Citrus Sinensis ID: 024047

Local Sequence Feature Prediction

Prediction and (Method)Result
Residue Number Marker
Protein Sequence ?
Secondary Structure (PSIPRED) ?
Secondary Structure Prediction (SSPRO) ?
Coil and Loop (DISEMBL) ?
Flexible Loop (DISEMBL) ?
Low Complexity Region (SEG) ?
Disordered region (IsUnstruct) ?
Disordered Region (DISOPRED) ?
Disordered Region (DISEMBL) ?
Disordered Region (DISPRO) ?
Transmembrane Helix (TMHMM) ?
Transmembrane Helix (HMMTOP) ?
Transmembrane Helix (MEMSAT) ?
TM Helix, Signal Peptide (MEMSAT_SVM) ?
TM Helix, Signal Peptide (Phobius) ?
Signal Peptide (SignalP HMM Mode) ?
Signal Peptide (SignalP NN Mode) ?
Coiled Coils (COILS) ?
Positional Conservation ?
 
--------10--------20--------30--------40--------50--------60--------70--------80--------90-------100-------110-------120-------130-------140-------150-------160-------170-------180-------190-------200-------210-------220-------230-------240-------250-------260-------270---
MVIAYKKSKFRKHNLAPIEDWKDLWRPELAGRISMVNSPREVIGSVLKYMGASYNSNNIDLQVAGGKISVQQNLALLANQARLFDSTHYLKAFGIGDVWVAVGWSSDVLPAVKRMSNVAVVVPKSGASLWADLWAIPAASRLETKQIGGRVRGPSPLIHQWIEFCLQTARALPFKQEVIPGASPSALETTLVKLPEELLKGKPSQDTNLIVGVPPAEILARCEFLEPLSEATLSDYEWLVADLQKPAPVLMKRVQHYLSSLIQSFLAKATLKS
cEEEEcccccccccccccccHHHHccccccccccccccHHHHHHHHHHHcccccccccHHHHHHcccHHHHHHHHHHcccEEEEEccHHHHHHHHccEEEEEEEHHcHHHHHHHcccccEEEccccHHHHHHHHHcccccccccccccccccccHHHHHHHHHHHHHHHHHHHHHccccccccccHHHHHHHcccHHHHccccccccccccccccHHHHHHccccccccHHHHHHHHHHHHHHccccccHHHHHHHHHHHHHHHHHHHHHccc
ccEEEcHHHHHHccccccccHHHHHcHHHHHHEEEEccHHHHHHHHHHHHccccccccHHHHcHHHHHHHHHHHHHHccccEEEEcHHHHHHHHcccEEEEEEEccHHHHHHHHHHHccEEEccccccHHHHHEEcccccccHHHccccccccccHHHHHHHHHHHcHHHHHHHHcHcccccccHHHHHHHHHccHHHccccHHHccccccccccHHHHHHHHccccccHHHHHHHHHHHHHcccccccHHHHHHHHHHHHHHHHHHHHcccc
mviaykkskfrkhnlapiedwkdlwrpelagrismvnspREVIGSVLKYMGasynsnnidlqvaggkiSVQQNLALLANQARLFDSTHYLKAFGIGDVWVAVGWSSDVLPAVKRMSNVAVVVPKSGASLWADLWAipaasrletkqiggrvrgpspliHQWIEFCLQTAralpfkqevipgaspsaLETTLVKLPeellkgkpsqdtnlivgvppaeILARCefleplseatLSDYEWLVADLQKPAPVLMKRVQHYLSSLIQSFLAKATLKS
mviaykkskfrkhnlapiedwkdlwRPELAgrismvnsprEVIGSVLKYMGASYNSNNIDLQVAGGKISVQQNLALLANQARLFDSTHYLKAFGIGDVWVAVGWSSDVLPAVKRMSNVAVVVPKSGASLWADLWAIPAASRLETKQIGGRVRGPSPLIHQWIEFCLQTARALPFKQEVIPGASPSALETTLVKLPEEllkgkpsqdtnliVGVPPAEILARCEFLEPLSEATLSDYEWLVADLQKPAPVLMKRVQHYLSSLIQSFLAKATLKS
MVIAYKKSKFRKHNLAPIEDWKDLWRPELAGRISMVNSPREVIGSVLKYMGASYNSNNIDLQVAGGKISVqqnlallanqaRLFDSTHYLKAFGIGDVWVAVGWSSDVLPAVKRMSNVAVVVPKSGASLWADLWAIPAASRLETKQIGGRVRGPSPLIHQWIEFCLQTARALPFKQEVIPGASPSALETTLVKLPEELLKGKPSQDTNLIVGVPPAEILARCEFLEPLSEATLSDYEWLVADLQKPAPVLMKRVQHYLSSLIQSFLAKATLKS
*********FRKHNLAPIEDWKDLWRPELAGRISMVNSPREVIGSVLKYMGASYNSNNIDLQVAGGKISVQQNLALLANQARLFDSTHYLKAFGIGDVWVAVGWSSDVLPAVKRMSNVAVVVPKSGASLWADLWAIPAASRLETKQIGGRVRGPSPLIHQWIEFCLQTARALPFKQEVIPG*****LETTLVKL************TNLIVGVPPAEILARCEFLEPLSEATLSDYEWLVADLQKPAPVLMKRVQHYLSSLIQSFLA******
MVIAYKKSKFRKHNLAPIEDWKDLWRPELAGRISMVNSPREVIGSVLKYMGASYNSNNIDLQVAGGKISVQQNLALLANQARLFDSTHYLKAFGIGDVWVAVGWSSDVLPAVKRMSNVAVVVPKSGASLWADLWAIPAASRLETKQIGGRVRGPSPLIHQWIEFCLQTARALPFKQEVIPGASPSALETTLVKLPEELLKGKPSQDTNLIVGVPPAEILARCEFLEPLSEATLSDYEWLVADLQKPAPVLMKRVQHYLSSLIQSF*A******
MVIAYKKSKFRKHNLAPIEDWKDLWRPELAGRISMVNSPREVIGSVLKYMGASYNSNNIDLQVAGGKISVQQNLALLANQARLFDSTHYLKAFGIGDVWVAVGWSSDVLPAVKRMSNVAVVVPKSGASLWADLWAIPAASRLETKQIGGRVRGPSPLIHQWIEFCLQTARALPFKQEVIPGASPSALETTLVKLPEELLKGKPSQDTNLIVGVPPAEILARCEFLEPLSEATLSDYEWLVADLQKPAPVLMKRVQHYLSSLIQSFLAKATLKS
MVIAYKKSKFRKHNLAPIEDWKDLWRPELAGRISMVNSPREVIGSVLKYMGASYNSNNIDLQVAGGKISVQQNLALLANQARLFDSTHYLKAFGIGDVWVAVGWSSDVLPAVKRMSNVAVVVPKSGASLWADLWAIPAASRLETKQIGGRVRGPSPLIHQWIEFCLQTARALPFKQEVIPGASPSALETTLVKLPEELLKGKPSQDTNLIVGVPPAEILARCEFLEPLSEATLSDYEWLVADLQKPAPVLMKRVQHYLSSLIQSFLAK*****
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MVIAYKKSKFRKHNLAPIEDWKDLWRPELAGRISMVNSPREVIGSVLKYMGASYNSNNIDLQVAGGKISVQQNLALLANQARLFDSTHYLKAFGIGDVWVAVGWSSDVLPAVKRMSNVAVVVPKSGASLWADLWAIPAASRLETKQIGGRVRGPSPLIHQWIEFCLQTARALPFKQEVIPGASPSALETTLVKLPEELLKGKPSQDTNLIVGVPPAEILARCEFLEPLSEATLSDYEWLVADLQKPAPVLMKRVQHYLSSLIQSFLAKATLKS
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

ID ?Alignment graph ?Length ? Definition ? RBH(Q2H) ? RBH(H2Q) ? Q cover ? H cover ? Identity ? E-value ?
Query273 2.2.26 [Sep-21-2011]
P31133370 Putrescine-binding peripl N/A no 0.446 0.329 0.313 7e-11
P44731350 Spermidine/putrescine-bin yes no 0.498 0.388 0.303 1e-09
P45168360 Spermidine/putrescine-bin no no 0.644 0.488 0.272 2e-08
P0AFL0348 Spermidine/putrescine-bin no no 0.432 0.339 0.28 3e-06
P0AFK9348 Spermidine/putrescine-bin N/A no 0.432 0.339 0.28 3e-06
P0A2C7348 Spermidine/putrescine-bin no no 0.432 0.339 0.272 1e-05
P0A2C8348 Spermidine/putrescine-bin N/A no 0.432 0.339 0.272 1e-05
>sp|P31133|POTF_ECOLI Putrescine-binding periplasmic protein OS=Escherichia coli (strain K12) GN=potF PE=1 SV=3 Back     alignment and function desciption
 Score = 67.8 bits (164), Expect = 7e-11,   Method: Compositional matrix adjust.
 Identities = 43/137 (31%), Positives = 68/137 (49%), Gaps = 15/137 (10%)

Query: 16  APIEDWKDLWRPELAGR-----ISMVNSPREVIGSVLKYMGASYNSNNIDLQVAGGKISV 70
           AP++ W  + +PE   +     +S +++P EV  +VL Y+G   NS   D    G    +
Sbjct: 155 APVDSWDLILKPENLEKLKSCGVSFLDAPEEVFATVLNYLGKDPNSTKAD-DYTGPATDL 213

Query: 71  QQNLALLANQARLFDSTHYLKAFGIGDVWVAVGWSSDVLPAVKRMS------NVAVVVPK 124
              L  L    R F S+ Y+     GD+ VA+GW+ DV  A  R        NV+  +PK
Sbjct: 214 ---LLKLRPNIRYFHSSQYINDLANGDICVAIGWAGDVWQASNRAKEAKNGVNVSFSIPK 270

Query: 125 SGASLWADLWAIPAASR 141
            GA  + D++A+PA ++
Sbjct: 271 EGAMAFFDVFAMPADAK 287
Required for the activity of the bacterial periplasmic transport system of putrescine. Polyamine binding protein.
Escherichia coli (strain K12) (taxid: 83333)
>sp|P44731|POTD2_HAEIN Spermidine/putrescine-binding periplasmic protein 2 OS=Haemophilus influenzae (strain ATCC 51907 / DSM 11121 / KW20 / Rd) GN=potD-A PE=3 SV=2 Back     alignment and function description
>sp|P45168|POTD1_HAEIN Spermidine/putrescine-binding periplasmic protein 1 OS=Haemophilus influenzae (strain ATCC 51907 / DSM 11121 / KW20 / Rd) GN=potD-B PE=3 SV=1 Back     alignment and function description
>sp|P0AFL0|POTD_SHIFL Spermidine/putrescine-binding periplasmic protein OS=Shigella flexneri GN=potD PE=3 SV=1 Back     alignment and function description
>sp|P0AFK9|POTD_ECOLI Spermidine/putrescine-binding periplasmic protein OS=Escherichia coli (strain K12) GN=potD PE=1 SV=1 Back     alignment and function description
>sp|P0A2C7|POTD_SALTY Spermidine/putrescine-binding periplasmic protein OS=Salmonella typhimurium (strain LT2 / SGSC1412 / ATCC 700720) GN=potD PE=3 SV=1 Back     alignment and function description
>sp|P0A2C8|POTD_SALTI Spermidine/putrescine-binding periplasmic protein OS=Salmonella typhi GN=potD PE=3 SV=1 Back     alignment and function description

Close Homologs in the Non-Redundant Database Detected by BLAST ?

Original result of BLAST against Nonredundant Database

GI ?Alignment Graph ?Length ? Definition ? Q cover ? H cover ? Identity ? E-value ?
Query273
255557729 507 transporter, putative [Ricinus communis] 0.996 0.536 0.746 1e-119
224074577 424 predicted protein [Populus trichocarpa] 0.981 0.632 0.757 1e-118
147822062 875 hypothetical protein VITISV_021806 [Viti 0.992 0.309 0.725 1e-114
449455671 549 PREDICTED: uncharacterized protein LOC10 0.992 0.493 0.717 1e-113
225427562 553 PREDICTED: uncharacterized protein LOC10 0.992 0.490 0.725 1e-112
357517389 786 RING-H2 finger protein ATL5F [Medicago t 0.959 0.333 0.706 1e-109
356559069 552 PREDICTED: uncharacterized protein LOC10 0.956 0.472 0.704 1e-108
356560607 508 PREDICTED: uncharacterized protein LOC10 0.963 0.517 0.688 1e-106
28393765 524 unknown protein [Arabidopsis thaliana] 0.981 0.511 0.654 1e-99
297846532 522 hypothetical protein ARALYDRAFT_473635 [ 0.981 0.513 0.658 2e-99
>gi|255557729|ref|XP_002519894.1| transporter, putative [Ricinus communis] gi|223540940|gb|EEF42498.1| transporter, putative [Ricinus communis] Back     alignment and taxonomy information
 Score =  433 bits (1114), Expect = e-119,   Method: Compositional matrix adjust.
 Identities = 203/272 (74%), Positives = 237/272 (87%)

Query: 1   MVIAYKKSKFRKHNLAPIEDWKDLWRPELAGRISMVNSPREVIGSVLKYMGASYNSNNID 60
           MVIAYKKSKF+K+ LAPIEDW DLWRP+L GRISM++SPREV+G+VLKYMGASYN+ +I+
Sbjct: 234 MVIAYKKSKFQKNKLAPIEDWADLWRPDLKGRISMIDSPREVVGAVLKYMGASYNAKDIE 293

Query: 61  LQVAGGKISVQQNLALLANQARLFDSTHYLKAFGIGDVWVAVGWSSDVLPAVKRMSNVAV 120
           L+V GGK +VQ+NLAL   Q RLFDS HYLKAFG+GDVWVAVGWSSDVLP  KRMSN+AV
Sbjct: 294 LEVHGGKSAVQENLALFGKQVRLFDSMHYLKAFGVGDVWVAVGWSSDVLPVAKRMSNIAV 353

Query: 121 VVPKSGASLWADLWAIPAASRLETKQIGGRVRGPSPLIHQWIEFCLQTARALPFKQEVIP 180
           VVPKSG+SLWADLWAIPAASRL T +IGGRVRGPSPLIHQWIEFCLQ ARA+PFKQEVIP
Sbjct: 354 VVPKSGSSLWADLWAIPAASRLATNRIGGRVRGPSPLIHQWIEFCLQAARAMPFKQEVIP 413

Query: 181 GASPSALETTLVKLPEELLKGKPSQDTNLIVGVPPAEILARCEFLEPLSEATLSDYEWLV 240
           GASPSALE+T V++PEEL +GKP  DTNLI GVPP EIL+RCEFLEPLS+A L DY+WL+
Sbjct: 414 GASPSALESTPVEVPEELTRGKPRLDTNLIAGVPPPEILSRCEFLEPLSDAQLLDYKWLI 473

Query: 241 ADLQKPAPVLMKRVQHYLSSLIQSFLAKATLK 272
           A +Q+P P L+ R+  Y+SSL++S   K+  K
Sbjct: 474 ASMQQPGPNLIHRIHPYISSLVRSVGRKSDSK 505

Source: Ricinus communis

Species: Ricinus communis

Genus: Ricinus

Family: Euphorbiaceae

Order: Malpighiales

Class:

Phylum: Streptophyta

Superkingdom: Eukaryota
>gi|224074577|ref|XP_002304393.1| predicted protein [Populus trichocarpa] gi|222841825|gb|EEE79372.1| predicted protein [Populus trichocarpa] Back     alignment and taxonomy information
>gi|147822062|emb|CAN68081.1| hypothetical protein VITISV_021806 [Vitis vinifera] Back     alignment and taxonomy information
>gi|449455671|ref|XP_004145575.1| PREDICTED: uncharacterized protein LOC101211357 [Cucumis sativus] gi|449485058|ref|XP_004157059.1| PREDICTED: uncharacterized protein LOC101230567 [Cucumis sativus] Back     alignment and taxonomy information
>gi|225427562|ref|XP_002266662.1| PREDICTED: uncharacterized protein LOC100242504 [Vitis vinifera] gi|296085502|emb|CBI29234.3| unnamed protein product [Vitis vinifera] Back     alignment and taxonomy information
>gi|357517389|ref|XP_003628983.1| RING-H2 finger protein ATL5F [Medicago truncatula] gi|355523005|gb|AET03459.1| RING-H2 finger protein ATL5F [Medicago truncatula] Back     alignment and taxonomy information
>gi|356559069|ref|XP_003547824.1| PREDICTED: uncharacterized protein LOC100781794 [Glycine max] Back     alignment and taxonomy information
>gi|356560607|ref|XP_003548582.1| PREDICTED: uncharacterized protein LOC100809061 [Glycine max] Back     alignment and taxonomy information
>gi|28393765|gb|AAO42292.1| unknown protein [Arabidopsis thaliana] Back     alignment and taxonomy information
>gi|297846532|ref|XP_002891147.1| hypothetical protein ARALYDRAFT_473635 [Arabidopsis lyrata subsp. lyrata] gi|297336989|gb|EFH67406.1| hypothetical protein ARALYDRAFT_473635 [Arabidopsis lyrata subsp. lyrata] Back     alignment and taxonomy information

Prediction of Gene Ontology (GO) Terms

Close Homologs with Gene Ontology terms Detected by BLAST ?

Original result of BLAST against Gene Ontology (AMIGO)

ID ? Alignment graph ? Length ? Definition ? Q cover ? H cover ? Identity ? E-value ?
Query273
TAIR|locus:2206194524 AT1G31410 [Arabidopsis thalian 0.981 0.511 0.636 5.1e-90
TIGR_CMR|BA_1300345 BA_1300 "spermidine/putrescine 0.476 0.376 0.338 4.6e-12
UNIPROTKB|P31133370 potF "putrescine ABC transport 0.446 0.329 0.299 5.1e-09
TIGR_CMR|CPS_0103369 CPS_0103 "putrescine ABC trans 0.428 0.317 0.308 2.1e-06
TIGR_CMR|CPS_4671361 CPS_4671 "putrescine ABC trans 0.402 0.304 0.301 3.4e-06
UNIPROTKB|Q9KS36366 VC1425 "Spermidine/putrescine 0.432 0.322 0.268 6e-06
TIGR_CMR|VC_1425366 VC_1425 "spermidine/putrescine 0.432 0.322 0.268 6e-06
UNIPROTKB|Q9KKJ4343 VCA1113 "Spermidine/putrescine 0.435 0.346 0.241 6.7e-06
TIGR_CMR|VC_A1113343 VC_A1113 "spermidine/putrescin 0.435 0.346 0.241 6.7e-06
TIGR_CMR|SPO_3469361 SPO_3469 "putrescine ABC trans 0.428 0.324 0.285 1.7e-05
TAIR|locus:2206194 AT1G31410 [Arabidopsis thaliana (taxid:3702)] Back     alignment and assigned GO terms
 Score = 898 (321.2 bits), Expect = 5.1e-90, P = 5.1e-90
 Identities = 173/272 (63%), Positives = 212/272 (77%)

Query:     1 MVIAYKKSKFRKHNLAPIEDWKDLWRPELAGRISMVNSPREVIGSVLKYMGASYNSNNID 60
             MVIAYKKSKF+ + LAPIEDW DLWRPELAGRI+MVNSPREV+G+VLKYM ASYN+ ++D
Sbjct:   244 MVIAYKKSKFQNYKLAPIEDWADLWRPELAGRIAMVNSPREVVGAVLKYMRASYNTTDLD 303

Query:    61 LQVAGGKISVXXXXXXXXXXXRLFDSTHYLKAFGIGDVWVAVGWSSDVLPAVKRMSNVAV 120
              QV GG+++V           RLFDS +YLKAF +GDVWV VGWSSDV+P  KRMSNV V
Sbjct:   304 SQVPGGRLAVEKNLASLMKQIRLFDSNNYLKAFNVGDVWVTVGWSSDVIPVAKRMSNVTV 363

Query:   121 VVPKSGASLWADLWAIPAASRL--ETKQIGGRVRGPSPLIHQWIEFCLQTARALPFKQEV 178
             +VPKSGA+LWADLWAIPA S    E +Q GGRVRGPSPLI+QWIEFCLQ AR+LPF +EV
Sbjct:   364 IVPKSGATLWADLWAIPAVSDSGKEAEQRGGRVRGPSPLINQWIEFCLQPARSLPFTREV 423

Query:   179 IPGASPSALETTLVKLPEELLKGKPSQDTNLIVGVPPAEILARCEFLEPLSEATLSDYEW 238
             IPGASPSAL+  LV  PE+  K +   DTNL+ GVPP EIL++CEFLEPL EATLS+Y  
Sbjct:   424 IPGASPSALDGPLVTEPEKTKKDRTKLDTNLVTGVPPPEILSKCEFLEPLPEATLSEYRL 483

Query:   239 LVADLQKPA--PVLMKRVQHYLSSLIQSFLAK 268
             L+  ++K +  P L+++++  +S  ++ F AK
Sbjct:   484 LIETVRKQSQRPGLVEKLKDIVSIKVRGFRAK 515
GO:0005215 "transporter activity" evidence=IEA
GO:0005634 "nucleus" evidence=ISM
GO:0006810 "transport" evidence=IEA
GO:0009941 "chloroplast envelope" evidence=IDA
TIGR_CMR|BA_1300 BA_1300 "spermidine/putrescine ABC transporter, spermidine/putrescine-binding protein" [Bacillus anthracis str. Ames (taxid:198094)] Back     alignment and assigned GO terms
UNIPROTKB|P31133 potF "putrescine ABC transporter - periplasmic binding protein" [Escherichia coli K-12 (taxid:83333)] Back     alignment and assigned GO terms
TIGR_CMR|CPS_0103 CPS_0103 "putrescine ABC transporter, periplasmic putrescine-binding protein" [Colwellia psychrerythraea 34H (taxid:167879)] Back     alignment and assigned GO terms
TIGR_CMR|CPS_4671 CPS_4671 "putrescine ABC transporter, periplasmic putrescine-binding protein" [Colwellia psychrerythraea 34H (taxid:167879)] Back     alignment and assigned GO terms
UNIPROTKB|Q9KS36 VC1425 "Spermidine/putrescine ABC transporter, periplasmic spermidine/putrescine-binding protein" [Vibrio cholerae O1 biovar El Tor str. N16961 (taxid:243277)] Back     alignment and assigned GO terms
TIGR_CMR|VC_1425 VC_1425 "spermidine/putrescine ABC transporter, periplasmic spermidine/putrescine-binding protein" [Vibrio cholerae O1 biovar El Tor (taxid:686)] Back     alignment and assigned GO terms
UNIPROTKB|Q9KKJ4 VCA1113 "Spermidine/putrescine ABC transporter, periplasmic spermidine/putrescine-binding protein" [Vibrio cholerae O1 biovar El Tor str. N16961 (taxid:243277)] Back     alignment and assigned GO terms
TIGR_CMR|VC_A1113 VC_A1113 "spermidine/putrescine ABC transporter, periplasmic spermidine/putrescine-binding protein" [Vibrio cholerae O1 biovar El Tor (taxid:686)] Back     alignment and assigned GO terms
TIGR_CMR|SPO_3469 SPO_3469 "putrescine ABC transporter, periplasmic putrescine-binding protein" [Ruegeria pomeroyi DSS-3 (taxid:246200)] Back     alignment and assigned GO terms

Prediction of Enzyme Commission (EC) Number

EC Number Prediction by Annotation Transfer from SWISS-PROT Entries ?

Original result of BLAST against SWISS-PROT

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

EC Number Prediction by Ezypred Server ?

Original result from Ezypred Server

Fail to connect to Ezypred Server

EC Number Prediction by EFICAz Software ?

No EC number assignment, probably not an enzyme!

Prediction of Functionally Associated Proteins

Functionally Associated Proteins Detected by STRING ?

Original result from the STRING server

Fail to connect to STRING server

Conserved Domains and Related Protein Families

Conserved Domains Detected by RPS-BLAST ?

Original result of RPS-BLAST against CDD database part I

ID ?Alignment Graph ?Length ? Definition ? E-value ?
Query273
COG0687363 COG0687, PotD, Spermidine/putrescine-binding perip 1e-23
pfam13343239 pfam13343, SBP_bac_6, Bacterial extracellular solu 3e-17
PRK10682370 PRK10682, PRK10682, putrescine transporter subunit 4e-12
pfam13416281 pfam13416, SBP_bac_8, Bacterial extracellular solu 1e-10
PRK09501348 PRK09501, potD, spermidine/putrescine ABC transpor 5e-07
>gnl|CDD|223759 COG0687, PotD, Spermidine/putrescine-binding periplasmic protein [Amino acid transport and metabolism] Back     alignment and domain information 
 Score = 97.9 bits (244), Expect = 1e-23
 Identities = 63/248 (25%), Positives = 102/248 (41%), Gaps = 44/248 (17%)

Query: 1   MVIAYKKSKFRKHNLAPIEDWKDLWRPE----LAGR-ISMVNSPREVIGSVLKYMGASYN 55
             IAY   K +  +  P   W DL+ PE    L G+ +++++  REV G+ L  +G S N
Sbjct: 139 TGIAYNTDKVK--DAPPPTSWADLFDPEKFPGLKGKGVALLDDDREVFGAALALLGKSPN 196

Query: 56  SNNIDLQVAGGKISVQQNLALLA----NQARLFDSTHYLKAFGIGDVWVAVGWSSDVLPA 111
           + + +         +++   LL          FD + Y++    G+V +A+GWS D   A
Sbjct: 197 TTDPED--------LKKAFDLLDKLKPVNVYWFDGSQYVQLLANGEVVLAMGWSGDAAAA 248

Query: 112 --VKRMSNVAVVVPKSGASLWADLWAIPAASRLETKQIGGRVRGPSPLIHQWIEFCLQTA 169
              K  + +  V+PK G+ LW D  AIP  ++                 +++I F L   
Sbjct: 249 KAAKNGAPIEFVIPKEGSILWFDNLAIPKGAKNV------------DAAYKFINFLLDPE 296

Query: 170 RALPFKQEVIPGASPSALETTLVKLPEELLKGKPSQDTNLIVGVPPAEILARCEFLEPLS 229
            A    + V  G +P        KL  + +K  P+         P AEIL +    + L 
Sbjct: 297 VAAKLAEFV--GYAPPNKAAR--KLLPKEIKDDPAIY-------PTAEILKKLFGQKDLG 345

Query: 230 EATLSDYE 237
              L  Y 
Sbjct: 346 PEALRLYT 353

Length = 363
>gnl|CDD|222057 pfam13343, SBP_bac_6, Bacterial extracellular solute-binding protein Back     alignment and domain information
>gnl|CDD|182645 PRK10682, PRK10682, putrescine transporter subunit: periplasmic-binding component of ABC superfamily; Provisional Back     alignment and domain information
>gnl|CDD|222114 pfam13416, SBP_bac_8, Bacterial extracellular solute-binding protein Back     alignment and domain information
>gnl|CDD|181913 PRK09501, potD, spermidine/putrescine ABC transporter periplasmic substrate-binding protein; Reviewed Back     alignment and domain information

Conserved Domains Detected by HHsearch ?

Original result of HHsearch against CDD database

ID ?Alignment Graph ?Length ? Definition ? Probability ?
Query 273
PRK09501348 potD spermidine/putrescine ABC transporter peripla 100.0
COG0687363 PotD Spermidine/putrescine-binding periplasmic pro 100.0
PRK10682370 putrescine transporter subunit: periplasmic-bindin 100.0
TIGR03261334 phnS2 putative 2-aminoethylphosphonate ABC transpo 99.93
PF13343242 SBP_bac_6: Bacterial extracellular solute-binding 99.91
PRK11622401 hypothetical protein; Provisional 99.9
TIGR03227367 PhnS 2-aminoethylphosphonate ABC transporter, peri 99.89
TIGR01276309 thiB thiamine ABC transporter, periplasmic binding 99.88
PRK11205330 tbpA thiamine transporter substrate binding subuni 99.87
TIGR01254304 sfuA ABC transporter periplasmic binding protein, 99.86
PRK15046349 2-aminoethylphosphonate ABC transporter substrate- 99.8
PF13416281 SBP_bac_8: Bacterial extracellular solute-binding 99.76
COG1840299 AfuA ABC-type Fe3+ transport system, periplasmic c 99.75
COG4143336 TbpA ABC-type thiamine transport system, periplasm 99.7
TIGR01256216 modA molybdenum ABC transporter, periplasmic molyb 99.52
TIGR00971315 3a0106s03 sulfate/thiosulfate-binding protein. Thi 99.52
PRK10852338 thiosulfate transporter subunit; Provisional 99.46
PRK10752329 sulfate transporter subunit; Provisional 99.45
COG4134384 ABC-type uncharacterized transport system, peripla 99.4
PF13531230 SBP_bac_11: Bacterial extracellular solute-binding 99.1
TIGR03850437 bind_CPR_0540 carbohydrate ABC transporter substra 99.03
PF01547315 SBP_bac_1: Bacterial extracellular solute-binding 98.96
PRK03537188 molybdate ABC transporter periplasmic molybdate-bi 98.96
PRK10677257 modA molybdate transporter periplasmic protein; Pr 98.96
PRK09474396 malE maltose ABC transporter periplasmic protein; 98.88
TIGR03851450 chitin_NgcE carbohydrate ABC transporter, N-acetyl 98.84
PRK10974438 glycerol-3-phosphate transporter periplasmic bindi 98.6
COG1653433 UgpB ABC-type sugar transport system, periplasmic 98.5
COG1613348 Sbp ABC-type sulfate transport system, periplasmic 98.38
PRK04168334 molybdate ABC transporter periplasmic substrate-bi 98.26
COG0725258 ModA ABC-type molybdate transport system, periplas 97.79
COG2182420 MalE Maltose-binding periplasmic proteins/domains 97.59
PF02030493 Lipoprotein_8: Hypothetical lipoprotein (MG045 fam 97.58
COG4150341 CysP ABC-type sulfate transport system, periplasmi 97.41
TIGR03730273 tungstate_WtpA tungstate ABC transporter binding p 96.66
COG4588252 AcfC Accessory colonization factor AcfC, contains 95.39
PF12727193 PBP_like: PBP superfamily domain; InterPro: IPR024 84.05
>PRK09501 potD spermidine/putrescine ABC transporter periplasmic substrate-binding protein; Reviewed Back     alignment and domain information 
Probab=100.00  E-value=7.4e-37  Score=284.80  Aligned_cols=214  Identities=24%  Similarity=0.364  Sum_probs=189.6

Q ss_pred             CEEEEeCccccccCCCCCCChHHhcCcccCCcEEeeCChHHHHHHHHHHhCCCCCCCChhhhhhchHHHHHHHHHHHhcc
Q 024047            1 MVIAYKKSKFRKHNLAPIEDWKDLWRPELAGRISMVNSPREVIGSVLKYMGASYNSNNIDLQVAGGKISVQQNLALLANQ   80 (273)
Q Consensus         1 ~gi~YN~~~v~~~g~~~p~SW~dL~dp~~kGki~~~d~~~~~~~~al~~~G~~~~~~~~~~~~~~~~~~~~~~L~~l~~~   80 (273)
                      +||+||++++++   .+|+||++||+|+|+|+|+|.+++.+.+..++.++|.+.+..+++     +++++++.|.+++++
T Consensus       134 ~~i~YN~d~v~~---~~~~sw~dL~~p~~~g~i~~~~~~~~~~~~al~~~G~~~~~~~~~-----~~~~a~~~l~~l~~~  205 (348)
T PRK09501        134 TAIGVNSDAIDP---KSVTSWADLWKPEYKGSLLLTDDAREVFQMALRKLGYSGNTTDPK-----EIEAAYNELKKLMPN  205 (348)
T ss_pred             eEEEEcHHHcCC---CCCCCHHHHhCHHHcCCeEEeCCHHHHHHHHHHHcCCCCCCCCHH-----HHHHHHHHHHHhhhh
Confidence            479999999975   378999999999999999999988888888888999887776665     467889999999999


Q ss_pred             cccccchhHHHHhhcCcEEEEEeccccHHHHHhcCCCcEEEecCCCceeeeeeEEEecCCCCcccccCCCCCCChHHHHH
Q 024047           81 ARLFDSTHYLKAFGIGDVWVAVGWSSDVLPAVKRMSNVAVVVPKSGASLWADLWAIPAASRLETKQIGGRVRGPSPLIHQ  160 (273)
Q Consensus        81 v~~~~~~~~~~~~~~Gev~va~~~s~~~~~~~~~~~~v~~~~P~eG~~~~~d~~~I~k~a~~~~~~~~~~~~~~~~~A~~  160 (273)
                      +..|+.+...+.|.+||++++++|+++...++..|.++++++|+||+..|+|+++|+|+++|++            +|++
T Consensus       206 v~~~~~~~~~~~l~~Gev~i~~~w~~~~~~~~~~g~~i~~~~P~eG~~~~~~~~~i~k~a~n~e------------~A~~  273 (348)
T PRK09501        206 VAAFNSDNPANPYMEGEVNLGMIWNGSAFVARQAGTPIDVVWPKEGGIFWMDSLAIPANAKNKE------------GALK  273 (348)
T ss_pred             hEEEcCcHHHHHHHcCCEEEEEeehHHHHHHHhcCCCceEEecCCCcceEEEeeeEECCCCCHH------------HHHH
Confidence            8888776778899999999999999999888888999999999999999999999999999998            9999


Q ss_pred             HHHHHhcHHHhchhhhhhcCCCCCChhhhhccCCChHHhcCCCCCCCCcccCCCCHHHHhhceeccCCCHHHHHHHHHHH
Q 024047          161 WIEFCLQTARALPFKQEVIPGASPSALETTLVKLPEELLKGKPSQDTNLIVGVPPAEILARCEFLEPLSEATLSDYEWLV  240 (273)
Q Consensus       161 FInfllspe~q~~~~~~~~~~~~p~~~~~a~~~l~~e~~~~~~~~~~~l~~~~p~~~~l~~~~~~~~~~~~~~~~~~~~W  240 (273)
                      |||||+|||+|+.+++ ..+|.+||  ..+.+.||+++++++        .+||+.+.+++++++.++++. .+.|+++|
T Consensus       274 Fi~~llspe~q~~~~~-~~~~~~~n--~~a~~~l~~~~~~~~--------~~~~~~~~~~~~~~~~~~~~~-~~~~~~~w  341 (348)
T PRK09501        274 LINFLLRPDVAKQVAE-TIGYPTPN--LAARKLLSPEVANDK--------SLYPDAETIKKGEWQNDVGAA-SSIYEEYY  341 (348)
T ss_pred             HHHHHhCHHHHHHHHH-HhCCCChh--HHHHHhCCHHHhcCC--------CcCcCHHHHhccEEecCCCHH-HHHHHHHH
Confidence            9999999999999985 56776665  578889999998764        359999999999999999864 68899999


Q ss_pred             HHhhCC
Q 024047          241 ADLQKP  246 (273)
Q Consensus       241 ~~ik~~  246 (273)
                      ++||+.
T Consensus       342 ~~~~~~  347 (348)
T PRK09501        342 QKLKAG  347 (348)
T ss_pred             HHHhcc
Confidence            999963

>COG0687 PotD Spermidine/putrescine-binding periplasmic protein [Amino acid transport and metabolism] Back     alignment and domain information
>PRK10682 putrescine transporter subunit: periplasmic-binding component of ABC superfamily; Provisional Back     alignment and domain information
>TIGR03261 phnS2 putative 2-aminoethylphosphonate ABC transporter, periplasmic 2-aminoethylphosphonate-binding protein Back     alignment and domain information
>PF13343 SBP_bac_6: Bacterial extracellular solute-binding protein; PDB: 2QRY_D 1XVX_A 1SI1_A 1SI0_A 1Q35_A 1Y9U_A 2OWS_A 2OWT_A 2VP1_A 2VOZ_A Back     alignment and domain information
>PRK11622 hypothetical protein; Provisional Back     alignment and domain information
>TIGR03227 PhnS 2-aminoethylphosphonate ABC transporter, periplasmic 2-aminoethylphosphonate binding protein Back     alignment and domain information
>TIGR01276 thiB thiamine ABC transporter, periplasmic binding protein Back     alignment and domain information
>PRK11205 tbpA thiamine transporter substrate binding subunit; Provisional Back     alignment and domain information
>TIGR01254 sfuA ABC transporter periplasmic binding protein, thiB subfamily Back     alignment and domain information
>PRK15046 2-aminoethylphosphonate ABC transporter substrate-binding protein; Provisional Back     alignment and domain information
>PF13416 SBP_bac_8: Bacterial extracellular solute-binding protein; PDB: 2FNC_A 1ELJ_A 3TTM_B 3TTK_C 2W7Y_A 3RPW_A 2GHB_C 2GHA_A 1POY_3 1POT_A Back     alignment and domain information
>COG1840 AfuA ABC-type Fe3+ transport system, periplasmic component [Inorganic ion transport and metabolism] Back     alignment and domain information
>COG4143 TbpA ABC-type thiamine transport system, periplasmic component [Coenzyme metabolism] Back     alignment and domain information
>TIGR01256 modA molybdenum ABC transporter, periplasmic molybdate-binding protein Back     alignment and domain information
>TIGR00971 3a0106s03 sulfate/thiosulfate-binding protein Back     alignment and domain information
>PRK10852 thiosulfate transporter subunit; Provisional Back     alignment and domain information
>PRK10752 sulfate transporter subunit; Provisional Back     alignment and domain information
>COG4134 ABC-type uncharacterized transport system, periplasmic component [General function prediction only] Back     alignment and domain information
>PF13531 SBP_bac_11: Bacterial extracellular solute-binding protein; PDB: 2HXW_B 3FJG_C 3FJM_B 3FJ7_B 3FIR_B 3AXF_C 1WOD_A 1AMF_A 3R26_A 1SBP_A Back     alignment and domain information
>TIGR03850 bind_CPR_0540 carbohydrate ABC transporter substrate-binding protein, CPR_0540 family Back     alignment and domain information
>PF01547 SBP_bac_1: Bacterial extracellular solute-binding protein; InterPro: IPR006059 Bacterial high affinity transport systems are involved in active transport of solutes across the cytoplasmic membrane Back     alignment and domain information
>PRK03537 molybdate ABC transporter periplasmic molybdate-binding protein; Provisional Back     alignment and domain information
>PRK10677 modA molybdate transporter periplasmic protein; Provisional Back     alignment and domain information
>PRK09474 malE maltose ABC transporter periplasmic protein; Reviewed Back     alignment and domain information
>TIGR03851 chitin_NgcE carbohydrate ABC transporter, N-acetylglucosamine/diacetylchitobiose-binding protein Back     alignment and domain information
>PRK10974 glycerol-3-phosphate transporter periplasmic binding protein; Provisional Back     alignment and domain information
>COG1653 UgpB ABC-type sugar transport system, periplasmic component [Carbohydrate transport and metabolism] Back     alignment and domain information
>COG1613 Sbp ABC-type sulfate transport system, periplasmic component [Inorganic ion transport and metabolism] Back     alignment and domain information
>PRK04168 molybdate ABC transporter periplasmic substrate-binding protein; Provisional Back     alignment and domain information
>COG0725 ModA ABC-type molybdate transport system, periplasmic component [Inorganic ion transport and metabolism] Back     alignment and domain information
>COG2182 MalE Maltose-binding periplasmic proteins/domains [Carbohydrate transport and metabolism] Back     alignment and domain information
>PF02030 Lipoprotein_8: Hypothetical lipoprotein (MG045 family) Back     alignment and domain information
>COG4150 CysP ABC-type sulfate transport system, periplasmic component [Inorganic ion transport and metabolism] Back     alignment and domain information
>TIGR03730 tungstate_WtpA tungstate ABC transporter binding protein WtpA Back     alignment and domain information
>COG4588 AcfC Accessory colonization factor AcfC, contains ABC-type periplasmic domain [General function prediction only] Back     alignment and domain information
>PF12727 PBP_like: PBP superfamily domain; InterPro: IPR024370 This entry represents members of the periplasmic binding domain superfamily [] Back     alignment and domain information

Homologous Structure Templates

Structure Templates Detected by BLAST ?

Original result of BLAST against Protein Data Bank

ID ?Alignment Graph ?Length ? Definition ? E-value ?
Query273
1a99_A344 Putrescine Receptor (Potf) From E. Coli Length = 34 3e-11
4gl0_A333 Putative SpermidinePUTRESCINE ABC TRANSPORTER FROM 2e-09
3ttl_A340 Crystal Structure Of Apo-Spue Length = 340 1e-08
3ttn_A340 Crystal Structures Of Polyamine Receptors Spud And 3e-08
2v84_A343 Crystal Structure Of The Tp0655 (Tppotd) Lipoprotei 4e-07
3ttk_A345 Crystal Structure Of Apo-Spud Length = 345 6e-07
3ttm_A346 Crystal Structure Of Spud In Complex With Putrescin 6e-07
1poy_1323 SpermidinePUTRESCINE-Binding Protein Complexed With 2e-06
1pot_A325 Spermidine/putrescine-binding Protein Complexed Wit 3e-06
4eqb_A330 1.5 Angstrom Crystal Structure Of SpermidinePUTRESC 1e-04
>pdb|1A99|A Chain A, Putrescine Receptor (Potf) From E. Coli Length = 344 Back     alignment and structure 
Iteration: 1

 Score = 65.5 bits (158), Expect = 3e-11,   Method: Compositional matrix adjust.
 Identities = 40/137 (29%), Positives = 64/137 (46%), Gaps = 15/137 (10%)
Query: 16  APIEDWKDLWRPELAGR-----ISMVNSPREVIGSVLKYMGASYNSNNIDLQVAGGKISV 70
           AP++ W  + +PE   +     +S +++P EV  +VL Y+G   NS   D          
Sbjct: 129 APVDSWDLILKPENLEKLKSCGVSFLDAPEEVFATVLNYLGKDPNSTKADDYTG----PA 184
Query: 71  XXXXXXXXXXXRLFDSTHYLKAFGIGDVWVAVGWSSDVLPAVKRMS------NVAVVVPK 124
                      R F S+ Y+     GD+ VA+GW+ DV  A  R        NV+  +PK
Sbjct: 185 TDLLLKLRPNIRYFHSSQYINDLANGDICVAIGWAGDVWQASNRAKEAKNGVNVSFSIPK 244
Query: 125 SGASLWADLWAIPAASR 141
            GA  + D++A+PA ++
Sbjct: 245 EGAMAFFDVFAMPADAK 261
>pdb|4GL0|A Chain A, Putative SpermidinePUTRESCINE ABC TRANSPORTER FROM LISTERIA Monocytogenes Length = 333 Back     alignment and structure
>pdb|3TTL|A Chain A, Crystal Structure Of Apo-Spue Length = 340 Back     alignment and structure
>pdb|3TTN|A Chain A, Crystal Structures Of Polyamine Receptors Spud And Spue From Pseudomonas Aeruginosa Length = 340 Back     alignment and structure
>pdb|2V84|A Chain A, Crystal Structure Of The Tp0655 (Tppotd) Lipoprotein Of Treponema Pallidum Length = 343 Back     alignment and structure
>pdb|3TTK|A Chain A, Crystal Structure Of Apo-Spud Length = 345 Back     alignment and structure
>pdb|3TTM|A Chain A, Crystal Structure Of Spud In Complex With Putrescine Length = 346 Back     alignment and structure
>pdb|1POY|1 Chain 1, SpermidinePUTRESCINE-Binding Protein Complexed With Spermidine (Dimer Form) Length = 323 Back     alignment and structure
>pdb|1POT|A Chain A, Spermidine/putrescine-binding Protein Complexed With Spermidine (monomer Form) Length = 325 Back     alignment and structure
>pdb|4EQB|A Chain A, 1.5 Angstrom Crystal Structure Of SpermidinePUTRESCINE ABC Transporter Substrate-Binding Protein From Streptococcus Pneumoniae Strain Canada Mdr_19a In Complex With Calcium And Hepes. Length = 330 Back     alignment and structure

Structure Templates Detected by RPS-BLAST ?

Original result of RPS-BLAST against PDB70 database

ID ?Alignment Graph ?Length ? Definition ? E-value ?
Query273
4eqb_A330 Spermidine/putrescine ABC superfamily ATP binding 2e-41
1pot_A325 POTD, spermidine/putrescine-binding protein; polya 6e-41
2v84_A343 Spermidine/putrescine ABC transporter, periplasmi 2e-36
3ttn_A340 Polyamine transport protein; polyamine binding pro 2e-35
3ttm_A346 Polyamine transport protein; polyamine binding, pu 3e-35
1a99_A344 POTF, putrescine-binding protein; transport, perip 5e-35
4edp_A351 ABC transporter, substrate-binding protein; clostr 2e-30
3pu5_A333 Extracellular solute-binding protein; structural g 1e-25
3rpw_A365 ABC transporter; structural genomics, PSI-biology, 2e-24
1vt4_I 1221 APAF-1 related killer DARK; drosophila apoptosome, 3e-07
3c9h_A355 ABC transporter, substrate binding protein; struct 3e-05
1sbp_A310 Sulfate-binding protein; 1.70A {Salmonella typhimu 4e-04
>4eqb_A Spermidine/putrescine ABC superfamily ATP binding transporter, binding protein; structural genomics, niaid; HET: EPE; 1.50A {Streptococcus pneumoniae TCH8431} Length = 330 Back     alignment and structure
 Score =  143 bits (364), Expect = 2e-41
 Identities = 50/241 (20%), Positives = 80/241 (33%), Gaps = 44/241 (18%)

Query: 3   IAYKKSKFRKHNLAPIEDWKDLWRPELAGRISMVNSPREVIGSVLKYMGASYNSNNI-DL 61
           I Y ++   +      E W DLW+ E    I + +  REV+G  L  +G S NS +   L
Sbjct: 117 IVYNETMVDE----APEHWDDLWKLEYKNSIMLFDGAREVLGLGLNSLGYSLNSKDPQQL 172

Query: 62  QVAGGKISVQQNLALLANQA---RLFDSTHYLKAFGIGDVWVAVGWSSDVLPAVKRMSNV 118
           +              L       +   +          +V + V +S +    +++  N+
Sbjct: 173 EETV---------DKLYKLTPNIKAIVADEMKGYMIQNNVAIGVTFSGEASQMLEKNENL 223

Query: 119 AVVVPKSGASLWADLWAIPA-ASRLETKQIGGRVRGPSPLIHQWIEFCLQTARALPFKQE 177
             VVP   ++LW D   IP      +               + +I F L+   AL   + 
Sbjct: 224 RYVVPTEASNLWFDNMVIPKTVKNQD-------------SAYAFINFMLKPENALQNAEY 270

Query: 178 V-IPGASPSALETTLVKLPEELLKGKPSQDTNLIVGVPPAEILARCEFLEPLSEATLSDY 236
           V     +  A E     LPEE  + K           P  E +   E  E         Y
Sbjct: 271 VGYSTPNLPAKE----LLPEETKEDKAF--------YPDVETMKHLEVYEKFDHKWTGKY 318

Query: 237 E 237
            
Sbjct: 319 S 319
>1pot_A POTD, spermidine/putrescine-binding protein; polyamine transport protein; HET: SPD; 1.80A {Escherichia coli} SCOP: c.94.1.1 PDB: 1poy_1* Length = 325 Back     alignment and structure
>2v84_A Spermidine/putrescine ABC transporter, periplasmi binding protein; polyamine binding, SYPH spermidine, lipoprotein, transport protein; HET: MES; 1.78A {Treponema pallidum} Length = 343 Back     alignment and structure
>3ttn_A Polyamine transport protein; polyamine binding protein, spermidine; HET: SPD; 2.00A {Pseudomonas aeruginosa} PDB: 3ttl_A* Length = 340 Back     alignment and structure
>3ttm_A Polyamine transport protein; polyamine binding, putrescine; 2.00A {Pseudomonas aeruginosa} PDB: 3ttk_A Length = 346 Back     alignment and structure
>1a99_A POTF, putrescine-binding protein; transport, periplasmic putrescine binding protein (POTF); 2.20A {Escherichia coli} SCOP: c.94.1.1 Length = 344 Back     alignment and structure
>4edp_A ABC transporter, substrate-binding protein; clostridium PERF ATCC 13124, center for structural genomics of infectious DI csgid; 1.85A {Clostridium perfringens} Length = 351 Back     alignment and structure
>3pu5_A Extracellular solute-binding protein; structural genomics, PSI-2, protein structure initiative; 2.05A {Bordetella parapertussis} Length = 333 Back     alignment and structure
>3rpw_A ABC transporter; structural genomics, PSI-biology, protein structure initiati midwest center for structural genomics, MCSG; HET: MSE; 1.65A {Rhodopseudomonas palustris} Length = 365 Back     alignment and structure
>1vt4_I APAF-1 related killer DARK; drosophila apoptosome, apoptosis, programmed cell death; HET: DTP; 6.90A {Drosophila melanogaster} PDB: 3iz8_A* Length = 1221 Back     alignment and structure
>3c9h_A ABC transporter, substrate binding protein; structural genom MCSG, PSI-2, protein structure initiative; HET: CIT; 1.90A {Agrobacterium tumefaciens str} Length = 355 Back     alignment and structure
>1sbp_A Sulfate-binding protein; 1.70A {Salmonella typhimurium} SCOP: c.94.1.1 Length = 310 Back     alignment and structure

Structure Templates Detected by HHsearch ?

Original result of HHsearch against PDB70 database

ID ?Alignment Graph ?Length ? Definition ? Probability ?
Query273
4gl0_A333 LMO0810 protein; structural genomics, IDP05673, sp 100.0
4eqb_A330 Spermidine/putrescine ABC superfamily ATP binding 100.0
3ttm_A346 Polyamine transport protein; polyamine binding, pu 100.0
3ttn_A340 Polyamine transport protein; polyamine binding pro 100.0
1pot_A325 POTD, spermidine/putrescine-binding protein; polya 99.98
1a99_A344 POTF, putrescine-binding protein; transport, perip 99.95
2v84_A343 Spermidine/putrescine ABC transporter, periplasmi 99.95
4i1d_A324 ABC transporter substrate-binding protein; structu 99.95
4euo_A320 ABC transporter, substrate binding protein (polya; 99.95
3rpw_A365 ABC transporter; structural genomics, PSI-biology, 99.94
3pu5_A333 Extracellular solute-binding protein; structural g 99.91
4edp_A351 ABC transporter, substrate-binding protein; clostr 99.86
3c9h_A355 ABC transporter, substrate binding protein; struct 99.82
2qry_A330 Thiamine-binding periplasmic protein; thiamin bind 99.81
3e13_X322 Putative iron-uptake ABC transport system, peripla 99.78
2voz_A346 FUTA2, periplasmic iron-binding protein; ferric bi 99.77
1q35_A320 Iron binding protein FBPA; metal binding protein; 99.76
1xvx_A312 YFUA; periplasmic iron binding protein, iron bindi 99.74
2pt1_A334 Iron transport protein; C-clamp, iron-binding prot 99.74
1y9u_A323 Putative iron binding protein; periplasmic binding 99.72
1nnf_A309 Iron-utilization periplasmic protein; iron-binding 99.71
1sbp_A310 Sulfate-binding protein; 1.70A {Salmonella typhimu 99.63
3cg1_A296 UPF0100 protein PF0080; ABC transporter, binding p 99.61
3uor_A458 ABC transporter sugar binding protein; ALFA/beta p 99.6
3k01_A412 Acarbose/maltose binding protein GACH; ABC transpo 99.6
3quf_A414 Extracellular solute-binding protein, family 1; st 99.56
2gha_A382 Maltose ABC transporter, periplasmic maltose-BIND 99.54
2zyo_A397 Solute-binding protein; open form, sugar binding p 99.54
4dxb_A 637 RG13, maltose-binding periplasmic protein, beta-la 99.52
1elj_A381 Maltodextrin-binding protein; protein-carbohydrate 99.49
4hw8_A420 Bacterial extracellular solute-binding protein, P; 99.47
1urs_A402 Maltose-binding protein; maltodextrin-binding prot 99.46
2xz3_A463 Maltose ABC transporter periplasmic protein, ENVE 99.46
2vgq_A477 Maltose-binding periplasmic protein, mitochondrial 99.45
1y4c_A 494 Maltose binding protein fused with designed helica 99.44
3mq9_A471 Bone marrow stromal antigen 2 fused to maltose-BI 99.44
2gh9_A386 Maltose/maltodextrin-binding protein; MBP, maltose 99.44
2b3f_A400 Glucose-binding protein; protein-carbohydrate comp 99.44
3oai_A 507 Maltose-binding periplasmic protein, myelin prote; 99.42
3n94_A475 Fusion protein of maltose-binding periplasmic Pro 99.42
4hs7_A420 Bacterial extracellular solute-binding protein, P; 99.41
1mh3_A421 Maltose binding-A1 homeodomain protein chimera; MA 99.41
3oo8_A415 ABC transporter binding protein ACBH; class 2 SBP 99.41
3cij_A295 UPF0100 protein AF_0094; archaeal periplasmic bind 99.41
3cfx_A296 UPF0100 protein MA_0280; ABC transporter, binding 99.41
1hsj_A487 Fusion protein consisting of staphylococcus access 99.41
3ob4_A 500 Conglutin, maltose ABC transporter periplasmic pro 99.41
3iot_A449 Maltose-binding protein, huntingtin fusion protei; 99.4
3csg_A461 MBP, maltose-binding protein monobody YS1 fusion, 99.4
2xd3_A416 MALX, maltose/maltodextrin-binding protein; solute 99.39
3osr_A 653 Maltose-binding periplasmic protein, green fluore 99.38
3h4z_A 568 Maltose-binding periplasmic protein fused with Al 99.37
3py7_A 523 Maltose-binding periplasmic protein,paxillin LD1, 99.37
3h3g_A 539 Fusion protein of maltose-binding periplasmic DOM 99.36
2heu_A401 Sugar ABC transporter, sugar-binding protein; peri 99.36
1r6z_P 509 Chimera of maltose-binding periplasmic protein AN 99.34
2zxt_A465 Maltose-binding periplasmic protein, linker, MITO 99.34
3r26_A237 Molybdate-binding periplasmic protein; protein bin 99.33
3f5f_A 658 Maltose-binding periplasmic protein, heparan sulfa 99.32
3o3u_N 581 Maltose-binding periplasmic protein, advanced Gly 99.31
2hxw_A237 Major antigenic peptide PEB3; periplasmic binding 99.3
3mp6_A 522 MBP, SGF29, maltose-binding periplasmic protein, l 99.3
3osq_A661 Maltose-binding periplasmic protein, green fluore 99.3
1eu8_A409 Trehalose/maltose binding protein; protein-carbohy 99.29
3i3v_A405 Probable secreted solute-binding lipoprotein; tran 99.28
4b3n_A 602 Maltose-binding periplasmic protein, tripartite mo 99.25
3thi_A371 Protein (thiaminase I); thiamin degradation, trans 99.23
3cfz_A292 UPF0100 protein MJ1186; ABC transporter, binding p 99.18
1atg_A231 MODA, periplasmic molybdate-binding protein; tungs 99.18
4h1g_A 715 Maltose binding protein-cakar3 motor domain fusio; 99.17
4exk_A487 Maltose-binding periplasmic protein, uncharacteri 99.17
2uvj_A408 TOGB, ABC type periplasmic sugar-binding protein; 99.16
2z8f_A412 Galacto-N-biose/lacto-N-biose I transporter subst 99.15
4aq4_A419 SN-glycerol-3-phosphate-binding periplasmic prote; 99.14
2nvu_B 805 Maltose binding protein/NEDD8-activating enzyme E1 99.14
2w7y_A430 FCSSBP, probable sugar ABC transporter, sugar-bind 99.12
4g68_A456 ABC transporter; transport protein; HET: XYS; 1.80 99.1
3gzg_A253 Molybdate-binding periplasmic protein; permease; m 99.07
3dm0_A 694 Maltose-binding periplasmic protein fused with RAC 98.95
3omb_A535 Extracellular solute-binding protein, family 1; PS 98.92
4gqo_A433 LMO0859 protein; virulence, pathogenesis, vaccine 98.86
3a09_A490 ALGQ1; sugar binding protein, alginate; HET: MAW B 98.79
3vlv_A502 ALGQ1; sugar binding protein, alginate; HET: MAW L 98.71
3k6v_A354 Solute-binding protein MA_0280; MODA, molybdate, p 98.44
3muq_A237 Uncharacterized conserved protein; structural geno 95.75
3lr1_A236 Tungstate ABC transporter, periplasmic tungstate- 92.66
4gd5_A279 Phosphate ABC transporter, phosphate-binding PROT; 90.9
3kn3_A242 Putative periplasmic protein; alpha-beta structure 90.62
>4gl0_A LMO0810 protein; structural genomics, IDP05673, spermidine, putrescine, ABC transporter, niaid; HET: MSE PGE PG4; 1.92A {Listeria monocytogenes} Back     alignment and structure
Probab=100.00  E-value=7.7e-39  Score=292.51  Aligned_cols=214  Identities=24%  Similarity=0.383  Sum_probs=194.9

Q ss_pred             CEEEEeCccccccCCCCCCChHHhcCcccCCcEEeeCChHHHHHHHHHHhCCCCCCCChhhhhhchHHHHHHHHHHHhcc
Q 024047            1 MVIAYKKSKFRKHNLAPIEDWKDLWRPELAGRISMVNSPREVIGSVLKYMGASYNSNNIDLQVAGGKISVQQNLALLANQ   80 (273)
Q Consensus         1 ~gi~YN~~~v~~~g~~~p~SW~dL~dp~~kGki~~~d~~~~~~~~al~~~G~~~~~~~~~~~~~~~~~~~~~~L~~l~~~   80 (273)
                      +||+||+++|++   .+|+||++||+|+++|++++.+++++.+++++.++|.+.++.+++     .+.++...+..++++
T Consensus       117 ~~i~yn~~~~~~---~~~~sw~dl~dp~~kg~~~~~~~~~~~~~~a~~~~~~~~~~~~~~-----~~~~~~~~~~~~~~~  188 (333)
T 4gl0_A          117 LGIIYNKEMFPD---KNFDTWNALFDPELKNQILLIDGAREVMGLGLNSLGYSLNDTNKA-----HLQAARDKLETMTPN  188 (333)
T ss_dssp             EEEEEETTTCTT---CCTTSGGGGGCGGGTTCEEEESCHHHHHHHHHHHTTCCTTCCCHH-----HHHHHHHHHHHHGGG
T ss_pred             eeeeechhhccc---CCcccHHhhcCHHhhhccccCCcHHHHHHHHHHHHhhcccCCCHH-----HHHHHHHHHHhhccc
Confidence            489999999986   478999999999999999999999999999999999998887765     367888899999999


Q ss_pred             cccccchhHHHHhhcCcEEEEEeccccHHHHHhcCCCcEEEecCCCceeeeeeEEEecCCCCcccccCCCCCCChHHHHH
Q 024047           81 ARLFDSTHYLKAFGIGDVWVAVGWSSDVLPAVKRMSNVAVVVPKSGASLWADLWAIPAASRLETKQIGGRVRGPSPLIHQ  160 (273)
Q Consensus        81 v~~~~~~~~~~~~~~Gev~va~~~s~~~~~~~~~~~~v~~~~P~eG~~~~~d~~~I~k~a~~~~~~~~~~~~~~~~~A~~  160 (273)
                      +..+++++..+.|.+||++|+++|+++...++.++.++.+++|+||+.+|+|+++|+|+|+|++            +|++
T Consensus       189 ~~~~~~~~~~~~~~~Ge~~~~~~~~~~~~~~~~~~~~~~~~~p~eG~~~~~~~~~I~k~a~n~e------------~A~~  256 (333)
T 4gl0_A          189 VKAIVGDEIKLLMADNEAGVAVTFSGEAAEMLSENEDLEYVIPKDGSNLWFDNMVIPKTAKNVD------------GAHK  256 (333)
T ss_dssp             EEEEESTTHHHHTSCC-CCEEEEEHHHHHHHHHHCTTEEEECCSSCEEEEEEEEECBTTCSCHH------------HHHH
T ss_pred             cceecchhhhhhhhccchheehhhhHHHHHHHhhccccccccCCCCCccccceEEEEcCCCCHH------------HHHH
Confidence            8888888899999999999999999999999999999999999999999999999999999998            9999


Q ss_pred             HHHHHhcHHHhchhhhhhcCCCCCChhhhhccCCChHHhcCCCCCCCCcccCCCCHHHHhhceeccCCCHHHHHHHHHHH
Q 024047          161 WIEFCLQTARALPFKQEVIPGASPSALETTLVKLPEELLKGKPSQDTNLIVGVPPAEILARCEFLEPLSEATLSDYEWLV  240 (273)
Q Consensus       161 FInfllspe~q~~~~~~~~~~~~p~~~~~a~~~l~~e~~~~~~~~~~~l~~~~p~~~~l~~~~~~~~~~~~~~~~~~~~W  240 (273)
                      |||||+|||+|+.+++ .++|++||  ..+...+|+++++++        .++|+.+.+++++++.+++++..++|+++|
T Consensus       257 fi~fllspe~q~~~~~-~~gy~~~n--~~a~~~l~~~~~~~~--------~~~p~~~~~~~~~~~~~~~~~~~~~~~~~w  325 (333)
T 4gl0_A          257 FINFMLKPENAAINAE-YVGYATPN--AKAVELLPKEISSDE--------RFYPDMDELNNLEVYDNLGKRMLSYYNELF  325 (333)
T ss_dssp             HHHHHHSHHHHHHHHH-HHCCBCCB--HHHHHHSCHHHHTCT--------TTSCCGGGGTTEECCCCCCHHHHHHHHHHH
T ss_pred             HHHHhcCHHHHHHHHH-HhCCCCcc--HHHHHhCCHHHHhCc--------ccCCCHHHHhhCeehhcCCHHHHHHHHHHH
Confidence            9999999999999995 56888777  577888999998864        358999999999999999999999999999


Q ss_pred             HHhhC
Q 024047          241 ADLQK  245 (273)
Q Consensus       241 ~~ik~  245 (273)
                      ++||.
T Consensus       326 ~~~K~  330 (333)
T 4gl0_A          326 LEFKM  330 (333)
T ss_dssp             HHHHH
T ss_pred             HHHHh
Confidence            99984
>4eqb_A Spermidine/putrescine ABC superfamily ATP binding transporter, binding protein; structural genomics, niaid; HET: EPE; 1.50A {Streptococcus pneumoniae TCH8431} Back     alignment and structure
>3ttm_A Polyamine transport protein; polyamine binding, putrescine; 2.00A {Pseudomonas aeruginosa} PDB: 3ttk_A Back     alignment and structure
>3ttn_A Polyamine transport protein; polyamine binding protein, spermidine; HET: SPD; 2.00A {Pseudomonas aeruginosa} PDB: 3ttl_A* Back     alignment and structure
>1pot_A POTD, spermidine/putrescine-binding protein; polyamine transport protein; HET: SPD; 1.80A {Escherichia coli} SCOP: c.94.1.1 PDB: 1poy_1* Back     alignment and structure
>1a99_A POTF, putrescine-binding protein; transport, periplasmic putrescine binding protein (POTF); 2.20A {Escherichia coli} SCOP: c.94.1.1 Back     alignment and structure
>2v84_A Spermidine/putrescine ABC transporter, periplasmi binding protein; polyamine binding, SYPH spermidine, lipoprotein, transport protein; HET: MES; 1.78A {Treponema pallidum} Back     alignment and structure
>4i1d_A ABC transporter substrate-binding protein; structural genomics, PSI-biology; 2.20A {Bradyrhizobium japonicum} Back     alignment and structure
>4euo_A ABC transporter, substrate binding protein (polya; class D of PBP, GABA-binding, transport protein; 1.28A {Agrobacterium tumefaciens} PDB: 4eq7_A Back     alignment and structure
>3rpw_A ABC transporter; structural genomics, PSI-biology, protein structure initiati midwest center for structural genomics, MCSG; HET: MSE; 1.65A {Rhodopseudomonas palustris} Back     alignment and structure
>3pu5_A Extracellular solute-binding protein; structural genomics, PSI-2, protein structure initiative; 2.05A {Bordetella parapertussis} Back     alignment and structure
>4edp_A ABC transporter, substrate-binding protein; clostridium PERF ATCC 13124, center for structural genomics of infectious DI csgid; 1.85A {Clostridium perfringens} Back     alignment and structure
>3c9h_A ABC transporter, substrate binding protein; structural genom MCSG, PSI-2, protein structure initiative; HET: CIT; 1.90A {Agrobacterium tumefaciens str} Back     alignment and structure
>2qry_A Thiamine-binding periplasmic protein; thiamin binding protein, ABC transporter, transport protein; HET: TPS; 2.25A {Escherichia coli} Back     alignment and structure
>3e13_X Putative iron-uptake ABC transport system, periplasmic iron-binding protein; beta sheet surrounded by alpha helices; 1.60A {Campylobacter jejuni} SCOP: c.94.1.1 PDB: 1y4t_A Back     alignment and structure
>2voz_A FUTA2, periplasmic iron-binding protein; ferric binding protein, metal-binding protein, TAT; 1.70A {Synechocystis SP} PDB: 2vp1_A* Back     alignment and structure
>1q35_A Iron binding protein FBPA; metal binding protein; 1.20A {Mannheimia haemolytica} SCOP: c.94.1.1 PDB: 1si0_A 1si1_A Back     alignment and structure
>1xvx_A YFUA; periplasmic iron binding protein, iron binding protein; 1.53A {Yersinia enterocolitica} SCOP: c.94.1.1 PDB: 1xvy_A* Back     alignment and structure
>2pt1_A Iron transport protein; C-clamp, iron-binding protein, solute-binding protein, perip binding protein, ABC transporter, metal transport; 2.00A {Synechocystis SP} PDB: 2pt2_A 3f11_A Back     alignment and structure
>1y9u_A Putative iron binding protein; periplasmic binding protein, iron tyrosinate interaction, metal binding protein; 1.39A {Bordetella pertussis tohama I} SCOP: c.94.1.1 PDB: 2ows_A 2owt_A Back     alignment and structure
>1nnf_A Iron-utilization periplasmic protein; iron-binding protein, EDTA-Fe-protein complex, metal binding protein; HET: EDT; 1.10A {Haemophilus influenzae} SCOP: c.94.1.1 PDB: 1mrp_A 1d9v_A 3od7_A 3odb_A 1qvs_A 2o6a_A 2o68_A 3kn8_A 3kn7_A 2o69_A 1qw0_A 1o7t_A* 1xc1_A* 1r1n_A* 1d9y_A Back     alignment and structure
>1sbp_A Sulfate-binding protein; 1.70A {Salmonella typhimurium} SCOP: c.94.1.1 Back     alignment and structure
>3cg1_A UPF0100 protein PF0080; ABC transporter, binding protein, molybdate, tungstate, ligand, unknown function, transport protein; 1.60A {Pyrococcus furiosus} PDB: 3cg3_A Back     alignment and structure
>3uor_A ABC transporter sugar binding protein; ALFA/beta protein, periplasmic-binding protein, maltose, SUG binding protein; 2.20A {Xanthomonas axonopodis PV} Back     alignment and structure
>3k01_A Acarbose/maltose binding protein GACH; ABC transporter, acarbose-binding protein, transport protein; 1.35A {Streptomyces glaucescens} PDB: 3jzj_A* 3k00_A* 3k02_A* Back     alignment and structure
>3quf_A Extracellular solute-binding protein, family 1; structural genomics, PSI-biology, midwest center for structu genomics, MCSG; HET: MSE; 1.70A {Bifidobacterium longum subsp} Back     alignment and structure
>2gha_A Maltose ABC transporter, periplasmic maltose-BIND protein; periplasmic binding protein, MBP, maltotriose; HET: MLR; 1.60A {Thermotoga maritima} PDB: 2ghb_A 2fnc_A* Back     alignment and structure
>2zyo_A Solute-binding protein; open form, sugar binding protein; HET: GLC; 1.55A {Thermoactinomyces vulgaris} PDB: 2zyk_A* 2zym_A* 2zyn_A* 2dfz_A* Back     alignment and structure
>4dxb_A RG13, maltose-binding periplasmic protein, beta-lactama chimera; TEM, beta-lactamase, MBP, allosteric regulation, zinc bindin maltose binding; 2.29A {Escherichia coli} PDB: 4dxc_A Back     alignment and structure
>1elj_A Maltodextrin-binding protein; protein-carbohydrate complex, maltose binding protein, MBP fold, ABC transporter fold, thermophilic protein; HET: CME GLC; 1.85A {Pyrococcus furiosus} SCOP: c.94.1.1 Back     alignment and structure
>4hw8_A Bacterial extracellular solute-binding protein, P; structural genomics, niaid, national institute of allergy AN infectious diseases; HET: MAL; 2.25A {Staphylococcus aureus subsp} PDB: 4hs7_A* Back     alignment and structure
>1urs_A Maltose-binding protein; maltodextrin-binding protein, acidophIle, thermoacidophIle, hyperthermophIle, thermophIle; HET: MLR; 1.45A {Alicyclobacillus acidocaldarius} SCOP: c.94.1.1 PDB: 1urg_A* 1urd_A* Back     alignment and structure
>2xz3_A Maltose ABC transporter periplasmic protein, ENVE glycoprotein; viral protein, viral membrane fusion, hairpin, chimera; HET: MAL; 1.95A {Escherichia coli} PDB: 1mg1_A* Back     alignment and structure
>2vgq_A Maltose-binding periplasmic protein, mitochondrial antiviral-signaling protein; immune system/transport, IPS1/MAVS/VISA/cardif; HET: MTT; 2.1A {Escherichia coli} Back     alignment and structure
>1y4c_A Maltose binding protein fused with designed helical protein; de novo designed helical protein, maltose binding protein fusion, de novo protein; HET: GLC; 1.90A {Escherichia coli} Back     alignment and structure
>3mq9_A Bone marrow stromal antigen 2 fused to maltose-BI periplasmic protein; HIV, antiviral protein; 2.80A {Escherichia coli} Back     alignment and structure
>2gh9_A Maltose/maltodextrin-binding protein; MBP, maltose binding protein, thermoph protein, periplasmic binding protein, sugar binding protein; HET: MLR; 1.95A {Thermus thermophilus} Back     alignment and structure
>2b3f_A Glucose-binding protein; protein-carbohydrate complex, periplasmic binding protein, galactose, GBP, sugar binding protein; HET: GAL; 1.56A {Thermus thermophilus HB27} PDB: 2b3b_A* Back     alignment and structure
>3oai_A Maltose-binding periplasmic protein, myelin prote; schwann cell membrane protein, immunoglobulin-folding, inter adhesion, tetramer; HET: MAL; 2.10A {Escherichia coli} Back     alignment and structure
>3n94_A Fusion protein of maltose-binding periplasmic Pro pituitary adenylate cyclase 1 receptor-short...; G-protein coupled receptor; HET: MAL; 1.80A {Escherichia coli} PDB: 3ehs_A* 3ehu_A* 3eht_A* 3n93_A* 3n95_A* 3n96_A* Back     alignment and structure
>4hs7_A Bacterial extracellular solute-binding protein, P; structural genomics, niaid, national institute of allergy AN infectious diseases; HET: P33; 2.60A {Staphylococcus aureus subsp} Back     alignment and structure
>1mh3_A Maltose binding-A1 homeodomain protein chimera; MATA1, binding cooperativity, maltose binding protein, MBP, sugar binding, DNA binding protein; 2.10A {Escherichia coli} SCOP: a.4.1.1 c.94.1.1 PDB: 1mh4_A 1le8_A Back     alignment and structure
>3oo8_A ABC transporter binding protein ACBH; class 2 SBP fold, ABC transporter extracellular solute bindi protein, D-galactose binding; 1.60A {Actinoplanes} PDB: 3oo6_A* 3oo7_A 3oo9_A 3ooa_A Back     alignment and structure
>3cij_A UPF0100 protein AF_0094; archaeal periplasmic binding protein, unknown function, metal binding protein, transport protein; 1.07A {Archaeoglobus fulgidus} PDB: 2ons_A 2onk_E 2onr_A Back     alignment and structure
>3cfx_A UPF0100 protein MA_0280; ABC transporter, binding protein, molybdate, tungstate, LIGA unknown function, transport protein; 1.60A {Methanosarcina acetivorans} Back     alignment and structure
>1hsj_A Fusion protein consisting of staphylococcus accessary regulator protein R and maltose...; novel fold for DNA binding; HET: GLC; 2.30A {Escherichia coli} SCOP: a.4.5.28 c.94.1.1 Back     alignment and structure
>3ob4_A Conglutin, maltose ABC transporter periplasmic protein, ARAH; alpha-amylase inhibitors (AAI), lipid transfer (LT) and SEED (SS) protein family; HET: MLR; 2.71A {Escherichia coli} Back     alignment and structure
>3iot_A Maltose-binding protein, huntingtin fusion protei; HTT-EX1, HD, sugar transport, transport, apoptos disease mutation, nucleus; 3.50A {Escherichia coli k-12} PDB: 3io6_A 3io4_A 3ior_A 3iou_A 3iov_A 3iow_A Back     alignment and structure
>3csg_A MBP, maltose-binding protein monobody YS1 fusion, MMBP; engineered binding protein, antibody mimic, synthetic protein interface; 1.80A {Escherichia coli} PDB: 2obg_A 3csb_A* 3a3c_A* 3d4g_A* 3d4c_A* 3ef7_A* Back     alignment and structure
>2xd3_A MALX, maltose/maltodextrin-binding protein; solute-binding protein, sugar binding protein, virulence, alpha-glucan, sugar transport; HET: GLC; 2.00A {Streptococcus pneumoniae} PDB: 2xd2_A* Back     alignment and structure
>3osr_A Maltose-binding periplasmic protein, green fluore protein; engineered protein, sensor protein, fluorescent protein, MBP maltose sensor; HET: C12 MAL; 2.00A {Escherichia coli} Back     alignment and structure
>3h4z_A Maltose-binding periplasmic protein fused with Al DERP7; MBP fusion, AHA1/BPI domain-like, super roll, sugar T transport, allergen; HET: GLC; 2.35A {Escherichia coli} Back     alignment and structure
>3py7_A Maltose-binding periplasmic protein,paxillin LD1, chimera; viral protein; HET: MLR; 2.29A {Escherichia coli} Back     alignment and structure
>3h3g_A Fusion protein of maltose-binding periplasmic DOM human parathyroid hormone receptor...; GPCR, extracellular domain, PTHRP, PTH, PThr1, sugar transpo transport, membrane protein; HET: MAL; 1.94A {Escherichia coli} PDB: 3c4m_A* 3l2j_A* Back     alignment and structure
>2heu_A Sugar ABC transporter, sugar-binding protein; periplasmic binding protein, transport protein; 1.04A {Streptococcus pneumoniae} PDB: 2hq0_A 2i58_A* 2hfb_A Back     alignment and structure
>1r6z_P Chimera of maltose-binding periplasmic protein AN argonaute 2; deviant OB fold, RNAI, gene regulation; HET: MAL; 2.80A {Escherichia coli} SCOP: b.34.14.1 c.94.1.1 Back     alignment and structure
>2zxt_A Maltose-binding periplasmic protein, linker, MITO intermembrane space import AND...; disulfide bond, alpha helix, fusion, sugar transport; HET: MAL; 3.00A {Escherichia coli} Back     alignment and structure
>3r26_A Molybdate-binding periplasmic protein; protein binding; 1.70A {Escherichia coli} SCOP: c.94.1.1 PDB: 3axf_A 1amf_A 1wod_A Back     alignment and structure
>3f5f_A Maltose-binding periplasmic protein, heparan sulfate 2-O-sulfotransferase 1; maltose binding protein, fusion, heparan sulfate biosynthesis; HET: GLC A3P; 2.65A {Escherichia coli k-12} Back     alignment and structure
>3o3u_N Maltose-binding periplasmic protein, advanced Gly END product-specific receptor; RAGE, AGER, scavenger receptor; HET: MLR; 1.50A {Escherichia coli} PDB: 3s59_A 3s58_A 3cjj_A 2l7u_A* 2e5e_A Back     alignment and structure
>2hxw_A Major antigenic peptide PEB3; periplasmic binding protein, N-glycosylation, structural genomics; HET: FLC; 1.60A {Campylobacter jejuni} PDB: 3fjm_A 3fjg_A 3fir_A* 3fj7_A* Back     alignment and structure
>3mp6_A MBP, SGF29, maltose-binding periplasmic protein, linker, SAGA associated factor 29; histone, tudor domain, histone binding protei; HET: MLY MAL; 1.48A {Escherichia coli} PDB: 3mp1_A* 3mp8_A* Back     alignment and structure
>3osq_A Maltose-binding periplasmic protein, green fluore protein; engineered protein, sensor protein, fluorescent protein, MBP maltose sensor; HET: C12 MAL; 1.90A {Escherichia coli} Back     alignment and structure
>1eu8_A Trehalose/maltose binding protein; protein-carbohydrate complex, MBP 2 fold, ABC transporter fold, thermophilic protein; HET: TRE; 1.90A {Thermococcus litoralis} SCOP: c.94.1.1 Back     alignment and structure
>3i3v_A Probable secreted solute-binding lipoprotein; transporter, PSI-II, structural genomics, protein structure initiative; 2.30A {Streptomyces coelicolor} Back     alignment and structure
>4b3n_A Maltose-binding periplasmic protein, tripartite motif-containing protein 5; sugar binding protein-ligase complex; HET: MAL MES; 3.30A {Escherichia coli} PDB: 2lm3_A Back     alignment and structure
>3thi_A Protein (thiaminase I); thiamin degradation, transferase; 2.00A {Bacillus subtilis} SCOP: c.94.1.1 PDB: 2thi_A 4thi_A Back     alignment and structure
>3cfz_A UPF0100 protein MJ1186; ABC transporter, binding protein, molybdate, tungstate, ligand, unknown function, transport protein; 1.70A {Methanocaldococcus jannaschii} Back     alignment and structure
>1atg_A MODA, periplasmic molybdate-binding protein; tungstate, ABC transporter; 1.20A {Azotobacter vinelandii} SCOP: c.94.1.1 Back     alignment and structure
>4h1g_A Maltose binding protein-cakar3 motor domain fusio; kinesin motor domain, motor protein, chimera; HET: MTT ADP EDO; 2.15A {Escherichia coli} Back     alignment and structure
>4exk_A Maltose-binding periplasmic protein, uncharacteri protein chimera; MCSG, pcsep, MBP-fused target, structural genomics; HET: MTT; 1.28A {Escherichia coli} PDB: 3g7v_A* 3g7w_A* 3sev_A* 3ser_A* 3sew_A* 3set_A* 3ses_A* 3seu_A* 3sex_A* 3sey_A* 3q27_A* 3q28_A* 3q26_A* 3q25_A* 3q29_A* 1nmu_A* 2ok2_A* 3pgf_A* 1t0k_A* 3rum_A* ... Back     alignment and structure
>2uvj_A TOGB, ABC type periplasmic sugar-binding protein; periplasmic binding protein, pectin degradation, trigalacturonic acid; HET: ADA; 1.8A {Yersinia enterocolitica} PDB: 2uvi_A* 2uvh_A* 2uvg_A 3u1o_A Back     alignment and structure
>2z8f_A Galacto-N-biose/lacto-N-biose I transporter subst binding protein; ABC transporter, mucin core-1, human MILK oligosacchalide; HET: BGC GAL NAG MES; 1.65A {Bifidobacterium longum} PDB: 2z8e_A* 2z8d_A* Back     alignment and structure
>4aq4_A SN-glycerol-3-phosphate-binding periplasmic prote; diester-binding protein; HET: G3P; 1.80A {Escherichia coli} Back     alignment and structure
>2nvu_B Maltose binding protein/NEDD8-activating enzyme E1 catalytic subunit chimera; multifunction macromolecular complex, ubiquitin, ATP, conformational change, thioester, switch, adenylation, protein turnover, ligase; HET: ATP; 2.80A {Homo sapiens} SCOP: c.111.1.2 c.94.1.1 Back     alignment and structure
>2w7y_A FCSSBP, probable sugar ABC transporter, sugar-binding protein; solute-binding protein, blood group antigen, carbohydrate transport; HET: A2G GAL FUC; 2.35A {Streptococcus pneumoniae} Back     alignment and structure
>4g68_A ABC transporter; transport protein; HET: XYS; 1.80A {Caldanaerobius} PDB: 4g68_B* Back     alignment and structure
>3gzg_A Molybdate-binding periplasmic protein; permease; molybdate complex, mutant K127S, metal binding protein; 1.55A {Xanthomonas axonopodis PV} PDB: 2h5y_A Back     alignment and structure
>3dm0_A Maltose-binding periplasmic protein fused with RACK1; MBP RACK1A, receptor for activiated protein C-kinase 1, beta-propeller WD40 repeat; HET: GLC; 2.40A {Escherichia coli} Back     alignment and structure
>3omb_A Extracellular solute-binding protein, family 1; PSI-2, midwest center for structural genomics, protein struc initiative, MCSG; 2.10A {Bifidobacterium longum subsp} Back     alignment and structure
>4gqo_A LMO0859 protein; virulence, pathogenesis, vaccine candidate, center for struc genomics of infectious diseases, csgid, niaid; HET: MSE PGE; 2.10A {Listeria monocytogenes} Back     alignment and structure
>3a09_A ALGQ1; sugar binding protein, alginate; HET: MAW BEM MAV; 1.40A {Sphingomonas} PDB: 1y3p_A* 1y3q_A 1y3n_A* 3vlv_A* 3vlu_A* 3vlw_A* 1j1n_A* 1kwh_A Back     alignment and structure
>3vlv_A ALGQ1; sugar binding protein, alginate; HET: MAW LGU; 1.50A {Sphingomonas SP} SCOP: c.94.1.1 PDB: 3vlu_A* 3vlw_A* 1y3n_A* 1y3p_A* 1y3q_A 1j1n_A* 1kwh_A Back     alignment and structure
>3k6v_A Solute-binding protein MA_0280; MODA, molybdate, periplasmic BIN protein, ABC transporter, transport protein, ligand, metal- protein; HET: CIT; 1.69A {Methanosarcina acetivorans} PDB: 3k6u_A* 3k6w_A 3k6x_A Back     alignment and structure
>3muq_A Uncharacterized conserved protein; structural genomics, PSI-2, protein structure initiative, MI center for structural genomics, MCSG; 2.05A {Vibrio parahaemolyticus} Back     alignment and structure
>3lr1_A Tungstate ABC transporter, periplasmic tungstate- binding protein; the tungstate ABC transporter, structural genomics, PSI, MCSG; 1.80A {Geobacter sulfurreducens} Back     alignment and structure
>4gd5_A Phosphate ABC transporter, phosphate-binding PROT; structural genomics, niaid, national institute of allergy AN infectious diseases; HET: MSE; 1.70A {Clostridium perfringens} Back     alignment and structure
>3kn3_A Putative periplasmic protein; alpha-beta structure, periplasmic binding protein fold, STRU genomics, PSI-2, protein structure initiative; HET: GSH CIT; 2.41A {Wolinella succinogenes} Back     alignment and structure

Homologous Structure Domains

Structure Domains Detected by RPS-BLAST ?

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

ID ?Alignment Graph ?Length ? Definition ? E-value ?
Query 273
d1a99a_341 c.94.1.1 (A:) Putrescine receptor (PotF) {Escheric 3e-13
d1pota_322 c.94.1.1 (A:) Spermidine/putrescine-binding protei 1e-12
>d1a99a_ c.94.1.1 (A:) Putrescine receptor (PotF) {Escherichia coli [TaxId: 562]} Length = 341 Back     information, alignment and structure

class: Alpha and beta proteins (a/b)
fold: Periplasmic binding protein-like II
superfamily: Periplasmic binding protein-like II
family: Phosphate binding protein-like
domain: Putrescine receptor (PotF)
species: Escherichia coli [TaxId: 562]

 Score = 66.4 bits (160), Expect = 3e-13
 Identities = 52/248 (20%), Positives = 93/248 (37%), Gaps = 38/248 (15%)

Query: 1   MVIAYKKSKFRKHNLAPIEDWKDLWRPELAGRI-----SMVNSPREVIGSVLKYMGASYN 55
           +     K K      AP++ W  + +PE   ++     S +++P EV  +VL Y+G   N
Sbjct: 112 IGYNVDKVKAVLGENAPVDSWDLILKPENLEKLKSCGVSFLDAPEEVFATVLNYLGKDPN 171

Query: 56  SNNIDLQVAGGKISVQQNLALLANQARLFDSTHYLKAFGIGDVWVAVGWSSDVLPAVKRM 115
           S   D         + +         R F S+ Y+     GD+ VA+GW+ DV  A  R 
Sbjct: 172 STKADDYTGPATDLLLKL----RPNIRYFHSSQYINDLANGDICVAIGWAGDVWQASNRA 227

Query: 116 S------NVAVVVPKSGASLWADLWAIPAASRLETKQIGGRVRGPSPLIHQWIEFCLQTA 169
                  NV+  +PK GA  + D++A+PA ++                 +Q++ + L+  
Sbjct: 228 KEAKNGVNVSFSIPKEGAMAFFDVFAMPADAK------------NKDEAYQFLNYLLRPD 275

Query: 170 RALPFKQEVIPGASPSALETTLVKLPEELLKGKPSQDTNLIVGVPPAEILARCEFLEPLS 229
                   V      +A +     +  E+ +             PPA++ A+   L+   
Sbjct: 276 VVAHISDHV---FYANANKAATPLVSAEVRENP--------GIYPPADVRAKLFTLKVQD 324

Query: 230 EATLSDYE 237
                   
Sbjct: 325 PKIDRVRT 332
>d1pota_ c.94.1.1 (A:) Spermidine/putrescine-binding protein PotD {Escherichia coli [TaxId: 562]} Length = 322 Back     information, alignment and structure

Homologous Domains Detected by HHsearch ?

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

ID ?Alignment Graph ?Length ? Definition ? Probability ?
Query273
d1pota_322 Spermidine/putrescine-binding protein PotD {Escher 99.98
d1a99a_341 Putrescine receptor (PotF) {Escherichia coli [TaxI 99.92
d1xvxa_311 Ferric-binding protein FbpA {Yersinia enterocoliti 99.78
d1q35a_318 Ferric-binding protein FbpA {Mannheimia haemolytic 99.77
d1nnfa_308 Ferric-binding protein FbpA {Haemophilus influenza 99.66
d1y4ta_317 Ferric-binding protein FbpA {Campylobacter jejuni 99.62
d1y9ua_318 Ferric-binding protein FbpA {Bordetella pertussis 99.54
d1atga_231 Molybdate-binding protein, ModA {Azotobacter vinel 99.39
d1sbpa_309 Sulphate-binding protein {Salmonella typhimurium [ 99.38
d1elja_380 D-maltodextrin-binding protein, MBP {Archaeon Pyro 99.34
d1ursa_367 D-maltodextrin-binding protein, MBP {Alicyclobacil 99.25
d1amfa_231 Molybdate-binding protein, ModA {Escherichia coli 99.21
d1eu8a_407 D-maltodextrin-binding protein, MBP {Archaeon Ther 99.1
d3thia_362 Thiaminase I {Paenibacillus thiaminolyticus [TaxId 99.06
d1laxa_369 D-maltodextrin-binding protein, MBP {Escherichia c 98.92
d1j1na_492 Alginate-binding periplasmic protein AlgQ2 {Sphing 98.36
d2onsa1311 Molybdate-binding protein, ModA {Archaeoglobus ful 97.91
d1twya_249 ABC transporter, periplasmic substrate-binding pro 95.66
>d1pota_ c.94.1.1 (A:) Spermidine/putrescine-binding protein PotD {Escherichia coli [TaxId: 562]} Back     information, alignment and structure
class: Alpha and beta proteins (a/b)
fold: Periplasmic binding protein-like II
superfamily: Periplasmic binding protein-like II
family: Phosphate binding protein-like
domain: Spermidine/putrescine-binding protein PotD
species: Escherichia coli [TaxId: 562]

Probab=99.98  E-value=1.4e-31  Score=239.99  Aligned_cols=212  Identities=24%  Similarity=0.363  Sum_probs=185.3

Q ss_pred             EEEEeCccccccCCCCCCChHHhcCcccCCcEEeeCChHHHHHHHHHHhCCCCCCCChhhhhhchHHHHHHHHHHHhccc
Q 024047            2 VIAYKKSKFRKHNLAPIEDWKDLWRPELAGRISMVNSPREVIGSVLKYMGASYNSNNIDLQVAGGKISVQQNLALLANQA   81 (273)
Q Consensus         2 gi~YN~~~v~~~g~~~p~SW~dL~dp~~kGki~~~d~~~~~~~~al~~~G~~~~~~~~~~~~~~~~~~~~~~L~~l~~~v   81 (273)
                      +++||++++++   .+|+||++||+++++|++.+.+.+...++.+..+++.+.......     .+....+.+..+.+++
T Consensus       110 ~l~Yn~~~~~~---~~p~sw~dl~~~~~~g~~~~~~~~~~~~~~~~~~~~~~~~~~~~~-----~~~~~~~~~~~~~~~~  181 (322)
T d1pota_         110 AIGVNGDAVDP---KSVTSWADLWKPEYKGSLLLTDDAREVFQMALRKLGYSGNTTDPK-----EIEAAYNELKKLMPNV  181 (322)
T ss_dssp             EEEEETTTSCT---TTCCSSGGGGSGGGTTCEEECSCHHHHHHHHHHHTTCCTTCCCHH-----HHHHHHHHHHHTGGGE
T ss_pred             eeEehhhhcCc---cccCcHHHHhChHhhhcccccCchhhhhHHHHHHhccCccccchh-----hHHHHHHHHHHhcccc
Confidence            68999999987   479999999999999999999988888887777777665554443     3567788888899998


Q ss_pred             ccccchhHHHHhhcCcEEEEEeccccHHHHHhcCCCcEEEecCCCceeeeeeEEEecCCCCcccccCCCCCCChHHHHHH
Q 024047           82 RLFDSTHYLKAFGIGDVWVAVGWSSDVLPAVKRMSNVAVVVPKSGASLWADLWAIPAASRLETKQIGGRVRGPSPLIHQW  161 (273)
Q Consensus        82 ~~~~~~~~~~~~~~Gev~va~~~s~~~~~~~~~~~~v~~~~P~eG~~~~~d~~~I~k~a~~~~~~~~~~~~~~~~~A~~F  161 (273)
                      ..|.+++..+++.+|++.+++.|++.+..+.+.+.++++.+|++|+.+|+++++|+|+|+|++            +|++|
T Consensus       182 ~~~~~~~~~~~~~~G~~~~~~~~~~~~~~~~~~~~~~~~~~p~~g~~~~~~~~~I~k~a~n~~------------~A~~f  249 (322)
T d1pota_         182 AAFNSDNPANPYMEGEVNLGMIWNGSAFVARQAGTPIDVVWPKEGGIFWMDSLAIPANAKNKE------------GALKL  249 (322)
T ss_dssp             EEECSSCTHHHHHTTSCSEEEEEHHHHHHHHTTSCCEEEECCTTCCEEEEEEEBCBTTCTTHH------------HHHHH
T ss_pred             ceeeccccccccccCcEEEEEEechhHHHHHhhccccceeeccCCceeeeeeeEEecCCCCHH------------HHHHH
Confidence            888878889999999999999999999999999999999999999999999999999999998            99999


Q ss_pred             HHHHhcHHHhchhhhhhcCCCCCChhhhhccCCChHHhcCCCCCCCCcccCCCCHHHHhhceeccCCCHHHHHHHHHHHH
Q 024047          162 IEFCLQTARALPFKQEVIPGASPSALETTLVKLPEELLKGKPSQDTNLIVGVPPAEILARCEFLEPLSEATLSDYEWLVA  241 (273)
Q Consensus       162 Infllspe~q~~~~~~~~~~~~p~~~~~a~~~l~~e~~~~~~~~~~~l~~~~p~~~~l~~~~~~~~~~~~~~~~~~~~W~  241 (273)
                      ||||+|||+|+.+++ ..+|.+++  ..+...+++++++.+        .++|+.+.+++++++.++++ ..+.|+++|+
T Consensus       250 i~fl~s~e~q~~~~~-~~g~~p~~--~~a~~~~~~e~~~~~--------~~~~~~~~~~~~~~~~~~~~-~~~~~~~~~~  317 (322)
T d1pota_         250 INFLLRPDVAKQVAE-TIGYPTPN--LAARKLLSPEVANDK--------TLYPDAETIKNGEWQNDVGA-ASSIYEEYYQ  317 (322)
T ss_dssp             HHHHHSHHHHHHHHH-HHCCCCSB--STTTTTSCHHHHTCT--------TTSCCHHHHHHSEECCCCGG-GHHHHHHHHH
T ss_pred             HHHHcCHHHHHHHHH-HhCCCCcC--HHHHhhCCHHHHhCc--------ccCCCHHHHhhCchhhcCHH-HHHHHHHHHH
Confidence            999999999999985 45777766  567888999998854        35889999999999888864 5789999999


Q ss_pred             HhhC
Q 024047          242 DLQK  245 (273)
Q Consensus       242 ~ik~  245 (273)
                      +||+
T Consensus       318 ~~~a  321 (322)
T d1pota_         318 KLKA  321 (322)
T ss_dssp             HHTT
T ss_pred             HHhC
Confidence            9985
>d1a99a_ c.94.1.1 (A:) Putrescine receptor (PotF) {Escherichia coli [TaxId: 562]} Back     information, alignment and structure
>d1xvxa_ c.94.1.1 (A:) Ferric-binding protein FbpA {Yersinia enterocolitica, YfuA [TaxId: 630]} Back     information, alignment and structure
>d1q35a_ c.94.1.1 (A:) Ferric-binding protein FbpA {Mannheimia haemolytica [TaxId: 75985]} Back     information, alignment and structure
>d1nnfa_ c.94.1.1 (A:) Ferric-binding protein FbpA {Haemophilus influenzae [TaxId: 727]} Back     information, alignment and structure
>d1y4ta_ c.94.1.1 (A:) Ferric-binding protein FbpA {Campylobacter jejuni [TaxId: 197]} Back     information, alignment and structure
>d1y9ua_ c.94.1.1 (A:) Ferric-binding protein FbpA {Bordetella pertussis [TaxId: 520]} Back     information, alignment and structure
>d1atga_ c.94.1.1 (A:) Molybdate-binding protein, ModA {Azotobacter vinelandii [TaxId: 354]} Back     information, alignment and structure
>d1sbpa_ c.94.1.1 (A:) Sulphate-binding protein {Salmonella typhimurium [TaxId: 90371]} Back     information, alignment and structure
>d1elja_ c.94.1.1 (A:) D-maltodextrin-binding protein, MBP {Archaeon Pyrococcus furiosus [TaxId: 2261]} Back     information, alignment and structure
>d1ursa_ c.94.1.1 (A:) D-maltodextrin-binding protein, MBP {Alicyclobacillus acidocaldarius [TaxId: 405212]} Back     information, alignment and structure
>d1amfa_ c.94.1.1 (A:) Molybdate-binding protein, ModA {Escherichia coli [TaxId: 562]} Back     information, alignment and structure
>d1eu8a_ c.94.1.1 (A:) D-maltodextrin-binding protein, MBP {Archaeon Thermococcus litoralis [TaxId: 2265]} Back     information, alignment and structure
>d3thia_ c.94.1.1 (A:) Thiaminase I {Paenibacillus thiaminolyticus [TaxId: 49283]} Back     information, alignment and structure
>d1laxa_ c.94.1.1 (A:) D-maltodextrin-binding protein, MBP {Escherichia coli [TaxId: 562]} Back     information, alignment and structure
>d1j1na_ c.94.1.1 (A:) Alginate-binding periplasmic protein AlgQ2 {Sphingomonas sp. [TaxId: 28214]} Back     information, alignment and structure
>d2onsa1 c.94.1.1 (A:32-342) Molybdate-binding protein, ModA {Archaeoglobus fulgidus [TaxId: 2234]} Back     information, alignment and structure
>d1twya_ c.94.1.1 (A:) ABC transporter, periplasmic substrate-binding protein VCA0807 {Vibrio cholerae [TaxId: 666]} Back     information, alignment and structure