Citrus Sinensis ID: 035822

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-

MPKHYRPAGKKKEGNAAKYITRSQALKQLQVNTKLFRKLCIYKGVFPREPKKKFKGNHQTYYHLKDVSFIRHDPILEDLRAKSAYRKKIIKAKAKRNKELADILKNRQPEIKLDRLVQERYPHFIDALRDLDDPLTLVHLFAALPASDRLKIEVKRVHNCRKLSHEWQAYISRTHKLRKVFISVKGVYYQAEVEGQKITWLTPHGMQQVLPDDDVVYDVLLSFLEFYETLLAFVNFKLYHSINVKYPPILDPQLEASAAELYALARYFDANSRPSEKVEATQEEESELRLAQLQHQLPSNEPGALMQLVKDAADENEEDEDTKECKNLFKNMRFFLSREVPRESMLFVIPAFGGTVSWEGEGAPFSETDQSITHQIVDRPTQGHVYLSREYVQPQWVYDCVNTRIILPTDAYMVGRVPPPHLSPFVDNEEEGYVPDYAETIKRLKSAAKNEILPMPGMGKEDLDDPTKFVG

cccccccccccccccccccccHHHHHHHHcccHHHHHHHEEEcccccccccccccccccEEEEHHHHHHHHHcHHHHHHHHHHHHHHHHHHHHHHccHHHHHHHHHcccccccccEEccccccHHHHHcccccHHHHHHHHHcccccccccccHHHHHHHHHHHHHHHHHHHHHccccEEEEEccEEEEEEEEccEEEEEEcccccccccccccccHHHHHHHHHHHHHHHHHHHHHHHHcccccccccccHHHHHHHHHHHHHHHHHHccccccHHHHHcHHHHHHHHHHHHHHcccccccccHHHHHHHHccccccccHHHHHcccccccEEEEEcccHHHHHHHHHHHcccEEEEcccccccccccccccEEEcccccccccccccEEEEccEEEEEccccccccccccccccccccccccccccccccccccHHHHHHHHHHHHccccccccccccccccccccccc

ccccccEccccccccHHHHHHHHHHHHHHcccHHHHHHHHEHcccccccccccccccccEEEEHHHHHHHHcHHHHHHHHHHHHHHHHHHHHHccccHHHHHHHHHccccccHHHHEHcccccHHHHHHHHHHHHHHHHHHHcccccccccccHHHHHHHHHHHHHHHHHHHHHHHHHHEEEEEEEEEEEEEEcccEEEEEEEcccccccccccccHHHHHHHHHHHHHHHHHHHHHHHHHccccccccccHHHHHHHHHHHHHHHHHHccHHHHHHHHHHHHHHHHHHHHHHHHHcccccccccHHHHHHHHHHHHHHHHHHHHHHHHcccEEEEcccccHHHHHHHHHHcccEEEEccccccccccccccEEEEEEcccccccccccEEEccEEEEEcccccccccHHcccccccccccccccccccccccccHHHHHHHHHHHcccccccccccccHHHccccccccc

mpkhyrpagkkkegnaaKYITRSQALKQLQVNTKLFRKLCIykgvfprepkkkfkgnhqtyyhlkdvsfirhdpileDLRAKSAYRKKIIKAKAKRNKELADILKnrqpeikldrlvqERYPHFIDALRDLDDPLTLVHLFAalpasdrlkIEVKRVHNCRKLSHEWQAYISRTHKLRKVFISVKGVYYQAevegqkitwltphgmqqvlpdddVVYDVLLSFLEFYETLLAFVNFKLYhsinvkyppildpqLEASAAELYALARYfdansrpsekveaTQEEESELRLAQLQhqlpsnepgALMQLVKDAadeneededtKECKNLFKNMRFFlsrevpresmlfvipafggtvswegegapfsetdqsithqivdrptqghvylsreyvqpqwvydcvntriilptdaymvgrvppphlspfvdneeegyvpdYAETIKRLKSAAkneilpmpgmgkedlddptkfvg

mpkhyrpagkkkegnaakyitrsqalkqlqvNTKLFRKLCIYkgvfprepkkkfkgnhqtyyhlkdvsfirhDPILEDLRAKSAYRKKIIKAKAKRNKEladilknrqpeikldrlvQERYPHFIDALRDLDDPLTLVHLFAalpasdrlkiEVKRVHNCRKLSHEWQAYISRTHKLRKVFISVKGVYYQAEVEGQKITWLTPHGMQQVLPDDDVVYDVLLSFLEFYETLLAFVNFKLYHSINVKYPPILDPQLEASAAELYALARYFDANSRPSEKVEATQEEESELRLAQLQHQLPSNEPGALMQLVKDAADENEEDEDTKECKNLFKNMRFFLSREVPRESMLFVIPAFGGTVSWEGEGAPFSETDQSITHQIVDRPTQGHVYLSREYVQPQWVYDCVNTRIILPTDAYMVGRVPPPHLSPFVDNEEEGYVPDYAETIKRLKSAakneilpmpgmgkedlddptkfvg

MPKHYRPAGKKKEGNAAKYITRSQALKQLQVNTKLFRKLCIYKGVFPREPKKKFKGNHQTYYHLKDVSFIRHDPILEDLraksayrkkiikakakrnkELADILKNRQPEIKLDRLVQERYPHFIDALRDLDDPLTLVHLFAALPASDRLKIEVKRVHNCRKLSHEWQAYISRTHKLRKVFISVKGVYYQAEVEGQKITWLTPHGMQQvlpdddvvydvllsflEFYETLLAFVNFKLYHSINVKYPPILDPQleasaaelyalaRYFDANSRPSEKVEATQEEESELRLAQLQHQLPSNEPGALMQLVKdaadeneededTKECKNLFKNMRFFLSREVPRESMLFVIPAFGGTVSWEGEGAPFSETDQSITHQIVDRPTQGHVYLSREYVQPQWVYDCVNTRIILPTDAYMVGRVPPPHLSPFVDNEEEGYVPDYAETIKRLKSAAKNEILPMPGMGKEDLDDPTKFVG

******************YITRSQALKQLQVNTKLFRKLCIYKGVFPREPKKKFKGNHQTYYHLKDVSFIRHDPILEDLRAKSAYRKKIIKAKAKRNKELADILKNRQPEIKLDRLVQERYPHFIDALRDLDDPLTLVHLFAALPASDRLKIEVKRVHNCRKLSHEWQAYISRTHKLRKVFISVKGVYYQAEVEGQKITWLTPHGMQQVLPDDDVVYDVLLSFLEFYETLLAFVNFKLYHSINVKYPPILDPQLEASAAELYALARYFD********************************************************KNLFKNMRFFLSREVPRESMLFVIPAFGGTVSWEGEGAPFSETDQSITHQIVDRPTQGHVYLSREYVQPQWVYDCVNTRIILPTDAYMVGRVPPPHLSPFVD****GYVPDYAE********************************

*******************ITRSQALKQLQVNTKLFRKLCIYKGVFPREPKKKFKGNHQTYYHLKDVSFIRHDPILEDLRAKSAYRKKIIKAKAKRNKELADILKNRQPEIKLDRLVQERYPHFIDALRDLDDPLTLVHLFAALPA***********HNCRKLSHEWQAYISRTHKLRKVFISVKGVYYQAEVEGQKITWLTPHGMQQVLPDDDVVYDVLLSFLEFYETLLAFVNFKLYHSINVKYPPILDPQLEASAAELYALARY**************************************************************KNMRFFLSREVPRESMLFVIPAFGGTVSWEGEGAPFSETDQSITHQIVDRPTQGHVYLSREYVQPQWVYDCVNTRIILPTDAYMVGRVPPPHLSPFVDNEEEGYVPDYA*********************************

*************GNAAKYITRSQALKQLQVNTKLFRKLCIYKGVFPREPKKKFKGNHQTYYHLKDVSFIRHDPILEDLRAKSAYRKKIIKAKAKRNKELADILKNRQPEIKLDRLVQERYPHFIDALRDLDDPLTLVHLFAALPASDRLKIEVKRVHNCRKLSHEWQAYISRTHKLRKVFISVKGVYYQAEVEGQKITWLTPHGMQQVLPDDDVVYDVLLSFLEFYETLLAFVNFKLYHSINVKYPPILDPQLEASAAELYALARYFDAN*****************RLAQLQHQLPSNEPGALMQLVKD************ECKNLFKNMRFFLSREVPRESMLFVIPAFGGTVSWEGEGAPFSETDQSITHQIVDRPTQGHVYLSREYVQPQWVYDCVNTRIILPTDAYMVGRVPPPHLSPFVDNEEEGYVPDYAETIKRLKSAAKNEILPMPGMGKEDL********

****YRPAGKKKEGNAAKYITRSQALKQLQVNTKLFRKLCIYKGVFPREPKKKFKGNHQTYYHLKDVSFIRHDPILEDLRAKSAYRKKIIKAKAKRNKELADILKNRQPEIKLDRLVQERYPHFIDALRDLDDPLTLVHLFAALPASDRLKIEVKRVHNCRKLSHEWQAYISRTHKLRKVFISVKGVYYQAEVEGQKITWLTPHGMQQVLPDDDVVYDVLLSFLEFYETLLAFVNFKLYHSINVKYPPILDPQLEASAAELYALARYFDANSRPSEKVEATQEEESELR**********************AADENEEDEDTKECKNLFKNMRFFLSREVPRESMLFVIPAFGGTVSWEGEGAPFSETDQSITHQIVDRPTQGHVYLSREYVQPQWVYDCVNTRIILPTDAYMVGRVPPPHLSPFVDNEEEGYVPDYAETIKRLKSA************************

ooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooo

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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		471	2.2.26 [Sep-21-2011]
A7SWH1		515	Pescadillo homolog OS=Nem	N/A	no	0.878	0.803	0.452	1e-104
Q3B8N8		586	Pescadillo homolog OS=Rat	yes	no	0.868	0.697	0.429	3e-96
O60164		607	Pescadillo homolog OS=Sch	yes	no	0.902	0.700	0.413	4e-96
Q9EQ61		584	Pescadillo homolog OS=Mus	yes	no	0.868	0.700	0.431	6e-96
O00541		588	Pescadillo homolog OS=Hom	yes	no	0.887	0.710	0.439	2e-95
P79741		583	Pescadillo OS=Danio rerio	yes	no	0.874	0.706	0.434	3e-95
A9URZ4		589	Pescadillo homolog OS=Mon	N/A	no	0.868	0.694	0.396	9e-95
Q7ZY69		574	Pescadillo homolog OS=Xen	N/A	no	0.870	0.714	0.414	1e-94
Q6DEV3		580	Pescadillo homolog OS=Xen	yes	no	0.878	0.713	0.416	2e-94
B5X171		582	Pescadillo homolog OS=Sal	N/A	no	0.876	0.709	0.426	2e-93

>sp\|A7SWH1\|PESC_NEMVE Pescadillo homolog OS=Nematostella vectensis GN=v1g194255 PE=3 SV=1	Back alignment and function desciption

 Score =  380 bits (976), Expect = e-104,   Method: Compositional matrix adjust.
 Identities = 198/438 (45%), Positives = 289/438 (65%), Gaps = 24/438 (5%)

Query: 10  KKKEGNAAKYITRSQALKQLQVNTKLFRKLCIYKGVFPREPKKKFKGN-----HQTYYHL 64
           K + G A  Y++R+QALK+LQ++   FR+LCI KG++P EPK K K N     ++TYY++
Sbjct: 7   KGERGAATNYVSRNQALKKLQLSLPDFRRLCILKGIYPVEPKNKKKVNKGSTANKTYYYV 66

Query: 65  KDVSFIRHDPILEDLRAKSAYRKKIIKAKAKRNKELADILKNRQPEIKLDRLVQERYPHF 124
           KD+ ++ H+P+L   R    + +K+ KA AK     AD L++ +P   LD +V+ERYP F
Sbjct: 67  KDIQWLAHEPVLNKFREFKVFLRKLKKAIAKEQPGTADRLEDNKPVYTLDHIVKERYPTF 126

Query: 125 IDALRDLDDPLTLVHLFAALPASDRLKIEVKRVHNCRKLSHEWQAYISRTHKLRKVFISV 184
           IDALRDLDD L+++ LF+ +P +D+++  V  V +CR+LS E+Q YI  +  LRKVF S+
Sbjct: 127 IDALRDLDDALSMLFLFSIMPQTDKIQAAV--VQDCRRLSVEFQHYIISSRSLRKVFFSI 184

Query: 185 KGVYYQAEVEGQKITWLTPHGMQQVLPDDDVVYDVLLSFLEFYETLLAFVNFKLYHSINV 244
           KG+Y+QAE++GQ ITW+TP+   Q  P  DV + V+L+F++FY+T++ F+NFKLY+++N+
Sbjct: 185 KGIYFQAEIQGQTITWITPYQFCQD-PPTDVDFRVMLTFVDFYKTMMGFINFKLYNNLNM 243

Query: 245 KYPPIL----DPQLEASAAELYALARYFDANSRPSEKVEATQEEESELRLAQLQHQLPSN 300
            YPP+L    D +L+ +  +   +     A    + K+  TQEE+ E+    +    P++
Sbjct: 244 HYPPVLADKTDKKLDTNYCKDTEVEDEVLAALNHTLKIIQTQEEDLEVDEFPID---PNS 300

Query: 301 EPGALMQLVKDAADENEEDEDTKECKNLFKNMRFFLSREVPRESMLFVIPAFGGTVSWE- 359
           E    +Q  K      EE+   +  KNLF   + FLSREVPRE+++F+I +FGG VSW+ 
Sbjct: 301 EDAEAIQAQK------EEETKLERLKNLFSECKVFLSREVPRETLVFMIRSFGGQVSWDV 354

Query: 360 --GEGAPFSETDQSITHQIVDRPTQGHVYLSREYVQPQWVYDCVNTRIILPTDAYMVGRV 417
               GA F+ETD+SITHQIVDRP+QGH +LSR Y+QPQWV D +N   +LP + Y  G  
Sbjct: 355 STAIGATFAETDESITHQIVDRPSQGHQFLSRYYIQPQWVADSINQGKLLPVEEYFPGEE 414

Query: 418 PPPHLSPFVDNEEEGYVP 435
            PPHLSPFV  EE  YVP
Sbjct: 415 LPPHLSPFVKEEEGDYVP 432

Required for maturation of ribosomal RNAs and formation of the large ribosomal subunit.
Nematostella vectensis (taxid: 45351)

>sp\|Q3B8N8\|PESC_RAT Pescadillo homolog OS=Rattus norvegicus GN=Pes1 PE=2 SV=1	Back alignment and function description

>sp\|O60164\|PESC_SCHPO Pescadillo homolog OS=Schizosaccharomyces pombe (strain 972 / ATCC 24843) GN=ppp1 PE=3 SV=1	Back alignment and function description

>sp\|Q9EQ61\|PESC_MOUSE Pescadillo homolog OS=Mus musculus GN=Pes1 PE=1 SV=1	Back alignment and function description

>sp\|O00541\|PESC_HUMAN Pescadillo homolog OS=Homo sapiens GN=PES1 PE=1 SV=1	Back alignment and function description

>sp\|P79741\|PESC_DANRE Pescadillo OS=Danio rerio GN=pes PE=2 SV=2	Back alignment and function description

>sp\|A9URZ4\|PESC_MONBE Pescadillo homolog OS=Monosiga brevicollis GN=19511 PE=3 SV=1	Back alignment and function description

>sp\|Q7ZY69\|PESC_XENLA Pescadillo homolog OS=Xenopus laevis GN=pes1 PE=2 SV=1	Back alignment and function description

>sp\|Q6DEV3\|PESC_XENTR Pescadillo homolog OS=Xenopus tropicalis GN=pes1 PE=2 SV=1	Back alignment and function description

>sp\|B5X171\|PESC_SALSA Pescadillo homolog OS=Salmo salar GN=pes1 PE=2 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
Query		471
224077682		604	predicted protein [Populus trichocarpa]	0.991	0.773	0.720	0.0
297811579		587	hypothetical protein ARALYDRAFT_325922 [	0.995	0.798	0.722	0.0
255560898		608	Pescadillo, putative [Ricinus communis]	0.991	0.768	0.716	0.0
15241421		590	pescadillo-related protein [Arabidopsis	0.995	0.794	0.718	0.0
225452352		607	PREDICTED: pescadillo homolog [Vitis vin	0.995	0.772	0.730	0.0
242038445		619	hypothetical protein SORBIDRAFT_01g01110	0.985	0.749	0.700	0.0
147852204		621	hypothetical protein VITISV_035385 [Viti	0.995	0.755	0.71	0.0
356572972		603	PREDICTED: pescadillo homolog [Glycine m	0.995	0.777	0.678	0.0
223945377		619	unknown [Zea mays] gi\|414872269\|tpg\|DAA5	0.985	0.749	0.692	0.0
226500388		619	LOC100280505 [Zea mays] gi\|195604896\|gb\|	0.985	0.749	0.692	0.0

>gi\|224077682\|ref\|XP_002305360.1\| predicted protein [Populus trichocarpa] gi\|222848324\|gb\|EEE85871.1\| predicted protein [Populus trichocarpa]	Back alignment and taxonomy information

 Score =  733 bits (1893), Expect = 0.0,   Method: Compositional matrix adjust.
 Identities = 351/487 (72%), Positives = 418/487 (85%), Gaps = 20/487 (4%)

Query: 3   KHYRPAGKKKEGNAAKYITRSQALKQLQVNTKLFRKLCIYKGVFPREPKKKFKGNHQTYY 62
           KHYRP GKKKEGNAA+Y+TRSQA+KQLQV    FR+L I KG+FPREPKKKFKGN+ TYY
Sbjct: 6   KHYRPPGKKKEGNAARYVTRSQAIKQLQVTLGFFRRLSILKGIFPREPKKKFKGNNHTYY 65

Query: 63  HLKDVSFIRHDPILEDLRAKSAYRKKIIKAKAKRNKELADILKNRQPEIKLDRLVQERYP 122
           H+KDV+F++H+P+L+  R   AY+KKI KA+AK+N +LA +L+ R+P  KLDRLV+ER+P
Sbjct: 66  HVKDVAFLQHEPLLDKFRDIRAYQKKIKKAEAKKNADLATLLRTREPTYKLDRLVRERFP 125

Query: 123 HFIDALRDLDDPLTLVHLFAALPASDRLKIEVKRVHNCRKLSHEWQAYISRTHKLRKVFI 182
            F+DALRDLDD LT+VHLFAALPA +R KI+V+ +HNCR+LSHEWQAY+SRT+KLRKVFI
Sbjct: 126 KFVDALRDLDDCLTMVHLFAALPAVERAKIDVELIHNCRRLSHEWQAYVSRTYKLRKVFI 185

Query: 183 SVKGVYYQAEVEGQKITWLTPHGMQQVLPDDDVVYDVLLSFLEFYETLLAFVNFKLYHSI 242
           SVKG+YYQAE+EGQKITWLTPH MQQVLP DDV + V+L+FLEFYETLL FVNF+LYHSI
Sbjct: 186 SVKGIYYQAEIEGQKITWLTPHAMQQVLP-DDVNFSVMLTFLEFYETLLGFVNFRLYHSI 244

Query: 243 NVKYPPILDPQLEASAAE---LYALARYFDANSR------------PSEKVEATQEE--- 284
           NVKYPPILDPQLEA A+    LYAL+RY  +NSR             S+++EA ++E   
Sbjct: 245 NVKYPPILDPQLEALASGMPYLYALSRYIVSNSRTSTLEPTAASSSTSQQLEAQEKEMQA 304

Query: 285 -ESELRLAQLQHQLPSNEPGALMQLVKDAADENEEDEDTKECKNLFKNMRFFLSREVPRE 343
            ESELRLAQLQHQLPSNEPGALM L+++   ENE+D+DTKEC+ LFKNM+FFL REVPRE
Sbjct: 305 DESELRLAQLQHQLPSNEPGALMHLMENTECENEDDQDTKECRRLFKNMKFFLGREVPRE 364

Query: 344 SMLFVIPAFGGTVSWEGEGAPFSETDQSITHQIVDRPTQGHVYLSREYVQPQWVYDCVNT 403
           S+LFVIPAFGG VSW+GE AP+ E+DQSITHQIVDRPTQGH YLSREYVQPQW+YDC+N 
Sbjct: 365 SLLFVIPAFGGVVSWDGEAAPYKESDQSITHQIVDRPTQGHKYLSREYVQPQWIYDCINA 424

Query: 404 RIILPTDAYMVGRVPPPHLSPFVDNEEEGYVPDYAETIKRLKSAAKNEILPMPGMGKEDL 463
           RIILPT+AYMVGR+PPPHLSPFVDN+ EGY+PDYAETIKRL++AAKNE+LPMPG+GKEDL
Sbjct: 425 RIILPTEAYMVGRIPPPHLSPFVDNDAEGYIPDYAETIKRLQAAAKNEVLPMPGVGKEDL 484

Query: 464 DDPTKFV 470
           DDP   +
Sbjct: 485 DDPQNLL 491

Source: Populus trichocarpa

Species: Populus trichocarpa

Genus: Populus

Family: Salicaceae

Order: Malpighiales

Class:

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi\|297811579\|ref\|XP_002873673.1\| hypothetical protein ARALYDRAFT_325922 [Arabidopsis lyrata subsp. lyrata] gi\|297319510\|gb\|EFH49932.1\| hypothetical protein ARALYDRAFT_325922 [Arabidopsis lyrata subsp. lyrata]	Back alignment and taxonomy information

>gi\|255560898\|ref\|XP_002521462.1\| Pescadillo, putative [Ricinus communis] gi\|223539361\|gb\|EEF40952.1\| Pescadillo, putative [Ricinus communis]	Back alignment and taxonomy information

>gi\|15241421\|ref\|NP_196956.1\| pescadillo-related protein [Arabidopsis thaliana] gi\|7573301\|emb\|CAB87619.1\| pescadillo-like protein [Arabidopsis thaliana] gi\|332004660\|gb\|AED92043.1\| pescadillo-related protein [Arabidopsis thaliana]	Back alignment and taxonomy information

>gi\|225452352\|ref\|XP_002274778.1\| PREDICTED: pescadillo homolog [Vitis vinifera] gi\|296087615\|emb\|CBI34871.3\| unnamed protein product [Vitis vinifera]	Back alignment and taxonomy information

>gi\|242038445\|ref\|XP_002466617.1\| hypothetical protein SORBIDRAFT_01g011100 [Sorghum bicolor] gi\|241920471\|gb\|EER93615.1\| hypothetical protein SORBIDRAFT_01g011100 [Sorghum bicolor]	Back alignment and taxonomy information

>gi\|147852204\|emb\|CAN80148.1\| hypothetical protein VITISV_035385 [Vitis vinifera]	Back alignment and taxonomy information

>gi\|356572972\|ref\|XP_003554639.1\| PREDICTED: pescadillo homolog [Glycine max]	Back alignment and taxonomy information

>gi\|223945377\|gb\|ACN26772.1\| unknown [Zea mays] gi\|414872269\|tpg\|DAA50826.1\| TPA: pescadillo [Zea mays]	Back alignment and taxonomy information

>gi\|226500388\|ref\|NP_001146897.1\| LOC100280505 [Zea mays] gi\|195604896\|gb\|ACG24278.1\| pescadillo [Zea mays]	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		471
TAIR\|locus:2222607		590	AT5G14520 "AT5G14520" [Arabido	0.987	0.788	0.658	2.1e-171
DICTYBASE\|DDB_G0289415		678	DDB_G0289415 "Pescadillo homol	0.507	0.352	0.429	8.2e-85
POMBASE\|SPBC19F5.05c		607	ppp1 "pescadillo-family BRCT d	0.507	0.393	0.412	1.4e-80
UNIPROTKB\|J9P0G2		619	PES1 "Uncharacterized protein"	0.906	0.689	0.399	2.9e-80
UNIPROTKB\|Q7ZY69		574	pes1 "Pescadillo homolog" [Xen	0.946	0.777	0.381	2.9e-80
UNIPROTKB\|F1RPE5		598	PES1 "Uncharacterized protein"	0.906	0.714	0.401	3.7e-80
RGD\|1559814		586	Pes1 "pescadillo ribosomal bio	0.942	0.757	0.383	4.7e-80
ZFIN\|ZDB-GENE-990415-206		583	pes "pescadillo" [Danio rerio	0.955	0.771	0.385	4.7e-80
UNIPROTKB\|B4KID9		631	GI18209 "Pescadillo homolog" [	0.881	0.657	0.404	7.6e-80
MGI\|MGI:1890613		584	Pes1 "pescadillo homolog 1, co	0.951	0.767	0.383	9.7e-80

TAIR\|locus:2222607 AT5G14520 "AT5G14520" [Arabidopsis thaliana (taxid:3702)]	Back alignment and assigned GO terms

 Score = 1666 (591.5 bits), Expect = 2.1e-171, P = 2.1e-171
 Identities = 313/475 (65%), Positives = 364/475 (76%)

Query:     1 MPKHYRPAGKKKEGNAAKYITRSQALKQLQVNTKLFRKLCIYKGVFPREPKKKFKGNHQT 60
             MPKHYRP GKKKEGNAA+Y+TRSQALK LQVN  LFR+LCI KG+FPREPKKK KGNH T
Sbjct:     1 MPKHYRPTGKKKEGNAARYMTRSQALKHLQVNLNLFRRLCIVKGIFPREPKKKIKGNHHT 60

Query:    61 YYHLKDVSFIRHDPILEDLXXXXXXXXXXXXXXXXXXXELADILKNRQPEIKLDRLVQER 120
             YYH+KD++F+ H+P+LE                     ELA +L  RQP  KLDRL++ER
Sbjct:    61 YYHVKDIAFLMHEPLLEKFREIKTYQKKVKKAKAKKNEELARLLLTRQPTYKLDRLIRER 120

Query:   121 YPHFIDALRDLDDPLTLVHLFAALPASDRLKIEVKRVHNCRKLSHEWQAYISRTHKLRKV 180
             YP FIDALRDLDD LT+VHLFA LPASDR  +EVKRVHNCR+L+HEWQAYISR+H LRKV
Sbjct:   121 YPTFIDALRDLDDCLTMVHLFAVLPASDRENLEVKRVHNCRRLTHEWQAYISRSHALRKV 180

Query:   181 FISVKGVYYQAEVEGQKITWLTPHGMQQXXXXXXXXXXXXXXXXEFYETLLAFVNFKLYH 240
             F+SVKG+YYQAE+EGQKITWLTPH +QQ                EFYETLLAF+NFKLYH
Sbjct:   181 FVSVKGIYYQAEIEGQKITWLTPHAIQQVFTNDVDFGVLLTFL-EFYETLLAFINFKLYH 239

Query:   241 SINVKYPPILDPQXXXXXXXXXXXXRYFDANSRP---SEKVEAT------QEEESELRLA 291
             S+NVKYPPILD +            RY DA+SR      KV+A+        EESELRLA
Sbjct:   240 SLNVKYPPILDSRLEALAADLYALSRYIDASSRGMAVEPKVDASFSSQSNDREESELRLA 299

Query:   292 QLQHQLPSNEPGALMQLVKXXXXXXXXXXXTKECKNLFKNMRFFLSREVPRESMLFVIPA 351
             QLQHQLPS+EPGALM LV            T+ CK+LFK+++FFLSREVPRES+  VI A
Sbjct:   300 QLQHQLPSSEPGALMHLVADNNKEVEEDEETRVCKSLFKDLKFFLSREVPRESLQLVITA 359

Query:   352 FGGTVSWEGEGAPFSETDQSITHQIVDRPTQGHVYLSREYVQPQWVYDCVNTRIILPTDA 411
             FGG VSWEGEGAPF E D+SITH I+D+P+ GH+YLSR YVQPQW+YDCVN RIILPT+ 
Sbjct:   360 FGGMVSWEGEGAPFKEDDESITHHIIDKPSAGHLYLSRVYVQPQWIYDCVNARIILPTEK 419

Query:   412 YMVGRVPPPHLSPFVDNEEEGYVPDYAETIKRLKSAAKNEILPMPGMGKEDLDDP 466
             Y+VGR+PPPHLSPFVDNE EGYVPDYAETIKRL++AA+NE+LP+PG+GKEDL+DP
Sbjct:   420 YLVGRIPPPHLSPFVDNEAEGYVPDYAETIKRLQAAARNEVLPLPGVGKEDLEDP 474

GO:0003713 "transcription coactivator activity" evidence=ISS

GO:0005622 "intracellular" evidence=ISS

GO:0005634 "nucleus" evidence=ISM

GO:0042254 "ribosome biogenesis" evidence=IEA

GO:0006606 "protein import into nucleus" evidence=RCA

GO:0051604 "protein maturation" evidence=RCA

DICTYBASE\|DDB_G0289415 DDB_G0289415 "Pescadillo homolog" [Dictyostelium discoideum (taxid:44689)]	Back alignment and assigned GO terms

POMBASE\|SPBC19F5.05c ppp1 "pescadillo-family BRCT domain protein (predicted)" [Schizosaccharomyces pombe (taxid:4896)]	Back alignment and assigned GO terms

UNIPROTKB\|J9P0G2 PES1 "Uncharacterized protein" [Canis lupus familiaris (taxid:9615)]	Back alignment and assigned GO terms

UNIPROTKB\|Q7ZY69 pes1 "Pescadillo homolog" [Xenopus laevis (taxid:8355)]	Back alignment and assigned GO terms

UNIPROTKB\|F1RPE5 PES1 "Uncharacterized protein" [Sus scrofa (taxid:9823)]	Back alignment and assigned GO terms

RGD\|1559814 Pes1 "pescadillo ribosomal biogenesis factor 1" [Rattus norvegicus (taxid:10116)]	Back alignment and assigned GO terms

ZFIN\|ZDB-GENE-990415-206 pes "pescadillo" [Danio rerio (taxid:7955)]	Back alignment and assigned GO terms

UNIPROTKB\|B4KID9 GI18209 "Pescadillo homolog" [Drosophila mojavensis (taxid:7230)]	Back alignment and assigned GO terms

MGI\|MGI:1890613 Pes1 "pescadillo homolog 1, containing BRCT domain (zebrafish)" [Mus musculus (taxid:10090)]	Back alignment and assigned GO terms

Prediction of Enzyme Commission (EC) Number

EC Number Prediction by Annotation Transfer from SWISS-PROT Entries

Original result of BLAST against SWISS-PROT

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

EC Number Prediction by Ezypred Server

Original result from Ezypred Server

Fail to connect to Ezypred Server

EC Number Prediction by EFICAz Software

No EC number assignment, probably not an enzyme!

Prediction of Functionally Associated Proteins

Functionally Associated Proteins Detected by STRING

Original result from the STRING server

Fail to connect to STRING server

Conserved Domains and Related Protein Families

Conserved Domains Detected by RPS-BLAST

Original result of RPS-BLAST against CDD database part I

ID	Alignment Graph	Length	Definition	E-value
Query		471
pfam06732		282	pfam06732, Pescadillo_N, Pescadillo N-terminus	1e-121
COG5163		591	COG5163, NOP7, Protein required for biogenesis of	1e-100
pfam00533		77	pfam00533, BRCT, BRCA1 C Terminus (BRCT) domain	1e-07
smart00292		78	smart00292, BRCT, breast cancer carboxy-terminal d	7e-07
cd00027		72	cd00027, BRCT, Breast Cancer Suppressor Protein (B	1e-04

>gnl\|CDD\|115393 pfam06732, Pescadillo_N, Pescadillo N-terminus	Back alignment and domain information

 Score =  355 bits (913), Expect = e-121
 Identities = 135/283 (47%), Positives = 186/283 (65%), Gaps = 9/283 (3%)

Query: 9   GKKKEGNAAKYITRSQALKQLQVNTKLFRKLCIYKGVFPREPKKKFKGN-----HQTYYH 63
            K + GNA KYITR+QAL++LQ++   FR+LCI KG++PREPK K K N      +T+Y 
Sbjct: 2   KKYERGNATKYITRNQALRKLQLSLADFRRLCILKGIYPREPKHKKKANKGSTAPKTFYL 61

Query: 64  LKDVSFIRHDPILEDLRAKSAYRKKIIKAKAKRNKELADILKNRQPEIKLDRLVQERYPH 123
            KD+ F+ H+PI+   R    + KK+ KAKAK   E    L   +P  KLD +++ERYP 
Sbjct: 62  AKDIRFLLHEPIVNKFREYKIFAKKLKKAKAKGEFETLKRLLANKPVYKLDHIIKERYPT 121

Query: 124 FIDALRDLDDPLTLVHLFAALPASDRLKIEVKRVHNCRKLSHEWQAYISRTHKLRKVFIS 183
           FIDALRDLDD L+++ LF+ LP++   K++V  ++ CR+L+ E+  Y+ R+  LRKVFIS
Sbjct: 122 FIDALRDLDDALSMLFLFSTLPSTH--KLKVGTINLCRRLTAEFMHYVIRSRSLRKVFIS 179

Query: 184 VKGVYYQAEVEGQKITWLTPHGMQQVLPDDDVVYDVLLSFLEFYETLLAFVNFKLYHSIN 243
           +KG+YYQAE++G+K+TW+ PH      P  DV + V+L+FLEFY TLL FVNFKLY  +N
Sbjct: 180 IKGIYYQAEIKGEKVTWIVPHEFAHNHP-TDVDFRVMLTFLEFYTTLLGFVNFKLYQDLN 238

Query: 244 VKYPPILDPQLEASAAELYALARYFDANSRPSEKVEATQEEES 286
           + YPP LD QLE  AA L A      ++      V A QE+  
Sbjct: 239 LDYPPKLDSQLEEEAAALLAYDLANSSSLAA-LDVGANQEQAK 280

This family represents the N-terminal region of Pescadillo. Pescadillo protein localises to distinct substructures of the interphase nucleus including nucleoli, the site of ribosome biogenesis. During mitosis pescadillo closely associates with the periphery of metaphase chromosomes and by late anaphase is associated with nucleolus-derived foci and prenucleolar bodies. Blastomeres in mouse embryos lacking pescadillo arrest at morula stages of development, the nucleoli fail to differentiate and accumulation of ribosomes is inhibited. It has been proposed that in mammalian cells pescadillo is essential for ribosome biogenesis and nucleologenesis and that disruption to its function results in cell cycle arrest. This family is often found in conjunction with a pfam00533 domain. Length = 282

>gnl\|CDD\|227492 COG5163, NOP7, Protein required for biogenesis of the 60S ribosomal subunit [Translation, ribosomal structure and biogenesis]	Back alignment and domain information

>gnl\|CDD\|215978 pfam00533, BRCT, BRCA1 C Terminus (BRCT) domain	Back alignment and domain information

>gnl\|CDD\|214602 smart00292, BRCT, breast cancer carboxy-terminal domain	Back alignment and domain information

>gnl\|CDD\|237994 cd00027, BRCT, Breast Cancer Suppressor Protein (BRCA1), carboxy-terminal domain	Back alignment and domain information

Conserved Domains Detected by HHsearch

Original result of HHsearch against CDD database

ID	Alignment Graph	Length	Definition	Probability
Query		471
KOG2481		570	consensus Protein required for normal rRNA process	100.0
COG5163		591	NOP7 Protein required for biogenesis of the 60S ri	100.0
PF06732		281	Pescadillo_N: Pescadillo N-terminus; InterPro: IPR	100.0
PF00533		78	BRCT: BRCA1 C Terminus (BRCT) domain; InterPro: IP	98.99
smart00292		80	BRCT breast cancer carboxy-terminal domain.	98.7
cd00027		72	BRCT Breast Cancer Suppressor Protein (BRCA1), car	98.44
KOG0966		881	consensus ATP-dependent DNA ligase IV [Replication	97.61
PLN03122		815	Poly [ADP-ribose] polymerase; Provisional	90.17
KOG0966		881	consensus ATP-dependent DNA ligase IV [Replication	87.16
PF12738		63	PTCB-BRCT: twin BRCT domain; PDB: 3PA6_A 3KTF_C 2W	80.02

>KOG2481 consensus Protein required for normal rRNA processing [RNA processing and modification]	Back alignment and domain information

Probab=100.00  E-value=1.1e-163  Score=1264.50  Aligned_cols=429  Identities=46%  Similarity=0.812  Sum_probs=377.3

Q ss_pred             CCCCCCCccCcccccccHHHHHHHhcCChhhhhhheeccccccCCCCCccCCC-----CceeEecchhhhhhhchHHHHH
Q 035822            5 YRPAGKKKEGNAAKYITRSQALKQLQVNTKLFRKLCIYKGVFPREPKKKFKGN-----HQTYYHLKDVSFIRHDPILEDL   79 (471)
Q Consensus         5 ~~~~kK~~~G~a~~yITR~qAlkkLQlsl~dFRRLCILKGIyPrePk~k~k~~-----~ktyY~~KDI~~L~HePil~kf   79 (471)
                      +|.|||+++|+|+|||||+||+|||||||+|||||||||||||||||||+|+|     ++||||+|||+||+||||++||
T Consensus         1 ~r~kkk~~~G~A~~YiTr~qAlKkLQLsLaDFRRLCIlKGIYP~EPKhkkK~NKGSta~~tfY~~kDI~fLlHEpIv~Kf   80 (570)
T KOG2481|consen    1 GREKKKYERGSATNYITRSQALKKLQLSLADFRRLCILKGIYPREPKHKKKVNKGSTAAQTFYYIKDIRFLLHEPIVNKF   80 (570)
T ss_pred             CCccccccccchhhhhhHHHHHHHhcccHHHHhhHhhhccccCCCcchhhhcccCCCCcceeeeHhHHHHHhhhHHHHHH
Confidence            47889999999999999999999999999999999999999999999999998     6999999999999999999999


Q ss_pred             HHHhHHHHHHHHHHhhccHHHHHHhhhcCCCCCccchhhccCCChHHHHhCCCchhHHHHHHhhCCCCCCcccchhhhhh
Q 035822           80 RAKSAYRKKIIKAKAKRNKELADILKNRQPEIKLDRLVQERYPHFIDALRDLDDPLTLVHLFAALPASDRLKIEVKRVHN  159 (471)
Q Consensus        80 Re~K~~~kKl~ka~~r~~~~~ak~l~~~~P~y~LdhiIKERYPtF~dALrDLDDaLs~l~LFa~lp~~~~~~i~~~~i~~  159 (471)
                      ||+|+|+||++||.|+|+...+++|.+|+|.|+||||||||||||+|||||||||||||||||+||+++  .++.++|++
T Consensus        81 reyKvf~rKl~ka~~k~e~~~~k~L~~~~p~Y~lDhiIKERyptf~dAlrDlddaLsmlfLfs~lP~td--~~~~~~v~~  158 (570)
T KOG2481|consen   81 REYKVFARKLKKAYGKGEEETLRRLLDNKPTYKLDHIIKERYPTFIDALRDLDDALSMLFLFSTLPSTD--RLHVKIVAL  158 (570)
T ss_pred             HHHHHHHHHHHHHhhcchHHHHHHHhhcCCccchhhHHHHhcCcHHHHHHHHHHHHHHHHHHhhCCccc--cchhhHHHH
Confidence            999999999999999999999999999999999999999999999999999999999999999999999  799999999


Q ss_pred             hhHHHHHHHHHHHHhcccceeEEEeeeeEEEEEEcCeeEEEEcccCCCCCCCCCccchhhhhHHHHHHHHHHHHHHHhhh
Q 035822          160 CRKLSHEWQAYISRTHKLRKVFISVKGVYYQAEVEGQKITWLTPHGMQQVLPDDDVVYDVLLSFLEFYETLLAFVNFKLY  239 (471)
Q Consensus       160 c~rL~~Ef~~yv~~t~~LrKvFiSIKGiYyQAeI~Gq~ItWlvP~~f~~~~p~~dVDfrVm~tFlEFY~tLl~FVnfkLY  239 (471)
                      |+|||+|||||||++++|||||+|||||||||||.||+|||+|||.|++.+|+ ||||+||+||||||+|||||||||||
T Consensus       159 crrlt~EF~hYVi~s~aLrkvF~SiKGiYyQAei~gqkitWivP~~f~~~~~t-dVDf~vm~tF~EFY~~llgFvnfkLy  237 (570)
T KOG2481|consen  159 CRRLTAEFMHYVIASSALRKVFLSIKGIYYQAEILGQKITWIVPYAFVELHPT-DVDFRVMPTFLEFYTTLLGFVNFKLY  237 (570)
T ss_pred             HHHHHHHHHHHHHHHhhhhhhhhhhcceehhhhhcccceEEEeecCCCCcCcc-ccccchhhhHHHHHHHHHhhhhHHHh
Confidence            99999999999999999999999999999999999999999999999999999 99999999999999999999999999


Q ss_pred             hhcCccCCCCCChhHHHhH---HH-HHHHHhhhc-cCCCCcc---hhh-hhhhHH-HHHHHHHhhccCCCCCCchhhhhh
Q 035822          240 HSINVKYPPILDPQLEASA---AE-LYALARYFD-ANSRPSE---KVE-ATQEEE-SELRLAQLQHQLPSNEPGALMQLV  309 (471)
Q Consensus       240 ~~~nl~YPPk~d~~~~~~~---~~-l~~l~~~~~-~~~~~~~---~~~-~~~~e~-~e~~i~~~~~~~~~~~~~~~~~~~  309 (471)
                      +++||.|||++|....+..   ++ ....+..+. .......   ... ...+|+ +|..++++         ++.++..
T Consensus       238 q~l~l~YPpkld~~~~~~~k~~e~~~a~~~e~~~~~~a~~das~l~~~~v~~~ee~~e~e~def---------~~~~~~~  308 (570)
T KOG2481|consen  238 QDLNLSYPPKLDGQAQAEVKASEGTYALDSESVMEDLAALDASLLARSVVPETEEEEEPELDEF---------PANGELS  308 (570)
T ss_pred             hhccccCCCcccchhhhhhhhcccchhhhhhhhhhhhhccchHHhhhccchhhhhhcccccccc---------ccccchh
Confidence            9999999999998532111   11 111111000 0000000   000 011111 12222222         2222333


Q ss_pred             cccccccccchhhhhhcCCCCCceEEEecCCchhhHHHHhHhcCceeecC--CCCCCCCCCCCCceEEEecCCCCCCccC
Q 035822          310 KDAADENEEDEDTKECKNLFKNMRFFLSREVPRESMLFVIPAFGGTVSWE--GEGAPFSETDQSITHQIVDRPTQGHVYL  387 (471)
Q Consensus       310 ~~~~~~~~~~~~~~~~~~LF~g~~FfI~REvPre~LefiIrs~GG~V~wd--~~~~~~~e~d~~ITH~IvDRP~~~~~~~  387 (471)
                      ...+...++.+..++.++||+||+|||+|||||++|+|||+||||+|+|+  +.|+||+++|++|||||||||.+..++.
T Consensus       309 ~~~~~~~~e~~~~s~~kslF~glkFfl~reVPresL~fiI~s~GG~V~wd~~~~g~~~~~~d~~ITH~IvDrP~~~~~v~  388 (570)
T KOG2481|consen  309 AQEDKMRQELEEQSSHKSLFSGLKFFLNREVPRESLEFIIRSFGGKVSWDPLGIGATYDESDERITHQIVDRPGQQTSVI  388 (570)
T ss_pred             hhHHHHHhhhhhhhhHHHHhhcceeeeeccCchHHHHHHHHHcCCceecCccCCCCcccccccceeeeeecccCccceee
Confidence            44566778888999999999999999999999999999999999999999  5799999999999999999999999999


Q ss_pred             CceEeecceeeeeccCCcccCCCCCCCCCCCCCccCCCccCCCCCCCCChHHHH-HHHH
Q 035822          388 SREYVQPQWVYDCVNTRIILPTDAYMVGRVPPPHLSPFVDNEEEGYVPDYAETI-KRLK  445 (471)
Q Consensus       388 ~r~YVQPQWVfDcvN~~~lLp~~~Y~pG~~LPPHLSPFv~~~~~~YvP~~~~~l-~~l~  445 (471)
                      ||.||||||||||||+|.|||++.|+||+.|||||||||+.++|+|+|++..++ +..+
T Consensus       389 gR~YvQPQWvfDsvNar~llpt~~Y~~G~~LPpHlSPFv~~~~~~yiP~e~l~~~~~~~  447 (570)
T KOG2481|consen  389 GRTYVQPQWVFDSVNARLLLPTEKYFPGKALPPHLSPFVDEKEGDYIPREELELLEKTQ  447 (570)
T ss_pred             eeeeecchhhhhhccchhhccHhhhCCCccCCcccCccccccccCcCChHHHhhhhhhh
Confidence            999999999999999999999999999999999999999999999999887664 4444

>COG5163 NOP7 Protein required for biogenesis of the 60S ribosomal subunit [Translation, ribosomal structure and biogenesis]	Back alignment and domain information

>PF06732 Pescadillo_N: Pescadillo N-terminus; InterPro: IPR010613 Pescadillo protein localises to distinct substructures of the interphase nucleus including nucleoli, the site of ribosome biogenesis	Back alignment and domain information

>PF00533 BRCT: BRCA1 C Terminus (BRCT) domain; InterPro: IPR001357 The BRCT domain (after the C_terminal domain of a breast cancer susceptibility protein) is found predominantly in proteins involved in cell cycle checkpoint functions responsive to DNA damage [], for example as found in the breast cancer DNA-repair protein BRCA1	Back alignment and domain information

>smart00292 BRCT breast cancer carboxy-terminal domain	Back alignment and domain information

>cd00027 BRCT Breast Cancer Suppressor Protein (BRCA1), carboxy-terminal domain	Back alignment and domain information

>KOG0966 consensus ATP-dependent DNA ligase IV [Replication, recombination and repair]	Back alignment and domain information

>PLN03122 Poly [ADP-ribose] polymerase; Provisional	Back alignment and domain information

>KOG0966 consensus ATP-dependent DNA ligase IV [Replication, recombination and repair]	Back alignment and domain information

>PF12738 PTCB-BRCT: twin BRCT domain; PDB: 3PA6_A 3KTF_C 2WT8_C 3EF1_A 3EF0_A	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
Query		471
2ep8_A		100	Solution Structure Of The Brct Domain From Human Pe		3e-24

>pdb|2EP8|A Chain A, Solution Structure Of The Brct Domain From Human Pescadillo Homolog 1 Length = 100

Back alignment and structure

Iteration: 1
 Score =  109 bits (273), Expect = 3e-24,   Method: Composition-based stats.
 Identities = 49/90 (54%), Positives = 63/90 (70%), Gaps = 3/90 (3%)
Query: 326 KNLFKNMRFFLSREVPRESMLFVIPAFGGTVSWEGE---GAPFSETDQSITHQIVDRPTQ 382
           K LF+ ++FFL+REVPRE++ F+I +FGG VSW+     GA +  TD  ITHQIVDRP Q
Sbjct: 10  KKLFEGLKFFLNREVPREALAFIIRSFGGEVSWDKSLCIGATYDVTDSRITHQIVDRPGQ 69
Query: 383 GHVYLSREYVQPQWVYDCVNTRIILPTDAY 412
               + R YVQPQWV+D VN R++LP   Y
Sbjct: 70  QTSVIGRCYVQPQWVFDSVNARLLLPVAEY 99

PyMOL of 2ep8

Structure Templates Detected by RPS-BLAST

Original result of RPS-BLAST against PDB70 database

ID	Alignment Graph	Length	Definition	E-value
Query		471
2ep8_A		100	Pescadillo homolog 1; A/B/A 3 layers, nucleolus, r	3e-45
3pc6_A		104	DNA repair protein XRCC1; BRCT domain, protein:pro	4e-14
1vt4_I		1221	APAF-1 related killer DARK; drosophila apoptosome,	4e-13
1vt4_I		1221	APAF-1 related killer DARK; drosophila apoptosome,	8e-12
2ebw_A		97	DNA repair protein REV1; A/B/A 3 layers, parallel	6e-13
1wf6_A		132	Similar to S.pombe -RAD4+/CUT5+product (A40727); B	5e-09
3pc7_A		88	DNA ligase 3; DNA repair, BRCT domain, protein:pro	8e-07
1z56_C		264	DNA ligase IV; DNA repair, BRCT, NHEJ, XRCC4, DNA	9e-07
1z56_C		264	DNA ligase IV; DNA repair, BRCT, NHEJ, XRCC4, DNA	8e-04
2cou_A		109	ECT2 protein; BRCT domain, RHO GTPase, structural	7e-06
3u3z_A		199	Microcephalin; DNA repair, cell cycle regulation,	1e-05
1t15_A		214	Breast cancer type 1 susceptibility protein; prote	3e-05
3l46_A		112	Protein ECT2; alternative splicing, guanine-nucleo	8e-05
2vxb_A		241	DNA repair protein RHP9; BRCT, nucleus, cell cycle	1e-04
3ii6_X		263	DNA ligase 4; XRCC4, NHEJ, DNA repair, BRCT, alter	2e-04
3ii6_X		263	DNA ligase 4; XRCC4, NHEJ, DNA repair, BRCT, alter	3e-04
3al2_A		235	DNA topoisomerase 2-binding protein 1; BRCT domain	2e-04
1l0b_A		229	BRCA1; TANDEM-BRCT, three-helix bundle, unknown fu	4e-04

>2ep8_A Pescadillo homolog 1; A/B/A 3 layers, nucleolus, ribosome biogenesis, DNA damage, structural genomics, NPPSFA; NMR {Homo sapiens} Length = 100	Back alignment and structure

 Score =  152 bits (385), Expect = 3e-45
 Identities = 49/96 (51%), Positives = 65/96 (67%), Gaps = 3/96 (3%)

Query: 321 DTKECKNLFKNMRFFLSREVPRESMLFVIPAFGGTVSWE---GEGAPFSETDQSITHQIV 377
            + + K LF+ ++FFL+REVPRE++ F+I +FGG VSW+     GA +  TD  ITHQIV
Sbjct: 5   SSGKHKKLFEGLKFFLNREVPREALAFIIRSFGGEVSWDKSLCIGATYDVTDSRITHQIV 64

Query: 378 DRPTQGHVYLSREYVQPQWVYDCVNTRIILPTDAYM 413
           DRP Q    + R YVQPQWV+D VN R++LP   Y 
Sbjct: 65  DRPGQQTSVIGRCYVQPQWVFDSVNARLLLPVAEYF 100

PyMOL of 2ep8

>3pc6_A DNA repair protein XRCC1; BRCT domain, protein:protein interactions, DNA L III-alpha BRCT2 domain, DNA binding protein; HET: DNA; 1.90A {Mus musculus} PDB: 3pc8_A* 3qvg_B* 1cdz_A Length = 104	Back alignment and structure

>1vt4_I APAF-1 related killer DARK; drosophila apoptosome, apoptosis, programmed cell death; HET: DTP; 6.90A {Drosophila melanogaster} PDB: 3iz8_A* Length = 1221	Back alignment and structure

>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

>2ebw_A DNA repair protein REV1; A/B/A 3 layers, parallel beta-sheet, DNA replication, translession synthesis, TLS, DNA polymerase zeta, PCNA; HET: DNA; NMR {Homo sapiens} Length = 97	Back alignment and structure

>1wf6_A Similar to S.pombe -RAD4+/CUT5+product (A40727); BRCT, topoisomerase II binding protein, checkpoint; NMR {Homo sapiens} SCOP: c.15.1.5 Length = 132	Back alignment and structure

>3pc7_A DNA ligase 3; DNA repair, BRCT domain, protein:protein interactions, XRCC1 domain, DNA binding protein; HET: DNA MSE; 1.65A {Homo sapiens} PDB: 3pc8_C* 1imo_A* 1in1_A* 3qvg_A* Length = 88	Back alignment and structure

>1z56_C DNA ligase IV; DNA repair, BRCT, NHEJ, XRCC4, DNA ligase, coiled-coil; HET: DNA; 3.92A {Saccharomyces cerevisiae} Length = 264	Back alignment and structure

>1z56_C DNA ligase IV; DNA repair, BRCT, NHEJ, XRCC4, DNA ligase, coiled-coil; HET: DNA; 3.92A {Saccharomyces cerevisiae} Length = 264	Back alignment and structure

>2cou_A ECT2 protein; BRCT domain, RHO GTPase, structural genomics, NPPSFA, national project on protein structural and functional analyses; NMR {Mus musculus} Length = 109	Back alignment and structure

>3u3z_A Microcephalin; DNA repair, cell cycle regulation, cell cycle; HET: SEP PTR; 1.50A {Homo sapiens} PDB: 3szm_A* 3t1n_A* 3sht_A 3shv_A* Length = 199	Back alignment and structure

>1t15_A Breast cancer type 1 susceptibility protein; protein-peptide complex, antitumor protein; HET: SEP; 1.85A {Homo sapiens} SCOP: c.15.1.3 c.15.1.3 PDB: 1jnx_X* 1t29_A* 1t2v_A* 1y98_A* 3coj_X* 3k0h_A* 3k0k_A* 3pxe_A* 3pxb_A 3pxc_X 1t2u_A 1n5o_X 3pxa_A 3k15_A* 3k16_A* 3pxd_A 2ing_X 1oqa_A Length = 214	Back alignment and structure

>3l46_A Protein ECT2; alternative splicing, guanine-nucleotide releasing factor, phosphoprotein, polymorphism, proto-oncogene, structural genomics; 1.48A {Homo sapiens} Length = 112	Back alignment and structure

>2vxb_A DNA repair protein RHP9; BRCT, nucleus, cell cycle, DNA damage, DNA replication inhibitor, phosphoprotein, checkpoint signalling; HET: DNA; 2.3A {Schizosaccharomyces pombe} PDB: 2vxc_A* Length = 241	Back alignment and structure

>3ii6_X DNA ligase 4; XRCC4, NHEJ, DNA repair, BRCT, alternative splicing, coiled coil, DNA damage, DNA recombination, isopeptide bond, nucleus; HET: DNA; 2.40A {Homo sapiens} PDB: 2e2w_A* Length = 263	Back alignment and structure

>3ii6_X DNA ligase 4; XRCC4, NHEJ, DNA repair, BRCT, alternative splicing, coiled coil, DNA damage, DNA recombination, isopeptide bond, nucleus; HET: DNA; 2.40A {Homo sapiens} PDB: 2e2w_A* Length = 263	Back alignment and structure

>3al2_A DNA topoisomerase 2-binding protein 1; BRCT domain, protein binding, DNA binding protein; HET: DNA MSE; 2.00A {Homo sapiens} PDB: 3al3_A* Length = 235	Back alignment and structure

>1l0b_A BRCA1; TANDEM-BRCT, three-helix bundle, unknown function; 2.30A {Rattus norvegicus} SCOP: c.15.1.3 c.15.1.3 Length = 229	Back alignment and structure

Structure Templates Detected by HHsearch

Original result of HHsearch against PDB70 database

ID	Alignment Graph	Length	Definition	Probability
Query		471
2ep8_A		100	Pescadillo homolog 1; A/B/A 3 layers, nucleolus, r	100.0
1z56_C		264	DNA ligase IV; DNA repair, BRCT, NHEJ, XRCC4, DNA	99.81
3pc7_A		88	DNA ligase 3; DNA repair, BRCT domain, protein:pro	99.8
3pc6_A		104	DNA repair protein XRCC1; BRCT domain, protein:pro	99.78
1wf6_A		132	Similar to S.pombe -RAD4+/CUT5+product (A40727); B	99.71
2ebw_A		97	DNA repair protein REV1; A/B/A 3 layers, parallel	99.71
4id3_A		92	DNA repair protein REV1; BRCT domain, protein bind	99.59
3ii6_X		263	DNA ligase 4; XRCC4, NHEJ, DNA repair, BRCT, alter	99.55
3u3z_A		199	Microcephalin; DNA repair, cell cycle regulation,	99.47
2nte_A		210	BARD-1, BRCA1-associated ring domain protein 1; BR	99.38
1z56_C		264	DNA ligase IV; DNA repair, BRCT, NHEJ, XRCC4, DNA	99.38
3ii6_X		263	DNA ligase 4; XRCC4, NHEJ, DNA repair, BRCT, alter	99.19
2d8m_A		129	DNA-repair protein XRCC1; parallel beta-sheet, DNA	99.18
3l3e_A		107	DNA topoisomerase 2-binding protein 1; BRCT domain	99.08
1t15_A		214	Breast cancer type 1 susceptibility protein; prote	99.0
2cou_A		109	ECT2 protein; BRCT domain, RHO GTPase, structural	98.88
2jw5_A		106	DNA polymerase lambda; BRCT domain, family X polym	98.88
2vxb_A		241	DNA repair protein RHP9; BRCT, nucleus, cell cycle	98.73
1kzy_C		259	Tumor suppressor P53-binding protein 1; tandem-BRC	98.58
3pa6_A		107	Microcephalin; BRCT domain, cell cycle; HET: MSE;	98.55
3l46_A		112	Protein ECT2; alternative splicing, guanine-nucleo	98.49
1l0b_A		229	BRCA1; TANDEM-BRCT, three-helix bundle, unknown fu	98.42
3olc_X		298	DNA topoisomerase 2-binding protein 1; BRCT domain	98.23
2coe_A		120	Deoxynucleotidyltransferase, terminal variant; BRC	98.07
3ef0_A		372	RNA polymerase II subunit A C-terminal domain phos	97.99
1l0b_A		229	BRCA1; TANDEM-BRCT, three-helix bundle, unknown fu	97.95
1t15_A		214	Breast cancer type 1 susceptibility protein; prote	97.9
3ef1_A		442	RNA polymerase II subunit A C-terminal domain phos	97.85
2etx_A		209	Mediator of DNA damage checkpoint protein 1; tande	97.75
2nte_A		210	BARD-1, BRCA1-associated ring domain protein 1; BR	97.73
2etx_A		209	Mediator of DNA damage checkpoint protein 1; tande	97.62
3al2_A		235	DNA topoisomerase 2-binding protein 1; BRCT domain	97.62
3al2_A		235	DNA topoisomerase 2-binding protein 1; BRCT domain	97.59
1kzy_C		259	Tumor suppressor P53-binding protein 1; tandem-BRC	97.54
2l42_A		106	DNA-binding protein RAP1; BRCT domain, protein bin	97.47
3sqd_A		219	PAX-interacting protein 1; tandem BRCT domains, ce	97.42
3u3z_A		199	Microcephalin; DNA repair, cell cycle regulation,	97.42
3olc_X		298	DNA topoisomerase 2-binding protein 1; BRCT domain	97.41
2vxb_A		241	DNA repair protein RHP9; BRCT, nucleus, cell cycle	97.23
3l41_A		220	BRCT-containing protein 1; BRC1, BRCT domain, tand	97.09
2dun_A		133	POL MU, DNA polymerase MU; layers A/B/A, parallel	95.91
3l41_A		220	BRCT-containing protein 1; BRC1, BRCT domain, tand	93.24
3sqd_A		219	PAX-interacting protein 1; tandem BRCT domains, ce	92.39
1l7b_A		92	DNA ligase; BRCT, autostructure, structural genomi	88.19
2k6g_A		109	Replication factor C subunit 1; protein, BRCT, DNA	85.98
2ebu_A		112	Replication factor C subunit 1; A/B/A 3 layers, pa	81.52

>2ep8_A Pescadillo homolog 1; A/B/A 3 layers, nucleolus, ribosome biogenesis, DNA damage, structural genomics, NPPSFA; NMR {Homo sapiens}	Back alignment and structure

Probab=100.00  E-value=3.6e-34  Score=244.89  Aligned_cols=92  Identities=53%  Similarity=1.006  Sum_probs=86.8

Q ss_pred             hhhhcCCCCCceEEEecCCchhhHHHHhHhcCceeecCC---CCCCCCCCCCCceEEEecCCCCCCccCCceEeecceee
Q 035822          322 TKECKNLFKNMRFFLSREVPRESMLFVIPAFGGTVSWEG---EGAPFSETDQSITHQIVDRPTQGHVYLSREYVQPQWVY  398 (471)
Q Consensus       322 ~~~~~~LF~g~~FfI~REvPre~LefiIrs~GG~V~wd~---~~~~~~e~d~~ITH~IvDRP~~~~~~~~r~YVQPQWVf  398 (471)
                      .++.++||+|++|||+||+|+++|+|+|++|||+|+|+.   +|+||.++|++|||+|+|||+..++..+|+||||||||
T Consensus         6 ~~~~~~LF~g~~F~i~~e~p~~~le~~I~~~GG~v~~~~~~~~g~~~~~~~~~iTh~I~drp~~~~~~~~r~~VqPqWV~   85 (100)
T 2ep8_A            6 SGKHKKLFEGLKFFLNREVPREALAFIIRSFGGEVSWDKSLCIGATYDVTDSRITHQIVDRPGQQTSVIGRCYVQPQWVF   85 (100)
T ss_dssp             CSCSCCTTSSCEEECCSSSCHHHHHHHHHHTTCEEECCTTTSSCCCSCTTCTTCCEEECSCTTTSCCBTTBEEECTHHHH
T ss_pred             cCchHHHcCCcEEEEecCCCHHHHHHHHHHcCCEEEeccccccCcccccCCCceEEEEecccchhhhcCCCeEEcchHHH
Confidence            356789999999999999999999999999999999994   69999999999999999999987788999999999999


Q ss_pred             eeccCCcccCCCCCC
Q 035822          399 DCVNTRIILPTDAYM  413 (471)
Q Consensus       399 DcvN~~~lLp~~~Y~  413 (471)
                      ||+|++.|||+++|+
T Consensus        86 Dcin~~~lLp~~~Y~  100 (100)
T 2ep8_A           86 DSVNARLLLPVAEYF  100 (100)
T ss_dssp             HHHHHTSCCCTTTCC
T ss_pred             HHHhcCCcCChhhcC
Confidence            999999999999996

PyMOL of 2ep8

>1z56_C DNA ligase IV; DNA repair, BRCT, NHEJ, XRCC4, DNA ligase, coiled-coil; HET: DNA; 3.92A {Saccharomyces cerevisiae}	Back alignment and structure

>3pc7_A DNA ligase 3; DNA repair, BRCT domain, protein:protein interactions, XRCC1 domain, DNA binding protein; HET: DNA MSE; 1.65A {Homo sapiens} SCOP: c.15.1.2 PDB: 3pc8_C* 1imo_A* 1in1_A* 3qvg_A*	Back alignment and structure

>3pc6_A DNA repair protein XRCC1; BRCT domain, protein:protein interactions, DNA L III-alpha BRCT2 domain, DNA binding protein; HET: DNA; 1.90A {Mus musculus} SCOP: c.15.1.1 PDB: 3pc8_A* 3qvg_B* 1cdz_A	Back alignment and structure

>1wf6_A Similar to S.pombe -RAD4+/CUT5+product (A40727); BRCT, topoisomerase II binding protein, checkpoint; NMR {Homo sapiens} SCOP: c.15.1.5	Back alignment and structure

>2ebw_A DNA repair protein REV1; A/B/A 3 layers, parallel beta-sheet, DNA replication, translession synthesis, TLS, DNA polymerase zeta, PCNA; HET: DNA; NMR {Homo sapiens}	Back alignment and structure

>4id3_A DNA repair protein REV1; BRCT domain, protein binding; HET: DNA; 1.97A {Saccharomyces cerevisiae S288C}	Back alignment and structure

>3ii6_X DNA ligase 4; XRCC4, NHEJ, DNA repair, BRCT, alternative splicing, coiled coil, DNA damage, DNA recombination, isopeptide bond, nucleus; HET: DNA; 2.40A {Homo sapiens} PDB: 2e2w_A*	Back alignment and structure

>3u3z_A Microcephalin; DNA repair, cell cycle regulation, cell cycle; HET: SEP PTR; 1.50A {Homo sapiens} PDB: 3szm_A* 3t1n_A* 3sht_A 3shv_A*	Back alignment and structure

>2nte_A BARD-1, BRCA1-associated ring domain protein 1; BRCT, ring finger, zinc-binding protein, ubiquitin LI antitumor protein; 1.90A {Homo sapiens} PDB: 3fa2_A 2r1z_A	Back alignment and structure

>1z56_C DNA ligase IV; DNA repair, BRCT, NHEJ, XRCC4, DNA ligase, coiled-coil; HET: DNA; 3.92A {Saccharomyces cerevisiae}	Back alignment and structure

>3ii6_X DNA ligase 4; XRCC4, NHEJ, DNA repair, BRCT, alternative splicing, coiled coil, DNA damage, DNA recombination, isopeptide bond, nucleus; HET: DNA; 2.40A {Homo sapiens} PDB: 2e2w_A*	Back alignment and structure

>2d8m_A DNA-repair protein XRCC1; parallel beta-sheet, DNA ligase III, poly(ADP-ribose) polymerase-1, DNA polymerase beta, structural genomics, NPPSFA; NMR {Homo sapiens}	Back alignment and structure

>1t15_A Breast cancer type 1 susceptibility protein; protein-peptide complex, antitumor protein; HET: SEP; 1.85A {Homo sapiens} SCOP: c.15.1.3 c.15.1.3 PDB: 1jnx_X* 1t29_A* 1t2v_A* 1y98_A* 3coj_X* 3k0h_A* 3k0k_A* 3pxe_A* 3pxb_A 3pxc_X 1t2u_A 1n5o_X 3pxa_A 3k15_A* 3k16_A* 3pxd_A 2ing_X 1oqa_A	Back alignment and structure

>2cou_A ECT2 protein; BRCT domain, RHO GTPase, structural genomics, NPPSFA, national project on protein structural and functional analyses; NMR {Mus musculus}	Back alignment and structure

>2jw5_A DNA polymerase lambda; BRCT domain, family X polymerase, nonhomologous END joining (NHEJ), DNA damage, DNA repair, DNA replication, DNA synthesis; HET: DNA; NMR {Homo sapiens}	Back alignment and structure

>2vxb_A DNA repair protein RHP9; BRCT, nucleus, cell cycle, DNA damage, DNA replication inhibitor, phosphoprotein, checkpoint signalling; HET: DNA; 2.3A {Schizosaccharomyces pombe} PDB: 2vxc_A*	Back alignment and structure

>1kzy_C Tumor suppressor P53-binding protein 1; tandem-BRCT and linker complexed with non-BRCT protein, three-helix bundle, parallel beta sheet; 2.50A {Homo sapiens} SCOP: c.15.1.4 c.15.1.4 PDB: 1gzh_B	Back alignment and structure

>3pa6_A Microcephalin; BRCT domain, cell cycle; HET: MSE; 1.50A {Homo sapiens} PDB: 3ktf_A* 2wt8_A*	Back alignment and structure

>3l46_A Protein ECT2; alternative splicing, guanine-nucleotide releasing factor, phosphoprotein, polymorphism, proto-oncogene, structural genomics; 1.48A {Homo sapiens}	Back alignment and structure

>1l0b_A BRCA1; TANDEM-BRCT, three-helix bundle, unknown function; 2.30A {Rattus norvegicus} SCOP: c.15.1.3 c.15.1.3	Back alignment and structure

>3olc_X DNA topoisomerase 2-binding protein 1; BRCT domain, DNA repair, RAD9, DNA binding protein; HET: DNA; 2.40A {Homo sapiens} PDB: 2xnk_A* 2xnh_A*	Back alignment and structure

>2coe_A Deoxynucleotidyltransferase, terminal variant; BRCT domain, DNA polymerase, teminal deoxynucleotidyltransferase, structural genomics, NPPSFA; NMR {Homo sapiens}	Back alignment and structure

>3ef0_A RNA polymerase II subunit A C-terminal domain phosphatase; CTD, FCPH, BRCT, hydrolase, ALF4, transition state analog, cobalt, magnesium; 2.10A {Schizosaccharomyces pombe}	Back alignment and structure

>1l0b_A BRCA1; TANDEM-BRCT, three-helix bundle, unknown function; 2.30A {Rattus norvegicus} SCOP: c.15.1.3 c.15.1.3	Back alignment and structure

>1t15_A Breast cancer type 1 susceptibility protein; protein-peptide complex, antitumor protein; HET: SEP; 1.85A {Homo sapiens} SCOP: c.15.1.3 c.15.1.3 PDB: 1jnx_X* 1t29_A* 1t2v_A* 1y98_A* 3coj_X* 3k0h_A* 3k0k_A* 3pxe_A* 3pxb_A 3pxc_X 1t2u_A 1n5o_X 3pxa_A 3k15_A* 3k16_A* 3pxd_A 2ing_X 1oqa_A	Back alignment and structure

>3ef1_A RNA polymerase II subunit A C-terminal domain phosphatase; CTD, FCPH, BRCT, hydrolase, BEF3, acylphosphate analog, cobalt, magnesium; HET: BFD; 2.15A {Schizosaccharomyces pombe}	Back alignment and structure

>2etx_A Mediator of DNA damage checkpoint protein 1; tandem BRCT domains histone gamma-H2AX, cell cycle; 1.33A {Homo sapiens} PDB: 2azm_A* 3k05_A* 2ado_A	Back alignment and structure

>2nte_A BARD-1, BRCA1-associated ring domain protein 1; BRCT, ring finger, zinc-binding protein, ubiquitin LI antitumor protein; 1.90A {Homo sapiens} PDB: 3fa2_A 2r1z_A	Back alignment and structure

>2etx_A Mediator of DNA damage checkpoint protein 1; tandem BRCT domains histone gamma-H2AX, cell cycle; 1.33A {Homo sapiens} PDB: 2azm_A* 3k05_A* 2ado_A	Back alignment and structure

>3al2_A DNA topoisomerase 2-binding protein 1; BRCT domain, protein binding, DNA binding protein; HET: DNA MSE; 2.00A {Homo sapiens} PDB: 3al3_A*	Back alignment and structure

>3al2_A DNA topoisomerase 2-binding protein 1; BRCT domain, protein binding, DNA binding protein; HET: DNA MSE; 2.00A {Homo sapiens} PDB: 3al3_A*	Back alignment and structure

>1kzy_C Tumor suppressor P53-binding protein 1; tandem-BRCT and linker complexed with non-BRCT protein, three-helix bundle, parallel beta sheet; 2.50A {Homo sapiens} SCOP: c.15.1.4 c.15.1.4 PDB: 1gzh_B	Back alignment and structure

>2l42_A DNA-binding protein RAP1; BRCT domain, protein binding; NMR {Saccharomyces cerevisiae}	Back alignment and structure

>3sqd_A PAX-interacting protein 1; tandem BRCT domains, cell cycle; HET: SEP; 2.15A {Homo sapiens}	Back alignment and structure

>3u3z_A Microcephalin; DNA repair, cell cycle regulation, cell cycle; HET: SEP PTR; 1.50A {Homo sapiens} PDB: 3szm_A* 3t1n_A* 3sht_A 3shv_A*	Back alignment and structure

>3olc_X DNA topoisomerase 2-binding protein 1; BRCT domain, DNA repair, RAD9, DNA binding protein; HET: DNA; 2.40A {Homo sapiens} PDB: 2xnk_A* 2xnh_A*	Back alignment and structure

>2vxb_A DNA repair protein RHP9; BRCT, nucleus, cell cycle, DNA damage, DNA replication inhibitor, phosphoprotein, checkpoint signalling; HET: DNA; 2.3A {Schizosaccharomyces pombe} PDB: 2vxc_A*	Back alignment and structure

>3l41_A BRCT-containing protein 1; BRC1, BRCT domain, tandem BRCT repeat, phosphoserine binding domain, DNA repair, cell division, mitosis; HET: SEP; 1.45A {Schizosaccharomyces pombe} PDB: 3l40_A*	Back alignment and structure

>2dun_A POL MU, DNA polymerase MU; layers A/B/A, parallel beta-sheet of 4 strands, non- homologous END jonting, somatic hypermutation, V(D)J recombination; HET: DNA; NMR {Homo sapiens} PDB: 2htf_A*	Back alignment and structure

>3l41_A BRCT-containing protein 1; BRC1, BRCT domain, tandem BRCT repeat, phosphoserine binding domain, DNA repair, cell division, mitosis; HET: SEP; 1.45A {Schizosaccharomyces pombe} PDB: 3l40_A*	Back alignment and structure

>3sqd_A PAX-interacting protein 1; tandem BRCT domains, cell cycle; HET: SEP; 2.15A {Homo sapiens}	Back alignment and structure

>1l7b_A DNA ligase; BRCT, autostructure, structural genomics, NESG, PSI, protein structure initiative, northeast structural genomics consortium; HET: DNA; NMR {Thermus thermophilus} SCOP: c.15.1.2	Back alignment and structure

>2k6g_A Replication factor C subunit 1; protein, BRCT, DNA binding, activator, alternative splicing, ATP-binding, DNA replication, DNA- binding; NMR {Homo sapiens} PDB: 2k7f_A	Back alignment and structure

>2ebu_A Replication factor C subunit 1; A/B/A 3 layers, parallel beta-sheet, DNA replication, clamp loader, RFC1, structural genomics, NPPSFA; NMR {Homo sapiens}	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		471
d1in1a_		88	c.15.1.2 (A:) DNA ligase III alpha {Human (Homo sa	3e-18
d1t15a2		102	c.15.1.3 (A:1758-1859) Breast cancer associated pr	3e-13
d1cdza_		96	c.15.1.1 (A:) DNA-repair protein XRCC1 {Human (Hom	5e-12
d1wf6a_		132	c.15.1.5 (A:) DNA topoisomerase II binding protein	2e-08

>d1in1a_ c.15.1.2 (A:) DNA ligase III alpha {Human (Homo sapiens) [TaxId: 9606]} Length = 88	Back information, alignment and structure


class: Alpha and beta proteins (a/b)
fold: BRCT domain
superfamily: BRCT domain
family: DNA ligase
domain: DNA ligase III alpha
species: Human (Homo sapiens) [TaxId: 9606]

 Score = 77.3 bits (190), Expect = 3e-18
 Identities = 19/96 (19%), Positives = 36/96 (37%), Gaps = 12/96 (12%)

Query: 314 DENEEDEDTKECKNLFKNMRFFLSREVP-RESMLFVIPAFGGTVSWEGEGAPFSETDQSI 372
             +E    TK   ++F  +R +L    P    +     AF G +  E +           
Sbjct: 2   SADETLCQTKVLLDIFTGVRLYLPPSTPDFSRLRRYFVAFDGDLVQEFDMTS-------A 54

Query: 373 THQIVDRPTQGHVYLSREYVQPQWVYDCVNTRIILP 408
           TH +  R        + + V P+W++ C+  R ++ 
Sbjct: 55  THVLGSRDK----NPAAQQVSPEWIWACIRKRRLVA 86

PyMOL of d1in1a_

>d1t15a2 c.15.1.3 (A:1758-1859) Breast cancer associated protein, BRCA1 {Human (Homo sapiens) [TaxId: 9606]} Length = 102	Back information, alignment and structure

>d1cdza_ c.15.1.1 (A:) DNA-repair protein XRCC1 {Human (Homo sapiens) [TaxId: 9606]} Length = 96	Back information, alignment and structure

>d1wf6a_ c.15.1.5 (A:) DNA topoisomerase II binding protein 1, TopBP1 {Human (Homo sapiens) [TaxId: 9606]} Length = 132	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		471
d1in1a_		88	DNA ligase III alpha {Human (Homo sapiens) [TaxId:	99.75
d1cdza_		96	DNA-repair protein XRCC1 {Human (Homo sapiens) [Ta	99.57
d1t15a2		102	Breast cancer associated protein, BRCA1 {Human (Ho	99.54
d1wf6a_		132	DNA topoisomerase II binding protein 1, TopBP1 {Hu	99.32
d1t15a1		109	Breast cancer associated protein, BRCA1 {Human (Ho	98.1
d1kzyc1		153	53BP1 {Human (Homo sapiens) [TaxId: 9606]}	98.08
d1l0ba2		97	Breast cancer associated protein, BRCA1 {Rat (Ratt	95.46
d1l7ba_		92	NAD+-dependent DNA ligase, domain 4 {Thermus therm	84.07

>d1in1a_ c.15.1.2 (A:) DNA ligase III alpha {Human (Homo sapiens) [TaxId: 9606]}	Back information, alignment and structure

class: Alpha and beta proteins (a/b)
fold: BRCT domain
superfamily: BRCT domain
family: DNA ligase
domain: DNA ligase III alpha
species: Human (Homo sapiens) [TaxId: 9606]

Probab=99.75  E-value=9.4e-20  Score=150.49  Aligned_cols=78  Identities=24%  Similarity=0.462  Sum_probs=68.4

Q ss_pred             hhhhhcCCCCCceEEEecCCc-hhhHHHHhHhcCceeecCCCCCCCCCCCCCceEEEecCCCCCCccCCceEeecceeee
Q 035822          321 DTKECKNLFKNMRFFLSREVP-RESMLFVIPAFGGTVSWEGEGAPFSETDQSITHQIVDRPTQGHVYLSREYVQPQWVYD  399 (471)
Q Consensus       321 ~~~~~~~LF~g~~FfI~REvP-re~LefiIrs~GG~V~wd~~~~~~~e~d~~ITH~IvDRP~~~~~~~~r~YVQPQWVfD  399 (471)
                      ..+...+||+|++|||++++| ++.|+.+|.+|||.+.|+.       +.+++||+|++|+..    .++.+|+||||||
T Consensus         9 ~~k~l~diF~G~~~~i~~~~p~~~~L~r~i~a~GG~~~~~~-------~~~~vTHvI~~~~~~----~~~~iV~p~Wi~d   77 (88)
T d1in1a_           9 QTKVLLDIFTGVRLYLPPSTPDFSRLRRYFVAFDGDLVQEF-------DMTSATHVLGSRDKN----PAAQQVSPEWIWA   77 (88)
T ss_dssp             STTCCCSSSTTCBCCCCTTSTTHHHHHHHHHHHTCBCCCTT-------CCTTCCCEESCCTTC----TTSCEECHHHHHH
T ss_pred             cccchhhHhCCeEEEECCCCCCHHHHHHHHHHhCCEEeeec-------cCCCceEEEEcCCCC----CCcEEEehHHHHH
Confidence            345688999999999999998 9999999999999999973       345799999999843    4678999999999


Q ss_pred             eccCCcccCC
Q 035822          400 CVNTRIILPT  409 (471)
Q Consensus       400 cvN~~~lLp~  409 (471)
                      |||++.|||+
T Consensus        78 ci~~~~lLPp   87 (88)
T d1in1a_          78 CIRKRRLVAP   87 (88)
T ss_dssp             HHHHTSCCCC
T ss_pred             HHHcCCcCCC
Confidence            9999999985

PyMOL of d1in1a_

>d1cdza_ c.15.1.1 (A:) DNA-repair protein XRCC1 {Human (Homo sapiens) [TaxId: 9606]}	Back information, alignment and structure

>d1t15a2 c.15.1.3 (A:1758-1859) Breast cancer associated protein, BRCA1 {Human (Homo sapiens) [TaxId: 9606]}	Back information, alignment and structure

>d1wf6a_ c.15.1.5 (A:) DNA topoisomerase II binding protein 1, TopBP1 {Human (Homo sapiens) [TaxId: 9606]}	Back information, alignment and structure

>d1t15a1 c.15.1.3 (A:1649-1757) Breast cancer associated protein, BRCA1 {Human (Homo sapiens) [TaxId: 9606]}	Back information, alignment and structure

>d1kzyc1 c.15.1.4 (C:1714-1866) 53BP1 {Human (Homo sapiens) [TaxId: 9606]}	Back information, alignment and structure

>d1l0ba2 c.15.1.3 (A:1705-1801) Breast cancer associated protein, BRCA1 {Rat (Rattus norvegicus) [TaxId: 10116]}	Back information, alignment and structure

>d1l7ba_ c.15.1.2 (A:) NAD+-dependent DNA ligase, domain 4 {Thermus thermophilus [TaxId: 274]}	Back information, alignment and structure