Citrus Sinensis ID: 034055

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Local Sequence Feature Prediction

Residue Number Marker
--------10--------20--------30--------40--------50--------60--------70--------80--------90-------100-----
Protein Sequence
MNEISRYRSFQFLLLISSICLQFIPAISDDPSSTKKGKQSAAHHTSRGNTGAKVGIVLLGLVAVGLFSFFLFKLWQKKKREEQYARLLKLFEEDDELEVELGLRD
Secondary Structure (PSIPRED)
cccccccHHHHHHHHHHHHHHHHcccccccccccccccccccccccccccccHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHcccHHHHHHcccc
Secondary Structure Prediction (SSPRO)
cccccccccHHHHEHHHHHHHHHHHHccccccccccccccccccccccccHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHccccHHHHHcccc
Coil and Loop (DISEMBL)
MNEISRYRSFQFLLLISSICLqfipaisddpsstkkgkqsaahhtsrgntgAKVGIVLLGLVAVGLFSFFLFKLWQKKKREEQYARLLKLFEEDDELEVELGLRD
Flexible Loop (DISEMBL)
MNEISRYRSFQFLLLISSICLQFIPAISDDPSSTKKGKQSaahhtsrgntgAKVGIVLLGLVAVGLFSFFLFKLWQKKKREEQYARLLklfeeddelevelglrd
Low Complexity Region (SEG)
MNEISRYRSFQFLLLISSICLQFIPAISDDPSSTKKGKQSAAHHTSRGNTgakvgivllglvavglfsfflfKLWQKKKREEQYARllklfeeddelevelglrd
Disordered region (IsUnstruct)
*****RYRSFQFLLLISSICLQFIPAI***********************GAKVGIVLLGLVAVGLFSFFLFKLWQKKKREEQYARLLKLFE*************
Disordered Region (DISOPRED)
***********FLLLISSICLQFIP**************************AKVGIVLLGLVAVGLFSFFLFKLWQ*********RLLKLFEEDDELEVELGL**
Disordered Region (DISEMBL)
MNEISRYRSFQFLLLISSICLQFIPAISD*******************NTGAKVGIVLLGLVAVGLFSFFLFKLWQKKKREEQYARLLKLFEEDDE*********
Disordered Region (DISPRO)
*****RYRSFQFLLLISSICLQFIPAIS*********************TGAKVGIVLLGLVAVGLFSFFLFKLWQKKKREEQYARLLKLFEEDDELEVELGLR*
Transmembrane Helix (TMHMM)
iiiiiiHHHHHHHHHHHHHHHHHHHHoooooooooooooooooooooooooooHHHHHHHHHHHHHHHHHHHHHHHiiiiiiiiiiiiiiiiiiiiiiiiiiiii
Transmembrane Helix (HMMTOP)
iiiiiiiiHHHHHHHHHHHHHHHHHHHooooooooooooooooooooooooooHHHHHHHHHHHHHHHHHHHiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiii
Transmembrane Helix (MEMSAT)
iiiiiHHHHHHHHHHHHHHHHHHHHooooooooooooooooooooooooooooHHHHHHHHHHHHHHHHHHHHiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiii
TM Helix, Signal Peptide (MEMSAT_SVM)
SSSSSSSSSSSSSSSSSSSSSiiiiiiiiiiiiiiiiiiiiiiiiiiiiiHHHHHHHHHHHHHHHHHHHHHoooooooooooooooooooooooooooooooooo
TM Helix, Signal Peptide (Phobius)
SSSSSSSSSSSSSSSSSSSSSSSSSSSSoooooooooooooooooooooooHHHHHHHHHHHHHHHHHHHHHiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiii
Signal Peptide (SignalP HMM Mode)
SSSSSSSSSSSSSSSSSSSSSSSSSSSSSoooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooo
Signal Peptide (SignalP NN Mode)
xxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxx
Coiled Coils (COILS)
MNEISRYRSFQFLLLISSICLQFIPAISDDPSSTKKGKQSAAHHTSRGNTGAKVGIVLLGLVAVGLFSFFLFKLWQKKKREEQYARLLKLFEEDDELEVELGLRD
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

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	105
359493474	111	PREDICTED: uncharacterized protein LOC10	0.961	0.909	0.558	2e-23
296089426	110	unnamed protein product [Vitis vinifera]	0.961	0.918	0.558	2e-23
413949259	104	hypothetical protein ZEAMMB73_515421 [Ze	0.876	0.884	0.595	4e-22
242090565	101	hypothetical protein SORBIDRAFT_09g02066	0.847	0.881	0.595	8e-22
357470405	106	hypothetical protein MTR_4g032200 [Medic	1.0	0.990	0.518	9e-22
195643542	105	hypothetical protein [Zea mays]	0.885	0.885	0.574	2e-21
226491009	104	uncharacterized protein LOC100278419 pre	0.876	0.884	0.574	3e-21
356526441	105	PREDICTED: uncharacterized protein LOC10	0.8	0.8	0.571	4e-21
53982668	106	unknown protein [Oryza sativa Japonica G	0.790	0.783	0.620	2e-20
145325459	107	uncharacterized protein [Arabidopsis tha	0.914	0.897	0.659	2e-19

>gi|359493474|ref|XP_003634607.1| PREDICTED: uncharacterized protein LOC100854818 isoform 1 [Vitis vinifera] gi|359493476|ref|XP_003634608.1| PREDICTED: uncharacterized protein LOC100854818 isoform 2 [Vitis vinifera]

 Score =  113 bits (282), Expect = 2e-23,   Method: Compositional matrix adjust.
 Identities = 57/102 (55%), Positives = 73/102 (71%), Gaps = 1/102 (0%)

Query: 5   SRYRSFQFLLLI-SSICLQFIPAISDDPSSTKKGKQSAAHHTSRGNTGAKVGIVLLGLVA 63
           SR+R   F  +I  +I L  I  ++DDPS++K  K++  H T     G ++ I+ LGLVA
Sbjct: 10  SRWRCLHFFHIIFPTISLLLISGLADDPSNSKDVKKAERHDTHGNMIGIRIVIICLGLVA 69

Query: 64  VGLFSFFLFKLWQKKKREEQYARLLKLFEEDDELEVELGLRD 105
              FS FLFK+WQKKKREEQ+ARLLKLFE+DDELEVELG+RD
Sbjct: 70  GAAFSVFLFKIWQKKKREEQHARLLKLFEDDDELEVELGIRD 111

Source: Vitis vinifera

Species: Vitis vinifera

Genus: Vitis

Family: Vitaceae

Order: Vitales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|296089426|emb|CBI39245.3| unnamed protein product [Vitis vinifera]

 Score =  113 bits (282), Expect = 2e-23,   Method: Compositional matrix adjust.
 Identities = 57/102 (55%), Positives = 73/102 (71%), Gaps = 1/102 (0%)

Query: 5   SRYRSFQFLLLI-SSICLQFIPAISDDPSSTKKGKQSAAHHTSRGNTGAKVGIVLLGLVA 63
           SR+R   F  +I  +I L  I  ++DDPS++K  K++  H T     G ++ I+ LGLVA
Sbjct: 9   SRWRCLHFFHIIFPTISLLLISGLADDPSNSKDVKKAERHDTHGNMIGIRIVIICLGLVA 68

Query: 64  VGLFSFFLFKLWQKKKREEQYARLLKLFEEDDELEVELGLRD 105
              FS FLFK+WQKKKREEQ+ARLLKLFE+DDELEVELG+RD
Sbjct: 69  GAAFSVFLFKIWQKKKREEQHARLLKLFEDDDELEVELGIRD 110

Source: Vitis vinifera

Species: Vitis vinifera

Genus: Vitis

Family: Vitaceae

Order: Vitales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|413949259|gb|AFW81908.1| hypothetical protein ZEAMMB73_515421 [Zea mays]

 Score =  108 bits (270), Expect = 4e-22,   Method: Compositional matrix adjust.
 Identities = 56/94 (59%), Positives = 68/94 (72%), Gaps = 2/94 (2%)

Query: 12  FLLLISSICLQFIPAISDDPSSTKKGKQSAAHHTSRGNTGAKVGIVLLGLVAVGLFSFFL 71
           FLL  S IC QF   ++ DP +    K++ A    +G+TG  V  VLLG+ AV L SFF+
Sbjct: 13  FLLAASGICAQFTAVLAGDPQTFNDDKKAEAQ--PKGHTGKTVLFVLLGVGAVVLLSFFI 70

Query: 72  FKLWQKKKREEQYARLLKLFEEDDELEVELGLRD 105
           FK WQKKKREEQ+ARLLKLFEEDD++EVELGLRD
Sbjct: 71  FKYWQKKKREEQHARLLKLFEEDDDIEVELGLRD 104

Source: Zea mays

Species: Zea mays

Genus: Zea

Family: Poaceae

Order: Poales

Class: Liliopsida

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|242090565|ref|XP_002441115.1| hypothetical protein SORBIDRAFT_09g020660 [Sorghum bicolor] gi|241946400|gb|EES19545.1| hypothetical protein SORBIDRAFT_09g020660 [Sorghum bicolor]

 Score =  107 bits (268), Expect = 8e-22,   Method: Compositional matrix adjust.
 Identities = 56/94 (59%), Positives = 67/94 (71%), Gaps = 5/94 (5%)

Query: 12  FLLLISSICLQFIPAISDDPSSTKKGKQSAAHHTSRGNTGAKVGIVLLGLVAVGLFSFFL 71
           FLL  S IC QF   ++ DP+  KK     A    +G+TG  +  VLLG+ AV L SFF+
Sbjct: 13  FLLAASGICAQFTAVLAGDPNDDKK-----AEAQPKGHTGKTILFVLLGVGAVILLSFFI 67

Query: 72  FKLWQKKKREEQYARLLKLFEEDDELEVELGLRD 105
           FK WQKKKREEQ+ARLLKLFEEDD++EVELGLRD
Sbjct: 68  FKYWQKKKREEQHARLLKLFEEDDDIEVELGLRD 101

Source: Sorghum bicolor

Species: Sorghum bicolor

Genus: Sorghum

Family: Poaceae

Order: Poales

Class: Liliopsida

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|357470405|ref|XP_003605487.1| hypothetical protein MTR_4g032200 [Medicago truncatula] gi|355506542|gb|AES87684.1| hypothetical protein MTR_4g032200 [Medicago truncatula] gi|388501530|gb|AFK38831.1| unknown [Medicago truncatula]

 Score =  107 bits (267), Expect = 9e-22,   Method: Compositional matrix adjust.
 Identities = 55/106 (51%), Positives = 76/106 (71%), Gaps = 1/106 (0%)

Query: 1   MNEISRYRSFQFLLLISSICLQFIPAISDDPSS-TKKGKQSAAHHTSRGNTGAKVGIVLL 59
           M +  R   + FL  + S+ LQF+  ++D+ +S +KK  +  + H S G+ G K+ IV +
Sbjct: 1   MMQPRRSPLYPFLFALISLHLQFLSGLADNNTSDSKKENKDVSAHVSSGSAGLKILIVFV 60

Query: 60  GLVAVGLFSFFLFKLWQKKKREEQYARLLKLFEEDDELEVELGLRD 105
           G++AV  F  FLFKLWQ+KKREEQ+ARLLKLFE+DDELEVELG+RD
Sbjct: 61  GVLAVIAFGVFLFKLWQRKKREEQHARLLKLFEDDDELEVELGMRD 106

Source: Medicago truncatula

Species: Medicago truncatula

Genus: Medicago

Family: Fabaceae

Order: Fabales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|195643542|gb|ACG41239.1| hypothetical protein [Zea mays]

 Score =  106 bits (264), Expect = 2e-21,   Method: Compositional matrix adjust.
 Identities = 54/94 (57%), Positives = 67/94 (71%), Gaps = 1/94 (1%)

Query: 12  FLLLISSICLQFIPAISDDPSSTKKGKQSAAHHTSRGNTGAKVGIVLLGLVAVGLFSFFL 71
           FLL  S IC QF   ++ DP ++   K++ A     G+TG  V  VLLG+ AV L SF +
Sbjct: 13  FLLAASGICAQFTAVLAGDPQTSNDDKEAEAQPKG-GHTGKTVLFVLLGVAAVILLSFVI 71

Query: 72  FKLWQKKKREEQYARLLKLFEEDDELEVELGLRD 105
           FK WQKKKR+EQ+ARLLKLFEEDD++EVELGLRD
Sbjct: 72  FKYWQKKKRQEQHARLLKLFEEDDDIEVELGLRD 105

Source: Zea mays

Species: Zea mays

Genus: Zea

Family: Poaceae

Order: Poales

Class: Liliopsida

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|226491009|ref|NP_001145178.1| uncharacterized protein LOC100278419 precursor [Zea mays] gi|195652349|gb|ACG45642.1| hypothetical protein [Zea mays] gi|413945394|gb|AFW78043.1| hypothetical protein ZEAMMB73_224308 [Zea mays] gi|413945395|gb|AFW78044.1| hypothetical protein ZEAMMB73_224308 [Zea mays] gi|413945396|gb|AFW78045.1| hypothetical protein ZEAMMB73_224308 [Zea mays]

 Score =  105 bits (263), Expect = 3e-21,   Method: Compositional matrix adjust.
 Identities = 54/94 (57%), Positives = 68/94 (72%), Gaps = 2/94 (2%)

Query: 12  FLLLISSICLQFIPAISDDPSSTKKGKQSAAHHTSRGNTGAKVGIVLLGLVAVGLFSFFL 71
           FLL  S IC QF   ++ DP ++   K++ A    +G+TG  V  VLLG+ AV L SF +
Sbjct: 13  FLLAASGICAQFTAVLAGDPQTSNDDKKAEAQ--PKGHTGKTVLFVLLGVGAVILLSFVI 70

Query: 72  FKLWQKKKREEQYARLLKLFEEDDELEVELGLRD 105
           FK WQKKKR+EQ+ARLLKLFEEDD++EVELGLRD
Sbjct: 71  FKYWQKKKRQEQHARLLKLFEEDDDIEVELGLRD 104

Source: Zea mays

Species: Zea mays

Genus: Zea

Family: Poaceae

Order: Poales

Class: Liliopsida

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|356526441|ref|XP_003531826.1| PREDICTED: uncharacterized protein LOC100803193 [Glycine max]

 Score =  105 bits (262), Expect = 4e-21,   Method: Compositional matrix adjust.
 Identities = 48/84 (57%), Positives = 61/84 (72%)

Query: 22  QFIPAISDDPSSTKKGKQSAAHHTSRGNTGAKVGIVLLGLVAVGLFSFFLFKLWQKKKRE 81
           Q +  + ++PS  K   +   HH SR + G K+ I+ LG+V V  F  FLFKLWQ+KKRE
Sbjct: 22  QHLSGLDNNPSGAKNENKDVNHHASRSSVGLKIIIIFLGVVTVIAFCVFLFKLWQRKKRE 81

Query: 82  EQYARLLKLFEEDDELEVELGLRD 105
           EQ+ARLLKLFE+DDELEVELG+RD
Sbjct: 82  EQHARLLKLFEDDDELEVELGMRD 105

Source: Glycine max

Species: Glycine max

Genus: Glycine

Family: Fabaceae

Order: Fabales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|53982668|gb|AAV25647.1| unknown protein [Oryza sativa Japonica Group] gi|125552373|gb|EAY98082.1| hypothetical protein OsI_20000 [Oryza sativa Indica Group] gi|215769439|dbj|BAH01668.1| unnamed protein product [Oryza sativa Japonica Group] gi|222631628|gb|EEE63760.1| hypothetical protein OsJ_18579 [Oryza sativa Japonica Group]

 Score =  102 bits (255), Expect = 2e-20,   Method: Compositional matrix adjust.
 Identities = 54/87 (62%), Positives = 66/87 (75%), Gaps = 4/87 (4%)

Query: 19  ICLQFIPAISDDPSSTKKGKQSAAHHTSRGNTGAKVGIVLLGLVAVGLFSFFLFKLWQKK 78
           IC QF   ++ D  ++K  K++     S+G+TG  V IVLLG+ AV L SFFLFK WQKK
Sbjct: 24  ICGQFATGLAGDTQTSKDDKKAQ----SKGHTGRTVLIVLLGIGAVVLLSFFLFKYWQKK 79

Query: 79  KREEQYARLLKLFEEDDELEVELGLRD 105
           KREEQ+ARLLKLFEEDD++EVELGLRD
Sbjct: 80  KREEQHARLLKLFEEDDDIEVELGLRD 106

Source: Oryza sativa Japonica Group

Species: Oryza sativa

Genus: Oryza

Family: Poaceae

Order: Poales

Class: Liliopsida

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|145325459|ref|NP_001077734.1| uncharacterized protein [Arabidopsis thaliana] gi|26450429|dbj|BAC42329.1| unknown protein [Arabidopsis thaliana] gi|332195340|gb|AEE33461.1| uncharacterized protein [Arabidopsis thaliana]

 Score =  100 bits (248), Expect = 2e-19,   Method: Compositional matrix adjust.
 Identities = 64/97 (65%), Positives = 72/97 (74%), Gaps = 1/97 (1%)

Query: 9   SFQFLLLISSICLQFIPAISDDPSSTKKGKQSAAHHTSRGNTGAKVGIVLLGLVAVGLFS 68
           S+  LLL +SICL F   IS DP+S+  G + A  HTS   TG KV  +LLG  AV   S
Sbjct: 12  SWSHLLLCASICLHFFLGISGDPNSSSTGAK-AESHTSSSKTGTKVIFILLGFGAVAGLS 70

Query: 69  FFLFKLWQKKKREEQYARLLKLFEEDDELEVELGLRD 105
           FFL+KLWQKKKR+EQYARLLKLFEEDDELEVELGLRD
Sbjct: 71  FFLYKLWQKKKRDEQYARLLKLFEEDDELEVELGLRD 107

Source: Arabidopsis thaliana

Species: Arabidopsis thaliana

Genus: Arabidopsis

Family: Brassicaceae

Order: Brassicales

Phylum: Streptophyta

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	105
TAIR|locus:504956278	106	AT1G09645 "AT1G09645" [Arabido	0.733	0.726	0.371	2.9e-07

TAIR|locus:504956278 AT1G09645 "AT1G09645" [Arabidopsis thaliana (taxid:3702)]

 Score = 117 (46.2 bits), Expect = 2.9e-07, P = 2.9e-07
 Identities = 29/78 (37%), Positives = 38/78 (48%)

Query:     9 SFQFLLLISSICLQFIPAISDDPSSTKKGKQSAAHHTSRGNTXXXXXXXXXXXXXXXXXX 68
             S++ LL  +SI LQF   +S D  +T  G ++ +H TS   T                  
Sbjct:    11 SWRRLLFFASIGLQFFLGLSGDSKNTNAGVKTESH-TSSSKTGTKVILVLVGFVAVAMFS 69

Query:    69 XXXXKLWQKKKREEQYAR 86
                 KLWQKKKR+EQYAR
Sbjct:    70 FFLYKLWQKKKRDEQYAR 87


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   0.127   0.367    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      105        64   0.00091  102 3  11 22  0.39    28
                                                     29  0.44    28


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:  1
  No. of states in DFA:  522 (56 KB)
  Total size of DFA:  95 KB (2068 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:  7.31u 0.12s 7.43t   Elapsed:  00:00:00
  Total cpu time:  7.31u 0.12s 7.43t   Elapsed:  00:00:00
  Start:  Fri May 10 13:16:18 2013   End:  Fri May 10 13:16:18 2013

GO:0003674 "molecular_function" evidence=ND

GO:0008150 "biological_process" evidence=ND

GO:0009507 "chloroplast" evidence=ISM

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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!

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Prediction of Functionally Associated Proteins

Functionally Associated Proteins Detected by STRING

Original result from the STRING server

Your Input: Sb09g020660.1 hypothetical protein (101 aa) (Sorghum bicolor)

Predicted Functional Partners:

Sorry, there are no predicted associations at the current settings.

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Conserved Domains and Related Protein Families

Conserved Domains Detected by RPS-BLAST

Original result of RPS-BLAST against CDD database part I

Conserved Domains Detected by HHsearch

Original result of HHsearch against CDD database

ID	Length	Definition	Probability
Query	105
PF08114	43	PMP1_2: ATPase proteolipid family; InterPro: IPR01	97.81
PF06679	163	DUF1180: Protein of unknown function (DUF1180); In	96.52
PF01102	122	Glycophorin_A: Glycophorin A; InterPro: IPR001195	94.6
PF04689	69	S1FA: DNA binding protein S1FA; InterPro: IPR00677	94.46
PF10883	87	DUF2681: Protein of unknown function (DUF2681); In	94.21
PF06305	68	DUF1049: Protein of unknown function (DUF1049); In	93.39
COG4736	60	CcoQ Cbb3-type cytochrome oxidase, subunit 3 [Post	93.0
PF14981	51	FAM165: FAM165 family	91.69
PHA03265	402	envelope glycoprotein D; Provisional	91.51
COG2976	207	Uncharacterized protein conserved in bacteria [Fun	91.36
PF12669	58	P12: Virus attachment protein p12 family	90.12
PF07010	259	Endomucin: Endomucin; InterPro: IPR010740 This fam	89.79
PF02404	273	SCF: Stem cell factor; InterPro: IPR003452 Stem ce	89.58
PF11669	102	WBP-1: WW domain-binding protein 1; InterPro: IPR0	89.55
PF15345	233	TMEM51: Transmembrane protein 51	89.29
PF06365	202	CD34_antigen: CD34/Podocalyxin family; InterPro: I	89.24
PF02699	82	YajC: Preprotein translocase subunit; InterPro: IP	88.51
PF00558	81	Vpu: Vpu protein; InterPro: IPR008187 The Human im	88.39
PF08693	40	SKG6: Transmembrane alpha-helix domain; InterPro:	88.0
TIGR02797	211	exbB tonB-system energizer ExbB. This model descri	87.28
PF05795	354	Plasmodium_Vir: Plasmodium vivax Vir protein; Inte	87.04
PRK10414	244	biopolymer transport protein ExbB; Provisional	86.74
PF09835	154	DUF2062: Uncharacterized protein conserved in bact	84.91
PTZ00270	333	variable surface protein Vir32; Provisional	84.19
PF06864	414	PAP_PilO: Pilin accessory protein (PilO); InterPro	83.85
PF11368	248	DUF3169: Protein of unknown function (DUF3169); In	83.81
PF07047	134	OPA3: Optic atrophy 3 protein (OPA3); InterPro: IP	83.24
PRK12785	166	fliL flagellar basal body-associated protein FliL;	83.23
PF14316	146	DUF4381: Domain of unknown function (DUF4381)	83.12
COG2165	149	PulG Type II secretory pathway, pseudopilin PulG [	83.03
PRK10801	227	colicin uptake protein TolQ; Provisional	82.73
PF09716	84	ETRAMP: Malarial early transcribed membrane protei	82.53
PF04478	154	Mid2: Mid2 like cell wall stress sensor; InterPro:	82.31
PRK00888	105	ftsB cell division protein FtsB; Reviewed	81.86
PF14283	218	DUF4366: Domain of unknown function (DUF4366)	81.4
PF06724	73	DUF1206: Domain of Unknown Function (DUF1206); Int	81.3
PF14316	146	DUF4381: Domain of unknown function (DUF4381)	80.92
PF12575	72	DUF3753: Protein of unknown function (DUF3753); In	80.35
KOG3839	351	consensus Lectin VIP36, involved in the transport	80.19
TIGR03064	232	sortase_srtB sortase, SrtB family. Members of this	80.12

>PF08114 PMP1_2: ATPase proteolipid family; InterPro: IPR012589 This family consists of small proteolipids associated with the plasma membrane H+ ATPase

Probab=97.81  E-value=4.2e-05  Score=48.41  Aligned_cols=35  Identities=34%  Similarity=0.759  Sum_probs=30.5

Q ss_pred             CCceeehhHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q 034055           50 TGAKVGIVLLGLVAVGLFSFFLFKLWQKKKREEQY   84 (105)
Q Consensus        50 tg~~v~ii~lg~va~~~~~~~~yK~WqkkKRe~q~   84 (105)
                      .|-..+++++|++++++.+.++|+.||.+||--|+
T Consensus         8 ~GVIlVF~lVglv~i~iva~~iYRKw~aRkr~l~r   42 (43)
T PF08114_consen    8 GGVILVFCLVGLVGIGIVALFIYRKWQARKRALQR   42 (43)
T ss_pred             CCeeeehHHHHHHHHHHHHHHHHHHHHHHHHHHhc
Confidence            46677888889999999999999999999997663

Two proteolipids (PMP1 and PMP2) are associated with the ATPase and both genes are similarly expressed in the wild-type strain of yeast. No modification of the level of transcription of one PMP gene is detected in a strain deleted of the other. Though both proteolipids show similarity with other small proteolipids associated with other cation -transporting ATPases, their functions remain unclear [].

>PF06679 DUF1180: Protein of unknown function (DUF1180); InterPro: IPR009565 This entry consists of several hypothetical eukaryotic proteins thought to be membrane proteins

Probab=96.52  E-value=0.0022  Score=48.68  Aligned_cols=30  Identities=23%  Similarity=0.580  Sum_probs=18.4

Q ss_pred             ceeehhHHHHHHHHHHHHHHHHHHHHHHHHH
Q 034055           52 AKVGIVLLGLVAVGLFSFFLFKLWQKKKREE   82 (105)
Q Consensus        52 ~~v~ii~lg~va~~~~~~~~yK~WqkkKRe~   82 (105)
                      +..++|+.|+-++++ ++|+++.||-|||++
T Consensus        95 ~R~~~Vl~g~s~l~i-~yfvir~~R~r~~~r  124 (163)
T PF06679_consen   95 KRALYVLVGLSALAI-LYFVIRTFRLRRRNR  124 (163)
T ss_pred             hhhHHHHHHHHHHHH-HHHHHHHHhhccccc
Confidence            445555556555554 455778887776544

Their function is unknown.

>PF01102 Glycophorin_A: Glycophorin A; InterPro: IPR001195 Proteins in this group are responsible for the molecular basis of the blood group antigens, surface markers on the outside of the red blood cell membrane

Probab=94.60  E-value=0.049  Score=39.70  Aligned_cols=47  Identities=17%  Similarity=0.191  Sum_probs=19.2

Q ss_pred             cCCCCceeehhHHHHHHHHHH--HHHHHHHHHHHHHHHHHHHHHhhhccch
Q 034055           47 RGNTGAKVGIVLLGLVAVGLF--SFFLFKLWQKKKREEQYARLLKLFEEDD   95 (105)
Q Consensus        47 ~~~tg~~v~ii~lg~va~~~~--~~~~yK~WqkkKRe~q~AR~lKLFEedD   95 (105)
                      .+-.+..++.|++|++|-+++  ++..|-.+|++||..-...-  +.++||
T Consensus        59 h~fs~~~i~~Ii~gv~aGvIg~Illi~y~irR~~Kk~~~~~~p--~P~~~d  107 (122)
T PF01102_consen   59 HRFSEPAIIGIIFGVMAGVIGIILLISYCIRRLRKKSSSDVQP--LPEEDD  107 (122)
T ss_dssp             SSSS-TCHHHHHHHHHHHHHHHHHHHHHHHHHHS-----------------
T ss_pred             cCccccceeehhHHHHHHHHHHHHHHHHHHHHHhccCCCCCCC--CCCCCC
Confidence            344455667777787765555  44466667666664322221  666633

Most of these markers are proteins, but some are carbohydrates attached to lipids or proteins [Reid M.E., Lomas-Francis C. The Blood Group Antigen FactsBook Academic Press, London / San Diego, (1997)]. Glycophorin A (PAS-2) and glycophorin B (PAS-3) belong to the MNS blood group system and are associated with antigens that include M/N, S/s, U, He, Mi(a), M(c), Vw, Mur, M(g), Vr, M(e), Mt(a), St(a), Ri(a), Cl(a), Ny(a), Hut, Hil, M(v), Far, Mit, Dantu, Hop, Nob, En(a), ENKT, amongst others. Glycophorin A is the major sialoglycoprotein of the erythrocyte membrane []. Structurally, glycophorin A consists of an N-terminal extracellular domain, heavily glycosylated on serine and threonine residues, followed by a transmembrane region and a C-terminal cytoplasmic domain. Other glycophorins in this entry such as Glycophorin B and Glycophorin E represent minor sialoglycoproteins in the erythrocyte membrane.; GO: 0016021 integral to membrane; PDB: 2KPF_B 1AFO_B 2KPE_A.

>PF04689 S1FA: DNA binding protein S1FA; InterPro: IPR006779 S1FA is an unusual small plant peptide of only 70 amino acids with a basic domain which contains a nuclear localization signal and a putative DNA binding helix

Probab=94.46  E-value=0.062  Score=36.92  Aligned_cols=31  Identities=29%  Similarity=0.291  Sum_probs=24.4

Q ss_pred             cCCCCceeehhHHHHHH-HHHHHHHHHHHHHH
Q 034055           47 RGNTGAKVGIVLLGLVA-VGLFSFFLFKLWQK   77 (105)
Q Consensus        47 ~~~tg~~v~ii~lg~va-~~~~~~~~yK~Wqk   77 (105)
                      +=|-|..|+|++.|++. +.++.+++|-||||
T Consensus         9 GlnPGlIVLlvV~g~ll~flvGnyvlY~Yaqk   40 (69)
T PF04689_consen    9 GLNPGLIVLLVVAGLLLVFLVGNYVLYVYAQK   40 (69)
T ss_pred             CCCCCeEEeehHHHHHHHHHHHHHHHHHHHhh
Confidence            45678888888887764 45568999999996

S1FA is highly conserved between dicotyledonous and monocotyledonous plants and may be a DNA-binding protein that specifically recognises the negative promoter element S1F [].; GO: 0003677 DNA binding, 0006355 regulation of transcription, DNA-dependent, 0005634 nucleus

>PF10883 DUF2681: Protein of unknown function (DUF2681); InterPro: IPR020274 This entry contains membrane proteins with no known function

Probab=94.21  E-value=0.15  Score=35.62  Aligned_cols=30  Identities=27%  Similarity=0.414  Sum_probs=17.8

Q ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q 034055           59 LGLVAVGLFSFFLFKLWQKKKREEQYARLL   88 (105)
Q Consensus        59 lg~va~~~~~~~~yK~WqkkKRe~q~AR~l   88 (105)
                      ++.++.+++++++|.+||=+|-+++-++|.
T Consensus         7 v~~~~~v~~~i~~y~~~k~~ka~~~~~kL~   36 (87)
T PF10883_consen    7 VGGVGAVVALILAYLWWKVKKAKKQNAKLQ   36 (87)
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence            333444445556788888777777654443

>PF06305 DUF1049: Protein of unknown function (DUF1049); InterPro: IPR010445 This entry consists of several hypothetical bacterial proteins of unknown function

Probab=93.39  E-value=0.24  Score=30.42  Aligned_cols=35  Identities=14%  Similarity=0.058  Sum_probs=23.5

Q ss_pred             eehhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q 034055           54 VGIVLLGLVAVGLFSFFLFKLWQKKKREEQYARLL   88 (105)
Q Consensus        54 v~ii~lg~va~~~~~~~~yK~WqkkKRe~q~AR~l   88 (105)
                      +++++++++++++..+...++|+.|++-++..|=+
T Consensus        23 ~il~~f~~G~llg~l~~~~~~~~~r~~~~~~~k~l   57 (68)
T PF06305_consen   23 LILIAFLLGALLGWLLSLPSRLRLRRRIRRLRKEL   57 (68)
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence            34455577788888888888887776655544433

>COG4736 CcoQ Cbb3-type cytochrome oxidase, subunit 3 [Posttranslational modification, protein turnover, chaperones]

Probab=93.00  E-value=0.14  Score=33.81  Aligned_cols=37  Identities=19%  Similarity=0.149  Sum_probs=27.5

Q ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHhhhccchhhhhhcC
Q 034055           65 GLFSFFLFKLWQKKKREEQYARLLKLFEEDDELEVELG  102 (105)
Q Consensus        65 ~~~~~~~yK~WqkkKRe~q~AR~lKLFEedDdle~ELG  102 (105)
                      ...++..|-||.+||.+.|||+-. .|.++||.+|+.|
T Consensus        21 ~fiavi~~ayr~~~K~~~d~aa~~-~l~l~Dd~q~~~~   57 (60)
T COG4736          21 FFIAVIYFAYRPGKKGEFDEAARG-ILPLNDDAQDAAG   57 (60)
T ss_pred             HHHHHHHHHhcccchhhHHHHhcc-CCCCCcchhhhhc
Confidence            334556778899999999998753 3677888888875

>PF14981 FAM165: FAM165 family

Probab=91.69  E-value=0.42  Score=31.29  Aligned_cols=30  Identities=27%  Similarity=0.419  Sum_probs=21.2

Q ss_pred             HHHHHHHHHH-HHHHHHHHHHHHHHHHHHHH
Q 034055           58 LLGLVAVGLF-SFFLFKLWQKKKREEQYARL   87 (105)
Q Consensus        58 ~lg~va~~~~-~~~~yK~WqkkKRe~q~AR~   87 (105)
                      ++..=.+|++ +|.+.|.||+|+-|+++.+.
T Consensus        12 ILaaKtlilClaFAgvK~yQ~krlEak~~k~   42 (51)
T PF14981_consen   12 ILAAKTLILCLAFAGVKMYQRKRLEAKLKKL   42 (51)
T ss_pred             HHHHHHHHHHHHHhhHHHHHHHHHHHHHHHH
Confidence            3444445554 78889999999988877553

>PHA03265 envelope glycoprotein D; Provisional

Probab=91.51  E-value=0.19  Score=43.45  Aligned_cols=39  Identities=23%  Similarity=0.246  Sum_probs=26.3

Q ss_pred             cCCCCcee-ehhHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q 034055           47 RGNTGAKV-GIVLLGLVAVGLFSFFLFKLWQKKKREEQYA   85 (105)
Q Consensus        47 ~~~tg~~v-~ii~lg~va~~~~~~~~yK~WqkkKRe~q~A   85 (105)
                      ++++|+.+ ++|-+|++.+++....+|-.|+|||.....+
T Consensus       343 s~~~~~~~g~~ig~~i~glv~vg~il~~~~rr~k~~~k~~  382 (402)
T PHA03265        343 SKSNSTFVGISVGLGIAGLVLVGVILYVCLRRKKELKKSA  382 (402)
T ss_pred             CCCCCcccceEEccchhhhhhhhHHHHHHhhhhhhhhhhh
Confidence            44444443 4455577777777788999999998765543

>COG2976 Uncharacterized protein conserved in bacteria [Function unknown]

Probab=91.36  E-value=0.34  Score=38.66  Aligned_cols=30  Identities=33%  Similarity=0.643  Sum_probs=21.1

Q ss_pred             HHHHHHHHHHHHHHHHHHHHH------HHHHHHhhh
Q 034055           62 VAVGLFSFFLFKLWQKKKREE------QYARLLKLF   91 (105)
Q Consensus        62 va~~~~~~~~yK~WqkkKRe~------q~AR~lKLF   91 (105)
                      |.++++.+|+++|||.++-++      +++.+++.-
T Consensus        29 viLg~~~lfGW~ywq~~q~~q~~~AS~~Y~~~i~~~   64 (207)
T COG2976          29 VILGLGGLFGWRYWQSHQVEQAQEASAQYQNAIKAV   64 (207)
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence            344556778999999999986      445555544

>PF12669 P12: Virus attachment protein p12 family

Probab=90.12  E-value=0.41  Score=30.64  Aligned_cols=11  Identities=27%  Similarity=0.359  Sum_probs=8.4

Q ss_pred             HHHHHHHHHHH
Q 034055           70 FLFKLWQKKKR   80 (105)
Q Consensus        70 ~~yK~WqkkKR   80 (105)
                      ..++.|+++|+
T Consensus        16 ~~r~~~k~~K~   26 (58)
T PF12669_consen   16 AIRKFIKDKKK   26 (58)
T ss_pred             HHHHHHHHhhc
Confidence            35899988776

>PF07010 Endomucin: Endomucin; InterPro: IPR010740 This family consists of several mammalian endomucin proteins

Probab=89.79  E-value=0.4  Score=39.57  Aligned_cols=27  Identities=19%  Similarity=0.125  Sum_probs=23.2

Q ss_pred             ceeehhHHHHHHHHHHHHHHHHHHHHH
Q 034055           52 AKVGIVLLGLVAVGLFSFFLFKLWQKK   78 (105)
Q Consensus        52 ~~v~ii~lg~va~~~~~~~~yK~Wqkk   78 (105)
                      ..|+|+++++.++++.++++||.-+||
T Consensus       191 lpvvIaliVitl~vf~LvgLyr~C~k~  217 (259)
T PF07010_consen  191 LPVVIALIVITLSVFTLVGLYRMCWKT  217 (259)
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHhhcC
Confidence            677888888889999999999998776

Endomucin is an early endothelial-specific antigen that is also expressed on putative hematopoietic progenitor cells.

>PF02404 SCF: Stem cell factor; InterPro: IPR003452 Stem cell factor (SCF) is a homodimer involved in hematopoiesis

Probab=89.58  E-value=0.1  Score=43.17  Aligned_cols=28  Identities=21%  Similarity=0.215  Sum_probs=0.0

Q ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q 034055           58 LLGLVAVGLFSFFLFKLWQKKKREEQYA   85 (105)
Q Consensus        58 ~lg~va~~~~~~~~yK~WqkkKRe~q~A   85 (105)
                      +.++..++++.+++--||.||+|++.++
T Consensus       220 L~sl~SLVIGFvlG~l~WKkkq~~~~~~  247 (273)
T PF02404_consen  220 LPSLFSLVIGFVLGALYWKKKQRSLTQE  247 (273)
T ss_dssp             ----------------------------
T ss_pred             HHHHHHHHHHHHHHHHHHHhhccccccc
Confidence            3344333333333334999999976654

SCF binds to and activates the SCF receptor (SCFR), a receptor tyrosine kinase. SCF stimulates the proliferation of mast cells and is able to augment the proliferation of both myeloid and lymphoid hematopoietic progenitors in bone marrow culture. It also mediates cell-cell adhesion and acts synergistically with other cytokines. SCF is a type I membrane protein, but is also found in a secretable, soluble form. The crystal structure of human SCF has been resolved and a potential receptor-binding site identified [].; GO: 0005173 stem cell factor receptor binding, 0007155 cell adhesion, 0016020 membrane; PDB: 1EXZ_A 1SCF_D 2E9W_C 2O26_A 2O27_A.

>PF11669 WBP-1: WW domain-binding protein 1; InterPro: IPR021684 This family of proteins represents WBP-1, a ligand of the WW domain of Yes-associated protein

Probab=89.55  E-value=0.71  Score=32.18  Aligned_cols=26  Identities=15%  Similarity=0.178  Sum_probs=18.5

Q ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHH
Q 034055           62 VAVGLFSFFLFKLWQKKKREEQYARL   87 (105)
Q Consensus        62 va~~~~~~~~yK~WqkkKRe~q~AR~   87 (105)
                      +.+++...-++++|++|.|-++|-|-
T Consensus        30 liill~c~c~~~~~r~r~~~~~q~rq   55 (102)
T PF11669_consen   30 LIILLSCCCACRHRRRRRRLQQQQRQ   55 (102)
T ss_pred             HHHHHHHHHHHHHHHHHHhhhhhhcc
Confidence            34445677789999998887766553

This protein has a proline-rich domain. WBP-1 does not bind to the SH3 domain [].

>PF15345 TMEM51: Transmembrane protein 51

Probab=89.29  E-value=0.95  Score=36.72  Aligned_cols=65  Identities=14%  Similarity=0.216  Sum_probs=33.8

Q ss_pred             hhhhccccCCCC-CCcCCCcccccccccCCCCceeehhHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q 034055           21 LQFIPAISDDPS-STKKGKQSAAHHTSRGNTGAKVGIVLLGLVAVGLFSFFLFKLWQKKKREEQYA   85 (105)
Q Consensus        21 lqf~~gls~d~s-~sk~~~k~~~h~~s~~~tg~~v~ii~lg~va~~~~~~~~yK~WqkkKRe~q~A   85 (105)
                      .-++.|++.-.+ ++...++.++......+-.-.|.+|++|+++..+.+-..-+.=+||||.++.+
T Consensus        26 W~~VPg~~~~~~~~~~~~n~~~~~~~~~ksKt~SVAyVLVG~Gv~LLLLSICL~IR~KRr~rq~~e   91 (233)
T PF15345_consen   26 WNLVPGFSSGNKPTPQGSNSTEPSDGNLKSKTFSVAYVLVGSGVALLLLSICLSIRDKRRRRQGEE   91 (233)
T ss_pred             eeecccccCCCCCCCCCCCCcCCCCCcccceeEEEEEehhhHHHHHHHHHHHHHHHHHHHHhhccc
Confidence            345566654333 22233444443321222234577888888655555555566666666665444

>PF06365 CD34_antigen: CD34/Podocalyxin family; InterPro: IPR013836 This family consists of several mammalian CD34 antigen proteins

Probab=89.24  E-value=0.56  Score=36.91  Aligned_cols=37  Identities=14%  Similarity=0.179  Sum_probs=23.4

Q ss_pred             CceeehhHHH-HHHHHHHHHHHHHHHHHHHHHHHHHHH
Q 034055           51 GAKVGIVLLG-LVAVGLFSFFLFKLWQKKKREEQYARL   87 (105)
Q Consensus        51 g~~v~ii~lg-~va~~~~~~~~yK~WqkkKRe~q~AR~   87 (105)
                      +.-|.||+.| ++.++++..++|-.|||+-.-..+.|+
T Consensus       100 ~~lI~lv~~g~~lLla~~~~~~Y~~~~Rrs~~~~~~rl  137 (202)
T PF06365_consen  100 PTLIALVTSGSFLLLAILLGAGYCCHQRRSWSKKGQRL  137 (202)
T ss_pred             eEEEehHHhhHHHHHHHHHHHHHHhhhhccCCcchhhh
Confidence            3444455555 456666677789999988654444454

The CD34 antigen is a human leukocyte membrane protein expressed specifically by lymphohematopoietic progenitor cells. CD34 is a phosphoprotein. Activation of protein kinase C (PKC) has been found to enhance CD34 phosphorylation [, ]. This family contains several eukaryotic podocalyxin proteins. Podocalyxin is a major membrane protein of the glomerular epithelium and is thought to be involved in maintenance of the architecture of the foot processes and filtration slits characteristic of this unique epithelium by virtue of its high negative charge. Podocalyxin functions as an anti-adhesin that maintains an open filtration pathway between neighbouring foot processes in the glomerular epithelium by charge repulsion [].

>PF02699 YajC: Preprotein translocase subunit; InterPro: IPR003849 Secretion across the inner membrane in some Gram-negative bacteria occurs via the preprotein translocase pathway

Probab=88.51  E-value=0.65  Score=30.92  Aligned_cols=26  Identities=19%  Similarity=0.399  Sum_probs=11.6

Q ss_pred             HHHHHHHHHHHHHHHHHHhhhccchh
Q 034055           71 LFKLWQKKKREEQYARLLKLFEEDDE   96 (105)
Q Consensus        71 ~yK~WqkkKRe~q~AR~lKLFEedDd   96 (105)
                      .+-++.+|||+++++.++.=..-+|+
T Consensus        17 f~~~rpqkk~~k~~~~m~~~Lk~Gd~   42 (82)
T PF02699_consen   17 FLMIRPQKKQQKEHQEMLASLKPGDE   42 (82)
T ss_dssp             HHTHHHHHHHHHHHTTGGG-------
T ss_pred             hheecHHHHHHHHHHHHHHcCCCCCE
Confidence            33445566666677766665555554

Proteins are produced in the cytoplasm as precursors, and require a chaperone subunit to direct them to the translocase component []. From there, the mature proteins are either targeted to the outer membrane, or remain as periplasmic proteins []. The translocase protein subunits are encoded on the bacterial chromosome. The translocase itself comprises 7 proteins, including a chaperone (SecB), ATPase (SecA), an integral membrane complex (SecY, SecE and SecG), and two additional membrane proteins that promote the release of the mature peptide into the periplasm (SecD and SecF) []. Other cytoplasmic/periplasmic proteins play a part in preprotein translocase activity, namely YidC and YajC []. The latter is bound in a complex to SecD and SecF, and plays a part in stabilising and regulating secretion through the SecYEG integral membrane component via SecA []. Homologues of the YajC gene have been found in a range of pathogenic and commensal microbes. Brucella abortis YajC- and SecD-like proteins were shown to stimulate a Th1 cell-mediated immune response in mice, and conferred protection when challenged with B.abortis []. Therefore, these proteins may have an antigenic role as well as a secretory one in virulent bacteria []. A number of previously uncharacterised "hypothetical" proteins also show similarity to E.coli YajC, suggesting that this family is wider than first thought []. More recently, the precise interactions between the E.coli SecYEG complex, SecD, SecF, YajC and YidC have been studied []. Rather than acting individually, the four proteins form a heterotetrameric complex and associate with the SecYEG heterotrimeric complex []. The SecF and YajC subunits link the complex to the integral membrane translocase. ; PDB: 2RDD_B.

>PF00558 Vpu: Vpu protein; InterPro: IPR008187 The Human immunodeficiency virus 1 (HIV-1) Vpu protein acts in the degradation of CD4 in the endoplasmic reticulum and in the enhancement of virion release from the plasma membrane of infected cells []

Probab=88.39  E-value=0.39  Score=33.39  Aligned_cols=22  Identities=23%  Similarity=0.433  Sum_probs=5.6

Q ss_pred             HHHHHHHHHHHHHHHHHHHHhh
Q 034055           69 FFLFKLWQKKKREEQYARLLKL   90 (105)
Q Consensus        69 ~~~yK~WqkkKRe~q~AR~lKL   90 (105)
                      ...|+.|+|-|||+.--|+++=
T Consensus        24 ~iv~ieYrk~~rqrkId~li~R   45 (81)
T PF00558_consen   24 TIVYIEYRKIKRQRKIDRLIER   45 (81)
T ss_dssp             HHH------------CHHHHHH
T ss_pred             HHHHHHHHHHHHHHhHHHHHHH
Confidence            3467778888888766666654

; GO: 0019076 release of virus from host; PDB: 2JPX_A 1PI8_A 2GOH_A 2GOF_A 1PI7_A 1PJE_A 1VPU_A 2K7Y_A.

>PF08693 SKG6: Transmembrane alpha-helix domain; InterPro: IPR014805 SKG6 and AXL2 are membrane proteins that show polarised intracellular localisation [, ]

Probab=88.00  E-value=0.14  Score=31.65  Aligned_cols=12  Identities=42%  Similarity=0.744  Sum_probs=6.9

Q ss_pred             HHHHHHHHHHHH
Q 034055           68 SFFLFKLWQKKK   79 (105)
Q Consensus        68 ~~~~yK~WqkkK   79 (105)
                      .+++|..|+|+|
T Consensus        29 ~~~l~~~~rR~k   40 (40)
T PF08693_consen   29 GAFLFFWYRRKK   40 (40)
T ss_pred             HHHhheEEeccC
Confidence            345666666654

This entry represents the highly conserved transmembrane alpha-helical domain found in these proteins [, ]. The full-length AXL2 protein has a negative regulatory function in cytokinesis [].

>TIGR02797 exbB tonB-system energizer ExbB

Probab=87.28  E-value=1.4  Score=33.41  Aligned_cols=45  Identities=20%  Similarity=0.225  Sum_probs=30.8

Q ss_pred             ehhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhhccchhhhh
Q 034055           55 GIVLLGLVAVGLFSFFLFKLWQKKKREEQYARLLKLFEEDDELEV   99 (105)
Q Consensus        55 ~ii~lg~va~~~~~~~~yK~WqkkKRe~q~AR~lKLFEedDdle~   99 (105)
                      ++..|.+..++..++..+|+|+-++......++++-|.+..++|.
T Consensus        16 vm~~Ll~~Si~s~aiiieR~~~~~~~~~~~~~~~~~~~~~~~~~~   60 (211)
T TIGR02797        16 VMIGLALASVVTWTIWIAKSVELAGARRRLKRALKALGEARTLAE   60 (211)
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHhhHHHHHHHHHhCCCHHH
Confidence            344455666666778889999887776666777787766555443

This model describes ExbB proteins, part of the MotA/TolQ/ExbB protein family. The paired proteins MotA and MotB, TolQ and TolR, and ExbB and ExbD harness the proton-motive force to drive the flagellar motor, energize the Tol-Pal system, or energize TonB, respectively. Tol-Pal and TonB are both active at the outer membrane. Genomes may have many different TonB-dependent receptors, of which many of those characterized are involved in siderophore transport across the outer membrane.

>PF05795 Plasmodium_Vir: Plasmodium vivax Vir protein; InterPro: IPR008780 This family consists of several Vir proteins specific to the genus Plasmodium and Plasmodium vivax in particular

Probab=87.04  E-value=0.42  Score=35.75  Aligned_cols=37  Identities=22%  Similarity=0.486  Sum_probs=24.5

Q ss_pred             hhHHHHHHHHHHHHHHHH--HHHHHHHHHHHHHHHhhhc
Q 034055           56 IVLLGLVAVGLFSFFLFK--LWQKKKREEQYARLLKLFE   92 (105)
Q Consensus        56 ii~lg~va~~~~~~~~yK--~WqkkKRe~q~AR~lKLFE   92 (105)
                      .+.++++++.+++|++||  -|.+++|.+.+.+.-..++
T Consensus       286 ~~~~~~~G~~~~~f~LYK~g~~~~~~~~r~~~~~~~~~~  324 (354)
T PF05795_consen  286 SPVLSVLGIPLIFFLLYKFGSWFNRRRGRRRRIINNNFN  324 (354)
T ss_pred             hhhhhhHHHHHHHHHHhccchhhcccccccccccccccc
Confidence            455677788888999999  5766666655444333333

The vir genes are present at about 600-1,000 copies per haploid genome and encode proteins that are immunovariant in natural infections, indicating that they may have a functional role in establishing chronic infection through antigenic variation [].

>PRK10414 biopolymer transport protein ExbB; Provisional

Probab=86.74  E-value=1.5  Score=34.60  Aligned_cols=46  Identities=20%  Similarity=0.205  Sum_probs=32.6

Q ss_pred             eehhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhhccchhhhh
Q 034055           54 VGIVLLGLVAVGLFSFFLFKLWQKKKREEQYARLLKLFEEDDELEV   99 (105)
Q Consensus        54 v~ii~lg~va~~~~~~~~yK~WqkkKRe~q~AR~lKLFEedDdle~   99 (105)
                      +++.+|.+..++..++...|+|+-++......++.+.|..-.++|.
T Consensus        25 ~Vm~~Ll~~Si~swaiIieR~~~l~~~~~~~~~~~~~~~~~~~l~~   70 (244)
T PRK10414         25 CVMIGLILASVVTWAIFFSKSVEFFNQKRRLKREQQLLAEARSLDQ   70 (244)
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhCCCHHH
Confidence            4455666667777788899999987776666788887766544443

>PF09835 DUF2062: Uncharacterized protein conserved in bacteria (DUF2062); InterPro: IPR018639 This domain, found in various prokaryotic proteins, has no known function

Probab=84.91  E-value=1.7  Score=30.58  Aligned_cols=28  Identities=25%  Similarity=0.384  Sum_probs=19.0

Q ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q 034055           59 LGLVAVGLFSFFLFKLWQKKKREEQYAR   86 (105)
Q Consensus        59 lg~va~~~~~~~~yK~WqkkKRe~q~AR   86 (105)
                      +|+++.+++-+..|..|++.+|.+.|+|
T Consensus       127 ~~~v~~~i~Y~l~~~~~~~~r~~r~~~r  154 (154)
T PF09835_consen  127 LGIVLGIISYFLVYFLVRKYRKRRRKRR  154 (154)
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHhCc
Confidence            3555666666777888887777666665

It is found at the C-terminal of family 2 glycosyltransferase proteins, in addition to proteins of unknown function.

>PTZ00270 variable surface protein Vir32; Provisional

Probab=84.19  E-value=0.63  Score=37.88  Aligned_cols=28  Identities=43%  Similarity=0.485  Sum_probs=25.3

Q ss_pred             cCCCCceeehhHHHHHHHHHHHHHHHHH
Q 034055           47 RGNTGAKVGIVLLGLVAVGLFSFFLFKL   74 (105)
Q Consensus        47 ~~~tg~~v~ii~lg~va~~~~~~~~yK~   74 (105)
                      .+++..++.-|+|||||..+.++++||+
T Consensus       264 ~~~~~~~~g~~~lGvv~t~~tsgalYr~  291 (333)
T PTZ00270        264 GTNPVTKSGNVLLGVVATSMTSGALYKF  291 (333)
T ss_pred             CCCcchhccceehhhhhhhhhhhhheec
Confidence            4567899999999999999999999997

>PF06864 PAP_PilO: Pilin accessory protein (PilO); InterPro: IPR009663 This family consists of several enterobacterial PilO proteins

Probab=83.85  E-value=1.7  Score=35.66  Aligned_cols=20  Identities=20%  Similarity=0.358  Sum_probs=12.7

Q ss_pred             HHHHHHHHHHHHHHHHHHHH
Q 034055           65 GLFSFFLFKLWQKKKREEQY   84 (105)
Q Consensus        65 ~~~~~~~yK~WqkkKRe~q~   84 (105)
                      +++++.+|.|||..++|+++
T Consensus       176 ~~~~~~g~~~~~~~~~~~~~  195 (414)
T PF06864_consen  176 ALAGGYGWWYWQAQQEEARR  195 (414)
T ss_pred             HHHHHHHHHHhhhhhhHHHH
Confidence            34456788899877554443

The function of PilO is unknown although it has been suggested that it is a cytoplasmic protein in the absence of other Pil proteins, but PilO protein is translocated to the outer membrane in the presence of other Pil proteins. Alternatively, PilO protein may form a complex with other Pil protein(s). PilO has been predicted to function as a component of the pilin transport apparatus and thin-pilus basal body []. This family does not seem to be related to IPR007445 from INTERPRO.

>PF11368 DUF3169: Protein of unknown function (DUF3169); InterPro: IPR021509 Some members in this family of proteins are annotated as membrane proteins however this cannot be confirmed

Probab=83.81  E-value=1.6  Score=33.30  Aligned_cols=10  Identities=40%  Similarity=0.571  Sum_probs=5.1

Q ss_pred             ccchhhhhhc
Q 034055           92 EEDDELEVEL  101 (105)
Q Consensus        92 EedDdle~EL  101 (105)
                      +||||.++|+
T Consensus        82 ~~deD~~~~~   91 (248)
T PF11368_consen   82 EEDEDENEEY   91 (248)
T ss_pred             cccchHHHHH
Confidence            3455555543

Currently there is no known function.

>PF07047 OPA3: Optic atrophy 3 protein (OPA3); InterPro: IPR010754 OPA3 deficiency causes type III 3-methylglutaconic aciduria (MGA) in humans

Probab=83.24  E-value=3.5  Score=29.57  Aligned_cols=41  Identities=29%  Similarity=0.453  Sum_probs=25.5

Q ss_pred             HHHHHHHHHHHHHHHHHH-----HHHHHHHHHHHhhhccchhhhhh
Q 034055           60 GLVAVGLFSFFLFKLWQK-----KKREEQYARLLKLFEEDDELEVE  100 (105)
Q Consensus        60 g~va~~~~~~~~yK~Wqk-----kKRe~q~AR~lKLFEedDdle~E  100 (105)
                      +++..+++++.+|-||+.     +|+++++.++-.|=++-++++.+
T Consensus        82 ~fiF~Va~~li~~E~~Rs~~ke~~Ke~~~~~~l~~L~~~i~~L~~~  127 (134)
T PF07047_consen   82 AFIFSVAAGLIIYEYWRSARKEAKKEEELQERLEELEERIEELEEQ  127 (134)
T ss_pred             HHHHHHHHHHHHHHHHHHHhhHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence            345556667778888874     35555666666665555555544

This disease manifests with early bilateral optic atrophy, spasticity, extrapyramidal dysfunction, ataxia, and cognitive deficits, but normal longevity []. This family consists of several optic atrophy 3 (OPA3) proteins and related proteins from other eukaryotic species, the function is unknown.

>PRK12785 fliL flagellar basal body-associated protein FliL; Reviewed

Probab=83.23  E-value=0.21  Score=36.83  Aligned_cols=29  Identities=14%  Similarity=-0.171  Sum_probs=19.8

Q ss_pred             CceeehhHHHHHHHHHHHHHHHHHHHHHH
Q 034055           51 GAKVGIVLLGLVAVGLFSFFLFKLWQKKK   79 (105)
Q Consensus        51 g~~v~ii~lg~va~~~~~~~~yK~WqkkK   79 (105)
                      ..+++||+++++.+++++.++|-+|.+++
T Consensus        23 kk~liii~~~~lll~~~g~g~~f~~~~~~   51 (166)
T PRK12785         23 KKKLIIIAAAAVLLLGGGGGGFFFFFSHG   51 (166)
T ss_pred             cceEeeHHHHHHHHHhcchheEEEEEecC
Confidence            45666666677777777777777776544

>PF14316 DUF4381: Domain of unknown function (DUF4381)

Probab=83.12  E-value=3.6  Score=29.19  Aligned_cols=15  Identities=20%  Similarity=0.642  Sum_probs=7.0

Q ss_pred             HHHHHHHHHHHHHHH
Q 034055           64 VGLFSFFLFKLWQKK   78 (105)
Q Consensus        64 ~~~~~~~~yK~Wqkk   78 (105)
                      ++++++..+++||+.
T Consensus        34 ~~~~~~~~~r~~~~~   48 (146)
T PF14316_consen   34 LILLLWRLWRRWRRN   48 (146)
T ss_pred             HHHHHHHHHHHHHcc
Confidence            333444455555553

>COG2165 PulG Type II secretory pathway, pseudopilin PulG [Cell motility and secretion / Intracellular trafficking and secretion]

Probab=83.03  E-value=3.1  Score=26.84  Aligned_cols=7  Identities=14%  Similarity=0.937  Sum_probs=2.9

Q ss_pred             hhHHHHH
Q 034055           56 IVLLGLV   62 (105)
Q Consensus        56 ii~lg~v   62 (105)
                      |+++|++
T Consensus        19 l~Iigil   25 (149)
T COG2165          19 LAIIGIL   25 (149)
T ss_pred             HHHHHHH
Confidence            3344444

>PRK10801 colicin uptake protein TolQ; Provisional

Probab=82.73  E-value=2.7  Score=32.54  Aligned_cols=40  Identities=5%  Similarity=0.040  Sum_probs=30.1

Q ss_pred             eehhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhhcc
Q 034055           54 VGIVLLGLVAVGLFSFFLFKLWQKKKREEQYARLLKLFEE   93 (105)
Q Consensus        54 v~ii~lg~va~~~~~~~~yK~WqkkKRe~q~AR~lKLFEe   93 (105)
                      +++.+|.+..++..++...|+|+-++...+..+|++-|.+
T Consensus        16 ~vm~~Ll~~Si~s~aIiieR~~~l~~~~~~~~~f~~~~~~   55 (227)
T PRK10801         16 LIMLILIGFSIASWAIIIQRTRILNAAAREAEAFEDKFWS   55 (227)
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHhhHHHHHHHHHh
Confidence            3444555666777778899999998888888888887755

>PF09716 ETRAMP: Malarial early transcribed membrane protein (ETRAMP); InterPro: IPR006389 These sequences represent a family of proteins from the malaria parasite Plasmodium falciparum, several of which have been shown to be expressed specifically in the ring stage as well as the rodent parasite Plasmodium yoelii []

Probab=82.53  E-value=2.2  Score=28.83  Aligned_cols=31  Identities=19%  Similarity=0.220  Sum_probs=19.1

Q ss_pred             CCCceeehhHHH-HHHHHHHHHHHHHHHHHHH
Q 034055           49 NTGAKVGIVLLG-LVAVGLFSFFLFKLWQKKK   79 (105)
Q Consensus        49 ~tg~~v~ii~lg-~va~~~~~~~~yK~WqkkK   79 (105)
                      .+...++|..++ .+|+++++.++|-+.++||
T Consensus        51 k~kK~iiiS~i~s~lalli~~~~G~g~y~~~k   82 (84)
T PF09716_consen   51 KNKKKIIISTIASGLALLIATALGYGYYKKKK   82 (84)
T ss_pred             hccchhhHHHHHHHHHHHHHHHHHHHHHhhcc
Confidence            455666666664 4455666666777777665

A homologue from Plasmodium chabaudi was localized to the parasitophorous vacuole membrane []. Members have an initial hydrophobic, Phe/Tyr-rich stretch long enough to span the membrane, a highly charged region rich in Lys, a second putative transmembrane region, and a second highly charged, low complexity sequence region. Some members have up to 100 residues of additional C-terminal sequence. These genes have been shown to be found in the sub-telomeric regions of both Plasmodium falciparum and P. yoelii chromosomes.

>PF04478 Mid2: Mid2 like cell wall stress sensor; InterPro: IPR007567 This family represents a region near the C terminus of Mid2, which contains a transmembrane region

Probab=82.31  E-value=0.28  Score=37.58  Aligned_cols=28  Identities=18%  Similarity=0.161  Sum_probs=13.9

Q ss_pred             eeehhHHHHH-H-HHHHHHHHHHHHHHHHH
Q 034055           53 KVGIVLLGLV-A-VGLFSFFLFKLWQKKKR   80 (105)
Q Consensus        53 ~v~ii~lg~v-a-~~~~~~~~yK~WqkkKR   80 (105)
                      .||=+++||+ + ++++++++|-+|.|+||
T Consensus        50 IVIGvVVGVGg~ill~il~lvf~~c~r~kk   79 (154)
T PF04478_consen   50 IVIGVVVGVGGPILLGILALVFIFCIRRKK   79 (154)
T ss_pred             EEEEEEecccHHHHHHHHHhheeEEEeccc
Confidence            3444555653 2 33334445555555555

The remainder of the protein sequence is serine-rich and of low complexity, and is therefore impossible to align accurately. Mid2 is thought to act as a mechanosensor of cell wall stress. The C-terminal cytoplasmic region of Mid2 is known to interact with Rom2, a guanine nucleotide exchange factor (GEF) for Rho1, which is part of the cell wall integrity signalling pathway [].

>PRK00888 ftsB cell division protein FtsB; Reviewed

Probab=81.86  E-value=4.8  Score=28.01  Aligned_cols=13  Identities=23%  Similarity=0.859  Sum_probs=6.1

Q ss_pred             HHHHHHHHHHHHH
Q 034055           63 AVGLFSFFLFKLW   75 (105)
Q Consensus        63 a~~~~~~~~yK~W   75 (105)
                      .+++.+++.|.+|
T Consensus         8 ll~ll~~l~y~l~   20 (105)
T PRK00888          8 LLALLVWLQYSLW   20 (105)
T ss_pred             HHHHHHHHHHHHh
Confidence            3334444555554

>PF14283 DUF4366: Domain of unknown function (DUF4366)

Probab=81.40  E-value=0.068  Score=41.82  Aligned_cols=28  Identities=32%  Similarity=0.317  Sum_probs=12.2

Q ss_pred             hhHHHHHHHHHHHHHHHHHHHHHHHHHH
Q 034055           56 IVLLGLVAVGLFSFFLFKLWQKKKREEQ   83 (105)
Q Consensus        56 ii~lg~va~~~~~~~~yK~WqkkKRe~q   83 (105)
                      |+++++|+++++..+.|..-+|||.++.
T Consensus       163 ll~lllv~l~gGGa~yYfK~~K~K~~~~  190 (218)
T PF14283_consen  163 LLLLLLVALIGGGAYYYFKFYKPKQEEK  190 (218)
T ss_pred             HHHHHHHHHhhcceEEEEEEeccccccc
Confidence            3333444445444444433344444433

>PF06724 DUF1206: Domain of Unknown Function (DUF1206); InterPro: IPR009597 This region consists of two a pair of transmembrane helices and occurs three times in each of the family member proteins

Probab=81.30  E-value=3.1  Score=26.35  Aligned_cols=25  Identities=16%  Similarity=0.034  Sum_probs=11.1

Q ss_pred             CceeehhHHHHHHHHHHHHHHHHHH
Q 034055           51 GAKVGIVLLGLVAVGLFSFFLFKLW   75 (105)
Q Consensus        51 g~~v~ii~lg~va~~~~~~~~yK~W   75 (105)
                      .-+++.+++|++.++.+.+-.+|-|
T Consensus        45 ~G~~ll~~vg~gli~~gi~~~~~a~   69 (73)
T PF06724_consen   45 FGRWLLGAVGLGLIGYGIWQFVKAV   69 (73)
T ss_pred             CcHHHHHHHHHHHHHHHHHHHHHHH
Confidence            3444444444444444444444443

>PF14316 DUF4381: Domain of unknown function (DUF4381)

Probab=80.92  E-value=4.2  Score=28.83  Aligned_cols=40  Identities=23%  Similarity=0.387  Sum_probs=28.0

Q ss_pred             ceeehhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhh
Q 034055           52 AKVGIVLLGLVAVGLFSFFLFKLWQKKKREEQYARLLKLF   91 (105)
Q Consensus        52 ~~v~ii~lg~va~~~~~~~~yK~WqkkKRe~q~AR~lKLF   91 (105)
                      ++..--+++++.++++++++|..|++.||..-+..-|+.+
T Consensus        19 ~a~GWwll~~lll~~~~~~~~~~~r~~~~~~yrr~Al~~L   58 (146)
T PF14316_consen   19 LAPGWWLLLALLLLLLILLLWRLWRRWRRNRYRREALREL   58 (146)
T ss_pred             ccHHHHHHHHHHHHHHHHHHHHHHHHHHccHHHHHHHHHH
Confidence            3444556777888999999999999999974443344444

>PF12575 DUF3753: Protein of unknown function (DUF3753); InterPro: IPR009175 This group represents an uncharacterised conserved protein belonging to poxvirus family I2

Probab=80.35  E-value=2.3  Score=29.20  Aligned_cols=25  Identities=12%  Similarity=0.251  Sum_probs=11.1

Q ss_pred             cCCCCceeehhHHHHHHHHHHHHHH
Q 034055           47 RGNTGAKVGIVLLGLVAVGLFSFFL   71 (105)
Q Consensus        47 ~~~tg~~v~ii~lg~va~~~~~~~~   71 (105)
                      +++++.+..+++++++++++.+++.
T Consensus        41 ~~~~~~~~~~~ii~ii~v~ii~~l~   65 (72)
T PF12575_consen   41 KNNKNFNWIILIISIIFVLIIVLLT   65 (72)
T ss_pred             CCCCcchHHHHHHHHHHHHHHHHHH
Confidence            3444444444444444444444433

>KOG3839 consensus Lectin VIP36, involved in the transport of glycoproteins carrying high mannose-type glycans [Intracellular trafficking, secretion, and vesicular transport]

Probab=80.19  E-value=0.36  Score=41.19  Aligned_cols=37  Identities=19%  Similarity=0.180  Sum_probs=25.1

Q ss_pred             CCceeehhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q 034055           50 TGAKVGIVLLGLVAVGLFSFFLFKLWQKKKREEQYARL   87 (105)
Q Consensus        50 tg~~v~ii~lg~va~~~~~~~~yK~WqkkKRe~q~AR~   87 (105)
                      .+..+.|+++++|.+++++++.|.+.|+ +||+++.||
T Consensus       314 g~~~~~ill~~vv~~v~~ai~s~~i~q~-r~er~Rkrf  350 (351)
T KOG3839|consen  314 GARLFLILLFVVVFLVGGAIFSIVIFQV-RQERNRKRF  350 (351)
T ss_pred             cchhHHHHHHHHHHHHHhhheEEEEEee-hhhhhhccc
Confidence            4466666677888888888888777664 345555565

>TIGR03064 sortase_srtB sortase, SrtB family

Probab=80.12  E-value=3.1  Score=32.58  Aligned_cols=27  Identities=4%  Similarity=0.023  Sum_probs=18.8

Q ss_pred             HHHHHHHHHHHHHHHHHHHHhhhccch
Q 034055           69 FFLFKLWQKKKREEQYARLLKLFEEDD   95 (105)
Q Consensus        69 ~~~yK~WqkkKRe~q~AR~lKLFEedD   95 (105)
                      .++..+|+-++.++++..+-++.++++
T Consensus        20 ~l~~~~~~~~~~~~~~~~~~~~~~~~~   46 (232)
T TIGR03064        20 KLGQIFYDYYTNRQVLAEAQQVYKKSM   46 (232)
T ss_pred             HHHHHHHHHhhhHHHHHHHHHhhhccc
Confidence            344556888888888888877776653

Members of this transpeptidase family are, in most cases, designated sortase B, product of the srtB gene. This protein shows only distant similarity to the sortase A family, for which there may be several members in a single bacterial genome. Typical SrtB substrate motifs include NAKTN, NPKSS, etc, and otherwise resemble the LPXTG sorting signals recognized by sortase A proteins.

---

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	105
2l2t_A	44	Receptor tyrosine-protein kinase ERBB-4; transmemb	94.04
2ks1_B	44	Epidermal growth factor receptor; ERBB1, ERBB2, tr	93.37
2knc_B	79	Integrin beta-3; transmembrane signaling, protein	91.72
3qf7_D	50	MRE11; ABC-ATPase, ATPase, hydrolase; HET: ANP; 1.	86.36
2lx0_A	32	Membrane fusion protein P14; membrane fusion prote	84.88
2jwa_A	44	Receptor tyrosine-protein kinase ERBB-2; transmemb	84.36
2k1k_A	38	Ephrin type-A receptor 1; EPHA1, receptor tyrosine	82.1
1v54_I	73	STA, cytochrome C oxidase polypeptide VIC; oxidore	81.41

>2l2t_A Receptor tyrosine-protein kinase ERBB-4; transmembrane dimer, membrane domain, membrane protei; NMR {Homo sapiens}

Probab=94.04  E-value=0.0042  Score=37.98  Aligned_cols=35  Identities=14%  Similarity=0.104  Sum_probs=20.8

Q ss_pred             CCCCceeehhHHHHHHHHHHHHHHHHHHHHHHHHH
Q 034055           48 GNTGAKVGIVLLGLVAVGLFSFFLFKLWQKKKREE   82 (105)
Q Consensus        48 ~~tg~~v~ii~lg~va~~~~~~~~yK~WqkkKRe~   82 (105)
                      ++++.-..-++-|++.+++.+...+=||+||++++
T Consensus         7 s~~~aIA~gVVgGv~~v~ii~~~~~~~~RRRr~~~   41 (44)
T 2l2t_A            7 ARTPLIAAGVIGGLFILVIVGLTFAVYVRRKSIKK   41 (44)
T ss_dssp             CSSHHHHHHHHHHHHHHHHHHHHHHHHHHTTCSSC
T ss_pred             CCcceEEEeehHHHHHHHHHHHHHHHHhhhhhhhh
Confidence            34444333333356666666677778888877654

>2ks1_B Epidermal growth factor receptor; ERBB1, ERBB2, transmembrane, heterodimer, complex, tyrosine receptor, bicelles, transferase; NMR {Homo sapiens}

Probab=93.37  E-value=0.035  Score=33.69  Aligned_cols=34  Identities=3%  Similarity=-0.081  Sum_probs=22.1

Q ss_pred             CCCCceeehhHHHHHHHHHHHHHHHHHHHHHHHH
Q 034055           48 GNTGAKVGIVLLGLVAVGLFSFFLFKLWQKKKRE   81 (105)
Q Consensus        48 ~~tg~~v~ii~lg~va~~~~~~~~yK~WqkkKRe   81 (105)
                      ++++.-..-|+-|++.+++.++..+=||+||+++
T Consensus         8 s~~~~IA~gVVgGv~~~~ii~~~~~~~~RRr~~~   41 (44)
T 2ks1_B            8 PKIPSIATGMVGALLLLLVVALGIGLFMRRRHIV   41 (44)
T ss_dssp             SCSSSSTHHHHHHHHHHHHHHHHHHHHHHTTTCC
T ss_pred             CCcceEEeehhHHHHHHHHHHHHHHHHhhhhHhh
Confidence            4555544445556777777777777888887654

>2knc_B Integrin beta-3; transmembrane signaling, protein structure, cell A cleavage on PAIR of basic residues, disease mutation, disul bond, glycoprotein; NMR {Homo sapiens}

Probab=91.72  E-value=0.26  Score=32.28  Aligned_cols=33  Identities=18%  Similarity=0.429  Sum_probs=17.1

Q ss_pred             hhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q 034055           56 IVLLGLVAVGLFSFFLFKLWQKKKREEQYARLL   88 (105)
Q Consensus        56 ii~lg~va~~~~~~~~yK~WqkkKRe~q~AR~l   88 (105)
                      .++.|++++.+.++.++|++..-+..++++||-
T Consensus        16 gvi~gilliGllllliwk~~~~i~DrrE~~kFE   48 (79)
T 2knc_B           16 SVMGAILLIGLAALLIWKLLITIHDRKEFAKFE   48 (79)
T ss_dssp             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence            333445555566666777554444444444443

>3qf7_D MRE11; ABC-ATPase, ATPase, hydrolase; HET: ANP; 1.90A {Thermotoga maritima}

Probab=86.36  E-value=0.14  Score=32.35  Aligned_cols=25  Identities=52%  Similarity=0.731  Sum_probs=19.8

Q ss_pred             HHHHHHHHHHHHHHHHHHHHhhhccc
Q 034055           69 FFLFKLWQKKKREEQYARLLKLFEED   94 (105)
Q Consensus        69 ~~~yK~WqkkKRe~q~AR~lKLFEed   94 (105)
                      |-+||-+- |+|++++..++|+|||=
T Consensus        10 felfkey~-k~r~~~he~l~k~~~el   34 (50)
T 3qf7_D           10 FELFKEYL-KKREENHEKLLKILDEL   34 (50)
T ss_dssp             HHHHHHHH-HHHCTTHHHHHHHHHHH
T ss_pred             HHHHHHHH-HHHHhhHHHHHHHHHHH
Confidence            44677665 57999999999999863

>2lx0_A Membrane fusion protein P14; membrane fusion protein transmembrane domain, P14 fast prote ARCH, micelle-peptide complex, membrane protein; NMR {Synthetic}

Probab=84.88  E-value=0.38  Score=27.98  Aligned_cols=19  Identities=47%  Similarity=0.737  Sum_probs=12.7

Q ss_pred             HHHHHHHHHHHHHHHHHHH
Q 034055           60 GLVAVGLFSFFLFKLWQKK   78 (105)
Q Consensus        60 g~va~~~~~~~~yK~Wqkk   78 (105)
                      +++.+..+.|.+|||-|||
T Consensus        14 alltflafgfwlfkylqkk   32 (32)
T 2lx0_A           14 ALLTFLAFGFWLFKYLQKK   32 (32)
T ss_dssp             HHHHHHHHHHHHHHHHTCC
T ss_pred             HHHHHHHHHHHHHHHHhcC
Confidence            4444556677788888875

>2jwa_A Receptor tyrosine-protein kinase ERBB-2; transmembrane helix dimer, protein kinase receptor membrane domain, ATP-binding, glycoprotein; NMR {Homo sapiens} PDB: 2ks1_A

Probab=84.36  E-value=0.27  Score=29.96  Aligned_cols=28  Identities=11%  Similarity=0.262  Sum_probs=16.1

Q ss_pred             eeehhHHHHHHHHHHHHHHHHHHHHHHH
Q 034055           53 KVGIVLLGLVAVGLFSFFLFKLWQKKKR   80 (105)
Q Consensus        53 ~v~ii~lg~va~~~~~~~~yK~WqkkKR   80 (105)
                      .+..+.+|++.+++.++..+=||+||+.
T Consensus        13 ~Ia~~vVGvll~vi~~l~~~~~~RRR~~   40 (44)
T 2jwa_A           13 SIISAVVGILLVVVLGVVFGILIKRRQQ   40 (44)
T ss_dssp             HHHHHHHHHHHHHHHHHHHHHHHHHHCS
T ss_pred             chHHHHHHHHHHHHHHHHHHhheehhhh
Confidence            3555666765555555555556666544

>2k1k_A Ephrin type-A receptor 1; EPHA1, receptor tyrosine kinase, dimeric transmembrane domain, ATP-binding, glycoprotein, nucleotide-binding; NMR {Homo sapiens} PDB: 2k1l_A

Probab=82.10  E-value=0.31  Score=28.39  Aligned_cols=28  Identities=21%  Similarity=0.332  Sum_probs=14.7

Q ss_pred             CceeehhHHHH-HHHHHHHHHHHHHHHHH
Q 034055           51 GAKVGIVLLGL-VAVGLFSFFLFKLWQKK   78 (105)
Q Consensus        51 g~~v~ii~lg~-va~~~~~~~~yK~Wqkk   78 (105)
                      |-.+.-|.+|. +.+++....+|-+|+||
T Consensus        10 ~GaIAGiVvG~v~gv~li~~l~~~~~rrr   38 (38)
T 2k1k_A           10 GGEIVAVIFGLLLGAALLLGILVFRSRRA   38 (38)
T ss_dssp             HHHHHHHHHHHHHHHHHHHHHHHHHHCCC
T ss_pred             CCceeeeehHHHHHHHHHHHHHHHHeecC
Confidence            33344444444 34555556667677654

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

Probab=81.41  E-value=2.9  Score=27.46  Aligned_cols=47  Identities=19%  Similarity=0.347  Sum_probs=32.8

Q ss_pred             eeehhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhhccchhhhh
Q 034055           53 KVGIVLLGLVAVGLFSFFLFKLWQKKKREEQYARLLKLFEEDDELEV   99 (105)
Q Consensus        53 ~v~ii~lg~va~~~~~~~~yK~WqkkKRe~q~AR~lKLFEedDdle~   99 (105)
                      .+-.-+++.+++.+++-++||+---..|.+.||.|.|=++-.+|.|.
T Consensus        16 ~lr~~i~~a~~lsl~~~~~~k~~v~~pRK~aYadFYknYD~~k~fer   62 (73)
T 1v54_I           16 RLRFHIVGAFMVSLGFATFYKFAVAEKRKKAYADFYRNYDSMKDFEE   62 (73)
T ss_dssp             HHHHHHHHHHHHHHHHHHHHHHHTHHHHHHHHHHHHHTCCHHHHHHH
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHhhhHHHHHHHHHHhcCcHHHHHH
Confidence            34444555556666666777776666667789999999988887764

---

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

No hit with probability above 80.00