Psyllid ID: psy1410

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------
MASSIELAQFLLIRAVELDERGRWTESLTFYQDGVTELLKHVRGLSNKGDQQKIRDKIETYINRAEVLKGKLDEKKKMGNYHEQIEIANNEKGVTYEKLFGRFLDENVEQIDVTDPYIHNKHQCYNFLQFCELAIKNCKNVKRINLLTTYADRPQHSNKTARVKQEENLKQLQESLRKMKITLNINYSNTLHDREIVLSNDWVIKIGRGLDIFCHVPEFSIGFTDLSLRPCKETVVNIFHRASLIK
ccHHHHHHHHHHHHHHHHHHcccHHHHHHHHHHHHHHHHHHccccccHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHccccccccEEccccccccHHHHHHHHHcccccEEEEcccccccHHHHHHHHHHHHHHHHccccccEEEEEEccccccccccHHHHHHHHHHHHHHHHHHHccccEEEEEEcccccccEEEEcccEEEEEcccccccccccccccccccccccccccEEEEEEEcccccc
ccHHHHHHHHHHHHHHHHcHcccHHHHHHHHHHHHHHHHHHHcccccHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHcccEEEEEEEEcccccccHHHHHHHHHccccEEEEEccHHHccHHHHHHHHHHHHHHHHcccccEEEEEEEcccccccccccccHHHHHHHHHHHHHHHHHcccEEEEEEcccccccEEEEcccEEEEEccccccEcccccEEEEcccccccccccEEEEEEEccHHcc
MASSIELAQFLLIRAVELdergrwteSLTFYQDGVTELLKHVRglsnkgdqqKIRDKIETYINRAEVLKGKldekkkmgNYHEQIEIANNEKGVTYEKLFGRFldenveqidvtdpyihnkhqCYNFLQFCELAIKNcknvkrinllttyadrpqhsnktaRVKQEENLKQLQESLRKMKITLNINYSNTLHDREIVLSNDWVikigrgldifchvpefsigftdlslrpcketVVNIFHRASLIK
MASSIELAQFLLIRAVELDERGRWTESLTFYQDGVTELLKHvrglsnkgdqqkirdkIETYINRAevlkgkldekkkMGNYHEQieiannekgvtYEKLFGRFLDENVEQIDVTDPYIHNKHQCYNFLQFCELAIKNCKNVKRINLLttyadrpqhsnktarvkqeENLKQLQESLRKMKITLNinysntlhdreIVLSNDWVIKIGRGLDIFCHVPEFSIgftdlslrpcKETVVNIfhraslik
MASSIELAQFLLIRAVELDERGRWTESLTFYQDGVTELLKHVRGLSNKGDQQKIRDKIETYINRAEVLKGKLDEKKKMGNYHEQIEIANNEKGVTYEKLFGRFLDENVEQIDVTDPYIHNKHQCYNFLQFCELAIKNCKNVKRINLLTTYADRPQHSNKTARVKQEENLKQLQESLRKMKITLNINYSNTLHDREIVLSNDWVIKIGRGLDIFCHVPEFSIGFTDLSLRPCKETVVNIFHRASLIK
*****ELAQFLLIRAVELDERGRWTESLTFYQDGVTELLKHVRGLSN*****KIRDKIETYINRAEVLKGKLD****MGNYHEQIEIANNEKGVTYEKLFGRFLDENVEQIDVTDPYIHNKHQCYNFLQFCELAIKNCKNVKRINLLTTYA**************************KMKITLNINYSNTLHDREIVLSNDWVIKIGRGLDIFCHVPEFSIGFTDLSLRPCKETVVNIFHRA****
*****ELAQFLLIRAVELDERGRWTESLTFYQDGVTELLKHVRG**********RDKIETYINRAEV*************************GVTYEKLFGRFLDENVEQIDVTDPYIHNKHQCYNFLQFCELAIKNCKNVKRINLLTTYADR**************NLKQLQESLRKMKITLNINYSNTLHDREIVLSNDWVIKIGRGLDIFCHVPEFSIGFTDLSLRPCKETVVNIFHRAS***
MASSIELAQFLLIRAVELDERGRWTESLTFYQDGVTELLKHVRGLSNKGDQQKIRDKIETYINRAEVLKGKLDEKKKMGNYHEQIEIANNEKGVTYEKLFGRFLDENVEQIDVTDPYIHNKHQCYNFLQFCELAIKNCKNVKRINLLTTYADRPQHSNKTARVKQEENLKQLQESLRKMKITLNINYSNTLHDREIVLSNDWVIKIGRGLDIFCHVPEFSIGFTDLSLRPCKETVVNIFHRASLIK
*ASSIELAQFLLIRAVELDERGRWTESLTFYQDGVTELLKHVRGLSNKGDQQKIRDKIETYINRAEVLKGKLDEKKKMGNYHEQIEIANNEKGVTYEKLFGRFLDENVEQIDVTDPYIHNKHQCYNFLQFCELAIKNCKNVKRINLLTTYADRPQHSNKTARVKQEENLKQLQESLRKMKITLNINYSNTLHDREIVLSNDWVIKIGRGLDIFCHVPEFSIGFTDLSLRPCKETVVNIFHRAS***
oooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooo
oooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooo
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oooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooohhhhhhhhhhhhhhhhiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiii
oooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooo
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MASSIELAQFLLIRAVELDERGRWTESLTFYQDGVTELLKHVRGLSNKGDQQKIRDKxxxxxxxxxxxxxxxxxxxxxGNYHEQIEIANNEKGVTYEKLFGRFLDENVEQIDVTDPYIHNKHQCYNFLQFCELAIKNCKNVKRINLLTTYADRPQHSNKTAxxxxxxxxxxxxxxxxxxxxxLNINYSNTLHDREIVLSNDWVIKIGRGLDIFCHVPEFSIGFTDLSLRPCKETVVNIFHRASLIK
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 ?
Query246 2.2.26 [Sep-21-2011]
Q8WV92249 MIT domain-containing pro yes N/A 0.922 0.911 0.440 5e-52
Q5I0J5249 MIT domain-containing pro yes N/A 0.918 0.907 0.442 1e-51
Q8VDV8249 MIT domain-containing pro yes N/A 0.918 0.907 0.438 4e-50
>sp|Q8WV92|MITD1_HUMAN MIT domain-containing protein 1 OS=Homo sapiens GN=MITD1 PE=1 SV=1 Back     alignment and function desciption
 Score =  204 bits (519), Expect = 5e-52,   Method: Compositional matrix adjust.
 Identities = 104/236 (44%), Positives = 155/236 (65%), Gaps = 9/236 (3%)

Query: 8   AQFLLIRAVELDERGRWTESLTFYQDGVTELLKHVRGLSNKGDQQKIRDKIETYINRAEV 67
           A  +L RAVELD   R+ ++L  YQ+G+  LL+ ++G  +   +  +R+KI  Y++RAE 
Sbjct: 15  AATVLKRAVELDSESRYPQALVCYQEGIDLLLQVLKGTKDNTKRCNLREKISKYMDRAEN 74

Query: 68  LKGKLDEKKKMGNYHEQIEIANNEKGVTYEKLFGRFLDENVEQIDVTDPYIHNKHQCYNF 127
           +K  LD++K+ G YH+QI+I  N  G +YE LF  +L+E V ++ + DPYI + HQ YNF
Sbjct: 75  IKKYLDQEKEDGKYHKQIKIEENATGFSYESLFREYLNETVTEVWIEDPYIRHTHQLYNF 134

Query: 128 LQFCELAIKNCKNVKRINLLTTYADRPQHSNKTARVKQEENLKQLQESLRKMKITLNINY 187
           L+FCE+ IK    VK I+LLT+  +         +V+Q   L++++ESLR   + L + Y
Sbjct: 135 LRFCEMLIKRPCKVKTIHLLTSLDE------GIEQVQQSRGLQEIEESLRSHGVLLEVQY 188

Query: 188 SNTLHDREIVLSNDWVIKIGRGLDIFCHVPE--FSIGFTDLSLRPCKETVVNIFHR 241
           S+++HDREI  +N W+IKIGRGLD F   P+  FS+G+ D  LRPC ET V+IFH+
Sbjct: 189 SSSIHDREIRFNNGWMIKIGRGLDYF-KKPQSRFSLGYCDFDLRPCHETTVDIFHK 243
May play a role in endosomal protein transport.
Homo sapiens (taxid: 9606)
>sp|Q5I0J5|MITD1_RAT MIT domain-containing protein 1 OS=Rattus norvegicus GN=Mitd1 PE=2 SV=1 Back     alignment and function description
>sp|Q8VDV8|MITD1_MOUSE MIT domain-containing protein 1 OS=Mus musculus GN=Mitd1 PE=1 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 ?
Query246
443692449245 hypothetical protein CAPTEDRAFT_154892 [ 0.914 0.918 0.454 1e-51
156403111234 predicted protein [Nematostella vectensi 0.918 0.965 0.462 1e-51
50730418250 PREDICTED: MIT domain-containing protein 0.894 0.88 0.467 2e-51
327289590239 PREDICTED: MIT domain-containing protein 0.906 0.933 0.465 2e-51
321471517245 hypothetical protein DAPPUDRAFT_302508 [ 0.918 0.922 0.45 7e-51
297266610274 PREDICTED: MIT domain-containing protein 0.922 0.828 0.444 1e-50
355565930249 hypothetical protein EGK_05603 [Macaca m 0.922 0.911 0.444 1e-50
403301339274 PREDICTED: MIT domain-containing protein 0.922 0.828 0.440 1e-50
397467502249 PREDICTED: MIT domain-containing protein 0.922 0.911 0.444 2e-50
426336557274 PREDICTED: MIT domain-containing protein 0.922 0.828 0.440 2e-50
>gi|443692449|gb|ELT94043.1| hypothetical protein CAPTEDRAFT_154892 [Capitella teleta] gi|443719275|gb|ELU09533.1| hypothetical protein CAPTEDRAFT_168922 [Capitella teleta] Back     alignment and taxonomy information
 Score =  209 bits (531), Expect = 1e-51,   Method: Compositional matrix adjust.
 Identities = 105/231 (45%), Positives = 146/231 (63%), Gaps = 6/231 (2%)

Query: 11  LLIRAVELDERGRWTESLTFYQDGVTELLKHVRGLSNKGDQQKIRDKIETYINRAEVLKG 70
           L+ RAVELD  GR+ ESLTFYQ G+ +LL   +G+++   +   R K+E Y+ RAE LK 
Sbjct: 9   LITRAVELDAEGRYDESLTFYQTGIQQLLAASKGITDPNKKIHFRKKVEEYMERAEKLKS 68

Query: 71  KLDEKKKMGNYHEQIEIANNEKGVTYEKLFGRFLDENVEQIDVTDPYIHNKHQCYNFLQF 130
            +   K+ G +HEQI+IA N  G  Y +LFGR LD  +  ++V DPYI N HQ  NFL+F
Sbjct: 69  YICRIKEAGKFHEQIQIAANATGYGYRRLFGRLLDPMLTSVEVEDPYIRNHHQILNFLRF 128

Query: 131 CELAIKNCKNVKRINLLTTYADRPQHSNKTARVKQEENLKQLQESLRKMKITLNINYSNT 190
           CE+ + +   VK I LLT   + P     T + +Q   L+++ +SL++  I L++ YS+T
Sbjct: 129 CEVLVNSEAQVKSITLLTGRDENP-----TQQREQHSKLEEIAKSLQQRNIALSVKYSST 183

Query: 191 LHDREIVLSNDWVIKIGRGLDIF-CHVPEFSIGFTDLSLRPCKETVVNIFH 240
           LHDREI  +N W+ KIGRGLD F     +F++G  DL LR C  T V+IFH
Sbjct: 184 LHDREIRFNNGWIAKIGRGLDYFKAPAGKFALGQFDLDLRQCHATTVDIFH 234

Source: Capitella teleta

Species: Capitella teleta

Genus: Capitella

Family: Capitellidae

Order: Capitellida

Class: Polychaeta

Phylum: Annelida

Superkingdom: Eukaryota
>gi|156403111|ref|XP_001639933.1| predicted protein [Nematostella vectensis] gi|156227064|gb|EDO47870.1| predicted protein [Nematostella vectensis] Back     alignment and taxonomy information
>gi|50730418|ref|XP_416894.1| PREDICTED: MIT domain-containing protein 1 [Gallus gallus] Back     alignment and taxonomy information
>gi|327289590|ref|XP_003229507.1| PREDICTED: MIT domain-containing protein 1-like [Anolis carolinensis] Back     alignment and taxonomy information
>gi|321471517|gb|EFX82490.1| hypothetical protein DAPPUDRAFT_302508 [Daphnia pulex] Back     alignment and taxonomy information
>gi|297266610|ref|XP_001103841.2| PREDICTED: MIT domain-containing protein 1-like isoform 1 [Macaca mulatta] Back     alignment and taxonomy information
>gi|355565930|gb|EHH22359.1| hypothetical protein EGK_05603 [Macaca mulatta] gi|355760594|gb|EHH61695.1| hypothetical protein EGM_19738 [Macaca fascicularis] gi|380789563|gb|AFE66657.1| MIT domain-containing protein 1 [Macaca mulatta] gi|383412497|gb|AFH29462.1| MIT domain-containing protein 1 [Macaca mulatta] Back     alignment and taxonomy information
>gi|403301339|ref|XP_003941351.1| PREDICTED: MIT domain-containing protein 1 [Saimiri boliviensis boliviensis] Back     alignment and taxonomy information
>gi|397467502|ref|XP_003805452.1| PREDICTED: MIT domain-containing protein 1 [Pan paniscus] Back     alignment and taxonomy information
>gi|426336557|ref|XP_004031535.1| PREDICTED: MIT domain-containing protein 1 [Gorilla gorilla gorilla] gi|119622291|gb|EAX01886.1| hypothetical protein BC018453, isoform CRA_c [Homo sapiens] 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 ?
Query246
UNIPROTKB|F1P5I2252 MITD1 "Uncharacterized protein 0.890 0.869 0.478 6.5e-51
UNIPROTKB|Q8WV92249 MITD1 "MIT domain-containing p 0.918 0.907 0.447 5.8e-50
RGD|1307700249 Mitd1 "MIT, microtubule intera 0.902 0.891 0.459 3.2e-49
MGI|MGI:1916278249 Mitd1 "MIT, microtubule intera 0.902 0.891 0.446 9.8e-48
UNIPROTKB|F1STE3249 MITD1 "Uncharacterized protein 0.890 0.879 0.430 2e-47
UNIPROTKB|E2RPI7249 MITD1 "Uncharacterized protein 0.918 0.907 0.432 4.2e-47
UNIPROTKB|E1BGA2248 E1BGA2 "Uncharacterized protei 0.898 0.891 0.424 1.1e-46
ZFIN|ZDB-GENE-040426-923246 mitd1 "MIT, microtubule intera 0.902 0.902 0.413 1.5e-44
UNIPROTKB|B8ZZL5197 MITD1 "MIT domain-containing p 0.471 0.588 0.413 5.7e-36
FB|FBgn0050398267 CG30398 [Drosophila melanogast 0.890 0.820 0.301 1.8e-23
UNIPROTKB|F1P5I2 MITD1 "Uncharacterized protein" [Gallus gallus (taxid:9031)] Back     alignment and assigned GO terms
 Score = 529 (191.3 bits), Expect = 6.5e-51, P = 6.5e-51
 Identities = 110/230 (47%), Positives = 155/230 (67%)

Query:    14 RAVELDERGRWTESLTFYQDGVTELLKHVRGLSNKGDQQKIRDKIETYINRAEVLKGKLD 73
             RAVELD   R+ ESL  YQ+G+  LL+ V+G  ++  +Q+ R KI  Y+ RAE +K  ++
Sbjct:    24 RAVELDLASRFQESLVCYQEGIDLLLQVVKGTKDEAKKQRYRQKISEYMTRAEDIKKHIE 83

Query:    74 EKKKMGNYHEQIEIANNEKGVTYEKLFGRFLDENVEQIDVTDPYIHNKHQCYNFLQFCEL 133
             ++K+ G YH+QI+I  N  G  YEKLF  +L E V ++ V DPYI N HQ YNFL+FCE+
Sbjct:    84 KEKQDGKYHKQIKIEENATGFGYEKLFQEYLTEIVSEVWVEDPYIRNVHQLYNFLRFCEM 143

Query:   134 AIKN-CKNVKRINLLTTYADRPQHSNKTARVKQEENLKQLQESLRKMKITLNINYSNTLH 192
              +K  CK V+ I+LLT+Y +     N   R +Q   L+++++SLR   ITLN+ +S+++H
Sbjct:   144 LVKGPCK-VRTIHLLTSYDE----GN--GRNQQTSGLEEIKQSLRNHGITLNVAFSSSIH 196

Query:   193 DREIVLSNDWVIKIGRGLDIFCHVPE--FSIGFTDLSLRPCKETVVNIFH 240
             DREI  +N W+IKIGRGLD F   P+  FSIG+ D  LRPC ET V++FH
Sbjct:   197 DREIRFNNGWMIKIGRGLDYF-KKPQGRFSIGYCDFDLRPCHETTVDVFH 245
GO:0043231 "intracellular membrane-bounded organelle" evidence=IEA
UNIPROTKB|Q8WV92 MITD1 "MIT domain-containing protein 1" [Homo sapiens (taxid:9606)] Back     alignment and assigned GO terms
RGD|1307700 Mitd1 "MIT, microtubule interacting and transport, domain containing 1" [Rattus norvegicus (taxid:10116)] Back     alignment and assigned GO terms
MGI|MGI:1916278 Mitd1 "MIT, microtubule interacting and transport, domain containing 1" [Mus musculus (taxid:10090)] Back     alignment and assigned GO terms
UNIPROTKB|F1STE3 MITD1 "Uncharacterized protein" [Sus scrofa (taxid:9823)] Back     alignment and assigned GO terms
UNIPROTKB|E2RPI7 MITD1 "Uncharacterized protein" [Canis lupus familiaris (taxid:9615)] Back     alignment and assigned GO terms
UNIPROTKB|E1BGA2 E1BGA2 "Uncharacterized protein" [Bos taurus (taxid:9913)] Back     alignment and assigned GO terms
ZFIN|ZDB-GENE-040426-923 mitd1 "MIT, microtubule interacting and transport, domain containing 1" [Danio rerio (taxid:7955)] Back     alignment and assigned GO terms
UNIPROTKB|B8ZZL5 MITD1 "MIT domain-containing protein 1" [Homo sapiens (taxid:9606)] Back     alignment and assigned GO terms
FB|FBgn0050398 CG30398 [Drosophila melanogaster (taxid:7227)] 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

ID ?Name ?Annotated EC number ?Identity ?Query coverage ?Hit coverage ?RBH(Q2H) ?RBH(H2Q) ?
Q5I0J5MITD1_RATNo assigned EC number0.44250.91860.9076yesN/A
Q8VDV8MITD1_MOUSENo assigned EC number0.43820.91860.9076yesN/A
Q8WV92MITD1_HUMANNo assigned EC number0.44060.92270.9116yesN/A

EC Number Prediction by EFICAz Software ?

No EC number assignment, probably not an enzyme!

Prediction of Functionally Associated Proteins

Conserved Domains and Related Protein Families

Conserved Domains Detected by RPS-BLAST ?

Original result of RPS-BLAST against CDD database

ID ?Alignment Graph ?Length ? Definition ? E-value ?
Query246
cd02685148 cd02685, MIT_C, MIT_C; domain found C-terminal to 5e-57
cd0268377 cd02683, MIT_1, MIT: domain contained within Micro 7e-17
pfam0421269 pfam04212, MIT, MIT (microtubule interacting and t 2e-12
cd0265675 cd02656, MIT, MIT: domain contained within Microtu 1e-11
smart0074577 smart00745, MIT, Microtubule Interacting and Traff 1e-09
cd0267875 cd02678, MIT_VPS4, MIT: domain contained within Mi 4e-07
cd0268475 cd02684, MIT_2, MIT: domain contained within Micro 1e-06
>gnl|CDD|239148 cd02685, MIT_C, MIT_C; domain found C-terminal to MIT (contained within Microtubule Interacting and Trafficking molecules) domains, as well as in some bacterial proteins Back     alignment and domain information 
 Score =  178 bits (453), Expect = 5e-57
 Identities = 67/154 (43%), Positives = 93/154 (60%), Gaps = 10/154 (6%)

Query: 90  NEKGVTYEKLFGRFLDENVEQIDVTDPYIHNKHQCYNFLQFCELAIKNCKNVKRINLLTT 149
           N  G +Y++LFG +LD+ V +I V DPYI N HQ  NFL+FCEL +K    +K I+L+T 
Sbjct: 1   NATGFSYDRLFGPYLDDGVTEITVEDPYIRNFHQIRNFLRFCELVVKPPCELKYIHLVTG 60

Query: 150 -YADRPQHSNKTARVKQEENLKQLQESLRKMKITLNINYSNTLHDREIVLSNDWVIKIGR 208
              D  +        +Q E L+++++SL    +     +S+T+HDREI   N W+IKIGR
Sbjct: 61  EDEDNGK--------QQIEALEEIKQSLASHGVEFTWEFSDTIHDREIRTDNGWIIKIGR 112

Query: 209 GLDIFCHV-PEFSIGFTDLSLRPCKETVVNIFHR 241
           GLD F     +FS+G  D   RPCK T V+IFH 
Sbjct: 113 GLDYFKPPEGKFSLGNRDQDFRPCKATEVDIFHT 146

The function of this domain is unknown. Length = 148
>gnl|CDD|239146 cd02683, MIT_1, MIT: domain contained within Microtubule Interacting and Trafficking molecules Back     alignment and domain information
>gnl|CDD|146707 pfam04212, MIT, MIT (microtubule interacting and transport) domain Back     alignment and domain information
>gnl|CDD|239121 cd02656, MIT, MIT: domain contained within Microtubule Interacting and Trafficking molecules Back     alignment and domain information
>gnl|CDD|197854 smart00745, MIT, Microtubule Interacting and Trafficking molecule domain Back     alignment and domain information
>gnl|CDD|239141 cd02678, MIT_VPS4, MIT: domain contained within Microtubule Interacting and Trafficking molecules Back     alignment and domain information
>gnl|CDD|239147 cd02684, MIT_2, MIT: domain contained within Microtubule Interacting and Trafficking molecules Back     alignment and domain information

Conserved Domains Detected by HHsearch ?

Original result of HHsearch against CDD database

ID ?Alignment Graph ?Length ? Definition ? Probability ?
Query 246
KOG4509|consensus247 100.0
cd02685148 MIT_C MIT_C; domain found C-terminal to MIT (conta 100.0
cd0268377 MIT_1 MIT: domain contained within Microtubule Int 99.87
cd0268475 MIT_2 MIT: domain contained within Microtubule Int 99.83
cd0268176 MIT_calpain7_1 MIT: domain contained within Microt 99.82
cd0268275 MIT_AAA_Arch MIT: domain contained within Microtub 99.8
cd0267775 MIT_SNX15 MIT: domain contained within Microtubule 99.8
cd0267875 MIT_VPS4 MIT: domain contained within Microtubule 99.79
PF0421269 MIT: MIT (microtubule interacting and transport) d 99.77
cd0265675 MIT MIT: domain contained within Microtubule Inter 99.74
KOG0739|consensus 439 99.72
smart0074577 MIT Microtubule Interacting and Trafficking molecu 99.7
cd0268075 MIT_calpain7_2 MIT: domain contained within Microt 99.65
cd0267979 MIT_spastin MIT: domain contained within Microtubu 97.23
PF08969115 USP8_dimer: USP8 dimerisation domain; InterPro: IP 96.4
PF0051534 TPR_1: Tetratricopeptide repeat; InterPro: IPR0014 93.53
PF12063238 DUF3543: Domain of unknown function (DUF3543); Int 90.03
PF1317636 TPR_7: Tetratricopeptide repeat; PDB: 3SF4_C 3RO3_ 89.46
PF1318134 TPR_8: Tetratricopeptide repeat; PDB: 3GW4_B 3MA5_ 88.1
PF0771934 TPR_2: Tetratricopeptide repeat; InterPro: IPR0131 87.01
PF1341469 TPR_11: TPR repeat; PDB: 2HO1_B 2FI7_B 2DBA_A 3Q4A 86.19
PF1337442 TPR_10: Tetratricopeptide repeat; PDB: 3CEQ_B 3EDT 85.86
KOG2709|consensus 560 85.66
>KOG4509|consensus Back     alignment and domain information 
Probab=100.00  E-value=6.4e-83  Score=548.99  Aligned_cols=233  Identities=38%  Similarity=0.717  Sum_probs=225.8

Q ss_pred             HHHHHHHHHHHHHHHhcCCHHHHHHHHHHHHHHHHHHhhcCC-ChhHHHHHHHHHHHHHHHHHHHHHhhhhhhhccCcch
Q psy1410           5 IELAQFLLIRAVELDERGRWTESLTFYQDGVTELLKHVRGLS-NKGDQQKIRDKIETYINRAEVLKGKLDEKKKMGNYHE   83 (246)
Q Consensus         5 ~~kAi~ll~rAVe~D~~g~y~EAl~lY~eaIe~Ll~~lk~e~-d~~kK~~lr~Ki~eYm~RAE~LK~~l~~~k~~g~~~~   83 (246)
                      +.+|..++++||+.|+.|+|..|+.||++||+++.+++++.+ |...|..++.+++.||+||+.|+++|+++++.|++|+
T Consensus        12 ~~aAa~iL~~AVe~d~e~k~pqALl~YkeGIdLi~e~lk~~~ldna~R~~i~~k~s~Ym~ka~diekYLdqekEdgk~~e   91 (247)
T KOG4509|consen   12 LKAAAPILCDAVEDDKEGKVPQALLCYKEGIDLIAEALKGMKLDNADRCKIMAKFSDYMDKAADIEKYLDQEKEDGKTHE   91 (247)
T ss_pred             hhhhhhHHHHHhcccccccccHHHHHHhhhHHHHHHHHccCCCcchHHHHHHHHHHHHHHHHHHHHHHhhhhccccchhh
Confidence            458999999999999999999999999999999999999998 9999999999999999999999999999999999999


Q ss_pred             hhhhcCCCCccchHHhHHHhhcccccEEEeeCCcccchhHHhhHHHHHHHHHhcCCCcceEEEee-cCCCCCCCccccch
Q psy1410          84 QIEIANNEKGVTYEKLFGRFLDENVEQIDVTDPYIHNKHQCYNFLQFCELAIKNCKNVKRINLLT-TYADRPQHSNKTAR  162 (246)
Q Consensus        84 ~~~i~en~~G~sYe~lFg~yl~~~~~~I~ieDPYIr~~hQ~~N~~~f~E~~v~~~~~~~~i~L~T-~~d~~~~~~~~~~~  162 (246)
                      |++|++|+||+||++|||.|+++++++|||+|||||..||+.||+|||||+|+.+|.++.|||+| +.|++..      .
T Consensus        92 Q~KI~~NaTG~SY~~iF~e~~dd~l~~V~ieD~YIr~~HQL~NFlRFCElli~~pckvktihLLtisL~eG~E------~  165 (247)
T KOG4509|consen   92 QIKIAANATGFSYARIFGECCDDRLREVHIEDAYIRAHHQLVNFLRFCELLIKLPCKVKTIHLLTISLDEGEE------A  165 (247)
T ss_pred             hhhhhhccCcccHHHHHHHHHhhhhheeeecchHHHHHHHHHHHHHHHHHHcccccccceEEEEEEechhhHH------H
Confidence            99999999999999999999999999999999999999999999999999999999999999999 8888763      5


Q ss_pred             HHHHHHHHHHHHHHhccCcEEEEEecCCccceEEEecCCeEEEeCCcccccccC-CCcccccCCCCCccccceEEEEEec
Q psy1410         163 VKQEENLKQLQESLRKMKITLNINYSNTLHDREIVLSNDWVIKIGRGLDIFCHV-PEFSIGFTDLSLRPCKETVVNIFHR  241 (246)
Q Consensus       163 ~~q~~~l~~i~~sl~~~gi~l~~~~~~tiHDR~I~~dnGw~IkigRGLd~fq~~-~~f~lg~~~~~~R~c~et~v~i~~~  241 (246)
                      .+|...|++|.+||+++||-|+++||+|||||+|+|||||+||||||||||++| ++||+|+||+|+||||||+|||||.
T Consensus       166 ~knq~~~eEieeSL~~~GVl~eVefSssIHDREI~FdNGWmiK~GRGLDYFK~p~~kfsLG~~DfD~RPCHET~idIfhk  245 (247)
T KOG4509|consen  166 RKNQAEFEEIEESLAKHGVLFEVEFSSSIHDREIIFDNGWMIKIGRGLDYFKAPDGKFSLGACDFDLRPCHETIIDIFHK  245 (247)
T ss_pred             HHhhhhHHHHHHHHHhcceEEEEEecccccceeEEecCceEEEecCccccccCCCCceeecccccccCchhHHHHHHhhc
Confidence            567888999999999999999999999999999999999999999999999999 9999999999999999999999998


Q ss_pred             cc
Q psy1410         242 AS  243 (246)
Q Consensus       242 ~~  243 (246)
                      ++
T Consensus       246 Kh  247 (247)
T KOG4509|consen  246 KH  247 (247)
T ss_pred             CC
Confidence            75

>cd02685 MIT_C MIT_C; domain found C-terminal to MIT (contained within Microtubule Interacting and Trafficking molecules) domains, as well as in some bacterial proteins Back     alignment and domain information
>cd02683 MIT_1 MIT: domain contained within Microtubule Interacting and Trafficking molecules Back     alignment and domain information
>cd02684 MIT_2 MIT: domain contained within Microtubule Interacting and Trafficking molecules Back     alignment and domain information
>cd02681 MIT_calpain7_1 MIT: domain contained within Microtubule Interacting and Trafficking molecules Back     alignment and domain information
>cd02682 MIT_AAA_Arch MIT: domain contained within Microtubule Interacting and Trafficking molecules Back     alignment and domain information
>cd02677 MIT_SNX15 MIT: domain contained within Microtubule Interacting and Trafficking molecules Back     alignment and domain information
>cd02678 MIT_VPS4 MIT: domain contained within Microtubule Interacting and Trafficking molecules Back     alignment and domain information
>PF04212 MIT: MIT (microtubule interacting and transport) domain; InterPro: IPR007330 The MIT domain is found in vacuolar sorting proteins, spastin (probable ATPase involved in the assembly or function of nuclear protein complexes), and a sorting nexin, which may play a role in intracellular trafficking Back     alignment and domain information
>cd02656 MIT MIT: domain contained within Microtubule Interacting and Trafficking molecules Back     alignment and domain information
>KOG0739|consensus Back     alignment and domain information
>smart00745 MIT Microtubule Interacting and Trafficking molecule domain Back     alignment and domain information
>cd02680 MIT_calpain7_2 MIT: domain contained within Microtubule Interacting and Trafficking molecules Back     alignment and domain information
>cd02679 MIT_spastin MIT: domain contained within Microtubule Interacting and Trafficking molecules Back     alignment and domain information
>PF08969 USP8_dimer: USP8 dimerisation domain; InterPro: IPR015063 This domain is predominantly found in the amino terminal region of Ubiquitin carboxyl-terminal hydrolase 8 (USP8) Back     alignment and domain information
>PF00515 TPR_1: Tetratricopeptide repeat; InterPro: IPR001440 The tetratrico peptide repeat (TPR) is a structural motif present in a wide range of proteins [, , ] Back     alignment and domain information
>PF12063 DUF3543: Domain of unknown function (DUF3543); InterPro: IPR022708 This domain belonging to serine/threonine-protein kinases is functionally uncharacterised Back     alignment and domain information
>PF13176 TPR_7: Tetratricopeptide repeat; PDB: 3SF4_C 3RO3_A 3RO2_A Back     alignment and domain information
>PF13181 TPR_8: Tetratricopeptide repeat; PDB: 3GW4_B 3MA5_C 2KCV_A 2KCL_A 3FP3_A 3LCA_A 3FP4_A 3FP2_A 1W3B_B 1ELW_A Back     alignment and domain information
>PF07719 TPR_2: Tetratricopeptide repeat; InterPro: IPR013105 The tetratrico peptide repeat (TPR) is a structural motif present in a wide range of proteins [, , ] Back     alignment and domain information
>PF13414 TPR_11: TPR repeat; PDB: 2HO1_B 2FI7_B 2DBA_A 3Q4A_B 2C2L_D 3Q47_B 3Q49_B 2PL2_B 3IEG_B 2FBN_A Back     alignment and domain information
>PF13374 TPR_10: Tetratricopeptide repeat; PDB: 3CEQ_B 3EDT_H 3NF1_A Back     alignment and domain information
>KOG2709|consensus 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 ?
Query246
2ymb_A257 Structures Of Mitd1 Length = 257 3e-53
4a5z_A163 Structures Of Mitd1 Length = 163 3e-35
4a5x_A86 Structures Of Mitd1 Length = 86 8e-08
1wfd_A93 Solution Structure Of Mouse Mit Domain Length = 93 4e-07
2jqh_A89 Vps4b Mit Length = 89 9e-04
>pdb|2YMB|A Chain A, Structures Of Mitd1 Length = 257 Back     alignment and structure 
Iteration: 1

 Score =  204 bits (519), Expect = 3e-53,   Method: Compositional matrix adjust.
 Identities = 104/236 (44%), Positives = 155/236 (65%), Gaps = 9/236 (3%)
Query: 8   AQFLLIRAVELDERGRWTESLTFYQDGVTELLKHVRGLSNKGDQQKIRDKIETYINRAEV 67
           A  +L RAVELD   R+ ++L  YQ+G+  LL+ ++G  +   +  +R+KI  Y++RAE 
Sbjct: 23  AATVLKRAVELDSESRYPQALVCYQEGIDLLLQVLKGTKDNTKRCNLREKISKYMDRAEN 82
Query: 68  LKGKLDEKKKMGNYHEQIEIANNEKGVTYEKLFGRFLDENVEQIDVTDPYIHNKHQCYNF 127
           +K  LD++K+ G YH+QI+I  N  G +YE LF  +L+E V ++ + DPYI + HQ YNF
Sbjct: 83  IKKYLDQEKEDGKYHKQIKIEENATGFSYESLFREYLNETVTEVWIEDPYIRHTHQLYNF 142
Query: 128 LQFCELAIKNCKNVKRINLLTTYADRPQHSNKTARVKQEENLKQLQESLRKMKITLNINY 187
           L+FCE+ IK    VK I+LLT+  +         +V+Q   L++++ESLR   + L + Y
Sbjct: 143 LRFCEMLIKRPCKVKTIHLLTSLDE------GIEQVQQSRGLQEIEESLRSHGVLLEVQY 196
Query: 188 SNTLHDREIVLSNDWVIKIGRGLDIFCHVPE--FSIGFTDLSLRPCKETVVNIFHR 241
           S+++HDREI  +N W+IKIGRGLD F   P+  FS+G+ D  LRPC ET V+IFH+
Sbjct: 197 SSSIHDREIRFNNGWMIKIGRGLDYF-KKPQSRFSLGYCDFDLRPCHETTVDIFHK 251
>pdb|4A5Z|A Chain A, Structures Of Mitd1 Length = 163 Back     alignment and structure
>pdb|4A5X|A Chain A, Structures Of Mitd1 Length = 86 Back     alignment and structure
>pdb|1WFD|A Chain A, Solution Structure Of Mouse Mit Domain Length = 93 Back     alignment and structure
>pdb|2JQH|A Chain A, Vps4b Mit Length = 89 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 ?
Query246
1wfd_A93 Hypothetical protein 1500032H18; MIT domain, struc 1e-15
2v6x_A85 Vacuolar protein sorting-associated protein 4; pro 1e-14
2cpt_A117 SKD1 protein, vacuolar sorting protein 4B; MIT, he 8e-13
2v6y_A83 AAA family ATPase, P60 katanin; MIT, VPS4, archaea 7e-10
2w2u_A83 Hypothetical P60 katanin; hydrolase transport comp 3e-09
2zan_A 444 Vacuolar protein sorting-associating protein 4B; S 6e-06
>1wfd_A Hypothetical protein 1500032H18; MIT domain, structural genomics, riken structural genomics/proteomics initiative, RSGI, unknown function; NMR {Mus musculus} SCOP: a.7.14.1 Length = 93 Back     alignment and structure
 Score = 69.2 bits (169), Expect = 1e-15
 Identities = 29/80 (36%), Positives = 46/80 (57%)

Query: 1  MASSIELAQFLLIRAVELDERGRWTESLTFYQDGVTELLKHVRGLSNKGDQQKIRDKIET 60
            S    A  +L RAVELD   R+ ++L  YQ+G+  LL+ ++G      +  +R KI  
Sbjct: 8  QDSDSTAAVAVLKRAVELDAESRYQQALVCYQEGIDMLLQVLKGTKESSKRCVLRTKISG 67

Query: 61 YINRAEVLKGKLDEKKKMGN 80
          Y++RAE +K  LD++K+ G 
Sbjct: 68 YMDRAENIKKYLDQEKEDGK 87
>2v6x_A Vacuolar protein sorting-associated protein 4; protein transport, vacuole, endosome, transport, ESCRT-III, VPS2, VPS4, SKD1, VPS4B, VPS4A; 1.98A {Saccharomyces cerevisiae} Length = 85 Back     alignment and structure
>2cpt_A SKD1 protein, vacuolar sorting protein 4B; MIT, helix bundle, structural genomics, NPPSFA; NMR {Homo sapiens} SCOP: a.7.14.1 Length = 117 Back     alignment and structure
>2v6y_A AAA family ATPase, P60 katanin; MIT, VPS4, archaea, AAA-ATPase, ATP-binding, microtubule INT and trafficking domain, nucleotide-binding; HET: SRT; 2.40A {Sulfolobus solfataricus} PDB: 2v6y_B* Length = 83 Back     alignment and structure
>2w2u_A Hypothetical P60 katanin; hydrolase transport complex, nucleotide-binding, ESCRT, AAA-ATPase, cytokinesis, ATP-binding; 2.20A {Sulfolobus acidocaldarius} Length = 83 Back     alignment and structure
>2zan_A Vacuolar protein sorting-associating protein 4B; SKD1, VPS4B, AAA ATPase, ATP-binding, coiled coil, membrane, nucleotide-binding, phosphorylation; HET: ATP; 3.00A {Mus musculus} PDB: 2zam_A* 2zao_A* 2jqh_A 2jqk_A 1wr0_A 2jq9_A 2k3w_A 1yxr_A Length = 444 Back     alignment and structure

Structure Templates Detected by HHsearch ?

Original result of HHsearch against PDB70 database

ID ?Alignment Graph ?Length ? Definition ? Probability ?
Query246
2ymb_A257 MITD1, MIT domain-containing protein 1; protein tr 100.0
4a5z_A163 MITD1, MIT domain-containing protein 1; protein tr 100.0
1wfd_A93 Hypothetical protein 1500032H18; MIT domain, struc 99.86
2w2u_A83 Hypothetical P60 katanin; hydrolase transport comp 99.84
2v6y_A83 AAA family ATPase, P60 katanin; MIT, VPS4, archaea 99.83
4a5x_A86 MITD1, MIT domain-containing protein 1; protein tr 99.83
2v6x_A85 Vacuolar protein sorting-associated protein 4; pro 99.81
2cpt_A117 SKD1 protein, vacuolar sorting protein 4B; MIT, he 99.76
2zan_A 444 Vacuolar protein sorting-associating protein 4B; S 99.44
2dl1_A116 Spartin; SPG20, MIT, structural genomics, NPPSFA, 97.47
2crb_A97 Nuclear receptor binding factor 2; NRBF-2, MIT dom 97.14
3eab_A89 Spastin; spastin, MIT, ESCRT, alternative splicing 97.12
2xze_A146 STAM-binding protein; hydrolase-protein transport 95.88
2rpa_A78 Katanin P60 ATPase-containing subunit A1; AAA ATPa 95.59
2a9u_A144 Ubiquitin carboxyl-terminal hydrolase 8; coil-COIL 95.48
2hr2_A159 Hypothetical protein; alpha-alpha superhelix fold, 93.22
3rkv_A162 Putative peptidylprolyl isomerase; structural geno 90.21
1ug7_A128 2610208M17RIK protein; hypothetical protein FLJ128 88.14
1byr_A155 Protein (endonuclease); phosphodiesterase,; 2.00A 86.96
2hr2_A159 Hypothetical protein; alpha-alpha superhelix fold, 86.79
3n71_A490 Histone lysine methyltransferase SMYD1; heart deve 85.63
2ff4_A388 Probable regulatory protein EMBR; winged-helix, te 85.31
4gcn_A127 Protein STI-1; structural genomics, PSI-biology, m 84.91
3gyz_A151 Chaperone protein IPGC; asymmetric homodimer, tetr 83.72
4gcn_A127 Protein STI-1; structural genomics, PSI-biology, m 82.3
3qwp_A429 SET and MYND domain-containing protein 3; SMYD3,SE 81.02
1zu2_A158 Mitochondrial import receptor subunit TOM20-3; TPR 80.03
>2ymb_A MITD1, MIT domain-containing protein 1; protein transport, membrane, PLD; 3.40A {Homo sapiens} Back     alignment and structure
Probab=100.00  E-value=4.1e-97  Score=665.93  Aligned_cols=237  Identities=43%  Similarity=0.792  Sum_probs=148.7

Q ss_pred             HHHHHHHHHHHHHHHHhcCCHHHHHHHHHHHHHHHHHHhhcCCChhHHHHHHHHHHHHHHHHHHHHHhhhhhhhccCcch
Q psy1410           4 SIELAQFLLIRAVELDERGRWTESLTFYQDGVTELLKHVRGLSNKGDQQKIRDKIETYINRAEVLKGKLDEKKKMGNYHE   83 (246)
Q Consensus         4 ~~~kAi~ll~rAVe~D~~g~y~EAl~lY~eaIe~Ll~~lk~e~d~~kK~~lr~Ki~eYm~RAE~LK~~l~~~k~~g~~~~   83 (246)
                      ...+|++++++||++|++|+|+||+.||++||++|++++++++|+.+|+.++.|+++||+|||+||++|++++++|++++
T Consensus        19 ~~~~Ai~lv~~AVe~D~~g~y~eAl~lY~eaIe~Ll~alk~e~d~~~k~~lr~Ki~eYl~RAE~LK~~L~k~k~~g~~~~   98 (257)
T 2ymb_A           19 QSTAAATVLKRAVELDSESRYPQALVCYQEGIDLLLQVLKGTKDNTKRCNLREKISKYMDRAENIKKYLDQEKEDGKYHK   98 (257)
T ss_dssp             ------------------------------------------------------------------------------CC
T ss_pred             hHHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHHHHHHHHhCCCHHHHHHHHHHHHHHHHHHHHHHHHHHhhhhcCceEE
Confidence            45789999999999999999999999999999999999999999999999999999999999999999999999999999


Q ss_pred             hhhhcCCCCccchHHhHHHhhcccccEEEeeCCcccchhHHhhHHHHHHHHHhcCCCcceEEEeecCCCCCCCccccchH
Q psy1410          84 QIEIANNEKGVTYEKLFGRFLDENVEQIDVTDPYIHNKHQCYNFLQFCELAIKNCKNVKRINLLTTYADRPQHSNKTARV  163 (246)
Q Consensus        84 ~~~i~en~~G~sYe~lFg~yl~~~~~~I~ieDPYIr~~hQ~~N~~~f~E~~v~~~~~~~~i~L~T~~d~~~~~~~~~~~~  163 (246)
                      |++|++|+||+||++||||||++.|++|+|+|||||.+||++||||||||+|++|++++.|||+|++|++.+      ..
T Consensus        99 ~i~I~~n~~G~sY~~lFg~yl~~~~~~i~i~DPYir~~hQ~~Nl~~f~E~~vk~~~~~~~i~L~T~~d~~~~------~~  172 (257)
T 2ymb_A           99 QIKIEENATGFSYESLFREYLNETVTEVWIEDPYIRHTHQLYNFLRFCEMLIKRPCKVKTIHLLTSLDEGIE------QV  172 (257)
T ss_dssp             EEEECTTCCSCCHHHHSSTTCSTTCCEEEEECSCCCSHHHHHHHHHHHHHHTC--CCCCEEEEEECCCSSTT------HH
T ss_pred             EEEECCCCccccHHHHHHHHHhcCCeEEEEeCceecchHHHHHHHHHHHHHhhccCccceEEEEecCCCccc------HH
Confidence            999999999999999999999877999999999999999999999999999999999999999999998764      77


Q ss_pred             HHHHHHHHHHHHHhccCcEEEEEecCCccceEEEecCCeEEEeCCcccccccC-CCcccccCCCCCccccceEEEEEecc
Q psy1410         164 KQEENLKQLQESLRKMKITLNINYSNTLHDREIVLSNDWVIKIGRGLDIFCHV-PEFSIGFTDLSLRPCKETVVNIFHRA  242 (246)
Q Consensus       164 ~q~~~l~~i~~sl~~~gi~l~~~~~~tiHDR~I~~dnGw~IkigRGLd~fq~~-~~f~lg~~~~~~R~c~et~v~i~~~~  242 (246)
                      +|.++|++|++||+++||+|+|+||+|||||+|+|||||+|+|||||||||+| ++||||+||++||+|+||+|||||++
T Consensus       173 ~q~~~l~~ik~sl~~~gi~~~~~~~~tiHDR~I~~dnGW~IkigRGLD~fq~~~~~f~lg~~d~~lR~C~et~Vdi~~~~  252 (257)
T 2ymb_A          173 QQSRGLQEIEESLRSHGVLLEVQYSSSIHDREIRFNNGWMIKIGRGLDYFKKPQSRFSLGYCDFDLRPCHETTVDIFHKK  252 (257)
T ss_dssp             HHHHHHHHHHHHHHHHTCEEEEEECTTCCCCEEEETTSEEEEESSTTCCBCCCSSTTCTTSSCTTSSCBCCEEEEEEEC-
T ss_pred             HHHHHHHHHHHHHHhCCCEEEEEECCCccceeEEecCCcEEEecCccccccCCCCcccccccccccCcceeeEEEEEecc
Confidence            89999999999999999999999999999999999999999999999999999 99999999999999999999999999


Q ss_pred             ccCC
Q psy1410         243 SLIK  246 (246)
Q Consensus       243 ~~~~  246 (246)
                      ++++
T Consensus       253 ~~~~  256 (257)
T 2ymb_A          253 HTKN  256 (257)
T ss_dssp             ----
T ss_pred             ccCC
Confidence            9875
>4a5z_A MITD1, MIT domain-containing protein 1; protein transport, ESCRT, cytokinesis, midbody; 2.30A {Homo sapiens} Back     alignment and structure
>1wfd_A Hypothetical protein 1500032H18; MIT domain, structural genomics, riken structural genomics/proteomics initiative, RSGI, unknown function; NMR {Mus musculus} SCOP: a.7.14.1 Back     alignment and structure
>2w2u_A Hypothetical P60 katanin; hydrolase transport complex, nucleotide-binding, ESCRT, AAA-ATPase, cytokinesis, ATP-binding; 2.20A {Sulfolobus acidocaldarius} Back     alignment and structure
>2v6y_A AAA family ATPase, P60 katanin; MIT, VPS4, archaea, AAA-ATPase, ATP-binding, microtubule INT and trafficking domain, nucleotide-binding; HET: SRT; 2.40A {Sulfolobus solfataricus} PDB: 2v6y_B* Back     alignment and structure
>4a5x_A MITD1, MIT domain-containing protein 1; protein transport, ESCRT, cytokinesis, midbody; HET: P15; 1.91A {Homo sapiens} Back     alignment and structure
>2v6x_A Vacuolar protein sorting-associated protein 4; protein transport, vacuole, endosome, transport, ESCRT-III, VPS2, VPS4, SKD1, VPS4B, VPS4A; 1.98A {Saccharomyces cerevisiae} Back     alignment and structure
>2cpt_A SKD1 protein, vacuolar sorting protein 4B; MIT, helix bundle, structural genomics, NPPSFA; NMR {Homo sapiens} SCOP: a.7.14.1 Back     alignment and structure
>2zan_A Vacuolar protein sorting-associating protein 4B; SKD1, VPS4B, AAA ATPase, ATP-binding, coiled coil, membrane, nucleotide-binding, phosphorylation; HET: ATP; 3.00A {Mus musculus} PDB: 2zam_A* 2zao_A* 2jqh_A 2jqk_A 1wr0_A 2jq9_A 2k3w_A 1yxr_A Back     alignment and structure
>2dl1_A Spartin; SPG20, MIT, structural genomics, NPPSFA, national project on protein structural and functional analyses; NMR {Homo sapiens} Back     alignment and structure
>2crb_A Nuclear receptor binding factor 2; NRBF-2, MIT domain, helix bundle, structural genomics, NPPSFA; NMR {Mus musculus} SCOP: a.7.16.1 Back     alignment and structure
>3eab_A Spastin; spastin, MIT, ESCRT, alternative splicing, ATP- binding, cytoplasm, disease mutation, hereditary spastic paraplegia, nucleotide-binding; 2.50A {Homo sapiens} Back     alignment and structure
>2xze_A STAM-binding protein; hydrolase-protein transport complex; 1.75A {Homo sapiens} Back     alignment and structure
>2rpa_A Katanin P60 ATPase-containing subunit A1; AAA ATPase, ATP-binding, cell cycle, cell division, cytoplas hydrolase, microtubule; NMR {Mus musculus} Back     alignment and structure
>2a9u_A Ubiquitin carboxyl-terminal hydrolase 8; coil-COIL, protease, SH3-binding, thiol protease, UBL conjugation pathway, structural genomics; 2.10A {Homo sapiens} SCOP: a.118.23.1 Back     alignment and structure
>2hr2_A Hypothetical protein; alpha-alpha superhelix fold, structural genomics, joint CENT structural genomics, JCSG, protein structure initiative; 2.54A {Chlorobium tepidum} SCOP: a.118.8.8 Back     alignment and structure
>3rkv_A Putative peptidylprolyl isomerase; structural genomics, APC102156, PSI-biology, midwest center structural genomics, MCSG; 2.41A {Caenorhabditis elegans} Back     alignment and structure
>1ug7_A 2610208M17RIK protein; hypothetical protein FLJ12806, four helical UP-and-DOWN bundle, structural genomics; NMR {Mus musculus} SCOP: a.24.24.1 Back     alignment and structure
>1byr_A Protein (endonuclease); phosphodiesterase,; 2.00A {Salmonella typhimurium} SCOP: d.136.1.1 PDB: 1bys_A Back     alignment and structure
>2hr2_A Hypothetical protein; alpha-alpha superhelix fold, structural genomics, joint CENT structural genomics, JCSG, protein structure initiative; 2.54A {Chlorobium tepidum} SCOP: a.118.8.8 Back     alignment and structure
>3n71_A Histone lysine methyltransferase SMYD1; heart development, transcription; HET: SFG MES; 2.30A {Mus musculus} Back     alignment and structure
>2ff4_A Probable regulatory protein EMBR; winged-helix, tetratricopeptide repeat, beta-sandwich, trans; HET: DNA TPO; 1.90A {Mycobacterium tuberculosis} SCOP: a.4.6.1 a.118.8.3 b.26.1.2 PDB: 2fez_A* Back     alignment and structure
>4gcn_A Protein STI-1; structural genomics, PSI-biology, midwest center for structu genomics, MCSG, tetratricopeptide repeat domain; HET: PGE; 1.85A {Caenorhabditis elegans} Back     alignment and structure
>3gyz_A Chaperone protein IPGC; asymmetric homodimer, tetratricopeptide repeat, TPR, chapero virulence; 2.15A {Shigella flexneri} PDB: 3gz1_A 3gz2_A 3ks2_A Back     alignment and structure
>4gcn_A Protein STI-1; structural genomics, PSI-biology, midwest center for structu genomics, MCSG, tetratricopeptide repeat domain; HET: PGE; 1.85A {Caenorhabditis elegans} Back     alignment and structure
>3qwp_A SET and MYND domain-containing protein 3; SMYD3,SET and MYND domain, zinc finger MYND domain-containin 1, structural genomics; HET: SAM; 1.53A {Homo sapiens} PDB: 3mek_A* 3oxg_A* 3oxf_A* 3pdn_A* 3oxl_A* 3ru0_A* Back     alignment and structure
>1zu2_A Mitochondrial import receptor subunit TOM20-3; TPR, tetratricopeptide repeat like, TPR-like, transport protein; NMR {Arabidopsis thaliana} SCOP: a.118.8.1 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 246
d1wfda_93 a.7.14.1 (A:) Hypothetical protein 1500032H18Rik { 2e-14
d1wr0a177 a.7.14.1 (A:5-81) Vacuolar sorting protein 4b (VPS 1e-10
>d1wfda_ a.7.14.1 (A:) Hypothetical protein 1500032H18Rik {Mouse (Mus musculus) [TaxId: 10090]} Length = 93 Back     information, alignment and structure

class: All alpha proteins
fold: Spectrin repeat-like
superfamily: MIT domain
family: MIT domain
domain: Hypothetical protein 1500032H18Rik
species: Mouse (Mus musculus) [TaxId: 10090]

 Score = 64.5 bits (157), Expect = 2e-14
 Identities = 28/73 (38%), Positives = 45/73 (61%)

Query: 8  AQFLLIRAVELDERGRWTESLTFYQDGVTELLKHVRGLSNKGDQQKIRDKIETYINRAEV 67
          A  +L RAVELD   R+ ++L  YQ+G+  LL+ ++G      +  +R KI  Y++RAE 
Sbjct: 15 AVAVLKRAVELDAESRYQQALVCYQEGIDMLLQVLKGTKESSKRCVLRTKISGYMDRAEN 74

Query: 68 LKGKLDEKKKMGN 80
          +K  LD++K+ G 
Sbjct: 75 IKKYLDQEKEDGK 87
>d1wr0a1 a.7.14.1 (A:5-81) Vacuolar sorting protein 4b (VPS4B, SKD1 protein) {Human (Homo sapiens) [TaxId: 9606]} Length = 77 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 ?
Query246
d1wfda_93 Hypothetical protein 1500032H18Rik {Mouse (Mus mus 99.81
d1wr0a177 Vacuolar sorting protein 4b (VPS4B, SKD1 protein) 99.77
d2crba183 Nuclear receptor binding factor 2, NRBF2, N-termin 97.91
d2a9ua1134 Ubiquitin carboxyl-terminal hydrolase 8, USH8 {Hum 96.05
d2fbna1153 Putative 70 kda peptidylprolyl isomerase PFL2275c 94.01
d1a17a_159 Protein phosphatase 5 {Human (Homo sapiens) [TaxId 89.85
d1kt1a1168 FKBP51, C-terminal domain {Monkey (Saimiri bolivie 89.32
d1p5qa1170 FKBP52 (FKBP4), C-terminal domain {Human (Homo sap 88.8
d1ihga1169 Cyclophilin 40 {Cow (Bos taurus) [TaxId: 9913]} 88.31
d1a17a_159 Protein phosphatase 5 {Human (Homo sapiens) [TaxId 85.82
d1elwa_117 Hop {Human (Homo sapiens) [TaxId: 9606]} 84.49
d2hr2a1156 Hypothetical protein CT2138 {Chlorobium tepidum [T 82.28
d2ff4a2179 Probable regulatory protein EmbR, middle domain {M 82.08
d1zu2a1145 Mitochondrial import receptor subunit tom20-3 {Tha 80.45
d1nzna_122 Mitochondria fission protein Fis1 {Human (Homo sap 80.21
d1elra_128 Hop {Human (Homo sapiens) [TaxId: 9606]} 80.07
>d1wfda_ a.7.14.1 (A:) Hypothetical protein 1500032H18Rik {Mouse (Mus musculus) [TaxId: 10090]} Back     information, alignment and structure
class: All alpha proteins
fold: Spectrin repeat-like
superfamily: MIT domain
family: MIT domain
domain: Hypothetical protein 1500032H18Rik
species: Mouse (Mus musculus) [TaxId: 10090]

Probab=99.81  E-value=5.5e-20  Score=140.16  Aligned_cols=77  Identities=38%  Similarity=0.585  Sum_probs=72.7

Q ss_pred             hHHHHHHHHHHHHHHHHhcCCHHHHHHHHHHHHHHHHHHhhcCCChhHHHHHHHHHHHHHHHHHHHHHhhhhhhhcc
Q psy1410           3 SSIELAQFLLIRAVELDERGRWTESLTFYQDGVTELLKHVRGLSNKGDQQKIRDKIETYINRAEVLKGKLDEKKKMG   79 (246)
Q Consensus         3 ~~~~kAi~ll~rAVe~D~~g~y~EAl~lY~eaIe~Ll~~lk~e~d~~kK~~lr~Ki~eYm~RAE~LK~~l~~~k~~g   79 (246)
                      ..+.+|++++++||++|++|+|++|+.+|.+||++|+.+++.++|+.+|+.|+.|+.+||+|||+||++|...+..|
T Consensus        10 ~~~~~A~~l~~~Av~~D~~g~y~eA~~~Y~~aie~l~~~~~~e~~~~~k~~l~~k~~eYl~RAE~LK~~l~~~~~~~   86 (93)
T d1wfda_          10 SDSTAAVAVLKRAVELDAESRYQQALVCYQEGIDMLLQVLKGTKESSKRCVLRTKISGYMDRAENIKKYLDQEKEDG   86 (93)
T ss_dssp             CHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHHHHTCCCHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHT
T ss_pred             hHHHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHHHHHHhhccCCHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhcc
Confidence            35789999999999999999999999999999999999999999999999999999999999999999998766554
>d1wr0a1 a.7.14.1 (A:5-81) Vacuolar sorting protein 4b (VPS4B, SKD1 protein) {Human (Homo sapiens) [TaxId: 9606]} Back     information, alignment and structure
>d2crba1 a.7.16.1 (A:8-90) Nuclear receptor binding factor 2, NRBF2, N-terminal domain {Mouse (Mus musculus) [TaxId: 10090]} Back     information, alignment and structure
>d2a9ua1 a.118.23.1 (A:6-139) Ubiquitin carboxyl-terminal hydrolase 8, USH8 {Human (Homo sapiens) [TaxId: 9606]} Back     information, alignment and structure
>d2fbna1 a.118.8.1 (A:22-174) Putative 70 kda peptidylprolyl isomerase PFL2275c {Plasmodium falciparum [TaxId: 5833]} Back     information, alignment and structure
>d1a17a_ a.118.8.1 (A:) Protein phosphatase 5 {Human (Homo sapiens) [TaxId: 9606]} Back     information, alignment and structure
>d1kt1a1 a.118.8.1 (A:254-421) FKBP51, C-terminal domain {Monkey (Saimiri boliviensis) [TaxId: 27679]} Back     information, alignment and structure
>d1p5qa1 a.118.8.1 (A:258-427) FKBP52 (FKBP4), C-terminal domain {Human (Homo sapiens) [TaxId: 9606]} Back     information, alignment and structure
>d1ihga1 a.118.8.1 (A:197-365) Cyclophilin 40 {Cow (Bos taurus) [TaxId: 9913]} Back     information, alignment and structure
>d1a17a_ a.118.8.1 (A:) Protein phosphatase 5 {Human (Homo sapiens) [TaxId: 9606]} Back     information, alignment and structure
>d1elwa_ a.118.8.1 (A:) Hop {Human (Homo sapiens) [TaxId: 9606]} Back     information, alignment and structure
>d2hr2a1 a.118.8.8 (A:2-157) Hypothetical protein CT2138 {Chlorobium tepidum [TaxId: 1097]} Back     information, alignment and structure
>d2ff4a2 a.118.8.3 (A:105-283) Probable regulatory protein EmbR, middle domain {Mycobacterium tuberculosis [TaxId: 1773]} Back     information, alignment and structure
>d1zu2a1 a.118.8.1 (A:1-145) Mitochondrial import receptor subunit tom20-3 {Thale cress (Arabidopsis thaliana) [TaxId: 3702]} Back     information, alignment and structure
>d1nzna_ a.118.8.1 (A:) Mitochondria fission protein Fis1 {Human (Homo sapiens) [TaxId: 9606]} Back     information, alignment and structure
>d1elra_ a.118.8.1 (A:) Hop {Human (Homo sapiens) [TaxId: 9606]} Back     information, alignment and structure