Psyllid ID: psy4622

---

Local Sequence Feature Prediction

Residue Number Marker
--------10--------20--------30--------40--------50--------60--------70--------80----
Protein Sequence
MTTRFSGMVAFVVILVCTIILLLSGLICLIVYRHYLHRINANLNFDNPVYRKTTEDQFSLEKNPYTPARIYPTSISEEVRCLQT
Secondary Structure (PSIPRED)
cccccccEEEEHHHHHHHHHHHHHHHHHHHHHHcccccccccccccccccccccccEEEEccccccccccccccHHHHHHHHcc
Secondary Structure Prediction (SSPRO)
ccHcHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHccccccccccEEEEcccccEEEEcccccccccccccHHHHHHHHcc
Coil and Loop (DISEMBL)
MTTRFSGMVAFVVILVCTIILLLSGLICLIVYRHYLHRINanlnfdnpvyrkttedqfsleknpytpariyptsiSEEVRCLQT
Flexible Loop (DISEMBL)
mttrfsgmVAFVVILVCTIILLLSGLICLIVYRHYLHRINANLNFDNPVYRKTTEdqfsleknpytpariyptsiseevrclqt
Low Complexity Region (SEG)
MTTRFSGMVAFvvilvctiilllsglicliVYRHYLHRINANLNFDNPVYRKTTEDQFSLEKNPYTPARIYPTSISEEVRCLQT
Disordered region (IsUnstruct)
****FSGMVAFVVILVCTIILLLSGLICLIVYRHYLHRINANLNFDNPVYRKTTE**F***********I**************
Disordered Region (DISOPRED)
*****SGMVAFVVILVCTIILLLSGLICLIVYRHYLHRINANLNFDNPVYRKTTEDQFSLEKNPYTPARIYPTSISE*VRCL**
Disordered Region (DISEMBL)
MTTRFSGMVAFVVILVCTIILLLSGLICLIVYRHYLHRINANLNFDNPVYRKTTEDQFSLEKNPYTPARIYPTSISEEVRCLQT
Disordered Region (DISPRO)
MTTRFSGMVAFVVILVCTIILLLSGLICLIVYRHYLHRINANLNFDNPVYRKTTEDQFSLEKNPYTP*RI*P*S**********
Transmembrane Helix (TMHMM)
oooooooooHHHHHHHHHHHHHHHHHHHHHHHiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiii
Transmembrane Helix (HMMTOP)
iiiiiiHHHHHHHHHHHHHHHHHHHHHHHHHooooooooooooooooooooooooooooooooooooooooooooooooooooo
Transmembrane Helix (MEMSAT)
ooooooooHHHHHHHHHHHHHHHHHHHHHHHHHiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiii
TM Helix, Signal Peptide (MEMSAT_SVM)
SSSSSSSSSSSSiiHHHHHHHHHHHHHHHHHHHooooooooooooooooooooooooooooooooooooooooooooooooooo
TM Helix, Signal Peptide (Phobius)
oooooHHHHHHHHHHHHHHHHHHHHHHHHHHHiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiii
Signal Peptide (SignalP HMM Mode)
SSSSSSSSSSSSSSSSSSSSSSSSSSSSSooooooooooooooooooooooooooooooooooooooooooooooooooooooo
Signal Peptide (SignalP NN Mode)
xxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxx
Coiled Coils (COILS)
MTTRFSGMVAFVVILVCTIILLLSGLICLIVYRHYLHRINANLNFDNPVYRKTTEDQFSLEKNPYTPARIYPTSISEEVRCLQT
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	84
2764400	883	lipophorin receptor [Locusta migratoria]	0.869	0.082	0.671	3e-23
126540381	863	lipophorin receptor [Blattella germanica	0.892	0.086	0.653	3e-23
126540379	887	lipophorin receptor [Blattella germanica	0.892	0.084	0.653	3e-23
67845965	907	Lipophorin receptor [Rhyparobia maderae]	0.892	0.082	0.64	1e-22
242015486	835	Very low-density lipoprotein receptor pr	0.892	0.089	0.6	8e-21
328720450	907	PREDICTED: very low-density lipoprotein	0.869	0.080	0.547	2e-19
292606979	907	lipophorin receptor short isoform [Nilap	0.892	0.082	0.64	3e-18
292606977	921	lipophorin receptor long isoform [Nilapa	0.892	0.081	0.64	3e-18
389614702	168	lipophorin receptor 2 [Papilio polytes]	0.940	0.470	0.5	2e-17
170068019	103	conserved hypothetical protein [Culex qu	0.904	0.737	0.545	4e-17

>gi|2764400|emb|CAA03855.1| lipophorin receptor [Locusta migratoria]

 Score =  112 bits (280), Expect = 3e-23,   Method: Composition-based stats.
 Identities = 49/73 (67%), Positives = 60/73 (82%)

Query: 6   SGMVAFVVILVCTIILLLSGLICLIVYRHYLHRINANLNFDNPVYRKTTEDQFSLEKNPY 65
           SGMVA +VI V T+IL+L+ ++ L+VYRHYLHR   ++NFDNPVYRKTTEDQFSLEKN Y
Sbjct: 797 SGMVAGIVIGVVTVILILAAIVALVVYRHYLHRNVTSMNFDNPVYRKTTEDQFSLEKNQY 856

Query: 66  TPARIYPTSISEE 78
            P RIYP ++ EE
Sbjct: 857 QPQRIYPATVGEE 869

Source: Locusta migratoria

Species: Locusta migratoria

Genus: Locusta

Family: Acrididae

Order: Orthoptera

Class: Insecta

Phylum: Arthropoda

Superkingdom: Eukaryota

>gi|126540381|emb|CAL47126.1| lipophorin receptor [Blattella germanica]

 Score =  112 bits (280), Expect = 3e-23,   Method: Composition-based stats.
 Identities = 49/75 (65%), Positives = 60/75 (80%)

Query: 6   SGMVAFVVILVCTIILLLSGLICLIVYRHYLHRINANLNFDNPVYRKTTEDQFSLEKNPY 65
           SG+VA +VI V TI+L+L+ LI  +VYRHYLHR   ++NFDNPVYRKTTEDQFSLEKN Y
Sbjct: 777 SGLVAGIVIAVVTIVLILAALIAFVVYRHYLHRNVTSMNFDNPVYRKTTEDQFSLEKNQY 836

Query: 66  TPARIYPTSISEEVR 80
            P RIYP ++ EE +
Sbjct: 837 QPQRIYPATVGEEAQ 851

Source: Blattella germanica

Species: Blattella germanica

Genus: Blattella

Family: Ectobiidae

Order: Blattodea

Class: Insecta

Phylum: Arthropoda

Superkingdom: Eukaryota

>gi|126540379|emb|CAL47125.1| lipophorin receptor [Blattella germanica]

 Score =  112 bits (279), Expect = 3e-23,   Method: Composition-based stats.
 Identities = 49/75 (65%), Positives = 60/75 (80%)

Query: 6   SGMVAFVVILVCTIILLLSGLICLIVYRHYLHRINANLNFDNPVYRKTTEDQFSLEKNPY 65
           SG+VA +VI V TI+L+L+ LI  +VYRHYLHR   ++NFDNPVYRKTTEDQFSLEKN Y
Sbjct: 801 SGLVAGIVIAVVTIVLILAALIAFVVYRHYLHRNVTSMNFDNPVYRKTTEDQFSLEKNQY 860

Query: 66  TPARIYPTSISEEVR 80
            P RIYP ++ EE +
Sbjct: 861 QPQRIYPATVGEEAQ 875

Source: Blattella germanica

Species: Blattella germanica

Genus: Blattella

Family: Ectobiidae

Order: Blattodea

Class: Insecta

Phylum: Arthropoda

Superkingdom: Eukaryota

>gi|67845965|dbj|BAE00010.1| Lipophorin receptor [Rhyparobia maderae]

 Score =  110 bits (275), Expect = 1e-22,   Method: Composition-based stats.
 Identities = 48/75 (64%), Positives = 60/75 (80%)

Query: 6   SGMVAFVVILVCTIILLLSGLICLIVYRHYLHRINANLNFDNPVYRKTTEDQFSLEKNPY 65
           SG+VA +VI V TI+L+L GLI  +VYRHYLHR   ++NFDNPVYRKT EDQFSLEKN Y
Sbjct: 821 SGLVAGIVIAVVTIVLILLGLIAFVVYRHYLHRNVTSMNFDNPVYRKTPEDQFSLEKNQY 880

Query: 66  TPARIYPTSISEEVR 80
            P +IYP+++ EE +
Sbjct: 881 QPTKIYPSTVGEEAQ 895

Source: Rhyparobia maderae

Species: Rhyparobia maderae

Genus: Rhyparobia

Family: Blaberidae

Order: Blattodea

Class: Insecta

Phylum: Arthropoda

Superkingdom: Eukaryota

>gi|242015486|ref|XP_002428384.1| Very low-density lipoprotein receptor precursor, putative [Pediculus humanus corporis] gi|212512996|gb|EEB15646.1| Very low-density lipoprotein receptor precursor, putative [Pediculus humanus corporis]

 Score =  104 bits (259), Expect = 8e-21,   Method: Composition-based stats.
 Identities = 45/75 (60%), Positives = 59/75 (78%)

Query: 6   SGMVAFVVILVCTIILLLSGLICLIVYRHYLHRINANLNFDNPVYRKTTEDQFSLEKNPY 65
           +GMVA + I+V TI+L+ + LI  I YR YLHR   ++NFDNPVYRKTTE+QFS+EKNPY
Sbjct: 749 TGMVAGIAIVVVTIVLISTSLIAFIFYRQYLHRNVRSMNFDNPVYRKTTEEQFSIEKNPY 808

Query: 66  TPARIYPTSISEEVR 80
            P +IYP+ I+EE +
Sbjct: 809 PPQKIYPSVITEEAQ 823

Source: Pediculus humanus corporis

Species: Pediculus humanus

Genus: Pediculus

Family: Pediculidae

Order: Phthiraptera

Class: Insecta

Phylum: Arthropoda

Superkingdom: Eukaryota

>gi|328720450|ref|XP_001946703.2| PREDICTED: very low-density lipoprotein receptor-like [Acyrthosiphon pisum]

 Score =  100 bits (248), Expect = 2e-19,   Method: Composition-based stats.
 Identities = 40/73 (54%), Positives = 58/73 (79%)

Query: 6   SGMVAFVVILVCTIILLLSGLICLIVYRHYLHRINANLNFDNPVYRKTTEDQFSLEKNPY 65
           SG++A ++I   ++++ L+ L   ++YRHYLHR   ++NFDNP+YRKTTEDQF+LEK+ Y
Sbjct: 821 SGLIAAIIIFSGSLLITLAALGAFLLYRHYLHRNVTSMNFDNPIYRKTTEDQFTLEKSQY 880

Query: 66  TPARIYPTSISEE 78
            PAR+YPTS+ EE
Sbjct: 881 QPARVYPTSVGEE 893

Source: Acyrthosiphon pisum

Species: Acyrthosiphon pisum

Genus: Acyrthosiphon

Family: Aphididae

Order: Hemiptera

Class: Insecta

Phylum: Arthropoda

Superkingdom: Eukaryota

>gi|292606979|gb|ADE34168.1| lipophorin receptor short isoform [Nilaparvata lugens]

 Score = 95.9 bits (237), Expect = 3e-18,   Method: Composition-based stats.
 Identities = 48/75 (64%), Positives = 60/75 (80%)

Query: 6   SGMVAFVVILVCTIILLLSGLICLIVYRHYLHRINANLNFDNPVYRKTTEDQFSLEKNPY 65
           +GM+A  VI + T+IL+L+ LI  IVYRHYLHR   ++NFDNPVYRKTTEDQFSLEKN Y
Sbjct: 821 TGMIAVFVISIVTLILILAALIAFIVYRHYLHRNVTSMNFDNPVYRKTTEDQFSLEKNQY 880

Query: 66  TPARIYPTSISEEVR 80
            P RIYP+++ EE +
Sbjct: 881 QPPRIYPSTVGEEAQ 895

Source: Nilaparvata lugens

Species: Nilaparvata lugens

Genus: Nilaparvata

Family: Delphacidae

Order: Hemiptera

Class: Insecta

Phylum: Arthropoda

Superkingdom: Eukaryota

>gi|292606977|gb|ADE34167.1| lipophorin receptor long isoform [Nilaparvata lugens]

 Score = 95.9 bits (237), Expect = 3e-18,   Method: Composition-based stats.
 Identities = 48/75 (64%), Positives = 60/75 (80%)

Query: 6   SGMVAFVVILVCTIILLLSGLICLIVYRHYLHRINANLNFDNPVYRKTTEDQFSLEKNPY 65
           +GM+A  VI + T+IL+L+ LI  IVYRHYLHR   ++NFDNPVYRKTTEDQFSLEKN Y
Sbjct: 835 TGMIAVFVISIVTLILILAALIAFIVYRHYLHRNVTSMNFDNPVYRKTTEDQFSLEKNQY 894

Query: 66  TPARIYPTSISEEVR 80
            P RIYP+++ EE +
Sbjct: 895 QPPRIYPSTVGEEAQ 909

Source: Nilaparvata lugens

Species: Nilaparvata lugens

Genus: Nilaparvata

Family: Delphacidae

Order: Hemiptera

Class: Insecta

Phylum: Arthropoda

Superkingdom: Eukaryota

>gi|389614702|dbj|BAM20378.1| lipophorin receptor 2 [Papilio polytes]

 Score = 92.8 bits (229), Expect = 2e-17,   Method: Compositional matrix adjust.
 Identities = 40/80 (50%), Positives = 63/80 (78%), Gaps = 1/80 (1%)

Query: 2   TTRFSGMVAFVVILVCTIILLLSGLICLIVYRHYLHRINANLNFDNPVYRKTTEDQFSLE 61
           + R +G+VA +VI V T +++L+ LI +++YRHY+HR   ++NFDNPVYRKTTE+QF+LE
Sbjct: 77  SGRDAGVVAGIVIAVITGVVVLAALIIVVMYRHYMHRNVTSMNFDNPVYRKTTENQFALE 136

Query: 62  KNPYTPA-RIYPTSISEEVR 80
           +N Y P  ++YP+++ EE +
Sbjct: 137 QNGYAPGSKLYPSTVGEEAQ 156

Source: Papilio polytes

Species: Papilio polytes

Genus: Papilio

Family: Papilionidae

Order: Lepidoptera

Class: Insecta

Phylum: Arthropoda

Superkingdom: Eukaryota

>gi|170068019|ref|XP_001868706.1| conserved hypothetical protein [Culex quinquefasciatus] gi|167864133|gb|EDS27516.1| conserved hypothetical protein [Culex quinquefasciatus]

 Score = 92.0 bits (227), Expect = 4e-17,   Method: Compositional matrix adjust.
 Identities = 42/77 (54%), Positives = 59/77 (76%), Gaps = 1/77 (1%)

Query: 6  SGMVAFVVILVCTIILLLSGLICLIVYRHYLHRINANLNFDNPVYRKTTEDQFSLEKNPY 65
          SG+VA + I V +I++L    +  +VYRH++HR + ++NFDNPVYRKTTEDQFSLEKN  
Sbjct: 19 SGLVAGIAIAVISIVVLAFLTVAYMVYRHHVHRNSTSMNFDNPVYRKTTEDQFSLEKN-L 77

Query: 66 TPARIYPTSISEEVRCL 82
            +R+YP+++ EEVR L
Sbjct: 78 PSSRMYPSTVGEEVRAL 94

Source: Culex quinquefasciatus

Species: Culex quinquefasciatus

Genus: Culex

Family: Culicidae

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	84
FB|FBgn0051092	1064	LpR2 "Lipophorin receptor 2" [	0.535	0.042	0.562	4.9e-06
FB|FBgn0066101	1076	LpR1 "Lipophorin receptor 1" [	0.523	0.040	0.568	1.3e-05

FB|FBgn0051092 LpR2 "Lipophorin receptor 2" [Drosophila melanogaster (taxid:7227)]

 Score = 119 (46.9 bits), Expect = 4.9e-06, P = 4.9e-06
 Identities = 27/48 (56%), Positives = 32/48 (66%)

Query:    31 VYRHYLHRINANLNFDNPVYRKTTEDQFSLEKNPYTPARIYPTSISEE 78
             VYR     +N+ +NF+NPVY KTTED FSLEKN  TP  IY  +  EE
Sbjct:  1007 VYRRCTRAVNS-MNFENPVYHKTTEDHFSLEKNG-TP-HIYAAANDEE 1051

GO:0005041 "low-density lipoprotein receptor activity" evidence=ISS

GO:0005509 "calcium ion binding" evidence=IEA

GO:0048812 "neuron projection morphogenesis" evidence=IMP

GO:0005886 "plasma membrane" evidence=IDA

FB|FBgn0066101 LpR1 "Lipophorin receptor 1" [Drosophila melanogaster (taxid:7227)]

 Score = 115 (45.5 bits), Expect = 1.3e-05, P = 1.3e-05
 Identities = 29/51 (56%), Positives = 36/51 (70%)

Query:    32 YRHYL-HRINANLNFDNPVYRKTT--EDQFSLEKNPYTPARIYP-TSISEE 78
             YR+    RIN+ +NF+NP+YRKTT  ED FSL KN   PARIY  TS+ +E
Sbjct:  1018 YRYCSKRRINS-MNFENPIYRKTTTTEDHFSLRKN--LPARIYDHTSVMDE 1065


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        0.322   0.134   0.402    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       84        65   0.00091  102 3  11 22  0.38    28
                                                     29  0.46    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:  2
  No. of states in DFA:  483 (51 KB)
  Total size of DFA:  87 KB (2066 KB)
  Time to generate neighborhood:  0.00u 0.00s 0.00t   Elapsed:  00:00:01
  No. of threads or processors used:  24
  Search cpu time:  7.92u 0.08s 8.00t   Elapsed:  00:00:04
  Total cpu time:  7.92u 0.08s 8.00t   Elapsed:  00:00:05
  Start:  Thu Aug 15 12:21:17 2013   End:  Thu Aug 15 12:21:22 2013

GO:0042953 "lipoprotein transport" evidence=ISS

GO:0008203 "cholesterol metabolic process" evidence=ISS

GO:0005041 "low-density lipoprotein receptor activity" evidence=ISS

GO:0016020 "membrane" evidence=ISS

GO:0005509 "calcium ion binding" evidence=IEA

GO:0004872 "receptor activity" evidence=IMP

GO:0006898 "receptor-mediated endocytosis" evidence=IEP;IMP

---

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 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

No hit with e-value below 0.005

Conserved Domains Detected by HHsearch

Original result of HHsearch against CDD database

ID	Length	Definition	Probability
Query	84
PF08693	40	SKG6: Transmembrane alpha-helix domain; InterPro:	94.29
PF01034	64	Syndecan: Syndecan domain; InterPro: IPR001050 The	91.67
PF11770	158	GAPT: GRB2-binding adapter (GAPT); InterPro: IPR02	91.48
PF12191	129	stn_TNFRSF12A: Tumour necrosis factor receptor stn	91.42
PF07095	705	IgaA: Intracellular growth attenuator protein IgaA	90.84
PF14610	189	DUF4448: Protein of unknown function (DUF4448)	90.39
PF14828	437	Amnionless: Amnionless	90.03
PF02064	121	MAS20: MAS20 protein import receptor; InterPro: IP	87.91
PF05337	285	CSF-1: Macrophage colony stimulating factor-1 (CSF	87.79
KOG1215|consensus	877		87.49
PF15102	146	TMEM154: TMEM154 protein family	85.68
PF01299	306	Lamp: Lysosome-associated membrane glycoprotein (L	84.37
TIGR00985	148	3a0801s04tom mitochondrial import receptor subunit	82.55
PF01102	122	Glycophorin_A: Glycophorin A; InterPro: IPR001195	82.13
PF08114	43	PMP1_2: ATPase proteolipid family; InterPro: IPR01	82.1
PF15102	146	TMEM154: TMEM154 protein family	80.95

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

Probab=94.29  E-value=0.026  Score=32.84  Aligned_cols=29  Identities=21%  Similarity=0.415  Sum_probs=16.8

Q ss_pred             CCceeehhHHHHHHHHHHHhheeeeEEEe
Q psy4622           6 SGMVAFVVILVCTIILLLSGLICLIVYRH   34 (84)
Q Consensus         6 sg~~al~vil~l~~~l~l~~~~~~l~wR~   34 (84)
                      +-.++..+++|+.++++++.++.|++||+
T Consensus        10 ~vaIa~~VvVPV~vI~~vl~~~l~~~~rR   38 (40)
T PF08693_consen   10 TVAIAVGVVVPVGVIIIVLGAFLFFWYRR   38 (40)
T ss_pred             eEEEEEEEEechHHHHHHHHHHhheEEec
Confidence            44566777889844444444555555554

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 [].

>PF01034 Syndecan: Syndecan domain; InterPro: IPR001050 The syndecans are transmembrane proteoglycans which are involved in the organisation of cytoskeleton and/or actin microfilaments, and have important roles as cell surface receptors during cell-cell and/or cell-matrix interactions [, ]

Probab=91.67  E-value=0.058  Score=34.25  Aligned_cols=50  Identities=22%  Similarity=0.374  Sum_probs=3.9

Q ss_pred             CceeehhHHHHHHHHHHHhheeeeEEEeeeccccceeeccCC-----ccccccccc
Q psy4622           7 GMVAFVVILVCTIILLLSGLICLIVYRHYLHRINANLNFDNP-----VYRKTTEDQ   57 (84)
Q Consensus         7 g~~al~vil~l~~~l~l~~~~~~l~wR~~~~rn~~SmNFDNP-----VYrKTTEd~   57 (84)
                      +..+..|...++.+++.++++.+++||-. .|+--|-+.|-|     -|+|++-.|
T Consensus         9 ~vlaavIaG~Vvgll~ailLIlf~iyR~r-kkdEGSY~l~e~K~s~~~Y~k~~~~e   63 (64)
T PF01034_consen    9 EVLAAVIAGGVVGLLFAILLILFLIYRMR-KKDEGSYDLDEPKPSNYAYQKAPTKE   63 (64)
T ss_dssp             ----------------------------S-------SS--S-----------SSS-
T ss_pred             hHHHHHHHHHHHHHHHHHHHHHHHHHHHH-hcCCCCccCCCCCccccccccCCcCC
Confidence            34444443333245556667778888765 477667677654     687765443

Structurally, these proteins consist of four separate domains: A signal sequence; An extracellular domain (ectodomain) of variable length whose sequence is not evolutionary conserved in the various forms of syndecans. The ectodomain contains the sites of attachment of the heparan sulphate glycosaminoglycan side chains; A transmembrane region; A highly conserved cytoplasmic domain of about 30 to 35 residues, which could interact with cytoskeletal proteins. The proteins known to belong to this family are: Syndecan 1. Syndecan 2 or fibroglycan. Syndecan 3 or neuroglycan or N-syndecan. Syndecan 4 or amphiglycan or ryudocan. Drosophila syndecan. Caenorhabditis elegans probable syndecan (F57C7.3). Syndecan-4, a transmembrane heparan sulphate proteoglycan, is a coreceptor with integrins in cell adhesion. It has been suggested to form a ternary signalling complex with protein kinase Calpha and phosphatidylinositol 4,5-bisphosphate (PIP2). Structural studies have demonstrated that the cytoplasmic domain undergoes a conformational transition and forms a symmetric dimer in the presence of phospholipid activator PIP2, and whose overall structure in solution exhibits a twisted clamp shape having a cavity in the centre of dimeric interface. In addition, it has been observed that the syndecan-4 variable domain interacts, strongly, not only with fatty acyl groups but also the anionic head group of PIP2. These findings indicate that PIP2 promotes oligomerisation of the syndecan-4 cytoplasmic domain for transmembrane signalling and cell-matrix adhesion [, ].; GO: 0008092 cytoskeletal protein binding, 0016020 membrane; PDB: 1EJQ_B 1EJP_B 1YBO_C 1OBY_Q.

>PF11770 GAPT: GRB2-binding adapter (GAPT); InterPro: IPR021082 This entry represents a family of transmembrane proteins which bind the growth factor receptor-bound protein 2 (GRB2) in B cells []

Probab=91.48  E-value=0.17  Score=37.10  Aligned_cols=36  Identities=25%  Similarity=0.307  Sum_probs=19.5

Q ss_pred             eehhHHHHHHHHHHHhheeeeEEEeeeccccceeeccCCcc
Q psy4622          10 AFVVILVCTIILLLSGLICLIVYRHYLHRINANLNFDNPVY   50 (84)
Q Consensus        10 al~vil~l~~~l~l~~~~~~l~wR~~~~rn~~SmNFDNPVY   50 (84)
                      ++.|.+.+ +++.++|.+|.+|+  |++|+  +|+|.=|-+
T Consensus        11 ~i~igi~L-l~lLl~cgiGcvwh--wkhr~--~~~ftLPkf   46 (158)
T PF11770_consen   11 AISIGISL-LLLLLLCGIGCVWH--WKHRD--STRFTLPKF   46 (158)
T ss_pred             HHHHHHHH-HHHHHHHhcceEEE--eeccC--ccccchHHH
Confidence            33344444 55666677766665  44433  457766643

In contrast to other transmembrane adaptor proteins, GAPT, which this entry represents, is not phosphorylated upon BCR ligation. It associates with GRB2 constitutively through its proline-rich region [].

>PF12191 stn_TNFRSF12A: Tumour necrosis factor receptor stn_TNFRSF12A_TNFR domain; InterPro: IPR022316 The tumour necrosis factor (TNF) receptor (TNFR) superfamily comprises more than 20 type-I transmembrane proteins

Probab=91.42  E-value=0.067  Score=38.00  Aligned_cols=25  Identities=32%  Similarity=0.576  Sum_probs=0.0

Q ss_pred             HHHHhheeeeEEEeeeccccceeeccCCc
Q psy4622          21 LLLSGLICLIVYRHYLHRINANLNFDNPV   49 (84)
Q Consensus        21 l~l~~~~~~l~wR~~~~rn~~SmNFDNPV   49 (84)
                      +.+..+.++++||++|||.    .|..|+
T Consensus        90 lVl~llsg~lv~rrcrrr~----~~ttPI  114 (129)
T PF12191_consen   90 LVLALLSGFLVWRRCRRRE----KFTTPI  114 (129)
T ss_dssp             -----------------------------
T ss_pred             HHHHHHHHHHHHhhhhccc----cCCCcc
Confidence            3344556899999998664    455565

Family members are defined based on similarity in their extracellular domain - a region that contains many cysteine residues arranged in a specific repetitive pattern []. The cysteines allow formation of an extended rod-like structure, responsible for ligand binding []. Upon receptor activation, different intracellular signalling complexes are assembled for different members of the TNFR superfamily, depending on their intracellular domains and sequences []. Activation of TNFRs can therefore induce a range of disparate effects, including cell proliferation, differentiation, survival, or apoptotic cell death, depending upon the receptor involved []. TNFRs are widely distributed and play important roles in many crucial biological processes, such as lymphoid and neuronal development, innate and adaptive immunity, and maintenance of cellular homeostasis []. Drugs that manipulate their signalling have potential roles in the prevention and treatment of many diseases, such as viral infections, coronary heart disease, transplant rejection, and immune disease []. TNF receptor 12 (also known as TWEAK receptor, and fibroblast growth factor-inducible-14 (Fn14)) has been implicated in endothelial cell growth and migration []. The receptor may also play a role in cell-matrix interactions [].; PDB: 2KN0_A 2RPJ_A 2KMZ_A 2EQP_A.

>PF07095 IgaA: Intracellular growth attenuator protein IgaA; InterPro: IPR010771 This family consists of several bacterial intracellular growth attenuator (IgaA) proteins

Probab=90.84  E-value=0.053  Score=47.13  Aligned_cols=46  Identities=22%  Similarity=0.189  Sum_probs=30.9

Q ss_pred             hhHHHHHHHHHHHhheeeeEEEeeecccc-ceeeccCCccccccccce
Q psy4622          12 VVILVCTIILLLSGLICLIVYRHYLHRIN-ANLNFDNPVYRKTTEDQF   58 (84)
Q Consensus        12 ~vil~l~~~l~l~~~~~~l~wR~~~~rn~-~SmNFDNPVYrKTTEd~~   58 (84)
                      .+++.+ ++++++++|.|+++|..++... +..-|..|-|||-|+||-
T Consensus         5 ~iilai-l~~~li~~~~~~~~r~~r~~~~~~~~~~~~~~~RKLt~eEr   51 (705)
T PF07095_consen    5 VIILAI-LLACLIIAGSFLWFRMRRRPPLRKLPPFAKPTHRKLTAEER   51 (705)
T ss_pred             HHHHHH-HHHHHHHHHHHHHHHhccCCCccccCCCCCCCCCCCCHHHH
Confidence            344555 6677777777666655544344 455999999999996543

IgaA is involved in negative control of bacterial proliferation within fibroblasts. IgaA is homologous to the Escherichia coli YrfF and Proteus mirabilis UmoB proteins. Whereas the biological function of YrfF is currently unknown, UmoB has been shown elsewhere to act as a positive regulator of FlhDC, the master regulator of flagella and swarming. FlhDC has been shown to repress cell division during P. mirabilis swarming, suggesting that UmoB could repress cell division via FlhDC. This biological function, if maintained in Salmonella enterica, could sustain a putative negative control of cell division and growth exerted by IgaA in intracellular bacteria [].; GO: 0009276 Gram-negative-bacterium-type cell wall, 0016021 integral to membrane

>PF14610 DUF4448: Protein of unknown function (DUF4448)

Probab=90.39  E-value=0.12  Score=36.93  Aligned_cols=26  Identities=15%  Similarity=0.317  Sum_probs=15.4

Q ss_pred             CceeehhHHHHHHHHHHHhheeeeEE
Q psy4622           7 GMVAFVVILVCTIILLLSGLICLIVY   32 (84)
Q Consensus         7 g~~al~vil~l~~~l~l~~~~~~l~w   32 (84)
                      +..++.|.||++++++++++.++++|
T Consensus       156 ~~~~laI~lPvvv~~~~~~~~~~~~~  181 (189)
T PF14610_consen  156 GKYALAIALPVVVVVLALIMYGFFFW  181 (189)
T ss_pred             cceeEEEEccHHHHHHHHHHHhhhee
Confidence            45688888999444444444444444

>PF14828 Amnionless: Amnionless

Probab=90.03  E-value=0.48  Score=38.77  Aligned_cols=46  Identities=20%  Similarity=0.223  Sum_probs=29.8

Q ss_pred             eeehhHHHHHHHHHHHhheeeeEE----------Eeeecccc-------ceeeccCCccccccc
Q psy4622           9 VAFVVILVCTIILLLSGLICLIVY----------RHYLHRIN-------ANLNFDNPVYRKTTE   55 (84)
Q Consensus         9 ~al~vil~l~~~l~l~~~~~~l~w----------R~~~~rn~-------~SmNFDNPVYrKTTE   55 (84)
                      ++..+++.+ +++++++...|+.+          .+|+++..       -.-+|+||++-...|
T Consensus       340 v~~~vl~~L-llv~ll~~~~ll~~~~~~~~l~~~~~w~r~~~~~~~~~~~~~~f~nprFD~~~~  402 (437)
T PF14828_consen  340 VVGIVLGCL-LLVALLFGVILLYRLPRNPSLPRIPRWRRDERRVRWEHRFPQGFDNPRFDNPGE  402 (437)
T ss_pred             eeeehHHHH-HHHHHHHHhheEEeccccccccccceeeecccccccccccCCCCCCCccCCCcc
Confidence            455555555 55666665555444          36765553       567999999998883

>PF02064 MAS20: MAS20 protein import receptor; InterPro: IPR002056 Virtually all mitochondrial precursors are imported via the same mechanism []: precursors first bind to receptors on the mitochondrial surface, then insert into the translocation channel in the outer membrane

Probab=87.91  E-value=0.16  Score=35.29  Aligned_cols=30  Identities=20%  Similarity=0.377  Sum_probs=0.0

Q ss_pred             HHHHHHhheeeeEEEeeeccccceeeccCCccccccc
Q psy4622          19 IILLLSGLICLIVYRHYLHRINANLNFDNPVYRKTTE   55 (84)
Q Consensus        19 ~~l~l~~~~~~l~wR~~~~rn~~SmNFDNPVYrKTTE   55 (84)
                      +.++.+++.||++|-.++|||       +|-|||--.
T Consensus         3 ag~a~~~~lgYciYFD~KRR~-------dP~frkkL~   32 (121)
T PF02064_consen    3 AGVAAAAFLGYCIYFDYKRRS-------DPDFRKKLR   32 (121)
T ss_dssp             -------------------------------------
T ss_pred             HHHHHHHHHHHHhhccccccc-------ChHHHHHHH
Confidence            456777889999999998776       599998763

Many outer-membrane proteins participate in the early stages of import, four of which (MAS20, MAS22, MAS37 and MAS70) are components of the receptor. MAS20, which forms a subcomplex with MAS22, seems to interact with most or all mitochondrial precursors, suggesting that the protein binds directly to mitochondrial targeting sequences. The MAS37 and MAS70 components also form a subcomplex, the two subcomplexes possibly binding via their trans- membrane (TM) regions - the TM region of MAS70 promotes oligomerisation of attatched protein domains and shares sequence similarity with the TM region of MAS20 []. MAS20 is also known as TOM20.; GO: 0006605 protein targeting, 0006886 intracellular protein transport, 0005742 mitochondrial outer membrane translocase complex; PDB: 3AX3_A 3AWR_B 2V1S_A 3AX5_C 3AX2_C 1OM2_A 2V1T_B.

>PF05337 CSF-1: Macrophage colony stimulating factor-1 (CSF-1); InterPro: IPR008001 Colony stimulating factor 1 (CSF-1) is a homodimeric polypeptide growth factor whose primary function is to regulate the survival, proliferation, differentiation, and function of cells of the mononuclear phagocytic lineage

Probab=87.79  E-value=0.16  Score=40.12  Aligned_cols=42  Identities=24%  Similarity=0.386  Sum_probs=0.0

Q ss_pred             eeehhHHHHHHHHHHHhheeeeEEEeeeccccceeeccCCccc
Q psy4622           9 VAFVVILVCTIILLLSGLICLIVYRHYLHRINANLNFDNPVYR   51 (84)
Q Consensus         9 ~al~vil~l~~~l~l~~~~~~l~wR~~~~rn~~SmNFDNPVYr   51 (84)
                      .++.++.|- +++.|+++||.++||+.++.--.+=.-|+|+-+
T Consensus       226 ~vf~lLVPS-iILVLLaVGGLLfYr~rrRs~~e~q~~d~~~~~  267 (285)
T PF05337_consen  226 FVFYLLVPS-IILVLLAVGGLLFYRRRRRSHREPQTVDSPMEQ  267 (285)
T ss_dssp             -------------------------------------------
T ss_pred             ccccccccc-hhhhhhhccceeeecccccccccccccCCcccC
Confidence            345556666 788899999999998776544455566666644

This lineage includes mononuclear phagocytic precursors, blood monocytes, tissue macrophages, osteoclasts, and microglia of the brain, all of which possess cell surface receptors for CSF-1. The protein has also been linked with male fertility [] and mutations in the Csf-1 gene have been found to cause osteopetrosis and failure of tooth eruption [].; GO: 0005125 cytokine activity, 0008083 growth factor activity, 0016021 integral to membrane; PDB: 3EJJ_A.

>KOG1215|consensus

Probab=87.49  E-value=0.3  Score=41.78  Aligned_cols=52  Identities=29%  Similarity=0.235  Sum_probs=37.6

Q ss_pred             HHHHhheeeeEEEeeeccccceeeccCCccccccc--cceee--ccCCCCCccccCC
Q psy4622          21 LLLSGLICLIVYRHYLHRINANLNFDNPVYRKTTE--DQFSL--EKNPYTPARIYPT   73 (84)
Q Consensus        21 l~l~~~~~~l~wR~~~~rn~~SmNFDNPVYrKTTE--d~~~i--~r~~~~~~~~YP~   73 (84)
                      ........+..+|+|++++.++++|+||+|+|+++  +...+  ..+. ..++.||.
T Consensus       798 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~-~~~~~~~~  853 (877)
T KOG1215|consen  798 TSFIEVSGLDGERKCRRRPEGVVDFDNPVPPRTTGVEPEKSLLFWTNW-EPGPKIPR  853 (877)
T ss_pred             ccEEEEEEEeeecccccccccccccCCCCCCcceeeccccceeccCCc-cccceeee
Confidence            44456678889999999999999999999999994  33332  2332 24566664

>PF15102 TMEM154: TMEM154 protein family

Probab=85.68  E-value=0.55  Score=33.92  Aligned_cols=29  Identities=21%  Similarity=0.435  Sum_probs=14.6

Q ss_pred             eehhHHHHHHH--HHHHhheeeeEEEeeecc
Q psy4622          10 AFVVILVCTII--LLLSGLICLIVYRHYLHR   38 (84)
Q Consensus        10 al~vil~l~~~--l~l~~~~~~l~wR~~~~r   38 (84)
                      .+.|++|++++  +.|.++..++++|+||.|
T Consensus        58 iLmIlIP~VLLvlLLl~vV~lv~~~kRkr~K   88 (146)
T PF15102_consen   58 ILMILIPLVLLVLLLLSVVCLVIYYKRKRTK   88 (146)
T ss_pred             EEEEeHHHHHHHHHHHHHHHheeEEeecccC
Confidence            56666674232  233334445555666644

>PF01299 Lamp: Lysosome-associated membrane glycoprotein (Lamp); InterPro: IPR002000 Lysosome-associated membrane glycoproteins (lamp) [] are integral membrane proteins, specific to lysosomes, and whose exact biological function is not yet clear

Probab=84.37  E-value=0.85  Score=34.83  Aligned_cols=20  Identities=25%  Similarity=0.188  Sum_probs=15.5

Q ss_pred             HHHHHHhheeeeEEEeeecc
Q psy4622          19 IILLLSGLICLIVYRHYLHR   38 (84)
Q Consensus        19 ~~l~l~~~~~~l~wR~~~~r   38 (84)
                      ++|.++++++|+++|+..++
T Consensus       282 a~lvlivLiaYli~Rrr~~~  301 (306)
T PF01299_consen  282 AGLVLIVLIAYLIGRRRSRA  301 (306)
T ss_pred             HHHHHHHHHhheeEeccccc
Confidence            55777788899999987654

Structurally, the lamp proteins consist of two internally homologous lysosome-luminal domains separated by a proline-rich hinge region; at the C-terminal extremity there is a transmembrane region (TM) followed by a very short cytoplasmic tail (C). In each of the duplicated domains, there are two conserved disulphide bonds. This structure is schematically represented in the figure below. +-----+ +-----+ +-----+ +-----+ | | | | | | | | xCxxxxxCxxxxxxxxxxxxCxxxxxCxxxxxxxxxCxxxxxCxxxxxxxxxxxxCxxxxxCxxxxxxxx +--------------------------++Hinge++--------------------------++TM++C+ In mammals, there are two closely related types of lamp: lamp-1 and lamp-2, which form major components of the lysosome membrane. In chicken lamp-1 is known as LEP100. Also included in this entry is the macrophage protein CD68 (or macrosialin) [] is a heavily glycosylated integral membrane protein whose structure consists of a mucin-like domain followed by a proline-rich hinge; a single lamp-like domain; a transmembrane region and a short cytoplasmic tail. Similar to CD68, mammalian lamp-3, which is expressed in lymphoid organs, dendritic cells and in lung, contains all the C-terminal regions but lacks the N-terminal lamp-like region []. In a lamp-family protein from nematodes [] only the part C-terminal to the hinge is conserved. ; GO: 0016020 membrane

>TIGR00985 3a0801s04tom mitochondrial import receptor subunit translocase of outer membrane 20 kDa subunit

Probab=82.55  E-value=0.32  Score=34.93  Aligned_cols=29  Identities=21%  Similarity=0.388  Sum_probs=24.0

Q ss_pred             HHHHHHhheeeeEEEeeeccccceeeccCCcccccc
Q psy4622          19 IILLLSGLICLIVYRHYLHRINANLNFDNPVYRKTT   54 (84)
Q Consensus        19 ~~l~l~~~~~~l~wR~~~~rn~~SmNFDNPVYrKTT   54 (84)
                      +.++.+++.||++|-.++|||       +|-|||.-
T Consensus        13 ag~a~~~flgYciYFD~KRR~-------dPdFRkkL   41 (148)
T TIGR00985        13 AGIAAAAFLGYAIYFDYKRRN-------DPDFRKKL   41 (148)
T ss_pred             HHHHHHHHHHHHHhhhhhhcc-------CHHHHHHH
Confidence            566778889999999998776       59999877

>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=82.13  E-value=0.18  Score=35.17  Aligned_cols=30  Identities=13%  Similarity=0.019  Sum_probs=18.5

Q ss_pred             CceeehhHHHHHHHHHHHhheeeeEEEeee
Q psy4622           7 GMVAFVVILVCTIILLLSGLICLIVYRHYL   36 (84)
Q Consensus         7 g~~al~vil~l~~~l~l~~~~~~l~wR~~~   36 (84)
                      +.++++++..++.++++.+++.|+++|+.+
T Consensus        64 ~~i~~Ii~gv~aGvIg~Illi~y~irR~~K   93 (122)
T PF01102_consen   64 PAIIGIIFGVMAGVIGIILLISYCIRRLRK   93 (122)
T ss_dssp             TCHHHHHHHHHHHHHHHHHHHHHHHHHHS-
T ss_pred             cceeehhHHHHHHHHHHHHHHHHHHHHHhc
Confidence            455666666664556666677777766554

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.

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

Probab=82.10  E-value=0.18  Score=29.82  Aligned_cols=34  Identities=24%  Similarity=0.538  Sum_probs=19.4

Q ss_pred             CCcCCCCceeehhHHHHHHHHHHHhheeeeEEEeeecc
Q psy4622           1 MTTRFSGMVAFVVILVCTIILLLSGLICLIVYRHYLHR   38 (84)
Q Consensus         1 ~~~~~sg~~al~vil~l~~~l~l~~~~~~l~wR~~~~r   38 (84)
                      |.+-+.|++...++.-+ +.+   ++.+.++||+|.-|
T Consensus         3 ~s~lp~GVIlVF~lVgl-v~i---~iva~~iYRKw~aR   36 (43)
T PF08114_consen    3 MSTLPGGVILVFCLVGL-VGI---GIVALFIYRKWQAR   36 (43)
T ss_pred             cccCCCCeeeehHHHHH-HHH---HHHHHHHHHHHHHH
Confidence            34556666655555444 333   44455678999754

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 [].

>PF15102 TMEM154: TMEM154 protein family

Probab=80.95  E-value=2.2  Score=30.86  Aligned_cols=11  Identities=27%  Similarity=0.446  Sum_probs=6.1

Q ss_pred             CCcchhhhhcc
Q psy4622          72 PTSISEEVRCL   82 (84)
Q Consensus        72 P~~~~ee~~~~   82 (84)
                      |+.++=|..+|
T Consensus       120 psvmeiEmeel  130 (146)
T PF15102_consen  120 PSVMEIEMEEL  130 (146)
T ss_pred             cchhhhhHHHH
Confidence            56665555544

---

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	84
2k1k_A	38	Ephrin type-A receptor 1; EPHA1, receptor tyrosine	90.49
2knc_B	79	Integrin beta-3; transmembrane signaling, protein	86.75
2ks1_B	44	Epidermal growth factor receptor; ERBB1, ERBB2, tr	86.01
2l2t_A	44	Receptor tyrosine-protein kinase ERBB-4; transmemb	85.86
1cd1_A	315	CD1, MCD1D.1; immunology, MHC, TCR, glycoprotein,	82.76

>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=90.49  E-value=0.017  Score=32.08  Aligned_cols=28  Identities=18%  Similarity=0.062  Sum_probs=19.9

Q ss_pred             CCceeehhHHHHHHHHHHHhheeeeEEEe
Q psy4622           6 SGMVAFVVILVCTIILLLSGLICLIVYRH   34 (84)
Q Consensus         6 sg~~al~vil~l~~~l~l~~~~~~l~wR~   34 (84)
                      .|.+|.+++..+ +.+++++...+++||+
T Consensus        10 ~GaIAGiVvG~v-~gv~li~~l~~~~~rr   37 (38)
T 2k1k_A           10 GGEIVAVIFGLL-LGAALLLGILVFRSRR   37 (38)
T ss_dssp             HHHHHHHHHHHH-HHHHHHHHHHHHHHCC
T ss_pred             CCceeeeehHHH-HHHHHHHHHHHHHeec
Confidence            356677777777 6677777777777765

>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=86.75  E-value=0.075  Score=33.40  Aligned_cols=23  Identities=35%  Similarity=0.648  Sum_probs=11.9

Q ss_pred             ehhHHHHHHHHHHHhheeeeEEE
Q psy4622          11 FVVILVCTIILLLSGLICLIVYR   33 (84)
Q Consensus        11 l~vil~l~~~l~l~~~~~~l~wR   33 (84)
                      +.+++.+++.+.|++++..++||
T Consensus        11 ~~Iv~gvi~gilliGllllliwk   33 (79)
T 2knc_B           11 LVVLLSVMGAILLIGLAALLIWK   33 (79)
T ss_dssp             HHHHHHHHHHHHHHHHHHHHHHH
T ss_pred             hhhHHHHHHHHHHHHHHHHHHHH
Confidence            33443333445555555666775

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

Probab=86.01  E-value=0.074  Score=30.44  Aligned_cols=32  Identities=16%  Similarity=0.035  Sum_probs=19.1

Q ss_pred             CCCCceeehhHHHHHHHHHHHhheeeeEEEeee
Q psy4622           4 RFSGMVAFVVILVCTIILLLSGLICLIVYRHYL   36 (84)
Q Consensus         4 ~~sg~~al~vil~l~~~l~l~~~~~~l~wR~~~   36 (84)
                      ++.+.+|.-+|.-+ +++++++++.+++||+.+
T Consensus         8 s~~~~IA~gVVgGv-~~~~ii~~~~~~~~RRr~   39 (44)
T 2ks1_B            8 PKIPSIATGMVGAL-LLLLVVALGIGLFMRRRH   39 (44)
T ss_dssp             SCSSSSTHHHHHHH-HHHHHHHHHHHHHHHTTT
T ss_pred             CCcceEEeehhHHH-HHHHHHHHHHHHHhhhhH
Confidence            44566666666655 555555666666666544

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

Probab=85.86  E-value=0.054  Score=31.14  Aligned_cols=33  Identities=24%  Similarity=0.222  Sum_probs=17.7

Q ss_pred             CCceeehhHHHHHHHHHHHhheeeeEEEeeeccc
Q psy4622           6 SGMVAFVVILVCTIILLLSGLICLIVYRHYLHRI   39 (84)
Q Consensus         6 sg~~al~vil~l~~~l~l~~~~~~l~wR~~~~rn   39 (84)
                      .+.+|.-+|.-+ +++++++.+.+++||+.+.++
T Consensus         9 ~~aIA~gVVgGv-~~v~ii~~~~~~~~RRRr~~~   41 (44)
T 2l2t_A            9 TPLIAAGVIGGL-FILVIVGLTFAVYVRRKSIKK   41 (44)
T ss_dssp             SHHHHHHHHHHH-HHHHHHHHHHHHHHHTTCSSC
T ss_pred             cceEEEeehHHH-HHHHHHHHHHHHHhhhhhhhh
Confidence            344555555444 445555566666776654443

>1cd1_A CD1, MCD1D.1; immunology, MHC, TCR, glycoprotein, signal, immunoglobulin fold, T-cell; 2.67A {Mus musculus} SCOP: b.1.1.2 d.19.1.1

Probab=82.76  E-value=0.25  Score=36.39  Aligned_cols=18  Identities=11%  Similarity=0.032  Sum_probs=0.0

Q ss_pred             HHhheeeeEEEeeecccc
Q psy4622          23 LSGLICLIVYRHYLHRIN   40 (84)
Q Consensus        23 l~~~~~~l~wR~~~~rn~   40 (84)
                      |++++++++||+++.|++
T Consensus       297 l~~~~~~~~~~~~~~~~~  314 (315)
T 1cd1_A          297 VGAVVYYIWRRRSAYQDI  314 (315)
T ss_dssp             ------------------
T ss_pred             HHHHHHhheehhcCCCCC
Confidence            334447777888876653

---

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