Citrus Sinensis ID: 010400

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-------280-------290-------300-------310-------320-------330-------340-------350-------360-------370-------380-------390-------400-------410-------420-------430-------440-------450-------460-------470-------480-------490-------500-------510-

MAQDAGMFTVPQTVGSVLCCKCGIPMAPNAANMCVACLRSEVDITEGLQKHVIISHCPECDCYLQPPRTWIKAQLESKELLTFCVKRLKNLNRVRLVNAEFIWTEPHSKRIKVKLKVQKEVLNGAILEQSYVVEYVQQDHMCDSCSRVQANPDQWVAAVQLRQHVTHRRTFFYLEQLILKHDAAARAIRITQMDQGIDFFFGNRSHAVKFVEFVGKVAPVRSRHDKQLVSHDPKSNNFNYKYTFSVEISPICREDLICLPPKVAVSLGNLGPLVICMKVTNSIALLDPFTLRHCFLDADQYWRSSFKSLLTSRQLVEYIVLDVEVVSSEVNVGGSKYVLADAQVARVSDFGKNDTIFSIRTHLGHLLNPGDYALGYDLYSANNNDMELDKYKGLVLPETILIKKSYEEKRLRKRSKPRSWKLKSLDMEVDDSKGRTDQEKMNKEYEEFLRDLEENPELRFNISLYRNKDYQPSEMASVTDGEDVPSVPLDELLADLDLKSDDGEGDDSMRE

cccccccccccccccEEEEcccccccccccccccHHHHccccccccccccEEEEEEccccccEEcccccEEEccccHHHHHHHHHHHcccccccEEEcccEEEEcccccEEEEEEEEEEEEEccEEEEEEEEEEEEEEccccccccccccccccEEEEEEEcccccccHHHHHHHHHHHHHHHHHHcccEEEEcccEEEEEccHHHHHHHHHHHHccccEEEEcccEEEEcccccccEEEEEEEEEEEcccccccEEEEcHHHHHHccccccEEEEEEEEcEEEEEcccccEEEEEccccccccccccccccccEEEEEEEEEEEEccccccccccEEEEEEEEEEEccccccccEEEEEEccccccccccccccccccccccccHHHHHccccccccEEEEEcccHHHHHHHcccccccEEEEEcccccccccccHHHHHHHHHHHHHHHHHccHHHHcccccEEccccccccccccccccccccccHHHHccccccccccccccccccc

cccccccccccccccEEEEEcccccccccHHHHHHHHHHccEccccccccEEEEEEcccccHcccccccEEEEcccHHHHHHHHHHHHHccccEEEEEccEEEEcccccEEEEEEEEEHHHHccEEEEEEEEEEEEEEcccccHcHHHcccccccEEEEEEEcccccHHHHHHHHHHHHHHcccHccEEEEEccccccEEEccHHHHHHHHHHHHccccEEEccccEEEEEccccccEEEEEEEEEEEEEcccccEEEccHHHHHHHcccccEEEEEEEccEEEEEcccccEEEEccccHcccccccccccHHHcEEEEEEEEEEccccccccccEEEEEEEEEEEEccccccccEEEEEEcHHHccccccEEEEEEccccccccHHHHHccccccccEEEEEEcccHHHHHHHccccccHHHHHHHHHccccccccHHHHHHHHHHHHHHHHccHHHHHHccEEcccccccccccccccccccccccHHHHHHHcccccccccccccccc

maqdagmftvpqtvgsvlcckcgipmapnaANMCVACLRSEVDITEGLQKHViishcpecdcylqpprtwIKAQLESKELLTFCVKRLKNLNRVRLVnaefiwtephskRIKVKLKVQKEVLNGAILEQSYVVEYVQqdhmcdscsrvqanPDQWVAAVQLRQHVTHRRTFFYLEQLILKHDAAARAIRITQMDQgidfffgnrsHAVKFVEFVgkvapvrsrhdkqlvshdpksnnfnykytfsveispicredliclppkvavslgnlgpLVICMKVtnsialldpftlrhcfldadQYWRSSFKSLLTSRQLVEYIVLDVEVVSsevnvggskyvlADAQVarvsdfgkndTIFSIRTHLghllnpgdyalgydlysannndmeldkykglvlpeTILIKKSYEEKRlrkrskprswklksldmevddskgrtdqEKMNKEYEEFLRDLeenpelrfnislyrnkdyqpsemasvtdgedvpsvpldelladldlksddgegddsmre

maqdagmftvpqtVGSVLCCKCGIPMAPNAANMCVACLRSEVDITEGLQKHVIISHCPECDCYLQPPRTWIKAQLESKELLTFCVKRlknlnrvrlvnaefiwtephskrikVKLKVQKEVLNGAILEQSYVVEYVQQDHMCDSCSRVQANPDQWVAAVQLRQHVTHRRTFFYLEQLILKHDAAARAIRITQMDQGIDFFFGNRSHAVKFVEFVGkvapvrsrhdkqlvshdpksnnfnyKYTFSVEISPICREDLICLPPKVAVSLGNLGPLVICMKVTNSIALLDPFTLRHCFLDADQYWRSSFKSLLTSRQLVEYIVLDVEVVSSEVNVGGSKYVLADAQVARVSDFGKNDTIFSIRTHLGHLLNPGDYALGYDLYSANNNDMELDKYKGLVLPETILIkksyeekrlrkrskprswklksldmevddskgrtdqekMNKEYEEFlrdleenpeLRFNISLYRNKDYQPSEMASVTDGEDVPSVPLDELladldlksddgegddsmre

MAQDAGMFTVPQTVGSVLCCKCGIPMAPNAANMCVACLRSEVDITEGLQKHVIISHCPECDCYLQPPRTWIKAQLESKELLTFCVKRLKNLNRVRLVNAEFIWTEPHSKRIKVKLKVQKEVLNGAILEQSYVVEYVQQDHMCDSCSRVQANPDQWVAAVQLRQHVTHRRTFFYLEQLILKHDAAARAIRITQMDQGIDFFFGNRSHAVKFVEFVGKVAPVRSRHDKQLVSHDPKSNNFNYKYTFSVEISPICREDLICLPPKVAVSLGNLGPLVICMKVTNSIALLDPFTLRHCFLDADQYWRSSFKSLLTSRQLVEYIVLDvevvssevnvggsKYVLADAQVARVSDFGKNDTIFSIRTHLGHLLNPGDYALGYDLYSANNNDMELDKYKGLVLPETILIKKSYEEKRLRKRSKPRSWKLKSLDMEVDDSKGRTDQEKMNKEYEEFLRDLEENPELRFNISLYRNKDYQPSEMASVTDGEDVPSVPLDELLADLDLKSDDGEGDDSMRE

******MFTVPQTVGSVLCCKCGIPMAPNAANMCVACLRSEVDITEGLQKHVIISHCPECDCYLQPPRTWIKAQLESKELLTFCVKRLKNLNRVRLVNAEFIWTEPHSKRIKVKLKVQKEVLNGAILEQSYVVEYVQQDHMCDSCSRVQANPDQWVAAVQLRQHVTHRRTFFYLEQLILKHDAAARAIRITQMDQGIDFFFGNRSHAVKFVEFVGKVAPVR**************NNFNYKYTFSVEISPICREDLICLPPKVAVSLGNLGPLVICMKVTNSIALLDPFTLRHCFLDADQYWRSSFKSLLTSRQLVEYIVLDVEVVSSEVNVGGSKYVLADAQVARVSDFGKNDTIFSIRTHLGHLLNPGDYALGYDLYSANNNDMELDKYKGLVLPETILIKK*******************************************************FNISLY**********************************************

***********QTVGSVLCCKCGIPMAPNAANMCVACLRSEVDITEGLQKHVIISHCPECDCYLQPPRTWIKAQLESKELLTFCVKRLKNLNRVRLVNAEFIWTEPHSKRIKVKLKVQKEVLNGAILEQSYVVEYVQQDHMCDSCSRVQANPDQWVAAVQLRQHVTHRRTFFYLEQLILKHDAAARAIRITQMDQGIDFFFGNRSHAVKFVEFVGKVAPVRSRHDKQL*SHDPKSNNFNYKYTFSVEISPICREDLICLPPKVAVSLGNLGPLVICMKVTNSIALLDPFTLRHCFLDADQYWRSSFKSLLTSRQLVEYIVLDVEVV**********YVLADAQVARVSDFGKNDTIFSIRTHLGHLLNPGDYALGYDLYSANNNDMELDKYKGLVLPETILIK****************WKLK********************EYEEFLRDLEENPELRFNISLYRN******************SVPLDELLADLDL*************

MAQDAGMFTVPQTVGSVLCCKCGIPMAPNAANMCVACLRSEVDITEGLQKHVIISHCPECDCYLQPPRTWIKAQLESKELLTFCVKRLKNLNRVRLVNAEFIWTEPHSKRIKVKLKVQKEVLNGAILEQSYVVEYVQQDHMCDSCSRVQANPDQWVAAVQLRQHVTHRRTFFYLEQLILKHDAAARAIRITQMDQGIDFFFGNRSHAVKFVEFVGKVAPVRSRHDKQLVSHDPKSNNFNYKYTFSVEISPICREDLICLPPKVAVSLGNLGPLVICMKVTNSIALLDPFTLRHCFLDADQYWRSSFKSLLTSRQLVEYIVLDVEVVSSEVNVGGSKYVLADAQVARVSDFGKNDTIFSIRTHLGHLLNPGDYALGYDLYSANNNDMELDKYKGLVLPETILIKKSYEE***********WKLKSLDMEVDDSKGRTDQEKMNKEYEEFLRDLEENPELRFNISLYRNKDYQPS********EDVPSVPLDELLADLDLKSD**********

************TVGSVLCCKCGIPMAPNAANMCVACLRSEVDITEGLQKHVIISHCPECDCYLQPPRTWIKAQLESKELLTFCVKRLKNLNRVRLVNAEFIWTEPHSKRIKVKLKVQKEVLNGAILEQSYVVEYVQQDHMCDSCSRVQANPDQWVAAVQLRQHVTHRRTFFYLEQLILKHDAAARAIRITQMDQGIDFFFGNRSHAVKFVEFVGKVAPVRSRHDKQLVSHDPKSNNFNYKYTFSVEISPICREDLICLPPKVAVSLGNLGPLVICMKVTNSIALLDPFTLRHCFLDADQYWRSSFKSLLTSRQLVEYIVLDVEVVSSEVNVGGSKYVLADAQVARVSDFGKNDTIFSIRTHLGHLLNPGDYALGYDLYSANNNDMELDKYKGLVLPETILIKKSYEEKRLRKRSKPRSWKLKSLDMEVD****RTDQEKMNKEYEEFLRDLEENPELRFNISLYRNK****************PSVP****LADLD**************

ooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooo

ooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooHHHHHHHHHHHHHHHHHHHHHHHHiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiii

ooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooohhhhhhhhhhhhhhhhhhhiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiii

iiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiihhhhhhhhhhhhhhhhooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooo

xxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxx

MAQDAGMFTVPQTVGSVLCCKCGIPMAPNAANMCVACLRSEVDITEGLQKHVIISHCPECDCYLQPPRTWIKAQLESKELLTFCVKRLKNLNRVRLVNAEFIWTEPHSKRIKVKLKVQKEVLNGAILEQSYVVEYVQQDHMCDSCSRVQANPDQWVAAVQLRQHVTHRRTFFYLEQLILKHDAAARAIRITQMDQGIDFFFGNRSHAVKFVEFVGKVAPVRSRHDKQLVSHDPKSNNFNYKYTFSVEISPICREDLICLPPKVAVSLGNLGPLVICMKVTNSIALLDPFTLRHCFLDADQYWRSSFKSLLTSRQLVEYIVLDVEVVSSEVNVGGSKYVLADAQVARVSDFGKNDTIFSIRTHLGHLLNPGDYALGYDLYSANNNDMELDKYKGLVLPETILIKKSYEEKRLRKRSKPRSWKLKSLDMEVDDSKGxxxxxxxxxxxxxxxxxxxxxPELRFNISLYRNKDYQPSEMASVTDGEDVPSVPLDELLADLDLKSDDGEGDDSMRE

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
Query		511	2.2.26 [Sep-21-2011]
Q6P2Z6		504	60S ribosomal export prot	yes	no	0.947	0.960	0.479	1e-130
Q55BF2		530	60S ribosomal export prot	yes	no	0.890	0.858	0.474	1e-130
Q96D46		503	60S ribosomal export prot	yes	no	0.943	0.958	0.464	1e-129
Q5RC82		503	60S ribosomal export prot	yes	no	0.943	0.958	0.464	1e-128
Q99L48		503	60S ribosomal export prot	yes	no	0.954	0.970	0.454	1e-128
Q08DS5		503	60S ribosomal export prot	yes	no	0.953	0.968	0.458	1e-127
Q6GNS3		504	60S ribosomal export prot	N/A	no	0.939	0.952	0.478	1e-122
Q09817		498	60S ribosomal export prot	yes	no	0.911	0.935	0.430	1e-120
Q5BLF0		505	60S ribosomal export prot	yes	no	0.947	0.958	0.462	1e-120
P38861		518	60S ribosomal export prot	yes	no	0.945	0.932	0.413	1e-114

>sp\|Q6P2Z6\|NMD3_XENTR 60S ribosomal export protein NMD3 OS=Xenopus tropicalis GN=nmd3 PE=2 SV=1	Back alignment and function desciption

 Score =  465 bits (1197), Expect = e-130,   Method: Compositional matrix adjust.
 Identities = 242/505 (47%), Positives = 345/505 (68%), Gaps = 21/505 (4%)

Query: 15  GSVLCCKCGIPMAPNAANMCVACLRSEVDITEGLQKHVIISHCPECDCYLQPPRTWIKAQ 74
           G++LCC+CGIP+ PN ANMCV+CLR +VDI+EG+ K V +  C +C+ YLQPP TWI+  
Sbjct: 13  GNILCCQCGIPIPPNPANMCVSCLRMQVDISEGIPKQVSVHFCKQCERYLQPPGTWIQCA 72

Query: 75  LESKELLTFCVKRLK-NLNRVRLVNAEFIWTEPHSKRIKVKLKVQKEVLNGAILEQSYVV 133
           LES+ELLT C+K+LK NL++VRL++A FIWTEPHSKR+KVKL +QKEV+NGAIL+Q +VV
Sbjct: 73  LESRELLTLCLKKLKANLSKVRLIDAGFIWTEPHSKRLKVKLTIQKEVMNGAILQQVFVV 132

Query: 134 EYVQQDHMCDSCSRVQANPDQWVAAVQLRQHVTHRRTFFYLEQLILKHDAAARAIRITQM 193
           +Y+ Q  MCD C RV+A  D W A VQ+RQ V H++TF+YLEQ ILKH      +R+ ++
Sbjct: 133 DYIVQSQMCDDCHRVEAK-DFWKAVVQVRQKVLHKKTFYYLEQTILKHRLHQNTLRVKEI 191

Query: 194 DQGIDFFFGNRSHAVKFVEFVGKVAPVRSRHDKQLVSHDPKSNNFNYKYTFSVEISPICR 253
             G+DF++ ++ HA K VEF+    P R +  ++L+SHD  +N +NYK TFSVEI P+C+
Sbjct: 192 HDGLDFYYASKQHAQKMVEFLQCTVPCRFKASQRLISHDIHTNAYNYKSTFSVEIVPVCK 251

Query: 254 EDLICLPPKVAVSLGNLGPLVICMKVTNSIALLDPFTLRHCFLDADQYWRSSFKSLLTSR 313
           ++L+CL PK+A SLGN+  + IC++VT++I L+DP TL+   +D + YWRS F SL   +
Sbjct: 252 DNLVCLSPKLAQSLGNMNQICICVRVTSTIHLIDPSTLQIAEVDGNTYWRSPFNSLFHPK 311

Query: 314 QLVEYIVLDVEVVSSEVNVGGS-----KYVLADAQVARVSDFGKNDTIFSIRTHLGHLLN 368
           QL E+IV+D ++V       G+     K++LA+  V + S+       +  RTHLGHLLN
Sbjct: 312 QLEEFIVMDTDIVRDRKQAAGAGMRSNKHILAEVWVQKTSEMNTTQQ-YHCRTHLGHLLN 370

Query: 369 PGDYALGYDLYSANNNDMELDKYKGLVLPETILIKKSYEEKRLRKRSKPRSWKLKSLDME 428
           PGD  LG+DL + N ND  ++K     +P+ +LIKKSY+     KR + R+WKLK  ++E
Sbjct: 371 PGDLVLGFDLANCNLNDEFINKMNPHHIPDVVLIKKSYDRT---KRQRRRNWKLK--EIE 425

Query: 429 VDDSKGRTDQEKMNKEYEEFLRDLEENPELRFNISLYRNKDYQPSEMASVTDGEDVPSVP 488
            D     TD E   ++Y++FL DLEE+  +R N+++Y+N +  P E  S TD E  P + 
Sbjct: 426 RDREGMDTDDE---RQYQDFLEDLEEDEVIRKNVNIYKNANL-PVE--SDTDEEGAPRIS 479

Query: 489 LDELLADLDLKSD--DGEGDDSMRE 511
           L E+L DL +  D   GEG + + E
Sbjct: 480 LAEMLEDLHISLDATGGEGAEMLTE 504

Acts as an adapter for the XPO1/CRM1-mediated export of the 60S ribosomal subunit.
Xenopus tropicalis (taxid: 8364)

>sp\|Q55BF2\|NMD3_DICDI 60S ribosomal export protein NMD3 OS=Dictyostelium discoideum GN=nmd3 PE=3 SV=1	Back alignment and function description

>sp\|Q96D46\|NMD3_HUMAN 60S ribosomal export protein NMD3 OS=Homo sapiens GN=NMD3 PE=1 SV=1	Back alignment and function description

>sp\|Q5RC82\|NMD3_PONAB 60S ribosomal export protein NMD3 OS=Pongo abelii GN=NMD3 PE=2 SV=1	Back alignment and function description

>sp\|Q99L48\|NMD3_MOUSE 60S ribosomal export protein NMD3 OS=Mus musculus GN=Nmd3 PE=2 SV=1	Back alignment and function description

>sp\|Q08DS5\|NMD3_BOVIN 60S ribosomal export protein NMD3 OS=Bos taurus GN=NMD3 PE=2 SV=1	Back alignment and function description

>sp\|Q6GNS3\|NMD3_XENLA 60S ribosomal export protein NMD3 OS=Xenopus laevis GN=nmd3 PE=2 SV=1	Back alignment and function description

>sp\|Q09817\|NMD3_SCHPO 60S ribosomal export protein nmd3 OS=Schizosaccharomyces pombe (strain 972 / ATCC 24843) GN=nmd3 PE=3 SV=1	Back alignment and function description

>sp\|Q5BLF0\|NMD3_DANRE 60S ribosomal export protein NMD3 OS=Danio rerio GN=nmd3 PE=2 SV=1	Back alignment and function description

>sp\|P38861\|NMD3_YEAST 60S ribosomal export protein NMD3 OS=Saccharomyces cerevisiae (strain ATCC 204508 / S288c) GN=NMD3 PE=1 SV=3	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
Query		511
225430590		510	PREDICTED: 60S ribosomal export protein	0.998	1.0	0.857	0.0
147798057		594	hypothetical protein VITISV_003522 [Viti	0.954	0.821	0.875	0.0
255585695		511	nonsense-mediated mRNA decay protein, pu	0.998	0.998	0.820	0.0
224080157		511	predicted protein [Populus trichocarpa]	0.998	0.998	0.802	0.0
449504862		505	PREDICTED: 60S ribosomal export protein	0.988	1.0	0.812	0.0
224079509		511	predicted protein [Populus trichocarpa]	0.966	0.966	0.818	0.0
449451509		505	PREDICTED: 60S ribosomal export protein	0.988	1.0	0.810	0.0
356539804		510	PREDICTED: 60S ribosomal export protein	0.937	0.939	0.822	0.0
356569760		510	PREDICTED: 60S ribosomal export protein	0.937	0.939	0.816	0.0
357460773		505	60S ribosomal export protein NMD3 [Medic	0.968	0.980	0.778	0.0

>gi\|225430590\|ref\|XP_002265288.1\| PREDICTED: 60S ribosomal export protein NMD3-like [Vitis vinifera]	Back alignment and taxonomy information

 Score =  927 bits (2396), Expect = 0.0,   Method: Compositional matrix adjust.
 Identities = 438/511 (85%), Positives = 476/511 (93%), Gaps = 1/511 (0%)

Query: 1   MAQDAGMFTVPQTVGSVLCCKCGIPMAPNAANMCVACLRSEVDITEGLQKHVIISHCPEC 60
           MA++AGMF V QTVGSVLCCKCGIPM PNAANMCV CLRSE+DITEGLQKHV I HCPEC
Sbjct: 1   MAEEAGMFMVHQTVGSVLCCKCGIPMTPNAANMCVKCLRSEIDITEGLQKHVTIVHCPEC 60

Query: 61  DCYLQPPRTWIKAQLESKELLTFCVKRLKNLNRVRLVNAEFIWTEPHSKRIKVKLKVQKE 120
           D YLQPP+TWIKAQLESKELLTFCVKRLKNLN+VRL++AEFIWTEPHSKRIKVKL+VQKE
Sbjct: 61  DTYLQPPKTWIKAQLESKELLTFCVKRLKNLNKVRLIHAEFIWTEPHSKRIKVKLRVQKE 120

Query: 121 VLNGAILEQSYVVEYVQQDHMCDSCSRVQANPDQWVAAVQLRQHVTHRRTFFYLEQLILK 180
           VLNGAILEQ+Y+VE+VQQ+HMC+SCSRVQANPDQWVA+VQLRQHV HRRTFFYLEQLIL+
Sbjct: 121 VLNGAILEQAYIVEFVQQEHMCESCSRVQANPDQWVASVQLRQHVPHRRTFFYLEQLILR 180

Query: 181 HDAAARAIRITQMDQGIDFFFGNRSHAVKFVEFVGKVAPVRSRHDKQLVSHDPKSNNFNY 240
           HDAA RAI+I QMDQGIDFFF NRSH VKFVEF+GKV P RSRHDKQLVSHD KSNN+NY
Sbjct: 181 HDAAGRAIKIKQMDQGIDFFFANRSHGVKFVEFIGKVTPSRSRHDKQLVSHDTKSNNYNY 240

Query: 241 KYTFSVEISPICREDLICLPPKVAVSLGNLGPLVICMKVTNSIALLDPFTLRHCFLDADQ 300
           KYTFSVEI PICREDLICLPPKVAVSLGNLGPLVIC KV+N+IALLDPFTLRHCFLDADQ
Sbjct: 241 KYTFSVEICPICREDLICLPPKVAVSLGNLGPLVICTKVSNNIALLDPFTLRHCFLDADQ 300

Query: 301 YWRSSFKSLLTSRQLVEYIVLDVEVVSSEVNVGGSKYVLADAQVARVSDFGKNDTIFSIR 360
           YWRSSFK+LL+SRQLVEYIVLDVE+VSSEVNVGGSKY LADAQVARVSDFGKNDTIF+IR
Sbjct: 301 YWRSSFKALLSSRQLVEYIVLDVEIVSSEVNVGGSKYALADAQVARVSDFGKNDTIFNIR 360

Query: 361 THLGHLLNPGDYALGYDLYSANNNDMELDKYKGLVLPETILIKKSYEEKRLRKRSKPRSW 420
           THLGHLLNPGD+ALGYD+Y+AN+NDMEL+KY+G VLPE ILIKKSYEEKR RKR KPRSW
Sbjct: 361 THLGHLLNPGDHALGYDVYAANSNDMELEKYRGFVLPEAILIKKSYEEKRQRKRGKPRSW 420

Query: 421 KLKSLDMEVDDSKGRTDQEKMNKEYEEFLRDLEENPELRFNISLYRNKDYQPSEMASVTD 480
           KLKSL+MEVDDSKGR DQEKMN EYE FLRDLEE+PELRFNISLYRNK+YQPSEMAS+TD
Sbjct: 421 KLKSLNMEVDDSKGRADQEKMNTEYEVFLRDLEEDPELRFNISLYRNKEYQPSEMASMTD 480

Query: 481 GEDVPSVPLDELLADLDLKSDDGEGDDSMRE 511
           GED+PSVPL E L      S++ +GD SMRE
Sbjct: 481 GEDLPSVPL-EELLADLDLSEEEDGDVSMRE 510

Source: Vitis vinifera

Species: Vitis vinifera

Genus: Vitis

Family: Vitaceae

Order: Vitales

Class:

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi\|147798057\|emb\|CAN60703.1\| hypothetical protein VITISV_003522 [Vitis vinifera]	Back alignment and taxonomy information

>gi\|255585695\|ref\|XP_002533531.1\| nonsense-mediated mRNA decay protein, putative [Ricinus communis] gi\|223526598\|gb\|EEF28848.1\| nonsense-mediated mRNA decay protein, putative [Ricinus communis]	Back alignment and taxonomy information

>gi\|224080157\|ref\|XP_002306035.1\| predicted protein [Populus trichocarpa] gi\|222848999\|gb\|EEE86546.1\| predicted protein [Populus trichocarpa]	Back alignment and taxonomy information

>gi\|449504862\|ref\|XP_004162315.1\| PREDICTED: 60S ribosomal export protein NMD3-like [Cucumis sativus]	Back alignment and taxonomy information

>gi\|224079509\|ref\|XP_002305882.1\| predicted protein [Populus trichocarpa] gi\|222848846\|gb\|EEE86393.1\| predicted protein [Populus trichocarpa]	Back alignment and taxonomy information

>gi\|449451509\|ref\|XP_004143504.1\| PREDICTED: 60S ribosomal export protein NMD3-like [Cucumis sativus]	Back alignment and taxonomy information

>gi\|356539804\|ref\|XP_003538383.1\| PREDICTED: 60S ribosomal export protein NMD3-like [Glycine max]	Back alignment and taxonomy information

>gi\|356569760\|ref\|XP_003553064.1\| PREDICTED: 60S ribosomal export protein NMD3-like [Glycine max]	Back alignment and taxonomy information

>gi\|357460773\|ref\|XP_003600668.1\| 60S ribosomal export protein NMD3 [Medicago truncatula] gi\|355489716\|gb\|AES70919.1\| 60S ribosomal export protein NMD3 [Medicago truncatula]	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		511
TAIR\|locus:2044299		516	NMD3 "AT2G03820" [Arabidopsis	0.980	0.970	0.704	1.6e-196
UNIPROTKB\|E1BTL9		504	NMD3 "Uncharacterized protein"	0.951	0.964	0.465	3.9e-124
ZFIN\|ZDB-GENE-050320-149		505	nmd3 "NMD3 homolog (S. cerevis	0.951	0.962	0.466	1.2e-122
UNIPROTKB\|Q08DS5		503	NMD3 "60S ribosomal export pro	0.953	0.968	0.456	2.5e-120
DICTYBASE\|DDB_G0271306		530	nmd3 "60S ribosomal export pro	0.960	0.926	0.454	1.4e-119
RGD\|1308468		503	Nmd3 "NMD3 homolog (S. cerevis	0.954	0.970	0.454	1.4e-119
UNIPROTKB\|C9JA08		529	NMD3 "60S ribosomal export pro	0.939	0.907	0.458	7.7e-119
UNIPROTKB\|Q96D46		503	NMD3 "60S ribosomal export pro	0.943	0.958	0.460	7.7e-119
MGI\|MGI:2140103		503	Nmd3 "NMD3 homolog (S. cerevis	0.954	0.970	0.446	4.2e-118
UNIPROTKB\|I3LDB7		507	NMD3 "Uncharacterized protein"	0.951	0.958	0.440	8.2e-115

TAIR\|locus:2044299 NMD3 "AT2G03820" [Arabidopsis thaliana (taxid:3702)]	Back alignment and assigned GO terms

 Score = 1903 (674.9 bits), Expect = 1.6e-196, P = 1.6e-196
 Identities = 357/507 (70%), Positives = 418/507 (82%)

Query:     4 DAGMFTVPQTVGSVLCCKCGIPMAPNAANMCVACLRSEVDITEGLQKHVIISHCPECDCY 63
             ++GMF V QT+GSVLCCKCG+PMAPNAANMCV CLRSEVDITEGLQK + I +CPEC CY
Sbjct:     6 ESGMFNVQQTIGSVLCCKCGVPMAPNAANMCVNCLRSEVDITEGLQKSIQIFYCPECTCY 65

Query:    64 LQPPRTWIKAQLESKELLTFCVKRLKNLNRVRLVNAEFIWTEPHSKRIKVKLKVQKEVLN 123
             LQPP+TWIK Q ESKELLTFC+KRLKNLN+V+L NAEF+WTEPHSKRIKVKL VQ EVLN
Sbjct:    66 LQPPKTWIKCQWESKELLTFCIKRLKNLNKVKLKNAEFVWTEPHSKRIKVKLTVQAEVLN 125

Query:   124 GAILEQSYVVEYVQQDHMCDSCSRVQANPDQWVAAVQLRQHVTHRRTFFYLEQLILKHDA 183
             GA+LEQSY VEY  +D++C+SCSR QANPDQWVA++QLRQHV+HRRTFFYLEQLIL+HDA
Sbjct:   126 GAVLEQSYPVEYTVRDNLCESCSRFQANPDQWVASIQLRQHVSHRRTFFYLEQLILRHDA 185

Query:   184 AARAIRITQMDQGIDFFFGNRSHAVKFVEFVGKVAPVRSRHDKQLVSHDPKSNNFNYKYT 243
             A+RAIRI Q+DQGIDFFFGN+SHA  FVEF+ KV P+  R D+QLVSHD KS+ +NYKYT
Sbjct:   186 ASRAIRIQQVDQGIDFFFGNKSHANSFVEFLRKVVPIEYRQDQQLVSHDVKSSLYNYKYT 245

Query:   244 FSVEISPICREDLICLPPKVAVSLGNLGPLVICMKVTNSIALLDPFTLRHCFLDADQYWR 303
             +SV+I P+CREDL+CLP KVA  LGNLGPLV+C KV+++I LLDP TLR  FLDA QYWR
Sbjct:   246 YSVKICPVCREDLVCLPSKVASGLGNLGPLVVCTKVSDNITLLDPRTLRCAFLDARQYWR 305

Query:   304 SSFKSLLTSRQLVEYIVLDXXXXXXXXXXXXXKYVLADAQVARVSDFGKNDTIFSIRTHL 363
             S F+S LTSRQLV+Y V D             KY L+  Q+AR SD GK   +F ++THL
Sbjct:   306 SGFRSALTSRQLVKYFVFDVEPPVGEATVGGQKYALSYVQIARESDIGK---MFYVQTHL 362

Query:   364 GHLLNPGDYALGYDLYSANNNDMELDKYKGLV---LPETILIKKSYEEKRLRKRSKPRSW 420
             GH+L PGD ALGYD+Y AN ND E++KY+  V   LPE ILIKK YEE+R RK+ K R+W
Sbjct:   363 GHILKPGDQALGYDIYGANVNDNEMEKYRLSVKNGLPEAILIKKCYEEQRERKQKKSRNW 422

Query:   421 KLKSLDMEVDDSKGRTDQEKMNKEYEEFLRDLEENPELRFNISLYRNKDYQPSEMASVTD 480
             KLKSL ME+DDS+GR D EK +KEYEEFLRDLEENPELRFNISLYR+KDYQ SE AS+TD
Sbjct:   423 KLKSLPMEMDDSRGRVDPEKTDKEYEEFLRDLEENPELRFNISLYRDKDYQASETASMTD 482

Query:   481 GEDVPSVPLDELLADLDLKSDDGEGDD 507
             GE  PSVP++ELLADLDL  ++ + DD
Sbjct:   483 GEGAPSVPIEELLADLDLSFEEEDDDD 509

GO:0000184 "nuclear-transcribed mRNA catabolic process, nonsense-mediated decay" evidence=ISS

GO:0003674 "molecular_function" evidence=ND

GO:0005634 "nucleus" evidence=ISM;IDA

GO:0005829 "cytosol" evidence=IDA

GO:0005737 "cytoplasm" evidence=IDA

GO:0006611 "protein export from nucleus" evidence=IMP

GO:0007029 "endoplasmic reticulum organization" evidence=IMP

GO:0009834 "secondary cell wall biogenesis" evidence=IMP

UNIPROTKB\|E1BTL9 NMD3 "Uncharacterized protein" [Gallus gallus (taxid:9031)]	Back alignment and assigned GO terms

ZFIN\|ZDB-GENE-050320-149 nmd3 "NMD3 homolog (S. cerevisiae)" [Danio rerio (taxid:7955)]	Back alignment and assigned GO terms

UNIPROTKB\|Q08DS5 NMD3 "60S ribosomal export protein NMD3" [Bos taurus (taxid:9913)]	Back alignment and assigned GO terms

DICTYBASE\|DDB_G0271306 nmd3 "60S ribosomal export protein" [Dictyostelium discoideum (taxid:44689)]	Back alignment and assigned GO terms

RGD\|1308468 Nmd3 "NMD3 homolog (S. cerevisiae)" [Rattus norvegicus (taxid:10116)]	Back alignment and assigned GO terms

UNIPROTKB\|C9JA08 NMD3 "60S ribosomal export protein NMD3" [Homo sapiens (taxid:9606)]	Back alignment and assigned GO terms

UNIPROTKB\|Q96D46 NMD3 "60S ribosomal export protein NMD3" [Homo sapiens (taxid:9606)]	Back alignment and assigned GO terms

MGI\|MGI:2140103 Nmd3 "NMD3 homolog (S. cerevisiae)" [Mus musculus (taxid:10090)]	Back alignment and assigned GO terms

UNIPROTKB\|I3LDB7 NMD3 "Uncharacterized protein" [Sus scrofa (taxid:9823)]	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)
Q5BLF0	NMD3_DANRE	No assigned EC number	0.4621	0.9471	0.9584	yes	no
Q99L48	NMD3_MOUSE	No assigned EC number	0.4547	0.9549	0.9701	yes	no
Q5RC82	NMD3_PONAB	No assigned EC number	0.4641	0.9432	0.9582	yes	no
Q09817	NMD3_SCHPO	No assigned EC number	0.4308	0.9119	0.9357	yes	no
Q96D46	NMD3_HUMAN	No assigned EC number	0.4641	0.9432	0.9582	yes	no
Q08DS5	NMD3_BOVIN	No assigned EC number	0.4586	0.9530	0.9681	yes	no
P38861	NMD3_YEAST	No assigned EC number	0.4130	0.9452	0.9324	yes	no
Q6P2Z6	NMD3_XENTR	No assigned EC number	0.4792	0.9471	0.9603	yes	no
Q55BF2	NMD3_DICDI	No assigned EC number	0.4742	0.8904	0.8584	yes	no

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
Query		511
pfam04981		238	pfam04981, NMD3, NMD3 family	2e-86
COG1499		355	COG1499, NMD3, NMD protein affecting ribosome stab	1e-53

>gnl\|CDD\|218359 pfam04981, NMD3, NMD3 family	Back alignment and domain information

 Score =  265 bits (680), Expect = 2e-86
 Identities = 113/243 (46%), Positives = 150/243 (61%), Gaps = 18/243 (7%)

Query: 19  CCKCGIPMAPNAANMCVACLRSEVDITEGLQKHVIISHCPECDCYLQPPRTWIKAQLESK 78
           C +CG P+ P    +C  C R  VDITE + + + +  C  C  YL P R W+ A+ ES+
Sbjct: 1   CPRCGRPIEPLIDGLCPDCYRERVDITE-IPEELTVLVCRNCGRYLIPNR-WVDAE-ESR 57

Query: 79  ELLTFCVKRL-KNLNRVR--LVNAEFIWTEPHSKRIKVKLKVQKEVLNGAILEQSYVVEY 135
           ELL  C+K+L K LN+V+  LV+AEFIWTEPHSKRIKVKL VQ EV  G  L+Q++VVE 
Sbjct: 58  ELLEICLKKLYKGLNKVKKVLVDAEFIWTEPHSKRIKVKLTVQGEVRGGTPLQQTFVVEV 117

Query: 136 VQQDHMCDSCSRVQANPDQWVAAVQLRQH----------VTHRRTFFYLEQLILKHDAAA 185
           V     C  CSR+      W A VQ+RQ           V H+RTF YLEQLILKHDA A
Sbjct: 118 VVNRQQCPDCSRIA--GGYWEAIVQVRQKGRKLTEEEKKVAHKRTFLYLEQLILKHDAHA 175

Query: 186 RAIRITQMDQGIDFFFGNRSHAVKFVEFVGKVAPVRSRHDKQLVSHDPKSNNFNYKYTFS 245
               I ++  G+DF+FG+R+HA K V+F+  V P + +  K+LV  D  +   NY++T+S
Sbjct: 176 FISDIKEVKDGLDFYFGSRNHARKLVDFLSSVLPGKVKESKKLVGEDDDTGKKNYRFTYS 235

Query: 246 VEI 248
           V +
Sbjct: 236 VRL 238

The NMD3 protein is involved in nonsense mediated mRNA decay. This amino terminal region contains four conserved CXXC motifs that could be metal binding. NMD3 is involved in export of the 60S ribosomal subunit is mediated by the adapter protein Nmd3p in a Crm1p-dependent pathway. Length = 238

>gnl\|CDD\|224416 COG1499, NMD3, NMD protein affecting ribosome stability and mRNA decay [Translation, ribosomal structure and biogenesis]	Back alignment and domain information

Conserved Domains Detected by HHsearch

Original result of HHsearch against CDD database

ID	Alignment Graph	Length	Definition	Probability
Query		511
KOG2613		502	consensus NMD protein affecting ribosome stability	100.0
COG1499		355	NMD3 NMD protein affecting ribosome stability and	100.0
PF04981		236	NMD3: NMD3 family ; InterPro: IPR007064 The NMD3 p	100.0
cd04467		57	S1_aIF5A S1_aIF5A: Archaeal translation Initiation	94.59
PRK14714		1337	DNA polymerase II large subunit; Provisional	90.62
PRK04023		1121	DNA polymerase II large subunit; Validated	90.34
COG1579		239	Zn-ribbon protein, possibly nucleic acid-binding [	89.24
COG3809		88	Uncharacterized protein conserved in bacteria [Fun	88.72
PF12773		50	DZR: Double zinc ribbon	87.81
PF13240		23	zinc_ribbon_2: zinc-ribbon domain	87.34
PF14803		34	Nudix_N_2: Nudix N-terminal; PDB: 3CNG_C.	87.28
PF13453		41	zf-TFIIB: Transcription factor zinc-finger	86.96
PF02591		56	DUF164: Putative zinc ribbon domain; InterPro: IPR	86.25
PF13248		26	zf-ribbon_3: zinc-ribbon domain	85.43
COG1656		165	Uncharacterized conserved protein [Function unknow	85.02
PF12773		50	DZR: Double zinc ribbon	84.71
PRK14559		645	putative protein serine/threonine phosphatase; Pro	82.55
TIGR01206		54	lysW lysine biosynthesis protein LysW. This very s	80.01

>KOG2613 consensus NMD protein affecting ribosome stability and mRNA decay [Translation, ribosomal structure and biogenesis]	Back alignment and domain information

Probab=100.00  E-value=6.6e-163  Score=1239.64  Aligned_cols=479  Identities=55%  Similarity=0.989  Sum_probs=452.0

Q ss_pred             ceecccccCcccCCCCcccchhhhccccccccccCceEEEEeCCCCCceecCCCceeeCCcChHHHHHHHHHHhcccccc
Q 010400           15 GSVLCCKCGIPMAPNAANMCVACLRSEVDITEGLQKHVIISHCPECDCYLQPPRTWIKAQLESKELLTFCVKRLKNLNRV   94 (511)
Q Consensus        15 ~~i~C~~CG~~i~~~~~~mC~~C~~~~~dI~egIp~~~~v~~C~~Cgry~~~p~~Wv~~~les~ELL~~~Lkki~gl~kv   94 (511)
                      +.++||.||.||+||++|||.+|++.++||++|||++++|.+||.|.||++||+.|+.+++||+|||++||||+|||++|
T Consensus        13 ~~ILCCeCGvpi~Pn~anMC~~Clrs~VDITegipr~~~i~~Cr~CeRYlqPP~~Wi~a~leSrELLaiclkklK~L~~V   92 (502)
T KOG2613|consen   13 ATILCCECGVPIEPNPANMCVDCLRSEVDITEGIPRQATISFCRECERYLQPPKTWIRAELESRELLAICLKKLKGLNKV   92 (502)
T ss_pred             cEEEEecCCCcCCCchHHHHHHHhheeeehhcCCcchhhhhhccccceecCCcHHHhhhhhccHHHHHHHHHhhcCccee
Confidence            38999999999999999999999999999999999999999999999999999999999999999999999999999999


Q ss_pred             ceeccceEEecccCceEEEEEEEEEEEecCeeEEEEEEEEEEEeccCCchhhhhccCCcceEEEEEEeeccCchhhHHHH
Q 010400           95 RLVNAEFIWTEPHSKRIKVKLKVQKEVLNGAILEQSYVVEYVQQDHMCDSCSRVQANPDQWVAAVQLRQHVTHRRTFFYL  174 (511)
Q Consensus        95 klvda~fiwtEphs~r~kvkltvq~ev~~g~~lqq~~~Ve~~v~~~~C~~C~R~~~~~~~w~AiVQVRq~~~~krt~~~L  174 (511)
                      +|+||+||||||||+||+||||||||+++|+++||+|+|||+|+++|||+|+|..++ ++|+|+|||||++.|||||+||
T Consensus        93 rLvDA~FVwTEpHSkRIkVKLTVq~E~~~~tilqQ~f~Vey~V~~~~C~DC~R~eak-dfW~a~vQvRQr~~hkrTF~YL  171 (502)
T KOG2613|consen   93 RLVDANFVWTEPHSKRIKVKLTVQKEVFTNTILQQSFVVEYTVRNQQCPDCARVEAK-DFWRALVQVRQRAEHKRTFFYL  171 (502)
T ss_pred             EEeccceEeccCCCceEEEEEEEEhhhcCCceeeeeEEEEEEEecccCchhhhhhhh-HHHHHHHHHHhhcccchhhHHH
Confidence            999999999999999999999999999999999999999999999999999999995 8999999999999999999999


Q ss_pred             HHHHhhccccccccceeecCCceeEEEcChhHHHHHHHHhcccCCeEEeecCceeeecCCCCeeeEEEEEEEEEcccCCC
Q 010400          175 EQLILKHDAAARAIRITQMDQGIDFFFGNRSHAVKFVEFVGKVAPVRSRHDKQLVSHDPKSNNFNYKYTFSVEISPICRE  254 (511)
Q Consensus       175 EqlilK~~~~~~i~~I~e~kdGlDfyf~s~~~Ark~v~fl~s~~p~~vkeS~kLVg~D~~~g~~~yr~T~SVrIppickg  254 (511)
                      |||||||++|.++++|++.++||||||++++||+|||+||+.++|++++.|++|||||.|+|+++|||||||+|+||||+
T Consensus       172 EQLILKh~ah~~t~~Ik~~~~GlDFyy~~k~hA~kmVeFL~~vvP~ryk~se~LIS~D~hsn~ynYK~t~SVEIvPiCkD  251 (502)
T KOG2613|consen  172 EQLILKHNAHGNTINIKEVKDGLDFYYANKNHAVKMVEFLQTVVPIRYKVSERLISHDVHSNTYNYKFTYSVEIVPICKD  251 (502)
T ss_pred             HHHHHhcchhhcccccccccCCcceeeccHHHHHHHHHHHHhhceeEEecchhhhhhhcccCcccceeeeEEEEeeeccC
Confidence            99999999999999999999999999999999999999999999999999999999999999999999999999999999


Q ss_pred             CEEEcCchhhhhcCCCCCEEEEEEeCCeEEEEcCCCCeEEEecCccccccccccccCccceeEEEEEEeeeeccccccCC
Q 010400          255 DLICLPPKVAVSLGNLGPLVICMKVTNSIALLDPFTLRHCFLDADQYWRSSFKSLLTSRQLVEYIVLDVEVVSSEVNVGG  334 (511)
Q Consensus       255 DlV~l~~k~a~~lG~i~~~~lv~kv~~~I~llDP~T~~~~~l~~~~yw~~pf~~l~~~~~l~ef~Vldve~~~~~~~~~~  334 (511)
                      |+||||+++|+++||||+++||+||+++|+||||.|+|+++|+++.|||+||++|++++||+||+|+||++++.-.+ .|
T Consensus       252 dlVcLpkkva~~lGNi~qlvvc~kVs~~I~llDP~tlq~adl~~s~yWr~pF~sl~~~kqL~ef~V~dv~~v~~~~~-~g  330 (502)
T KOG2613|consen  252 DLVCLPKKVAQSLGNISQLVVCTKVSNTITLLDPRTLQTADLTGSVYWRAPFNSLCDPKQLTEFIVLDVDPVGEAGG-KG  330 (502)
T ss_pred             ceEEcCHHHHHhcCCccceEEEEEecCceEEeCCcceeeeecccceeecCcchhhcChhhheEEEEEEEecccccCC-cc
Confidence            99999999999999999999999999999999999999999999999999999999999999999999999874211 24


Q ss_pred             CceeEEEEEEEeecCCCCCccEEEEccccCCcCCCCCeeeeeecCCCCCCChhhhhhcCCCCCceEEEehhhHHHHhhhc
Q 010400          335 SKYVLADAQVARVSDFGKNDTIFSIRTHLGHLLNPGDYALGYDLYSANNNDMELDKYKGLVLPETILIKKSYEEKRLRKR  414 (511)
Q Consensus       335 ~k~~la~~~v~r~~d~g~~~~~~~~rtHLg~~l~~Gd~v~gydl~~~n~n~~~~~~~~~~~~pdvilvkk~~~~~~~~~~  414 (511)
                      .||.||||||+|+||+|+||..+++||||||||+|||+||||||+++|+||+++++|..+.+||||||||.|++.    +
T Consensus       331 ~kh~l~dv~v~r~sd~g~nd~~~~~RtHLGhil~~gD~vlgydl~~~N~N~~~~d~~~~d~vPdvvlVkK~y~r~----~  406 (502)
T KOG2613|consen  331 QKHALADVWVARSSDLGMNDKFHYARTHLGHILKPGDLVLGYDLANANLNDEEFDKLNIDGVPDVVLVKKMYDRT----K  406 (502)
T ss_pred             ceeeeeeEEEEEcCccCcccceeeehhhccccCCCCCeeeeeeeccCccchhhhhhhcccCCCcEEEEEcccccc----c
Confidence            489999999999999999999999999999999999999999999999999999999999999999999999742    2


Q ss_pred             CCCCCceeeeecccccCCCCcchhhhhHHHHHHHHHHhhcCHhhhhhccccccCCCCCCCCCCCCCCCCCCCCChhhhcc
Q 010400          415 SKPRSWKLKSLDMEVDDSKGRTDQEKMNKEYEEFLRDLEENPELRFNISLYRNKDYQPSEMASVTDGEDVPSVPLDELLA  494 (511)
Q Consensus       415 ~~~r~wklk~l~~~~~~~~~~~~~~~~e~d~e~F~~dleeD~elr~~i~lyk~~~~~~~~~~~~~~~~~~p~~~l~ell~  494 (511)
                      ++.|+||||+|+++..  .++.+.++.+.||++||+|||||+|||++|||||++++. .+.+ .++++|+|+|+|+||||
T Consensus       407 r~~r~WKlK~l~~e~~--~~~~~~~~~~~eY~~FledlEEd~elr~~vnlyrd~~~~-~~~d-~d~~ed~p~i~ldElLe  482 (502)
T KOG2613|consen  407 RKSRNWKLKRLAMEMS--RGKNESERTEKEYELFLEDLEEDPELRQGVNLYRDKEKP-TESD-TDDAEDAPQITLDELLE  482 (502)
T ss_pred             hhccceehhhhhhhhc--cccccchhhHHHHHHHHHhhhcCHHHHhcceeeeccCCC-Cccc-cccccCCCCCCHHHHHh
Confidence            3559999999998752  356677788999999999999999999999999998762 2222 22348899999999999


Q ss_pred             ccCCCCCCC
Q 010400          495 DLDLKSDDG  503 (511)
Q Consensus       495 ~~~~~~~~~  503 (511)
                      ||++..+++
T Consensus       483 dl~~~~~e~  491 (502)
T KOG2613|consen  483 DLKLSFEED  491 (502)
T ss_pred             hhhcchhhc
Confidence            998875433

>COG1499 NMD3 NMD protein affecting ribosome stability and mRNA decay [Translation, ribosomal structure and biogenesis]	Back alignment and domain information

>PF04981 NMD3: NMD3 family ; InterPro: IPR007064 The NMD3 protein is involved in nonsense mediated mRNA decay	Back alignment and domain information

>cd04467 S1_aIF5A S1_aIF5A: Archaeal translation Initiation Factor 5A (aIF5A), S1-like RNA-binding domain	Back alignment and domain information

>PRK14714 DNA polymerase II large subunit; Provisional	Back alignment and domain information

>PRK04023 DNA polymerase II large subunit; Validated	Back alignment and domain information

>COG1579 Zn-ribbon protein, possibly nucleic acid-binding [General function prediction only]	Back alignment and domain information

>COG3809 Uncharacterized protein conserved in bacteria [Function unknown]	Back alignment and domain information

>PF12773 DZR: Double zinc ribbon	Back alignment and domain information

>PF13240 zinc_ribbon_2: zinc-ribbon domain	Back alignment and domain information

>PF14803 Nudix_N_2: Nudix N-terminal; PDB: 3CNG_C	Back alignment and domain information

>PF13453 zf-TFIIB: Transcription factor zinc-finger	Back alignment and domain information

>PF02591 DUF164: Putative zinc ribbon domain; InterPro: IPR003743 This entry describes proteins of unknown function	Back alignment and domain information

>PF13248 zf-ribbon_3: zinc-ribbon domain	Back alignment and domain information

>COG1656 Uncharacterized conserved protein [Function unknown]	Back alignment and domain information

>PF12773 DZR: Double zinc ribbon	Back alignment and domain information

>PRK14559 putative protein serine/threonine phosphatase; Provisional	Back alignment and domain information

>TIGR01206 lysW lysine biosynthesis protein LysW	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		511
1vt4_I		1221	APAF-1 related killer DARK; drosophila apoptosome,	5e-10
3lvg_D		190	LCB, clathrin light chain B; SELF assembly, coated	1e-04

>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 = 61.0 bits (147), Expect = 5e-10
 Identities = 80/527 (15%), Positives = 171/527 (32%), Gaps = 170/527 (32%)

Query: 64  LQPPRTWIKAQLESKELLTFCVKRLKNLNRVRLVNAEFIWTEPHSKRIKVKLKVQKEVLN 123
           L+    ++ + +++++     + R+    R RL N   ++ + +  R++  LK+++ +L 
Sbjct: 87  LRINYKFLMSPIKTEQRQPSMMTRMYIEQRDRLYNDNQVFAKYNVSRLQPYLKLRQALLE 146

Query: 124 GAILEQSYVVEYVQQDH-M------------CDSCSRVQANPDQ--WVAAVQLRQHVTHR 168
             +     V+  +     +            C S         +  W   + L+   +  
Sbjct: 147 --LRPAKNVL--I---DGVLGSGKTWVALDVCLSYKVQCKMDFKIFW---LNLKNCNSPE 196

Query: 169 RTFFYLEQL--ILKHDAAARA-------IRITQMDQGIDFFFGNRSH------------- 206
                L++L   +  +  +R+       +RI  +   +     ++ +             
Sbjct: 197 TVLEMLQKLLYQIDPNWTSRSDHSSNIKLRIHSIQAELRRLLKSKPYENCLLVLLNVQNA 256

Query: 207 -AVKFVEFVGKVAPVRSRHDKQL-----------VSHDPKSNNFNYKYT---FS--VEIS 249
            A        K+  + +R  KQ+           +S D  S               ++  
Sbjct: 257 KAWNAFNLSCKIL-LTTR-FKQVTDFLSAATTTHISLDHHSMTLTPDEVKSLLLKYLDCR 314

Query: 250 PICREDLICLPPKVAVSLGNLGPLVICM---------------------KVTN----SIA 284
           P   +DL    P+  ++  N  P  + +                     K+T     S+ 
Sbjct: 315 P---QDL----PREVLT-TN--PRRLSIIAESIRDGLATWDNWKHVNCDKLTTIIESSLN 364

Query: 285 LLDPFTLRHCFLDADQYWRSSFK--SLLTSRQLV----EYIVLDVEVVSSEVNVGGSKYV 338
           +L+P   R  F        S F   + + +  L     + I  DV VV +++     KY 
Sbjct: 365 VLEPAEYRKMFDRL-----SVFPPSAHIPTILLSLIWFDVIKSDVMVVVNKL----HKYS 415

Query: 339 LADAQVARVSDFGKNDTIFSIRTHLGHLL----NPGDYAL------GYDLYSA-NNNDM- 386
           L +          K     +I     +L        +YAL       Y++    +++D+ 
Sbjct: 416 LVE----------KQPKESTISIPSIYLELKVKLENEYALHRSIVDHYNIPKTFDSDDLI 465

Query: 387 --ELDKY---------KGLVLPETI-LIKKSYE-----EKRLRKRSKPRSWKLKSLDMEV 429
              LD+Y         K +  PE + L +  +      E+++R  S   +     L+   
Sbjct: 466 PPYLDQYFYSHIGHHLKNIEHPERMTLFRMVFLDFRFLEQKIRHDSTAWNASGSILNTLQ 525

Query: 430 DDSKGR---TDQ----EKMNKEYEEFLRDLEENPELRFNISLYRNKD 469
                +    D     E++     +FL  +EEN        L  +K 
Sbjct: 526 QLKFYKPYICDNDPKYERLVNAILDFLPKIEEN--------LICSKY 564

PyMOL of 1vt4

>3lvg_D LCB, clathrin light chain B; SELF assembly, coated PIT, cytoplasmic vesicle, membrane, Ca structural protein; 7.94A {Bos taurus} Length = 190	Back alignment and structure

Structure Templates Detected by HHsearch

Original result of HHsearch against PDB70 database

ID	Alignment Graph	Length	Definition	Probability
Query		511
3na7_A		256	HP0958; flagellar biogenesis, flagellum export, C4	89.67
2eif_A		136	IF-5A, protein (eukaryotic translation initiation	83.98

>3na7_A HP0958; flagellar biogenesis, flagellum export, C4 Zn-ribbon, coiled post-transcriptional, gene regulation, chaperone; HET: EPE; 2.20A {Helicobacter pylori}	Back alignment and structure

Probab=89.67  E-value=0.042  Score=53.88  Aligned_cols=49  Identities=16%  Similarity=0.255  Sum_probs=31.7

Q ss_pred             CcccCCCCcccchhhhcccc--ccccccCceEEEEeCCCCCceecCCCceee
Q 010400           23 GIPMAPNAANMCVACLRSEV--DITEGLQKHVIISHCPECDCYLQPPRTWIK   72 (511)
Q Consensus        23 G~~i~~~~~~mC~~C~~~~~--dI~egIp~~~~v~~C~~Cgry~~~p~~Wv~   72 (511)
                      |..+.+..+|-|..|+..--  .+.+ |-..-.|.+||+|||+++.+..|-.
T Consensus       190 g~avv~v~~~~C~GC~~~lppq~~~~-i~~~~~Iv~Cp~CgRIL~~~~~~~~  240 (256)
T 3na7_A          190 NTSIVTIKKQACGGCFIRLNDKIYTE-VLTSGDMITCPYCGRILYAEGAYES  240 (256)
T ss_dssp             GGSEEECBTTBCTTTCCBCCHHHHHH-HHHSSSCEECTTTCCEEECSCC---
T ss_pred             CceEEEeeCCccCCCCeeeCHHHHHH-HHCCCCEEECCCCCeeEEeCcchhh
Confidence            44556667889999988543  2222 3223368999999999997656644

PyMOL of 3na7

>2eif_A IF-5A, protein (eukaryotic translation initiation factor; EIF-5A, OB-fold, structural genomics, BSGC STRU funded by NIH; 1.80A {Methanocaldococcus jannaschii} SCOP: b.34.5.2 b.40.4.5 PDB: 1eif_A	Back alignment and structure

Homologous Structure Domains

Structure Domains Detected by RPS-BLAST

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

No hit with e-value below 0.005

Homologous Domains Detected by HHsearch

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

ID	Alignment Graph	Length	Definition	Probability
Query		511
d1iz6a2		67	C-terminal domain of eukaryotic initiation transla	83.91

>d1iz6a2 b.40.4.5 (A:71-137) C-terminal domain of eukaryotic initiation translation factor 5a (eIF5a) {Archaeon Pyrococcus horikoshii [TaxId: 53953]}	Back information, alignment and structure

class: All beta proteins
fold: OB-fold
superfamily: Nucleic acid-binding proteins
family: Cold shock DNA-binding domain-like
domain: C-terminal domain of eukaryotic initiation translation factor 5a (eIF5a)
species: Archaeon Pyrococcus horikoshii [TaxId: 53953]

Probab=83.91  E-value=0.83  Score=34.47  Aligned_cols=47  Identities=15%  Similarity=0.127  Sum_probs=32.7

Q ss_pred             EEEEEEeCCeEEEEcCCCCeEEEecCccccccccccccCccceeEEE
Q 010400          273 LVICMKVTNSIALLDPFTLRHCFLDADQYWRSSFKSLLTSRQLVEYI  319 (511)
Q Consensus       273 ~~lv~kv~~~I~llDP~T~~~~~l~~~~yw~~pf~~l~~~~~l~ef~  319 (511)
                      .-|.+..++.+|++|..||++.+|+.+..-...++.=..+.+=++|.
T Consensus         6 aQVlsi~Gd~vQ~MD~etyeTfelpi~~~v~ee~~~~l~~G~eVeYw   52 (67)
T d1iz6a2           6 AQVIAITPDTVQIMDMETYETFEVPIDTGVADEIRDQLKEGINVEYW   52 (67)
T ss_dssp             EEEEEECSSEEEEECTTTCCEEEEEHHHHBCGGGTTTCCTTCEEEEE
T ss_pred             eEEEEEcCCeEEEeecCCceeEEEecCCCccHHHHhccCCCCEEEEE
Confidence            46888999999999999999999987543333333333344445554

PyMOL of d1iz6a2