6C-like [Otolemur garnettii] gi|395854744|ref|XP_003799839.1| PREDICTED: cytochrome c oxidase subunit 6C-like [Otolemur garnettii]

 Score = 73.6 bits (179), Expect = 1e-11,   Method: Compositional matrix adjust.
 Identities = 31/72 (43%), Positives = 48/72 (66%)

Query: 6  ATGKLPKPQLRNLLQSSIKVALVQGAVIAFGTAVAWKVLIMDPHKKAISEFYKTYDGEKD 65
          A+  L KPQ+R LL   +++ +V   V++ G AV +K  + +P KKA ++FY+ YD  KD
Sbjct: 2  ASSALAKPQMRGLLARRLRIHIVGAFVVSLGVAVFYKFAVAEPRKKAYADFYRNYDSMKD 61

Query: 66 FERMKKAGLFEE 77
          FE M+KAG+F+ 
Sbjct: 62 FEEMRKAGVFQS 73

Source: Otolemur garnettii

Species: Otolemur garnettii

Genus: Otolemur

Family: Galagidae

Order: Primates

Class: Mammalia

Phylum: Chordata

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	80
MGI|MGI:104614	76	Cox6c "cytochrome c oxidase su	0.837	0.881	0.477	4.9e-14
RGD|620616	76	Cox6c "cytochrome c oxidase, s	0.837	0.881	0.477	1e-13
UNIPROTKB|F1S0P0	75	COX6C "Cytochrome c oxidase su	0.887	0.946	0.422	4.4e-13
UNIPROTKB|F1PKU9	75	LOC606860 "Uncharacterized pro	0.837	0.893	0.432	3.9e-12
UNIPROTKB|E1BW78	73	COX6C "Uncharacterized protein	0.837	0.917	0.462	8.2e-12
UNIPROTKB|E2R3G9	74	LOC100688725 "Uncharacterized	0.837	0.905	0.417	8.2e-12
RGD|2318198	76	LOC100365890 "cytochrome c oxi	0.812	0.855	0.461	1.7e-11
UNIPROTKB|P09669	75	COX6C "Cytochrome c oxidase su	0.837	0.893	0.417	4.5e-11
UNIPROTKB|E2R0C4	75	E2R0C4 "Uncharacterized protei	0.837	0.893	0.417	7.4e-11
UNIPROTKB|P04038	74	COX6C "Cytochrome c oxidase su	0.837	0.905	0.402	9.4e-11

MGI|MGI:104614 Cox6c "cytochrome c oxidase subunit VIc" [Mus musculus (taxid:10090)]

 Score = 181 (68.8 bits), Expect = 4.9e-14, P = 4.9e-14
 Identities = 32/67 (47%), Positives = 46/67 (68%)

Query:    10 LPKPQLRNLLQSSIKVALVQGAVIAFGTAVAWKVLIMDPHKKAISEFYKTYDGEKDFERM 69
             LPKPQ+R LL   ++V +    ++A G A A+K  + +P KKA +EFY+ YD  KDFE M
Sbjct:     7 LPKPQMRGLLAKRLRVHIAGAFIVALGVAAAYKFGVAEPRKKAYAEFYRNYDSMKDFEEM 66

Query:    70 KKAGLFE 76
             +KAG+F+
Sbjct:    67 RKAGIFQ 73

GO:0003674 "molecular_function" evidence=ND

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

GO:0005739 "mitochondrion" evidence=IDA

GO:0005743 "mitochondrial inner membrane" evidence=IDA

GO:0008150 "biological_process" evidence=ND

GO:0015992 "proton transport" evidence=IEA

GO:0016020 "membrane" evidence=IEA

GO:0016021 "integral to membrane" evidence=IEA

GO:0034220 "ion transmembrane transport" evidence=IEA

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

RGD|620616 Cox6c "cytochrome c oxidase, subunit VIc" [Rattus norvegicus (taxid:10116)]

 Score = 178 (67.7 bits), Expect = 1.0e-13, P = 1.0e-13
 Identities = 32/67 (47%), Positives = 47/67 (70%)

Query:    10 LPKPQLRNLLQSSIKVALVQGAVIAFGTAVAWKVLIMDPHKKAISEFYKTYDGEKDFERM 69
             LPKPQ+R LL   ++V +V   V+A G A A+K  + +P KKA ++FY+ YD  KDFE M
Sbjct:     7 LPKPQMRGLLAKRLRVHIVGAFVVALGVAAAYKFGVAEPRKKAYADFYRNYDSMKDFEEM 66

Query:    70 KKAGLFE 76
             ++AG+F+
Sbjct:    67 RQAGVFQ 73

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

GO:0005739 "mitochondrion" evidence=ISO

GO:0005743 "mitochondrial inner membrane" evidence=ISO

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

GO:0008150 "biological_process" evidence=ND

GO:0016021 "integral to membrane" evidence=IEA

UNIPROTKB|F1S0P0 COX6C "Cytochrome c oxidase subunit 6C" [Sus scrofa (taxid:9823)]

 Score = 172 (65.6 bits), Expect = 4.4e-13, P = 4.4e-13
 Identities = 30/71 (42%), Positives = 46/71 (64%)

Query:     6 ATGKLPKPQLRNLLQSSIKVALVQGAVIAFGTAVAWKVLIMDPHKKAISEFYKTYDGEKD 65
             AT  L KPQ+R LL   ++  +V   +++ G A  +K  + +P KKA ++FY+ YD  KD
Sbjct:     2 ATSSLTKPQMRGLLAKRLRFHIVGAFIVSLGVATFYKFAVAEPRKKAYADFYRNYDSMKD 61

Query:    66 FERMKKAGLFE 76
             FE M+KAG+F+
Sbjct:    62 FEEMRKAGIFQ 72

GO:0005743 "mitochondrial inner membrane" evidence=IEA

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

UNIPROTKB|F1PKU9 LOC606860 "Uncharacterized protein" [Canis lupus familiaris (taxid:9615)]

 Score = 163 (62.4 bits), Expect = 3.9e-12, P = 3.9e-12
 Identities = 29/67 (43%), Positives = 43/67 (64%)

Query:    10 LPKPQLRNLLQSSIKVALVQGAVIAFGTAVAWKVLIMDPHKKAISEFYKTYDGEKDFERM 69
             L KPQ+R LL   ++  +V    ++ G A  +K  + +P KKA ++FY+ YD  KDFE M
Sbjct:     6 LTKPQMRGLLAKRLRFHIVGAFAVSLGVAAFYKFAVAEPRKKAYADFYRNYDSMKDFEEM 65

Query:    70 KKAGLFE 76
             KKAG+F+
Sbjct:    66 KKAGIFQ 72

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

UNIPROTKB|E1BW78 COX6C "Uncharacterized protein" [Gallus gallus (taxid:9031)]

 Score = 160 (61.4 bits), Expect = 8.2e-12, P = 8.2e-12
 Identities = 31/67 (46%), Positives = 43/67 (64%)

Query:    10 LPKPQLRNLLQSSIKVALVQGAVIAFGTAVAWKVLIMDPHKKAISEFYKTYDGEKDFERM 69
             LPKPQ+R LL   +K  L    +++ G A  +K  + +P K+A +EFYK YD  KDFE M
Sbjct:     6 LPKPQMRRLLARRMKFHLFGAFLVSLGCAALYKFGVAEPRKRAYAEFYKNYDPMKDFEAM 65

Query:    70 KKAGLFE 76
             + AG+FE
Sbjct:    66 RAAGVFE 72

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

GO:0005743 "mitochondrial inner membrane" evidence=IEA

UNIPROTKB|E2R3G9 LOC100688725 "Uncharacterized protein" [Canis lupus familiaris (taxid:9615)]

 Score = 160 (61.4 bits), Expect = 8.2e-12, P = 8.2e-12
 Identities = 28/67 (41%), Positives = 43/67 (64%)

Query:    10 LPKPQLRNLLQSSIKVALVQGAVIAFGTAVAWKVLIMDPHKKAISEFYKTYDGEKDFERM 69
             L KPQ+R LL   ++  +V    ++ G A  +K  + +P KKA ++FY+ YD  +DFE M
Sbjct:     6 LTKPQMRGLLAKRLRFHIVGAFAVSLGVAAFYKFAVAEPRKKAYADFYRNYDSMRDFEEM 65

Query:    70 KKAGLFE 76
             KKAG+F+
Sbjct:    66 KKAGIFQ 72

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

RGD|2318198 LOC100365890 "cytochrome c oxidase, subunit VIc-like" [Rattus norvegicus (taxid:10116)]

 Score = 157 (60.3 bits), Expect = 1.7e-11, P = 1.7e-11
 Identities = 30/65 (46%), Positives = 43/65 (66%)

Query:    12 KPQLRNLLQSSIKVALVQGAVIAFGTAVAWKVLIMDPHKKAISEFYKTYDGEKDFERMKK 71
             KPQ+R LL   + V +V   V+A G A A+K  + +P KKA ++FY+  D  KDFE M+K
Sbjct:     9 KPQMRGLLAKRLWVHIVGAVVVALGLATAYKFGMAEPQKKAYADFYRNSDSMKDFEEMRK 68

Query:    72 AGLFE 76
             AG+F+
Sbjct:    69 AGIFQ 73

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

UNIPROTKB|P09669 COX6C "Cytochrome c oxidase subunit 6C" [Homo sapiens (taxid:9606)]

 Score = 153 (58.9 bits), Expect = 4.5e-11, P = 4.5e-11
 Identities = 28/67 (41%), Positives = 43/67 (64%)

Query:    10 LPKPQLRNLLQSSIKVALVQGAVIAFGTAVAWKVLIMDPHKKAISEFYKTYDGEKDFERM 69
             LPKP++R LL   ++  +    V++ G A  +K  + D  KKA ++FY+ YD  KDFE M
Sbjct:     6 LPKPRMRGLLARRLRNHMAVAFVLSLGVAALYKFRVADQRKKAYADFYRNYDVMKDFEEM 65

Query:    70 KKAGLFE 76
             +KAG+F+
Sbjct:    66 RKAGIFQ 72

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

GO:0016021 "integral to membrane" evidence=IEA

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

GO:0005743 "mitochondrial inner membrane" evidence=TAS

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

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

UNIPROTKB|E2R0C4 E2R0C4 "Uncharacterized protein" [Canis lupus familiaris (taxid:9615)]

 Score = 151 (58.2 bits), Expect = 7.4e-11, P = 7.4e-11
 Identities = 28/67 (41%), Positives = 41/67 (61%)

Query:    10 LPKPQLRNLLQSSIKVALVQGAVIAFGTAVAWKVLIMDPHKKAISEFYKTYDGEKDFERM 69
             L KPQ+R LL   ++  +V    ++ G A  +K  +    KKA ++FY+ YD  KDFE M
Sbjct:     6 LMKPQMRGLLAKCLRFHIVGAFAVSLGVAAFYKFAVAKSRKKAYADFYRNYDSMKDFEEM 65

Query:    70 KKAGLFE 76
             KKAG+F+
Sbjct:    66 KKAGIFQ 72

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

UNIPROTKB|P04038 COX6C "Cytochrome c oxidase subunit 6C" [Bos taurus (taxid:9913)]

 Score = 150 (57.9 bits), Expect = 9.4e-11, P = 9.4e-11
 Identities = 27/67 (40%), Positives = 43/67 (64%)

Query:    10 LPKPQLRNLLQSSIKVALVQGAVIAFGTAVAWKVLIMDPHKKAISEFYKTYDGEKDFERM 69
             L KPQ+R LL   ++  +V   +++ G A  +K  + +  KKA ++FY+ YD  KDFE M
Sbjct:     5 LAKPQMRGLLARRLRFHIVGAFMVSLGFATFYKFAVAEKRKKAYADFYRNYDSMKDFEEM 64

Query:    70 KKAGLFE 76
             +KAG+F+
Sbjct:    65 RKAGIFQ 71

GO:0005743 "mitochondrial inner membrane" evidence=IEA

GO:0016021 "integral to membrane" 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)
P04038	COX6C_BOVIN	No assigned EC number	0.3970	0.85	0.9189	yes	N/A
A1XQT2	COX6C_PIG	No assigned EC number	0.3835	0.9	0.9473	yes	N/A
P09669	COX6C_HUMAN	No assigned EC number	0.4179	0.8375	0.8933	yes	N/A
Q9CPQ1	COX6C_MOUSE	No assigned EC number	0.4705	0.85	0.8947	yes	N/A
P11951	CX6C2_RAT	No assigned EC number	0.4705	0.85	0.8947	yes	N/A

EC Number Prediction by EFICAz Software

No EC number assignment, probably not an enzyme!

---

Conserved Domains and Related Protein Families

Conserved Domains Detected by RPS-BLAST

Original result of RPS-BLAST against CDD database

ID	Length	Definition	E-value
Query	80
cd00927	70	cd00927, Cyt_c_Oxidase_VIc, Cytochrome c oxidase s	7e-23
pfam02937	73	pfam02937, COX6C, Cytochrome c oxidase subunit VIc	2e-21

>gnl|CDD|238467 cd00927, Cyt_c_Oxidase_VIc, Cytochrome c oxidase subunit VIc

 Score = 82.4 bits (204), Expect = 7e-23
 Identities = 38/68 (55%), Positives = 49/68 (72%)

Query: 9  KLPKPQLRNLLQSSIKVALVQGAVIAFGTAVAWKVLIMDPHKKAISEFYKTYDGEKDFER 68
           L KPQ+R LL S IK  L+   V++ G A A+K L+ +P KKA ++FYKTYD  KDFER
Sbjct: 1  ALAKPQMRGLLASRIKRHLIVAFVLSLGAAAAYKFLVNEPRKKAYADFYKTYDAMKDFER 60

Query: 69 MKKAGLFE 76
          M+KAGLF+
Sbjct: 61 MRKAGLFQ 68

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. The VIc subunit is found only in eukaryotes and its specific function remains unclear. It has been reported that the relative concentrations of some nuclear encoded CcO subunits, including subunit VIc, compared to those of the mitochondrial encoded subunits, are altered significantly during the progression of prostate cancer. Length = 70

>gnl|CDD|145867 pfam02937, COX6C, Cytochrome c oxidase subunit VIc

 Score = 79.0 bits (195), Expect = 2e-21
 Identities = 33/70 (47%), Positives = 47/70 (67%)

Query: 7  TGKLPKPQLRNLLQSSIKVALVQGAVIAFGTAVAWKVLIMDPHKKAISEFYKTYDGEKDF 66
             LPKPQ+R LL   ++  +V   V++ G A A+K  + +P K+A ++FYK YD  KDF
Sbjct: 1  PELLPKPQMRGLLAKRLRRHIVGAFVLSLGVAAAYKFGVAEPRKRAYADFYKNYDAMKDF 60

Query: 67 ERMKKAGLFE 76
          ERM+KAGLF+
Sbjct: 61 ERMRKAGLFQ 70

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 cytochrome c oxidase subunit VIc. Length = 73

Conserved Domains Detected by HHsearch

Original result of HHsearch against CDD database

ID	Length	Definition	Probability
Query	80
PF02937	73	COX6C: Cytochrome c oxidase subunit VIc; InterPro:	100.0
cd00927	70	Cyt_c_Oxidase_VIc Cytochrome c oxidase subunit VIc	100.0
PLN03155	63	cytochrome c oxidase subunit 5C; Provisional	87.94

>PF02937 COX6C: Cytochrome c oxidase subunit VIc; InterPro: IPR004204 Cytochrome c oxidase, a 13 subunit complex, 1

Probab=100.00  E-value=2.3e-46  Score=238.43  Aligned_cols=73  Identities=44%  Similarity=0.752  Sum_probs=58.0

Q ss_pred             cCCCCCchhhhHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhhhhHHHHHHHhcCCchHHHHHHHhcCcccccc
Q psy516            7 TGKLPKPQLRNLLQSSIKVALVQGAVIAFGTAVAWKVLIMDPHKKAISEFYKTYDGEKDFERMKKAGLFEEYT   79 (80)
Q Consensus         7 ~~~l~KPqmRgLl~~~lr~~i~~a~~lsl~~~~~~kf~v~~PRKkaYadFYknYD~~k~Fe~Mk~aG~fqS~~   79 (80)
                      ++.|+||||||||++|+||||++|+++|++++++|||++++|||++|+|||||||||||||||+++|+|||||
T Consensus         1 ~~~l~KP~mrgll~~~l~~~i~~a~~ls~~~~~~~kf~v~~pRKk~YadFYknYD~~k~fe~M~~~G~fqS~~   73 (73)
T PF02937_consen    1 PSALAKPQMRGLLAKRLKRHIVVAFVLSLGVAAAYKFGVAEPRKKAYADFYKNYDPMKDFEEMRKAGIFQSVK   73 (73)
T ss_dssp             ---------BSHHHHHHHHHHHHHHHHHHHHHHHHHHHTHHHHHHHHHHHHHT--HHHHHHHHHHTT--SS--
T ss_pred             CCcccCchhhhHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhHHHHHHHHHHHccChHHHHHHHHhcCCcccCC
Confidence            3679999999999999999999999999999999999999999999999999999999999999999999997

9.3.1 from EC is the terminal oxidase in the mitochondrial electron transport chain. This family is composed of cytochrome c oxidase subunit VIc.; GO: 0004129 cytochrome-c oxidase activity; PDB: 3AG4_I 2DYS_V 3ASO_I 2EIK_V 2EIM_I 1OCC_V 1V54_V 1OCO_V 3ASN_V 2EIL_I ....

>cd00927 Cyt_c_Oxidase_VIc Cytochrome c oxidase subunit VIc

Probab=100.00  E-value=9.2e-46  Score=235.04  Aligned_cols=70  Identities=54%  Similarity=0.886  Sum_probs=68.9

Q ss_pred             CCCCchhhhHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhhhhHHHHHHHhcCCchHHHHHHHhcCccccc
Q psy516            9 KLPKPQLRNLLQSSIKVALVQGAVIAFGTAVAWKVLIMDPHKKAISEFYKTYDGEKDFERMKKAGLFEEY   78 (80)
Q Consensus         9 ~l~KPqmRgLl~~~lr~~i~~a~~lsl~~~~~~kf~v~~PRKkaYadFYknYD~~k~Fe~Mk~aG~fqS~   78 (80)
                      .|+||||||||++++||||++||++|++++++||++++||||++|+||||||||||||||||++|+||||
T Consensus         1 ~l~kp~mrgLl~~~l~~~l~~a~~lsl~~~~~~k~~~~~pRK~aYadFYknYD~~kdFerM~~~G~f~S~   70 (70)
T cd00927           1 ALAKPQMRGLLASRIKRHLIVAFVLSLGAAAAYKFLVNEPRKKAYADFYKTYDAMKDFERMRKAGLFQSC   70 (70)
T ss_pred             CCCCcccccHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhHHHHHHHHHHHccChHHHHHHHHHcCCcccC
Confidence            3899999999999999999999999999999999999999999999999999999999999999999998

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. The VIc subunit is found only in eukaryotes and its specific function remains unclear. It has been reported that the relative concentrations of some nuclear encoded CcO subunits, including subunit VIc, compared to those of the mitochondrial encoded subunits, are altered significantly during the progression of prostate cancer.

>PLN03155 cytochrome c oxidase subunit 5C; Provisional

Probab=87.94  E-value=0.95  Score=28.52  Aligned_cols=48  Identities=17%  Similarity=0.389  Sum_probs=34.3

Q ss_pred             CCCchhhhHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhhhhHHHHHHHhcCC
Q psy516           10 LPKPQLRNLLQSSIKVALVQGAVIAFGTAVAWKVLIMDPHKKAISEFYKTYD   61 (80)
Q Consensus        10 l~KPqmRgLl~~~lr~~i~~a~~lsl~~~~~~kf~v~~PRKkaYadFYknYD   61 (80)
                      .+..+++|-   .+-+-|+++++|.++++.+||.-+-+-|+ +-.+||.-.|
T Consensus         6 vah~~~~gP---svvKEI~iG~~LGL~AG~~WKmhHWn~qr-kt~~fY~~Le   53 (63)
T PLN03155          6 IAHATLKGP---SVVKELCIGLTLGLAAGGLWKMHHWNEQR-KTRSFYDLLE   53 (63)
T ss_pred             eeeeeccCC---chhhhHHHHhHHHHhhhhHHHHhhhhhHH-HHHHHHHHHh
Confidence            444444442   45567899999999999999998877554 4578886543

---

Homologous Structure Templates

Structure Templates Detected by BLAST

Original result of BLAST against Protein Data Bank

ID	Length	Definition	E-value
Query	80
1occ_I	73	Structure Of Bovine Heart Cytochrome C Oxidase At T		2e-11
2y69_I	74	Bovine Heart Cytochrome C Oxidase Re-Refined With M		2e-11
1v54_I	73	Bovine Heart Cytochrome C Oxidase At The Fully Oxid		2e-11

>pdb|1OCC|I Chain I, Structure Of Bovine Heart Cytochrome C Oxidase At The Fully Oxidized State Length = 73

Iteration: 1
 Score = 63.9 bits (154), Expect = 2e-11,   Method: Compositional matrix adjust.
 Identities = 27/68 (39%), Positives = 43/68 (63%)
Query: 10 LPKPQLRNLLQSSIKVALVQGAVIAFGTAVAWKVLIMDPHKKAISEFYKTYDGEKDFERM 69
          L KPQ+R LL   ++  +V   +++ G A  +K  + +  KKA ++FY+ YD  KDFE M
Sbjct: 4  LAKPQMRGLLARRLRFHIVGAFMVSLGFATFYKFAVAEKRKKAYADFYRNYDSMKDFEEM 63
Query: 70 KKAGLFEE 77
          +KAG+F+ 
Sbjct: 64 RKAGIFQS 71

>pdb|2Y69|I Chain I, Bovine Heart Cytochrome C Oxidase Re-Refined With Molecular Oxygen Length = 74

Iteration: 1
 Score = 63.9 bits (154), Expect = 2e-11,   Method: Compositional matrix adjust.
 Identities = 27/68 (39%), Positives = 43/68 (63%)
Query: 10 LPKPQLRNLLQSSIKVALVQGAVIAFGTAVAWKVLIMDPHKKAISEFYKTYDGEKDFERM 69
          L KPQ+R LL   ++  +V   +++ G A  +K  + +  KKA ++FY+ YD  KDFE M
Sbjct: 5  LAKPQMRGLLARRLRFHIVGAFMVSLGFATFYKFAVAEKRKKAYADFYRNYDSMKDFEEM 64
Query: 70 KKAGLFEE 77
          +KAG+F+ 
Sbjct: 65 RKAGIFQS 72

>pdb|1V54|I Chain I, Bovine Heart Cytochrome C Oxidase At The Fully Oxidized State Length = 73

Iteration: 1
 Score = 63.9 bits (154), Expect = 2e-11,   Method: Compositional matrix adjust.
 Identities = 27/68 (39%), Positives = 43/68 (63%)
Query: 10 LPKPQLRNLLQSSIKVALVQGAVIAFGTAVAWKVLIMDPHKKAISEFYKTYDGEKDFERM 69
          L KPQ+R LL   ++  +V   +++ G A  +K  + +  KKA ++FY+ YD  KDFE M
Sbjct: 4  LAKPQMRGLLARRLRFHIVGAFMVSLGFATFYKFAVAEKRKKAYADFYRNYDSMKDFEEM 63
Query: 70 KKAGLFEE 77
          +KAG+F+ 
Sbjct: 64 RKAGIFQS 71

Structure Templates Detected by RPS-BLAST

Original result of RPS-BLAST against PDB70 database

ID	Length	Definition	E-value
Query	80
1v54_I	73	STA, cytochrome C oxidase polypeptide VIC; oxidore	4e-25

>1v54_I STA, cytochrome C oxidase polypeptide VIC; oxidoreductase; HET: FME TPO HEA TGL PGV CHD CDL PEK PSC DMU; 1.80A {Bos taurus} SCOP: f.23.3.1 PDB: 1oco_I* 1occ_I* 1ocz_I* 1ocr_I* 1v55_I* 2dyr_I* 2dys_I* 2eij_I* 2eik_I* 2eil_I* 2eim_I* 2ein_I* 2occ_I* 2ybb_T* 2zxw_I* 3abk_I* 3abl_I* 3abm_I* 3ag1_I* 3ag2_I* ... Length = 73

 Score = 87.6 bits (217), Expect = 4e-25
 Identities = 27/70 (38%), Positives = 44/70 (62%)

Query: 7  TGKLPKPQLRNLLQSSIKVALVQGAVIAFGTAVAWKVLIMDPHKKAISEFYKTYDGEKDF 66
          +  L KPQ+R LL   ++  +V   +++ G A  +K  + +  KKA ++FY+ YD  KDF
Sbjct: 1  STALAKPQMRGLLARRLRFHIVGAFMVSLGFATFYKFAVAEKRKKAYADFYRNYDSMKDF 60

Query: 67 ERMKKAGLFE 76
          E M+KAG+F+
Sbjct: 61 EEMRKAGIFQ 70

Structure Templates Detected by HHsearch

Original result of HHsearch against PDB70 database

ID	Length	Definition	Probability
Query	80
1v54_I	73	STA, cytochrome C oxidase polypeptide VIC; oxidore	100.0

>1v54_I STA, cytochrome C oxidase polypeptide VIC; oxidoreductase; HET: FME TPO HEA TGL PGV CHD CDL PEK PSC DMU; 1.80A {Bos taurus} SCOP: f.23.3.1 PDB: 1oco_I* 1occ_I* 1ocz_I* 1ocr_I* 1v55_I* 2dyr_I* 2dys_I* 2eij_I* 2eik_I* 2eil_I* 2eim_I* 2ein_I* 2occ_I* 2ybb_T* 2zxw_I* 3abk_I* 3abl_I* 3abm_I* 3ag1_I* 3ag2_I* ...

Probab=100.00  E-value=6.2e-47  Score=240.74  Aligned_cols=73  Identities=37%  Similarity=0.701  Sum_probs=71.0

Q ss_pred             cCCCCCchhhhHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhhhhHHHHHHHhcCCchHHHHHHHhcCcccccc
Q psy516            7 TGKLPKPQLRNLLQSSIKVALVQGAVIAFGTAVAWKVLIMDPHKKAISEFYKTYDGEKDFERMKKAGLFEEYT   79 (80)
Q Consensus         7 ~~~l~KPqmRgLl~~~lr~~i~~a~~lsl~~~~~~kf~v~~PRKkaYadFYknYD~~k~Fe~Mk~aG~fqS~~   79 (80)
                      ++.|+||||||||++|+|+||++|+++|+|++++|||++++|||++|+||||||||||||||||++|+||||+
T Consensus         1 ~~~lakPqmrgLl~~~lr~~i~~a~~lsl~~~~~~k~~v~~pRK~aYadFYknYD~~k~ferMk~aG~fqS~~   73 (73)
T 1v54_I            1 STALAKPQMRGLLARRLRFHIVGAFMVSLGFATFYKFAVAEKRKKAYADFYRNYDSMKDFEEMRKAGIFQSAK   73 (73)
T ss_dssp             CCCCCCCCCBSHHHHHHHHHHHHHHHHHHHHHHHHHHHTHHHHHHHHHHHHHTCCHHHHHHHHHHTTCCSSCC
T ss_pred             CCCcCCcccchHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhhHHHHHHHHHHhcCcHHHHHHHHHccccccCC
Confidence            3579999999999999999999999999999999999999999999999999999999999999999999996

---

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	80
d1v54i_	73	f.23.3.1 (I:) Mitochondrial cytochrome c oxidase s	4e-26

>d1v54i_ f.23.3.1 (I:) Mitochondrial cytochrome c oxidase subunit VIc {Cow (Bos taurus) [TaxId: 9913]} Length = 73

class: Membrane and cell surface proteins and peptides
fold: Single transmembrane helix
superfamily: Mitochondrial cytochrome c oxidase subunit VIc
family: Mitochondrial cytochrome c oxidase subunit VIc
domain: Mitochondrial cytochrome c oxidase subunit VIc
species: Cow (Bos taurus) [TaxId: 9913]

 Score = 89.4 bits (222), Expect = 4e-26
 Identities = 27/70 (38%), Positives = 44/70 (62%)

Query: 7  TGKLPKPQLRNLLQSSIKVALVQGAVIAFGTAVAWKVLIMDPHKKAISEFYKTYDGEKDF 66
          +  L KPQ+R LL   ++  +V   +++ G A  +K  + +  KKA ++FY+ YD  KDF
Sbjct: 1  STALAKPQMRGLLARRLRFHIVGAFMVSLGFATFYKFAVAEKRKKAYADFYRNYDSMKDF 60

Query: 67 ERMKKAGLFE 76
          E M+KAG+F+
Sbjct: 61 EEMRKAGIFQ 70

Homologous Domains Detected by HHsearch

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

ID	Length	Definition	Probability
Query	80
d1v54i_	73	Mitochondrial cytochrome c oxidase subunit VIc {Co	100.0

>d1v54i_ f.23.3.1 (I:) Mitochondrial cytochrome c oxidase subunit VIc {Cow (Bos taurus) [TaxId: 9913]}

class: Membrane and cell surface proteins and peptides
fold: Single transmembrane helix
superfamily: Mitochondrial cytochrome c oxidase subunit VIc
family: Mitochondrial cytochrome c oxidase subunit VIc
domain: Mitochondrial cytochrome c oxidase subunit VIc
species: Cow (Bos taurus) [TaxId: 9913]

Probab=100.00  E-value=3.9e-48  Score=245.07  Aligned_cols=73  Identities=37%  Similarity=0.701  Sum_probs=71.1

Q ss_pred             cCCCCCchhhhHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhhhhHHHHHHHhcCCchHHHHHHHhcCcccccc
Q psy516            7 TGKLPKPQLRNLLQSSIKVALVQGAVIAFGTAVAWKVLIMDPHKKAISEFYKTYDGEKDFERMKKAGLFEEYT   79 (80)
Q Consensus         7 ~~~l~KPqmRgLl~~~lr~~i~~a~~lsl~~~~~~kf~v~~PRKkaYadFYknYD~~k~Fe~Mk~aG~fqS~~   79 (80)
                      +++||||||||||++||||||++++++|++++++|||+|+||||++|+|||||||+||||||||++|+|||++
T Consensus         1 s~~l~KPqmrGLl~~~lk~hl~~a~~lsl~~a~~~Kf~v~eprKkaYadFYknYDa~KdFe~Mr~aGvFqS~k   73 (73)
T d1v54i_           1 STALAKPQMRGLLARRLRFHIVGAFMVSLGFATFYKFAVAEKRKKAYADFYRNYDSMKDFEEMRKAGIFQSAK   73 (73)
T ss_dssp             CCCCCCCCCBSHHHHHHHHHHHHHHHHHHHHHHHHHHHTHHHHHHHHHHHHHTCCHHHHHHHHHHTTCCSSCC
T ss_pred             CCCccchHHhHHHHHHHHHHHHHHHHHHHHHHHHHHHHhccHhHHHHHHHHHccchhhhHHHHHHccccccCC
Confidence            4679999999999999999999999999999999999999999999999999999999999999999999985