Citrus Sinensis ID: 047104

---

Local Sequence Feature Prediction

Residue Number Marker
--------10--------20--------30--------40--------50--------60--------70--------80
Protein Sequence
MATKYIVGSLIGSCALAYAFDQIIAEKKIFGGTTPKTVSDKEWWEETDKKFQAWPRVAGPPVVMNPISRQNFIVKSSTEA
Secondary Structure (PSIPRED)
ccccHHHHHHHHHHHHHHHHHHHHHHccccccccccEEccHHHHHHHHHHHHHccccccccEEEccccccEEEEEccccc
Secondary Structure Prediction (SSPRO)
ccHHHHHHHHHHHHHHHHHHHHHHHccccccccccccccccHHHHHHHHHHccccccccccEEEcccccccEEEEccccc
Coil and Loop (DISEMBL)
MATKYIVGSLIGSCALAYAFDQIIAEKkifggttpktvsdkeWWEETDKKFqawprvagppvvmnpisrqnFIVKSSTEA
Flexible Loop (DISEMBL)
MATKYIVGSLIGSCALAYAFDQIIAEkkifggttpktvsdkEWWEETDKKFqawprvagppvvmnpisrqnfivksstea
Low Complexity Region (SEG)
MATKYIVGSLIGSCALAYAFDQIIAEKKIFGGTTPKTVSDKEWWEETDKKFQAWPRVAGPPVVMNPISRQNFIVKSSTEA
Disordered region (IsUnstruct)
***KYIVGSLIGSCALAYAFDQIIAEKKIFGGTTPKTVSDKEWWEETDKKFQAWPRVAGPPVVMNPIS***F********
Disordered Region (DISOPRED)
***KYIVGSLIGSCALAYAFDQIIAEKKIFGGTTPKTVSDKEWWEETDKKFQAWPRVAGPPVVMNPISRQNF*V******
Disordered Region (DISEMBL)
MATKYIVGSLIGSCALAYAFDQIIAEKKIFGGTTPKTVSDKEWWEETDKKFQAWPRVAGPPVVMNPISRQNFIVKSSTEA
Disordered Region (DISPRO)
*ATKYIVGSLIGSCALAYAFDQIIAEKKIFGGTTPKTVSDKEWWEETDKKFQAWPRVAGPPVVMNPISRQNFIVKS****
Transmembrane Helix (TMHMM)
oooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooo
Transmembrane Helix (HMMTOP)
iiiiiHHHHHHHHHHHHHHHHHHHHooooooooooooooooooooooooooooooooooooooooooooooooooooooo
Transmembrane Helix (MEMSAT)
ooooooooHHHHHHHHHHHHHHHHHHHiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiii
TM Helix, Signal Peptide (MEMSAT_SVM)
ooooooooooooohhhhhhhhhhhhhhhhiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiii
TM Helix, Signal Peptide (Phobius)
SSSSSSSSSSSSSSSSSSSooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooo
Signal Peptide (SignalP HMM Mode)
SSSSSSSSSSSSSSSSSSSSoooooooooooooooooooooooooooooooooooooooooooooooooooooooooooo
Signal Peptide (SignalP NN Mode)
xxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxx
Coiled Coils (COILS)
MATKYIVGSLIGSCALAYAFDQIIAEKKIFGGTTPKTVSDKEWWEETDKKFQAWPRVAGPPVVMNPISRQNFIVKSSTEA
Positional Conservation
no confident homologs detected

---

Close Homologs for Annotation Transfer

Close Homologs in SWISS-PROT Database Detected by BLAST

Original result of BLAST against SWISS-PROT Database

No hits with e-value below 0.001 by BLAST

Close Homologs in the Non-Redundant Database Detected by BLAST

Original result of BLAST against Nonredundant Database

GI	Length	Definition	Q cover	H cover	Identity	E-value
Query	80
225441809	80	PREDICTED: uncharacterized protein LOC10	1.0	1.0	0.762	9e-30
449463344	80	PREDICTED: uncharacterized protein LOC10	1.0	1.0	0.75	2e-29
385145597	79	ozone-responsive stress related protein	0.937	0.949	0.8	5e-29
118482544	79	unknown [Populus trichocarpa]	0.95	0.962	0.763	7e-29
224090186	76	predicted protein [Populus trichocarpa]	0.95	1.0	0.763	8e-29
255556916	79	ATOZI1, putative [Ricinus communis] gi|2	0.937	0.949	0.786	1e-28
242094444	79	hypothetical protein SORBIDRAFT_10g00119	0.937	0.949	0.76	6e-28
118483251	79	unknown [Populus trichocarpa] gi|1184839	0.95	0.962	0.723	6e-28
115466010	79	Os06g0114500 [Oryza sativa Japonica Grou	0.937	0.949	0.786	7e-28
224138042	76	predicted protein [Populus trichocarpa]	0.95	1.0	0.723	7e-28

>gi|225441809|ref|XP_002283878.1| PREDICTED: uncharacterized protein LOC100245204 [Vitis vinifera] gi|297739671|emb|CBI29853.3| unnamed protein product [Vitis vinifera]

 Score =  134 bits (336), Expect = 9e-30,   Method: Compositional matrix adjust.
 Identities = 61/80 (76%), Positives = 73/80 (91%)

Query: 1  MATKYIVGSLIGSCALAYAFDQIIAEKKIFGGTTPKTVSDKEWWEETDKKFQAWPRVAGP 60
          MATKYI+ +++GS A+AYA D + ++KKIFGGTTPKTV++KEWWEETDKKFQAWPR AGP
Sbjct: 1  MATKYIISAVLGSFAVAYACDFLTSDKKIFGGTTPKTVANKEWWEETDKKFQAWPRTAGP 60

Query: 61 PVVMNPISRQNFIVKSSTEA 80
          PVVMNPISRQNFIVKS +E+
Sbjct: 61 PVVMNPISRQNFIVKSQSES 80

Source: Vitis vinifera

Species: Vitis vinifera

Genus: Vitis

Family: Vitaceae

Order: Vitales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|449463344|ref|XP_004149394.1| PREDICTED: uncharacterized protein LOC101213065 isoform 1 [Cucumis sativus] gi|449463346|ref|XP_004149395.1| PREDICTED: uncharacterized protein LOC101213065 isoform 2 [Cucumis sativus] gi|449463348|ref|XP_004149396.1| PREDICTED: uncharacterized protein LOC101213065 isoform 3 [Cucumis sativus] gi|449510545|ref|XP_004163695.1| PREDICTED: uncharacterized LOC101213065 [Cucumis sativus]

 Score =  133 bits (334), Expect = 2e-29,   Method: Compositional matrix adjust.
 Identities = 60/80 (75%), Positives = 69/80 (86%)

Query: 1  MATKYIVGSLIGSCALAYAFDQIIAEKKIFGGTTPKTVSDKEWWEETDKKFQAWPRVAGP 60
          MA KYIVGSL+G+C +AY  D +I++KKIFGGTTP TVS+ EW EETDKKFQAWPR AGP
Sbjct: 1  MAAKYIVGSLLGACGVAYICDHLISDKKIFGGTTPSTVSNSEWLEETDKKFQAWPRTAGP 60

Query: 61 PVVMNPISRQNFIVKSSTEA 80
          PVVMNPISRQNFIVK+  E+
Sbjct: 61 PVVMNPISRQNFIVKTRPES 80

Source: Cucumis sativus

Species: Cucumis sativus

Genus: Cucumis

Family: Cucurbitaceae

Order: Cucurbitales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|385145597|dbj|BAM13307.1| ozone-responsive stress related protein [Oryza brachyantha]

 Score =  131 bits (329), Expect = 5e-29,   Method: Compositional matrix adjust.
 Identities = 60/75 (80%), Positives = 66/75 (88%)

Query: 1  MATKYIVGSLIGSCALAYAFDQIIAEKKIFGGTTPKTVSDKEWWEETDKKFQAWPRVAGP 60
          MA KYI   ++GS A++YA D +IAEKKIFGGTTPKTVSDKEWW+ TDKKFQAWPR AGP
Sbjct: 1  MAAKYIAAGIVGSFAISYACDHLIAEKKIFGGTTPKTVSDKEWWQATDKKFQAWPRTAGP 60

Query: 61 PVVMNPISRQNFIVK 75
          PVVMNPISRQNFIVK
Sbjct: 61 PVVMNPISRQNFIVK 75

Source: Oryza brachyantha

Species: Oryza brachyantha

Genus: Oryza

Family: Poaceae

Order: Poales

Class: Liliopsida

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|118482544|gb|ABK93193.1| unknown [Populus trichocarpa]

 Score =  130 bits (328), Expect = 7e-29,   Method: Compositional matrix adjust.
 Identities = 58/76 (76%), Positives = 69/76 (90%)

Query: 1  MATKYIVGSLIGSCALAYAFDQIIAEKKIFGGTTPKTVSDKEWWEETDKKFQAWPRVAGP 60
          M+TKYIV +L+GS A+AY  D ++++KKIFGGTTP+TVS+KEWWEETDKKFQAWPR  GP
Sbjct: 1  MSTKYIVSALVGSFAIAYVCDYVVSDKKIFGGTTPRTVSNKEWWEETDKKFQAWPRTGGP 60

Query: 61 PVVMNPISRQNFIVKS 76
          PVVMNPI+RQNFIVKS
Sbjct: 61 PVVMNPITRQNFIVKS 76

Source: Populus trichocarpa

Species: Populus trichocarpa

Genus: Populus

Family: Salicaceae

Order: Malpighiales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|224090186|ref|XP_002308950.1| predicted protein [Populus trichocarpa] gi|222854926|gb|EEE92473.1| predicted protein [Populus trichocarpa]

 Score =  130 bits (328), Expect = 8e-29,   Method: Compositional matrix adjust.
 Identities = 58/76 (76%), Positives = 69/76 (90%)

Query: 1  MATKYIVGSLIGSCALAYAFDQIIAEKKIFGGTTPKTVSDKEWWEETDKKFQAWPRVAGP 60
          M+TKYIV +L+GS A+AY  D ++++KKIFGGTTP+TVS+KEWWEETDKKFQAWPR  GP
Sbjct: 1  MSTKYIVSALVGSFAIAYVCDYVVSDKKIFGGTTPRTVSNKEWWEETDKKFQAWPRTGGP 60

Query: 61 PVVMNPISRQNFIVKS 76
          PVVMNPI+RQNFIVKS
Sbjct: 61 PVVMNPITRQNFIVKS 76

Source: Populus trichocarpa

Species: Populus trichocarpa

Genus: Populus

Family: Salicaceae

Order: Malpighiales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|255556916|ref|XP_002519491.1| ATOZI1, putative [Ricinus communis] gi|223541354|gb|EEF42905.1| ATOZI1, putative [Ricinus communis]

 Score =  130 bits (327), Expect = 1e-28,   Method: Compositional matrix adjust.
 Identities = 59/75 (78%), Positives = 68/75 (90%)

Query: 1  MATKYIVGSLIGSCALAYAFDQIIAEKKIFGGTTPKTVSDKEWWEETDKKFQAWPRVAGP 60
          MATKYI+ +L GS A+AY  DQ+I++KKIFGGTTP TV++K+WWEETDKKFQAWPR AGP
Sbjct: 1  MATKYIISALAGSFAIAYVCDQLISDKKIFGGTTPHTVANKDWWEETDKKFQAWPRTAGP 60

Query: 61 PVVMNPISRQNFIVK 75
          PVVMNPISRQNFIVK
Sbjct: 61 PVVMNPISRQNFIVK 75

Source: Ricinus communis

Species: Ricinus communis

Genus: Ricinus

Family: Euphorbiaceae

Order: Malpighiales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|242094444|ref|XP_002437712.1| hypothetical protein SORBIDRAFT_10g001190 [Sorghum bicolor] gi|241915935|gb|EER89079.1| hypothetical protein SORBIDRAFT_10g001190 [Sorghum bicolor]

 Score =  127 bits (320), Expect = 6e-28,   Method: Compositional matrix adjust.
 Identities = 57/75 (76%), Positives = 67/75 (89%)

Query: 1  MATKYIVGSLIGSCALAYAFDQIIAEKKIFGGTTPKTVSDKEWWEETDKKFQAWPRVAGP 60
          M+ KYI+ +L GS A+AYA D ++A+KKIFGGTTP+TV+DKEWW+ TDKKFQAWPR AGP
Sbjct: 1  MSAKYIIAALAGSFAIAYASDVLVAQKKIFGGTTPRTVADKEWWQATDKKFQAWPRTAGP 60

Query: 61 PVVMNPISRQNFIVK 75
          PVVMNPISRQNFIVK
Sbjct: 61 PVVMNPISRQNFIVK 75

Source: Sorghum bicolor

Species: Sorghum bicolor

Genus: Sorghum

Family: Poaceae

Order: Poales

Class: Liliopsida

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|118483251|gb|ABK93528.1| unknown [Populus trichocarpa] gi|118483925|gb|ABK93852.1| unknown [Populus trichocarpa]

 Score =  127 bits (320), Expect = 6e-28,   Method: Compositional matrix adjust.
 Identities = 55/76 (72%), Positives = 67/76 (88%)

Query: 1  MATKYIVGSLIGSCALAYAFDQIIAEKKIFGGTTPKTVSDKEWWEETDKKFQAWPRVAGP 60
          M+T YI  +++GS ALAY  D ++++KKIFGGTTP+TVS+KEWWEETD+KFQAWPR  GP
Sbjct: 1  MSTTYIASAIVGSFALAYVCDHLVSDKKIFGGTTPRTVSNKEWWEETDRKFQAWPRTGGP 60

Query: 61 PVVMNPISRQNFIVKS 76
          PVVMNPI+RQNFIVKS
Sbjct: 61 PVVMNPITRQNFIVKS 76

Source: Populus trichocarpa

Species: Populus trichocarpa

Genus: Populus

Family: Salicaceae

Order: Malpighiales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|115466010|ref|NP_001056604.1| Os06g0114500 [Oryza sativa Japonica Group] gi|7248405|dbj|BAA92728.1| ozone-responsive stress-related protein-like [Oryza sativa Japonica Group] gi|55296184|dbj|BAD67902.1| ozone-responsive stress-related protein-like [Oryza sativa Japonica Group] gi|113594644|dbj|BAF18518.1| Os06g0114500 [Oryza sativa Japonica Group] gi|125553798|gb|EAY99403.1| hypothetical protein OsI_21374 [Oryza sativa Indica Group] gi|125595820|gb|EAZ35600.1| hypothetical protein OsJ_19889 [Oryza sativa Japonica Group] gi|215694930|dbj|BAG90121.1| unnamed protein product [Oryza sativa Japonica Group] gi|215765272|dbj|BAG86969.1| unnamed protein product [Oryza sativa Japonica Group] gi|385145583|dbj|BAM13300.1| ozone-responsive stress related protein [Oryza nivara] gi|385145585|dbj|BAM13301.1| ozone-responsive stress related protein [Oryza rufipogon] gi|385145587|dbj|BAM13302.1| ozone-responsive stress related protein [Oryza barthii] gi|385145589|dbj|BAM13303.1| ozone-responsive stress related protein [Oryza punctata]

 Score =  127 bits (320), Expect = 7e-28,   Method: Compositional matrix adjust.
 Identities = 59/75 (78%), Positives = 63/75 (84%)

Query: 1  MATKYIVGSLIGSCALAYAFDQIIAEKKIFGGTTPKTVSDKEWWEETDKKFQAWPRVAGP 60
          MA KYI   L+GS A++Y  D  IAEKKIFGGTTP TVSDKEWW+ TDKKFQAWPR AGP
Sbjct: 1  MAGKYIAAGLVGSFAISYVCDHFIAEKKIFGGTTPHTVSDKEWWQATDKKFQAWPRTAGP 60

Query: 61 PVVMNPISRQNFIVK 75
          PVVMNPISRQNFIVK
Sbjct: 61 PVVMNPISRQNFIVK 75

Source: Oryza sativa Japonica Group

Species: Oryza sativa

Genus: Oryza

Family: Poaceae

Order: Poales

Class: Liliopsida

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|224138042|ref|XP_002322715.1| predicted protein [Populus trichocarpa] gi|222867345|gb|EEF04476.1| predicted protein [Populus trichocarpa]

 Score =  127 bits (320), Expect = 7e-28,   Method: Compositional matrix adjust.
 Identities = 55/76 (72%), Positives = 67/76 (88%)

Query: 1  MATKYIVGSLIGSCALAYAFDQIIAEKKIFGGTTPKTVSDKEWWEETDKKFQAWPRVAGP 60
          M+T YI  +++GS ALAY  D ++++KKIFGGTTP+TVS+KEWWEETD+KFQAWPR  GP
Sbjct: 1  MSTTYIASAIVGSFALAYVCDHLVSDKKIFGGTTPRTVSNKEWWEETDRKFQAWPRTGGP 60

Query: 61 PVVMNPISRQNFIVKS 76
          PVVMNPI+RQNFIVKS
Sbjct: 61 PVVMNPITRQNFIVKS 76

Source: Populus trichocarpa

Species: Populus trichocarpa

Genus: Populus

Family: Salicaceae

Order: Malpighiales

Phylum: Streptophyta

Superkingdom: Eukaryota

---

Prediction of Gene Ontology (GO) Terms

Close Homologs with Gene Ontology terms Detected by BLAST

Original result of BLAST against Gene Ontology (AMIGO)

ID	Length	Definition	Q cover	H cover	Identity	E-value
Query	80
TAIR|locus:2035247	83	AT1G01170 "AT1G01170" [Arabido	0.95	0.915	0.723	6.4e-28
TAIR|locus:2134568	80	ATOZI1 "AT4G00860" [Arabidopsi	0.937	0.937	0.64	8.7e-24

TAIR|locus:2035247 AT1G01170 "AT1G01170" [Arabidopsis thaliana (taxid:3702)]

 Score = 312 (114.9 bits), Expect = 6.4e-28, P = 6.4e-28
 Identities = 55/76 (72%), Positives = 66/76 (86%)

Query:     4 KYIVGSLIGSCALAYAFDQIIAEKKIFGGTTPKTVSDKEWWEETDKKFQAWPRVAGPPVV 63
             KYI+G+LIGS  ++Y FD++I++ KIFGGTTP TVS+KEWW  TD+KFQAWPR AGPPVV
Sbjct:     8 KYIIGALIGSFGISYIFDKVISDNKIFGGTTPGTVSNKEWWAATDEKFQAWPRTAGPPVV 67

Query:    64 MNPISRQNFIVKSSTE 79
             MNPISRQNFIVK+  E
Sbjct:    68 MNPISRQNFIVKTRPE 83

GO:0003674 "molecular_function" evidence=ND

GO:0005739 "mitochondrion" evidence=IDA

GO:0016020 "membrane" evidence=IDA

TAIR|locus:2134568 ATOZI1 "AT4G00860" [Arabidopsis thaliana (taxid:3702)]

 Score = 273 (101.2 bits), Expect = 8.7e-24, P = 8.7e-24
 Identities = 48/75 (64%), Positives = 62/75 (82%)

Query:     5 YIVGSLIGSCALAYAFDQIIAEKKIFGGTTPKTVSDKEWWEETDKKFQAWPRVAGPPVVM 64
             YI+G+L GS  +AY  D++I++ K+FGGTTP T+++KEW   T+++ QAWPRVAGPPVVM
Sbjct:     6 YIIGALAGSAVVAYVCDKVISDDKLFGGTTPGTITNKEWGAATEERLQAWPRVAGPPVVM 65

Query:    65 NPISRQNFIVKSSTE 79
             NPISRQNFIVKS  E
Sbjct:    66 NPISRQNFIVKSRPE 80


Parameters:
  V=100
  filter=SEG
  E=0.001

  ctxfactor=1.00

  Query                        -----  As Used  -----    -----  Computed  ----
  Frame  MatID Matrix name     Lambda    K       H      Lambda    K       H
   +0      0   BLOSUM62        0.317   0.131   0.404    same    same    same
               Q=9,R=2         0.244   0.0300  0.180     n/a     n/a     n/a

  Query
  Frame  MatID  Length  Eff.Length     E     S W   T  X   E2     S2
   +0      0       80        80   0.00091  102 3  11 22  0.43    29
                                                     29  0.41    30


Statistics:

  Database:  /share/blast/go-seqdb.fasta
   Title:  go_20130330-seqdb.fasta
   Posted:  5:47:42 AM PDT Apr 1, 2013
   Created:  5:47:42 AM PDT Apr 1, 2013
   Format:  XDF-1
   # of letters in database:  169,044,731
   # of sequences in database:  368,745
   # of database sequences satisfying E:  2
  No. of states in DFA:  563 (60 KB)
  Total size of DFA:  112 KB (2074 KB)
  Time to generate neighborhood:  0.00u 0.00s 0.00t   Elapsed:  00:00:00
  No. of threads or processors used:  24
  Search cpu time:  8.84u 0.17s 9.01t   Elapsed:  00:00:01
  Total cpu time:  8.84u 0.17s 9.01t   Elapsed:  00:00:01
  Start:  Tue May 21 00:05:07 2013   End:  Tue May 21 00:05:08 2013

GO:0003674 "molecular_function" evidence=ND

GO:0005739 "mitochondrion" evidence=IDA

GO:0009536 "plastid" evidence=IDA

GO:0016020 "membrane" evidence=IDA

GO:0005777 "peroxisome" evidence=IDA

GO:0009853 "photorespiration" evidence=RCA

GO:0000302 "response to reactive oxygen species" evidence=IEP

GO:0009617 "response to bacterium" evidence=IEP

GO:0010193 "response to ozone" evidence=IEP

---

Prediction of Enzyme Commission (EC) Number

EC Number Prediction by Annotation Transfer from SWISS-PROT Entries

Original result of BLAST against SWISS-PROT

No confident hit for EC number transfering in SWISSPROT detected by BLAST

EC Number Prediction by Ezypred Server

Original result from Ezypred Server

Fail to connect to Ezypred Server

EC Number Prediction by EFICAz Software

No EC number assignment, probably not an enzyme!

---

Prediction of Functionally Associated Proteins

Functionally Associated Proteins Detected by STRING

Original result from the STRING server

Fail to connect to STRING server

---

Conserved Domains and Related Protein Families

Conserved Domains Detected by RPS-BLAST

Original result of RPS-BLAST against CDD database part I

ID	Length	Definition	E-value
Query	80
pfam06592	73	pfam06592, DUF1138, Protein of unknown function (D	2e-41

>gnl|CDD|191563 pfam06592, DUF1138, Protein of unknown function (DUF1138)

 Score =  129 bits (326), Expect = 2e-41
 Identities = 56/73 (76%), Positives = 64/73 (87%)

Query: 3  TKYIVGSLIGSCALAYAFDQIIAEKKIFGGTTPKTVSDKEWWEETDKKFQAWPRVAGPPV 62
          TKYI+GSL GS A AY  D+ IA+KK+FGGTTP+TV+DKEW + TD+KFQAWPR AGPPV
Sbjct: 1  TKYIIGSLAGSFAFAYVCDKYIADKKLFGGTTPRTVADKEWGKATDEKFQAWPRTAGPPV 60

Query: 63 VMNPISRQNFIVK 75
          VMNPISRQNFIVK
Sbjct: 61 VMNPISRQNFIVK 73

This family consists of several hypothetical short plant proteins from Arabidopsis thaliana and Oryza sativa. The function of this family is unknown. Length = 73

Conserved Domains Detected by HHsearch

Original result of HHsearch against CDD database

ID	Length	Definition	Probability
Query	80
PF06592	73	DUF1138: Protein of unknown function (DUF1138); In	100.0
PF02936	142	COX4: Cytochrome c oxidase subunit IV; InterPro: I	97.33
cd00922	136	Cyt_c_Oxidase_IV Cytochrome c oxidase subunit IV.	97.05
KOG4075	167	consensus Cytochrome c oxidase, subunit IV/COX5b [	94.02

>PF06592 DUF1138: Protein of unknown function (DUF1138); InterPro: IPR009515 This family consists of several hypothetical short plant proteins from Arabidopsis thaliana and Oryza sativa

Probab=100.00  E-value=7.3e-58  Score=298.68  Aligned_cols=73  Identities=78%  Similarity=1.319  Sum_probs=72.4

Q ss_pred             cchhhhhHHHHHHHHHHHHHHHhccccccCCCCcccCchhhHHHHHHHhhhCCCccCCCeeecccccceeeee
Q 047104            3 TKYIVGSLIGSCALAYAFDQIIAEKKIFGGTTPKTVSDKEWWEETDKKFQAWPRVAGPPVVMNPISRQNFIVK   75 (80)
Q Consensus         3 ~kyIv~s~~~sfa~Ay~c~~~vs~~k~fGGt~P~TvtnkeW~~aT~~k~qaWPR~agpPVvmNPisrqnfivk   75 (80)
                      +||||+||+|||++||+||++++++|+|||++||||+|||||+|||+||||||||||||||||||||||||||
T Consensus         1 ~kyIi~al~gsfa~ay~c~~~vs~~K~FGGt~p~Tv~~keW~~aT~~K~qaWPR~agpPVvmNPisrqnfivk   73 (73)
T PF06592_consen    1 TKYIIGALAGSFAVAYVCDQYVSDKKIFGGTTPHTVSNKEWWKATDKKFQAWPREAGPPVVMNPISRQNFIVK   73 (73)
T ss_pred             CcEEeehHHHHHHHHHHHHHHHhcccccCCCCCCccccHHHHHHHHHHHhhCcccCCCCeeeccccccceecC
Confidence            6999999999999999999999999999999999999999999999999999999999999999999999998

The function of this family is unknown.

>PF02936 COX4: Cytochrome c oxidase subunit IV; InterPro: IPR004203 Cytochrome c oxidase, a 13 sub-unit complex (1

Probab=97.33  E-value=0.00028  Score=49.72  Aligned_cols=47  Identities=17%  Similarity=0.231  Sum_probs=31.6

Q ss_pred             chhhhhHHHHHHHHHHHHHHHhccccccCCCCcccCchhhHHHHHHHhhh
Q 047104            4 KYIVGSLIGSCALAYAFDQIIAEKKIFGGTTPKTVSDKEWWEETDKKFQA   53 (80)
Q Consensus         4 kyIv~s~~~sfa~Ay~c~~~vs~~k~fGGt~P~TvtnkeW~~aT~~k~qa   53 (80)
                      |.|++++...++++.+...++  +..-.+.+|||+++ ||.+++.+++-.
T Consensus        75 k~v~~~~~~~i~~s~~l~~~~--r~~~~~~~P~T~~~-Ew~ea~~~~m~~  121 (142)
T PF02936_consen   75 KKVFGGVFIFIGFSVLLFIWQ--RSYVYPPLPHTFSK-EWQEAQNERMLD  121 (142)
T ss_dssp             HHHHHHHHHHHHHHHHHHHHH--HHHT-----GGGSH-HHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHHHHHHHHH--HHHhCCCCCCCcCH-HHHHHHHHHHHH
Confidence            567887777777776544444  44466789999999 999999999954

9.3.1 from EC) is the terminal oxidase in the mitochondrial electron transport chain. This family is composed of cytochrome c oxidase subunit IV. The Dictyostelium discoideum (Slime mould) member of this family is called COX VI. The Saccharomyces cerevisiae protein YGX6_YEAST appears to be the yeast COX IV subunit.; GO: 0004129 cytochrome-c oxidase activity; PDB: 3ABK_Q 3AG1_Q 3ASN_Q 1OCZ_D 2EIN_Q 2OCC_D 2YBB_O 3AG3_D 1OCO_Q 1V55_Q ....

>cd00922 Cyt_c_Oxidase_IV Cytochrome c oxidase subunit IV

Probab=97.05  E-value=0.0013  Score=46.14  Aligned_cols=54  Identities=22%  Similarity=0.410  Sum_probs=40.5

Q ss_pred             chhhhhHHHHHHHHHHHHHHHhcccccc-CCCCcccCchhhHHHHHHHhhhCCCccCCCeeeccccc
Q 047104            4 KYIVGSLIGSCALAYAFDQIIAEKKIFG-GTTPKTVSDKEWWEETDKKFQAWPRVAGPPVVMNPISR   69 (80)
Q Consensus         4 kyIv~s~~~sfa~Ay~c~~~vs~~k~fG-Gt~P~TvtnkeW~~aT~~k~qaWPR~agpPVvmNPisr   69 (80)
                      |.|++.++...+++.++..++.   .|. |-.|+|+++ ||.++..+++.+-        -+|||.+
T Consensus        75 k~v~~~~~~~i~~s~~~~~~~r---~~~~~~~P~T~t~-Ewqea~~er~~~~--------~~NPitG  129 (136)
T cd00922          75 KTVFGGVLAFIGITGVIFGLQR---AFVYGPKPHTFTE-EWQEAQLERMLDM--------KVNPITG  129 (136)
T ss_pred             HHHHHHHHHHHHHHHHHHHHHH---HhccCCCCCCcCH-HHHHHHHHHHHHh--------CCCCCcc
Confidence            6778888777777775554443   355 999999999 9999999999753        4677653

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 IV is the largest of the nuclear-encoded subunits. It binds ATP at the matrix side, leading to an allosteric inhibition of enzyme activity at high intramitochondrial ATP/ADP ratios. In mammals, subunit IV has a lung-specific isoform and a ubiquitously expressed isoform.

>KOG4075 consensus Cytochrome c oxidase, subunit IV/COX5b [Energy production and conversion]

Probab=94.02  E-value=0.1  Score=38.87  Aligned_cols=41  Identities=17%  Similarity=0.276  Sum_probs=29.9

Q ss_pred             hhHHHHHHHHHHHHHHHhccccccCCCCcccCchhhHHHHHHHhhh
Q 047104            8 GSLIGSCALAYAFDQIIAEKKIFGGTTPKTVSDKEWWEETDKKFQA   53 (80)
Q Consensus         8 ~s~~~sfa~Ay~c~~~vs~~k~fGGt~P~TvtnkeW~~aT~~k~qa   53 (80)
                      ..++.+|+++++.+..+-    -.|-+|+|+++ ||.++-++++-.
T Consensus       106 ~~~f~Gl~~~v~l~~~v~----vy~~~P~Tf~~-Ewq~kq~erml~  146 (167)
T KOG4075|consen  106 AGFFLGLTISVILFGKVR----VYGPLPKTFNK-EWQEKQLERMLD  146 (167)
T ss_pred             HHHHHHHHHHHHHHHhhe----ecCCCCcchhH-HHHHHHHHHHHH
Confidence            445555555555554444    67899999988 999999999854

---

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

No hit with e-value below 0.005

Structure Templates Detected by HHsearch

Original result of HHsearch against PDB70 database

ID	Length	Definition	Probability
Query	80
1v54_D	147	Cytochrome C oxidase subunit IV isoform 1; oxidore	96.8
2y69_D	169	Cytochrome C oxidase subunit 4 isoform 1; electron	96.64

>1v54_D Cytochrome C oxidase subunit IV isoform 1; oxidoreductase; HET: FME TPO HEA TGL PGV CHD CDL PEK PSC DMU; 1.80A {Bos taurus} SCOP: f.23.1.1 PDB: 1oco_D* 1occ_D* 1ocz_D* 1ocr_D* 1v55_D* 2dyr_D* 2dys_D* 2eij_D* 2eik_D* 2eil_D* 2eim_D* 2ein_D* 2occ_D* 2ybb_O* 2zxw_D* 3abk_D* 3abl_D* 3abm_D* 3ag1_D* 3ag2_D* ...

Probab=96.80  E-value=0.0013  Score=46.32  Aligned_cols=47  Identities=26%  Similarity=0.381  Sum_probs=33.4

Q ss_pred             chhhhhHHHHHHHHHHHHHHHhccccccCCCCcccCchhhHHHHHHHhhh
Q 047104            4 KYIVGSLIGSCALAYAFDQIIAEKKIFGGTTPKTVSDKEWWEETDKKFQA   53 (80)
Q Consensus         4 kyIv~s~~~sfa~Ay~c~~~vs~~k~fGGt~P~TvtnkeW~~aT~~k~qa   53 (80)
                      |-|++.++..++++.+  .|+..+....|-+|||+++ ||.++..+++..
T Consensus        79 K~v~g~v~~~i~~s~~--~f~~~r~~v~~p~P~T~~~-Ewqeaq~erm~~  125 (147)
T 1v54_D           79 KTVVGAAMFFIGFTAL--LLIWEKHYVYGPIPHTFEE-EWVAKQTKRMLD  125 (147)
T ss_dssp             HHHHHHHHHHHHHHHH--HHHHHHHHTCCCCCGGGSH-HHHHHHHHHHHH
T ss_pred             hHHHHHHHHHHHHHHH--HHHHHHHHccCCCCCCCCH-HHHHHHHHHHHH
Confidence            4466666666666554  4444454457889999975 999999999955

>2y69_D Cytochrome C oxidase subunit 4 isoform 1; electron transport, complex IV, proton pumps, membrane prote; HET: TPO HEA CHD PEK PGV DMU; 1.95A {Bos taurus}

Probab=96.64  E-value=0.002  Score=46.40  Aligned_cols=47  Identities=26%  Similarity=0.362  Sum_probs=33.4

Q ss_pred             chhhhhHHHHHHHHHHHHHHHhccccccCCCCcccCchhhHHHHHHHhhh
Q 047104            4 KYIVGSLIGSCALAYAFDQIIAEKKIFGGTTPKTVSDKEWWEETDKKFQA   53 (80)
Q Consensus         4 kyIv~s~~~sfa~Ay~c~~~vs~~k~fGGt~P~TvtnkeW~~aT~~k~qa   53 (80)
                      |-|++.+...++++.  ..|+..+....+-+|||+++ ||.++..+++..
T Consensus       101 K~V~ggv~~~i~~s~--~~f~~~r~~v~~p~P~T~~~-Ewqeaq~erml~  147 (169)
T 2y69_D          101 KTVVGAAMFFIGFTA--LLLIWEKHYVYGPIPHTFEE-EWVAKQTKRMLD  147 (169)
T ss_dssp             HHHHHHHHHHHHHHH--HHHHHHHHHTCCCCCGGGSH-HHHHHHHHHHHH
T ss_pred             hHHHHHHHHHHHHHH--HHHHHHHHHccCCCCCCCCH-HHHHHHHHHHHH
Confidence            446666666566555  44444455457889999975 999999999955

---

Homologous Structure Domains

Structure Domains Detected by RPS-BLAST

Original result of RPS-BLAST against SCOP70(version1.75) database

No hit with e-value below 0.005

Homologous Domains Detected by HHsearch

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

ID	Length	Definition	Probability
Query	80
d1v54d_	144	Mitochondrial cytochrome c oxidase subunit IV {Cow	96.89

>d1v54d_ f.23.1.1 (D:) Mitochondrial cytochrome c oxidase subunit IV {Cow (Bos taurus) [TaxId: 9913]}

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

Probab=96.89  E-value=0.00049  Score=46.79  Aligned_cols=47  Identities=23%  Similarity=0.330  Sum_probs=35.4

Q ss_pred             chhhhhHHHHHHHHHHHHHHHhccccccCCCCcccCchhhHHHHHHHhhh
Q 047104            4 KYIVGSLIGSCALAYAFDQIIAEKKIFGGTTPKTVSDKEWWEETDKKFQA   53 (80)
Q Consensus         4 kyIv~s~~~sfa~Ay~c~~~vs~~k~fGGt~P~TvtnkeW~~aT~~k~qa   53 (80)
                      |.|++++...++++.++..+  .++...+.+|||+++ ||.+++.+++-.
T Consensus        76 K~v~g~~~~~i~~s~~i~~~--~r~~v~p~~P~T~~~-Ewqeaq~erm~~  122 (144)
T d1v54d_          76 KTVVGAAMFFIGFTALLLIW--EKHYVYGPIPHTFEE-EWVAKQTKRMLD  122 (144)
T ss_dssp             HHHHHHHHHHHHHHHHHHHH--HHHHTCCCCCGGGSH-HHHHHHHHHHHH
T ss_pred             hHHHHHHHHHHHHHHHHHHH--HHHHcCCCCCCCCCH-HHHHHHHHHHHH
Confidence            56777777777777755444  455466789999986 999999999954