Psyllid ID: psy1109

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Local Sequence Feature Prediction

Residue Number Marker
--------10--------20--------30--------40--------50--------60--------70--------8
Protein Sequence
MASRLGQMMMRKFSTSPAMKSSAGNPDAVKLWRNLTYFGALPCCALVGVYVYLEHQAEEEHHVRPEFVKREYLYIRNRN
Secondary Structure (PSIPRED)
cHHHHHHHHHHHHcccccccccccccHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHcccccccccccccccccHHcccc
Secondary Structure Prediction (SSPRO)
cHHHHHHHHHHHHcccHHHHcccccHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHccccccccccccEEEEEccc
Coil and Loop (DISEMBL)
MASRLGQMMMrkfstspamkssagnpdAVKLWRNLtyfgalpccaLVGVYVYLEhqaeeehhvrpefvkrEYLYIRNRN
Flexible Loop (DISEMBL)
MASRLGQMMMRKFstspamkssagNPDAVKLWRNLTYFGALPCCALVGVYVYLEHQaeeehhvrpefvkreylyirnrn
Low Complexity Region (SEG)
MASRLGQMMMRKFSTSPAMKSSAGNPDAVKLWRNLTYFGALPCCALVGVYVYLEHQAEEEHHVRPEFVKREYLYIRNRN
Disordered region (IsUnstruct)
***************************AVKLWRNLTYFGALPCCALVGVYVYLEHQAEEEHHVRPEFVKREYLYI****
Disordered Region (DISOPRED)
********************************RNLTYFGALPCCALVGVYVYL**************VKREYLYIRN**
Disordered Region (DISEMBL)
********MMRKFS**********NPDAVKLWRNLTYFGALPCCALVGVYVYLEHQAEEEHHVRPEFVKREYLYIRNRN
Disordered Region (DISPRO)
************************NPDAVKLWRNLTYFGALPCCALVGVYVYLEHQAEEEHHVRPEFVKREYLYIRN**
Transmembrane Helix (TMHMM)
ooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooo
Transmembrane Helix (HMMTOP)
iiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiHHHHHHHHHHHHHHHHHHHoooooooooooooooooooooooooo
Transmembrane Helix (MEMSAT)
iiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiHHHHHHHHHHHHHHHHHHHooooooooooooooooooooooooo
TM Helix, Signal Peptide (MEMSAT_SVM)
ooooooooooooooooooooooooooooooooooHHHHHHHHHHHHHHHHiiiiiiiiiiiiiiiiiiiiiiiiiiiii
TM Helix, Signal Peptide (Phobius)
ooooooooooooooooooooooooooooooooooHHHHHHHHHHHHHHHHHHHiiiiiiiiiiiiiiiiiiiiiiiiii
Signal Peptide (SignalP HMM Mode)
SSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSooooooooooooooooooooooooo
Signal Peptide (SignalP NN Mode)
xxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxx
Coiled Coils (COILS)
MASRLGQMMMRKFSTSPAMKSSAGNPDAVKLWRNLTYFGALPCCALVGVYVYLEHQAEEEHHVRPEFVKREYLYIRNRN
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	79	2.2.26 [Sep-21-2011]
Q9TTT7	109	Cytochrome c oxidase subu	yes	N/A	0.936	0.678	0.371	2e-05
P10818	111	Cytochrome c oxidase subu	yes	N/A	0.949	0.675	0.341	7e-05
P13182	109	Cytochrome c oxidase subu	yes	N/A	0.898	0.651	0.368	0.0002
P12074	109	Cytochrome c oxidase subu	yes	N/A	0.746	0.541	0.365	0.0004
P43024	111	Cytochrome c oxidase subu	yes	N/A	0.949	0.675	0.329	0.0007

>sp|Q9TTT7|CX6A1_RABIT Cytochrome c oxidase subunit 6A1, mitochondrial OS=Oryctolagus cuniculus GN=COX6A1 PE=3 SV=1

 Score = 48.1 bits (113), Expect = 2e-05,   Method: Compositional matrix adjust.
 Identities = 29/78 (37%), Positives = 44/78 (56%), Gaps = 4/78 (5%)

Query: 3  SRLGQMMMR-KFSTSPAMKSSA-GNPDAVKLWRNLTYFGALPCCALVGVYVYLEHQAEEE 60
          SR+ Q++ R +      M S A G   + ++W+ LTYF ALP   +  + VYL+   EE 
Sbjct: 7  SRVSQLLGRSRLQVGRPMSSGAHGEEGSARMWKALTYFVALPGVGVSMLNVYLKSHHEE- 65

Query: 61 HHVRPEFVKREYLYIRNR 78
           H RPEF+   +L IR++
Sbjct: 66 -HERPEFIAYPHLRIRSK 82

This protein is one of the nuclear-coded polypeptide chains of cytochrome c oxidase, the terminal oxidase in mitochondrial electron transport.
Oryctolagus cuniculus (taxid: 9986)

>sp|P10818|CX6A1_RAT Cytochrome c oxidase subunit 6A1, mitochondrial OS=Rattus norvegicus GN=Cox6a1 PE=1 SV=2

 Score = 46.2 bits (108), Expect = 7e-05,   Method: Compositional matrix adjust.
 Identities = 27/79 (34%), Positives = 42/79 (53%), Gaps = 4/79 (5%)

Query: 2  ASRLGQMMMRKFS--TSPAMKSSAGNPDAVKLWRNLTYFGALPCCALVGVYVYLEHQAEE 59
          ASR+  ++ R       P    + G   + ++W+ LTYF ALP   +  + V+L+ + EE
Sbjct: 8  ASRVSGLLGRALPRVGRPMSSGAHGEEGSARIWKALTYFVALPGVGVSMLNVFLKSRHEE 67

Query: 60 EHHVRPEFVKREYLYIRNR 78
            H RPEFV   +L IR +
Sbjct: 68 --HERPEFVAYPHLRIRTK 84

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|P13182|CX6A1_BOVIN Cytochrome c oxidase subunit 6A1, mitochondrial OS=Bos taurus GN=COX6A1 PE=1 SV=3

 Score = 44.3 bits (103), Expect = 2e-04,   Method: Compositional matrix adjust.
 Identities = 28/76 (36%), Positives = 41/76 (53%), Gaps = 5/76 (6%)

Query: 5  LGQMMMRKFSTSPAMKSSA-GNPDAVKLWRNLTYFGALPCCALVGVYVYLE-HQAEEEHH 62
           G +   +   S  M S A G   + ++W+ LTYF ALP   +  + V+L+ H  EEE  
Sbjct: 10 FGLLGRSRLQLSRCMSSGAHGEEGSARMWKALTYFVALPGVGVSMLNVFLKSHHGEEE-- 67

Query: 63 VRPEFVKREYLYIRNR 78
           RPEFV   +L IR++
Sbjct: 68 -RPEFVAYPHLRIRSK 82

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

Bos taurus (taxid: 9913)

>sp|P12074|CX6A1_HUMAN Cytochrome c oxidase subunit 6A1, mitochondrial OS=Homo sapiens GN=COX6A1 PE=1 SV=4

 Score = 43.5 bits (101), Expect = 4e-04,   Method: Compositional matrix adjust.
 Identities = 23/63 (36%), Positives = 35/63 (55%), Gaps = 4/63 (6%)

Query: 17 PAMKSSAGNPDAVKLWRNLTYFGALPCCALVGVYVYLE-HQAEEEHHVRPEFVKREYLYI 75
          P    + G   + ++W+ LT+F ALP  A+  + VYL+ H  E E   RPEF+   +L I
Sbjct: 23 PMSSGAHGEEGSARMWKTLTFFVALPGVAVSMLNVYLKSHHGEHE---RPEFIAYPHLRI 79

Query: 76 RNR 78
          R +
Sbjct: 80 RTK 82

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)

>sp|P43024|CX6A1_MOUSE Cytochrome c oxidase subunit 6A1, mitochondrial OS=Mus musculus GN=Cox6a1 PE=1 SV=2

 Score = 42.7 bits (99), Expect = 7e-04,   Method: Compositional matrix adjust.
 Identities = 26/79 (32%), Positives = 41/79 (51%), Gaps = 4/79 (5%)

Query: 2  ASRLGQMMMRKFST--SPAMKSSAGNPDAVKLWRNLTYFGALPCCALVGVYVYLEHQAEE 59
          ASR+ + + R       P    + G   + ++W+ LTYF ALP   +  + V+L+ + EE
Sbjct: 8  ASRVSRPLGRALPGLRRPMSSGAHGEEGSARMWKALTYFVALPGVGVSMLNVFLKSRHEE 67

Query: 60 EHHVRPEFVKREYLYIRNR 78
            H RP FV   +L IR +
Sbjct: 68 --HERPPFVAYPHLRIRTK 84

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)

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	79
110671416	105	putative mitochondrial cytochrome oxidas	0.987	0.742	0.987	6e-39
442753217	111	Putative cytochrome c oxidase subunit vi	0.987	0.702	0.445	5e-08
158296406	110	AGAP000851-PA [Anopheles gambiae str. PE	0.949	0.681	0.392	6e-07
242002136	111	cytochrome C oxidase, subunit VIa/COX13,	0.987	0.702	0.421	7e-07
321471482	111	hypothetical protein DAPPUDRAFT_302522 [	0.974	0.693	0.407	4e-06
221102584	120	PREDICTED: cytochrome c oxidase subunit	0.772	0.508	0.467	6e-06
91088963	112	PREDICTED: similar to CG17280 CG17280-PA	0.696	0.491	0.491	6e-06
391344497	102	PREDICTED: cytochrome c oxidase subunit	0.962	0.745	0.397	2e-05
118791154	86	AGAP008850-PA [Anopheles gambiae str. PE	0.734	0.674	0.403	2e-05
239789640	118	ACYPI23643 [Acyrthosiphon pisum]	0.962	0.644	0.375	3e-05

>gi|110671416|gb|ABG81959.1| putative mitochondrial cytochrome oxidase subunit VIa [Diaphorina citri]

 Score =  164 bits (415), Expect = 6e-39,   Method: Compositional matrix adjust.
 Identities = 77/78 (98%), Positives = 78/78 (100%)

Query: 1  MASRLGQMMMRKFSTSPAMKSSAGNPDAVKLWRNLTYFGALPCCALVGVYVYLEHQAEEE 60
          MASRLGQMMMRKFSTSPAMKS+AGNPDAVKLWRNLTYFGALPCCALVGVYVYLEHQAEEE
Sbjct: 1  MASRLGQMMMRKFSTSPAMKSAAGNPDAVKLWRNLTYFGALPCCALVGVYVYLEHQAEEE 60

Query: 61 HHVRPEFVKREYLYIRNR 78
          HHVRPEFVKREYLYIRNR
Sbjct: 61 HHVRPEFVKREYLYIRNR 78

Source: Diaphorina citri

Species: Diaphorina citri

Genus: Diaphorina

Family: Psyllidae

Order: Hemiptera

Class: Insecta

Phylum: Arthropoda

Superkingdom: Eukaryota

>gi|442753217|gb|JAA68768.1| Putative cytochrome c oxidase subunit via/cox13 [Ixodes ricinus]

 Score = 62.0 bits (149), Expect = 5e-08,   Method: Compositional matrix adjust.
 Identities = 37/83 (44%), Positives = 44/83 (53%), Gaps = 5/83 (6%)

Query: 1  MASRLGQMMMRKFSTSP---AMKSSAGNPD--AVKLWRNLTYFGALPCCALVGVYVYLEH 55
          MAS      +R FS+S    A    AGN    A K+WRNLT+F A P   L  +  YL  
Sbjct: 1  MASMNFAQFLRYFSSSAIRYAKPGEAGNAHLAAQKMWRNLTFFVAFPAIGLCALNAYLAE 60

Query: 56 QAEEEHHVRPEFVKREYLYIRNR 78
          Q   +H  RPEF K EYLYIR +
Sbjct: 61 QEHHKHFHRPEFKKYEYLYIRTK 83

Source: Ixodes ricinus

Species: Ixodes ricinus

Genus: Ixodes

Family: Ixodidae

Order: Ixodida

Class: Arachnida

Phylum: Arthropoda

Superkingdom: Eukaryota

>gi|158296406|ref|XP_316821.4| AGAP000851-PA [Anopheles gambiae str. PEST] gi|157015281|gb|EAA12143.4| AGAP000851-PA [Anopheles gambiae str. PEST]

 Score = 58.2 bits (139), Expect = 6e-07,   Method: Compositional matrix adjust.
 Identities = 33/84 (39%), Positives = 46/84 (54%), Gaps = 9/84 (10%)

Query: 3  SRLGQMMMRKFSTSPAMKSSAGNPDAV--------KLWRNLTYFGALPCCALVGVYVYLE 54
          S +  ++ R  S S    +  G P AV        K+W+ L++F A+P   L  +  YL+
Sbjct: 2  SLVSHILRRSISQSIVRNAEVGGPSAVAGHEAGGYKVWKKLSFFVAVPAVGLCMLNAYLK 61

Query: 55 HQAEEEHHVRPEFVKREYLYIRNR 78
          HQ EE  H RPEFVK E+L IRN+
Sbjct: 62 HQ-EEHGHPRPEFVKYEHLRIRNK 84

Source: Anopheles gambiae str. PEST

Species: Anopheles gambiae

Genus: Anopheles

Family: Culicidae

Order: Diptera

Class: Insecta

Phylum: Arthropoda

Superkingdom: Eukaryota

>gi|242002136|ref|XP_002435711.1| cytochrome C oxidase, subunit VIa/COX13, putative [Ixodes scapularis] gi|215499047|gb|EEC08541.1| cytochrome C oxidase, subunit VIa/COX13, putative [Ixodes scapularis]

 Score = 57.8 bits (138), Expect = 7e-07,   Method: Compositional matrix adjust.
 Identities = 35/83 (42%), Positives = 44/83 (53%), Gaps = 5/83 (6%)

Query: 1  MASRLGQMMMRKFSTSP---AMKSSAGNPD--AVKLWRNLTYFGALPCCALVGVYVYLEH 55
          MAS      +R FS+S    A    AG+    A K+WRNLT+F A P   L  +  YL  
Sbjct: 1  MASMNFAQFLRYFSSSAIRYAKPGEAGSAHLAAQKMWRNLTFFVAFPAIGLCALNAYLAE 60

Query: 56 QAEEEHHVRPEFVKREYLYIRNR 78
          +   +H  RPEF K EYLYIR +
Sbjct: 61 KEHHKHFHRPEFKKYEYLYIRTK 83

Source: Ixodes scapularis

Species: Ixodes scapularis

Genus: Ixodes

Family: Ixodidae

Order: Ixodida

Class: Arachnida

Phylum: Arthropoda

Superkingdom: Eukaryota

>gi|321471482|gb|EFX82455.1| hypothetical protein DAPPUDRAFT_302522 [Daphnia pulex]

 Score = 55.5 bits (132), Expect = 4e-06,   Method: Compositional matrix adjust.
 Identities = 33/81 (40%), Positives = 46/81 (56%), Gaps = 4/81 (4%)

Query: 1  MASRLGQMMMRKFSTSPAMKSSA---GNPDAVKLWRNLTYFGALPCCALVGVYVYLEHQA 57
          MA+ LG+++ R  +T+      A   G+ D  K+WRNLT+  ALP  AL  + VYL    
Sbjct: 1  MATVLGKVISRGIATTRVANGQAAVSGHHDGWKIWRNLTFLVALPGVALCMLNVYLG-LD 59

Query: 58 EEEHHVRPEFVKREYLYIRNR 78
          + E H  P FV  EY+ IRN+
Sbjct: 60 DVEAHSAPPFVPYEYMRIRNK 80

Source: Daphnia pulex

Species: Daphnia pulex

Genus: Daphnia

Family: Daphniidae

Order: Diplostraca

Class: Branchiopoda

Phylum: Arthropoda

Superkingdom: Eukaryota

>gi|221102584|ref|XP_002153881.1| PREDICTED: cytochrome c oxidase subunit 6A1, mitochondrial-like [Hydra magnipapillata]

 Score = 55.1 bits (131), Expect = 6e-06,   Method: Compositional matrix adjust.
 Identities = 29/62 (46%), Positives = 36/62 (58%), Gaps = 1/62 (1%)

Query: 18 AMKSSAGNPDAV-KLWRNLTYFGALPCCALVGVYVYLEHQAEEEHHVRPEFVKREYLYIR 76
          AM S   + +A  KLW+ LT FGALP  ALVG +V       E H  RPEF+   +L IR
Sbjct: 34 AMASEIAHAEATAKLWKRLTLFGALPLIALVGYHVMTTEAEHEAHFHRPEFIPYSHLRIR 93

Query: 77 NR 78
          N+
Sbjct: 94 NK 95

Source: Hydra magnipapillata

Species: Hydra magnipapillata

Genus: Hydra

Family: Hydridae

Order: Hydroida

Class: Hydrozoa

Phylum: Cnidaria

Superkingdom: Eukaryota

>gi|91088963|ref|XP_974027.1| PREDICTED: similar to CG17280 CG17280-PA [Tribolium castaneum] gi|270012806|gb|EFA09254.1| hypothetical protein TcasGA2_TC006519 [Tribolium castaneum]

 Score = 55.1 bits (131), Expect = 6e-06,   Method: Compositional matrix adjust.
 Identities = 28/57 (49%), Positives = 34/57 (59%), Gaps = 2/57 (3%)

Query: 22 SAGNPDAVKLWRNLTYFGALPCCALVGVYVYLEHQAEEEHHVRPEFVKREYLYIRNR 78
          S G+    K+WRN+T+F A P  AL  V  YL H +   HH RP FVK EYL IR +
Sbjct: 30 SGGHEGGYKVWRNMTFFVAFPAIALCAVNCYLAHYS--GHHERPPFVKYEYLRIRTK 84

Source: Tribolium castaneum

Species: Tribolium castaneum

Genus: Tribolium

Family: Tenebrionidae

Order: Coleoptera

Class: Insecta

Phylum: Arthropoda

Superkingdom: Eukaryota

>gi|391344497|ref|XP_003746534.1| PREDICTED: cytochrome c oxidase subunit 6A1, mitochondrial-like [Metaseiulus occidentalis]

 Score = 53.5 bits (127), Expect = 2e-05,   Method: Compositional matrix adjust.
 Identities = 31/78 (39%), Positives = 43/78 (55%), Gaps = 2/78 (2%)

Query: 1  MASRLGQMMMRKFSTSPAMKSSAGNPDAVKLWRNLTYFGALPCCALVGVYVYLEHQAEEE 60
          MAS LG++  R  ST  A+K    +  A  LW+ L+ F ALP   +VG+  YL      +
Sbjct: 1  MASILGRVARRFAST--AVKDHQDHEAAALLWKRLSLFVALPAVVIVGINTYLHELEHHK 58

Query: 61 HHVRPEFVKREYLYIRNR 78
          H  RPEF+  E+L I N+
Sbjct: 59 HEQRPEFIPCEHLGIINK 76

Source: Metaseiulus occidentalis

Species: Metaseiulus occidentalis

Genus: Metaseiulus

Family: Phytoseiidae

Order: Mesostigmata

Class: Arachnida

Phylum: Arthropoda

Superkingdom: Eukaryota

>gi|118791154|ref|XP_319592.3| AGAP008850-PA [Anopheles gambiae str. PEST] gi|116117463|gb|EAA15129.3| AGAP008850-PA [Anopheles gambiae str. PEST]

 Score = 53.1 bits (126), Expect = 2e-05,   Method: Compositional matrix adjust.
 Identities = 25/62 (40%), Positives = 35/62 (56%), Gaps = 4/62 (6%)

Query: 17 PAMKSSAGNPDAVKLWRNLTYFGALPCCALVGVYVYLEHQAEEEHHVRPEFVKREYLYIR 76
          PA  SS G     K W+ +T+  A+P   L+ +  Y EHQ E  H  RP+F++ EYL IR
Sbjct: 3  PAPSSSRG----YKFWKKITFMVAMPLVGLIALNTYTEHQKEHAHRSRPKFIEYEYLRIR 58

Query: 77 NR 78
           +
Sbjct: 59 TK 60

Source: Anopheles gambiae str. PEST

Species: Anopheles gambiae

Genus: Anopheles

Family: Culicidae

Order: Diptera

Class: Insecta

Phylum: Arthropoda

Superkingdom: Eukaryota

>gi|239789640|dbj|BAH71432.1| ACYPI23643 [Acyrthosiphon pisum]

 Score = 52.8 bits (125), Expect = 3e-05,   Method: Compositional matrix adjust.
 Identities = 30/80 (37%), Positives = 45/80 (56%), Gaps = 4/80 (5%)

Query: 2  ASRLGQMMMRKFSTSPAMKSSAGNPDAVK---LWRNLTYFGALPCCALVGVYVYLEHQAE 58
          A R  + +M +  T+  +KS + +P+ ++   LW+ +TYF  LP C L  +Y    H   
Sbjct: 12 AGRQLRAIMDEQFTADKLKSHS-SPEVLQGLSLWKKVTYFIGLPGCLLASIYCINGHLEH 70

Query: 59 EEHHVRPEFVKREYLYIRNR 78
          E+H  RPEFV  E+L IR R
Sbjct: 71 EKHSSRPEFVPYEHLRIRTR 90

Source: Acyrthosiphon pisum

Species: Acyrthosiphon pisum

Genus: Acyrthosiphon

Family: Aphididae

Order: Hemiptera

Class: Insecta

Phylum: Arthropoda

Superkingdom: Eukaryota

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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	79
UNIPROTKB|F1RJI7	109	COX6A1 "Cytochrome c oxidase s	0.860	0.623	0.381	4.8e-07
FB|FBgn0034877	109	levy "levy" [Drosophila melano	0.974	0.706	0.357	2.1e-06
UNIPROTKB|P13182	109	COX6A1 "Cytochrome c oxidase s	0.924	0.669	0.379	4.3e-06
RGD|2384	111	Cox6a1 "cytochrome c oxidase,	0.949	0.675	0.367	4.3e-06
UNIPROTKB|F1MBC7	109	F1MBC7 "Cytochrome c oxidase s	0.924	0.669	0.367	9e-06
ZFIN|ZDB-GENE-030131-7715	108	cox6a1 "cytochrome c oxidase s	0.911	0.666	0.337	9e-06
UNIPROTKB|P12074	109	COX6A1 "Cytochrome c oxidase s	0.721	0.522	0.403	1.5e-05
UNIPROTKB|Q5T8I0	109	COX6A1P2 "Protein COX6A1P2" [H	0.721	0.522	0.403	1.5e-05
MGI|MGI:103099	111	Cox6a1 "cytochrome c oxidase s	0.949	0.675	0.329	3e-05
UNIPROTKB|H0YIV9	168	H0YIV9 "Uncharacterized protei	0.658	0.309	0.392	4.2e-05

UNIPROTKB|F1RJI7 COX6A1 "Cytochrome c oxidase subunit 6A, mitochondrial" [Sus scrofa (taxid:9823)]

 Score = 115 (45.5 bits), Expect = 4.8e-07, P = 4.8e-07
 Identities = 29/76 (38%), Positives = 44/76 (57%)

Query:     4 RLGQMMMRKFSTSPAMKSSAGNPDAVKLWRNLTYFGALPCCALVGVYVYLE-HQAEEEHH 62
             R  Q+ +R+    P   S+ G   + ++W+ LTYF ALP   +  + V+L+ H AEEE  
Sbjct:    14 RRSQLQLRR----PMSSSAHGEEGSARMWKTLTYFVALPGVGVSMLNVFLKSHHAEEE-- 67

Query:    63 VRPEFVKREYLYIRNR 78
              RPEFV   +L IR++
Sbjct:    68 -RPEFVPYPHLRIRSK 82

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

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

FB|FBgn0034877 levy "levy" [Drosophila melanogaster (taxid:7227)]

 Score = 109 (43.4 bits), Expect = 2.1e-06, P = 2.1e-06
 Identities = 30/84 (35%), Positives = 44/84 (52%)

Query:     1 MASRLGQMMMRKFSTSPAMKSS-----AG-NPDAVKLWRNLTYFGALPCCALVGVYVYLE 54
             M++ L   + R+F  S A   S     AG +    K+W+ L++F A+P   L  +  YL+
Sbjct:     1 MSAILNHAIRRQFGASAARNMSGTAAVAGEHSGGYKVWKRLSFFVAVPAVGLCMLNAYLK 60

Query:    55 HQAEEEHHVRPEFVKREYLYIRNR 78
             HQ EE    R EFVK +YL  R +
Sbjct:    61 HQ-EEHDKPRQEFVKYDYLRRREK 83

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

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

GO:0006123 "mitochondrial electron transport, cytochrome c to oxygen" evidence=ISS;IMP

GO:0005811 "lipid particle" evidence=IDA

GO:0008340 "determination of adult lifespan" evidence=IMP

GO:0043231 "intracellular membrane-bounded organelle" evidence=IDA

GO:0030234 "enzyme regulator activity" evidence=IMP

UNIPROTKB|P13182 COX6A1 "Cytochrome c oxidase subunit 6A1, mitochondrial" [Bos taurus (taxid:9913)]

 Score = 106 (42.4 bits), Expect = 4.3e-06, P = 4.3e-06
 Identities = 30/79 (37%), Positives = 45/79 (56%)

Query:     3 SRLGQMMMR-KFSTSPAMKSSA-GNPDAVKLWRNLTYFGALPCCALVGVYVYLE-HQAEE 59
             SR+  ++ R +   S  M S A G   + ++W+ LTYF ALP   +  + V+L+ H  EE
Sbjct:     7 SRVFGLLGRSRLQLSRCMSSGAHGEEGSARMWKALTYFVALPGVGVSMLNVFLKSHHGEE 66

Query:    60 EHHVRPEFVKREYLYIRNR 78
             E   RPEFV   +L IR++
Sbjct:    67 E---RPEFVAYPHLRIRSK 82

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

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

RGD|2384 Cox6a1 "cytochrome c oxidase, subunit VIa, polypeptide 1" [Rattus norvegicus (taxid:10116)]

 Score = 106 (42.4 bits), Expect = 4.3e-06, P = 4.3e-06
 Identities = 29/79 (36%), Positives = 43/79 (54%)

Query:     2 ASRLGQMMMRKFS-TSPAMKSSA-GNPDAVKLWRNLTYFGALPCCALVGVYVYLEHQAEE 59
             ASR+  ++ R        M S A G   + ++W+ LTYF ALP   +  + V+L+ + EE
Sbjct:     8 ASRVSGLLGRALPRVGRPMSSGAHGEEGSARIWKALTYFVALPGVGVSMLNVFLKSRHEE 67

Query:    60 EHHVRPEFVKREYLYIRNR 78
               H RPEFV   +L IR +
Sbjct:    68 --HERPEFVAYPHLRIRTK 84

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

GO:0005739 "mitochondrion" evidence=ISO

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

UNIPROTKB|F1MBC7 F1MBC7 "Cytochrome c oxidase subunit 6A, mitochondrial" [Bos taurus (taxid:9913)]

 Score = 103 (41.3 bits), Expect = 9.0e-06, P = 9.0e-06
 Identities = 29/79 (36%), Positives = 43/79 (54%)

Query:     3 SRLGQMMMRK-FSTSPAMKSSA-GNPDAVKLWRNLTYFGALPCCALVGVYVYLE-HQAEE 59
             SR+  ++ R     S  M S   G   + ++W+ LTYF ALP   +  + V+L+ H  EE
Sbjct:     7 SRVSGLLGRSGLQLSRCMSSGTHGEEGSARIWKALTYFVALPGVGVSMLNVFLKSHHGEE 66

Query:    60 EHHVRPEFVKREYLYIRNR 78
             E   RPEFV   +L IR++
Sbjct:    67 E---RPEFVAYPHLRIRSK 82

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

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

ZFIN|ZDB-GENE-030131-7715 cox6a1 "cytochrome c oxidase subunit VIa polypeptide 1" [Danio rerio (taxid:7955)]

 Score = 103 (41.3 bits), Expect = 9.0e-06, P = 9.0e-06
 Identities = 26/77 (33%), Positives = 42/77 (54%)

Query:     4 RLGQMMMRK--FSTSPAMKSSAGNPDAVKLWRNLTYFGALPCCALVGVYVYLEHQAEEEH 61
             RL Q + +    + S  + ++A   +A K W+ LT+  ALP  A+  + +YL  Q    H
Sbjct:     6 RLSQKLFKSAALTQSRQLSAAAHGENAAKTWKILTFVVALPGVAVCMLNMYLRSQ---HH 62

Query:    62 HVRPEFVKREYLYIRNR 78
             H +PEFV   +L IR++
Sbjct:    63 HEQPEFVPYSHLRIRSK 79

GO:0005743 "mitochondrial inner membrane" evidence=IEA

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

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

GO:0016020 "membrane" evidence=IEA

GO:0005739 "mitochondrion" evidence=IEA

UNIPROTKB|P12074 COX6A1 "Cytochrome c oxidase subunit 6A1, mitochondrial" [Homo sapiens (taxid:9606)]

 Score = 101 (40.6 bits), Expect = 1.5e-05, P = 1.5e-05
 Identities = 25/62 (40%), Positives = 36/62 (58%)

Query:    19 MKSSA-GNPDAVKLWRNLTYFGALPCCALVGVYVYLE-HQAEEEHHVRPEFVKREYLYIR 76
             M S A G   + ++W+ LT+F ALP  A+  + VYL+ H  E   H RPEF+   +L IR
Sbjct:    24 MSSGAHGEEGSARMWKTLTFFVALPGVAVSMLNVYLKSHHGE---HERPEFIAYPHLRIR 80

Query:    77 NR 78
              +
Sbjct:    81 TK 82

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

GO:0005751 "mitochondrial respiratory chain complex IV" 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|Q5T8I0 COX6A1P2 "Protein COX6A1P2" [Homo sapiens (taxid:9606)]

 Score = 101 (40.6 bits), Expect = 1.5e-05, P = 1.5e-05
 Identities = 25/62 (40%), Positives = 36/62 (58%)

Query:    19 MKSSA-GNPDAVKLWRNLTYFGALPCCALVGVYVYLE-HQAEEEHHVRPEFVKREYLYIR 76
             M S A G   + ++W+ LT+F ALP  A+  + VYL+ H  E   H RPEF+   +L IR
Sbjct:    24 MSSGAHGEEGSARMWKTLTFFVALPGVAVSMLNVYLKSHHGE---HERPEFIAYPHLRIR 80

Query:    77 NR 78
              +
Sbjct:    81 TK 82

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

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

MGI|MGI:103099 Cox6a1 "cytochrome c oxidase subunit VIa polypeptide 1" [Mus musculus (taxid:10090)]

 Score = 98 (39.6 bits), Expect = 3.0e-05, P = 3.0e-05
 Identities = 26/79 (32%), Positives = 41/79 (51%)

Query:     2 ASRLGQMMMRKFS--TSPAMKSSAGNPDAVKLWRNLTYFGALPCCALVGVYVYLEHQAEE 59
             ASR+ + + R       P    + G   + ++W+ LTYF ALP   +  + V+L+ + EE
Sbjct:     8 ASRVSRPLGRALPGLRRPMSSGAHGEEGSARMWKALTYFVALPGVGVSMLNVFLKSRHEE 67

Query:    60 EHHVRPEFVKREYLYIRNR 78
               H RP FV   +L IR +
Sbjct:    68 --HERPPFVAYPHLRIRTK 84

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

GO:0005739 "mitochondrion" evidence=IDA

GO:0005743 "mitochondrial inner membrane" evidence=IEA

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

GO:0016020 "membrane" evidence=IEA

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

UNIPROTKB|H0YIV9 H0YIV9 "Uncharacterized protein" [Homo sapiens (taxid:9606)]

 Score = 97 (39.2 bits), Expect = 4.2e-05, P = 4.2e-05
 Identities = 22/56 (39%), Positives = 33/56 (58%)

Query:    24 GNPDAVKLWRNLTYFGALPCCALVGVYVYLE-HQAEEEHHVRPEFVKREYLYIRNR 78
             G   + ++W+ LT+F ALP  A+  + VYL+ H  E   H RPEF+   +L IR +
Sbjct:     7 GEEGSARMWKTLTFFVALPGVAVSMLNVYLKSHHGE---HERPEFIAYPHLRIRTK 59

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

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

GO:0006450 "regulation of translational fidelity" 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)
P10818	CX6A1_RAT	No assigned EC number	0.3417	0.9493	0.6756	yes	N/A
P43024	CX6A1_MOUSE	No assigned EC number	0.3291	0.9493	0.6756	yes	N/A
P13182	CX6A1_BOVIN	No assigned EC number	0.3684	0.8987	0.6513	yes	N/A
Q9TTT7	CX6A1_RABIT	No assigned EC number	0.3717	0.9367	0.6788	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	79
pfam02046	116	pfam02046, COX6A, Cytochrome c oxidase subunit VIa	2e-15
cd00925	86	cd00925, Cyt_c_Oxidase_VIa, Cytochrome c oxidase s	3e-14

>gnl|CDD|145298 pfam02046, COX6A, Cytochrome c oxidase subunit VIa

 Score = 65.1 bits (159), Expect = 2e-15
 Identities = 26/94 (27%), Positives = 37/94 (39%), Gaps = 19/94 (20%)

Query: 2  ASRLGQMMMRKFSTSPAMK------------SSAGNPDAVKLWRNLTYFGALPCCALVGV 49
               Q   R  S++ A               + G     KLW+ L+Y+ A+P  AL  +
Sbjct: 6  LRAPAQTQRRFASSAAAGGNAFVREREAVKEHAEG---TTKLWKKLSYYVAIPAIALCAI 62

Query: 50 YVYLEHQAEEEH--HV--RPEFVKREYLYIRNRN 79
            Y       EH  H+  R EFV+ EY  IR + 
Sbjct: 63 NAYFLEAEHAEHREHLPDREEFVEYEYQNIRTKP 96

Length = 116

>gnl|CDD|238465 cd00925, Cyt_c_Oxidase_VIa, Cytochrome c oxidase subunit VIa

 Score = 61.2 bits (149), Expect = 3e-14
 Identities = 22/62 (35%), Positives = 34/62 (54%), Gaps = 1/62 (1%)

Query: 18 AMKSSAGNPDAVKLWRNLTYFGALPCCALVGVYVYLEHQAEEEHHVRPEFVKREYLYIRN 77
                      +LW+ ++++ ALP  AL  +  YL+H+ E E H RPEFV+ E+L IR 
Sbjct: 2  TAAKGEHAAGTSELWKKISFYVALPAVALCMLNAYLKHK-EHEEHERPEFVEYEHLNIRT 60

Query: 78 RN 79
          + 
Sbjct: 61 KP 62

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 VIa is expressed in two tissue-specific isoforms in mammals but not fish. VIa-H is the heart and skeletal muscle isoform; VIa-L is the liver or non-muscle isoform. Mammalian VIa-H induces a slip in CcO (decrease in proton/electron stoichiometry) at high intramitochondrial ATP/ADP ratios, while VIa-L induces a permanent slip in CcO, depending on the presence of cardiolipin and palmitate. Length = 86

Conserved Domains Detected by HHsearch

Original result of HHsearch against CDD database

ID	Length	Definition	Probability
Query	79
cd00925	86	Cyt_c_Oxidase_VIa Cytochrome c oxidase subunit VIa	99.93
PF02046	116	COX6A: Cytochrome c oxidase subunit VIa; InterPro:	99.92
KOG3469|consensus	112		99.87
PLN02595	102	cytochrome c oxidase subunit VI protein	99.78

>cd00925 Cyt_c_Oxidase_VIa Cytochrome c oxidase subunit VIa

Probab=99.93  E-value=9.2e-27  Score=150.11  Aligned_cols=56  Identities=39%  Similarity=0.733  Sum_probs=52.1

Q ss_pred             CCChhhhhhHHHHHHHhHHHHHHHHHHHHHHHhhhhhhccCCCCCCCCCccccccCC
Q psy1109          23 AGNPDAVKLWRNLTYFGALPCCALVGVYVYLEHQAEEEHHVRPEFVKREYLYIRNRN   79 (79)
Q Consensus        23 ~~~~~~~~~WkkiS~~valP~i~l~~~n~y~~~~eH~~hh~~Pefv~Y~yl~IRtKp   79 (79)
                      .|+++++++||+|||+||+|+|+||++|+|++++||++ +++|||++|+||||||||
T Consensus         7 ~h~~~~~~~WkkiS~~va~P~v~l~~~n~y~~~~eh~~-~~~pe~~~Y~yl~IR~K~   62 (86)
T cd00925           7 EHAAGTSELWKKISFYVALPAVALCMLNAYLKHKEHEE-HERPEFVEYEHLNIRTKP   62 (86)
T ss_pred             ccccchhhhhhhhhhhhHHHHHHHHHHHHHhhhhcccc-cCCCCCCCCccceeecCC
Confidence            56678999999999999999999999999999999865 679999999999999996

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 VIa is expressed in two tissue-specific isoforms in mammals but not fish. VIa-H is the heart and skeletal muscle isoform; VIa-L is the liver or non-muscle isoform. Mammalian VIa-H induces a slip in CcO (decrease in proton/electron stoichiometry) at high intramitochondrial ATP/ADP ratios, while VIa-L induces a permanent slip i

>PF02046 COX6A: Cytochrome c oxidase subunit VIa; InterPro: IPR001349 Cytochrome c oxidase (1

Probab=99.92  E-value=2.5e-26  Score=154.50  Aligned_cols=75  Identities=37%  Similarity=0.605  Sum_probs=37.4

Q ss_pred             HHHHHHHHhhcccccccc---------CCChhhhhhHHHHHHHhHHHHHHHHHHHHHHHhhhhhhc--c--CCCCCCCCC
Q psy1109           5 LGQMMMRKFSTSPAMKSS---------AGNPDAVKLWRNLTYFGALPCCALVGVYVYLEHQAEEEH--H--VRPEFVKRE   71 (79)
Q Consensus         5 ~~~~~~~~~~~s~~r~~~---------~~~~~~~~~WkkiS~~valP~i~l~~~n~y~~~~eH~~h--h--~~Pefv~Y~   71 (79)
                      .++.++|++++++++...         .|+++++++||+||+|||+|+|++|++|+|.++.+|++|  |  ++|||++||
T Consensus         9 ~~~~~~R~~s~~~~~~~~f~~~~~a~~~ha~~~~~~Wk~iS~~v~iP~i~l~~~n~~~l~~~H~eH~~h~~~~pe~~~Y~   88 (116)
T PF02046_consen    9 ARRAARRFFSTSAARASAFLAERSASEEHAEETAKLWKKISFFVAIPAIALCMLNAYYLEKEHHEHREHLPERPEFVPYP   88 (116)
T ss_dssp             -----------------------TSSSSTSSSSHHHHHHHHHHTHHHHHHHHHHHHH-HSTS-----------------T
T ss_pred             ccccccccccccccccccccchhhhcccchhhhhHHHHHHHHHHHHHHHHHHHHHHHHHhhccccccccCCCCCCCCCCc
Confidence            345666777776555211         455789999999999999999999999999999888765  2  688999999


Q ss_pred             ccccccCC
Q psy1109          72 YLYIRNRN   79 (79)
Q Consensus        72 yl~IRtKp   79 (79)
                      |||||+||
T Consensus        89 yl~iR~K~   96 (116)
T PF02046_consen   89 YLRIRTKP   96 (116)
T ss_dssp             TSS--SS-
T ss_pred             cceecCCC
Confidence            99999996

9.3.1 from EC) is an oligomeric enzymatic complex which 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 polypeptidic subunits. One of these subunits is known as VIa in vertebrates and fungi. Mammals have two tissue-specific isoforms of VIa, a liver and a heart form. Only one form is found in fish [].; GO: 0004129 cytochrome-c oxidase activity, 0005743 mitochondrial inner membrane, 0005751 mitochondrial respiratory chain complex IV; PDB: 2DYR_G 2EIM_G 2Y69_T 1OCC_G 3AG4_G 3AG2_G 3ASN_G 3ABL_G 1V55_T 2EIJ_T ....

>KOG3469|consensus

Probab=99.87  E-value=2.7e-23  Score=139.49  Aligned_cols=78  Identities=33%  Similarity=0.557  Sum_probs=67.9

Q ss_pred             ChhHHHHHHHHHhhcccccccc----CC--ChhhhhhHHHHHHHhHHHHHHHHHHHHHHHhhhhhhccCCCCCCCCCccc
Q psy1109           1 MASRLGQMMMRKFSTSPAMKSS----AG--NPDAVKLWRNLTYFGALPCCALVGVYVYLEHQAEEEHHVRPEFVKREYLY   74 (79)
Q Consensus         1 ma~~~~~~~~~~~~~s~~r~~~----~~--~~~~~~~WkkiS~~valP~i~l~~~n~y~~~~eH~~hh~~Pefv~Y~yl~   74 (79)
                      |++.+.+++.|+++.++.|.++    +.  .++.+++|++||||+|+|+++||++|+|..+++|.+ |++||+++|+|||
T Consensus         3 l~~~~~rSv~r~~~~ks~~~~~~~~~~~~~~e~~s~~Wkkit~~~alP~~al~~~n~y~~~~~~~e-~~~~e~~~Y~fl~   81 (112)
T KOG3469|consen    3 LAVPLTRSVTRRLGLKSARHMYRRAAVAGFKEGGSRTWKKITFFVALPAVALAMYNAYLGHGHHPE-HERPEFRAYEFLN   81 (112)
T ss_pred             cchhhcccccccccccccccccchhhhhhhcchhhhhhhheeeeeeccHHHHHHHHHHHhhccCcc-cCCccccccchhh
Confidence            5667778888899988888766    22  255579999999999999999999999999998876 8899999999999


Q ss_pred             cccCC
Q psy1109          75 IRNRN   79 (79)
Q Consensus        75 IRtKp   79 (79)
                      ||+||
T Consensus        82 iR~K~   86 (112)
T KOG3469|consen   82 IRNKP   86 (112)
T ss_pred             hhcCC
Confidence            99997

>PLN02595 cytochrome c oxidase subunit VI protein

Probab=99.78  E-value=2.9e-19  Score=118.33  Aligned_cols=46  Identities=26%  Similarity=0.487  Sum_probs=36.8

Q ss_pred             hhhhhHHHHHHHhHHHHHHHHH-HHHHHHhhhhhhccCCCCCCCCCccccccCC
Q psy1109          27 DAVKLWRNLTYFGALPCCALVG-VYVYLEHQAEEEHHVRPEFVKREYLYIRNRN   79 (79)
Q Consensus        27 ~~~~~WkkiS~~valP~i~l~~-~n~y~~~~eH~~hh~~Pefv~Y~yl~IRtKp   79 (79)
                      +++++||+||||++    ++|+ +|+|++++||++ +++|  ++||||||||||
T Consensus        39 ~~a~~WkklS~~~v----~~c~~lnaY~l~~eH~~-~e~p--~~Y~yLrIRtK~   85 (102)
T PLN02595         39 YEAAKWEKITYLGI----ASCTALAVYVLSKGHHH-GEDP--PAYPYMHIRNKE   85 (102)
T ss_pred             hhhhhhhhhhHHHh----HHHHHHHHHHhhhcccc-CCCC--CCCCcceeecCC
Confidence            68999999999974    4444 599999988754 3333  499999999997

---

Homologous Structure Templates

Structure Templates Detected by BLAST

Original result of BLAST against Protein Data Bank

No homologous structure with e-value below 0.005

Structure Templates Detected by RPS-BLAST

Original result of RPS-BLAST against PDB70 database

ID	Length	Definition	E-value
Query	79
1v54_G	85	Cytochrome C oxidase polypeptide VIA-heart; oxidor	2e-15
2y69_G	97	Cytochrome C oxidase polypeptide 6A2; electron tra	3e-15

>1v54_G Cytochrome C oxidase polypeptide VIA-heart; oxidoreductase; HET: FME TPO HEA TGL PGV CHD CDL PEK PSC DMU; 1.80A {Bos taurus} SCOP: f.23.2.1 PDB: 1v55_G* 2dyr_G* 2dys_G* 2eij_G* 2eik_G* 2eil_G* 2eim_G* 2ein_G* 2zxw_G* 3abk_G* 3abl_G* 3abm_G* 3ag1_G* 3ag2_G* 3ag3_G* 3ag4_G* 3asn_G* 3aso_G* 2occ_G* 1oco_G* ... Length = 85

 Score = 63.3 bits (154), Expect = 2e-15
 Identities = 17/62 (27%), Positives = 25/62 (40%), Gaps = 4/62 (6%)

Query: 18 AMKSSAGNPDAVKLWRNLTYFGALPCCALVGVYVYLEHQAEEEHHVRPEFVKREYLYIRN 77
          +           + WR LT+  ALP  AL  +  +L       H  RP F+   +L IR 
Sbjct: 2  SAAKGDHGGTGARTWRFLTFGLALPSVALCTLNSWLHS----GHRERPAFIPYHHLRIRT 57

Query: 78 RN 79
          + 
Sbjct: 58 KP 59

>2y69_G Cytochrome C oxidase polypeptide 6A2; electron transport, complex IV, proton pumps, membrane prote; HET: TPO HEA CHD PEK PGV DMU; 1.95A {Bos taurus} Length = 97

 Score = 63.4 bits (154), Expect = 3e-15
 Identities = 21/69 (30%), Positives = 30/69 (43%), Gaps = 7/69 (10%)

Query: 14 STSPAMKSSAGN---PDAVKLWRNLTYFGALPCCALVGVYVYLEHQAEEEHHVRPEFVKR 70
          S S  + S+A         + WR LT+  ALP  AL  +  +L       H  RP F+  
Sbjct: 7  SLSRGLASAAKGDHGGTGARTWRFLTFGLALPSVALCTLNSWLHS----GHRERPAFIPY 62

Query: 71 EYLYIRNRN 79
           +L IR + 
Sbjct: 63 HHLRIRTKP 71

Structure Templates Detected by HHsearch

Original result of HHsearch against PDB70 database

ID	Length	Definition	Probability
Query	79
2y69_G	97	Cytochrome C oxidase polypeptide 6A2; electron tra	99.92
1v54_G	85	Cytochrome C oxidase polypeptide VIA-heart; oxidor	99.9

>2y69_G Cytochrome C oxidase polypeptide 6A2; electron transport, complex IV, proton pumps, membrane prote; HET: TPO HEA CHD PEK PGV DMU; 1.95A {Bos taurus}

Probab=99.92  E-value=5.2e-26  Score=148.40  Aligned_cols=53  Identities=30%  Similarity=0.456  Sum_probs=48.4

Q ss_pred             CCChhhhhhHHHHHHHhHHHHHHHHHHHHHHHhhhhhhccCCCCCCCCCccccccCC
Q psy1109          23 AGNPDAVKLWRNLTYFGALPCCALVGVYVYLEHQAEEEHHVRPEFVKREYLYIRNRN   79 (79)
Q Consensus        23 ~~~~~~~~~WkkiS~~valP~i~l~~~n~y~~~~eH~~hh~~Pefv~Y~yl~IRtKp   79 (79)
                      .|+++++++|||||||||+|+|+||++|+|++++|    |++|||++|+||||||||
T Consensus        19 ~ha~~~~~~WkkiS~~va~P~v~l~~~n~y~~~~e----h~~~E~~~Y~yl~IR~K~   71 (97)
T 2y69_G           19 DHGGTGARTWRFLTFGLALPSVALCTLNSWLHSGH----RERPAFIPYHHLRIRTKP   71 (97)
T ss_dssp             CCSSCCHHHHHHHHHHTHHHHHHHHHHHHTTSCSC----CCCCCCCCCTTSSCCSSC
T ss_pred             ccchhhhhhHHHHHHHHHHHHHHHHHHHHHHhccc----CCCCCCCCCchhhhccCC
Confidence            45578899999999999999999999999999877    368999999999999997

>1v54_G Cytochrome C oxidase polypeptide VIA-heart; oxidoreductase; HET: FME TPO HEA TGL PGV CHD CDL PEK PSC DMU; 1.80A {Bos taurus} SCOP: f.23.2.1 PDB: 1v55_G* 2dyr_G* 2dys_G* 2eij_G* 2eik_G* 2eil_G* 2eim_G* 2ein_G* 2zxw_G* 3abk_G* 3abl_G* 3abm_G* 3ag1_G* 3ag2_G* 3ag3_G* 3ag4_G* 3asn_G* 3aso_G* 2occ_G* 1oco_G* ...

Probab=99.90  E-value=5.9e-25  Score=140.51  Aligned_cols=53  Identities=30%  Similarity=0.456  Sum_probs=48.6

Q ss_pred             CCChhhhhhHHHHHHHhHHHHHHHHHHHHHHHhhhhhhccCCCCCCCCCccccccCC
Q psy1109          23 AGNPDAVKLWRNLTYFGALPCCALVGVYVYLEHQAEEEHHVRPEFVKREYLYIRNRN   79 (79)
Q Consensus        23 ~~~~~~~~~WkkiS~~valP~i~l~~~n~y~~~~eH~~hh~~Pefv~Y~yl~IRtKp   79 (79)
                      .|+++++++|||||||||+|+|+||++|+|++++|    |++|||++|+||||||||
T Consensus         7 ~ha~~~~~~Wkkis~~va~P~v~l~~~n~y~~~~e----~~~pE~~~Y~yl~IR~K~   59 (85)
T 1v54_G            7 DHGGTGARTWRFLTFGLALPSVALCTLNSWLHSGH----RERPAFIPYHHLRIRTKP   59 (85)
T ss_dssp             CCSCCCHHHHHHHHHHTHHHHHHHHHHHHTTSCSC----CCCCCCCCCTTSSCCSSC
T ss_pred             cccchhHHHHHHHHHHHHHHHHHHHHHHHHHhccC----CCCCCCCCCchhheecCC
Confidence            45578899999999999999999999999998876    468999999999999997

---

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	79
d1v54g_	84	f.23.2.1 (G:) Mitochondrial cytochrome c oxidase s	2e-17

>d1v54g_ f.23.2.1 (G:) Mitochondrial cytochrome c oxidase subunit VIa {Cow (Bos taurus) [TaxId: 9913]} Length = 84

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

 Score = 67.1 bits (164), Expect = 2e-17
 Identities = 19/62 (30%), Positives = 27/62 (43%), Gaps = 7/62 (11%)

Query: 21 SSAGNPDAV---KLWRNLTYFGALPCCALVGVYVYLEHQAEEEHHVRPEFVKREYLYIRN 77
          S+A         + WR LT+  ALP  AL  +  +L       H  RP F+   +L IR 
Sbjct: 2  SAAKGDHGGTGARTWRFLTFGLALPSVALCTLNSWLHS----GHRERPAFIPYHHLRIRT 57

Query: 78 RN 79
          + 
Sbjct: 58 KP 59

Homologous Domains Detected by HHsearch

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

ID	Length	Definition	Probability
Query	79
d1v54g_	84	Mitochondrial cytochrome c oxidase subunit VIa {Co	99.92

>d1v54g_ f.23.2.1 (G:) Mitochondrial cytochrome c oxidase subunit VIa {Cow (Bos taurus) [TaxId: 9913]}

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

Probab=99.92  E-value=1.9e-26  Score=145.78  Aligned_cols=53  Identities=32%  Similarity=0.502  Sum_probs=47.1

Q ss_pred             CCChhhhhhHHHHHHHhHHHHHHHHHHHHHHHhhhhhhccCCCCCCCCCccccccCC
Q psy1109          23 AGNPDAVKLWRNLTYFGALPCCALVGVYVYLEHQAEEEHHVRPEFVKREYLYIRNRN   79 (79)
Q Consensus        23 ~~~~~~~~~WkkiS~~valP~i~l~~~n~y~~~~eH~~hh~~Pefv~Y~yl~IRtKp   79 (79)
                      .|+++++++|||||||||+|+|+||++|+|..    ++||++|||++|+|||||||+
T Consensus         7 ~ha~~~~~lWkkis~~va~P~i~l~~~n~~~~----~~h~e~pe~~~Y~yl~IR~K~   59 (84)
T d1v54g_           7 DHGGTGARTWRFLTFGLALPSVALCTLNSWLH----SGHRERPAFIPYHHLRIRTKP   59 (84)
T ss_dssp             CCSCCCHHHHHHHHHHTHHHHHHHHHHHHTTS----CSCCCCCCCCCCTTSSCCSSC
T ss_pred             hhHHHHHHHHHHHHHHHHHHHHHHHHHHHHhc----cccccCCCCCCCchhhhhccc
Confidence            45678999999999999999999999999962    234789999999999999996