Psyllid ID: psy17595

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Local Sequence Feature Prediction

Residue Number Marker
--------10--------20--------30--------40--------50--------60--------70--------80--------90-------100-------110-------120-------130-------140-------150---
Protein Sequence
MASRLGQMMMRKFSTSPAMKSSAGNPDAVKLWRNLTYFGALPCCALVGVYVYLEHQAEEAHHVRPEFVKREYLYIRNRLWRNLTYFGALPCCALVGVYVYLEHQAEEEHHVRPEFVKREYLYIRNRRFPWGDGNHTLFHNKHVNALPEGYEED
Secondary Structure (PSIPRED)
cHHHHHHHHHHHHcccHHHHcccccHHHHHHHHHHHHHccccHHHHHccHHHHHHHHHHHHccccHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHccccccccccccccccccccccccccccccccccccccccccccccccc
Secondary Structure Prediction (SSPRO)
ccHHHHHHHHHHHcccHHHHcccccHHHHHHHHHHHHHccccHHHHHHHHHHHHHHHHHHHcccHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHcccccccccccccccccccccccccccccccccccccEccEcccc
Coil and Loop (DISEMBL)
MASRLGQMMMrkfstspamkssagnpdAVKLWRNLtyfgalpccaLVGVYVYLEHQaeeahhvrpefvkREYLYIRNRLWRNltyfgalpccaLVGVYVYLEhqaeeehhvrpefvkrEYLYIRnrrfpwgdgnhtlfhnkhvnalpegyeed
Flexible Loop (DISEMBL)
MASRLGQMMMRKFstspamkssagNPDAVKLWRNLTYFGALPCCALVGVYVYLEHQAeeahhvrpefvkrEYLYIRNRLWRNLTYFGALPCCALVGVYVYLEHQaeeehhvrpefvkrEYLYIRNRRFPWGDGNHTLFHNKhvnalpegyeed
Low Complexity Region (SEG)
MASRLGQMMMRKFSTSPAMKSSAGNPDAVKLWRNLTYFGALPCCALVGVYVYLEHQAEEAHHVRPEFVKREYLYIRNRLWRNLTYFGALPCCALVGVYVYLEHQAEEEHHVRPEFVKREYLYIRNRRFPWGDGNHTLFHNKHVNALPEGYEED
Disordered region (IsUnstruct)
***************************AVKLWRNLTYFGALPCCALVGVYVYLEHQAEEAHHVRPEFVKREYLYIRNRLWRNLTYFGALPCCALVGVYVYLEHQAEEEHHVRPEFVKREYLYIRNRRFPWGDGNHTLFHNKHVN*********
Disordered Region (DISOPRED)
******************************************************************************LWRNLTYFGALPCCALVGVYVYLEHQ********PEFVKREYLYIRNRRFPWGDGNHTLFHNKHVN*********
Disordered Region (DISEMBL)
********MMRKFS**********NPDAVKLWRNLTYFGALPCCALVGVYVYLEHQAEEAHHVRPEFVKREYLYIRNRLWRNLTYFGALPCCALVGVYVYLEHQAEEEHHVRPEFVKREYLYIRNRRFPWGDGNHTLFHNKHVNALPEGYEED
Disordered Region (DISPRO)
************************NPDAVKLWRNLTYFGALPCCALVGVYVYLEHQAEEAHHVRPEFVKREYLYIRNRLWRNLTYFGALPCCALVGVYVYLEHQAEEEHHVRPEFVKREYLYIRNRRFPWGDGNHTLFHNKHVNALPEG****
Transmembrane Helix (TMHMM)
iiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiHHHHHHHHHHHHHHHHHHHHHHHoooooooooooooooooooooooooooooooooooooooooooooooooooo
Transmembrane Helix (HMMTOP)
ooooooooooooooooooooooooooooooooooHHHHHHHHHHHHHHHHHHiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiHHHHHHHHHHHHHHHHHHooooooooooooooooooooooooooooooooooooooooooooooooooooo
Transmembrane Helix (MEMSAT)
iiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiHHHHHHHHHHHHHHHHHHHHooooooooooooooooooooooooooooooooooooooooooooooooooooooo
TM Helix, Signal Peptide (Phobius)
iiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiHHHHHHHHHHHHHHHHHHHoooooooooooooooooooooooooooooHHHHHHHHHHHHHHHHHHHiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiii
Signal Peptide (SignalP HMM Mode)
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Signal Peptide (SignalP NN Mode)
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Coiled Coils (COILS)
MASRLGQMMMRKFSTSPAMKSSAGNPDAVKLWRNLTYFGALPCCALVGVYVYLEHQAEEAHHVRPEFVKREYLYIRNRLWRNLTYFGALPCCALVGVYVYLEHQAEEEHHVRPEFVKREYLYIRNRRFPWGDGNHTLFHNKHVNALPEGYEED
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	153	2.2.26 [Sep-21-2011]
Q9TTT7	109	Cytochrome c oxidase subu	yes	N/A	0.477	0.669	0.573	2e-18
P12074	109	Cytochrome c oxidase subu	yes	N/A	0.483	0.678	0.552	3e-18
P10818	111	Cytochrome c oxidase subu	yes	N/A	0.483	0.666	0.552	3e-18
P13182	109	Cytochrome c oxidase subu	yes	N/A	0.477	0.669	0.571	4e-18
P43024	111	Cytochrome c oxidase subu	yes	N/A	0.483	0.666	0.552	5e-18
O13085	102	Cytochrome c oxidase subu	N/A	N/A	0.470	0.705	0.5	1e-14
P10817	94	Cytochrome c oxidase subu	no	N/A	0.450	0.734	0.520	1e-14
Q02221	97	Cytochrome c oxidase subu	no	N/A	0.457	0.721	0.540	1e-14
Q5RC38	97	Cytochrome c oxidase subu	yes	N/A	0.457	0.721	0.540	2e-14
P43023	97	Cytochrome c oxidase subu	no	N/A	0.444	0.701	0.527	3e-14

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

 Score = 91.3 bits (225), Expect = 2e-18,   Method: Compositional matrix adjust.
 Identities = 43/75 (57%), Positives = 53/75 (70%), Gaps = 2/75 (2%)

Query: 78  RLWRNLTYFGALPCCALVGVYVYLEHQAEEEHHVRPEFVKREYLYIRNRRFPWGDGNHTL 137
           R+W+ LTYF ALP   +  + VYL+   EE  H RPEF+   +L IR++ FPWGDGNHTL
Sbjct: 36  RMWKALTYFVALPGVGVSMLNVYLKSHHEE--HERPEFIAYPHLRIRSKPFPWGDGNHTL 93

Query: 138 FHNKHVNALPEGYEE 152
           FHN HVN LP GYE+
Sbjct: 94  FHNPHVNPLPTGYED 108

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

 Score = 90.5 bits (223), Expect = 3e-18,   Method: Compositional matrix adjust.
 Identities = 42/76 (55%), Positives = 53/76 (69%), Gaps = 2/76 (2%)

Query: 78  RLWRNLTYFGALPCCALVGVYVYLEHQAEEEHHVRPEFVKREYLYIRNRRFPWGDGNHTL 137
           R+W+ LT+F ALP  A+  + VYL+    E  H RPEF+   +L IR + FPWGDGNHTL
Sbjct: 36  RMWKTLTFFVALPGVAVSMLNVYLKSHHGE--HERPEFIAYPHLRIRTKPFPWGDGNHTL 93

Query: 138 FHNKHVNALPEGYEED 153
           FHN HVN LP GYE++
Sbjct: 94  FHNPHVNPLPTGYEDE 109

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

 Score = 90.5 bits (223), Expect = 3e-18,   Method: Compositional matrix adjust.
 Identities = 42/76 (55%), Positives = 54/76 (71%), Gaps = 2/76 (2%)

Query: 78  RLWRNLTYFGALPCCALVGVYVYLEHQAEEEHHVRPEFVKREYLYIRNRRFPWGDGNHTL 137
           R+W+ LTYF ALP   +  + V+L+ + EE  H RPEFV   +L IR + FPWGDGNHTL
Sbjct: 38  RIWKALTYFVALPGVGVSMLNVFLKSRHEE--HERPEFVAYPHLRIRTKPFPWGDGNHTL 95

Query: 138 FHNKHVNALPEGYEED 153
           FHN H+N LP GYE++
Sbjct: 96  FHNPHMNPLPTGYEDE 111

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 = 90.5 bits (223), Expect = 4e-18,   Method: Compositional matrix adjust.
 Identities = 44/77 (57%), Positives = 55/77 (71%), Gaps = 4/77 (5%)

Query: 78  RLWRNLTYFGALPCCALVGVYVYLE-HQAEEEHHVRPEFVKREYLYIRNRRFPWGDGNHT 136
           R+W+ LTYF ALP   +  + V+L+ H  EEE   RPEFV   +L IR++ FPWGDGNHT
Sbjct: 36  RMWKALTYFVALPGVGVSMLNVFLKSHHGEEE---RPEFVAYPHLRIRSKPFPWGDGNHT 92

Query: 137 LFHNKHVNALPEGYEED 153
           LFHN HVN LP GYE++
Sbjct: 93  LFHNPHVNPLPTGYEDE 109

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

 Score = 90.1 bits (222), Expect = 5e-18,   Method: Compositional matrix adjust.
 Identities = 42/76 (55%), Positives = 53/76 (69%), Gaps = 2/76 (2%)

Query: 78  RLWRNLTYFGALPCCALVGVYVYLEHQAEEEHHVRPEFVKREYLYIRNRRFPWGDGNHTL 137
           R+W+ LTYF ALP   +  + V+L+ + EE  H RP FV   +L IR + FPWGDGNHTL
Sbjct: 38  RMWKALTYFVALPGVGVSMLNVFLKSRHEE--HERPPFVAYPHLRIRTKPFPWGDGNHTL 95

Query: 138 FHNKHVNALPEGYEED 153
           FHN HVN LP GYE++
Sbjct: 96  FHNPHVNPLPTGYEDE 111

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|O13085|COX6A_ONCMY Cytochrome c oxidase subunit 6A, mitochondrial OS=Oncorhynchus mykiss PE=3 SV=1

 Score = 79.0 bits (193), Expect = 1e-14,   Method: Compositional matrix adjust.
 Identities = 37/74 (50%), Positives = 49/74 (66%), Gaps = 2/74 (2%)

Query: 78  RLWRNLTYFGALPCCALVGVYVYLEHQAEEEHHVRPEFVKREYLYIRNRRFPWGDGNHTL 137
           R W+ L++  ALP  A+     Y++ Q  +  H  PEFV   +L IR +++PWGDGNH+L
Sbjct: 27  RTWKILSFVLALPGVAVCIANAYMKMQ--QHSHEPPEFVAYSHLRIRTKKWPWGDGNHSL 84

Query: 138 FHNKHVNALPEGYE 151
           FHN H NALPEGYE
Sbjct: 85  FHNPHENALPEGYE 98

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

Oncorhynchus mykiss (taxid: 8022)

>sp|P10817|CX6A2_RAT Cytochrome c oxidase subunit 6A2, mitochondrial (Fragment) OS=Rattus norvegicus GN=Cox6a2 PE=1 SV=3

 Score = 79.0 bits (193), Expect = 1e-14,   Method: Compositional matrix adjust.
 Identities = 38/73 (52%), Positives = 46/73 (63%), Gaps = 4/73 (5%)

Query: 80  WRNLTYFGALPCCALVGVYVYLEHQAEEEHHVRPEFVKREYLYIRNRRFPWGDGNHTLFH 139
           WR LT+  ALP  AL  +  ++       HH RPEF+   +L IR + F WGDGNHTLFH
Sbjct: 25  WRLLTFVLALPSVALCSLNCWMH----AGHHERPEFIPYHHLRIRTKPFSWGDGNHTLFH 80

Query: 140 NKHVNALPEGYEE 152
           N HVN LP GYE+
Sbjct: 81  NPHVNPLPTGYEQ 93

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|Q02221|CX6A2_HUMAN Cytochrome c oxidase subunit 6A2, mitochondrial OS=Homo sapiens GN=COX6A2 PE=2 SV=2

 Score = 78.6 bits (192), Expect = 1e-14,   Method: Compositional matrix adjust.
 Identities = 40/74 (54%), Positives = 45/74 (60%), Gaps = 4/74 (5%)

Query: 78  RLWRNLTYFGALPCCALVGVYVYLEHQAEEEHHVRPEFVKREYLYIRNRRFPWGDGNHTL 137
           R WR LT+  ALP  AL     YL       H  RPEF   ++L IR + +PWGDGNHTL
Sbjct: 26  RTWRLLTFVLALPSVALCTFNSYLH----SGHRPRPEFRPYQHLRIRTKPYPWGDGNHTL 81

Query: 138 FHNKHVNALPEGYE 151
           FHN HVN LP GYE
Sbjct: 82  FHNSHVNPLPTGYE 95

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|Q5RC38|CX6A2_PONAB Cytochrome c oxidase subunit 6A2, mitochondrial OS=Pongo abelii GN=COX6A2 PE=3 SV=1

 Score = 78.6 bits (192), Expect = 2e-14,   Method: Compositional matrix adjust.
 Identities = 40/74 (54%), Positives = 45/74 (60%), Gaps = 4/74 (5%)

Query: 78  RLWRNLTYFGALPCCALVGVYVYLEHQAEEEHHVRPEFVKREYLYIRNRRFPWGDGNHTL 137
           R WR LT+  ALP  AL     YL       H  RPEF   ++L IR + +PWGDGNHTL
Sbjct: 26  RTWRLLTFVLALPSVALCTFNSYLH----SGHRPRPEFRPYQHLRIRTKPYPWGDGNHTL 81

Query: 138 FHNKHVNALPEGYE 151
           FHN HVN LP GYE
Sbjct: 82  FHNTHVNPLPTGYE 95

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

Pongo abelii (taxid: 9601)

>sp|P43023|CX6A2_MOUSE Cytochrome c oxidase subunit 6A2, mitochondrial OS=Mus musculus GN=Cox6a2 PE=1 SV=2

 Score = 77.4 bits (189), Expect = 3e-14,   Method: Compositional matrix adjust.
 Identities = 38/72 (52%), Positives = 45/72 (62%), Gaps = 4/72 (5%)

Query: 80  WRNLTYFGALPCCALVGVYVYLEHQAEEEHHVRPEFVKREYLYIRNRRFPWGDGNHTLFH 139
           WR LT+  ALP  AL  +  ++       HH RPEF+   +L IR + F WGDGNHTLFH
Sbjct: 28  WRLLTFVLALPGVALCSLNCWMH----AGHHERPEFIPYHHLRIRTKPFAWGDGNHTLFH 83

Query: 140 NKHVNALPEGYE 151
           N HVN LP GYE
Sbjct: 84  NPHVNPLPTGYE 95

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	153
110671416	105	putative mitochondrial cytochrome oxidas	0.686	1.0	0.673	5e-49
442753217	111	Putative cytochrome c oxidase subunit vi	0.496	0.684	0.592	5e-20
242002136	111	cytochrome C oxidase, subunit VIa/COX13,	0.503	0.693	0.584	6e-20
91088963	112	PREDICTED: similar to CG17280 CG17280-PA	0.483	0.660	0.605	1e-19
146746652	108	mitochondrial cytochrome c oxidase subun	0.477	0.675	0.586	1e-18
346466541	129	hypothetical protein [Amblyomma maculatu	0.764	0.906	0.374	2e-18
387015402	106	Cytochrome c oxidase subunit 6A1, mitoch	0.477	0.688	0.578	5e-18
158296406	110	AGAP000851-PA [Anopheles gambiae str. PE	0.477	0.663	0.581	7e-18
357630612	96	mitochondrial cytochrome c oxidase subun	0.483	0.770	0.578	2e-17
195121986	109	GI20495 [Drosophila mojavensis] gi|19391	0.477	0.669	0.581	2e-17

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

 Score =  198 bits (504), Expect = 5e-49,   Method: Compositional matrix adjust.
 Identities = 103/153 (67%), Positives = 105/153 (68%), Gaps = 48/153 (31%)

Query: 1   MASRLGQMMMRKFSTSPAMKSSAGNPDAVKLWRNLTYFGALPCCALVGVYVYLEHQAEEA 60
           MASRLGQMMMRKFSTSPAMKS+AGNPDAVK                              
Sbjct: 1   MASRLGQMMMRKFSTSPAMKSAAGNPDAVK------------------------------ 30

Query: 61  HHVRPEFVKREYLYIRNRLWRNLTYFGALPCCALVGVYVYLEHQAEEEHHVRPEFVKREY 120
                             LWRNLTYFGALPCCALVGVYVYLEHQAEEEHHVRPEFVKREY
Sbjct: 31  ------------------LWRNLTYFGALPCCALVGVYVYLEHQAEEEHHVRPEFVKREY 72

Query: 121 LYIRNRRFPWGDGNHTLFHNKHVNALPEGYEED 153
           LYIRNRRFPWGDGNH+LFHNKHVNALPEGYEED
Sbjct: 73  LYIRNRRFPWGDGNHSLFHNKHVNALPEGYEED 105

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 =  102 bits (254), Expect = 5e-20,   Method: Compositional matrix adjust.
 Identities = 45/76 (59%), Positives = 54/76 (71%)

Query: 78  RLWRNLTYFGALPCCALVGVYVYLEHQAEEEHHVRPEFVKREYLYIRNRRFPWGDGNHTL 137
           ++WRNLT+F A P   L  +  YL  Q   +H  RPEF K EYLYIR ++FPWGDGNH L
Sbjct: 35  KMWRNLTFFVAFPAIGLCALNAYLAEQEHHKHFHRPEFKKYEYLYIRTKKFPWGDGNHGL 94

Query: 138 FHNKHVNALPEGYEED 153
           FHN  VNALPEGYE++
Sbjct: 95  FHNPKVNALPEGYEDE 110

Source: Ixodes ricinus

Species: Ixodes ricinus

Genus: Ixodes

Family: Ixodidae

Order: Ixodida

Class: Arachnida

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 =  102 bits (253), Expect = 6e-20,   Method: Compositional matrix adjust.
 Identities = 45/77 (58%), Positives = 54/77 (70%)

Query: 77  NRLWRNLTYFGALPCCALVGVYVYLEHQAEEEHHVRPEFVKREYLYIRNRRFPWGDGNHT 136
            ++WRNLT+F A P   L  +  YL  +   +H  RPEF K EYLYIR +RFPWGDGNH 
Sbjct: 34  QKMWRNLTFFVAFPAIGLCALNAYLAEKEHHKHFHRPEFKKYEYLYIRTKRFPWGDGNHG 93

Query: 137 LFHNKHVNALPEGYEED 153
           LFHN  VNALPEGYE++
Sbjct: 94  LFHNPKVNALPEGYEDE 110

Source: Ixodes scapularis

Species: Ixodes scapularis

Genus: Ixodes

Family: Ixodidae

Order: Ixodida

Class: Arachnida

Phylum: Arthropoda

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 =  101 bits (251), Expect = 1e-19,   Method: Compositional matrix adjust.
 Identities = 46/76 (60%), Positives = 56/76 (73%), Gaps = 2/76 (2%)

Query: 78  RLWRNLTYFGALPCCALVGVYVYLEHQAEEEHHVRPEFVKREYLYIRNRRFPWGDGNHTL 137
           ++WRN+T+F A P  AL  V  YL H +   HH RP FVK EYL IR +RFPWGDGNH+L
Sbjct: 38  KVWRNMTFFVAFPAIALCAVNCYLAHYSG--HHERPPFVKYEYLRIRTKRFPWGDGNHSL 95

Query: 138 FHNKHVNALPEGYEED 153
           FHN H NALP+GYE++
Sbjct: 96  FHNPHTNALPDGYEDE 111

Source: Tribolium castaneum

Species: Tribolium castaneum

Genus: Tribolium

Family: Tenebrionidae

Order: Coleoptera

Class: Insecta

Phylum: Arthropoda

Superkingdom: Eukaryota

>gi|146746652|gb|ABQ43785.1| mitochondrial cytochrome c oxidase subunit VIa [Bombyx mori]

 Score = 97.8 bits (242), Expect = 1e-18,   Method: Compositional matrix adjust.
 Identities = 44/75 (58%), Positives = 53/75 (70%), Gaps = 2/75 (2%)

Query: 79  LWRNLTYFGALPCCALVGVYVYLEHQAEEEHHVRPEFVKREYLYIRNRRFPWGDGNHTLF 138
           LW+ +++F A P  AL  +  YL HQ  EEHH RP FV  EY+ IR +RFPWGDG  +LF
Sbjct: 35  LWKRMSFFVAFPAIALGMLNAYLAHQ--EEHHERPPFVPYEYMRIRTKRFPWGDGQKSLF 92

Query: 139 HNKHVNALPEGYEED 153
           HN HVNALP GYE+D
Sbjct: 93  HNPHVNALPSGYEDD 107

Source: Bombyx mori

Species: Bombyx mori

Genus: Bombyx

Family: Bombycidae

Order: Lepidoptera

Class: Insecta

Phylum: Arthropoda

Superkingdom: Eukaryota

>gi|346466541|gb|AEO33115.1| hypothetical protein [Amblyomma maculatum]

 Score = 97.1 bits (240), Expect = 2e-18,   Method: Compositional matrix adjust.
 Identities = 52/139 (37%), Positives = 73/139 (52%), Gaps = 22/139 (15%)

Query: 14  STSPAMKSSAGNPDAVKLWRNLTYFGALPCCALVGVYVYLEHQAEEAHHVRPEFVKREYL 73
           STS       G P+  +++RN +               + EH  E++H            
Sbjct: 13  STSKGQAGQHGEPERSEVFRNFS----------KSAVRFAEHGGEQSHEAG--------- 53

Query: 74  YIRNRLWRNLTYFGALPCCALVGVYVYLEHQAEEEHHVRPEFVKREYLYIRNRRFPWGDG 133
               +LW+ LTYF A P  AL G+ VYL  +   +H+ RPE+   EYL++R++R+PWGDG
Sbjct: 54  ---EQLWKRLTYFVAFPAIALCGINVYLAEKEHAKHYHRPEYRPYEYLHVRSKRYPWGDG 110

Query: 134 NHTLFHNKHVNALPEGYEE 152
           NHTLFHN   N +P GYEE
Sbjct: 111 NHTLFHNPKKNWVPGGYEE 129

Source: Amblyomma maculatum

Species: Amblyomma maculatum

Genus: Amblyomma

Family: Ixodidae

Order: Ixodida

Class: Arachnida

Phylum: Arthropoda

Superkingdom: Eukaryota

>gi|387015402|gb|AFJ49820.1| Cytochrome c oxidase subunit 6A1, mitochondrial-like [Crotalus adamanteus]

 Score = 95.9 bits (237), Expect = 5e-18,   Method: Compositional matrix adjust.
 Identities = 44/76 (57%), Positives = 57/76 (75%), Gaps = 3/76 (3%)

Query: 77  NRLWRNLTYFGALPCCALVGVYVYLEHQAEEEHHVRPEFVKREYLYIRNRRFPWGDGNHT 136
           +R+W+ L++  ALP  AL  +  YL+   +E+HH RPEF+  ++LYIR + FPWGDGNHT
Sbjct: 34  DRIWKILSFVVALPAVALCQLNCYLK---KEKHHERPEFIPYKHLYIRTKPFPWGDGNHT 90

Query: 137 LFHNKHVNALPEGYEE 152
           LFHN HVNALP GYEE
Sbjct: 91  LFHNPHVNALPTGYEE 106

Source: Crotalus adamanteus

Species: Crotalus adamanteus

Genus: Crotalus

Family: Viperidae

Order: Squamata

Phylum: Chordata

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 = 95.5 bits (236), Expect = 7e-18,   Method: Compositional matrix adjust.
 Identities = 43/74 (58%), Positives = 56/74 (75%), Gaps = 1/74 (1%)

Query: 78  RLWRNLTYFGALPCCALVGVYVYLEHQAEEEHHVRPEFVKREYLYIRNRRFPWGDGNHTL 137
           ++W+ L++F A+P   L  +  YL+HQ EE  H RPEFVK E+L IRN+RFPWG+GN +L
Sbjct: 37  KVWKKLSFFVAVPAVGLCMLNAYLKHQ-EEHGHPRPEFVKYEHLRIRNKRFPWGEGNKSL 95

Query: 138 FHNKHVNALPEGYE 151
           FHN H NALP+GYE
Sbjct: 96  FHNPHTNALPDGYE 109

Source: Anopheles gambiae str. PEST

Species: Anopheles gambiae

Genus: Anopheles

Family: Culicidae

Order: Diptera

Class: Insecta

Phylum: Arthropoda

Superkingdom: Eukaryota

>gi|357630612|gb|EHJ78614.1| mitochondrial cytochrome c oxidase subunit VIa [Danaus plexippus]

 Score = 93.6 bits (231), Expect = 2e-17,   Method: Compositional matrix adjust.
 Identities = 44/76 (57%), Positives = 53/76 (69%), Gaps = 2/76 (2%)

Query: 78  RLWRNLTYFGALPCCALVGVYVYLEHQAEEEHHVRPEFVKREYLYIRNRRFPWGDGNHTL 137
           +LW+ L+ F A+P   L  +  YL HQ  EEHH RP FV  EYL +R +RFPWGDG  TL
Sbjct: 22  QLWKRLSIFVAVPAIGLGMLNAYLAHQ--EEHHERPPFVAFEYLRVRTKRFPWGDGQKTL 79

Query: 138 FHNKHVNALPEGYEED 153
           FHN HVNALP GYE++
Sbjct: 80  FHNPHVNALPSGYEDE 95

Source: Danaus plexippus

Species: Danaus plexippus

Genus: Danaus

Family: Nymphalidae

Order: Lepidoptera

Class: Insecta

Phylum: Arthropoda

Superkingdom: Eukaryota

>gi|195121986|ref|XP_002005493.1| GI20495 [Drosophila mojavensis] gi|193910561|gb|EDW09428.1| GI20495 [Drosophila mojavensis]

 Score = 93.6 bits (231), Expect = 2e-17,   Method: Compositional matrix adjust.
 Identities = 43/74 (58%), Positives = 55/74 (74%), Gaps = 1/74 (1%)

Query: 78  RLWRNLTYFGALPCCALVGVYVYLEHQAEEEHHVRPEFVKREYLYIRNRRFPWGDGNHTL 137
           ++W+ L++F A+P   L  +  YL+HQ EE  H RPEFVK EYL  R +RFPWG+GN +L
Sbjct: 36  KVWKRLSFFVAMPAVGLCMLNAYLKHQ-EEHDHPRPEFVKYEYLRRREKRFPWGEGNKSL 94

Query: 138 FHNKHVNALPEGYE 151
           FHN HVNALP+GYE
Sbjct: 95  FHNPHVNALPDGYE 108

Source: Drosophila mojavensis

Species: Drosophila mojavensis

Genus: Drosophila

Family: Drosophilidae

Order: Diptera

Class: Insecta

Phylum: Arthropoda

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	153
UNIPROTKB|F1RJI7	109	COX6A1 "Cytochrome c oxidase s	0.477	0.669	0.584	1.9e-19
UNIPROTKB|P12074	109	COX6A1 "Cytochrome c oxidase s	0.477	0.669	0.558	8.3e-19
UNIPROTKB|Q5T8I0	109	COX6A1P2 "Protein COX6A1P2" [H	0.477	0.669	0.558	8.3e-19
UNIPROTKB|P13182	109	COX6A1 "Cytochrome c oxidase s	0.477	0.669	0.571	8.3e-19
UNIPROTKB|F1MBC7	109	F1MBC7 "Cytochrome c oxidase s	0.477	0.669	0.571	8.3e-19
RGD|2384	111	Cox6a1 "cytochrome c oxidase,	0.483	0.666	0.552	1.4e-18
UNIPROTKB|J9P8X9	233	LOC477508 "Cytochrome c oxidas	0.477	0.313	0.545	2.2e-18
MGI|MGI:103099	111	Cox6a1 "cytochrome c oxidase s	0.483	0.666	0.552	2.8e-18
ZFIN|ZDB-GENE-030131-7715	108	cox6a1 "cytochrome c oxidase s	0.464	0.657	0.554	9.5e-18
FB|FBgn0034877	109	levy "levy" [Drosophila melano	0.477	0.669	0.527	1.2e-17

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

 Score = 232 (86.7 bits), Expect = 1.9e-19, P = 1.9e-19
 Identities = 45/77 (58%), Positives = 56/77 (72%)

Query:    78 RLWRNLTYFGALPCCALVGVYVYLE-HQAEEEHHVRPEFVKREYLYIRNRRFPWGDGNHT 136
             R+W+ LTYF ALP   +  + V+L+ H AEEE   RPEFV   +L IR++ FPWGDGNHT
Sbjct:    36 RMWKTLTYFVALPGVGVSMLNVFLKSHHAEEE---RPEFVPYPHLRIRSKPFPWGDGNHT 92

Query:   137 LFHNKHVNALPEGYEED 153
             LFHN HVN LP GYE++
Sbjct:    93 LFHNPHVNPLPTGYEDE 109

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

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

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

 Score = 226 (84.6 bits), Expect = 8.3e-19, P = 8.3e-19
 Identities = 43/77 (55%), Positives = 54/77 (70%)

Query:    78 RLWRNLTYFGALPCCALVGVYVYLE-HQAEEEHHVRPEFVKREYLYIRNRRFPWGDGNHT 136
             R+W+ LT+F ALP  A+  + VYL+ H  E   H RPEF+   +L IR + FPWGDGNHT
Sbjct:    36 RMWKTLTFFVALPGVAVSMLNVYLKSHHGE---HERPEFIAYPHLRIRTKPFPWGDGNHT 92

Query:   137 LFHNKHVNALPEGYEED 153
             LFHN HVN LP GYE++
Sbjct:    93 LFHNPHVNPLPTGYEDE 109

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 = 226 (84.6 bits), Expect = 8.3e-19, P = 8.3e-19
 Identities = 43/77 (55%), Positives = 54/77 (70%)

Query:    78 RLWRNLTYFGALPCCALVGVYVYLE-HQAEEEHHVRPEFVKREYLYIRNRRFPWGDGNHT 136
             R+W+ LT+F ALP  A+  + VYL+ H  E   H RPEF+   +L IR + FPWGDGNHT
Sbjct:    36 RMWKTLTFFVALPGVAVSMLNVYLKSHHGE---HERPEFIAYPHLRIRTKPFPWGDGNHT 92

Query:   137 LFHNKHVNALPEGYEED 153
             LFHN HVN LP GYE++
Sbjct:    93 LFHNPHVNPLPTGYEDE 109

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

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

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

 Score = 226 (84.6 bits), Expect = 8.3e-19, P = 8.3e-19
 Identities = 44/77 (57%), Positives = 55/77 (71%)

Query:    78 RLWRNLTYFGALPCCALVGVYVYLE-HQAEEEHHVRPEFVKREYLYIRNRRFPWGDGNHT 136
             R+W+ LTYF ALP   +  + V+L+ H  EEE   RPEFV   +L IR++ FPWGDGNHT
Sbjct:    36 RMWKALTYFVALPGVGVSMLNVFLKSHHGEEE---RPEFVAYPHLRIRSKPFPWGDGNHT 92

Query:   137 LFHNKHVNALPEGYEED 153
             LFHN HVN LP GYE++
Sbjct:    93 LFHNPHVNPLPTGYEDE 109

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

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

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

 Score = 226 (84.6 bits), Expect = 8.3e-19, P = 8.3e-19
 Identities = 44/77 (57%), Positives = 55/77 (71%)

Query:    78 RLWRNLTYFGALPCCALVGVYVYLE-HQAEEEHHVRPEFVKREYLYIRNRRFPWGDGNHT 136
             R+W+ LTYF ALP   +  + V+L+ H  EEE   RPEFV   +L IR++ FPWGDGNHT
Sbjct:    36 RIWKALTYFVALPGVGVSMLNVFLKSHHGEEE---RPEFVAYPHLRIRSKPFPWGDGNHT 92

Query:   137 LFHNKHVNALPEGYEED 153
             LFHN HVN LP GYE++
Sbjct:    93 LFHNPHVNPLPTGYEDE 109

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 = 224 (83.9 bits), Expect = 1.4e-18, P = 1.4e-18
 Identities = 42/76 (55%), Positives = 54/76 (71%)

Query:    78 RLWRNLTYFGALPCCALVGVYVYLEHQAEEEHHVRPEFVKREYLYIRNRRFPWGDGNHTL 137
             R+W+ LTYF ALP   +  + V+L+ + EE  H RPEFV   +L IR + FPWGDGNHTL
Sbjct:    38 RIWKALTYFVALPGVGVSMLNVFLKSRHEE--HERPEFVAYPHLRIRTKPFPWGDGNHTL 95

Query:   138 FHNKHVNALPEGYEED 153
             FHN H+N LP GYE++
Sbjct:    96 FHNPHMNPLPTGYEDE 111

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

GO:0005739 "mitochondrion" evidence=ISO

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

UNIPROTKB|J9P8X9 LOC477508 "Cytochrome c oxidase subunit 6A, mitochondrial" [Canis lupus familiaris (taxid:9615)]

 Score = 222 (83.2 bits), Expect = 2.2e-18, P = 2.2e-18
 Identities = 42/77 (54%), Positives = 54/77 (70%)

Query:    78 RLWRNLTYFGALPCCALVGVYVYLE-HQAEEEHHVRPEFVKREYLYIRNRRFPWGDGNHT 136
             R+W+ LTYF ALP   +  + V+L+ H  E   H RPEF+   +L IR++ FPWGDGNHT
Sbjct:   160 RMWKALTYFVALPGVGVSMLNVFLKSHHGE---HERPEFIAYPHLRIRSKPFPWGDGNHT 216

Query:   137 LFHNKHVNALPEGYEED 153
             LFHN HVN LP GYE++
Sbjct:   217 LFHNSHVNPLPTGYEDE 233

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

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

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

 Score = 221 (82.9 bits), Expect = 2.8e-18, P = 2.8e-18
 Identities = 42/76 (55%), Positives = 53/76 (69%)

Query:    78 RLWRNLTYFGALPCCALVGVYVYLEHQAEEEHHVRPEFVKREYLYIRNRRFPWGDGNHTL 137
             R+W+ LTYF ALP   +  + V+L+ + EE  H RP FV   +L IR + FPWGDGNHTL
Sbjct:    38 RMWKALTYFVALPGVGVSMLNVFLKSRHEE--HERPPFVAYPHLRIRTKPFPWGDGNHTL 95

Query:   138 FHNKHVNALPEGYEED 153
             FHN HVN LP GYE++
Sbjct:    96 FHNPHVNPLPTGYEDE 111

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

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

 Score = 216 (81.1 bits), Expect = 9.5e-18, P = 9.5e-18
 Identities = 41/74 (55%), Positives = 52/74 (70%)

Query:    78 RLWRNLTYFGALPCCALVGVYVYLEHQAEEEHHVRPEFVKREYLYIRNRRFPWGDGNHTL 137
             + W+ LT+  ALP  A+  + +YL  Q    HH +PEFV   +L IR++RFPWGDGN TL
Sbjct:    34 KTWKILTFVVALPGVAVCMLNMYLRSQ---HHHEQPEFVPYSHLRIRSKRFPWGDGNKTL 90

Query:   138 FHNKHVNALPEGYE 151
             FHN HVNALP+GYE
Sbjct:    91 FHNPHVNALPDGYE 104

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

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

 Score = 215 (80.7 bits), Expect = 1.2e-17, P = 1.2e-17
 Identities = 39/74 (52%), Positives = 52/74 (70%)

Query:    78 RLWRNLTYFGALPCCALVGVYVYLEHQAEEEHHVRPEFVKREYLYIRNRRFPWGDGNHTL 137
             ++W+ L++F A+P   L  +  YL+HQ EE    R EFVK +YL  R +RFPWG+G  +L
Sbjct:    36 KVWKRLSFFVAVPAVGLCMLNAYLKHQ-EEHDKPRQEFVKYDYLRRREKRFPWGEGQKSL 94

Query:   138 FHNKHVNALPEGYE 151
             FHN HVNALP+GYE
Sbjct:    95 FHNPHVNALPDGYE 108

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

---

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)
P13182	CX6A1_BOVIN	No assigned EC number	0.5714	0.4771	0.6697	yes	N/A
P12074	CX6A1_HUMAN	No assigned EC number	0.5526	0.4836	0.6788	yes	N/A
P43024	CX6A1_MOUSE	No assigned EC number	0.5526	0.4836	0.6666	yes	N/A
Q9TTT7	CX6A1_RABIT	No assigned EC number	0.5733	0.4771	0.6697	yes	N/A
Q5RC38	CX6A2_PONAB	No assigned EC number	0.5405	0.4575	0.7216	yes	N/A
P10818	CX6A1_RAT	No assigned EC number	0.5526	0.4836	0.6666	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	153
cd00925	86	cd00925, Cyt_c_Oxidase_VIa, Cytochrome c oxidase s	6e-33
pfam02046	116	pfam02046, COX6A, Cytochrome c oxidase subunit VIa	5e-29
PLN02595	102	PLN02595, PLN02595, cytochrome c oxidase subunit V	3e-04

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

 Score =  111 bits (279), Expect = 6e-33
 Identities = 43/74 (58%), Positives = 54/74 (72%), Gaps = 1/74 (1%)

Query: 78  RLWRNLTYFGALPCCALVGVYVYLEHQAEEEHHVRPEFVKREYLYIRNRRFPWGDGNHTL 137
            LW+ ++++ ALP  AL  +  YL+H+ E E H RPEFV+ E+L IR + FPWGDGN TL
Sbjct: 14  ELWKKISFYVALPAVALCMLNAYLKHK-EHEEHERPEFVEYEHLNIRTKPFPWGDGNKTL 72

Query: 138 FHNKHVNALPEGYE 151
           FHN HVNALP GYE
Sbjct: 73  FHNPHVNALPTGYE 86

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

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

 Score =  102 bits (256), Expect = 5e-29
 Identities = 35/74 (47%), Positives = 45/74 (60%), Gaps = 4/74 (5%)

Query: 78  RLWRNLTYFGALPCCALVGVYVYLEHQAEEEH--HV--RPEFVKREYLYIRNRRFPWGDG 133
           +LW+ L+Y+ A+P  AL  +  Y       EH  H+  R EFV+ EY  IR + FPWGDG
Sbjct: 43  KLWKKLSYYVAIPAIALCAINAYFLEAEHAEHREHLPDREEFVEYEYQNIRTKPFPWGDG 102

Query: 134 NHTLFHNKHVNALP 147
           + TLF N HVNA P
Sbjct: 103 DKTLFWNPHVNAHP 116

Length = 116

>gnl|CDD|178205 PLN02595, PLN02595, cytochrome c oxidase subunit VI protein

 Score = 37.9 bits (87), Expect = 3e-04
 Identities = 25/63 (39%), Positives = 32/63 (50%), Gaps = 7/63 (11%)

Query: 80  WRNLTYFGALPCCALVGVYVYLEHQAEEEHHVRPEFVKREYLYIRNRRFPWG-DGNHTLF 138
           W  +TY G   C AL  VYV       + HH   +     Y++IRN+ FPWG DG   + 
Sbjct: 44  WEKITYLGIASCTAL-AVYVL-----SKGHHHGEDPPAYPYMHIRNKEFPWGPDGLFEVK 97

Query: 139 HNK 141
           HNK
Sbjct: 98  HNK 100

Length = 102

Conserved Domains Detected by HHsearch

Original result of HHsearch against CDD database

ID	Length	Definition	Probability
Query	153
cd00925	86	Cyt_c_Oxidase_VIa Cytochrome c oxidase subunit VIa	100.0
PF02046	116	COX6A: Cytochrome c oxidase subunit VIa; InterPro:	100.0
KOG3469|consensus	112		100.0
PLN02595	102	cytochrome c oxidase subunit VI protein	99.91
cd00925	86	Cyt_c_Oxidase_VIa Cytochrome c oxidase subunit VIa	99.87
PF02046	116	COX6A: Cytochrome c oxidase subunit VIa; InterPro:	99.84
KOG3469|consensus	112		99.73
PLN02595	102	cytochrome c oxidase subunit VI protein	99.58

>cd00925 Cyt_c_Oxidase_VIa Cytochrome c oxidase subunit VIa

Probab=100.00  E-value=2.1e-42  Score=249.53  Aligned_cols=75  Identities=57%  Similarity=1.082  Sum_probs=72.1

Q ss_pred             hhhhhhhhhhhchhhHHHHHHHHHHHhhhhhhhccCCCCCCCCCccccccCCCCCCCCCCCCccCCCCCCCCCCCC
Q psy17595         76 RNRLWRNLTYFGALPCCALVGVYVYLEHQAEEEHHVRPEFVKREYLYIRNRRFPWGDGNHTLFHNKHVNALPEGYE  151 (153)
Q Consensus        76 rtK~WkkiS~fVaiP~v~l~~~n~y~~~~eh~~hh~~pe~~~Y~yl~iR~K~FPWGdG~~tLFhNp~~N~lp~gyE  151 (153)
                      ++++||+||+|||+|||+||++|+|+.+++|++ +++|||++|+|||||+|+||||||||||||||++|+||+|||
T Consensus        12 ~~~~WkkiS~~va~P~v~l~~~n~y~~~~eh~~-~~~pe~~~Y~yl~IR~K~FpWGDG~~tlFhN~~vN~lp~gye   86 (86)
T cd00925          12 TSELWKKISFYVALPAVALCMLNAYLKHKEHEE-HERPEFVEYEHLNIRTKPFPWGDGNKTLFHNPHVNALPTGYE   86 (86)
T ss_pred             hhhhhhhhhhhhHHHHHHHHHHHHHhhhhcccc-cCCCCCCCCccceeecCCCCCCCCCcccccCCCcCCCCCCCC
Confidence            789999999999999999999999999998765 679999999999999999999999999999999999999998

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=100.00  E-value=1.1e-36  Score=230.04  Aligned_cols=71  Identities=54%  Similarity=1.019  Sum_probs=47.1

Q ss_pred             hhhhhhhhhhhchhhHHHHHHHHHHHhhhhhhhc--c--CCCCCCCCCccccccCCCCCCCCCCCCccCCCCCCC
Q psy17595         76 RNRLWRNLTYFGALPCCALVGVYVYLEHQAEEEH--H--VRPEFVKREYLYIRNRRFPWGDGNHTLFHNKHVNAL  146 (153)
Q Consensus        76 rtK~WkkiS~fVaiP~v~l~~~n~y~~~~eh~~h--h--~~pe~~~Y~yl~iR~K~FPWGdG~~tLFhNp~~N~l  146 (153)
                      .+|+||+||+|||||+|+|+++|+|..+.+|++|  |  ++|||++|||||||+|+||||||||||||||++|+|
T Consensus        41 ~~~~Wk~iS~~v~iP~i~l~~~n~~~l~~~H~eH~~h~~~~pe~~~Y~yl~iR~K~FPWGDG~~tLFhNp~~N~l  115 (116)
T PF02046_consen   41 TAKLWKKISFFVAIPAIALCMLNAYYLEKEHHEHREHLPERPEFVPYPYLRIRTKPFPWGDGNHTLFHNPHVNAL  115 (116)
T ss_dssp             SHHHHHHHHHHTHHHHHHHHHHHHH-HSTS-----------------TTSS--SS--SSTTSSS-TT--TTT-EB
T ss_pred             hhHHHHHHHHHHHHHHHHHHHHHHHHHhhccccccccCCCCCCCCCCccceecCCCCCCCCCCcCCccCCCcCCC
Confidence            7899999999999999999999999777776653  2  689999999999999999999999999999999987

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=100.00  E-value=7.4e-36  Score=224.02  Aligned_cols=76  Identities=58%  Similarity=1.052  Sum_probs=73.1

Q ss_pred             hhhhhhhhhhchhhHHHHHHHHHHHhhhhhhhccCCCCCCCCCccccccCCCCCCCCCCCCccCCCCCCCCCCCCCC
Q psy17595         77 NRLWRNLTYFGALPCCALVGVYVYLEHQAEEEHHVRPEFVKREYLYIRNRRFPWGDGNHTLFHNKHVNALPEGYEED  153 (153)
Q Consensus        77 tK~WkkiS~fVaiP~v~l~~~n~y~~~~eh~~hh~~pe~~~Y~yl~iR~K~FPWGdG~~tLFhNp~~N~lp~gyE~e  153 (153)
                      +++|++||+|+|+||++|||+|+|+++++|.+ |++||++.|+|||||+|+|||||||+||||||++|+||+|||+|
T Consensus        37 s~~Wkkit~~~alP~~al~~~n~y~~~~~~~e-~~~~e~~~Y~fl~iR~K~fpWgdG~~tLfhN~~vn~l~~~~E~d  112 (112)
T KOG3469|consen   37 SRTWKKITFFVALPAVALAMYNAYLGHGHHPE-HERPEFRAYEFLNIRNKPFPWGDGNKTLFHNPHVNPLPTGYEHD  112 (112)
T ss_pred             hhhhhheeeeeeccHHHHHHHHHHHhhccCcc-cCCccccccchhhhhcCCCCCCCCcchhccCcccccCcccccCC
Confidence            68999999999999999999999999988765 88999999999999999999999999999999999999999986

>PLN02595 cytochrome c oxidase subunit VI protein

Probab=99.91  E-value=5.7e-25  Score=162.82  Aligned_cols=61  Identities=34%  Similarity=0.716  Sum_probs=45.7

Q ss_pred             hhhhhhhhhhhchhhHHHHHHHHHHHhhhhhhhccCCCCCCCCCccccccCCCCCC-CCCCCCccCCC
Q psy17595         76 RNRLWRNLTYFGALPCCALVGVYVYLEHQAEEEHHVRPEFVKREYLYIRNRRFPWG-DGNHTLFHNKH  142 (153)
Q Consensus        76 rtK~WkkiS~fVaiP~v~l~~~n~y~~~~eh~~hh~~pe~~~Y~yl~iR~K~FPWG-dG~~tLFhNp~  142 (153)
                      .+++||+||+|+++||++   +|+|+.+++|++ +  +|+++|||||||||+|||| ||++++|||.+
T Consensus        40 ~a~~WkklS~~~v~~c~~---lnaY~l~~eH~~-~--e~p~~Y~yLrIRtK~FPWG~DG~~e~~hn~~  101 (102)
T PLN02595         40 EAAKWEKITYLGIASCTA---LAVYVLSKGHHH-G--EDPPAYPYMHIRNKEFPWGPDGLFEVKHNKE  101 (102)
T ss_pred             hhhhhhhhhHHHhHHHHH---HHHHHhhhcccc-C--CCCCCCCcceeecCCCCCCCCcccccccccC
Confidence            566788888876444422   367777666543 3  4445999999999999999 99999999974

>cd00925 Cyt_c_Oxidase_VIa Cytochrome c oxidase subunit VIa

Probab=99.87  E-value=1.3e-23  Score=151.71  Aligned_cols=61  Identities=41%  Similarity=0.787  Sum_probs=54.3

Q ss_pred             CchhhhhhhhhheecchhhHHHHHHHHHHhhhhhhcCCCCCcccchhhhhhhhhh--hh--hhhhh
Q psy17595         25 NPDAVKLWRNLTYFGALPCCALVGVYVYLEHQAEEAHHVRPEFVKREYLYIRNRL--WR--NLTYF   86 (153)
Q Consensus        25 ~~~~~~lWkkls~~va~P~i~l~~~n~y~~~~eh~~~~~~pe~~~Y~yl~irtK~--Wk--kiS~f   86 (153)
                      .++++++|||||||||+|||+|||+|+|++++||++ +++|||++|+|||||+|.  |+  +-|+|
T Consensus         9 ~~~~~~~WkkiS~~va~P~v~l~~~n~y~~~~eh~~-~~~pe~~~Y~yl~IR~K~FpWGDG~~tlF   73 (86)
T cd00925           9 AAGTSELWKKISFYVALPAVALCMLNAYLKHKEHEE-HERPEFVEYEHLNIRTKPFPWGDGNKTLF   73 (86)
T ss_pred             ccchhhhhhhhhhhhHHHHHHHHHHHHHhhhhcccc-cCCCCCCCCccceeecCCCCCCCCCcccc
Confidence            457899999999999999999999999999998754 689999999999999998  74  45665

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=99.84  E-value=1.8e-22  Score=152.65  Aligned_cols=63  Identities=37%  Similarity=0.704  Sum_probs=40.6

Q ss_pred             CCchhhhhhhhhheecchhhHHHHHHHHHHhhhhhhcC----CCCCcccchhhhhhhhhh--h--hhhhhh
Q psy17595         24 GNPDAVKLWRNLTYFGALPCCALVGVYVYLEHQAEEAH----HVRPEFVKREYLYIRNRL--W--RNLTYF   86 (153)
Q Consensus        24 ~~~~~~~lWkkls~~va~P~i~l~~~n~y~~~~eh~~~----~~~pe~~~Y~yl~irtK~--W--kkiS~f   86 (153)
                      +.++++++||+||||||+|+|+||++|+|.++++|++|    .++|||++|+|||||+|.  |  ++-|+|
T Consensus        37 ha~~~~~~Wk~iS~~v~iP~i~l~~~n~~~l~~~H~eH~~h~~~~pe~~~Y~yl~iR~K~FPWGDG~~tLF  107 (116)
T PF02046_consen   37 HAEETAKLWKKISFFVAIPAIALCMLNAYYLEKEHHEHREHLPERPEFVPYPYLRIRTKPFPWGDGNHTLF  107 (116)
T ss_dssp             TSSSSHHHHHHHHHHTHHHHHHHHHHHHH-HSTS-----------------TTSS--SS--SSTTSSS-TT
T ss_pred             chhhhhHHHHHHHHHHHHHHHHHHHHHHHHHhhccccccccCCCCCCCCCCccceecCCCCCCCCCCcCCc
Confidence            34788999999999999999999999999888877533    378999999999999998  8  567776

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=99.73  E-value=7.9e-19  Score=132.10  Aligned_cols=80  Identities=33%  Similarity=0.571  Sum_probs=62.1

Q ss_pred             ChhHHhHHHHHhhhcCcccc------cCCCCchhhhhhhhhheecchhhHHHHHHHHHHhhhhhhcCCCCCcccchhhhh
Q psy17595          1 MASRLGQMMMRKFSTSPAMK------SSAGNPDAVKLWRNLTYFGALPCCALVGVYVYLEHQAEEAHHVRPEFVKREYLY   74 (153)
Q Consensus         1 m~~~~~~~~~r~~~~~~~~~------~~~~~~~~~~lWkkls~~va~P~i~l~~~n~y~~~~eh~~~~~~pe~~~Y~yl~   74 (153)
                      |++.+.++..|++..++.+.      ..+..++.+++|||||||||+||++|||+|+|+.+++|+ +|++||+++|+|||
T Consensus         3 l~~~~~rSv~r~~~~ks~~~~~~~~~~~~~~e~~s~~Wkkit~~~alP~~al~~~n~y~~~~~~~-e~~~~e~~~Y~fl~   81 (112)
T KOG3469|consen    3 LAVPLTRSVTRRLGLKSARHMYRRAAVAGFKEGGSRTWKKITFFVALPAVALAMYNAYLGHGHHP-EHERPEFRAYEFLN   81 (112)
T ss_pred             cchhhcccccccccccccccccchhhhhhhcchhhhhhhheeeeeeccHHHHHHHHHHHhhccCc-ccCCccccccchhh
Confidence            34445566666666555542      222235557999999999999999999999999998764 47899999999999


Q ss_pred             hhhhh--hh
Q psy17595         75 IRNRL--WR   81 (153)
Q Consensus        75 irtK~--Wk   81 (153)
                      ||+|.  |.
T Consensus        82 iR~K~fpWg   90 (112)
T KOG3469|consen   82 IRNKPFPWG   90 (112)
T ss_pred             hhcCCCCCC
Confidence            99997  74

>PLN02595 cytochrome c oxidase subunit VI protein

Probab=99.58  E-value=8.1e-16  Score=114.13  Aligned_cols=50  Identities=24%  Similarity=0.472  Sum_probs=39.9

Q ss_pred             CchhhhhhhhhheecchhhHHHHH-HHHHHhhhhhhcCCCCCcccchhhhhhhhhh--hh
Q psy17595         25 NPDAVKLWRNLTYFGALPCCALVG-VYVYLEHQAEEAHHVRPEFVKREYLYIRNRL--WR   81 (153)
Q Consensus        25 ~~~~~~lWkkls~~va~P~i~l~~-~n~y~~~~eh~~~~~~pe~~~Y~yl~irtK~--Wk   81 (153)
                      .++++++|||||||+    |++|| +|+|++++||++ +  ||+++|+|||||+|.  |+
T Consensus        37 ~a~~a~~WkklS~~~----v~~c~~lnaY~l~~eH~~-~--e~p~~Y~yLrIRtK~FPWG   89 (102)
T PLN02595         37 DAYEAAKWEKITYLG----IASCTALAVYVLSKGHHH-G--EDPPAYPYMHIRNKEFPWG   89 (102)
T ss_pred             cchhhhhhhhhhHHH----hHHHHHHHHHHhhhcccc-C--CCCCCCCcceeecCCCCCC
Confidence            346899999999996    66667 499999988743 3  444599999999998  76

---

Homologous Structure Templates

Structure Templates Detected by BLAST

Original result of BLAST against Protein Data Bank

ID	Length	Definition	E-value
Query	153
2y69_G	97	Bovine Heart Cytochrome C Oxidase Re-Refined With M		3e-13
1occ_G	84	Structure Of Bovine Heart Cytochrome C Oxidase At T		4e-13
1v54_G	85	Bovine Heart Cytochrome C Oxidase At The Fully Oxid		4e-13

>pdb|2Y69|G Chain G, Bovine Heart Cytochrome C Oxidase Re-Refined With Molecular Oxygen Length = 97

Iteration: 1
 Score = 70.9 bits (172), Expect = 3e-13,   Method: Compositional matrix adjust.
 Identities = 36/75 (48%), Positives = 43/75 (57%), Gaps = 4/75 (5%)
Query: 78  RLWRNLTYFGALPCCALVGVYVYLEHQAEEEHHVRPEFVKREYLYIRNRRFPWGDGNHTL 137
           R WR LT+  ALP  AL  +  +L       H  RP F+   +L IR + F WGDGNHT 
Sbjct: 26  RTWRFLTFGLALPSVALCTLNSWLH----SGHRERPAFIPYHHLRIRTKPFSWGDGNHTF 81
Query: 138 FHNKHVNALPEGYEE 152
           FHN  VN LP GYE+
Sbjct: 82  FHNPRVNPLPTGYEK 96

>pdb|1OCC|G Chain G, Structure Of Bovine Heart Cytochrome C Oxidase At The Fully Oxidized State Length = 84

Iteration: 1
 Score = 70.1 bits (170), Expect = 4e-13,   Method: Compositional matrix adjust.
 Identities = 36/75 (48%), Positives = 43/75 (57%), Gaps = 4/75 (5%)
Query: 78  RLWRNLTYFGALPCCALVGVYVYLEHQAEEEHHVRPEFVKREYLYIRNRRFPWGDGNHTL 137
           R WR LT+  ALP  AL  +  +L       H  RP F+   +L IR + F WGDGNHT 
Sbjct: 14  RTWRFLTFGLALPSVALCTLNSWLH----SGHRERPAFIPYHHLRIRTKPFSWGDGNHTF 69
Query: 138 FHNKHVNALPEGYEE 152
           FHN  VN LP GYE+
Sbjct: 70  FHNPRVNPLPTGYEK 84

>pdb|1V54|G Chain G, Bovine Heart Cytochrome C Oxidase At The Fully Oxidized State Length = 85

Iteration: 1
 Score = 70.1 bits (170), Expect = 4e-13,   Method: Compositional matrix adjust.
 Identities = 36/75 (48%), Positives = 43/75 (57%), Gaps = 4/75 (5%)
Query: 78  RLWRNLTYFGALPCCALVGVYVYLEHQAEEEHHVRPEFVKREYLYIRNRRFPWGDGNHTL 137
           R WR LT+  ALP  AL  +  +L       H  RP F+   +L IR + F WGDGNHT 
Sbjct: 14  RTWRFLTFGLALPSVALCTLNSWLH----SGHRERPAFIPYHHLRIRTKPFSWGDGNHTF 69
Query: 138 FHNKHVNALPEGYEE 152
           FHN  VN LP GYE+
Sbjct: 70  FHNPRVNPLPTGYEK 84

Structure Templates Detected by RPS-BLAST

Original result of RPS-BLAST against PDB70 database

ID	Length	Definition	E-value
Query	153
2y69_G	97	Cytochrome C oxidase polypeptide 6A2; electron tra	3e-34
1v54_G	85	Cytochrome C oxidase polypeptide VIA-heart; oxidor	4e-34

>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 =  114 bits (287), Expect = 3e-34
 Identities = 36/75 (48%), Positives = 43/75 (57%), Gaps = 4/75 (5%)

Query: 78  RLWRNLTYFGALPCCALVGVYVYLEHQAEEEHHVRPEFVKREYLYIRNRRFPWGDGNHTL 137
           R WR LT+  ALP  AL  +  +L       H  RP F+   +L IR + F WGDGNHT 
Sbjct: 26  RTWRFLTFGLALPSVALCTLNSWLHS----GHRERPAFIPYHHLRIRTKPFSWGDGNHTF 81

Query: 138 FHNKHVNALPEGYEE 152
           FHN  VN LP GYE+
Sbjct: 82  FHNPRVNPLPTGYEK 96

>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 =  113 bits (285), Expect = 4e-34
 Identities = 36/75 (48%), Positives = 43/75 (57%), Gaps = 4/75 (5%)

Query: 78  RLWRNLTYFGALPCCALVGVYVYLEHQAEEEHHVRPEFVKREYLYIRNRRFPWGDGNHTL 137
           R WR LT+  ALP  AL  +  +L       H  RP F+   +L IR + F WGDGNHT 
Sbjct: 14  RTWRFLTFGLALPSVALCTLNSWLHS----GHRERPAFIPYHHLRIRTKPFSWGDGNHTF 69

Query: 138 FHNKHVNALPEGYEE 152
           FHN  VN LP GYE+
Sbjct: 70  FHNPRVNPLPTGYEK 84

Structure Templates Detected by HHsearch

Original result of HHsearch against PDB70 database

ID	Length	Definition	Probability
Query	153
1v54_G	85	Cytochrome C oxidase polypeptide VIA-heart; oxidor	100.0
2y69_G	97	Cytochrome C oxidase polypeptide 6A2; electron tra	100.0
2y69_G	97	Cytochrome C oxidase polypeptide 6A2; electron tra	99.84
1v54_G	85	Cytochrome C oxidase polypeptide VIA-heart; oxidor	99.83

>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=100.00  E-value=4.6e-43  Score=251.38  Aligned_cols=74  Identities=47%  Similarity=0.826  Sum_probs=70.2

Q ss_pred             hhhhhhhhhhhchhhHHHHHHHHHHHhhhhhhhccCCCCCCCCCccccccCCCCCCCCCCCCccCCCCCCCCCCCCCC
Q psy17595         76 RNRLWRNLTYFGALPCCALVGVYVYLEHQAEEEHHVRPEFVKREYLYIRNRRFPWGDGNHTLFHNKHVNALPEGYEED  153 (153)
Q Consensus        76 rtK~WkkiS~fVaiP~v~l~~~n~y~~~~eh~~hh~~pe~~~Y~yl~iR~K~FPWGdG~~tLFhNp~~N~lp~gyE~e  153 (153)
                      ++++||+||+|||+|+|+||++|+|+.+++    |++|||++|+|||||+|+||||||||||||||++|+||+|||||
T Consensus        12 ~~~~Wkkis~~va~P~v~l~~~n~y~~~~e----~~~pE~~~Y~yl~IR~K~FPWGdGd~tLFhN~~~N~lp~gyE~~   85 (85)
T 1v54_G           12 GARTWRFLTFGLALPSVALCTLNSWLHSGH----RERPAFIPYHHLRIRTKPFSWGDGNHTFFHNPRVNPLPTGYEKP   85 (85)
T ss_dssp             CHHHHHHHHHHTHHHHHHHHHHHHTTSCSC----CCCCCCCCCTTSSCCSSCCSSTTSSSCTTCCTTTCCBTTBCCC-
T ss_pred             hHHHHHHHHHHHHHHHHHHHHHHHHHhccC----CCCCCCCCCchhheecCCCCCCCCCcCcccCCCcCCCCCCCCCC
Confidence            689999999999999999999999998876    55899999999999999999999999999999999999999997

>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=100.00  E-value=1.5e-42  Score=254.04  Aligned_cols=74  Identities=47%  Similarity=0.826  Sum_probs=70.2

Q ss_pred             hhhhhhhhhhhchhhHHHHHHHHHHHhhhhhhhccCCCCCCCCCccccccCCCCCCCCCCCCccCCCCCCCCCCCCCC
Q psy17595         76 RNRLWRNLTYFGALPCCALVGVYVYLEHQAEEEHHVRPEFVKREYLYIRNRRFPWGDGNHTLFHNKHVNALPEGYEED  153 (153)
Q Consensus        76 rtK~WkkiS~fVaiP~v~l~~~n~y~~~~eh~~hh~~pe~~~Y~yl~iR~K~FPWGdG~~tLFhNp~~N~lp~gyE~e  153 (153)
                      ++++||+||+|||+|+|+||++|+|+.+++    |++|||++|+|||||+|+||||||||||||||++|+||+|||||
T Consensus        24 ~~~~WkkiS~~va~P~v~l~~~n~y~~~~e----h~~~E~~~Y~yl~IR~K~FPWGDG~~tLFhNp~~N~lp~GyE~~   97 (97)
T 2y69_G           24 GARTWRFLTFGLALPSVALCTLNSWLHSGH----RERPAFIPYHHLRIRTKPFSWGDGNHTFFHNPRVNPLPTGYEKP   97 (97)
T ss_dssp             CHHHHHHHHHHTHHHHHHHHHHHHTTSCSC----CCCCCCCCCTTSSCCSSCCSSTTSSSCTTCCTTTCCBTTBSCC-
T ss_pred             hhhhHHHHHHHHHHHHHHHHHHHHHHhccc----CCCCCCCCCchhhhccCCCCCCCCCcCcccCCCcCCCCCCCCCC
Confidence            689999999999999999999999999876    45899999999999999999999999999999999999999997

>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=99.84  E-value=1.6e-22  Score=147.83  Aligned_cols=57  Identities=33%  Similarity=0.587  Sum_probs=51.0

Q ss_pred             chhhhhhhhhheecchhhHHHHHHHHHHhhhhhhcCCCCCcccchhhhhhhhhh--hhh--hhhh
Q psy17595         26 PDAVKLWRNLTYFGALPCCALVGVYVYLEHQAEEAHHVRPEFVKREYLYIRNRL--WRN--LTYF   86 (153)
Q Consensus        26 ~~~~~lWkkls~~va~P~i~l~~~n~y~~~~eh~~~~~~pe~~~Y~yl~irtK~--Wkk--iS~f   86 (153)
                      ++++++|||||||||+|+|+|||+|+|++++|    |+||||++|+|||||+|.  |+.  -|+|
T Consensus        22 ~~~~~~WkkiS~~va~P~v~l~~~n~y~~~~e----h~~~E~~~Y~yl~IR~K~FPWGDG~~tLF   82 (97)
T 2y69_G           22 GTGARTWRFLTFGLALPSVALCTLNSWLHSGH----RERPAFIPYHHLRIRTKPFSWGDGNHTFF   82 (97)
T ss_dssp             SCCHHHHHHHHHHTHHHHHHHHHHHHTTSCSC----CCCCCCCCCTTSSCCSSCCSSTTSSSCTT
T ss_pred             hhhhhhHHHHHHHHHHHHHHHHHHHHHHhccc----CCCCCCCCCchhhhccCCCCCCCCCcCcc
Confidence            57799999999999999999999999999876    368999999999999998  864  3666

>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=99.83  E-value=5e-22  Score=142.23  Aligned_cols=57  Identities=33%  Similarity=0.587  Sum_probs=51.3

Q ss_pred             chhhhhhhhhheecchhhHHHHHHHHHHhhhhhhcCCCCCcccchhhhhhhhhh--hhh--hhhh
Q psy17595         26 PDAVKLWRNLTYFGALPCCALVGVYVYLEHQAEEAHHVRPEFVKREYLYIRNRL--WRN--LTYF   86 (153)
Q Consensus        26 ~~~~~lWkkls~~va~P~i~l~~~n~y~~~~eh~~~~~~pe~~~Y~yl~irtK~--Wkk--iS~f   86 (153)
                      ++++++|||||||||+|+|+|||+|+|++++|    |+||||++|+|||||+|.  |+.  -|+|
T Consensus        10 ~~~~~~Wkkis~~va~P~v~l~~~n~y~~~~e----~~~pE~~~Y~yl~IR~K~FPWGdGd~tLF   70 (85)
T 1v54_G           10 GTGARTWRFLTFGLALPSVALCTLNSWLHSGH----RERPAFIPYHHLRIRTKPFSWGDGNHTFF   70 (85)
T ss_dssp             CCCHHHHHHHHHHTHHHHHHHHHHHHTTSCSC----CCCCCCCCCTTSSCCSSCCSSTTSSSCTT
T ss_pred             chhHHHHHHHHHHHHHHHHHHHHHHHHHhccC----CCCCCCCCCchhheecCCCCCCCCCcCcc
Confidence            57899999999999999999999999999875    478999999999999998  864  3666

---

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	153
d1v54g_	84	f.23.2.1 (G:) Mitochondrial cytochrome c oxidase s	8e-35

>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 =  114 bits (287), Expect = 8e-35
 Identities = 36/75 (48%), Positives = 43/75 (57%), Gaps = 4/75 (5%)

Query: 78  RLWRNLTYFGALPCCALVGVYVYLEHQAEEEHHVRPEFVKREYLYIRNRRFPWGDGNHTL 137
           R WR LT+  ALP  AL  +  +L       H  RP F+   +L IR + F WGDGNHT 
Sbjct: 14  RTWRFLTFGLALPSVALCTLNSWLHS----GHRERPAFIPYHHLRIRTKPFSWGDGNHTF 69

Query: 138 FHNKHVNALPEGYEE 152
           FHN  VN LP GYE+
Sbjct: 70  FHNPRVNPLPTGYEK 84

Homologous Domains Detected by HHsearch

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

ID	Length	Definition	Probability
Query	153
d1v54g_	84	Mitochondrial cytochrome c oxidase subunit VIa {Co	100.0
d1v54g_	84	Mitochondrial cytochrome c oxidase subunit VIa {Co	99.86

>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=100.00  E-value=1.6e-43  Score=251.53  Aligned_cols=73  Identities=49%  Similarity=0.872  Sum_probs=68.4

Q ss_pred             hhhhhhhhhhhchhhHHHHHHHHHHHhhhhhhhccCCCCCCCCCccccccCCCCCCCCCCCCccCCCCCCCCCCCCC
Q psy17595         76 RNRLWRNLTYFGALPCCALVGVYVYLEHQAEEEHHVRPEFVKREYLYIRNRRFPWGDGNHTLFHNKHVNALPEGYEE  152 (153)
Q Consensus        76 rtK~WkkiS~fVaiP~v~l~~~n~y~~~~eh~~hh~~pe~~~Y~yl~iR~K~FPWGdG~~tLFhNp~~N~lp~gyE~  152 (153)
                      ++|+||+||+|||+|+|+||++|+|+.+    +||++|||++|+|||||+|+||||||||||||||++|+||+||||
T Consensus        12 ~~~lWkkis~~va~P~i~l~~~n~~~~~----~h~e~pe~~~Y~yl~IR~K~FpWGDG~~tLFhN~~~N~lp~Gye~   84 (84)
T d1v54g_          12 GARTWRFLTFGLALPSVALCTLNSWLHS----GHRERPAFIPYHHLRIRTKPFSWGDGNHTFFHNPRVNPLPTGYEK   84 (84)
T ss_dssp             CHHHHHHHHHHTHHHHHHHHHHHHTTSC----SCCCCCCCCCCTTSSCCSSCCSSTTSSSCTTCCTTTCCBTTBCCC
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHhcc----ccccCCCCCCCchhhhhccccCCCCCCcccccCCccCCCCCCCCC
Confidence            7899999999999999999999999633    236789999999999999999999999999999999999999998

>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=99.86  E-value=1.7e-23  Score=147.92  Aligned_cols=57  Identities=37%  Similarity=0.645  Sum_probs=49.6

Q ss_pred             chhhhhhhhhheecchhhHHHHHHHHHHhhhhhhcCCCCCcccchhhhhhhhhh--h--hhhhhh
Q psy17595         26 PDAVKLWRNLTYFGALPCCALVGVYVYLEHQAEEAHHVRPEFVKREYLYIRNRL--W--RNLTYF   86 (153)
Q Consensus        26 ~~~~~lWkkls~~va~P~i~l~~~n~y~~~~eh~~~~~~pe~~~Y~yl~irtK~--W--kkiS~f   86 (153)
                      ++++++|||||||||+|+|+|||+|+|+.+    +|+++|||++|+|||||+|.  |  .+-|+|
T Consensus        10 ~~~~~lWkkis~~va~P~i~l~~~n~~~~~----~h~e~pe~~~Y~yl~IR~K~FpWGDG~~tLF   70 (84)
T d1v54g_          10 GTGARTWRFLTFGLALPSVALCTLNSWLHS----GHRERPAFIPYHHLRIRTKPFSWGDGNHTFF   70 (84)
T ss_dssp             CCCHHHHHHHHHHTHHHHHHHHHHHHTTSC----SCCCCCCCCCCTTSSCCSSCCSSTTSSSCTT
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHhcc----ccccCCCCCCCchhhhhccccCCCCCCcccc
Confidence            578999999999999999999999999733    33579999999999999998  8  456666