Citrus Sinensis ID: 024305

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-------27

MSAILCGKRSFFEDNLAATSPPVSKRIRCSSSSPVRFSPPRSSRSHLLDQLAAIFPDMDNQILDRALEECGDDLDSAIRSLNELRLGSADNNLGSVAGKSDLAADANAQGVATTNGEVPSPDDPSASKVFQLDGPEWVELFVREMMSSSNIDDARARASRALEILEKSICARASAEAAQSFHQENKMLKEQVEALIQENMILKRAVSIQHERQKEYEDRSQELHHLKQLVSQYQEQLRTLEVNNYALTMHLKQAEHSNSIPGRFHPDVF

ccccccccccccccccccccccccccccccccccccccccccccccHHHHHHHHcccccHHHHHHHHHHHcccHHHHHHHHHcccccccccccccccccccHHHHHHHcccccccccccccccccccccccccHHHHHHHHHHHHHccccHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHccccccccccccc

ccEEEEccccccccccccccccccccccccccccccccccccccccHHHHHHHHcccccHHHHHHHHHHccccHHHHHHHHHHHccccHHHcccccccccHHccccccccccccccccccccccccHccccccHHHHHHHHHHHHHHcccHHHHHHHHHHHHHHHHHHHHHHccHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHcccccccccccccc

msailcgkrsffednlaatsppvskrircsssspvrfspprssrshLLDQLAAIFPDMDNQILDRALEECGDDLDSAIRSLNElrlgsadnnlgsvagksdlaadanaqgvattngevpspddpsaskvfqldgpEWVELFVREMMSSSNIDDARARASRALEILEKSICARASAEAAQSFHQENKMLKEQVEALIQENMILKRAVSIQHERQKEYEDRSQELHHLKQLVSQYQEQLRTLEVNNYALTMHLKqaehsnsipgrfhpdvf

msailcgkrsffednlaatsppvskrircsssspvrfspprssRSHLLDQLAAIFPDMDNQILDRALEECGDDLDSAIRSLNELRLGSADNNLGSVAGKSDLAADANAQGVATtngevpspddpsASKVFQLDGPEWVELFVREMMSSSNIDDARARASRALEILEKSICARASAEAAQSFHQENKMLKEQVEALIQENMILKRAVSIQHERQKEYEDRSQELHHLKQLVSQYQEQLRTLEVNNYALTMHLKqaehsnsipgrfhpdvf

MSAILCGKRSFFEDNLAATSPPVSKRIRCsssspvrfspprssrsHLLDQLAAIFPDMDNQILDRALEECGDDLDSAIRSLNELRLGSADNNLGSVAGKSDLAADANAQGVATTNGEVPSPDDPSASKVFQLDGPEWVELFVREMMSSSNIDDARARASRALEILEKSICARASAEAAQSFHQENKMLKEQVEALIQENMILKRAVSIQHERQKEYEDRSQELHHLKQLVSQYQEQLRTLEVNNYALTMHLKQAEHSNSIPGRFHPDVF

***********************************************LDQLAAIFPDMDNQILDRALEECGDD********************************************************FQLDGPEWVELFVRE*******************ILEKSIC**********************EALIQENMILKRAV********************KQLVSQYQEQLRTLEVNNYALTMH*******************

*SAILCGKRSFF*********************************HLLDQLAAIFPDMDNQILDRALEECGDDLDSAIRSLNELR*************************************************PEWVELFVREMMS*****DARARASRALEILE********************************NMILKRAVSIQH******************LVSQYQEQLRTLEVNNYALTM********************

MSAILCGKRSFFEDNLAA**************************SHLLDQLAAIFPDMDNQILDRALEECGDDLDSAIRSLNELRLGSADNNLGSVAGKSDLAADANAQGVATTNGEVPSPDDPSASKVFQLDGPEWVELFVREMMSSSNIDDARARASRALEILEKSICAR*********HQENKMLKEQVEALIQENMILKRAVSI************QELHHLKQLVSQYQEQLRTLEVNNYALTMHLKQAEHSNSIPGRFHPDVF

**********FF********************************SHLLDQLAAIFPDMDNQILDRALEECGDDLDSAIRSLNELRLGS**********************************************PEWVELFVREMMSSSNIDDARARASRALEILEKSICARASAEAAQSFHQENKMLKEQVEALIQENMILKRAVSIQHERQKEYEDRSQELHHLKQLVSQYQEQLRTLEVNNYALTMHLKQAEHS*****RF*****

ooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooo

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SSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSiiiiiiiiiiihhhhhhhhhhhhhhhhoooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooo

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MSAILCGKRSFFEDNLAATSPPVSKRIRCSSSSPVRFSPPRSSRSHLLDQLAAIFPDMDNQILDRALEECGDDLDSAIRSLNELRLGSADNNLGSVAGKSDLAADANAQGVATTNGEVPSPDDPSASKVFQLDGPEWVELFVREMMSSSNIDDARARASRALEILEKSICARASAEAxxxxxxxxxxxxxxxxxxxxxxxxxxxxVSIQHERQKExxxxxxxxxxxxxxxxxxxxxxxxxxxxNYALTMHLKQAEHSNSIPGRFHPDVF

no confident homologs detected

Close Homologs for Annotation Transfer

Close Homologs in SWISS-PROT Database Detected by BLAST

Original result of BLAST against SWISS-PROT Database

No hits with e-value below 0.001 by BLAST

Close Homologs in the Non-Redundant Database Detected by BLAST

Original result of BLAST against Nonredundant Database

GI	Alignment Graph	Length	Definition	Q cover	H cover	Identity	E-value
Query		269
225445591		283	PREDICTED: uncharacterized protein LOC10	0.992	0.943	0.736	1e-116
359484221		276	PREDICTED: uncharacterized protein LOC10	0.981	0.956	0.725	1e-111
118483552		286	unknown [Populus trichocarpa]	0.992	0.933	0.718	1e-111
118488028		285	unknown [Populus trichocarpa]	0.988	0.933	0.715	1e-109
224090347		280	predicted protein [Populus trichocarpa]	0.977	0.939	0.709	1e-107
255572465		282	conserved hypothetical protein [Ricinus	0.992	0.946	0.725	1e-104
224144158		270	predicted protein [Populus trichocarpa]	0.940	0.937	0.692	1e-104
449443051		278	PREDICTED: uncharacterized protein LOC10	0.981	0.949	0.685	1e-100
363807922		262	uncharacterized protein LOC100809549 [Gl	0.962	0.988	0.650	6e-84
297801010		264	hypothetical protein ARALYDRAFT_493566 [	0.955	0.973	0.634	1e-82

>gi\|225445591\|ref\|XP_002285400.1\| PREDICTED: uncharacterized protein LOC100250952 isoform 1 [Vitis vinifera] gi\|297738994\|emb\|CBI28239.3\| unnamed protein product [Vitis vinifera]	Back alignment and taxonomy information

 Score =  422 bits (1085), Expect = e-116,   Method: Compositional matrix adjust.
 Identities = 210/285 (73%), Positives = 238/285 (83%), Gaps = 18/285 (6%)

Query: 1   MSAILCGKRSFFEDNLAATSPPVSKRIRCSSSSPVRFSPPRS------------SRSHLL 48
           MSAI+CGKRSFFED    T+PPVSKRIRCSSSSPVRFSPPRS            S++ +L
Sbjct: 1   MSAIVCGKRSFFED--LPTTPPVSKRIRCSSSSPVRFSPPRSISASPSQSQSTASQASVL 58

Query: 49  DQLAAIFPDMDNQILDRALEECGDDLDSAIRSLNELRLGSADNNLGSVAGKSDLAADAN- 107
           D L A+FPDMD Q L++ALEECG+DLDS I+SLNELRLGSA NNLG  AG SD+  +   
Sbjct: 59  DHLRALFPDMDKQFLEKALEECGNDLDSTIKSLNELRLGSAQNNLGFGAGTSDVGLETKV 118

Query: 108 ---AQGVATTNGEVPSPDDPSASKVFQLDGPEWVELFVREMMSSSNIDDARARASRALEI 164
              +QGVA TNGEV S +DPSA K   +DG EWVELFVREMMS+SN+DDARARASRALE+
Sbjct: 119 QLQSQGVAATNGEVVSSEDPSAPKNLSMDGAEWVELFVREMMSASNMDDARARASRALEV 178

Query: 165 LEKSICARASAEAAQSFHQENKMLKEQVEALIQENMILKRAVSIQHERQKEYEDRSQELH 224
           LEKSICARASAEAAQSFHQEN MLKEQVEAL+QEN+ILKRAVSIQHERQKE E+R+QEL 
Sbjct: 179 LEKSICARASAEAAQSFHQENLMLKEQVEALLQENIILKRAVSIQHERQKESEERNQELQ 238

Query: 225 HLKQLVSQYQEQLRTLEVNNYALTMHLKQAEHSNSIPGRFHPDVF 269
           HLKQ+V+QYQEQLRTLEVNNYAL+MHL+QA+ S+SIPG FHPDVF
Sbjct: 239 HLKQVVTQYQEQLRTLEVNNYALSMHLRQAQQSSSIPGHFHPDVF 283

Source: Vitis vinifera

Species: Vitis vinifera

Genus: Vitis

Family: Vitaceae

Order: Vitales

Class:

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi\|359484221\|ref\|XP_003633082.1\| PREDICTED: uncharacterized protein LOC100250952 isoform 2 [Vitis vinifera]	Back alignment and taxonomy information

>gi\|118483552\|gb\|ABK93674.1\| unknown [Populus trichocarpa]	Back alignment and taxonomy information

>gi\|118488028\|gb\|ABK95835.1\| unknown [Populus trichocarpa]	Back alignment and taxonomy information

>gi\|224090347\|ref\|XP_002308974.1\| predicted protein [Populus trichocarpa] gi\|222854950\|gb\|EEE92497.1\| predicted protein [Populus trichocarpa]	Back alignment and taxonomy information

>gi\|255572465\|ref\|XP_002527167.1\| conserved hypothetical protein [Ricinus communis] gi\|223533432\|gb\|EEF35180.1\| conserved hypothetical protein [Ricinus communis]	Back alignment and taxonomy information

>gi\|224144158\|ref\|XP_002325204.1\| predicted protein [Populus trichocarpa] gi\|222866638\|gb\|EEF03769.1\| predicted protein [Populus trichocarpa]	Back alignment and taxonomy information

>gi\|449443051\|ref\|XP_004139294.1\| PREDICTED: uncharacterized protein LOC101217268 [Cucumis sativus]	Back alignment and taxonomy information

>gi\|363807922\|ref\|NP_001242195.1\| uncharacterized protein LOC100809549 [Glycine max] gi\|255641074\|gb\|ACU20816.1\| unknown [Glycine max]	Back alignment and taxonomy information

>gi\|297801010\|ref\|XP_002868389.1\| hypothetical protein ARALYDRAFT_493566 [Arabidopsis lyrata subsp. lyrata] gi\|297314225\|gb\|EFH44648.1\| hypothetical protein ARALYDRAFT_493566 [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
Query		269
TAIR\|locus:2181738		179	AT5G02510 "AT5G02510" [Arabido	0.624	0.938	0.346	2.9e-23

TAIR\|locus:2181738 AT5G02510 "AT5G02510" [Arabidopsis thaliana (taxid:3702)]	Back alignment and assigned GO terms

 Score = 268 (99.4 bits), Expect = 2.9e-23, P = 2.9e-23
 Identities = 63/182 (34%), Positives = 104/182 (57%)

Query:    89 ADNNLGSVAGKSDLAADANAQGVATTNGEVPSPDDPSASKVFQLDGPEWVELFVREMMSS 148
             A  +L S+    D  +D    G    +G V S +D        +DG +WV+  V EM  +
Sbjct:    11 AKESLSSILFNGD--SDRTEAGFF--DGSVESWNDED-----MIDGAKWVDRLVSEMTKA 61

Query:   149 SNIDDARARASRALEILEKSICARASAEAAQSFHQENKMLKEQVEALIQENMILKRAVSI 208
              NIDD R R +  LE LE  I  + +  A++    E   +KE +++LI +N ILKR ++ 
Sbjct:    62 INIDDMRRRVAVILEALESII--KKNTNASKKL--EYASMKESLQSLINDNQILKRVIAN 117

Query:   209 QHERQKEYEDRSQELHHLKQLVSQYQEQLRTLEVNNYALTMHLKQAEHSN-SIPGRFHPD 267
             QH+R  E E++++++ HL+ +V QYQEQ+  LE++NYA+ +HL++++    S  G   PD
Sbjct:   118 QHQRSSENEEKAKQVLHLRGVVGQYQEQVHKLELSNYAMKLHLQRSQQQQTSFSGNLPPD 177

Query:   268 VF 269
             ++
Sbjct:   178 IY 179


Parameters:
  V=100
  filter=SEG
  E=0.001

  ctxfactor=1.00

  Query                        -----  As Used  -----    -----  Computed  ----
  Frame  MatID Matrix name     Lambda    K       H      Lambda    K       H
   +0      0   BLOSUM62        0.315   0.129   0.357    same    same    same
               Q=9,R=2         0.244   0.0300  0.180     n/a     n/a     n/a

  Query
  Frame  MatID  Length  Eff.Length     E     S W   T  X   E2     S2
   +0      0      269       253   0.00083  114 3  11 23  0.48    33
                                                     32  0.47    36


Statistics:

  Database:  /share/blast/go-seqdb.fasta
   Title:  go_20130330-seqdb.fasta
   Posted:  5:47:42 AM PDT Apr 1, 2013
   Created:  5:47:42 AM PDT Apr 1, 2013
   Format:  XDF-1
   # of letters in database:  169,044,731
   # of sequences in database:  368,745
   # of database sequences satisfying E:  1
  No. of states in DFA:  596 (63 KB)
  Total size of DFA:  175 KB (2102 KB)
  Time to generate neighborhood:  0.00u 0.00s 0.00t   Elapsed:  00:00:00
  No. of threads or processors used:  24
  Search cpu time:  31.81u 0.12s 31.93t   Elapsed:  00:00:02
  Total cpu time:  31.81u 0.12s 31.93t   Elapsed:  00:00:02
  Start:  Thu May  9 23:27:07 2013   End:  Thu May  9 23:27:09 2013

GO:0003674 "molecular_function" evidence=ND

GO:0005634 "nucleus" evidence=ISM

GO:0008150 "biological_process" evidence=ND

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

Conserved Domains Detected by HHsearch

Original result of HHsearch against CDD database

ID	Alignment Graph	Length	Definition	Probability
Query		269
PF14817		632	HAUS5: HAUS augmin-like complex subunit 5	99.02
PF02845		42	CUE: CUE domain; InterPro: IPR003892 This domain m	98.33
smart00546		43	CUE Domain that may be involved in binding ubiquit	98.28
PF03474		39	DMA: DMRTA motif; InterPro: IPR005173 This region	97.49
COG3074		79	Uncharacterized protein conserved in bacteria [Fun	96.49
PF00627		37	UBA: UBA/TS-N domain; InterPro: IPR000449 UBA doma	96.12
PRK15422		79	septal ring assembly protein ZapB; Provisional	95.81
PF10205		102	KLRAQ: Predicted coiled-coil domain-containing pro	94.48
PF15619		194	Lebercilin: Ciliary protein causing Leber congenit	94.31
PF06005		72	DUF904: Protein of unknown function (DUF904); Inte	93.88
cd00194		38	UBA Ubiquitin Associated domain. The UBA domain is	93.41
PF09744		158	Jnk-SapK_ap_N: JNK_SAPK-associated protein-1; Inte	93.36
smart00165		37	UBA Ubiquitin associated domain. Present in Rad23,	93.31
PF15058		200	Speriolin_N: Speriolin N terminus	92.37
PF02403		108	Seryl_tRNA_N: Seryl-tRNA synthetase N-terminal dom	92.29
PRK10884		206	SH3 domain-containing protein; Provisional	92.11
PRK09413		121	IS2 repressor TnpA; Reviewed	90.67
PLN02678		448	seryl-tRNA synthetase	90.4
PRK05431		425	seryl-tRNA synthetase; Provisional	90.34
PHA02047		101	phage lambda Rz1-like protein	90.13
KOG4005		292	consensus Transcription factor XBP-1 [Transcriptio	89.79
TIGR00414		418	serS seryl-tRNA synthetase. This model represents	89.07
TIGR03495		135	phage_LysB phage lysis regulatory protein, LysB fa	88.74
PF05010		207	TACC: Transforming acidic coiled-coil-containing p	88.58
KOG1853		333	consensus LIS1-interacting protein NUDE [Cytoskele	88.19
PF13747		89	DUF4164: Domain of unknown function (DUF4164)	87.9
PF13851		201	GAS: Growth-arrest specific micro-tubule binding	87.35
PF07058		351	Myosin_HC-like: Myosin II heavy chain-like; InterP	86.93
PF10473		140	CENP-F_leu_zip: Leucine-rich repeats of kinetochor	86.62
PF04111		314	APG6: Autophagy protein Apg6; InterPro: IPR007243	86.38
PF14555		43	UBA_4: UBA-like domain; PDB: 2DAL_A 3BQ3_A 2L4E_A	84.73
PLN02320		502	seryl-tRNA synthetase	83.62
PF10226		195	DUF2216: Uncharacterized conserved proteins (DUF22	83.57
PRK13182		175	racA polar chromosome segregation protein; Reviewe	83.56
PF15058		200	Speriolin_N: Speriolin N terminus	83.27
PRK11637		428	AmiB activator; Provisional	83.12
PF11559		151	ADIP: Afadin- and alpha -actinin-Binding; InterPro	82.54
PF10828		110	DUF2570: Protein of unknown function (DUF2570); In	82.53
KOG4588		267	consensus Predicted ubiquitin-conjugating enzyme [	82.12
KOG0241		1714	consensus Kinesin-like protein [Cytoskeleton]	81.89
PF11932		251	DUF3450: Protein of unknown function (DUF3450); In	81.59
TIGR03752		472	conj_TIGR03752 integrating conjugative element pro	81.47
KOG0971		1243	consensus Microtubule-associated protein dynactin	81.21
PF10211		189	Ax_dynein_light: Axonemal dynein light chain; Inte	80.8

>PF14817 HAUS5: HAUS augmin-like complex subunit 5	Back alignment and domain information

Probab=99.02  E-value=3.9e-09  Score=107.61  Aligned_cols=122  Identities=28%  Similarity=0.309  Sum_probs=105.8

Q ss_pred             CcchHHHHHHHHHh-cCCChHHHHHHHHHHHHHHHHHHHHHhhHHHHHhhHHHhHHHHHHHHHHHHHHHHHHHHHHHHHH
Q 024305          133 DGPEWVELFVREMM-SSSNIDDARARASRALEILEKSICARASAEAAQSFHQENKMLKEQVEALIQENMILKRAVSIQHE  211 (269)
Q Consensus       133 ~g~eWVEl~V~EM~-~Asd~dDAraRAsRvLEafEksi~~ra~ae~~~~~~kEn~~LK~ql~~l~~eN~iLKRAv~IQhe  211 (269)
                      .|-.+|.-||.|.+ --....+...|..+.++..|+.+...+..++. .+..|..+||..++.|..+...|+++++.+++
T Consensus       308 e~~a~v~q~~~e~~~l~~eaq~l~~~L~~~~~e~~~~~~~~s~~~al-~~ele~~~l~A~l~~L~se~q~L~~~~~~r~e  386 (632)
T PF14817_consen  308 EQWAHVQQFLAEEDALNKEAQALSQRLQRLLEEIERRLSGSSEREAL-ALELEVAGLKASLNALRSECQRLKEAAAERQE  386 (632)
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHccCcchhhHH-HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence            34455666655554 44458888899999999999997776665544 57779999999999999999999999999999


Q ss_pred             HHHhHHHHHHHHHHHHHHHHHHHHHHHHHHhhhHHHHHHHHHHh
Q 024305          212 RQKEYEDRSQELHHLKQLVSQYQEQLRTLEVNNYALTMHLKQAE  255 (269)
Q Consensus       212 R~~e~e~~~~El~~Lkql~~qyqEqir~LE~~NYaL~~HL~qA~  255 (269)
                      ...+++.+.|++.++++++.+||+|||+|...||++..||.+.+
T Consensus       387 ~~~~Lq~K~q~I~~frqlv~e~QeqIr~LiK~Nsaakt~L~q~~  430 (632)
T PF14817_consen  387 ALRSLQAKWQRILDFRQLVSEKQEQIRALIKGNSAAKTQLEQSP  430 (632)
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhHHHHHHHHhCh
Confidence            99999999999999999999999999999999999999998865

>PF02845 CUE: CUE domain; InterPro: IPR003892 This domain may be involved in binding ubiquitin-conjugating enzymes (UBCs)	Back alignment and domain information

>smart00546 CUE Domain that may be involved in binding ubiquitin-conjugating enzymes (UBCs)	Back alignment and domain information

>PF03474 DMA: DMRTA motif; InterPro: IPR005173 This region is found to the C terminus of the DM DNA-binding domain IPR001275 from INTERPRO []	Back alignment and domain information

>COG3074 Uncharacterized protein conserved in bacteria [Function unknown]	Back alignment and domain information

>PF00627 UBA: UBA/TS-N domain; InterPro: IPR000449 UBA domains are a commonly occurring sequence motif of approximately 45 amino acid residues that are found in diverse proteins involved in the ubiquitin/proteasome pathway, DNA excision-repair, and cell signalling via protein kinases []	Back alignment and domain information

>PRK15422 septal ring assembly protein ZapB; Provisional	Back alignment and domain information

>PF10205 KLRAQ: Predicted coiled-coil domain-containing protein; InterPro: IPR019343 This entry represents a N-terminal 100 residues long domain, which contains a conserved KLRAQ motif	Back alignment and domain information

>PF15619 Lebercilin: Ciliary protein causing Leber congenital amaurosis disease	Back alignment and domain information

>PF06005 DUF904: Protein of unknown function (DUF904); InterPro: IPR009252 Cell division protein ZapB is a non-essential, abundant cell division factor that is required for proper Z-ring formation	Back alignment and domain information

>cd00194 UBA Ubiquitin Associated domain	Back alignment and domain information

>PF09744 Jnk-SapK_ap_N: JNK_SAPK-associated protein-1; InterPro: IPR019143 This entry represents the N-terminal 200 residues of a set of proteins conserved from yeasts to humans	Back alignment and domain information

>smart00165 UBA Ubiquitin associated domain	Back alignment and domain information

>PF15058 Speriolin_N: Speriolin N terminus	Back alignment and domain information

>PF02403 Seryl_tRNA_N: Seryl-tRNA synthetase N-terminal domain; InterPro: IPR015866 The aminoacyl-tRNA synthetases (6	Back alignment and domain information

>PRK10884 SH3 domain-containing protein; Provisional	Back alignment and domain information

>PRK09413 IS2 repressor TnpA; Reviewed	Back alignment and domain information

>PLN02678 seryl-tRNA synthetase	Back alignment and domain information

>PRK05431 seryl-tRNA synthetase; Provisional	Back alignment and domain information

>PHA02047 phage lambda Rz1-like protein	Back alignment and domain information

>KOG4005 consensus Transcription factor XBP-1 [Transcription]	Back alignment and domain information

>TIGR00414 serS seryl-tRNA synthetase	Back alignment and domain information

>TIGR03495 phage_LysB phage lysis regulatory protein, LysB family	Back alignment and domain information

>PF05010 TACC: Transforming acidic coiled-coil-containing protein (TACC); InterPro: IPR007707 This family contains the proteins TACC 1, 2 and 3, found concentrated in the centrosomes of eukaryotes which may play a conserved role in organising centrosomal microtubules	Back alignment and domain information

>KOG1853 consensus LIS1-interacting protein NUDE [Cytoskeleton]	Back alignment and domain information

>PF13747 DUF4164: Domain of unknown function (DUF4164)	Back alignment and domain information

>PF13851 GAS: Growth-arrest specific micro-tubule binding	Back alignment and domain information

>PF07058 Myosin_HC-like: Myosin II heavy chain-like; InterPro: IPR009768 This family represents a conserved region within a number of myosin II heavy chain-like proteins that seem to be specific to Arabidopsis thaliana	Back alignment and domain information

>PF10473 CENP-F_leu_zip: Leucine-rich repeats of kinetochore protein Cenp-F/LEK1; InterPro: IPR019513 Cenp-F, a centromeric kinetochore, microtubule-binding protein consisting of two 1,600-amino acid-long coils, is essential for the full functioning of the mitotic checkpoint pathway [, ]	Back alignment and domain information

>PF04111 APG6: Autophagy protein Apg6; InterPro: IPR007243 Macroautophagy is a bulk degradation process induced by starvation in eukaryotic cells	Back alignment and domain information

>PF14555 UBA_4: UBA-like domain; PDB: 2DAL_A 3BQ3_A 2L4E_A 2L4F_A 2DZL_A 2L2D_A 2DAM_A 1V92_A 3E21_A	Back alignment and domain information

>PLN02320 seryl-tRNA synthetase	Back alignment and domain information

>PF10226 DUF2216: Uncharacterized conserved proteins (DUF2216); InterPro: IPR019359 Proteins in this entry are found in Metazoa and contain a coiled-coil domain	Back alignment and domain information

>PRK13182 racA polar chromosome segregation protein; Reviewed	Back alignment and domain information

>PF15058 Speriolin_N: Speriolin N terminus	Back alignment and domain information

>PRK11637 AmiB activator; Provisional	Back alignment and domain information

>PF11559 ADIP: Afadin- and alpha -actinin-Binding; InterPro: IPR021622 This family is found in mammals where it is localised at cell-cell adherens junctions [], and in Sch	Back alignment and domain information

>PF10828 DUF2570: Protein of unknown function (DUF2570); InterPro: IPR022538 This entry is represented by Bacteriophage IME08, pseT	Back alignment and domain information

>KOG4588 consensus Predicted ubiquitin-conjugating enzyme [Posttranslational modification, protein turnover, chaperones]	Back alignment and domain information

>KOG0241 consensus Kinesin-like protein [Cytoskeleton]	Back alignment and domain information

>PF11932 DUF3450: Protein of unknown function (DUF3450); InterPro: IPR016866 There is currently no experimental data for members of this group or their homologues, nor do they exhibit features indicative of any function	Back alignment and domain information

>TIGR03752 conj_TIGR03752 integrating conjugative element protein, PFL_4705 family	Back alignment and domain information

>KOG0971 consensus Microtubule-associated protein dynactin DCTN1/Glued [Cell cycle control, cell division, chromosome partitioning; Cytoskeleton]	Back alignment and domain information

>PF10211 Ax_dynein_light: Axonemal dynein light chain; InterPro: IPR019347 Axonemal dynein light chain proteins play a dynamic role in flagellar and cilial motility	Back alignment and domain information

Homologous Structure Templates

Structure Templates Detected by BLAST

Original result of BLAST against Protein Data Bank

No homologous structure with e-value below 0.005

Structure Templates Detected by RPS-BLAST

Original result of RPS-BLAST against PDB70 database

ID	Alignment Graph	Length	Definition	E-value
Query		269
1vt4_I		1221	APAF-1 related killer DARK; drosophila apoptosome,	4e-10
1vt4_I		1221	APAF-1 related killer DARK; drosophila apoptosome,	1e-08

>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

 Score = 59.1 bits (142), Expect = 4e-10
 Identities = 54/358 (15%), Positives = 109/358 (30%), Gaps = 115/358 (32%)

Query: 6   CGKRSFFEDNLAATSPPV--SKRIRCSSSSPV---RFSPPRSSRSHLLDQLAAIFPDMDN 60
            GK       +A     V  S +++C     +         S  + +L+ L  +   +D 
Sbjct: 161 SGKTW-----VALD---VCLSYKVQCKMDFKIFWLNLKNCNSPET-VLEMLQKLLYQIDP 211

Query: 61  QILDRALEECG-----DDLDSAIRSLNELR--------LGSADNNLGSVAGKSDLAA-DA 106
               R+            + + +R L + +        L    N    V       A + 
Sbjct: 212 NWTSRSDHSSNIKLRIHSIQAELRRLLKSKPYENCLLVL---LN----VQNAKAWNAFNL 264

Query: 107 NAQGVATT-NGEVPSPDDPSASKVFQLDGPEWV-------ELFV-----------REMMS 147
           + + + TT   +V      + +    LD             L +           RE+++
Sbjct: 265 SCKILLTTRFKQVTDFLSAATTTHISLDHHSMTLTPDEVKSLLLKYLDCRPQDLPREVLT 324

Query: 148 SS---------NIDDARAR--------ASRALEILEKSICARASAEAAQSFHQ-----EN 185
           ++         +I D  A           +   I+E S+     AE  + F +      +
Sbjct: 325 TNPRRLSIIAESIRDGLATWDNWKHVNCDKLTTIIESSLNVLEPAEYRKMFDRLSVFPPS 384

Query: 186 -------------KMLKEQVEALIQE----NMILKRA----VSIQHERQKEYE---DRSQ 221
                         ++K  V  ++ +    +++ K+     +SI      E +   +   
Sbjct: 385 AHIPTILLSLIWFDVIKSDVMVVVNKLHKYSLVEKQPKESTISI-PSIYLELKVKLENEY 443

Query: 222 ELHHLKQLVSQYQ-------EQLRTLEVNNYA---LTMHLKQAEHSNSIPGRFHPDVF 269
            LH  + +V  Y        + L    ++ Y    +  HLK  EH   +   F   VF
Sbjct: 444 ALH--RSIVDHYNIPKTFDSDDLIPPYLDQYFYSHIGHHLKNIEHPERMTL-F-RMVF 497

PyMOL of 1vt4

>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

Structure Templates Detected by HHsearch

Original result of HHsearch against PDB70 database

ID	Alignment Graph	Length	Definition	Probability
Query		269
1wgl_A		59	TOLL-interacting protein; CUE domain, structural g	99.06
2dhy_A		67	CUE domain-containing protein 1; structural genomi	99.05
1p3q_Q		54	VPS9P, vacuolar protein sorting-associated protein	97.95
1otr_A		49	Protein CUE2; protein-protein complex, cell cycle;	97.7
2di0_A		71	Activating signal cointegrator 1 complex subunit 2	96.36
2jee_A		81	YIIU; FTSZ, septum, coiled-coil, cell division, ce	95.94
1z96_A		40	DNA-damage, UBA-domain protein MUD1; ubiquitin, th	94.74
1vg5_A		73	RSGI RUH-014, rhomboid family protein; UBA domain,	94.62
1vej_A		74	Riken cDNA 4931431F19; UBA domain, three helix bun	94.42
2v66_B		111	Nuclear distribution protein NUDE-like 1; structur	94.05
2v71_A		189	Nuclear distribution protein NUDE-like 1; developm	93.28
2dae_A		75	KIAA0733 protein; mitogen-activated protein kinase	93.12
2g3q_A		43	Protein YBL047C; endocytosis, solution structure,	93.04
2knz_A		53	Ubiquilin-4; cytoplasm, endoplasmic reticulum, nuc	92.95
2jy5_A		52	Ubiquilin-1; UBA, alternative splicing, cytoplasm,	92.63
2dah_A		54	Ubiquilin-3; UBA domain, structural genomics, NPPS	92.45
2cpw_A		64	CBL-interacting protein STS-1 variant; ubiquitin a	91.97
1ify_A		49	HHR23A, UV excision repair protein RAD23 homolog A	91.87
2bwb_A		46	Ubiquitin-like protein DSK2; UBA, signaling protei	91.41
2ejs_A		58	Autocrine motility factor receptor, isoform 2; CUE	91.39
1wji_A		63	Tudor domain containing protein 3; UBA domain, str	91.07
1wj7_A		104	Hypothetical protein (RSGI RUH-015); UBA domain, u	89.86
1wr1_B		58	Ubiquitin-like protein DSK2; UBA domain, UBA-ubiqu	89.84
4g3o_A		58	E3 ubiquitin-protein ligase AMFR; all-helical stru	89.7
2dak_A		63	Ubiquitin carboxyl-terminal hydrolase 5; isopeptid	88.73
3hnw_A		138	Uncharacterized protein; coiled-coil, structural g	88.54
3oja_B		597	Anopheles plasmodium-responsive leucine-rich REPE	88.49
2ekf_A		61	Ancient ubiquitous protein 1; CUE, ubiquitin ligas	88.45
1veg_A		83	NEDD8 ultimate buster-1; ubiquitin associated doma	87.85
2cp9_A		64	EF-TS, EF-TSMT, elongation factor TS, mitochondria	87.79
2crn_A		64	Ubash3A protein; compact three-helix bundle, struc	86.75
2dag_A		74	Ubiquitin carboxyl-terminal hydrolase 5; isopeptid	86.7
1wiv_A		73	UBP14, ubiquitin-specific protease 14; ubiquitin a	85.92
2dq0_A		455	Seryl-tRNA synthetase; coiled-coil, homodimer, str	84.97
1whc_A		64	RSGI RUH-027, UBA/UBX 33.3 kDa protein; UBA domain	84.87
2dkl_A		85	Trinucleotide repeat containing 6C protein; TNRC6C	84.16
1ses_A		421	Seryl-tRNA synthetase; ligase; HET: AHX AMP; 2.50A	82.98
2ekk_A		47	UBA domain from E3 ubiquitin-protein ligase HUWE1;	82.69
2dai_A		83	Ubadc1, ubiquitin associated domain containing 1;	82.56
3qne_A		485	Seryl-tRNA synthetase, cytoplasmic; amino acid bio	82.39
1wle_A		501	Seryl-tRNA synthetase; ligase; HET: SRP; 1.65A {Bo	80.84
2dfs_A		1080	Myosin-5A; myosin-V, inhibited state, cryoelectron	80.79
2dna_A		67	Unnamed protein product; ubiquitin associated doma	80.67
1ci6_A		63	Transcription factor ATF-4; BZIP; 2.60A {Homo sapi	80.2

>1wgl_A TOLL-interacting protein; CUE domain, structural genomics, riken structural genomics/proteomics initiative, RSGI, immune system; NMR {Homo sapiens} SCOP: a.5.2.4	Back alignment and structure

Probab=99.06  E-value=2.1e-10  Score=83.69  Aligned_cols=48  Identities=25%  Similarity=0.417  Sum_probs=43.6

Q ss_pred             cchhHHHHHhhCCCCCHHHHHHHHHHcCccHHHHHHHHHhhhcccccC
Q 024305           44 RSHLLDQLAAIFPDMDNQILDRALEECGDDLDSAIRSLNELRLGSADN   91 (269)
Q Consensus        44 ~~~~l~~L~~lFP~md~q~le~aLe~cgndlDaAIksL~~L~L~sa~~   91 (269)
                      .+.-+.+|+.+||+||+++|+.+|++|++|+|.||+.|.++...+...
T Consensus         9 ~ee~l~~L~emFP~ld~~~I~~vL~a~~gdvd~aI~~LL~m~~~~~~~   56 (59)
T 1wgl_A            9 SEEDLKAIQDMFPNMDQEVIRSVLEAQRGNKDAAINSLLQMGEEPSGP   56 (59)
T ss_dssp             CHHHHHHHHHHCSSSCHHHHHHHHTTTTTCHHHHHHHHHHSSCCCCSC
T ss_pred             CHHHHHHHHHHCCCCCHHHHHHHHHHcCCCHHHHHHHHHcCcCCCCCC
Confidence            367799999999999999999999999999999999999988776543

PyMOL of 1wgl

>2dhy_A CUE domain-containing protein 1; structural genomics, NPPSFA, national project on protein structural and functional analyses; NMR {Homo sapiens}	Back alignment and structure

>1p3q_Q VPS9P, vacuolar protein sorting-associated protein VPS9; trafficking, post translational modification, mono- ubiquitination; 1.70A {Saccharomyces cerevisiae} SCOP: a.5.2.4 PDB: 1mn3_A	Back alignment and structure

>1otr_A Protein CUE2; protein-protein complex, cell cycle; NMR {Saccharomyces cerevisiae} SCOP: a.5.2.4	Back alignment and structure

>2di0_A Activating signal cointegrator 1 complex subunit 2; ASCC2, CUE domain, structural genomics, NPPSFA; NMR {Homo sapiens} SCOP: a.5.2.4	Back alignment and structure

>2jee_A YIIU; FTSZ, septum, coiled-coil, cell division, cell cycle, hypothetical protein; 2.8A {Escherichia coli}	Back alignment and structure

>1z96_A DNA-damage, UBA-domain protein MUD1; ubiquitin, three-helix bundle, protein transport; 1.80A {Schizosaccharomyces pombe} SCOP: a.5.2.1	Back alignment and structure

>1vg5_A RSGI RUH-014, rhomboid family protein; UBA domain, cDNA, structural genomics, riken structural genomics/proteomics initiative; NMR {Arabidopsis thaliana} SCOP: a.5.2.1	Back alignment and structure

>1vej_A Riken cDNA 4931431F19; UBA domain, three helix bundle, ubiquitin associated domain, structural genomics; NMR {Mus musculus} SCOP: a.5.2.1	Back alignment and structure

>2v66_B Nuclear distribution protein NUDE-like 1; structural protein, developmental protein, structural protei phosphorylation, transport, microtubule; 2.10A {Homo sapiens}	Back alignment and structure

>2v71_A Nuclear distribution protein NUDE-like 1; developmental protein, nuclear protein, neurogenesis, cytosk LIS1 binding, differentiation; 2.24A {Rattus norvegicus}	Back alignment and structure

>2dae_A KIAA0733 protein; mitogen-activated protein kinase kinase kinase 7 interacting protein 2, MAP3K7IP2, CUE domain, structural genomics, NPPSFA; NMR {Homo sapiens}	Back alignment and structure

>2g3q_A Protein YBL047C; endocytosis, solution structure, UBA domain, endocytosis/signaling protein complex; NMR {Saccharomyces cerevisiae} SCOP: a.5.2.1	Back alignment and structure

>2knz_A Ubiquilin-4; cytoplasm, endoplasmic reticulum, nucleus, phosphoprotein, protein binding; NMR {Mus musculus}	Back alignment and structure

>2jy5_A Ubiquilin-1; UBA, alternative splicing, cytoplasm, nucleus, phosphoprotein, proteasome, signaling protein; NMR {Homo sapiens} PDB: 2jy6_B	Back alignment and structure

>2dah_A Ubiquilin-3; UBA domain, structural genomics, NPPSFA, national project on protein structural and functional analyses; NMR {Homo sapiens} SCOP: a.5.2.1	Back alignment and structure

>2cpw_A CBL-interacting protein STS-1 variant; ubiquitin associated domain, UBA, compact three helix bundle, structural genomics, NPPSFA; NMR {Homo sapiens} SCOP: a.5.2.1	Back alignment and structure

>1ify_A HHR23A, UV excision repair protein RAD23 homolog A; ubiquitin associated domain, UBA domain, ubiquitin proteosome pathway, DNA binding protein; NMR {Homo sapiens} SCOP: a.5.2.1	Back alignment and structure

>2bwb_A Ubiquitin-like protein DSK2; UBA, signaling protein; 2.3A {Saccharomyces cerevisiae} SCOP: a.5.2.1 PDB: 2bwe_A	Back alignment and structure

>2ejs_A Autocrine motility factor receptor, isoform 2; CUE, ubiquitin ligase complex, ubiquitin-conjugating enzyme, structural genomics, NPPSFA; NMR {Homo sapiens}	Back alignment and structure

>1wji_A Tudor domain containing protein 3; UBA domain, structural genomics, riken structural genomics/proteomics initiative, RSGI, unknown function; NMR {Homo sapiens} SCOP: a.5.2.1	Back alignment and structure

>1wj7_A Hypothetical protein (RSGI RUH-015); UBA domain, ubiquitin associated domain, structural genomics, riken structural genomics/proteomics initiative; NMR {Mus musculus} SCOP: a.5.2.1	Back alignment and structure

>1wr1_B Ubiquitin-like protein DSK2; UBA domain, UBA-ubiquitin complex, signaling protein; NMR {Saccharomyces cerevisiae} SCOP: a.5.2.1	Back alignment and structure

>4g3o_A E3 ubiquitin-protein ligase AMFR; all-helical structure, BAG6; 1.60A {Homo sapiens}	Back alignment and structure

>2dak_A Ubiquitin carboxyl-terminal hydrolase 5; isopeptidase T, ubiquitin specific protease 5, USP 5, UBA domain, structural genomics, NPPSFA; NMR {Homo sapiens}	Back alignment and structure

>3hnw_A Uncharacterized protein; coiled-coil, structural genomics, PSI-2, protein structure initiative, midwest center for structural genomics, MCSG; 2.20A {Eubacterium eligens}	Back alignment and structure

>3oja_B Anopheles plasmodium-responsive leucine-rich REPE 1; coiled-coil, helix-loop-helix, leucine-rich repeat, protein; HET: NAG MAN; 2.70A {Anopheles gambiae}	Back alignment and structure

>2ekf_A Ancient ubiquitous protein 1; CUE, ubiquitin ligase complex, ubiquitin-conjugating enzyme, structural genomics, NPPSFA; NMR {Homo sapiens}	Back alignment and structure

>1veg_A NEDD8 ultimate buster-1; ubiquitin associated domain, UBA domain, three helix bundle, structural genomics; NMR {Mus musculus} SCOP: a.5.2.1	Back alignment and structure

>2cp9_A EF-TS, EF-TSMT, elongation factor TS, mitochondrial; UBA, structural genomics, human, NPPSFA; NMR {Homo sapiens} SCOP: a.5.2.2	Back alignment and structure

>2crn_A Ubash3A protein; compact three-helix bundle, structural genomics, NPPSFA, national project on protein structural and functional analyses; NMR {Homo sapiens} SCOP: a.5.2.1	Back alignment and structure

>2dag_A Ubiquitin carboxyl-terminal hydrolase 5; isopeptidase T, ubiquitin specific protease 5 (USP 5), UBA domain, structural genomics, NPPSFA; NMR {Homo sapiens}	Back alignment and structure

>1wiv_A UBP14, ubiquitin-specific protease 14; ubiquitin associated domain, UBA domain, three helix bundle, structural genomics; NMR {Arabidopsis thaliana} SCOP: a.5.2.1	Back alignment and structure

>2dq0_A Seryl-tRNA synthetase; coiled-coil, homodimer, structural genomics, NPPSFA, national project on protein structural and functional analyses; HET: SSA; 2.60A {Pyrococcus horikoshii} PDB: 2dq1_A* 2dq2_A 2zr2_A* 2zr3_A	Back alignment and structure

>1whc_A RSGI RUH-027, UBA/UBX 33.3 kDa protein; UBA domain, structural genomics, riken structural genomics/proteomics initiative, unknown function; NMR {Mus musculus} SCOP: a.5.2.1	Back alignment and structure

>2dkl_A Trinucleotide repeat containing 6C protein; TNRC6C, KIAA1582 protein, UBA domain, structural genomics, NPPSFA; NMR {Homo sapiens} SCOP: a.5.2.1	Back alignment and structure

>1ses_A Seryl-tRNA synthetase; ligase; HET: AHX AMP; 2.50A {Thermus thermophilus} SCOP: a.2.7.1 d.104.1.1 PDB: 1ser_A* 1set_A* 1sry_A	Back alignment and structure

>2ekk_A UBA domain from E3 ubiquitin-protein ligase HUWE1; ubiquitin associated domain, compact three helix bundle, structural genomics, NPPSFA; NMR {Homo sapiens}	Back alignment and structure

>2dai_A Ubadc1, ubiquitin associated domain containing 1; UBA domain, structural genomics, NPPSFA; NMR {Homo sapiens}	Back alignment and structure

>3qne_A Seryl-tRNA synthetase, cytoplasmic; amino acid biosynthesis, CTG-clade, codon ambiguity, pathoge II aminoacyl-tRNA synthetase family; 2.00A {Candida albicans} PDB: 3qo7_A* 3qo8_A* 3qo5_A	Back alignment and structure

>1wle_A Seryl-tRNA synthetase; ligase; HET: SRP; 1.65A {Bos taurus}	Back alignment and structure

>2dfs_A Myosin-5A; myosin-V, inhibited state, cryoelectron tomograp contractIle protein-transport protein complex; 24.00A {Gallus gallus}	Back alignment and structure

>2dna_A Unnamed protein product; ubiquitin associated domain, DSK2 protein, proteasome, structural genomics, NPPSFA; NMR {Mus musculus} SCOP: a.5.2.1	Back alignment and structure

>1ci6_A Transcription factor ATF-4; BZIP; 2.60A {Homo sapiens} SCOP: h.1.3.1	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		269
d1mn3a_		54	a.5.2.4 (A:) Vacuolar protein sorting-associated p	8e-04
d1wgla_		59	a.5.2.4 (A:) Toll-interacting protein {Human (Homo	0.001

>d1mn3a_ a.5.2.4 (A:) Vacuolar protein sorting-associated protein vps9 {Baker's yeast (Saccharomyces cerevisiae) [TaxId: 4932]} Length = 54	Back information, alignment and structure


class: All alpha proteins
fold: RuvA C-terminal domain-like
superfamily: UBA-like
family: CUE domain
domain: Vacuolar protein sorting-associated protein vps9
species: Baker's yeast (Saccharomyces cerevisiae) [TaxId: 4932]

 Score = 34.7 bits (80), Expect = 8e-04
 Identities = 10/44 (22%), Positives = 20/44 (45%)

Query: 41 RSSRSHLLDQLAAIFPDMDNQILDRALEECGDDLDSAIRSLNEL 84
           + R   L+ L  +FPDMD  +++         ++  + +L  L
Sbjct: 9  ENERKDTLNTLQNMFPDMDPSLIEDVCIAKKSRIEPCVDALLSL 52

PyMOL of d1mn3a_

>d1wgla_ a.5.2.4 (A:) Toll-interacting protein {Human (Homo sapiens) [TaxId: 9606]} Length = 59	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
Query		269
d1wgla_		59	Toll-interacting protein {Human (Homo sapiens) [Ta	98.32
d1mn3a_		54	Vacuolar protein sorting-associated protein vps9 {	98.26
d2di0a1		63	Activating signal cointegrator 1 complex subunit 2	95.92
d1seta1		110	Seryl-tRNA synthetase (SerRS) {Thermus thermophilu	92.8
d1vg5a_		73	Rhomboid family protein At3g58460 {Thale cress (Ar	90.79
d1xb2b1		56	Elongation factor Ts (EF-Ts), N-terminal domain {C	90.12
d1wjia_		63	Tudor domain containing protein 3, TDRD3 {Human (H	88.44
d1aipc1		52	Elongation factor Ts (EF-Ts), N-terminal domain {T	88.23
d1efub3		54	Elongation factor Ts (EF-Ts), N-terminal domain {E	87.68
d2daha1		41	Ubiquilin-3 {Human (Homo sapiens) [TaxId: 9606]}	85.21
d1wgna_		63	Ubiquitin-associated protein 1, UBAP1 {Human (Homo	83.18
d2dnaa1		50	Ubiquilin-like protein Ubqlnl {Mouse (Mus musculus	82.05
d1v92a_		46	NSFL1 (p97 ATPase) cofactor p47, UBA-like domain {	80.5

>d1wgla_ a.5.2.4 (A:) Toll-interacting protein {Human (Homo sapiens) [TaxId: 9606]}	Back information, alignment and structure

class: All alpha proteins
fold: RuvA C-terminal domain-like
superfamily: UBA-like
family: CUE domain
domain: Toll-interacting protein
species: Human (Homo sapiens) [TaxId: 9606]

Probab=98.32  E-value=5.6e-07  Score=64.26  Aligned_cols=42  Identities=29%  Similarity=0.479  Sum_probs=39.0

Q ss_pred             chhHHHHHhhCCCCCHHHHHHHHHHcCccHHHHHHHHHhhhc
Q 024305           45 SHLLDQLAAIFPDMDNQILDRALEECGDDLDSAIRSLNELRL   86 (269)
Q Consensus        45 ~~~l~~L~~lFP~md~q~le~aLe~cgndlDaAIksL~~L~L   86 (269)
                      +..+..|..+||+||+.+|+.+|++|+.++|.||..|.++.-
T Consensus        10 Ee~i~~LkeMFP~~D~~vI~~VL~a~~G~vd~aid~LL~Msd   51 (59)
T d1wgla_          10 EEDLKAIQDMFPNMDQEVIRSVLEAQRGNKDAAINSLLQMGE   51 (59)
T ss_dssp             HHHHHHHHHHCSSSCHHHHHHHHTTTTTCHHHHHHHHHHSSC
T ss_pred             HHHHHHHHHHCCCCCHHHHHHHHHHcCCCHHHHHHHHHhcCC
Confidence            567999999999999999999999999999999999988643

PyMOL of d1wgla_

>d1mn3a_ a.5.2.4 (A:) Vacuolar protein sorting-associated protein vps9 {Baker's yeast (Saccharomyces cerevisiae) [TaxId: 4932]}	Back information, alignment and structure

>d2di0a1 a.5.2.4 (A:8-70) Activating signal cointegrator 1 complex subunit 2 {Human (Homo sapiens) [TaxId: 9606]}	Back information, alignment and structure

>d1seta1 a.2.7.1 (A:1-110) Seryl-tRNA synthetase (SerRS) {Thermus thermophilus, strain hb27 [TaxId: 274]}	Back information, alignment and structure

>d1vg5a_ a.5.2.1 (A:) Rhomboid family protein At3g58460 {Thale cress (Arabidopsis thaliana) [TaxId: 3702]}	Back information, alignment and structure

>d1xb2b1 a.5.2.2 (B:56-111) Elongation factor Ts (EF-Ts), N-terminal domain {Cow (Bos taurus), mitochondrial [TaxId: 9913]}	Back information, alignment and structure

>d1wjia_ a.5.2.1 (A:) Tudor domain containing protein 3, TDRD3 {Human (Homo sapiens) [TaxId: 9606]}	Back information, alignment and structure

>d1aipc1 a.5.2.2 (C:2-53) Elongation factor Ts (EF-Ts), N-terminal domain {Thermus thermophilus [TaxId: 274]}	Back information, alignment and structure

>d1efub3 a.5.2.2 (B:1-54) Elongation factor Ts (EF-Ts), N-terminal domain {Escherichia coli [TaxId: 562]}	Back information, alignment and structure

>d2daha1 a.5.2.1 (A:8-48) Ubiquilin-3 {Human (Homo sapiens) [TaxId: 9606]}	Back information, alignment and structure

>d1wgna_ a.5.2.1 (A:) Ubiquitin-associated protein 1, UBAP1 {Human (Homo sapiens) [TaxId: 9606]}	Back information, alignment and structure

>d2dnaa1 a.5.2.1 (A:12-61) Ubiquilin-like protein Ubqlnl {Mouse (Mus musculus) [TaxId: 10090]}	Back information, alignment and structure

>d1v92a_ a.5.2.3 (A:) NSFL1 (p97 ATPase) cofactor p47, UBA-like domain {Rat (Rattus norvegicus) [TaxId: 10116]}	Back information, alignment and structure