Citrus Sinensis ID: 006973

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Local Sequence Feature Prediction

Residue Number Marker
--------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-------520-------530-------540-------550-------560-------570-------580-------590-------600-------610-------620---
Protein Sequence
MDKTVSPDAISTILSNPSPDSSSDIPEIVVQVLDLKLTGNRYMFNASDGKKRLKAILPSNLSSEVISGNIQNKGLIRLLDYALNEIPTKSEKYLIVTKCEVVSPALEMEIKIEVKSDESGIIFKPKQEDEVKKDGPGIVLKPKQEMVAKSAAQILRDQNGNMAPAARLAMTRRVHPLVSLNPYQGNWTIKVRVTSKGNMRTYKNARGEGCVFNVELTDEDGTQIQATMFNEAARKFYDRFQLGKVYYISRGTLRVANKQFKTVQNDYEMNLNENSEVEEAVNETAFIPQTKFNFVPIDELGRYVNGTELVDIIGVVQNVSPTMSIRRKSNNEMVPKRDITVADETKRTVTVSLWNELATNVGQELLDNADKSPIVAIKSLKVGDFQGISLSTLGRSTVLVSPDLPEAKKLKSWYESEGKGTSMASIGSGLGSLAKNGARSMYSDRVSLTHITSNPSLGDEKPVFFSIKAYISLIKPDQAMWYRACKTCNKKVTDALGSGYWCEGCQKNDEECSLRYIMVARVCDGSGEAWISIFNEEAERIIGCSADELNELKSQLGDDNSYQMKLKEVTWVPHLLRVSVAQQEYNNEKRQRVTVRAVAPVDFAAESKFLLEEISKKVSHQNA
Secondary Structure (PSIPRED)
ccccccHHHHHHHHccccccccccccccEEEEEEEEEcccEEEEEEEccccccccccccccccccccccccccEEEEEcEEEEEEEcccccEEEEEEEEEEcccccccccccccccccccccccccccccccccccccccccccHHccccHHHHccccccccccHHcccccccccccEEcccccccEEEEEEEEEEccccccccccccEEEEEEEEEcccccEEEEEEEcHHHHHHccccccccEEEEEEEEEEEcccccEEcccccEEEEcccccEEEcccccccccccccccccccccccccccccEEEEEEEEEEccccEEEEEcccccEEEEEEEEEEcccccEEEEEEcHHHHHHHHHHHHcccccccEEEEEccEEEEEcccEEcccccEEEEEcccHHHHHHHHHHHHHcccccccccccccccccccccccccccccEEEEEEEccccccccccEEEEEEEEEEEEEccccEEEEccccccccEEEccccEEEcccccccccccccEEEEEEEEEEccccEEEEEEHHHHHHHHcccHHHHHHHHHHccccHHHHHHHHHHcccEEEEEEEEEEEEEccEEEEEEEEEEEEEccHHHHHHHHHHHHHHHHHcccc
Secondary Structure Prediction (SSPRO)
ccccccHHHHHHHHccccccccccccccEEEEEEEEcccccEEEEEcccHHHHHHHHHHHHHHHHHcccccccEEEEEEEEEEEEEcccccEEEEEEEEEEEcccHHccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccEccHHHccccccccEEEEEEEEEcccEEEEccccEEEEEEEEEEcccccEEEEEEEHHHHHHHHHHcccccEEEEEccEEEEccHHHccccccEEEEcccccEEEEcccccccccEEEEEEEEHHHHHcccccccEEEEEEEEEEccccEEEEEEccccEEccEEEEEEEccccEEEEEEEcccHHHHcHHHHHccccccEEEEEEEEEEcccccEEEcccccEEEEccccHHHHHHHHHHHHHcccccEEEccccccccccccccccccccEEHHHHHHccccccccccEEEEEEEEEEEEccccEEcccccccccEEEEcccccEEEcccccccccccEEEEEEEEEEcccccEEEEccHHHHHHHHcccHHHHHHHHHccccHHHHHHHHHHHcccEEEEEEEEEEcccccccEEEEEEEEEccccHHHHHHHHHHHHHHHHHcccc
Coil and Loop (DISEMBL)
mdktvspdaistilsnpspdsssdipEIVVQVLDLKltgnrymfnasDGKKRLKAilpsnlssevisgniqnkgLIRLLDYAlneiptkseKYLIVTKCEVVSPALEMEIKIEvksdesgiifkpkqedevkkdgpgivlkpkQEMVAKSAAQILRdqngnmapAARLAMTRRvhplvslnpyqgnwtIKVRVTSkgnmrtyknargegcvfnveltdedgTQIQATMFNEAARKFYDRFQLGKVYYISRGTLRVANKQFKTVQNDYEMnlnenseveeavnetafipqtkfnfvpidelgryvngTELVDIIGVVQnvsptmsirrksnnemvpkrditvadetkRTVTVSLWNELATNVGQElldnadkspivaikslkvgdfqgislstlgrstvlvspdlpeakKLKSWyesegkgtsmasigsglgslakngarsmysdrvslthitsnpslgdekpvFFSIKAYISLIKPDQAMWYRACKTCNKKVTdalgsgywcegcqkndeecSLRYIMVARVCDGSGEAWISIFNEEAERIIGCSADELNELKsqlgddnsyqmklkevtwvPHLLRVSVAQQEYnnekrqrvtvravapvdFAAESKFLLEEISKKVSHQNA
Flexible Loop (DISEMBL)
mdktvspdaistilsnpspdsssdiPEIVVQVLDLKLTGNRYMFNASDGKKRLKAILPSNLSSEVISGNIQNKGLIRLLDYALNEiptksekylIVTKCEVVSPALEMEIKievksdesgiifkpkqedevkkdgpgivlkpkqEMVAKSAAQILRDQNGNMAPAARLAMTRRVHPlvslnpyqgnwtiKVRVTSKGNMRTYKNARGEGCVFNVELTDEDGTQIQATMFNEAARKFYDRFQLGKVYYISRGTLRVANKQFKTVQNDYEMNLNENSEVEEAVNETAFIPQTKFNFVPIDELGRYVNGTELVDIIGVvqnvsptmsirrksnnemvpkrditvadetkrtvTVSLWNELATNVGQELLDNADKSPIVAIKSLKVGDFQGISlstlgrstvlvspdlpeakKLKSWYesegkgtsmasigsGLGSLAKNGARSMYSDRVSLTHItsnpslgdekPVFFSIKAYISLIKPDQAMWYRACKTCNKKVTDALGSGYWCEGCQKNDEECSLRYIMVARVCDGSGEAWISIFNEEAERIIGCSADELNELKSQLGDDNSYQMKLKEVTWVPHLLRVSVAQqeynnekrqrvtvRAVAPVDFAAESKFLLeeiskkvshqna
Low Complexity Region (SEG)
MDKTVSPDAISTILsnpspdsssdIPEIVVQVLDLKLTGNRYMFNASDGKKRLKAILPSNLSSEVISGNIQNKGLIRLLDYALNEIPTKSEKYLIVTKCEVVSPALEMEIKIEVKSDESGIIFKPKQEDEVKKDGPGIVLKPKQEMVAKSAAQILRDQNGNMAPAARLAMTRRVHPLVSLNPYQGNWTIKVRVTSKGNMRTYKNARGEGCVFNVELTDEDGTQIQATMFNEAARKFYDRFQLGKVYYISRGTLRVANKQFKTVQNDYEMnlnenseveeavneTAFIPQTKFNFVPIDELGRYVNGTELVDIIGVVQNVSPTMSIRRKSNNEMVPKRDITVADETKRTVTVSLWNELATNVGQELLDNADKSPIVAIKSLKVGDFQGISLSTLGRSTVLVSPDLPEAKKLKSWYESEGKGTSMASIGSGLGSLAKNGARSMYSDRVSLTHITSNPSLGDEKPVFFSIKAYISLIKPDQAMWYRACKTCNKKVTDALGSGYWCEGCQKNDEECSLRYIMVARVCDGSGEAWISIFNEEAERIIGCSADELNELKSQLGDDNSYQMKLKEVTWVPHLLRVSVAQQEYNNEKRQRVTVRAVAPVDFAAESKFLLEEISKKVSHQNA
Disordered region (IsUnstruct)
**************************EIVVQVLDLKLTGNRYMFNASDGKKRLKAILPSNLSSEVISGNIQNKGLIRLLDYALNEIPTKSEKYLIVTKCEVVSPALEMEIKIEVK*****II********************************************RLAMTRRVHPLVSLNPYQGNWTIKVRVTSKGNMRTYKNARGEGCVFNVELTDEDGTQIQATMFNEAARKFYDRFQLGKVYYISRGTLRVANKQFKTVQNDYEMNL*****VEEAVNETAFIPQTKFNFVPIDELGRYVNGTELVDIIGVVQNVS******************ITVADETKRTVTVSLWNELATNVGQELLDNADKSPIVAIKSLKVGDFQGISLSTLGRSTVLV***********************************************************EKPVFFSIKAYISLIKPDQAMWYRACKTCNKKVTDALGSGYWCEGCQKNDEECSLRYIMVARVCDGSGEAWISIFNEEAERIIGCSADELNELK**LGDDNSYQMKLKEVTWVPHLLRVSVAQQEYNNEKRQRVTVRAVAPVDFAAESKFLL************
Disordered Region (DISOPRED)
*DKTVSPDAISTILSNPSPDSSSDIPEIVVQVLDLKLTGNRYMFNASDGKKRLKAILPSNLSSEVISGNIQNKGLIRLLDYALNEIPTKSEKYLIVTKCEVVSPALEM*******************************************************************PLVSLNPYQGNWTIKVRVTSKGNMRTYKNARGEGCVFNVELTDEDGTQIQATMFNEAARKFYDRFQLGKVYYISRGTLRVANKQFKTVQNDYEMNLNENSEVEEAVNETAFIPQTKFNFVPIDELGRYVNGTELVDIIGVVQNVSPTMSIRRKSNNEMVPKRDITVADETKRTVTVSLWNELATNVGQELLDNADKSPIVAIKSLKVGDFQGISLSTLGRSTVLVSPDLPEAKKLKSWYESEGKGTS************KNGARSMYSDRVSLTHITSNPSLGDEKPVFFSIKAYISLIKPDQAMWYRACKTCNKKVTDALGSGYWCEGCQKNDEECSLRYIMVARVCDGSGEAWISIFNEEAERIIGCSADELNELKSQLGDDNSYQMKLKEVTWVPHLLRVSVAQQEYNNEKRQRVTVRAVAPVDFAAESKFLLEE***K******
Disordered Region (DISEMBL)
********AISTILSNPSPDSSSDIPEIVVQVLDLKLTGNRYMFNASDGKKRLKAILPSNLSSEVISGNIQNKGLIRLLDYALNEIPTKSEKYLIVTKCEVVSPALEMEIKIEVKSDESGIIFKPKQEDEVKKDGPGIVLKPKQEMVAKSAAQILRDQNGNMAPAARLAMTRRVHPLVSLNPYQGNWTIKVRVTSKGNMRTYKNARGEGCVFNVELTDEDGTQIQATMFNEAARKFYDRFQLGKVYYISRGTLRVANKQFKTVQNDYEMNLNENSEVEEAVNETAFIPQTKFNFVPIDELGRYVNGTELVDIIGVVQNVSPTMSIRRKSNNEMVPKRDITVADETKRTVTVSLWNELATNVGQELLDNADKSPIVAIKSLKVGDFQGISLSTLGRSTVLVSPDLPEAKKLKSWYESEGKGTSMASIGSGLGSLAKNGARSMYSDRVSLTHITSNPSLGDEKPVFFSIKAYISLIKPDQAMWYRACKTCNKKVTDALGSGYWCEGCQKNDEECSLRYIMVARVCDGSGEAWISIFNEEAERIIGCSADELNELKSQLGDDNSYQMKLKEVTWVPHLLRVSVAQQEYNNEKRQRVTVRAVAPVDFAAESKFLLEEI*********
Disordered Region (DISPRO)
*********IST****PSPDSSSDIPEIVVQVLDLKLTGNRYMFNASDGKKRLKAILPSNLSSEVISGNIQNKGLIRLLDYALNEIPTKSEKYLIVTKCEVVSPAL****************************************************************TRRVHPLVSLNPYQGNWTIKVRVTSKGNMRTYKNARGEGCVFNVELTDEDGTQIQATMFNEAARKFYDRFQLGKVYYISRGTLRVANKQFKTVQNDYEMNLNENSEVEEAVNETAFIPQTKFNFVPIDELGRYVNGTELVDIIGVVQNVSPTMSIRRKSNNEMVPKRDITVADETKRTVTVSLWNELATNVGQELLDNADKSPIVAIKSLKVGDFQGISLSTLGRSTVLVSPDLPEAKKLKSWYESEGKGTS*A******************SDRVSLTHITSNPSLGDEKPVFFSIKAYISLIKPDQAMWYRACKTCNKKVTDALGSGYWCEGCQKNDEECSLRYIMVARVCDGSGEAWISIFNEEAERIIGCSADELNELKSQLGDDNSYQMKLKEVTWVPHLLRVSVAQQEYNNEKRQRVTVRAVAPVDFAAESKFLLEEISKKVS****
Transmembrane Helix (TMHMM)
ooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooo
Transmembrane Helix (HMMTOP)
ooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooo
Transmembrane Helix (MEMSAT)
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TM Helix, Signal Peptide (MEMSAT_SVM)
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TM Helix, Signal Peptide (Phobius)
ooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooo
Signal Peptide (SignalP HMM Mode)
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Signal Peptide (SignalP NN Mode)
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Coiled Coils (COILS)
MDKTVSPDAISTILSNPSPDSSSDIPEIVVQVLDLKLTGNRYMFNASDGKKRLKAILPSNLSSEVISGNIQNKGLIRLLDYALNEIPTKSEKYLIVTKCEVVSPALEMEIKIEVKSDESGIIFKPKQEDEVKKDGPGIVLKPKQEMVAKSAAQILRDQNGNMAPAARLAMTRRVHPLVSLNPYQGNWTIKVRVTSKGNMRTYKNARGEGCVFNVELTDEDGTQIQATMFNEAARKFYDRFQLGKVYYISRGTLRVANKQFKTVQNDYEMNLNENSEVEEAVNETAFIPQTKFNFVPIDELGRYVNGTELVDIIGVVQNVSPTMSIRRKSNNEMVPKRDITVADETKRTVTVSLWNELATNVGQELLDNADKSPIVAIKSLKVGDFQGISLSTLGRSTVLVSPDLPEAKKLKSWYESEGKGTSMASIGSGLGSLAKNGARSMYSDRVSLTHITSNPSLGDEKPVFFSIKAYISLIKPDQAMWYRACKTCNKKVTDALGSGYWCEGCQKNDEECSLRYIMVARVCDGSGEAWISIFxxxxxxxxxxxxxxxxxxxxxLGDDNSYQMKLKEVTWVPHLLRVSVAQQEYNNEKRQRVTVRAVAPVDFAAESKFLLEEISKKVSHQNA
Positional Conservation
no confident homologs detected

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Close Homologs for Annotation Transfer

Close Homologs in SWISS-PROT Database Detected by BLAST

Original result of BLAST against SWISS-PROT Database

ID	Length	Definition	RBH(Q2H)	RBH(H2Q)	Q cover	H cover	Identity	E-value
Query	623	2.2.26 [Sep-21-2011]
Q92372	609	Replication factor A prot	yes	no	0.929	0.950	0.330	2e-78
P27694	616	Replication protein A 70	yes	no	0.682	0.689	0.367	9e-76
Q5R7Q4	616	Replication protein A 70	yes	no	0.682	0.689	0.365	1e-74
Q5FW17	609	Replication protein A 70	yes	no	0.691	0.707	0.371	4e-74
Q01588	609	Replication protein A 70	N/A	no	0.686	0.702	0.376	3e-73
P22336	621	Replication factor A prot	yes	no	0.884	0.887	0.305	6e-73
Q8VEE4	623	Replication protein A 70	yes	no	0.688	0.688	0.369	4e-71
Q6NY74	601	Replication protein A 70	yes	no	0.860	0.891	0.313	6e-69
Q24492	603	Replication protein A 70	yes	no	0.890	0.920	0.302	6e-67
Q5ZJJ2	614	Replication protein A 70	yes	no	0.685	0.695	0.357	2e-66

>sp|Q92372|RFA1_SCHPO Replication factor A protein 1 OS=Schizosaccharomyces pombe (strain 972 / ATCC 24843) GN=ssb1 PE=1 SV=1

 Score =  293 bits (751), Expect = 2e-78,   Method: Compositional matrix adjust.
 Identities = 201/609 (33%), Positives = 322/609 (52%), Gaps = 30/609 (4%)

Query: 18  SPDSSSDIPEIVVQVLDLK-LTGN-------RYMFNASDGKKRLKAILPSNLSSEVISGN 69
           + D+SS  P  ++QVL +K L  N       RY    SD     +++L + L+  V    
Sbjct: 15  TSDASSFPPNPILQVLTVKELNSNPTSGAPKRYRVVLSDSINYAQSMLSTQLNHLVAENK 74

Query: 70  IQNKGLIRLLDYALNEIPTKSEKYLIVTKCEVVSPALEMEIKIEVKSDESGIIFKPKQED 129
           +Q    ++L  + +N +  K  K LIV    V++    M+        E+    + +Q +
Sbjct: 75  LQKGAFVQLTQFTVNVM--KERKILIVLGLNVLTELGVMDKIGNPAGLETVDALRQQQNE 132

Query: 130 EVKKDGP--GIVLKPKQEMVAKSAAQILRDQNGNMAPAARLAMTRRVHPLVSLNPYQGNW 187
           +     P  GI           +AA           PAA  +++  ++P+  L+PYQ  W
Sbjct: 133 QNNASAPRTGISTSTNSFYGNNAAATAPAPPPMMKKPAAPNSLSTIIYPIEGLSPYQNKW 192

Query: 188 TIKVRVTSKGNMRTYKNARGEGCVFNVELTDEDGTQIQATMFNEAARKFYDRFQLGKVYY 247
           TI+ RVT+K  ++ + N RGEG +F+V L DE G +I+AT FN+    FYD  Q G VYY
Sbjct: 193 TIRARVTNKSEVKHWHNQRGEGKLFSVNLLDESG-EIRATGFNDQVDAFYDILQEGSVYY 251

Query: 248 ISRGTLRVANKQFKTVQNDYEMNLNENSEVEEAVNETAFIPQTKFNFVPIDELGRYVNGT 307
           ISR  + +A KQ+  VQN+YE+    ++E+ +A ++TA +P  KF+FV + E+G  V   
Sbjct: 252 ISRCRVNIAKKQYTNVQNEYELMFERDTEIRKAEDQTA-VPVAKFSFVSLQEVGD-VAKD 309

Query: 308 ELVDIIGVVQNVSPTMSIRRKSNNEMVPKRDITVADETKRTVTVSLWNELATNVGQELLD 367
            ++D+IGV+QNV P   I  ++ +    KRDIT+ D+T   + V+LW + A         
Sbjct: 310 AVIDVIGVLQNVGPVQQITSRATSRGFDKRDITIVDQTGYEMRVTLWGKTAIEF------ 363

Query: 368 NADKSPIVAIKSLKVGDFQGISLSTLGRSTVLVSPDLPEAKKLKSWYESEGKGTSMASIG 427
           +  +  I+A K +KV DFQG SLS L  ST+ V PD+ E+  LK WY+ +G+G   A   
Sbjct: 364 SVSEESILAFKGVKVNDFQGRSLSMLTSSTMSVDPDIQESHLLKGWYDGQGRGQEFAKHS 423

Query: 428 SGLGSLAKNGARSMYSDRVSLTHITSNPSLGDEKPVFFSIKAYISLIKPDQAMWYRACKT 487
               +L+  G RS  ++R ++  + +      E P +FS+K  I  I+  + + Y AC  
Sbjct: 424 VISSTLSTTG-RS--AERKNIAEVQAEHLGMSETPDYFSLKGTIVYIRK-KNVSYPACPA 479

Query: 488 --CNKKVTDALGSGYWCEGCQKNDEECSLRYIMVARVCDGSGEAWISIFNEEAERIIGCS 545
             CNKKV D  GS + CE C K  +    RYI+   V D +G+ W+++F++  + I+  +
Sbjct: 480 ADCNKKVFDQGGS-WRCEKCNKEYDAPQYRYIITIAVGDHTGQLWLNVFDDVGKLIMHKT 538

Query: 546 ADELNELKSQLGDDNSYQMKLKEVTWVPHLLRVSVAQQEYNNEKRQRVTVRAVAPVDFAA 605
           ADELN+L  Q  D+N++   + E  ++P++ +    Q  +  E R R TV ++  +D+  
Sbjct: 539 ADELNDL--QENDENAFMNCMAEACYMPYIFQCRAKQDNFKGEMRVRYTVMSINQMDWKE 596

Query: 606 ESKFLLEEI 614
           ESK L+  I
Sbjct: 597 ESKRLINFI 605

Binds to single-stranded sequences.
Schizosaccharomyces pombe (strain 972 / ATCC 24843) (taxid: 284812)

>sp|P27694|RFA1_HUMAN Replication protein A 70 kDa DNA-binding subunit OS=Homo sapiens GN=RPA1 PE=1 SV=2

 Score =  285 bits (728), Expect = 9e-76,   Method: Compositional matrix adjust.
 Identities = 165/449 (36%), Positives = 251/449 (55%), Gaps = 24/449 (5%)

Query: 173 RVHPLVSLNPYQGNWTIKVRVTSKGNMRTYKNARGEGCVFNVELTDEDGTQIQATMFNEA 232
           +V P+ SL PYQ  WTI  RVT+K  +RT+ N+RGEG +F++EL DE G +I+AT FNE 
Sbjct: 183 KVVPIASLTPYQSKWTICARVTNKSQIRTWSNSRGEGKLFSLELVDESG-EIRATAFNEQ 241

Query: 233 ARKFYDRFQLGKVYYISRGTLRVANKQFKTVQNDYEMNLNENSEVEEAVNETAFIPQTKF 292
             KF+   ++ KVYY S+GTL++ANKQF  V+NDYEM  N  + V    ++   +P  +F
Sbjct: 242 VDKFFPLIEVNKVYYFSKGTLKIANKQFTAVKNDYEMTFNNETSVMPCEDD-HHLPTVQF 300

Query: 293 NFVPIDELGRYVNGTELVDIIGVVQNVSPTMSIRRKSNNEMVPKRDITVADETKRTVTVS 352
           +F  ID+L      + LVDIIG+ ++      I  +SNN  V KR+I + D + + VT +
Sbjct: 301 DFTGIDDLENKSKDS-LVDIIGICKSYEDATKITVRSNNREVAKRNIYLMDTSGKVVTAT 359

Query: 353 LWNELATNVGQELLDNADKSPIVAIKSLKVGDFQGISLSTLGRSTVLVSPDLPEAKKLKS 412
           LW E A         +  + P++AIK  +V DF G SLS L  ST++ +PD+PEA KL+ 
Sbjct: 360 LWGEDADKF------DGSRQPVLAIKGARVSDFGGRSLSVLSSSTIIANPDIPEAYKLRG 413

Query: 413 WYESEGK---GTSMASIGSGLGSLAKNGARSMYSDRVSLTHITSNPSLGDEKPVFFSIKA 469
           W+++EG+   G S++ + SG    +    +++Y  +      + N   GD KP +FS  A
Sbjct: 414 WFDAEGQALDGVSISDLKSGGVGGSNTNWKTLYEVK------SENLGQGD-KPDYFSSVA 466

Query: 470 YISLIKPDQAMWYRACKT--CNKKVTDALGSGYWCEGCQKNDEECSLRYIMVARVCDGSG 527
            +  ++ +  M Y+AC T  CNKKV D     Y CE C         R I+   + D   
Sbjct: 467 TVVYLRKENCM-YQACPTQDCNKKVIDQQNGLYRCEKCDTEFPNFKYRMILSVNIADFQE 525

Query: 528 EAWISIFNEEAERIIGCSADELNELKSQLGDDNSYQMKLKEVTWVPHLLRVSVAQQEYNN 587
             W++ F E AE I+G +A  L ELK +  ++ +++   +   +   + RV V  + YN+
Sbjct: 526 NQWVTCFQESAEAILGQNAAYLGELKDK--NEQAFEEVFQNANFRSFIFRVRVKVETYND 583

Query: 588 EKRQRVTVRAVAPVDFAAESKFLLEEISK 616
           E R + TV  V PVD+    + L+  I +
Sbjct: 584 ESRIKATVMDVKPVDYREYGRRLVMSIRR 612

Functions as component of the alternative replication protein A complex (aRPA). aRPA binds single-stranded DNA and probably plays a role in DNA repair; it does not support chromosomal DNA replication and cell cycle progression through S-phase. In vitro, aRPA cannot promote efficient priming by DNA polymerase alpha but supports DNA polymerase delta synthesis in the presence of PCNA and replication factor C (RFC), the dual incision/excision reaction of nucleotide excision repair and RAD51-dependent strand exchange.

Homo sapiens (taxid: 9606)

>sp|Q5R7Q4|RFA1_PONAB Replication protein A 70 kDa DNA-binding subunit OS=Pongo abelii GN=RPA1 PE=2 SV=1

 Score =  281 bits (718), Expect = 1e-74,   Method: Compositional matrix adjust.
 Identities = 164/449 (36%), Positives = 249/449 (55%), Gaps = 24/449 (5%)

Query: 173 RVHPLVSLNPYQGNWTIKVRVTSKGNMRTYKNARGEGCVFNVELTDEDGTQIQATMFNEA 232
           +V P+ SL PYQ  WTI  RVT+K  +RT+ N+RGE  +F++EL DE G +I+AT FNE 
Sbjct: 183 KVVPIASLTPYQSKWTICARVTNKSQIRTWSNSRGEEKLFSLELVDESG-EIRATAFNEQ 241

Query: 233 ARKFYDRFQLGKVYYISRGTLRVANKQFKTVQNDYEMNLNENSEVEEAVNETAFIPQTKF 292
             KF+   ++ KVYY S+GTL++ANKQF  V+NDYEM  N  + V    ++   +P  +F
Sbjct: 242 VDKFFPLIEVNKVYYFSKGTLKIANKQFTAVKNDYEMTFNNETSVMPCEDD-HHLPTVQF 300

Query: 293 NFVPIDELGRYVNGTELVDIIGVVQNVSPTMSIRRKSNNEMVPKRDITVADETKRTVTVS 352
           +F  ID+L      + LVDIIG+ ++      I  +SNN  V KR+I + D + + VT +
Sbjct: 301 DFTGIDDLENKSKDS-LVDIIGICKSYEDATKITVRSNNREVAKRNIYLMDTSGKVVTAT 359

Query: 353 LWNELATNVGQELLDNADKSPIVAIKSLKVGDFQGISLSTLGRSTVLVSPDLPEAKKLKS 412
           LW E A         +  + P++AIK  +V DF G SLS L  ST++ +PD+PEA KL+ 
Sbjct: 360 LWGEDADKF------DGSRQPVLAIKGARVSDFGGRSLSVLSSSTIIANPDIPEAYKLRG 413

Query: 413 WYESEGK---GTSMASIGSGLGSLAKNGARSMYSDRVSLTHITSNPSLGDEKPVFFSIKA 469
           W+++EG+   G S++ + SG         +++Y  +      + N   GD KP +FS  A
Sbjct: 414 WFDAEGQALDGVSISDLKSGGVGGGNTNWKTLYEVK------SENLGQGD-KPDYFSSVA 466

Query: 470 YISLIKPDQAMWYRACKT--CNKKVTDALGSGYWCEGCQKNDEECSLRYIMVARVCDGSG 527
            +  ++ +  M Y+AC T  CNKKV D     Y CE C         R I+   + D   
Sbjct: 467 TVVYLRKENCM-YQACPTQDCNKKVIDQQNGLYRCEKCDTEFPNFKYRMILSVNIADFQE 525

Query: 528 EAWISIFNEEAERIIGCSADELNELKSQLGDDNSYQMKLKEVTWVPHLLRVSVAQQEYNN 587
             W++ F E AE I+G +A  L ELK +  ++ +++   +   +   + RV V  + YN+
Sbjct: 526 NQWVTCFQESAEAILGQNAAYLGELKDK--NEQAFEEVFQNANFRSFIFRVRVKVETYND 583

Query: 588 EKRQRVTVRAVAPVDFAAESKFLLEEISK 616
           E R + TV  V PVD+    + L+  I +
Sbjct: 584 ESRIKATVMDVKPVDYREYGRRLVMSIRR 612

It participates in a very early step in initiation. RP-A is a single-stranded DNA-binding protein.

Pongo abelii (taxid: 9601)

>sp|Q5FW17|RFA1_XENTR Replication protein A 70 kDa DNA-binding subunit OS=Xenopus tropicalis GN=rpa1 PE=2 SV=1

 Score =  279 bits (714), Expect = 4e-74,   Method: Compositional matrix adjust.
 Identities = 167/450 (37%), Positives = 256/450 (56%), Gaps = 19/450 (4%)

Query: 173 RVHPLVSLNPYQGNWTIKVRVTSKGNMRTYKNARGEGCVFNVELTDEDGTQIQATMFNEA 232
           +V P+ SLNPYQ  WT++ RVT+KG +RT+ N+RGEG +F++E+ DE G +I+AT FNE 
Sbjct: 175 KVVPIASLNPYQSKWTVRARVTNKGQIRTWSNSRGEGKLFSIEMVDESG-EIRATAFNEQ 233

Query: 233 ARKFYDRFQLGKVYYISRGTLRVANKQFKTVQNDYEMNLNENSEVEEAVNETAFIPQTKF 292
           A KF+   ++ KVYY S+GTL++ANKQ+ +V+NDYEM  N  + V    +++A +P  +F
Sbjct: 234 ADKFFSLIEVNKVYYFSKGTLKIANKQYTSVKNDYEMTFNSETSV-IPCDDSADVPMVQF 292

Query: 293 NFVPIDELGRYVNGTELVDIIGVVQNVSPTMSIRRKSNNEMVPKRDITVADETKRTVTVS 352
            FVPI EL    N   ++DIIG+ +N      +  +SNN  V KR+I + D + + V+ +
Sbjct: 293 EFVPIGEL-ESKNKDTVLDIIGICKNAEEVTKVTIRSNNREVSKRNINLMDSSGKVVSTT 351

Query: 353 LWNELATNVGQELLDNADKSPIVAIKSLKVGDFQGISLSTLGRSTVLVSPDLPEAKKLKS 412
           LW E A         +  + P+VAIK  ++ DF G SLS L  STV+++PD+PEA KL++
Sbjct: 352 LWGEDADKF------DGSRQPVVAIKGARLSDFGGRSLSVLSSSTVMINPDIPEAFKLRA 405

Query: 413 WYESEGKGTSMASIGSGLGSLAKNGARSMYSDRVSLTHITSNPSLGDEKPVFFSIKAYIS 472
           W++SEG+     SI     S ++ G     ++  SL  + +      EK  +F+  A I 
Sbjct: 406 WFDSEGQVVEGTSI-----SESRGGTGGGNTNWKSLLEVKTENLGHGEKADYFTSVATIV 460

Query: 473 LIKPDQAMWYRACKT--CNKKVTDALGSGYWCEGCQKNDEECSLRYIMVARVCDGSGEAW 530
            ++ +  + Y+AC +  CNKKV D     + CE C K       R I+ A + D     W
Sbjct: 461 YLRKENCL-YQACPSQDCNKKVIDQQNGLFRCEKCDKEFPNYKYRLILSANIADFGENQW 519

Query: 531 ISIFNEEAERIIGCSADELNELKSQLGDDNSYQMKLKEVTWVPHLLRVSVAQQEYNNEKR 590
           I+ F E AE I+G +A  L ELK +  ++ +Y    +   +  +  R+ V  + YN+E R
Sbjct: 520 ITCFQESAESILGQNATYLGELKEK--NEQAYDEVFQNANFRSYTFRIRVKLETYNDESR 577

Query: 591 QRVTVRAVAPVDFAAESKFLLEEISKKVSH 620
            + T   V PVD    S+ L+  I K  + 
Sbjct: 578 IKATAMDVKPVDHKEYSRRLIMNIRKMAAQ 607

Plays an essential role in several cellular processes in DNA metabolism including replication, recombination and DNA repair. Binds and subsequently stabilizes single-stranded DNA intermediates and thus prevents complementary DNA from reannealing.

Xenopus tropicalis (taxid: 8364)

>sp|Q01588|RFA1_XENLA Replication protein A 70 kDa DNA-binding subunit OS=Xenopus laevis GN=rpa1 PE=1 SV=1

 Score =  276 bits (706), Expect = 3e-73,   Method: Compositional matrix adjust.
 Identities = 171/454 (37%), Positives = 255/454 (56%), Gaps = 26/454 (5%)

Query: 173 RVHPLVSLNPYQGNWTIKVRVTSKGNMRTYKNARGEGCVFNVELTDEDGTQIQATMFNEA 232
           +V P+ SLNPYQ  WT++ RVT+KG +RT+ N+RGEG +F++E+ DE G +I+AT FNE 
Sbjct: 174 KVVPIASLNPYQSKWTVRARVTNKGQIRTWSNSRGEGKLFSIEMVDESG-EIRATAFNEQ 232

Query: 233 ARKFYDRFQLGKVYYISRGTLRVANKQFKTVQNDYEMNLNENSEVEEAVNETAFIPQTKF 292
           A KF+   ++ KVYY S+GTL++ANKQ+ +V+NDYEM  N  + V    +++A +P  +F
Sbjct: 233 ADKFFSIIEVNKVYYFSKGTLKIANKQYTSVKNDYEMTFNSETSV-IPCDDSADVPMVQF 291

Query: 293 NFVPIDELGRYVNGTELVDIIGVVQNVSPTMSIRRKSNNEMVPKRDITVADETKRTVTVS 352
            FV I EL    N   ++DIIGV +NV     +  KSNN  V KR I + D + + V+ +
Sbjct: 292 EFVSIGEL-ESKNKDTVLDIIGVCKNVEEVTKVTIKSNNREVSKRSIHLMDSSGKVVSTT 350

Query: 353 LWNELATNVGQELLDNADKSPIVAIKSLKVGDFQGISLSTLGRSTVLVSPDLPEAKKLKS 412
           LW E A         +  + P+VAIK  ++ DF G SLS L  STV+++PD+PEA KL++
Sbjct: 351 LWGEDADKF------DGSRQPVVAIKGARLSDFGGRSLSVLSSSTVMINPDIPEAFKLRA 404

Query: 413 WYESEGK---GTSMASIGSGLGSLAKNGARSMYSDRVSLTHITSNPSLGD-EKPVFFSIK 468
           W++SEG+   GTS++    G         +S+            N +LG  EK  +F+  
Sbjct: 405 WFDSEGQVVEGTSISESRGGGTGGGNTNWKSLLE--------VKNENLGHGEKADYFTSV 456

Query: 469 AYISLIKPDQAMWYRAC--KTCNKKVTDALGSGYWCEGCQKNDEECSLRYIMVARVCDGS 526
           A I  ++ +  + Y+AC  + CNKKV D     + CE C K       R I+ A + D  
Sbjct: 457 ATIVYLRKENCL-YQACPSQDCNKKVIDQQNGLFRCEKCNKEFPNFKYRLILSANIADFG 515

Query: 527 GEAWISIFNEEAERIIGCSADELNELKSQLGDDNSYQMKLKEVTWVPHLLRVSVAQQEYN 586
              WI+ F E AE I+G +A  L ELK +  ++ +Y    +   +  +  R  V  + YN
Sbjct: 516 ENQWITCFQESAESILGQNATYLGELKEK--NEQAYDEVFQNANFRSYTFRARVKLETYN 573

Query: 587 NEKRQRVTVRAVAPVDFAAESKFLLEEISKKVSH 620
           +E R + T   V PVD    S+ L+  I K  + 
Sbjct: 574 DESRIKATAVDVKPVDHKEYSRRLIMNIRKMATQ 607

Plays an essential role in several cellular processes in DNA metabolism including replication, recombination and DNA repair. Binds and subsequently stabilizes single-stranded DNA intermediates and thus prevents complementary DNA from reannealing.

Xenopus laevis (taxid: 8355)

>sp|P22336|RFA1_YEAST Replication factor A protein 1 OS=Saccharomyces cerevisiae (strain ATCC 204508 / S288c) GN=RFA1 PE=1 SV=1

 Score =  275 bits (704), Expect = 6e-73,   Method: Compositional matrix adjust.
 Identities = 180/590 (30%), Positives = 313/590 (53%), Gaps = 39/590 (6%)

Query: 47  SDGKKRLKAILPSNLSSEVISGNIQNKGLIRLLDYALNEIPTKSEKY-LIVTKCEVVSPA 105
           SDG   +KA+L +  +S+  S  +Q   +IR++  A   I  + +KY L+V   E+V   
Sbjct: 51  SDGIYHMKALLRNQAASKFQSMELQRGDIIRVI-IAEPAIVRERKKYVLLVDDFELVQSR 109

Query: 106 LEMEIKIEVKSDESGIIFKPKQEDEVKKD----GPGIVLKPKQEMVAKSAAQILRDQNGN 161
            +M  +     D     +  +  +E  KD      G V    Q   + +    +   N N
Sbjct: 110 ADMVNQTSTFLDN----YFSEHPNETLKDEDITDSGNV--ANQTNASNAGVPDMLHSNSN 163

Query: 162 MAPAAR--------LAMTRRVHPLVSLNPYQGNWTIKVRVTSKGNMRTYKNARGEGCVFN 213
           +    R           TR +  +  L+PYQ  WTIK RV+ KG ++T+ N RG+G +FN
Sbjct: 164 LNANERKFANENPNSQKTRPIFAIEQLSPYQNVWTIKARVSYKGEIKTWHNQRGDGKLFN 223

Query: 214 VELTDEDGTQIQATMFNEAARKFYDRFQLGKVYYISRGTLRVANKQFKTVQNDYEMNLNE 273
           V   D  G +I+AT FN+ A KF +  Q GKVYY+S+  L+ A  QF  + + YE+NL+ 
Sbjct: 224 VNFLDTSG-EIRATAFNDFATKFNEILQEGKVYYVSKAKLQPAKPQFTNLTHPYELNLDR 282

Query: 274 NSEVEEAVNETAFIPQTKFNFVPIDEL-GRYVNGTELVDIIGVVQNVSPTMSIRRKSNNE 332
           ++ +EE  +E+  +P+T FNF+ +D +  + VN    VD++G++Q ++P   +  ++  +
Sbjct: 283 DTVIEECFDESN-VPKTHFNFIKLDAIQNQEVNSN--VDVLGIIQTINPHFELTSRAGKK 339

Query: 333 MVPKRDITVADETKRTVTVSLWNELATNVGQELLDNADKSPIVAIKSLKVGDFQGISLST 392
              +RDIT+ D++  +++V LWN+      Q L  N  +  + AIK ++V DF G SLS 
Sbjct: 340 F-DRRDITIVDDSGFSISVGLWNQ------QALDFNLPEGSVAAIKGVRVTDFGGKSLSM 392

Query: 393 LGRSTVLVSPDLPEAKKLKSWYESEGKGTSMASIGS--GLGSLAKNGARSMYSDRVSLTH 450
              ST++ +P++PEA  LK WY+S+G+  +  ++    G+G  +        + R+++  
Sbjct: 393 GFSSTLIPNPEIPEAYALKGWYDSKGRNANFITLKQEPGMGGQSAASLTKFIAQRITIAR 452

Query: 451 ITSNPSLGDEKPVFFSIKAYISLIKPDQAMWYRAC--KTCNKKVTDALGSGYWCEGCQKN 508
             +      EK  FFS+KA IS +K D    Y AC  + CNKKV +     + CE C  N
Sbjct: 453 AQAENLGRSEKGDFFSVKAAISFLKVDN-FAYPACSNENCNKKVLEQPDGTWRCEKCDTN 511

Query: 509 DEECSLRYIMVARVCDGSGEAWISIFNEEAERIIGCSADELNELKSQLGDDNSYQMKLKE 568
           +   + RYI+   + D + + W+++F+++A++++G  A+ L  LK +  D N +    + 
Sbjct: 512 NARPNWRYILTISIIDETNQLWLTLFDDQAKQLLGVDANTLMSLKEE--DPNEFTKITQS 569

Query: 569 VTWVPHLLRVSVAQQEYNNEKRQRVTVRAVAPVDFAAESKFLLEEISKKV 618
           +    +  R+   +  YN++ R R TV  +  +++ AE+ +L +E+SK +
Sbjct: 570 IQMNEYDFRIRAREDTYNDQSRIRYTVANLHSLNYRAEADYLADELSKAL 619

Binds to single-stranded sequences participating in DNA replication in addition to those mediating transcriptional repression (URS1) and activation (CAR1). Stimulates the activity of a cognate strand exchange protein (SEP1). It cooperates with T-AG and DNA topoisomerase I to unwind template DNA containing the simian virus 40 origin of DNA replication.

Saccharomyces cerevisiae (strain ATCC 204508 / S288c) (taxid: 559292)

>sp|Q8VEE4|RFA1_MOUSE Replication protein A 70 kDa DNA-binding subunit OS=Mus musculus GN=Rpa1 PE=2 SV=1

 Score =  269 bits (688), Expect = 4e-71,   Method: Compositional matrix adjust.
 Identities = 166/449 (36%), Positives = 246/449 (54%), Gaps = 20/449 (4%)

Query: 173 RVHPLVSLNPYQGNWTIKVRVTSKGNMRTYKNARGEGCVFNVELTDEDGTQIQATMFNEA 232
           +V P+ SL PYQ  WTI  RVT+K  +RT+ N+RGEG +F++EL DE G +I+AT FNE 
Sbjct: 192 KVVPIASLTPYQSKWTICARVTNKSQIRTWSNSRGEGKLFSLELVDESG-EIRATAFNEQ 250

Query: 233 ARKFYDRFQLGKVYYISRGTLRVANKQFKTVQNDYEMNLNENSEVEEAVNETAFIPQTKF 292
             KF+   ++ KVYY S+G L++ANKQF  V+NDYEM  N  + V     +   +P  +F
Sbjct: 251 VDKFFPLIEVNKVYYFSKGALKIANKQFSAVKNDYEMTFNNETSV-LPCEDGHHLPTVQF 309

Query: 293 NFVPIDELGRYVNGTELVDIIGVVQNVSPTMSIRRKSNNEMVPKRDITVADETKRTVTVS 352
           +F  I +L        LVDIIG+ ++   ++ I  KSNN  V KR+I + D + + VT +
Sbjct: 310 DFTGIGDLESKAKDA-LVDIIGICKSYEDSIKITVKSNNREVAKRNIYLMDMSGKVVTTT 368

Query: 353 LWNELATNVGQELLDNADKSPIVAIKSLKVGDFQGISLSTLGRSTVLVSPDLPEAKKLKS 412
           LW E A         +  + P++AIK  +V DF G SLS L  STV+V+PD+PEA KL+ 
Sbjct: 369 LWGEDADKF------DGSRQPVMAIKGARVSDFGGRSLSVLSSSTVIVNPDIPEAYKLRG 422

Query: 413 WYESEGKGTSMASIGSGLGSLAKNGARSMYSDRVSLTHITSNPSLGD-EKPVFFSIKAYI 471
           W++SEG+     SI     S  ++G     +      H   + +LG  +K  +FS  A +
Sbjct: 423 WFDSEGQALDGVSI-----SDHRSGGAGGGNTNWKTLHEAKSENLGQGDKADYFSTVAAV 477

Query: 472 SLIKPDQAMWYRACKT--CNKKVTDALGSGYWCEGCQKNDEECSLRYIMVARVCDGSGEA 529
             ++ +  M Y+AC T  CNKKV D     Y CE C +       R I+ A + D     
Sbjct: 478 VFLRKENCM-YQACPTQDCNKKVIDQQNGLYRCEKCDREFPNFKYRMILSANIADFQENQ 536

Query: 530 WISIFNEEAERIIGCSADELNELKSQLGDDNSYQMKLKEVTWVPHLLRVSVAQQEYNNEK 589
           W++ F E AE I+G +   L ELK +  ++ +++   +   +     R+ V  + YN+E 
Sbjct: 537 WVTCFQESAEAILGQNTMYLGELKEK--NEQAFEEVFQNANFRSFTFRIRVKLETYNDES 594

Query: 590 RQRVTVRAVAPVDFAAESKFLLEEISKKV 618
           R + TV  V PVDF    + L+  I K +
Sbjct: 595 RIKATVMDVKPVDFRDYGRRLIANIRKNM 623

Plays an essential role in several cellular processes in DNA metabolism including replication, recombination and DNA repair. Binds and subsequently stabilizes single-stranded DNA intermediates and thus prevents complementary DNA from reannealing.

Mus musculus (taxid: 10090)

>sp|Q6NY74|RFA1_DANRE Replication protein A 70 kDa DNA-binding subunit OS=Danio rerio GN=rpa1 PE=1 SV=1

 Score =  262 bits (670), Expect = 6e-69,   Method: Compositional matrix adjust.
 Identities = 188/600 (31%), Positives = 300/600 (50%), Gaps = 64/600 (10%)

Query: 40  NRYMFNASDGKKRLKAILPSNLSSEVISGNIQNKGLIRLLDYALNEIPTKSEKYLIVTKC 99
           +R+    SDG   + + + S   + +   N      + +L  ++  +     + +++   
Sbjct: 39  SRFRVMMSDGLHTMSSFMLSTQLNPMAEQNQLATNCVCVLKRSVTNVLKDGRRVVVILDI 98

Query: 100 EVVSPALEMEIKIEVKSDESGIIFKPKQEDEVKKDGPGIVLKPKQEMVAKSAAQILRDQN 159
           EV+  A +M           G I  P    E +   P     P         A+ L+ QN
Sbjct: 99  EVLKSADQM----------PGKIGDPTPYVEGQSKAPSTAPAP--------TARPLQPQN 140

Query: 160 GN----------------MAPAARLAMTRRVHPLVSLNPYQGNWTIKVRVTSKGNMRTYK 203
           G+                MA       + +V P+ SLNPYQ  WTI+ RVT+K  +RT+ 
Sbjct: 141 GSDGSTYRPSAQSFGKKPMAAPNTPGGSSKVVPIASLNPYQSKWTIRARVTNKSAIRTWS 200

Query: 204 NARGEGCVFNVELTDEDGTQIQATMFNEAARKFYDRFQLGKVYYISRGTLRVANKQFKTV 263
           N+RG+G +F++EL DE G +I+AT FN    KF+   + GKV+YIS+GTL++ANKQF ++
Sbjct: 201 NSRGDGKLFSMELVDESG-EIRATGFNNEVDKFFSLIEQGKVFYISKGTLKIANKQFSSL 259

Query: 264 QNDYEMNLNENSEVEEAVNETAFIPQTKFNFVPIDELGRYVNGTELVDIIGVVQNVSPTM 323
           +NDYEM LN  + +     ++  +P  + +FV I +L      T ++D+IGV +N     
Sbjct: 260 KNDYEMTLNGETSI-IPCEDSNDVPMLQCDFVSIADLESREKDT-ILDVIGVCKNAEDVA 317

Query: 324 SIRRKSNNEMVPKRDITVADETKRTVTVSLWNELATNVGQELLDNADKSPIVAIKSLKVG 383
            I  K++ E V KR+I + D + R + +++W   A     E  D + + PI+AIK  ++ 
Sbjct: 318 RIMTKNSRE-VSKRNIQLIDMSGRVIQLTMWGSDA-----ETFDGSGQ-PILAIKGARLS 370

Query: 384 DFQGISLSTLGRSTVLVSPDLPEAKKLKSWYESEGK---GTSMASI-GSGLGSLAKNGAR 439
           DF G SLSTL  STV+++PD+PEA KL+ WY+ EG    G SM  + G G G        
Sbjct: 371 DFGGRSLSTLYSSTVMINPDIPEAYKLRGWYDKEGHALDGQSMTELRGPGGGG------- 423

Query: 440 SMYSDRVSLTHITSNPSLGD-EKPVFFSIKAYISLIKPDQAMWYRAC--KTCNKKVTDAL 496
              ++  +L  +  N  LG  +K  +FS  A I  I+ +  + Y+AC  K CNKKV D  
Sbjct: 424 --NTNWKTLAEV-KNEHLGHGDKADYFSCIATIVYIRKENCL-YQACPSKDCNKKVVDQQ 479

Query: 497 GSGYWCEGCQKNDEECSLRYIMVARVCDGSGEAWISIFNEEAERIIGCSADELNELKSQL 556
              + CE C K   +   R ++ A + D     W++ F + AE ++G ++  L +LK   
Sbjct: 480 NGMFRCEKCDKEFPDFKYRLMLSANIADFGDNQWVTCFQDTAETLLGQNSSYLGQLKDT- 538

Query: 557 GDDNSYQMKLKEVTWVPHLLRVSVAQQEYNNEKRQRVTVRAVAPVDFAAESKFLLEEISK 616
            ++ ++    +   +   + R  V  + YN+E R +VTV    PVD    SK L+  I K
Sbjct: 539 -NEAAFDEVFQHANFNTFVFRNRVKLETYNDESRIKVTVVDAKPVDHREYSKRLIINIRK 597

Plays an essential role in several cellular processes in DNA metabolism including replication, recombination and DNA repair. Binds and subsequently stabilizes single-stranded DNA intermediates and thus prevents complementary DNA from reannealing.

Danio rerio (taxid: 7955)

>sp|Q24492|RFA1_DROME Replication protein A 70 kDa DNA-binding subunit OS=Drosophila melanogaster GN=RpA-70 PE=1 SV=1

 Score =  255 bits (652), Expect = 6e-67,   Method: Compositional matrix adjust.
 Identities = 182/601 (30%), Positives = 312/601 (51%), Gaps = 46/601 (7%)

Query: 29  VVQVLDLKLTGN-----RYMFNASDGKK-RLKAILPSNLSSEVISGNIQNKGLIRLLDYA 82
           V+Q+L +K   +     RY    SDGK     A+L S L+    +G ++   +++L  Y 
Sbjct: 24  VLQILAIKKINSAADSERYRILISDGKYFNSYAMLASQLNVMQHNGELEEFTIVQLDKYV 83

Query: 83  LNEIPT--KSEKYLIVTKCEVVSPALEMEIKIEVKSDESGIIFKP-KQEDEVKKD-GPGI 138
            + +      ++ LI+++  VV+P  E++ KI           +P   E+  K+D  P  
Sbjct: 84  TSLVGKDGAGKRVLIISELTVVNPGAEVKSKIG----------EPVTYENAAKQDLAPKP 133

Query: 139 VLKPKQEMVAKSAAQILRDQNGNMAPAARLAMTRRVHPLVSLNPYQGNWTIKVRVTSKGN 198
            +    + +AK       + N  M  +    MT   HP+ SL+PYQ  W IK RVTSK  
Sbjct: 134 AVTSNSKPIAKKEPSHNNNNNIVMNSSINSGMT---HPISSLSPYQNKWVIKARVTSKSG 190

Query: 199 MRTYKNARGEGCVFNVELTDEDGTQIQATMFNEAARKFYDRFQLGKVYYISRGTLRVANK 258
           +RT+ NARGEG +F+++L DE G +I+AT F E   KFYD  Q+  VYYIS+  L+ ANK
Sbjct: 191 IRTWSNARGEGKLFSMDLMDESG-EIRATAFKEQCDKFYDLIQVDSVYYISKCQLKPANK 249

Query: 259 QFKTVQNDYEMNLNENSEVE--EAVNETAFIPQTKFNFVPIDELGRYVNGTELVDIIGVV 316
           Q+ ++ N YEM  +  + V+  E  ++   IP+ K+N VPI ++    N    VD IG+ 
Sbjct: 250 QYSSLNNAYEMTFSGETVVQLCEDTDDDP-IPEIKYNLVPISDVSGMENKAA-VDTIGIC 307

Query: 317 QNVSPTMSIRRKSNNEMVPKRDITVADETKRTVTVSLWNELATNVGQELLDNADKSPIVA 376
           + V    S   ++ N+   KRDIT+ D +   ++++LW + A N    +       P++ 
Sbjct: 308 KEVGELQSFVARTTNKEFKKRDITLVDMSNSAISLTLWGDDAVNFDGHV------QPVIL 361

Query: 377 IKSLKVGDFQGISLSTLGRSTVL-VSPDLPEAKKLKSWYESEGKGTSMASIGSGLGSLAK 435
           +K  ++ +F G    +LG  +++ ++PD+PEA KL+ W+++ G G S+A++ S     A+
Sbjct: 362 VKGTRINEFNGGKSLSLGGGSIMKINPDIPEAHKLRGWFDN-GGGDSVANMVS-----AR 415

Query: 436 NGARSMYSDRVSLTHITSNPSLGDEKPVFFSIKAYISLIKPDQAMWYRAC--KTCNKKVT 493
            G  S  ++ ++L    +      +KP +F  KA + ++K + A +YRAC    CNKKV 
Sbjct: 416 TGGGSFSTEWMTLKDARARNLGSGDKPDYFQCKAVVHIVKQENA-FYRACPQSDCNKKVV 474

Query: 494 DALGSGYWCEGCQKNDEECSLRYIMVARVCDGSGEAWISIFNEEAERIIGCSADELNELK 553
           D     + CE C         R ++   + D +   W+S FNE  E+++G ++ E+ E  
Sbjct: 475 DEGNDQFRCEKCNALFPNFKYRLLINMSIGDWTSNRWVSSFNEVGEQLLGHTSQEVGEAL 534

Query: 554 SQLGDDNSYQMKLKEVTWVPHLLRVSVAQQEYNNEKRQRVTVRAVAPVDFAAESKFLLEE 613
               D    +     + +  H+ ++    + Y +  R ++TV++VAP++    +K LL+E
Sbjct: 535 EN--DPAKAEQIFSALNFTSHIFKLRCKNEVYGDMTRNKLTVQSVAPINHKEYNKHLLKE 592

Query: 614 I 614
           +
Sbjct: 593 L 593

Participates in a very early step in DNA replication. RP-A is a single-stranded DNA-binding protein.

Drosophila melanogaster (taxid: 7227)

>sp|Q5ZJJ2|RFA1_CHICK Replication protein A 70 kDa DNA-binding subunit OS=Gallus gallus GN=RPA1 PE=2 SV=1

 Score =  253 bits (647), Expect = 2e-66,   Method: Compositional matrix adjust.
 Identities = 160/447 (35%), Positives = 249/447 (55%), Gaps = 20/447 (4%)

Query: 173 RVHPLVSLNPYQGNWTIKVRVTSKGNMRTYKNARGEGCVFNVELTDEDGTQIQATMFNEA 232
           +V P+ SLNPYQ  WTI  RVT KG +RT+ N+RGEG +F++EL DE G +I+AT FN+ 
Sbjct: 180 KVVPIASLNPYQSKWTICARVTQKGQIRTWSNSRGEGKLFSIELVDESG-EIRATAFNDQ 238

Query: 233 ARKFYDRFQLGKVYYISRGTLRVANKQFKTVQNDYEMNLNENSEVEEAVNETAFIPQTKF 292
           A KF+   +L KVYY ++G L+ ANKQ+  V+NDYE+  N  + V    ++   +P  +F
Sbjct: 239 ADKFFPLIELNKVYYFTKGNLKTANKQYTAVKNDYEITFNNETSV-VPCDDAQHLPSVQF 297

Query: 293 NFVPIDELGRYVNGTELVDIIGVVQNVSPTMSIRRKSNNEMVPKRDITVADETKRTVTVS 352
           +FV I +L      + +VD+IG+ ++      I  K++N  V KR++ + D + + VT +
Sbjct: 298 DFVSISDLENTPKDS-IVDVIGICKSYEDVTKIVVKASNREVSKRNVHLMDTSGKLVTAT 356

Query: 353 LWNELATNVGQELLDNADKSPIVAIKSLKVGDFQGISLSTLGRSTVLVSPDLPEAKKLKS 412
           LW   A     E  D + + P++AIK  +V DF G SLS L  STV+V+PD PEA KL+ 
Sbjct: 357 LWGNEA-----EKFDGS-RQPVIAIKGARVSDFGGRSLSVLSSSTVVVNPDSPEAFKLRG 410

Query: 413 WYESEGKGTSMASIGSGLGSLAKNGARSMYSDRVSLTHITSNPSLGD-EKPVFFSIKAYI 471
           W++SEG+    ASI     S  + G+ S  +      +   +  LG  +K  +FS    I
Sbjct: 411 WFDSEGQLLECASI-----SDVRGGSASGVNTNWKTLYEAKSERLGQGDKADYFSCVGTI 465

Query: 472 SLIKPDQAMWYRACKT--CNKKVTDALGSGYWCEGCQKNDEECSLRYIMVARVCDGSGEA 529
             ++ +  M Y+AC +  CNKKV D     Y CE C +       R +++  + D     
Sbjct: 466 VHLRKENCM-YQACPSQDCNKKVIDQQNGLYRCEKCDREFPNFKYRMMLLVTIADSLDYQ 524

Query: 530 WISIFNEEAERIIGCSADELNELKSQLGDDNSYQMKLKEVTWVPHLLRVSVAQQEYNNEK 589
           W++ F E AE I+G SA  L ELK +  ++ +++   +   +  +  ++ V  + YN+E 
Sbjct: 525 WVTCFQESAEFILGQSATFLGELKDK--NEQAFEEVFQNANFNTYEFKIRVKLETYNDES 582

Query: 590 RQRVTVRAVAPVDFAAESKFLLEEISK 616
           R + T   V PV++   SK L+  I +
Sbjct: 583 RIKATALDVKPVNYREYSKRLIASIRR 609

Plays an essential role in several cellular processes in DNA metabolism including replication, recombination and DNA repair. Binds and subsequently stabilizes single-stranded DNA intermediates and thus prevents complementary DNA from reannealing.

Gallus gallus (taxid: 9031)

Close Homologs in the Non-Redundant Database Detected by BLAST

Original result of BLAST against Nonredundant Database

GI	Length	Definition	Q cover	H cover	Identity	E-value
Query	623
225457192	625	PREDICTED: replication protein A 70 kDa	0.996	0.993	0.76	0.0
255547187	622	replication factor A 1, rfa1, putative [	0.987	0.988	0.773	0.0
147778951	634	hypothetical protein VITISV_006284 [Viti	0.996	0.979	0.749	0.0
149676205	604	70 kDa subunit of replication protein A	0.961	0.991	0.754	0.0
297733862	602	unnamed protein product [Vitis vinifera]	0.966	1.0	0.747	0.0
224130162	603	predicted protein [Populus trichocarpa]	0.953	0.985	0.754	0.0
356511809	620	PREDICTED: replication protein A 70 kDa	0.982	0.987	0.732	0.0
449440852	603	PREDICTED: replication protein A 70 kDa	0.948	0.980	0.735	0.0
297806837	604	hypothetical protein ARALYDRAFT_325405 [	0.967	0.998	0.704	0.0
15241489	604	RPA70-kDa subunit B [Arabidopsis thalian	0.967	0.998	0.696	0.0

>gi|225457192|ref|XP_002283959.1| PREDICTED: replication protein A 70 kDa DNA-binding subunit isoform 1 [Vitis vinifera]

 Score = 1019 bits (2635), Expect = 0.0,   Method: Compositional matrix adjust.
 Identities = 475/625 (76%), Positives = 552/625 (88%), Gaps = 4/625 (0%)

Query: 1   MDKTVSPDAISTILSNPSPDSSSDIPEIVVQVLDLKLTGNRYMFNASDGKKRLKAILPSN 60
           M K+++P+ ISTILSNPSPDSS+++PEI+VQV+DL   GNRY F A+DGK +LKA+ PS+
Sbjct: 1   MAKSITPNGISTILSNPSPDSSTELPEIIVQVIDLTPIGNRYKFTANDGKMKLKAMFPSS 60

Query: 61  LSSEVISGNIQNKGLIRLLDYALNEIPTKSEKYLIVTKCEVVSPALEMEIKIEVKSDESG 120
            SSE+ SGNIQN GLI+++DY LN+IP+K EKYLIVTKCE VSPALE+E K EVKS+E+G
Sbjct: 61  FSSEINSGNIQNLGLIQVIDYTLNDIPSKQEKYLIVTKCEAVSPALEVEFKTEVKSEETG 120

Query: 121 IIFKPKQ----EDEVKKDGPGIVLKPKQEMVAKSAAQILRDQNGNMAPAARLAMTRRVHP 176
           I+ +PKQ    + EVK +G GI LKPKQE+VAKSAAQI+ +Q+GNMAPAAR+AMTRRVHP
Sbjct: 121 ILLRPKQVVEIQREVKTEGTGIFLKPKQEIVAKSAAQIVNEQHGNMAPAARMAMTRRVHP 180

Query: 177 LVSLNPYQGNWTIKVRVTSKGNMRTYKNARGEGCVFNVELTDEDGTQIQATMFNEAARKF 236
           LVSLNPYQGNWTIKVR+T+KG MRTYKNARGEGCVFNVELTDEDGTQIQATMFNEAARKF
Sbjct: 181 LVSLNPYQGNWTIKVRLTNKGTMRTYKNARGEGCVFNVELTDEDGTQIQATMFNEAARKF 240

Query: 237 YDRFQLGKVYYISRGTLRVANKQFKTVQNDYEMNLNENSEVEEAVNETAFIPQTKFNFVP 296
           Y++FQLGKVYYIS+G L+VANKQFKTVQNDYEM LNENSEVEEA NE  FIP+ KF FV 
Sbjct: 241 YEKFQLGKVYYISKGALKVANKQFKTVQNDYEMTLNENSEVEEASNEETFIPEAKFKFVE 300

Query: 297 IDELGRYVNGTELVDIIGVVQNVSPTMSIRRKSNNEMVPKRDITVADETKRTVTVSLWNE 356
           I+ELG YVNG ELVD+IGVVQ+VSPTMSIRRKSNN++VPKRDIT+AD+TK+TV VSLWN+
Sbjct: 301 IEELGPYVNGKELVDVIGVVQSVSPTMSIRRKSNNDIVPKRDITIADKTKKTVVVSLWND 360

Query: 357 LATNVGQELLDNADKSPIVAIKSLKVGDFQGISLSTLGRSTVLVSPDLPEAKKLKSWYES 416
            ATNVGQELLDNADK PIVAIKSLKVGDFQG+SLSTL +S VLV+PD PE+KKL+SWY+S
Sbjct: 361 HATNVGQELLDNADKFPIVAIKSLKVGDFQGVSLSTLSKSIVLVNPDTPESKKLRSWYDS 420

Query: 417 EGKGTSMASIGSGLGSLAKNGARSMYSDRVSLTHITSNPSLGDEKPVFFSIKAYISLIKP 476
           EGKG SMASIGS +   +K G +SMY DRVSL+H+TSNPSLG++KP FFSI+AYIS IKP
Sbjct: 421 EGKGASMASIGSDISPSSKGGVKSMYYDRVSLSHVTSNPSLGEDKPSFFSIRAYISFIKP 480

Query: 477 DQAMWYRACKTCNKKVTDALGSGYWCEGCQKNDEECSLRYIMVARVCDGSGEAWISIFNE 536
           DQ MWYRACKTCNKKVTDA+GSGYWCEGCQKND+ECSLRYIMV +V D SGEAW+S+FNE
Sbjct: 481 DQTMWYRACKTCNKKVTDAIGSGYWCEGCQKNDDECSLRYIMVVKVSDASGEAWLSLFNE 540

Query: 537 EAERIIGCSADELNELKSQLGDDNSYQMKLKEVTWVPHLLRVSVAQQEYNNEKRQRVTVR 596
           +AER+ GCSADEL++LKSQ G++N +Q KLKE  WVPHL R+SVAQ EY NEKRQR+T R
Sbjct: 541 QAERMFGCSADELDKLKSQEGEENLFQQKLKEAIWVPHLFRISVAQHEYMNEKRQRITAR 600

Query: 597 AVAPVDFAAESKFLLEEISKKVSHQ 621
           AV PVDFAAES+ LLEEISK  + Q
Sbjct: 601 AVVPVDFAAESRLLLEEISKMKTSQ 625

Source: Vitis vinifera

Species: Vitis vinifera

Genus: Vitis

Family: Vitaceae

Order: Vitales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|255547187|ref|XP_002514651.1| replication factor A 1, rfa1, putative [Ricinus communis] gi|223546255|gb|EEF47757.1| replication factor A 1, rfa1, putative [Ricinus communis]

 Score = 1018 bits (2631), Expect = 0.0,   Method: Compositional matrix adjust.
 Identities = 478/618 (77%), Positives = 550/618 (88%), Gaps = 3/618 (0%)

Query: 1   MDKTVSPDAISTILSNPSPDSSSDIPEIVVQVLDLKLTGNRYMFNASDGKKRLKAILPSN 60
           M K VSPDAI+ +LSNP PDS SDIPEI+VQ+ +L+  G  Y F+A+DGK+++KAI  S 
Sbjct: 1   MGKRVSPDAIAALLSNPKPDSISDIPEIIVQITNLEPKGKSYGFDANDGKRKIKAIFNSR 60

Query: 61  LSSEVISGNIQNKGLIRLLDYALNEIPTKSEKYLIVTKCEVVSPALEMEIKIEVKSDESG 120
           LS+E+ISGNIQN GLIR+LDY +NEIP+KSE YLI+TKCEVVSPALEMEIK E K++E+ 
Sbjct: 61  LSTEIISGNIQNLGLIRILDYTVNEIPSKSENYLIITKCEVVSPALEMEIKDEAKTEEAA 120

Query: 121 IIFKPKQEDEVKKD--GPGIVLKPKQEMVAKSAAQILRDQNGNMAPAARLAMTRRVHPLV 178
           I  KPKQE +V K     GI+LKPKQEMVAKSAAQI+ +Q+ NMAP AR+AMTRRVHPLV
Sbjct: 121 ITLKPKQETQVIKQEVSGGILLKPKQEMVAKSAAQIVHEQHKNMAPTARMAMTRRVHPLV 180

Query: 179 SLNPYQGNWTIKVRVTSKGNMRTYKNARGEGCVFNVELTDEDGTQIQATMFNEAARKFYD 238
           SLNPYQGNWTIKVRVTSKGNMRTYKNARGEGCVFNVELTDEDGTQIQATMFNEAARKFYD
Sbjct: 181 SLNPYQGNWTIKVRVTSKGNMRTYKNARGEGCVFNVELTDEDGTQIQATMFNEAARKFYD 240

Query: 239 RFQLGKVYYISRGTLRVANKQFKTVQNDYEMNLNENSEVEEAVNETAFIPQTKFNFVPID 298
           +FQLGKVYYIS+G+L+VANKQF+TVQNDYEMNLNENS+VEEA +E AFIP+TKFNFVPID
Sbjct: 241 KFQLGKVYYISKGSLKVANKQFRTVQNDYEMNLNENSQVEEASDEAAFIPETKFNFVPID 300

Query: 299 ELGRYVNGTELVDIIGVVQNVSPTMSIRRKSNNEMVPKRDITVADETKRTVTVSLWNELA 358
           +LG YV+  ELVD+IGVVQ+VSPTMSIRRKSNN++VPKRDIT+ADETK+TV VSLWN+LA
Sbjct: 301 QLGPYVSTNELVDVIGVVQSVSPTMSIRRKSNNDIVPKRDITIADETKKTVVVSLWNDLA 360

Query: 359 TNVGQELLDNADKSPIVAIKSLKVGDFQGISLSTLGRSTVLVSPDLPEAKKLKSWYESEG 418
           T+VGQELLD ADKSP+VAIK+LKVGDFQG+SLSTLGRS + V+PD PE+KKLKSW++SEG
Sbjct: 361 TDVGQELLDMADKSPVVAIKALKVGDFQGVSLSTLGRSIIQVNPDTPESKKLKSWFDSEG 420

Query: 419 KGTSMASIGSGLGSLAKNGARSMYSDRVSLTHITSNPSLGDEKPVFFSIKAYISLIKPDQ 478
           K TS+AS+G+GL    K+G  SMYSDRVS++HITSNPSLG +KP FFSI+AYIS IKPDQ
Sbjct: 421 KETSLASVGAGLSPSTKSGGGSMYSDRVSISHITSNPSLGSDKPAFFSIRAYISFIKPDQ 480

Query: 479 AMWYRACKTCNKKVTDALGSGYWCEGCQKNDEECSLRYIMVARVCDGSGEAWISIFNEEA 538
           +MWYRACKTCNKKVT+A+G GYWCEGCQKND ECSLRYIMV +V D SGE W+S FN E 
Sbjct: 481 SMWYRACKTCNKKVTEAIGGGYWCEGCQKNDAECSLRYIMVVKVSDASGEGWVSAFNNEG 540

Query: 539 ERIIGCSADELNELKSQLGDDNSYQMKLKEVTWVPHLLRVSVAQQEYNNEKRQRVTVRAV 598
           ERIIGCSADEL++LKSQ  D NSY++KLKE TW PHL RVSVAQ EYNNEKRQR+TVRAV
Sbjct: 541 ERIIGCSADELDKLKSQ-EDGNSYELKLKEATWSPHLFRVSVAQNEYNNEKRQRITVRAV 599

Query: 599 APVDFAAESKFLLEEISK 616
           AP+DFAAES+FLLEEISK
Sbjct: 600 APLDFAAESRFLLEEISK 617

Source: Ricinus communis

Species: Ricinus communis

Genus: Ricinus

Family: Euphorbiaceae

Order: Malpighiales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|147778951|emb|CAN71402.1| hypothetical protein VITISV_006284 [Vitis vinifera]

 Score = 1009 bits (2608), Expect = 0.0,   Method: Compositional matrix adjust.
 Identities = 475/634 (74%), Positives = 550/634 (86%), Gaps = 13/634 (2%)

Query: 1   MDKTVSPDAISTILSNPSPDSSSDIPEIVVQVLDLKLTGNRYMFNASDGKKRLKAILPSN 60
           M K+++P+ ISTILSNPSPDSS+++PEI+VQV+DL   GNRY F A+DGK +LKA+ PS+
Sbjct: 1   MAKSITPNGISTILSNPSPDSSTELPEIIVQVIDLTPIGNRYKFTANDGKMKLKAMFPSS 60

Query: 61  LSSEVISGNIQNKGLIRLLDYALNEIPTKSEKYLIVTKCEVVSPALEMEIKIEVKSDESG 120
            SSE+ SGNIQN GLI+++DY LN+IP+K EKYLIVTKCE VSPALE+E K EVKS+E+G
Sbjct: 61  FSSEINSGNIQNLGLIQVIDYTLNDIPSKQEKYLIVTKCEAVSPALEVEFKTEVKSEETG 120

Query: 121 IIFKPKQ----EDEVKKDGPGIVLKPKQEMVAKSAAQILRDQNGNMAPAARLAMTRRVHP 176
           I+  PKQ    + EVK +G GI LKPKQE+VAKSAAQI+ +Q+GNMAPAAR+AMTRRVHP
Sbjct: 121 ILLXPKQVVEIQXEVKXEGTGIFLKPKQEIVAKSAAQIVNEQHGNMAPAARMAMTRRVHP 180

Query: 177 LVSLNPYQGNWTIKVRVTSKGNMRTYKNARGEGCVFNVELTDEDGTQIQATMFNEAARKF 236
           LVSLNPYQGNWTIKVR+T+KG MRTYKNARGEGCVFNVELTDEDGTQIQATMFNEAARKF
Sbjct: 181 LVSLNPYQGNWTIKVRLTNKGTMRTYKNARGEGCVFNVELTDEDGTQIQATMFNEAARKF 240

Query: 237 YDRFQLGKVYYISRGTLRVANKQFKTVQNDYEMNLNENSEVEEAVNETAFIPQTKFNFVP 296
           Y++FQLGKVYYIS+G L+VANKQFKTVQNDYEM LNENSEVEEA NE  FIP+ KF FV 
Sbjct: 241 YEKFQLGKVYYISKGALKVANKQFKTVQNDYEMTLNENSEVEEASNEETFIPEAKFKFVE 300

Query: 297 IDELGRYVNGTELV---------DIIGVVQNVSPTMSIRRKSNNEMVPKRDITVADETKR 347
           I+ELG YVNG ELV         D+IGVVQ+VSPTMSIRRKSNN++VPKRDIT+AD+TK+
Sbjct: 301 IEELGPYVNGKELVGPLTSLLIPDVIGVVQSVSPTMSIRRKSNNDIVPKRDITIADKTKK 360

Query: 348 TVTVSLWNELATNVGQELLDNADKSPIVAIKSLKVGDFQGISLSTLGRSTVLVSPDLPEA 407
           TV VSLWN+ ATNVGQELLDNADK PIVAIKSLKVGDFQG+SLSTL +S VLV+PD PE+
Sbjct: 361 TVVVSLWNDHATNVGQELLDNADKFPIVAIKSLKVGDFQGVSLSTLSKSIVLVNPDTPES 420

Query: 408 KKLKSWYESEGKGTSMASIGSGLGSLAKNGARSMYSDRVSLTHITSNPSLGDEKPVFFSI 467
           KKL+SWY+SEGKG SMASIGS +   +K G  SMY DRVSL+H+TSNPSLG++KP FFSI
Sbjct: 421 KKLRSWYDSEGKGASMASIGSDISPSSKGGVXSMYYDRVSLSHVTSNPSLGEDKPSFFSI 480

Query: 468 KAYISLIKPDQAMWYRACKTCNKKVTDALGSGYWCEGCQKNDEECSLRYIMVARVCDGSG 527
           +AYIS IKPDQ MWYRACKTCNKKVTDA+GSGYWCEGCQKND+ECSLRYIMV +V D SG
Sbjct: 481 RAYISFIKPDQTMWYRACKTCNKKVTDAIGSGYWCEGCQKNDDECSLRYIMVVKVSDASG 540

Query: 528 EAWISIFNEEAERIIGCSADELNELKSQLGDDNSYQMKLKEVTWVPHLLRVSVAQQEYNN 587
           EAW+S+FNE+AER+ GCSADEL++LKSQ G++N +Q KLKE  WVPHL R+SVAQ EY N
Sbjct: 541 EAWLSLFNEQAERMFGCSADELDKLKSQEGEENLFQQKLKEAIWVPHLFRISVAQHEYMN 600

Query: 588 EKRQRVTVRAVAPVDFAAESKFLLEEISKKVSHQ 621
           EKRQR+T RAV PVDFAAES+ LLEEISK  + Q
Sbjct: 601 EKRQRITARAVVPVDFAAESRLLLEEISKMKTSQ 634

Source: Vitis vinifera

Species: Vitis vinifera

Genus: Vitis

Family: Vitaceae

Order: Vitales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|149676205|dbj|BAF64713.1| 70 kDa subunit of replication protein A [Ipomoea nil]

 Score =  989 bits (2556), Expect = 0.0,   Method: Compositional matrix adjust.
 Identities = 465/616 (75%), Positives = 539/616 (87%), Gaps = 17/616 (2%)

Query: 1   MDKTVSPDAISTILSNPSPDSSSDIPEIVVQVLDLKLTGNRYMFNASDGKKRLKAILPSN 60
           M+++V+PDAIS IL+NPSPDS SD+PE++VQV+DLK  GNRYMF A+DGK +LKAIL S+
Sbjct: 1   MERSVTPDAISAILANPSPDSGSDLPELIVQVVDLKQAGNRYMFTANDGKMKLKAILQSS 60

Query: 61  LSSEVISGNIQNKGLIRLLDYALNEIPTKSEKYLIVTKCEVVSPALEMEIKIEVKSDESG 120
           LSSEVISG+IQN GL+R+LDY LN+IP K+EKYLIVTKC+ VS  LE E K  VK++E+G
Sbjct: 61  LSSEVISGSIQNLGLVRILDYTLNDIPMKNEKYLIVTKCDAVSSPLEAEYKTGVKTEENG 120

Query: 121 IIFKPKQEDEVKKDGPGIVLKPKQEMVAKSAAQILRDQNGNMAPAARLAMTRRVHPLVSL 180
           I                 VL+PKQE VAKSAAQI+ +QNGN+ P ARLAMTRR+HPLVSL
Sbjct: 121 I-----------------VLRPKQEFVAKSAAQIVHEQNGNIVPPARLAMTRRIHPLVSL 163

Query: 181 NPYQGNWTIKVRVTSKGNMRTYKNARGEGCVFNVELTDEDGTQIQATMFNEAARKFYDRF 240
           NPYQG WTIKVRVTSKGNMR YKNARGEGCVFNVEL D+DGT+IQATMFN+AARKFYD+F
Sbjct: 164 NPYQGIWTIKVRVTSKGNMRFYKNARGEGCVFNVELADQDGTEIQATMFNQAARKFYDKF 223

Query: 241 QLGKVYYISRGTLRVANKQFKTVQNDYEMNLNENSEVEEAVNETAFIPQTKFNFVPIDEL 300
           +LGKVYYIS+GTLRVANKQFKTVQNDYEM LNENSEVEEA+NE AF+P+TKFNFV IDEL
Sbjct: 224 ELGKVYYISKGTLRVANKQFKTVQNDYEMTLNENSEVEEAINEAAFVPETKFNFVAIDEL 283

Query: 301 GRYVNGTELVDIIGVVQNVSPTMSIRRKSNNEMVPKRDITVADETKRTVTVSLWNELATN 360
           G YVNG ELVD+IGVVQNVS TMSIRRKSNNEM+PKRDIT+ADETK+TV VSLW++LATN
Sbjct: 284 GSYVNGRELVDVIGVVQNVSSTMSIRRKSNNEMIPKRDITIADETKKTVVVSLWSDLATN 343

Query: 361 VGQELLDNADKSPIVAIKSLKVGDFQGISLSTLGRSTVLVSPDLPEAKKLKSWYESEGKG 420
           VGQELLD ADKSP+VAI+S+KVGDFQG+SLS + RSTVLV+PD+PEAKKL+SWY+ EGK 
Sbjct: 344 VGQELLDMADKSPVVAIRSVKVGDFQGLSLSAITRSTVLVNPDMPEAKKLRSWYDCEGKE 403

Query: 421 TSMASIGSGLGSLAKNGARSMYSDRVSLTHITSNPSLGDEKPVFFSIKAYISLIKPDQAM 480
           TS+ S+GSGL S AK    SMYSDRVSL HITSNP+LG++KPVFFSIKA IS IKP+QAM
Sbjct: 404 TSLTSVGSGLSSSAKGVLWSMYSDRVSLLHITSNPNLGEDKPVFFSIKANISFIKPEQAM 463

Query: 481 WYRACKTCNKKVTDALGSGYWCEGCQKNDEECSLRYIMVARVCDGSGEAWISIFNEEAER 540
           WYRACKTCNKKVT+A+GSGYWCEGCQKND +CSLRYI+  RV D SGEAW+S+FNE+AE+
Sbjct: 464 WYRACKTCNKKVTEAIGSGYWCEGCQKNDTDCSLRYIVAMRVSDTSGEAWLSVFNEQAEK 523

Query: 541 IIGCSADELNELKSQLGDDNSYQMKLKEVTWVPHLLRVSVAQQEYNNEKRQRVTVRAVAP 600
           IIGCSADEL+ L+SQ GD ++YQMKLKE TWVP+L RVSV  QEYNNEKRQR+TVRA AP
Sbjct: 524 IIGCSADELDRLRSQDGDSSAYQMKLKEATWVPYLFRVSVTPQEYNNEKRQRITVRAAAP 583

Query: 601 VDFAAESKFLLEEISK 616
           VDFAAES++ LEE++K
Sbjct: 584 VDFAAESRYFLEEMAK 599

Source: Ipomoea nil

Species: Ipomoea nil

Genus: Ipomoea

Family: Convolvulaceae

Order: Solanales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|297733862|emb|CBI15109.3| unnamed protein product [Vitis vinifera]

 Score =  988 bits (2554), Expect = 0.0,   Method: Compositional matrix adjust.
 Identities = 464/621 (74%), Positives = 535/621 (86%), Gaps = 19/621 (3%)

Query: 1   MDKTVSPDAISTILSNPSPDSSSDIPEIVVQVLDLKLTGNRYMFNASDGKKRLKAILPSN 60
           M K+++P+ ISTILSNPSPDSS+++PEI+VQV+DL   GNRY F A+DGK +LKA+ PS+
Sbjct: 1   MAKSITPNGISTILSNPSPDSSTELPEIIVQVIDLTPIGNRYKFTANDGKMKLKAMFPSS 60

Query: 61  LSSEVISGNIQNKGLIRLLDYALNEIPTKSEKYLIVTKCEVVSPALEMEIKIEVKSDESG 120
            SSE+ SGNIQN GLI+++DY LN+IP+K EKYLIVTKCE VSPALE+E K EVK     
Sbjct: 61  FSSEINSGNIQNLGLIQVIDYTLNDIPSKQEKYLIVTKCEAVSPALEVEFKTEVKRT--- 117

Query: 121 IIFKPKQEDEVKKDGPGIVLKPKQEMVAKSAAQILRDQNGNMAPAARLAMTRRVHPLVSL 180
                           GI LKPKQE+VAKSAAQI+ +Q+GNMAPAAR+AMTRRVHPLVSL
Sbjct: 118 ----------------GIFLKPKQEIVAKSAAQIVNEQHGNMAPAARMAMTRRVHPLVSL 161

Query: 181 NPYQGNWTIKVRVTSKGNMRTYKNARGEGCVFNVELTDEDGTQIQATMFNEAARKFYDRF 240
           NPYQGNWTIKVR+T+KG MRTYKNARGEGCVFNVELTDEDGTQIQATMFNEAARKFY++F
Sbjct: 162 NPYQGNWTIKVRLTNKGTMRTYKNARGEGCVFNVELTDEDGTQIQATMFNEAARKFYEKF 221

Query: 241 QLGKVYYISRGTLRVANKQFKTVQNDYEMNLNENSEVEEAVNETAFIPQTKFNFVPIDEL 300
           QLGKVYYIS+G L+VANKQFKTVQNDYEM LNENSEVEEA NE  FIP+ KF FV I+EL
Sbjct: 222 QLGKVYYISKGALKVANKQFKTVQNDYEMTLNENSEVEEASNEETFIPEAKFKFVEIEEL 281

Query: 301 GRYVNGTELVDIIGVVQNVSPTMSIRRKSNNEMVPKRDITVADETKRTVTVSLWNELATN 360
           G YVNG ELVD+IGVVQ+VSPTMSIRRKSNN++VPKRDIT+AD+TK+TV VSLWN+ ATN
Sbjct: 282 GPYVNGKELVDVIGVVQSVSPTMSIRRKSNNDIVPKRDITIADKTKKTVVVSLWNDHATN 341

Query: 361 VGQELLDNADKSPIVAIKSLKVGDFQGISLSTLGRSTVLVSPDLPEAKKLKSWYESEGKG 420
           VGQELLDNADK PIVAIKSLKVGDFQG+SLSTL +S VLV+PD PE+KKL+SWY+SEGKG
Sbjct: 342 VGQELLDNADKFPIVAIKSLKVGDFQGVSLSTLSKSIVLVNPDTPESKKLRSWYDSEGKG 401

Query: 421 TSMASIGSGLGSLAKNGARSMYSDRVSLTHITSNPSLGDEKPVFFSIKAYISLIKPDQAM 480
            SMASIGS +   +K G +SMY DRVSL+H+TSNPSLG++KP FFSI+AYIS IKPDQ M
Sbjct: 402 ASMASIGSDISPSSKGGVKSMYYDRVSLSHVTSNPSLGEDKPSFFSIRAYISFIKPDQTM 461

Query: 481 WYRACKTCNKKVTDALGSGYWCEGCQKNDEECSLRYIMVARVCDGSGEAWISIFNEEAER 540
           WYRACKTCNKKVTDA+GSGYWCEGCQKND+ECSLRYIMV +V D SGEAW+S+FNE+AER
Sbjct: 462 WYRACKTCNKKVTDAIGSGYWCEGCQKNDDECSLRYIMVVKVSDASGEAWLSLFNEQAER 521

Query: 541 IIGCSADELNELKSQLGDDNSYQMKLKEVTWVPHLLRVSVAQQEYNNEKRQRVTVRAVAP 600
           + GCSADEL++LKSQ G++N +Q KLKE  WVPHL R+SVAQ EY NEKRQR+T RAV P
Sbjct: 522 MFGCSADELDKLKSQEGEENLFQQKLKEAIWVPHLFRISVAQHEYMNEKRQRITARAVVP 581

Query: 601 VDFAAESKFLLEEISKKVSHQ 621
           VDFAAES+ LLEEISK  + Q
Sbjct: 582 VDFAAESRLLLEEISKMKTSQ 602

Source: Vitis vinifera

Species: Vitis vinifera

Genus: Vitis

Family: Vitaceae

Order: Vitales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|224130162|ref|XP_002328669.1| predicted protein [Populus trichocarpa] gi|222838845|gb|EEE77196.1| predicted protein [Populus trichocarpa]

 Score =  973 bits (2516), Expect = 0.0,   Method: Compositional matrix adjust.
 Identities = 465/616 (75%), Positives = 533/616 (86%), Gaps = 22/616 (3%)

Query: 1   MDKTVSPDAISTILSNPSPDSSSDIPEIVVQVLDLKLTGNRYMFNASDGKKRLKAILPSN 60
           ++K+VSPD IS +LS P PDS + +PEI++QV +L+  G  Y F+ASDGK ++KAI  S 
Sbjct: 5   IEKSVSPDGISKMLSIPKPDSFTHLPEIILQVTNLEPKGKSYGFDASDGKMKIKAIFSSR 64

Query: 61  LSSEVISGNIQNKGLIRLLDYALNEIPTKSEKYLIVTKCEVVSPALEMEIKIEVKSDESG 120
           LSSE++SGNIQN  LIR+LDY +NEIP+KSEK+LI+TKCEVVSPALE EIK E K     
Sbjct: 65  LSSEILSGNIQNLCLIRVLDYTVNEIPSKSEKFLIITKCEVVSPALEKEIKEEAK----- 119

Query: 121 IIFKPKQEDEVKKDGPGIVLKPKQEMVAKSAAQILRDQNGNMAPAARLAMTRRVHPLVSL 180
                           G++LKPKQE+VAKSAAQI+ +Q+GNMAPAAR+AMTRRVHPLVSL
Sbjct: 120 ----------------GLILKPKQEIVAKSAAQIVHEQHGNMAPAARMAMTRRVHPLVSL 163

Query: 181 NPYQGNWTIKVRVTSKGNMRTYKNARGEGCVFNVELTDEDGTQIQATMFNEAARKFYDRF 240
           NPYQGNWTIKVRVTSKGNMRTY+NARGEGCVFNVELTD DGTQIQATMFNEAA+KFYDRF
Sbjct: 164 NPYQGNWTIKVRVTSKGNMRTYRNARGEGCVFNVELTDGDGTQIQATMFNEAAKKFYDRF 223

Query: 241 QLGKVYYISRGTLRVANKQFKTVQNDYEMNLNENSEVEEAVNETAFIPQTKFNFVPIDEL 300
           +LGKVYYIS+GTLRVANKQFKTVQNDYEM LNENSEVEEA +E A IP+TKF FVPID+L
Sbjct: 224 ELGKVYYISKGTLRVANKQFKTVQNDYEMTLNENSEVEEASDEAACIPETKFKFVPIDQL 283

Query: 301 GRYVNGTELVDIIGVVQNVSPTMSIRRKSNNEMVPKRDITVADETKRTVTVSLWNELATN 360
           G YVN  +LVD+IG+VQ+VSPT SIRRKSNNE VPKRDI VADETK+TV VSLWNELAT+
Sbjct: 284 GPYVNSKDLVDVIGIVQSVSPTTSIRRKSNNETVPKRDIVVADETKKTVVVSLWNELATS 343

Query: 361 VGQELLDNADKSPIVAIKSLKVGDFQGISLSTLGRSTVLVSPDLPEAKKLKSWYESEGKG 420
           VGQEL D ADKSP+VAIKSLKVGDFQGISLSTLG+S V V+P + E++KL++WY+SEGK 
Sbjct: 344 VGQELHDIADKSPVVAIKSLKVGDFQGISLSTLGKSIVQVNPVIAESEKLRNWYDSEGKE 403

Query: 421 TSMASIGSGLGSLAKNGARSMYSDRVSLTHITSNPSLGDEKPVFFSIKAYISLIKPDQAM 480
           TSMAS+GSGL    K+GARSMYSDRVSL+HITSNPSLG++KP FFSI+AYIS IKPDQ M
Sbjct: 404 TSMASVGSGLSPSTKSGARSMYSDRVSLSHITSNPSLGEDKPAFFSIRAYISFIKPDQTM 463

Query: 481 WYRACKTCNKKVTDALGSGYWCEGCQKNDEECSLRYIMVARVCDGSGEAWISIFNEEAER 540
           WYRACKTCNKKVTDALG GYWCEGCQKND ECSLRYIMV +V DGSGE W+S FNEEAE+
Sbjct: 464 WYRACKTCNKKVTDALGGGYWCEGCQKNDAECSLRYIMVVKVSDGSGEGWVSAFNEEAEK 523

Query: 541 IIGCSADELNELKSQLGDDNSYQMKLKEVTWVPHLLRVSVAQQEYNNEKRQRVTVRAVAP 600
           IIGCSADEL+ LKSQ+ ++N+YQ +LKE TW PHLLR+SV+Q EYNNEKRQR+TVRAVAP
Sbjct: 524 IIGCSADELDLLKSQI-EENTYQQRLKEATWNPHLLRISVSQNEYNNEKRQRMTVRAVAP 582

Query: 601 VDFAAESKFLLEEISK 616
           VDFAAES+FLLEEISK
Sbjct: 583 VDFAAESRFLLEEISK 598

Source: Populus trichocarpa

Species: Populus trichocarpa

Genus: Populus

Family: Salicaceae

Order: Malpighiales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|356511809|ref|XP_003524615.1| PREDICTED: replication protein A 70 kDa DNA-binding subunit-like [Glycine max]

 Score =  967 bits (2499), Expect = 0.0,   Method: Compositional matrix adjust.
 Identities = 451/616 (73%), Positives = 534/616 (86%), Gaps = 4/616 (0%)

Query: 3   KTVSPDAISTILSNPSPDSSSDIPEIVVQVLDLKLTGNRYMFNASDGKKRLKAILPSNLS 62
           KTV+PDA+ST+L+NPSPDS+SD+P+IVVQVLDLK TGN+YMF A+DGK +LKA++PS++ 
Sbjct: 4   KTVTPDAVSTLLANPSPDSTSDLPDIVVQVLDLKATGNKYMFTANDGKTKLKAMIPSDMR 63

Query: 63  SEVISGNIQNKGLIRLLDYALNEIPTKSEKYLIVTKCEVVSPALEMEIKIEVKSDESGII 122
           S+V+SG IQN GLIR+LDY +N+IP KS+KYL+  KCE VSPALEMEIK E     SGI+
Sbjct: 64  SQVLSGAIQNLGLIRVLDYTVNDIPNKSDKYLLAIKCEAVSPALEMEIKSE--ESGSGIL 121

Query: 123 FKPKQEDEVKKDGP--GIVLKPKQEMVAKSAAQILRDQNGNMAPAARLAMTRRVHPLVSL 180
            KPK E  VK +G   GI+LKPKQE+V KSA QILR+Q+GN APAAR+AMTRRV PLVSL
Sbjct: 122 LKPKVEGGVKTEGAAAGILLKPKQEVVTKSANQILREQHGNSAPAARMAMTRRVRPLVSL 181

Query: 181 NPYQGNWTIKVRVTSKGNMRTYKNARGEGCVFNVELTDEDGTQIQATMFNEAARKFYDRF 240
           NPYQGNWTIKV VTSKGNMRTYKNARG+GCVFNVELTDEDGTQIQATMFN AARKF+D+F
Sbjct: 182 NPYQGNWTIKVSVTSKGNMRTYKNARGDGCVFNVELTDEDGTQIQATMFNNAARKFFDKF 241

Query: 241 QLGKVYYISRGTLRVANKQFKTVQNDYEMNLNENSEVEEAVNETAFIPQTKFNFVPIDEL 300
            LGKVYYISRGTL+VANKQFKTVQNDYEM LNENSEVEE V E +F+P+TKFNFV ID+L
Sbjct: 242 VLGKVYYISRGTLKVANKQFKTVQNDYEMTLNENSEVEEVVGEASFVPETKFNFVQIDQL 301

Query: 301 GRYVNGTELVDIIGVVQNVSPTMSIRRKSNNEMVPKRDITVADETKRTVTVSLWNELATN 360
           G +VN +ELVD+IGVV+NVS TMSIRRKS+NE +PKRDIT+AD+TK+TV VSLWNELAT 
Sbjct: 302 GPHVNKSELVDVIGVVKNVSSTMSIRRKSDNESIPKRDITIADDTKKTVVVSLWNELATT 361

Query: 361 VGQELLDNADKSPIVAIKSLKVGDFQGISLSTLGRSTVLVSPDLPEAKKLKSWYESEGKG 420
            G+ELLD  DKSP+VAIKSLKVGDFQG+SLST+GRS VLV+PD+PEAK L+SWY+ EGK 
Sbjct: 362 TGEELLDIVDKSPVVAIKSLKVGDFQGVSLSTIGRSVVLVNPDIPEAKNLRSWYDFEGKD 421

Query: 421 TSMASIGSGLGSLAKNGARSMYSDRVSLTHITSNPSLGDEKPVFFSIKAYISLIKPDQAM 480
            +M S+GSG   ++ NG RS+Y+DR+ L+ I SNPSLGD KP FFS++ +I+ IKPDQAM
Sbjct: 422 AAMDSVGSGSSPISNNGIRSVYTDRIHLSDIISNPSLGDGKPAFFSLRGHITFIKPDQAM 481

Query: 481 WYRACKTCNKKVTDALGSGYWCEGCQKNDEECSLRYIMVARVCDGSGEAWISIFNEEAER 540
           WYRACKTCNKKVT++ GSGYWC+GCQK+DE+CSLRYIMVA+V DGS E +IS+FN+EAE+
Sbjct: 482 WYRACKTCNKKVTESFGSGYWCDGCQKSDEQCSLRYIMVAKVSDGSAETFISVFNQEAEK 541

Query: 541 IIGCSADELNELKSQLGDDNSYQMKLKEVTWVPHLLRVSVAQQEYNNEKRQRVTVRAVAP 600
           I+GCSAD+L+ LK Q G+DN YQM LKE TW  HL RVSV   EYN EKRQR+TVRAV P
Sbjct: 542 IVGCSADDLDNLKLQEGEDNPYQMTLKEATWAQHLFRVSVTPNEYNGEKRQRITVRAVVP 601

Query: 601 VDFAAESKFLLEEISK 616
           VDFAAES+F+LEE+SK
Sbjct: 602 VDFAAESRFILEELSK 617

Source: Glycine max

Species: Glycine max

Genus: Glycine

Family: Fabaceae

Order: Fabales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|449440852|ref|XP_004138198.1| PREDICTED: replication protein A 70 kDa DNA-binding subunit-like [Cucumis sativus]

 Score =  950 bits (2456), Expect = 0.0,   Method: Compositional matrix adjust.
 Identities = 447/608 (73%), Positives = 527/608 (86%), Gaps = 17/608 (2%)

Query: 9   AISTILSNPSPDSSSDIPEIVVQVLDLKLTGNRYMFNASDGKKRLKAILPSNLSSEVISG 68
            IS +LSNPSPDS SD+P++VVQV+DLK TGNRYMF ASDG  +LKAILPSNL+S+VISG
Sbjct: 9   GISKVLSNPSPDSPSDVPDVVVQVIDLKATGNRYMFTASDGVMKLKAILPSNLTSDVISG 68

Query: 69  NIQNKGLIRLLDYALNEIPTKSEKYLIVTKCEVVSPALEMEIKIEVKSDESGIIFKPKQE 128
           NIQN GLIR+LDY+LN+IP KSEKYLIVTKCEVVSPALE E+K EVK++E+G I      
Sbjct: 69  NIQNLGLIRILDYSLNDIPNKSEKYLIVTKCEVVSPALEKEVKTEVKTEEAGTI------ 122

Query: 129 DEVKKDGPGIVLKPKQEMVAKSAAQILRDQNGNMAPAARLAMTRRVHPLVSLNPYQGNWT 188
                      LKPKQE+VAKSAAQI+ +Q  NMAPAAR++MTRRV PLV LNPY G+WT
Sbjct: 123 -----------LKPKQELVAKSAAQIVHEQRMNMAPAARMSMTRRVQPLVYLNPYLGDWT 171

Query: 189 IKVRVTSKGNMRTYKNARGEGCVFNVELTDEDGTQIQATMFNEAARKFYDRFQLGKVYYI 248
           IKVRVT KGN+RTYKNA+GEGCVFNV LTDEDGTQIQATMFN+AARKFY++F LGKVYY+
Sbjct: 172 IKVRVTDKGNLRTYKNAQGEGCVFNVVLTDEDGTQIQATMFNDAARKFYEKFSLGKVYYV 231

Query: 249 SRGTLRVANKQFKTVQNDYEMNLNENSEVEEAVNETAFIPQTKFNFVPIDELGRYVNGTE 308
           SRGTL+VANK+FKTVQNDYEM LN NS+V+E  NE AF+P+TK+NFV ID LG +VNG +
Sbjct: 232 SRGTLKVANKKFKTVQNDYEMTLNVNSQVDEVSNEAAFVPETKYNFVKIDMLGPHVNGRD 291

Query: 309 LVDIIGVVQNVSPTMSIRRKSNNEMVPKRDITVADETKRTVTVSLWNELATNVGQELLDN 368
           LVD+IGVVQNVS TMSIRRK NNE  PKRD+T+ADETK+TV +SLWN+LAT VGQELLD 
Sbjct: 292 LVDVIGVVQNVSSTMSIRRKINNETAPKRDVTIADETKKTVVISLWNDLATTVGQELLDI 351

Query: 369 ADKSPIVAIKSLKVGDFQGISLSTLGRSTVLVSPDLPEAKKLKSWYESEGKGTSMASIGS 428
           AD+SPI+A+K L+VGDFQG+SLST+ RS++ ++PD+ EA  L+SWY+SEGK  SM+S+ S
Sbjct: 352 ADQSPIIALKYLRVGDFQGVSLSTISRSSITINPDIKEAHDLRSWYDSEGKAVSMSSVSS 411

Query: 429 GLGSLAKNGARSMYSDRVSLTHITSNPSLGDEKPVFFSIKAYISLIKPDQAMWYRACKTC 488
           GL    K+G+RSMYSDR+SL+HI  N SLG+EKP FFSI+AY+S IKPDQ MWYRACKTC
Sbjct: 412 GLSPSTKSGSRSMYSDRISLSHILENKSLGEEKPTFFSIRAYVSFIKPDQTMWYRACKTC 471

Query: 489 NKKVTDALGSGYWCEGCQKNDEECSLRYIMVARVCDGSGEAWISIFNEEAERIIGCSADE 548
           NKKVT+A+GSGYWC+ CQKNDEECSLRYIMV RV D SGEAW+S FNEEAERI+GCSADE
Sbjct: 472 NKKVTEAIGSGYWCDNCQKNDEECSLRYIMVVRVSDASGEAWVSTFNEEAERIMGCSADE 531

Query: 549 LNELKSQLGDDNSYQMKLKEVTWVPHLLRVSVAQQEYNNEKRQRVTVRAVAPVDFAAESK 608
           L++LKSQ+G++NSYQ+KLKE TWVPHL RVSV+Q EYNNEKRQR+TVR+VAPVDFAAES+
Sbjct: 532 LDQLKSQIGEENSYQLKLKEATWVPHLFRVSVSQNEYNNEKRQRITVRSVAPVDFAAESR 591

Query: 609 FLLEEISK 616
           FLLEEI+K
Sbjct: 592 FLLEEIAK 599

Source: Cucumis sativus

Species: Cucumis sativus

Genus: Cucumis

Family: Cucurbitaceae

Order: Cucurbitales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|297806837|ref|XP_002871302.1| hypothetical protein ARALYDRAFT_325405 [Arabidopsis lyrata subsp. lyrata] gi|297317139|gb|EFH47561.1| hypothetical protein ARALYDRAFT_325405 [Arabidopsis lyrata subsp. lyrata]

 Score =  939 bits (2427), Expect = 0.0,   Method: Compositional matrix adjust.
 Identities = 438/622 (70%), Positives = 523/622 (84%), Gaps = 19/622 (3%)

Query: 1   MDKTVSPDAISTILSNPSPDSSSDIPEIVVQVLDLKLTGNRYMFNASDGKKRLKAILPSN 60
           M+ +V+ D I+T+LSN S DSSS  PEIVVQV+DLK  GNRY FNA+DG  ++KA+LP+ 
Sbjct: 1   MENSVTQDGIATVLSNQSLDSSSVRPEIVVQVVDLKPVGNRYTFNANDGNMKMKAMLPAT 60

Query: 61  LSSEVISGNIQNKGLIRLLDYALNEIPTKSE-KYLIVTKCEVVSPALEMEIKIEVKSDES 119
           L+ E+ISG IQN GL+RLLDY +N+IP KSE KY+++TKCE V+ AL+ EIK E+K+   
Sbjct: 61  LTCEIISGKIQNLGLVRLLDYTVNDIPGKSEEKYMLITKCEAVASALDSEIKAEIKA--- 117

Query: 120 GIIFKPKQEDEVKKDGPGIVLKPKQEMVAKSAAQILRDQNGNMAPAARLAMTRRVHPLVS 179
                            GI LKPKQE VAKSA+QI+ +Q GN APAAR+AMTRRVHPLVS
Sbjct: 118 ---------------STGITLKPKQEFVAKSASQIINEQRGNAAPAARMAMTRRVHPLVS 162

Query: 180 LNPYQGNWTIKVRVTSKGNMRTYKNARGEGCVFNVELTDEDGTQIQATMFNEAARKFYDR 239
           LNPYQG+WTI+VRVT+KG MRTY NARGEGCVFNVELTDE+GTQIQATMFN AARKFYDR
Sbjct: 163 LNPYQGSWTIRVRVTNKGVMRTYNNARGEGCVFNVELTDEEGTQIQATMFNAAARKFYDR 222

Query: 240 FQLGKVYYISRGTLRVANKQFKTVQNDYEMNLNENSEVEEAVNETAFIPQTKFNFVPIDE 299
           F++GKVYYISRG+L++ANKQFKTVQNDYEM LNENSEVEEA NE  F P+ KFNFVPIDE
Sbjct: 223 FEMGKVYYISRGSLKLANKQFKTVQNDYEMTLNENSEVEEASNEEMFTPEIKFNFVPIDE 282

Query: 300 LGRYVNGTELVDIIGVVQNVSPTMSIRRKSNNEMVPKRDITVADETKRTVTVSLWNELAT 359
           LG YVN  +L+D+IGVVQ VSPTMSIRRK++NEM+PKRDIT+ADE+K TV VSLWN+LAT
Sbjct: 283 LGTYVNQKDLIDVIGVVQCVSPTMSIRRKNDNEMIPKRDITLADESKNTVVVSLWNDLAT 342

Query: 360 NVGQELLDNADKSPIVAIKSLKVGDFQGISLSTLGRSTVLVSPDLPEAKKLKSWYESEGK 419
            +GQELLD AD  P++AIKSLKVGDFQG+SLST+ RS V+++PD PEAKKLKSWY++EGK
Sbjct: 343 GIGQELLDMADNHPVIAIKSLKVGDFQGVSLSTISRSNVVINPDSPEAKKLKSWYDAEGK 402

Query: 420 GTSMASIGSGLGSLAKNGARSMYSDRVSLTHITSNPSLGDEKPVFFSIKAYISLIKPDQA 479
            TSM++IGSG+ S A NG+RSMYSDRV L+HITSNPSLG+EKPVFFSI+AYIS IKPDQ 
Sbjct: 403 ETSMSAIGSGMSSSANNGSRSMYSDRVFLSHITSNPSLGEEKPVFFSIRAYISFIKPDQT 462

Query: 480 MWYRACKTCNKKVTDALGSGYWCEGCQKNDEECSLRYIMVARVCDGSGEAWISIFNEEAE 539
           MWYRACKTCNKKVT+A+ SGYWCEGCQK D+ECSLRYIM  +V D +GE W S FN+EAE
Sbjct: 463 MWYRACKTCNKKVTEAMDSGYWCEGCQKKDQECSLRYIMAVKVSDSTGETWFSAFNDEAE 522

Query: 540 RIIGCSADELNELKSQLGDDNSYQMKLKEVTWVPHLLRVSVAQQEYNNEKRQRVTVRAVA 599
           +IIGC+ADELN LKS+ G+ N +Q KLKE TW  HL R+SV+QQEYN+EKRQR+TVR V+
Sbjct: 523 KIIGCTADELNNLKSEEGEVNEFQTKLKETTWSSHLFRISVSQQEYNSEKRQRITVRGVS 582

Query: 600 PVDFAAESKFLLEEISKKVSHQ 621
           P+DFAAE++ LL++ISKK + Q
Sbjct: 583 PIDFAAETRLLLQDISKKKTSQ 604

Source: Arabidopsis lyrata subsp. lyrata

Species: Arabidopsis lyrata

Genus: Arabidopsis

Family: Brassicaceae

Order: Brassicales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|15241489|ref|NP_196419.1| RPA70-kDa subunit B [Arabidopsis thaliana] gi|6562316|emb|CAB62614.1| replication factor A-like protein [Arabidopsis thaliana] gi|332003852|gb|AED91235.1| RPA70-kDa subunit B [Arabidopsis thaliana]

 Score =  933 bits (2411), Expect = 0.0,   Method: Compositional matrix adjust.
 Identities = 433/622 (69%), Positives = 526/622 (84%), Gaps = 19/622 (3%)

Query: 1   MDKTVSPDAISTILSNPSPDSSSDIPEIVVQVLDLKLTGNRYMFNASDGKKRLKAILPSN 60
           M+ +V+ D I+T+L+N S DSSS  PEIVVQV+DLK  GNRY F+A+DGK ++KA+LP+ 
Sbjct: 1   MENSVTQDGIATVLANQSLDSSSVRPEIVVQVVDLKPAGNRYTFSANDGKMKIKAMLPAT 60

Query: 61  LSSEVISGNIQNKGLIRLLDYALNEIPTKSE-KYLIVTKCEVVSPALEMEIKIEVKSDES 119
           L+S++ISG IQN GLIRLL+Y +N+IP KSE KY+++TKCE V+ AL+ EIK E+K+   
Sbjct: 61  LTSDIISGKIQNLGLIRLLEYTVNDIPGKSEEKYMLITKCEAVASALDSEIKAEIKA--- 117

Query: 120 GIIFKPKQEDEVKKDGPGIVLKPKQEMVAKSAAQILRDQNGNMAPAARLAMTRRVHPLVS 179
                            GI+LKPK E VAKSA+QI+ +Q GN APAAR+AMTRRVHPLVS
Sbjct: 118 ---------------STGIMLKPKHEFVAKSASQIINEQRGNAAPAARMAMTRRVHPLVS 162

Query: 180 LNPYQGNWTIKVRVTSKGNMRTYKNARGEGCVFNVELTDEDGTQIQATMFNEAARKFYDR 239
           LNPYQG+WTIKVRVT+KG MRTYKNARGEGCVFNVELTDE+GTQIQATMFN AARKFYDR
Sbjct: 163 LNPYQGSWTIKVRVTNKGVMRTYKNARGEGCVFNVELTDEEGTQIQATMFNAAARKFYDR 222

Query: 240 FQLGKVYYISRGTLRVANKQFKTVQNDYEMNLNENSEVEEAVNETAFIPQTKFNFVPIDE 299
           F++GKVYYISRG+L++ANKQFKTVQNDYEM LNENSEVEEA NE  F P+TKFNFVPIDE
Sbjct: 223 FEMGKVYYISRGSLKLANKQFKTVQNDYEMTLNENSEVEEASNEEMFTPETKFNFVPIDE 282

Query: 300 LGRYVNGTELVDIIGVVQNVSPTMSIRRKSNNEMVPKRDITVADETKRTVTVSLWNELAT 359
           LG YVN  +L+D+IGVVQ+VSPTMSIRRK++NEM+PKRDIT+ADETK+TV VSLWN+LAT
Sbjct: 283 LGTYVNQKDLIDVIGVVQSVSPTMSIRRKNDNEMIPKRDITLADETKKTVVVSLWNDLAT 342

Query: 360 NVGQELLDNADKSPIVAIKSLKVGDFQGISLSTLGRSTVLVSPDLPEAKKLKSWYESEGK 419
            +GQELLD AD  P++AIKSLKVG FQG+SLST+ RS V+++P+ PEA KLKSWY++EGK
Sbjct: 343 GIGQELLDMADNHPVIAIKSLKVGAFQGVSLSTISRSNVVINPNSPEATKLKSWYDAEGK 402

Query: 420 GTSMASIGSGLGSLAKNGARSMYSDRVSLTHITSNPSLGDEKPVFFSIKAYISLIKPDQA 479
            TSM++IGSG+ S A NG+RSMYSDRV L+HITSNPSLG+EKPVFFS +AYIS IKPDQ 
Sbjct: 403 ETSMSAIGSGMSSSANNGSRSMYSDRVFLSHITSNPSLGEEKPVFFSTRAYISFIKPDQT 462

Query: 480 MWYRACKTCNKKVTDALGSGYWCEGCQKNDEECSLRYIMVARVCDGSGEAWISIFNEEAE 539
           MWYRACKTCNKKVT+A+ SGYWCE CQK D+ECSLRYIM  +V D +GE W+S FN+EAE
Sbjct: 463 MWYRACKTCNKKVTEAMDSGYWCESCQKKDQECSLRYIMAVKVSDSTGETWLSAFNDEAE 522

Query: 540 RIIGCSADELNELKSQLGDDNSYQMKLKEVTWVPHLLRVSVAQQEYNNEKRQRVTVRAVA 599
           +IIGC+AD+LN+LKS+ G+ N +Q KLKE TW  HL R+SV+QQEYN+EKRQR+TVR V+
Sbjct: 523 KIIGCTADDLNDLKSEEGEVNEFQTKLKEATWSSHLFRISVSQQEYNSEKRQRITVRGVS 582

Query: 600 PVDFAAESKFLLEEISKKVSHQ 621
           P+DFAAE++ LL++ISK  + Q
Sbjct: 583 PIDFAAETRLLLQDISKNKTSQ 604

Source: Arabidopsis thaliana

Species: Arabidopsis thaliana

Genus: Arabidopsis

Family: Brassicaceae

Order: Brassicales

Phylum: Streptophyta

Superkingdom: Eukaryota

---

Prediction of Gene Ontology (GO) Terms

Close Homologs with Gene Ontology terms Detected by BLAST

Original result of BLAST against Gene Ontology (AMIGO)

ID	Length	Definition	Q cover	H cover	Identity	E-value
Query	623
TAIR|locus:2142808	604	RPA70B "RPA70-kDa subunit B" [	0.792	0.817	0.712	1.7e-233
TAIR|locus:2173527	629	RPA70D [Arabidopsis thaliana (	0.990	0.980	0.671	1.5e-227
TAIR|locus:2054577	640	RPA1A "replication protein A 1	0.707	0.689	0.353	1.3e-84
TAIR|locus:2163553	853	RPA70C [Arabidopsis thaliana (	0.723	0.528	0.341	6.5e-83
UNIPROTKB|Q9AVL8	654	OsRPA70a "Replication protein	0.695	0.662	0.353	5.8e-80
TAIR|locus:2134766	784	AT4G19130 [Arabidopsis thalian	0.714	0.567	0.343	5.2e-79
POMBASE|SPBC660.13c	609	ssb1 "DNA replication factor A	0.911	0.932	0.331	8.1e-76
RGD|1307376	680	Rpa1 "replication protein A1"	0.613	0.561	0.352	5.3e-73
UNIPROTKB|P27694	616	RPA1 "Replication protein A 70	0.914	0.925	0.319	5.9e-73
UNIPROTKB|Q65XV7	951	P0016H04.11 "Os05g0111000 prot	0.711	0.465	0.343	8.6e-73

TAIR|locus:2142808 RPA70B "RPA70-kDa subunit B" [Arabidopsis thaliana (taxid:3702)]

 Score = 1917 (679.9 bits), Expect = 1.7e-233, Sum P(2) = 1.7e-233
 Identities = 354/497 (71%), Positives = 423/497 (85%)

Query:   128 EDEVK---KDGPGIVLKPKQEMVAKSAAQILRDQNGNMAPAARLAMTRRVHPLVSLNPYQ 184
             + E+K   K   GI+LKPK E VAKSA+QI+ +Q GN APAAR+AMTRRVHPLVSLNPYQ
Sbjct:   108 DSEIKAEIKASTGIMLKPKHEFVAKSASQIINEQRGNAAPAARMAMTRRVHPLVSLNPYQ 167

Query:   185 GNWTIKVRVTSKGNMRTYKNARGEGCVFNVELTDEDGTQIQATMFNEAARKFYDRFQLGK 244
             G+WTIKVRVT+KG MRTYKNARGEGCVFNVELTDE+GTQIQATMFN AARKFYDRF++GK
Sbjct:   168 GSWTIKVRVTNKGVMRTYKNARGEGCVFNVELTDEEGTQIQATMFNAAARKFYDRFEMGK 227

Query:   245 VYYISRGTLRVANKQFKTVQNDYEMXXXXXXXXXXXXXXTAFIPQTKFNFVPIDELGRYV 304
             VYYISRG+L++ANKQFKTVQNDYEM                F P+TKFNFVPIDELG YV
Sbjct:   228 VYYISRGSLKLANKQFKTVQNDYEMTLNENSEVEEASNEEMFTPETKFNFVPIDELGTYV 287

Query:   305 NGTELVDIIGVVQNVSPTMSIRRKSNNEMVPKRDITVADETKRTVTVSLWNELATNVGQE 364
             N  +L+D+IGVVQ+VSPTMSIRRK++NEM+PKRDIT+ADETK+TV VSLWN+LAT +GQE
Sbjct:   288 NQKDLIDVIGVVQSVSPTMSIRRKNDNEMIPKRDITLADETKKTVVVSLWNDLATGIGQE 347

Query:   365 LLDNADKSPIVAIKSLKVGDFQGISLSTLGRSTVLVSPDLPEAKKLKSWYESEGKGTSMA 424
             LLD AD  P++AIKSLKVG FQG+SLST+ RS V+++P+ PEA KLKSWY++EGK TSM+
Sbjct:   348 LLDMADNHPVIAIKSLKVGAFQGVSLSTISRSNVVINPNSPEATKLKSWYDAEGKETSMS 407

Query:   425 SIGSGLGSLAKNGARSMYSDRVSLTHITSNPSLGDEKPVFFSIKAYISLIKPDQAMWYRA 484
             +IGSG+ S A NG+RSMYSDRV L+HITSNPSLG+EKPVFFS +AYIS IKPDQ MWYRA
Sbjct:   408 AIGSGMSSSANNGSRSMYSDRVFLSHITSNPSLGEEKPVFFSTRAYISFIKPDQTMWYRA 467

Query:   485 CKTCNKKVTDALGSGYWCEGCQKNDEECSLRYIMVARVCDGSGEAWISIFNEEAERIIGC 544
             CKTCNKKVT+A+ SGYWCE CQK D+ECSLRYIM  +V D +GE W+S FN+EAE+IIGC
Sbjct:   468 CKTCNKKVTEAMDSGYWCESCQKKDQECSLRYIMAVKVSDSTGETWLSAFNDEAEKIIGC 527

Query:   545 SADELNELKSQLGDDNSYQMKLKEVTWVPHLLRVSVAQQEYNNEKRQRVTVRAVAPVDFA 604
             +AD+LN+LKS+ G+ N +Q KLKE TW  HL R+SV+QQEYN+EKRQR+TVR V+P+DFA
Sbjct:   528 TADDLNDLKSEEGEVNEFQTKLKEATWSSHLFRISVSQQEYNSEKRQRITVRGVSPIDFA 587

Query:   605 AESKFLLEEISKKVSHQ 621
             AE++ LL++ISK  + Q
Sbjct:   588 AETRLLLQDISKNKTSQ 604

GO:0003676 "nucleic acid binding" evidence=IEA

GO:0003677 "DNA binding" evidence=IEA

GO:0005634 "nucleus" evidence=ISM;IEA

GO:0006260 "DNA replication" evidence=ISS;RCA

GO:0006281 "DNA repair" evidence=TAS

GO:0010224 "response to UV-B" evidence=IMP

GO:0000278 "mitotic cell cycle" evidence=RCA

GO:0000724 "double-strand break repair via homologous recombination" evidence=RCA

GO:0006261 "DNA-dependent DNA replication" evidence=RCA

GO:0006270 "DNA replication initiation" evidence=RCA

GO:0006275 "regulation of DNA replication" evidence=RCA

GO:0006306 "DNA methylation" evidence=RCA

GO:0008283 "cell proliferation" evidence=RCA

GO:0009555 "pollen development" evidence=RCA

GO:0009909 "regulation of flower development" evidence=RCA

GO:0010389 "regulation of G2/M transition of mitotic cell cycle" evidence=RCA

GO:0016444 "somatic cell DNA recombination" evidence=RCA

GO:0016458 "gene silencing" evidence=RCA

GO:0016568 "chromatin modification" evidence=RCA

GO:0031047 "gene silencing by RNA" evidence=RCA

GO:0034968 "histone lysine methylation" evidence=RCA

GO:0051567 "histone H3-K9 methylation" evidence=RCA

GO:0051726 "regulation of cell cycle" evidence=RCA

TAIR|locus:2173527 RPA70D [Arabidopsis thaliana (taxid:3702)]

 Score = 2196 (778.1 bits), Expect = 1.5e-227, P = 1.5e-227
 Identities = 419/624 (67%), Positives = 504/624 (80%)

Query:     1 MDKTVSPDAISTILXXXXXXXXXXIPEIVVQVLDLKLTGNRYMFNASDGKKRLKAILPSN 60
             M  +V+PDAIST+L            EIVVQV+DLK  GNRY F+A+DGK ++KA+  ++
Sbjct:     1 MQTSVTPDAISTVLSNPSFDSSSDRSEIVVQVVDLKPIGNRYTFSANDGKTKVKAMFTAS 60

Query:    61 LSSEVISGNIQNKGLIRLLDYALNEIPTKSEKYLIVTKCEVVSPALEMEIKIEVKSDESG 120
             L+ E+ISG IQN GLIRL+D+ +N+I +KS KY +VTKCE V   L+ EI ++ KS E  
Sbjct:    61 LTPEIISGKIQNLGLIRLIDFTVNDISSKSTKYFLVTKCEAVGSVLDSEINLDSKSGEEE 120

Query:   121 IIFKPKQEDEVKKDGP-------GIVLKPKQEMVAKSAAQILRDQNGNMAPAARLAMTRR 173
                  KQ+ E     P       GI LKPKQE VAKSA+QI+ +Q GN APAAR+AMTRR
Sbjct:   121 AREPKKQKLEHSPVSPLNDVVSTGITLKPKQEFVAKSASQIMSEQRGNAAPAARMAMTRR 180

Query:   174 VHPLVSLNPYQGNWTIKVRVTSKGNMRTYKNARGEGCVFNVELTDEDGTQIQATMFNEAA 233
             VHPLVSLNPYQGNWTIKVRVT+KG MR YKNARGEGCVFNVELTDE+GTQIQATMFN+AA
Sbjct:   181 VHPLVSLNPYQGNWTIKVRVTNKGVMRNYKNARGEGCVFNVELTDEEGTQIQATMFNDAA 240

Query:   234 RKFYDRFQLGKVYYISRGTLRVANKQFKTVQNDYEMXXXXXXXXXXXXXXTAFIPQTKFN 293
             RKF+DRFQLGKVYYISRG+L++ANKQFKTVQNDYEM                FIP+TKFN
Sbjct:   241 RKFFDRFQLGKVYYISRGSLKLANKQFKTVQNDYEMTLNENSEVEEASSEEMFIPETKFN 300

Query:   294 FVPIDELGRYVNGTELVDIIGVVQNVSPTMSIRRKSNNEMVPKRDITVADETKRTVTVSL 353
             FVPI+ELG YVN  EL+D+IGVVQ+VSPTMSIRR+++NEM+PKRDIT+ADE+++TV VSL
Sbjct:   301 FVPIEELGLYVNQKELIDLIGVVQSVSPTMSIRRRTDNEMIPKRDITLADESRKTVVVSL 360

Query:   354 WNELATNVGQELLDNADKSPIVAIKSLKVGDFQGISLSTLGRSTVLVSPDLPEAKKLKSW 413
             WN+LAT +GQELLD AD+SP++AIKSLKVGDFQG+SLST+ RS V+++P+ PEAKKLKSW
Sbjct:   361 WNDLATGIGQELLDMADQSPVIAIKSLKVGDFQGVSLSTISRSNVVINPESPEAKKLKSW 420

Query:   414 YESEGKGTSMASIGSGLGSLAKNGARSMYSDRVSLTHITSNPSLGDEKPVFFSIKAYISL 473
             ++SEGK  SM+SIGSG+   AKNG+RS+Y+DRV L+HITSNPSL +EKPVFFS +AYIS 
Sbjct:   421 FDSEGKEISMSSIGSGMSPSAKNGSRSLYTDRVLLSHITSNPSLFEEKPVFFSTRAYISF 480

Query:   474 IKPDQAMWYRACKTCNKKVTDALGSGYWCEGCQKNDEECSLRYIMVARVCDGSGEAWISI 533
             IKPDQ MWY+ACKTCNKKVT+AL SGYWCEGCQ+  EECSLRYIM  +V D SGE WIS 
Sbjct:   481 IKPDQTMWYQACKTCNKKVTEALDSGYWCEGCQRKYEECSLRYIMAVKVTDSSGETWISS 540

Query:   534 FNEEAERIIGCSADELNELKSQLGDDNSYQMKLKEVTWVPHLLRVSVAQQEYNNEKRQRV 593
             FN+EAE+I+GCSADELN+LKS+ G+ N YQ KLKE TW  H+ RVSV Q EYN EKRQRV
Sbjct:   541 FNDEAEKILGCSADELNKLKSEEGEVNEYQTKLKEATWSSHVFRVSVTQNEYNGEKRQRV 600

Query:   594 TVRAVAPVDFAAESKFLLEEISKK 617
             TV+ VAP+DFAAE++ LL++IS K
Sbjct:   601 TVKGVAPLDFAAETRLLLQDISNK 624

GO:0003676 "nucleic acid binding" evidence=IEA

GO:0003677 "DNA binding" evidence=IEA

GO:0005634 "nucleus" evidence=ISM;IEA

GO:0006260 "DNA replication" evidence=IEA;ISS

TAIR|locus:2054577 RPA1A "replication protein A 1A" [Arabidopsis thaliana (taxid:3702)]

 Score = 772 (276.8 bits), Expect = 1.3e-84, Sum P(2) = 1.3e-84
 Identities = 164/464 (35%), Positives = 270/464 (58%)

Query:   161 NMAPAARLAMTRRVHPLVSLNPYQGNWTIKVRVTSKGNMRTYKNARGEGCVFNVELTDED 220
             N  P  +     RV P+ +LNPYQG W IK RVT+KG++R Y NA+G+G VF+ +L D D
Sbjct:   184 NHGPIMKNEAPARVIPIAALNPYQGRWAIKARVTAKGDIRRYNNAKGDGKVFSFDLLDYD 243

Query:   221 GTQIQATMFNEAARKFYDRFQLGKVYYISRGTLRVANKQFKTVQNDYEMXXXXXXXXXXX 280
             G +I+ T FN    +FYD  ++GKVY IS+G+L+ A K F  ++N++E+           
Sbjct:   244 GGEIRVTCFNALVDRFYDVTEVGKVYLISKGSLKPAQKNFNHLKNEWEIFLESTSTVELC 303

Query:   281 XXXTAFIPQTKFNFVPIDELGRYVNGTELVDIIGVVQNVSPTMSIRRKSNNEMVPKRDIT 340
                   IP+ +F+F PI ++    N T ++D+IGVV +V+P++ I RK+  E   +R + 
Sbjct:   304 PDEDGSIPKQQFSFRPISDIENAENNT-ILDVIGVVTSVNPSVPILRKNGME-THRRILN 361

Query:   341 VADETKRTVTVSLWNELATNVGQELLDNADKS--PIVAIKSLKVGDFQGISLSTLGRSTV 398
             + DE+ + V V+LW E     G++L +  D +  P++AIK+ KV DF G S+ T+  + +
Sbjct:   362 LKDESGKAVEVTLWGEFCNRDGRQLEEMVDSAFHPVLAIKAGKVSDFSGKSVGTISSTQL 421

Query:   399 LVSPDLPEAKKLKSWYESEGKGTSMASIGSGL--GSLAKNGARSMYSDRVSLTHITSNPS 456
              ++PD PEA KL++W++  GK T+  SI      G +++N  R   S             
Sbjct:   422 FINPDFPEAHKLRTWFDYGGKDTASFSISRDTMPGGVSRNEIRKNVSQ-------IKEEG 474

Query:   457 LG-DEKPVFFSIKAYISLIKPDQAMWYRAC------KTCNKKVTDALGSGYW-CEGCQKN 508
             LG  +KP + ++KA IS IK D +  Y AC      K CNKKVT + G+  W C+ C + 
Sbjct:   475 LGRSDKPDWITVKATISFIKTD-SFCYTACPLMIGDKQCNKKVTRS-GTNRWLCDRCNQE 532

Query:   509 DEECSLRYIMVARVCDGSGEAWISIFNEEAERIIGCSADELNELKSQLGDDNSYQMKLKE 568
              +EC  RY++  ++ D +G  WI+ F E  E I+GC A +L  +K +L  +  +   +++
Sbjct:   533 SDECDYRYLLQVQIQDHTGLTWITAFQETGEEIMGCPAKKLYAMKYELEKEEEFAEIVRD 592

Query:   569 VTWVPHLLRVSVAQQEYNNEKRQRVTVRAVAPVDFAAESKFLLE 612
               +  ++L++ + ++ Y +E+R ++TV  V  V++ +ESK++L+
Sbjct:   593 RLFHQYMLKLKIKEESYGDEQRVKMTVVKVDKVNYTSESKYMLD 636

GO:0003676 "nucleic acid binding" evidence=IEA

GO:0003677 "DNA binding" evidence=IEA

GO:0005634 "nucleus" evidence=ISM;IEA

GO:0006260 "DNA replication" evidence=IEA;ISS

GO:0000790 "nuclear chromatin" evidence=IDA

GO:0007131 "reciprocal meiotic recombination" evidence=IGI;RCA

GO:0007141 "male meiosis I" evidence=IMP

GO:0009555 "pollen development" evidence=IMP

GO:0048232 "male gamete generation" evidence=IMP

GO:0051026 "chiasma assembly" evidence=IMP

GO:0000724 "double-strand break repair via homologous recombination" evidence=RCA

GO:0006312 "mitotic recombination" evidence=RCA

GO:0006355 "regulation of transcription, DNA-dependent" evidence=RCA

GO:0007062 "sister chromatid cohesion" evidence=RCA

GO:0007129 "synapsis" evidence=RCA

GO:0007140 "male meiosis" evidence=RCA

GO:0009220 "pyrimidine ribonucleotide biosynthetic process" evidence=RCA

GO:0009560 "embryo sac egg cell differentiation" evidence=RCA

GO:0009640 "photomorphogenesis" evidence=RCA

GO:0009793 "embryo development ending in seed dormancy" evidence=RCA

GO:0009845 "seed germination" evidence=RCA

GO:0009909 "regulation of flower development" evidence=RCA

GO:0009933 "meristem structural organization" evidence=RCA

GO:0010162 "seed dormancy process" evidence=RCA

GO:0010182 "sugar mediated signaling pathway" evidence=RCA

GO:0010228 "vegetative to reproductive phase transition of meristem" evidence=RCA

GO:0010332 "response to gamma radiation" evidence=RCA

GO:0016444 "somatic cell DNA recombination" evidence=RCA

GO:0016567 "protein ubiquitination" evidence=RCA

GO:0019915 "lipid storage" evidence=RCA

GO:0032204 "regulation of telomere maintenance" evidence=RCA

GO:0032504 "multicellular organism reproduction" evidence=RCA

GO:0042138 "meiotic DNA double-strand break formation" evidence=RCA

GO:0043247 "telomere maintenance in response to DNA damage" evidence=RCA

GO:0043687 "post-translational protein modification" evidence=RCA

GO:0045132 "meiotic chromosome segregation" evidence=RCA

GO:0045893 "positive regulation of transcription, DNA-dependent" evidence=RCA

GO:0050826 "response to freezing" evidence=RCA

TAIR|locus:2163553 RPA70C [Arabidopsis thaliana (taxid:3702)]

 Score = 759 (272.2 bits), Expect = 6.5e-83, Sum P(2) = 6.5e-83
 Identities = 162/474 (34%), Positives = 266/474 (56%)

Query:   161 NMAPAARLAMTRRVHPLVSLNPYQGNWTIKVRVTSKGNMRTYKNARGEGCVFNVELTDED 220
             N  P AR     R++P+ +LNPYQG WTIKVRVTSK ++R + N RGEG +F+ +L D D
Sbjct:   286 NRGPVARNEAPPRINPIAALNPYQGRWTIKVRVTSKADLRRFNNPRGEGKLFSFDLLDAD 345

Query:   221 GTQIQATMFNEAARKFYDRFQLGKVYYISRGTLRVANKQFKTVQNDYEMXXXXXXXXXXX 280
             G +I+ T FN+A  +F+D+  +G VY ISRG L+ A K F  + NDYE+           
Sbjct:   346 GGEIRVTCFNDAVDQFFDKIVVGNVYLISRGNLKPAQKNFNHLPNDYEIHLDSASTIQPC 405

Query:   281 XXXTAFIPQTKFNFVPIDELGRYVNGTELVDIIGVVQNVSPTMSIRRKSNNEMVPKRDIT 340
                   IP+  F+F  I ++    N +   D+IG+V ++SPT++I RK+  E V KR + 
Sbjct:   406 EDDGT-IPRYHFHFRNIGDIENMENNST-TDVIGIVSSISPTVAIMRKNLTE-VQKRSLQ 462

Query:   341 VADETKRTVTVSLWNELATNVGQELLDNADKS--PIVAIKSLKVGDFQGISLSTLGRSTV 398
             + D + R+V V++W       GQ+L +  D    P++A+K+ ++G+F G  +ST+G S  
Sbjct:   463 LKDMSGRSVEVTMWGNFCNAEGQKLQNLCDSGVFPVLALKAGRIGEFNGKQVSTIGASQF 522

Query:   399 LVSPDLPEAKKLKSWYESEGKGTSMASIGSGLGSLAKNGARSMYSDRVSLTHITSNPSLG 458
              + PD PEA++L+ WYE EG+     SI      + +   R + +          +  LG
Sbjct:   523 FIEPDFPEARELRQWYEREGRNAHFTSISREFSGVGRQEVRKVIAQ-------IKDEKLG 575

Query:   459 -DEKPVFFSIKAYISLIKPDQAMWYRAC------KTCNKKVTDALGSGYW-CEGCQKNDE 510
               EKP + ++ A IS +K +    Y AC      + C+KKVT+  G G W CE C K  +
Sbjct:   576 TSEKPDWITVCATISFMKVEN-FCYTACPIMNGDRPCSKKVTNN-GDGTWRCEKCDKCVD 633

Query:   511 ECSLRYIMVARVCDGSGEAWISIFNEEAERIIGCSADELNELKSQLGDDNSYQMKLKEVT 570
             EC  RYI+  ++ D +   W + F E  E I+G SA +L  +K +  D+  ++  ++ V 
Sbjct:   634 ECDYRYILQIQLQDHTDLTWATAFQEAGEEIMGMSAKDLYYVKYENQDEEKFEDIIRSVA 693

Query:   571 WVPHLLRVSVAQQEYNNEKRQRVTVRAVAPVDFAAESKFLLEEISK-KVSHQNA 623
             +  ++ ++ + ++ Y++E+R + TV     +++++ ++F+LE I K K+   N+
Sbjct:   694 FTKYIFKLKIKEETYSDEQRVKATVVKAEKLNYSSNTRFMLEAIDKLKIGDANS 747

GO:0003676 "nucleic acid binding" evidence=IEA

GO:0003677 "DNA binding" evidence=IEA

GO:0005634 "nucleus" evidence=ISM;IEA

GO:0006260 "DNA replication" evidence=IEA;ISS

GO:0008270 "zinc ion binding" evidence=IEA

UNIPROTKB|Q9AVL8 OsRPA70a "Replication protein A 70kDa" [Oryza sativa Japonica Group (taxid:39947)]

 Score = 739 (265.2 bits), Expect = 5.8e-80, Sum P(2) = 5.8e-80
 Identities = 160/453 (35%), Positives = 258/453 (56%)

Query:   173 RVHPLVSLNPYQGNWTIKVRVTSKGNMRTYKNARGEGCVFNVELTDEDGTQIQATMFNEA 232
             R+ P+ +LNPYQG W IK RVT+KG++R Y NA+G+G VF+ +L D DG +I+ T FN  
Sbjct:   208 RIIPISALNPYQGRWAIKARVTAKGDIRRYHNAKGDGKVFSFDLLDSDGGEIRVTCFNAL 267

Query:   233 ARKFYDRFQLGKVYYISRGTLRVANKQFKTVQNDYEMXXXXXXXXXXXXXXTAFIPQTKF 292
               +FY+  ++GKVY +SRG LR A K +  + N++E+               + IP  +F
Sbjct:   268 LDRFYEVVEVGKVYVVSRGNLRPAQKNYNHLNNEWEILLENGSTVDLCPDENSSIPTQRF 327

Query:   293 NFVPIDELGRYVNGTELVDIIGVVQNVSPTMSIRRKSNNEMVPKRDITVADETKRTVTVS 352
             +F PI+E+    N   ++DIIGVV +V+P  +I+RK+  E   KR + + D + R+V V+
Sbjct:   328 DFRPINEIEDAQNNA-ILDIIGVVTSVNPCTTIQRKNGME-TQKRTMNLKDMSGRSVEVT 385

Query:   353 LWNELATNVGQELLDNADKS--PIVAIKSLKVGDFQGISLSTLGRSTVLVSPDLPEAKKL 410
             +W +     G +L    ++   P++A+K+ KV DF G S+ T+  +   ++PD  EA  L
Sbjct:   386 MWGDFCNREGSQLQGMVERGIFPVLAVKAGKVSDFSGKSVGTISSTQFFINPDSAEAHSL 445

Query:   411 KSWYESEGKGTSMASIGSGLGSLAKNGARSMYSDRVSLTHITSNP-SLGDEKPVFFSIKA 469
             + W++S G+     SI   +      GA S    R ++  I      +GD KP + ++KA
Sbjct:   446 RQWFDSGGRDAFTQSISRDITP----GA-SRNEIRKTVAQIKDEGLGMGD-KPDWITVKA 499

Query:   470 YISLIKPDQAMWYRAC------KTCNKKVTDALGSGYWCEGCQKNDEECSLRYIMVARVC 523
              +   K +++ +Y AC      + CNKKVT +    + C+ C +  EEC  RY++  ++ 
Sbjct:   500 TVIFFK-NESFFYTACPNMIGDRQCNKKVTKSTNGNWTCDKCDREFEECDYRYLLQFQIQ 558

Query:   524 DGSGEAWISIFNEEAERIIGCSADELNELKSQLGDDNSYQMKLKEVTWVPHLLRVSVAQQ 583
             D SG AW++ F E  + ++GCSA ELN LK +  +D  +   +    +  +LLR+ V ++
Sbjct:   559 DHSGTAWVTAFQEAGQELLGCSATELNALKER--EDPRFADTMLNCLFQEYLLRLKVKEE 616

Query:   584 EYNNEKRQRVTVRAVAPVDFAAESKFLLEEISK 616
              Y +E++ + T   V  VD + ESKFLL+ ISK
Sbjct:   617 SYGDERKVKNTAVKVEKVDPSGESKFLLDLISK 649

GO:0005515 "protein binding" evidence=IPI

TAIR|locus:2134766 AT4G19130 [Arabidopsis thaliana (taxid:3702)]

 Score = 737 (264.5 bits), Expect = 5.2e-79, Sum P(2) = 5.2e-79
 Identities = 160/466 (34%), Positives = 260/466 (55%)

Query:   161 NMAPAARLAMTRRVHPLVSLNPYQGNWTIKVRVTSKGNMRTYKNARGEGCVFNVELTDED 220
             N  P AR     ++ P+ +L+PY G WTIK RVT+K  ++ Y N RGEG VFN +L D D
Sbjct:   215 NRGPVARNEAPPKIIPVNALSPYSGRWTIKARVTNKAALKQYSNPRGEGKVFNFDLLDAD 274

Query:   221 GTQIQATMFNEAARKFYDRFQLGKVYYISRGTLRVANKQFKTVQNDYEMXXXXXXXXXXX 280
             G +I+ T FN  A +FYD+  +G +Y ISRG+LR A K F  ++NDYE+           
Sbjct:   275 GGEIRVTCFNAVADQFYDQIVVGNLYLISRGSLRPAQKNFNHLRNDYEIMLDNASTIKQC 334

Query:   281 XXXTAFIPQTKFNFVPIDELGRYVNGTELVDIIGVVQNVSPTMSIRRKSNNEMVPKRDIT 340
                 A IP+ +F+F  I ++    N   +VD+IG+V ++SPT++I RK N    PKR + 
Sbjct:   335 YEEDAAIPRHQFHFRTIGDIESMENNC-IVDVIGIVSSISPTVTITRK-NGTATPKRSLQ 392

Query:   341 VADETKRTVTVSLWNELATNVGQELLDNADKS--PIVAIKSLKVGDFQGISLSTLGRSTV 398
             + D + R+V V++W +     GQ L    D    P++A+K+ ++ +F G ++ST+G S +
Sbjct:   393 LKDMSGRSVEVTMWGDFCNAEGQRLQSLCDSGVFPVLAVKAGRISEFNGKTVSTIGSSQL 452

Query:   399 LVSPDLPEAKKLKSWYESEGKGTSMASIGSGLGSLAKNGARSMYSDRVSLTHITSNPSLG 458
              + PD  EA+KLK+W+E EGK     S+        K   R   S          +  LG
Sbjct:   453 FIDPDFVEAEKLKNWFEREGKSVPCISLSREFSGSGKVDVRKTISQ-------IKDEKLG 505

Query:   459 -DEKPVFFSIKAYISLIKPDQAMWYRAC------KTCNKKVTDALGSGYW-CEGCQKNDE 510
               EKP + ++ A I  +K D    Y AC      + C+KKVTD  G G W CE C K+ +
Sbjct:   506 TSEKPDWITVSATILYLKFDN-FCYTACPIMNGDRPCSKKVTDN-GDGTWRCEKCDKSVD 563

Query:   511 ECSLRYIMVARVCDGSGEAWISIFNEEAERIIGCSADELNELKSQLGDDNSYQMKLKEVT 570
             EC  RYI+  ++ D +    ++ F E  E I+G SA +L  +K++  D+  ++  +++V 
Sbjct:   564 ECDYRYILQLQIQDHTDLTCVTAFQEAGEEIMGISAKDLYYVKNEHKDEEKFEDIIRKVA 623

Query:   571 WVPHLLRVSVAQQEYNNEKRQRVTVRAVAPVDFAAESKFLLEEISK 616
             +  +  ++ V ++ +++E+R + TV  V  ++++A+++ +L  + K
Sbjct:   624 FTKYNFKLKVKEETFSDEQRVKATVVKVDKLNYSADTRTMLGAMDK 669

GO:0003676 "nucleic acid binding" evidence=IEA

GO:0003677 "DNA binding" evidence=IEA

GO:0005634 "nucleus" evidence=ISM;IEA

GO:0006260 "DNA replication" evidence=IEA

GO:0008270 "zinc ion binding" evidence=IEA

GO:0006302 "double-strand break repair" evidence=RCA

GO:0010332 "response to gamma radiation" evidence=RCA

POMBASE|SPBC660.13c ssb1 "DNA replication factor A subunit Ssb1" [Schizosaccharomyces pombe (taxid:4896)]

 Score = 764 (274.0 bits), Expect = 8.1e-76, P = 8.1e-76
 Identities = 200/604 (33%), Positives = 310/604 (51%)

Query:    26 PEIVVQVLDLK-LTGN-------RYMFNASDGKKRLKAILPSNLSSEVISGNIQNKGLIR 77
             P  ++QVL +K L  N       RY    SD     +++L + L+  V    +Q    ++
Sbjct:    23 PNPILQVLTVKELNSNPTSGAPKRYRVVLSDSINYAQSMLSTQLNHLVAENKLQKGAFVQ 82

Query:    78 LLDYALNEIPTKSEKYLIVTKCEVVSPALEMEIKIEVKSD-ESGIIFKPKQEDEVKKDGP 136
             L  + +N +  K  K LIV    V++    M+ KI   +  E+    + +Q ++     P
Sbjct:    83 LTQFTVNVM--KERKILIVLGLNVLTELGVMD-KIGNPAGLETVDALRQQQNEQNNASAP 139

Query:   137 --GIVLKPKQEMVAKSAAQILRDQNGNMAPAARLAMTRRVHPLVSLNPYQGNWTIKVRVT 194
               GI           +AA           PAA  +++  ++P+  L+PYQ  WTI+ RVT
Sbjct:   140 RTGISTSTNSFYGNNAAATAPAPPPMMKKPAAPNSLSTIIYPIEGLSPYQNKWTIRARVT 199

Query:   195 SKGNMRTYKNARGEGCVFNVELTDEDGTQIQATMFNEAARKFYDRFQLGKVYYISRGTLR 254
             +K  ++ + N RGEG +F+V L DE G +I+AT FN+    FYD  Q G VYYISR  + 
Sbjct:   200 NKSEVKHWHNQRGEGKLFSVNLLDESG-EIRATGFNDQVDAFYDILQEGSVYYISRCRVN 258

Query:   255 VANKQFKTVQNDYEMXXXXXXXXXXXXXXTAFIPQTKFNFVPIDELGRYVNGTELVDIIG 314
             +A KQ+  VQN+YE+              TA +P  KF+FV + E+G       ++D+IG
Sbjct:   259 IAKKQYTNVQNEYELMFERDTEIRKAEDQTA-VPVAKFSFVSLQEVGDVAKDA-VIDVIG 316

Query:   315 VVQNVSPTMSIRRKSNNEMVPKRDITVADETKRTVTVSLWNELATNVGQELLDNADKSPI 374
             V+QNV P   I  ++ +    KRDIT+ D+T   + V+LW + A         +  +  I
Sbjct:   317 VLQNVGPVQQITSRATSRGFDKRDITIVDQTGYEMRVTLWGKTAIEF------SVSEESI 370

Query:   375 VAIKSLKVGDFQGISLSTLGRSTVLVSPDLPEAKKLKSWYESEGKGTSMASIGSGLGSLA 434
             +A K +KV DFQG SLS L  ST+ V PD+ E+  LK WY+ +G+G   A   S + S  
Sbjct:   371 LAFKGVKVNDFQGRSLSMLTSSTMSVDPDIQESHLLKGWYDGQGRGQEFAK-HSVISSTL 429

Query:   435 KNGARSMYSDRVSLTHITSNPSLG-DEKPVFFSIKAYISLIKPDQAMWYRACKT--CNKK 491
                 RS  ++R ++  + +   LG  E P +FS+K  I  I+      Y AC    CNKK
Sbjct:   430 STTGRS--AERKNIAEVQAE-HLGMSETPDYFSLKGTIVYIRKKNVS-YPACPAADCNKK 485

Query:   492 VTDALGSGYW-CEGCQKNDEECSLRYIMVARVCDGSGEAWISIFNEEAERIIGCSADELN 550
             V D  GS  W CE C K  +    RYI+   V D +G+ W+++F++  + I+  +ADELN
Sbjct:   486 VFDQGGS--WRCEKCNKEYDAPQYRYIITIAVGDHTGQLWLNVFDDVGKLIMHKTADELN 543

Query:   551 ELKSQLGDDNSYQMKLKEVTWVPHLLRVSVAQQEYNNEKRQRVTVRAVAPVDFAAESKFL 610
             +L  Q  D+N++   + E  ++P++ +    Q  +  E R R TV ++  +D+  ESK L
Sbjct:   544 DL--QENDENAFMNCMAEACYMPYIFQCRAKQDNFKGEMRVRYTVMSINQMDWKEESKRL 601

Query:   611 LEEI 614
             +  I
Sbjct:   602 INFI 605

GO:0000723 "telomere maintenance" evidence=IGI;IMP

GO:0000724 "double-strand break repair via homologous recombination" evidence=ISO

GO:0000781 "chromosome, telomeric region" evidence=ISO

GO:0005634 "nucleus" evidence=ISO;IDA

GO:0005662 "DNA replication factor A complex" evidence=IDA

GO:0005737 "cytoplasm" evidence=ISO;IDA

GO:0005829 "cytosol" evidence=IDA

GO:0006261 "DNA-dependent DNA replication" evidence=IMP

GO:0006269 "DNA replication, synthesis of RNA primer" evidence=ISO

GO:0006281 "DNA repair" evidence=IMP

GO:0046872 "metal ion binding" evidence=IEA

GO:0003697 "single-stranded DNA binding" evidence=IDA

RGD|1307376 Rpa1 "replication protein A1" [Rattus norvegicus (taxid:10116)]

 Score = 530 (191.6 bits), Expect = 5.3e-73, Sum P(2) = 5.3e-73
 Identities = 144/408 (35%), Positives = 214/408 (52%)

Query:    29 VVQVLDLK--LTGN---RYMFNASDGKKRLKA-ILPSNLSSEVISGNIQNKGLIRLLDYA 82
             V+QV++++   TGN   RY    SDG   L + +L + L++ V  G + +  + ++  + 
Sbjct:    11 VLQVINIRPITTGNSPPRYRLLMSDGLNTLSSFMLATQLNALVEGGQLASNCVCQVHRFI 70

Query:    83 LNEIPTKSEKYLIVTKCEVVSPALEMEIKI--EVKSDESGIIFKPKQEDEVKKDGPGIVL 140
             +N +     + +I+   EVV  A E+ +KI   V  +E     +           P    
Sbjct:    71 VNTLKD-GRRVVILMDLEVVKSAGEVGVKIGNPVPYNEGHAQQQAVSAPASAATPPASKP 129

Query:   141 KPKQEM--VAKSAAQILRDQN--GNMAPAARLAMTR----RVHPLVSLNPYQGNWTIKVR 192
             +P+     V  + A+        G  A    L  T     +V P+ SL PYQ  WTI  R
Sbjct:   130 QPQNGSLGVGSTVAKAYGASKPFGKPAGTGLLQPTSGTQSKVVPIASLTPYQSKWTICAR 189

Query:   193 VTSKGNMRTYKNARGEGCVFNVELTDEDGTQIQATMFNEAARKFYDRFQLGKVYYISRGT 252
             VT+K  +RT+ N+RGEG +F++EL DE G +I+AT FNE   KF+   ++ KVYY S+GT
Sbjct:   190 VTNKSQIRTWSNSRGEGKLFSIELVDESG-EIRATAFNEQVDKFFPLIEVNKVYYFSKGT 248

Query:   253 LRVANKQFKTVQNDYEMXXXXXXXXXXXXXXTAFIPQTKFNFVPIDELGRYVNGTELVDI 312
             L++ANKQF  V+NDYEM                 +P  +F+F  I +L    +   LVDI
Sbjct:   249 LKIANKQFSAVKNDYEMTFNNETSVLPCEDGH-HLPTVQFDFTGIGDL-ESKSKDSLVDI 306

Query:   313 IGVVQNVSPTMSIRRKSNNEMVPKRDITVADETKRTVTVSLWNELATNVGQELLDNADKS 372
             IG+ ++      I  KSNN  V KR+I + D + + VT +LW E A     +  D + + 
Sbjct:   307 IGICKSYEDATKITVKSNNREVAKRNICLMDMSGKVVTATLWGEDA-----DKFDGS-RQ 360

Query:   373 PIVAIKSLKVGDFQGISLSTLGRSTVLVSPDLPEAKKLKSWYESEGKG 420
             P++AIK  +V DF G SLS L  STVLV+PD+PEA KL+ W+   G G
Sbjct:   361 PVMAIKGARVSDFGGRSLSVLSSSTVLVNPDIPEAYKLRGWHYVFGDG 408

GO:0000724 "double-strand break repair via homologous recombination" evidence=IEA;ISO

GO:0000793 "condensed chromosome" evidence=ISO

GO:0000794 "condensed nuclear chromosome" evidence=ISO

GO:0000800 "lateral element" evidence=IEA;ISO

GO:0001673 "male germ cell nucleus" evidence=IEA;ISO

GO:0001701 "in utero embryonic development" evidence=IEA;ISO

GO:0003682 "chromatin binding" evidence=IEA;ISO

GO:0003697 "single-stranded DNA binding" evidence=IDA

GO:0005634 "nucleus" evidence=ISO

GO:0005662 "DNA replication factor A complex" evidence=ISO;IDA

GO:0005737 "cytoplasm" evidence=IEA;ISO

GO:0006260 "DNA replication" evidence=IC

GO:0007126 "meiosis" evidence=IEA;ISO

GO:0008284 "positive regulation of cell proliferation" evidence=IEA;ISO

GO:0015629 "actin cytoskeleton" evidence=IEA;ISO

GO:0016605 "PML body" evidence=IEA;ISO

GO:0030097 "hemopoiesis" evidence=IEA;ISO

GO:0048873 "homeostasis of number of cells within a tissue" evidence=IEA;ISO

GO:0051276 "chromosome organization" evidence=IEA;ISO

GO:0005730 "nucleolus" evidence=ISO

UNIPROTKB|P27694 RPA1 "Replication protein A 70 kDa DNA-binding subunit" [Homo sapiens (taxid:9606)]

 Score = 737 (264.5 bits), Expect = 5.9e-73, P = 5.9e-73
 Identities = 194/607 (31%), Positives = 311/607 (51%)

Query:    29 VVQVLDLK--LTGN---RYMFNASDGKKRLKA-ILPSNLSSEVISGNIQNKGLIRLLDYA 82
             ++QV++++   TGN   RY    SDG   L + +L + L+  V    + +  + ++  + 
Sbjct:    24 ILQVINIRPITTGNSPPRYRLLMSDGLNTLSSFMLATQLNPLVEEEQLSSNCVCQIHRFI 83

Query:    83 LNEIPTKSEKYLIVTKCEVVSPALEMEIKIEVKSDESGIIFKPKQEDEVKKDGPGIVLKP 142
             +N +     + +I+ + EV+  A  + +KI      +  + +P+         P    +P
Sbjct:    84 VNTLKD-GRRVVILMELEVLKSAEAVGVKIGNPVPYNEGLGQPQVAPPAPAASPAASSRP 142

Query:   143 KQEMVAKSAAQILRDQNG-----NMAPAARLAMTR-----RVHPLVSLNPYQGNWTIKVR 192
             + +  +      +    G       A    L+ T      +V P+ SL PYQ  WTI  R
Sbjct:   143 QPQNGSSGMGSTVSKAYGASKTFGKAAGPSLSHTSGGTQSKVVPIASLTPYQSKWTICAR 202

Query:   193 VTSKGNMRTYKNARGEGCVFNVELTDEDGTQIQATMFNEAARKFYDRFQLGKVYYISRGT 252
             VT+K  +RT+ N+RGEG +F++EL DE G +I+AT FNE   KF+   ++ KVYY S+GT
Sbjct:   203 VTNKSQIRTWSNSRGEGKLFSLELVDESG-EIRATAFNEQVDKFFPLIEVNKVYYFSKGT 261

Query:   253 LRVANKQFKTVQNDYEMXXXXXXXXXXXXXXTAFIPQTKFNFVPIDELGRYVNGTELVDI 312
             L++ANKQF  V+NDYEM                 +P  +F+F  ID+L      + LVDI
Sbjct:   262 LKIANKQFTAVKNDYEMTFNNETSVMPCEDDH-HLPTVQFDFTGIDDLENKSKDS-LVDI 319

Query:   313 IGVVQNVSPTMSIRRKSNNEMVPKRDITVADETKRTVTVSLWNELATNVGQELLDNADKS 372
             IG+ ++      I  +SNN  V KR+I + D + + VT +LW E A     +  D + + 
Sbjct:   320 IGICKSYEDATKITVRSNNREVAKRNIYLMDTSGKVVTATLWGEDA-----DKFDGS-RQ 373

Query:   373 PIVAIKSLKVGDFQGISLSTLGRSTVLVSPDLPEAKKLKSWYESEGKGTSMASIGSGLGS 432
             P++AIK  +V DF G SLS L  ST++ +PD+PEA KL+ W+++EG+     SI S L S
Sbjct:   374 PVLAIKGARVSDFGGRSLSVLSSSTIIANPDIPEAYKLRGWFDAEGQALDGVSI-SDLKS 432

Query:   433 LAKNGARSMYSDRVSLTHITSNPSLGD-EKPVFFSIKAYISLIKPDQAMWYRACKT--CN 489
                 G+ + +    +L  + S  +LG  +KP +FS  A +  ++ +  M Y+AC T  CN
Sbjct:   433 GGVGGSNTNWK---TLYEVKSE-NLGQGDKPDYFSSVATVVYLRKENCM-YQACPTQDCN 487

Query:   490 KKVTDALGSGYWCEGCQKNDEECSLRYIMVARVCDGSGEAWISIFNEEAERIIGCSADEL 549
             KKV D     Y CE C         R I+   + D     W++ F E AE I+G +A  L
Sbjct:   488 KKVIDQQNGLYRCEKCDTEFPNFKYRMILSVNIADFQENQWVTCFQESAEAILGQNAAYL 547

Query:   550 NELKSQLGDDNSYQMKLKEVTWVPHLLRVSVAQQEYNNEKRQRVTVRAVAPVDFAAESKF 609
              ELK +  ++ +++   +   +   + RV V  + YN+E R + TV  V PVD+    + 
Sbjct:   548 GELKDK--NEQAFEEVFQNANFRSFIFRVRVKVETYNDESRIKATVMDVKPVDYREYGRR 605

Query:   610 LLEEISK 616
             L+  I +
Sbjct:   606 LVMSIRR 612

GO:0046872 "metal ion binding" evidence=IEA

GO:0000800 "lateral element" evidence=IEA

GO:0001673 "male germ cell nucleus" evidence=IEA

GO:0001701 "in utero embryonic development" evidence=IEA

GO:0003682 "chromatin binding" evidence=IEA

GO:0003697 "single-stranded DNA binding" evidence=IEA

GO:0007126 "meiosis" evidence=IEA

GO:0008284 "positive regulation of cell proliferation" evidence=IEA

GO:0030097 "hemopoiesis" evidence=IEA

GO:0048873 "homeostasis of number of cells within a tissue" evidence=IEA

GO:0005515 "protein binding" evidence=IPI

GO:0006261 "DNA-dependent DNA replication" evidence=TAS

GO:0006310 "DNA recombination" evidence=TAS

GO:0005662 "DNA replication factor A complex" evidence=IPI

GO:0016605 "PML body" evidence=IDA

GO:0000075 "cell cycle checkpoint" evidence=TAS

GO:0000082 "G1/S transition of mitotic cell cycle" evidence=TAS

GO:0000084 "S phase of mitotic cell cycle" evidence=TAS

GO:0000216 "M/G1 transition of mitotic cell cycle" evidence=TAS

GO:0000278 "mitotic cell cycle" evidence=TAS

GO:0000718 "nucleotide-excision repair, DNA damage removal" evidence=TAS

GO:0000722 "telomere maintenance via recombination" evidence=TAS

GO:0000723 "telomere maintenance" evidence=TAS

GO:0000724 "double-strand break repair via homologous recombination" evidence=TAS

GO:0000730 "DNA recombinase assembly" evidence=TAS

GO:0005654 "nucleoplasm" evidence=TAS

GO:0006260 "DNA replication" evidence=TAS

GO:0006271 "DNA strand elongation involved in DNA replication" evidence=TAS

GO:0006281 "DNA repair" evidence=TAS

GO:0006283 "transcription-coupled nucleotide-excision repair" evidence=TAS

GO:0006289 "nucleotide-excision repair" evidence=TAS

GO:0006297 "nucleotide-excision repair, DNA gap filling" evidence=TAS

GO:0006302 "double-strand break repair" evidence=TAS

GO:0032201 "telomere maintenance via semi-conservative replication" evidence=TAS

GO:0005634 "nucleus" evidence=IDA

GO:0005730 "nucleolus" evidence=IDA

GO:0005737 "cytoplasm" evidence=IDA

GO:0015629 "actin cytoskeleton" evidence=IDA

UNIPROTKB|Q65XV7 P0016H04.11 "Os05g0111000 protein" [Oryza sativa Japonica Group (taxid:39947)]

 Score = 698 (250.8 bits), Expect = 8.6e-73, Sum P(2) = 8.6e-73
 Identities = 160/466 (34%), Positives = 260/466 (55%)

Query:   161 NMAPAARLAMTRRVHPLVSLNPYQGNWTIKVRVTSKGNMRTYKNARGEGCVFNVELTDED 220
             N  PA+R     R+ P+ +LNPYQ  WTIK RVT+K ++R + NAR  G VF+ +L D  
Sbjct:   294 NRGPASRNDSATRIIPITALNPYQPKWTIKARVTAKSDIRHWSNARSSGTVFSFDLLDAQ 353

Query:   221 GTQIQATMFNEAARKFYDRFQLGKVYYISRGTLRVANKQFKTVQNDYEMXXXXXXXXXXX 280
             G +I+A  + E+A KF+ + ++G+VY ISRG+L+ A K++ T+ +DYE+           
Sbjct:   354 GGEIRAQCWKESADKFFGQIEVGRVYLISRGSLKPAQKKYNTLNHDYEITLDIGLSTVEV 413

Query:   281 -XXXTAFIPQTKFNFVPIDELGRYVNGTELVDIIGVVQNVSPTMSIRRKSNNEMVPKRDI 339
                    IP+ ++NF  I EL    N T +VD++GVV +VSP+ +I RK   E   KR I
Sbjct:   414 CSDDDNSIPRLQYNFRQISELENMANET-IVDLLGVVTSVSPSATIMRKIGTE-TRKRSI 471

Query:   340 TVADETKRTVTVSLWNELATNVGQELLDNADK--SPIVAIKSLKVGDFQGISLSTLGRST 397
              + D + R++ V+LW       GQ+L    D   +PI+A K  +VGDF G S+ST+G + 
Sbjct:   472 QLKDLSGRSIEVTLWGNFCDAEGQQLQLQCDSGSNPIIAFKGARVGDFNGKSVSTIGSTQ 531

Query:   398 VLVSPDLPEAKKLKSWYESEGKGTSMASIGSGLGSLAKNGARSMYSDRVSLTHITSNPSL 457
             ++++PD PE ++L+ WY +EGK     S+   + ++ +  AR       ++  I  + +L
Sbjct:   532 LIINPDFPEVERLRQWYMTEGKTAPCISLSREMLNMGRTDARK------TIAQI-KDENL 584

Query:   458 GD-EKPVFFSIKAYISLIKPDQAMWYRAC-------KTCNKKVTDALGSGYW-CEGCQKN 508
             G  EKP + ++KA IS +  + +  Y AC       + CNKK  +  G G W C+ C ++
Sbjct:   585 GRLEKPDWITVKAAISHVTTE-SFCYPACPKLLPVGRQCNKKAINN-GDGMWHCDRCDES 642

Query:   509 DEECSLRYIMVARVCDGSGEAWISIFNEEAERIIGCSADELNELKSQLGDDNSYQMKLKE 568
              +    RY++  ++ D +G  + S F+E  E+I G  A EL  +++   DD  +   ++ 
Sbjct:   643 FQNPEYRYMLRFQIQDHTGSTYASAFDEAGEQIFGRKAGELFSIRNVDQDDAQFAEIIEG 702

Query:   569 VTWVPHLLRVSVAQQEYNNEKRQRVTVRAVAPVDFAAESKFLLEEI 614
             V W  +L ++ V ++ YN+E+  + T   V  +D + ES  LL  I
Sbjct:   703 VRWHLYLFKLKVKEETYNDEQSLKCTAVKVEKLDPSKESNVLLGAI 748

GO:0005515 "protein binding" evidence=IPI

---

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)
Q92372	RFA1_SCHPO	No assigned EC number	0.3300	0.9293	0.9507	yes	no
P22336	RFA1_YEAST	No assigned EC number	0.3050	0.8844	0.8872	yes	no
Q24492	RFA1_DROME	No assigned EC number	0.3028	0.8908	0.9203	yes	no
Q6NY74	RFA1_DANRE	No assigned EC number	0.3133	0.8603	0.8918	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	Length	Definition	E-value
Query	623
TIGR00617	608	TIGR00617, rpa1, replication factor-a protein 1 (r	0.0
cd04476	166	cd04476, RPA1_DBD_C, RPA1_DBD_C: A subfamily of OB	2e-52
pfam08646	146	pfam08646, Rep_fac-A_C, Replication factor-A C ter	3e-52
cd04474	104	cd04474, RPA1_DBD_A, RPA1_DBD_A: A subfamily of OB	5e-48
cd04475	101	cd04475, RPA1_DBD_B, RPA1_DBD_B: A subfamily of OB	6e-37
pfam04057	99	pfam04057, Rep-A_N, Replication factor-A protein 1	2e-24
cd04477	97	cd04477, RPA1N, RPA1N: A subfamily of OB folds cor	1e-17
cd04480	86	cd04480, RPA1_DBD_A_like, RPA1_DBD_A_like: A subgr	2e-11
COG1599	407	COG1599, RFA1, Single-stranded DNA-binding replica	1e-09
cd04481	106	cd04481, RPA1_DBD_B_like, RPA1_DBD_B_like: A subgr	2e-09
pfam01336	75	pfam01336, tRNA_anti, OB-fold nucleic acid binding	2e-07
PRK12366	637	PRK12366, PRK12366, replication factor A; Reviewed	5e-07
PRK07211	485	PRK07211, PRK07211, replication factor A; Reviewed	2e-05
cd04491	82	cd04491, SoSSB_OBF, SoSSB_OBF: A subfamily of OB f	3e-05
pfam02721	95	pfam02721, DUF223, Domain of unknown function DUF2	7e-05
PRK12366	637	PRK12366, PRK12366, replication factor A; Reviewed	0.004

>gnl|CDD|233055 TIGR00617, rpa1, replication factor-a protein 1 (rpa1)

 Score =  639 bits (1650), Expect = 0.0
 Identities = 270/628 (42%), Positives = 380/628 (60%), Gaps = 35/628 (5%)

Query: 3   KTVSPDAISTILSNPSPDSSSDIPEIVVQVLDLK-----LTGNRYMFNASDGKKRLKAIL 57
            ++S  AI+ I++N   +++   P+ V+QVLDLK         RY    SDG    KA+L
Sbjct: 2   VSLSNGAIALIMTNG--EANGYPPDPVLQVLDLKPINGAQDPRRYRIVISDGIYYSKAML 59

Query: 58  PSNLSSEVISGNIQNKGLIRLLDYALNEIPTKSEKYLIVTKCEVVSPALEMEIKIEVKSD 117
            + L+  V  G +Q   +IRL  + +N I     K LIV + EVV P L++  KI     
Sbjct: 60  ATQLNPLVREGELQEGTIIRLTKFEVNTIGKDGRKVLIVYELEVVKPELKVRDKIGNPVT 119

Query: 118 ESGIIFKPKQEDEVKKDGPGI-------VLKPKQEMVAKSAAQILRDQNGNMAPAARLAM 170
               +     E++V    P            PK E    S       + GN  PA     
Sbjct: 120 YEKYLDSW-HEEQVLASKPATNPANPPNAKAPKNE--VASYNNAANPERGNAPPAPNSGS 176

Query: 171 TRRVHPLVSLNPYQGNWTIKVRVTSKGNMRTYKNARGEGCVFNVELTDEDGTQIQATMFN 230
           TRRV P+ SL+PYQ  WTIK RVT+K  +RT+ NARGEG +FNVEL DE   +I+AT FN
Sbjct: 177 TRRVMPIASLSPYQNKWTIKARVTNKSEIRTWSNARGEGKLFNVELLDE-SGEIRATAFN 235

Query: 231 EAARKFYDRFQLGKVYYISRGTLRVANKQFKTVQNDYEMNLNENSEVEEAVNETAFIPQT 290
           E A KFYD  Q GKVYYIS+G+L+ ANKQF  + NDYEM L+ ++ +EE  +ETA IP+ 
Sbjct: 236 EQADKFYDIIQEGKVYYISKGSLKPANKQFTNLGNDYEMTLDRDTVIEECEDETA-IPKI 294

Query: 291 KFNFVPIDELGRYVNGTELVDIIGVVQNVSPTMSIRRKSNNEMVPKRDITVADETKRTVT 350
           +FNFV ID++G Y   + LVD+IG+VQ+VSPT +I  + NN+  PKRDIT+ D++ ++V 
Sbjct: 295 QFNFVKIDDIGGYEGNS-LVDVIGIVQSVSPTQTITSRKNNKEFPKRDITLVDDSGKSVR 353

Query: 351 VSLWNELATNVGQELLDNADKSPIVAIKSLKVGDFQGISLSTLGRSTVLVSPDLPEAKKL 410
           V+LW + AT        +    P++AIK ++V DF G SLST G ST++V+PD+PEA+KL
Sbjct: 354 VTLWGDDATKF------DVSVQPVIAIKGVRVSDFGGKSLSTGGSSTIIVNPDIPEAEKL 407

Query: 411 KSWYESEGKGTSMASIGSGLGSLAKNGARSMYSDRVSLTHITSNPSLGDEKPVFFSIKAY 470
           K WY++EGKGT MAS  S + S    G+    ++R ++  I +      +KP +FS+KA 
Sbjct: 408 KGWYDNEGKGT-MASSISDMMSGRVGGS---NAERKTIAEIQAENLGKSDKPDYFSVKAT 463

Query: 471 ISLIKPDQAMWYRACKT--CNKKVTDALGSGYWCEGCQKNDEECSLRYIMVARVCDGSGE 528
           IS +KPD    YRAC +  CNKKV D     Y CE C KN  E   RYI+   + D +G+
Sbjct: 464 ISYLKPDN-ALYRACPSEDCNKKVVDQGDGTYRCEKCNKNFAEFKYRYILQISISDETGQ 522

Query: 529 AWISIFNEEAERIIGCSADELNELKSQLGDDNSYQMKLKEVTWVPHLLRVSVAQQEYNNE 588
            W++ FN++AE+I+G SA EL ELK +  D + ++   +E  +VP++ R+ V Q  YN+E
Sbjct: 523 LWVTAFNDQAEQILGKSAAELGELKEE--DPDEFEAIFQEAQFVPYIFRLRVKQDTYNDE 580

Query: 589 KRQRVTVRAVAPVDFAAESKFLLEEISK 616
            RQ+ TV +V PV++ AE+K+LL+EI K
Sbjct: 581 SRQKYTVMSVDPVNYRAEAKYLLQEIEK 608

All proteins in this family for which functions are known are part of a multiprotein complex made up of homologs of RPA1, RPA2 and RPA3 that bind ssDNA and function in the recognition of DNA damage for nucleotide excision repairThis family is based on the phylogenomic analysis of JA Eisen (1999, Ph.D. Thesis, Stanford University) [DNA metabolism, DNA replication, recombination, and repair]. Length = 608

>gnl|CDD|239922 cd04476, RPA1_DBD_C, RPA1_DBD_C: A subfamily of OB folds corresponding to the C-terminal OB fold, the ssDNA-binding domain (DBD)-C, of human RPA1 (also called RPA70)

 Score =  177 bits (451), Expect = 2e-52
 Identities = 73/169 (43%), Positives = 100/169 (59%), Gaps = 4/169 (2%)

Query: 448 LTHITSNPSLGDEKPVFFSIKAYISLIKPDQAMWYRACKTCNKKVTDALGSGYWCEGCQK 507
                 N   G EKP +F++KA I  IKPD   WY AC  CNKKV +     Y CE C K
Sbjct: 2   AEIKEENLGEG-EKPDYFTVKATIVFIKPDN-WWYPACPGCNKKVVEEGNGTYRCEKCNK 59

Query: 508 NDEECSLRYIMVARVCDGSGEAWISIFNEEAERIIGCSADELNELKSQLGDDNSYQMKLK 567
           +      RYI+   V D +GEAW+++F+E AE+I G SA+EL ELK +  D +++   ++
Sbjct: 60  SVPNPEYRYILSLNVADHTGEAWLTLFDEVAEQIFGKSAEELLELKEE--DPDAFPDAIQ 117

Query: 568 EVTWVPHLLRVSVAQQEYNNEKRQRVTVRAVAPVDFAAESKFLLEEISK 616
           ++     L RVSV ++ YN+E R R TV  VAPVD+  ESK L++ I K
Sbjct: 118 DLVGKTFLFRVSVKEETYNDEGRIRYTVVKVAPVDYKKESKRLIQSIEK 166

RPA1 is the large subunit of Replication protein A (RPA). RPA is a nuclear ssDNA-binding protein (SSB) which appears to be involved in all aspects of DNA metabolism including replication, recombination, and repair. RPA also mediates specific interactions of various nuclear proteins. In animals, plants, and fungi, RPA is a heterotrimer with subunits of 70KDa (RPA1), 32kDa (RPA2), and 14 KDa (RPA3). In addition to DBD-C, RPA1 contains three other OB folds: DBD-A, DBD-B, and RPA1N. The major DNA binding activity of RPA is associated with RPA1 DBD-A and DBD-B. RPA1 DBD-C is involved in DNA binding and trimerization. It contains two structural insertions not found to date in other OB-folds: a zinc ribbon and a three-helix bundle. RPA1 DBD-C also contains a Cys4-type zinc-binding motif, which plays a role in the ssDNA binding function of this domain. It appears that zinc itself may not be required for ssDNA binding. Length = 166

>gnl|CDD|149635 pfam08646, Rep_fac-A_C, Replication factor-A C terminal domain

 Score =  175 bits (447), Expect = 3e-52
 Identities = 67/150 (44%), Positives = 93/150 (62%), Gaps = 7/150 (4%)

Query: 464 FFSIKAYISLIKPDQAMWYRACK--TCNKKVTDALGSGYW-CEGCQKNDEECSLRYIMVA 520
           +FS+KA I  IK D   WY AC    CNKKVT+  G G W CE C K   E   RYI+  
Sbjct: 1   YFSVKATIVFIKQD-NFWYPACPSEDCNKKVTEQ-GDGTWRCEKCDKEFPEPKYRYILSI 58

Query: 521 RVCDGSGEAWISIFNEEAERIIGCSADELNELKSQLGDDNSYQMKLKEVTWVPHLLRVSV 580
            + D +G+ W+++FNE AE I+G SA+EL ELK +  DDN ++   ++  +  ++ R+ V
Sbjct: 59  NISDHTGQIWVTLFNEAAEEILGMSAEELMELKEE--DDNEFEKIFQKALFREYVFRLRV 116

Query: 581 AQQEYNNEKRQRVTVRAVAPVDFAAESKFL 610
            ++ YN+E R R TV +VAPVD+  ESK L
Sbjct: 117 KEETYNDESRVRYTVVSVAPVDYKKESKRL 146

This domain is found at the C terminal of replication factor A. Replication factor A (RPA) binds single-stranded DNA and is involved in replication, repair, and recombination of DNA. Length = 146

>gnl|CDD|239920 cd04474, RPA1_DBD_A, RPA1_DBD_A: A subfamily of OB folds corresponding to the second OB fold, the ssDNA-binding domain (DBD)-A, of human RPA1 (also called RPA70)

 Score =  163 bits (414), Expect = 5e-48
 Identities = 59/104 (56%), Positives = 83/104 (79%)

Query: 176 PLVSLNPYQGNWTIKVRVTSKGNMRTYKNARGEGCVFNVELTDEDGTQIQATMFNEAARK 235
           P+ SLNPYQ  WTIK RVT+K ++RT+ NARGEG +F+ +L DEDG +I+AT FN+A  K
Sbjct: 1   PISSLNPYQNKWTIKARVTNKSDIRTWSNARGEGKLFSFDLLDEDGGEIRATFFNDAVDK 60

Query: 236 FYDRFQLGKVYYISRGTLRVANKQFKTVQNDYEMNLNENSEVEE 279
           FYD  ++GKVYYIS+G+++VANK+F T++NDYE+  N ++ + E
Sbjct: 61  FYDLLEVGKVYYISKGSVKVANKKFNTLKNDYEITFNRDTSIIE 104

RPA1 is the large subunit of Replication protein A (RPA). RPA is a nuclear ssDNA-binding protein (SSB) which appears to be involved in all aspects of DNA metabolism including replication, recombination, and repair. RPA also mediates specific interactions of various nuclear proteins. In animals, plants, and fungi, RPA is a heterotrimer with subunits of 70KDa (RPA1), 32kDa (RPA2), and 14 KDa (RPA3). In addition to DBD-A, RPA1 contains three other OB folds: DBD-B, DBD-C, and RPA1N. The major DNA binding activity of human RPA (hRPA) and Saccharomyces cerevisiae RPA (ScRPA) is associated with DBD-A and DBD-B of RPA1. RPA1 DBD-C is involved in trimerization. The ssDNA-binding mechanism is believed to be multistep and to involve conformational change. Although ScRPA and the hRPA have similar ssDNA-binding properties, they differ functionally. Antibodies to hRPA do not cross-react with ScRPA, and null mutations in the ScRPA subunits are not complemented by corresponding human genes. Also, ScRPA cannot support Simian virus 40 (SV40) DNA replication in vitro, whereas human RPA can. Length = 104

>gnl|CDD|239921 cd04475, RPA1_DBD_B, RPA1_DBD_B: A subfamily of OB folds corresponding to the third OB fold, the ssDNA-binding domain (DBD)-B, of human RPA1 (also called RPA70)

 Score =  132 bits (335), Expect = 6e-37
 Identities = 45/107 (42%), Positives = 69/107 (64%), Gaps = 6/107 (5%)

Query: 309 LVDIIGVVQNVSPTMSIRRKSNNEMVPKRDITVADETKRTVTVSLWNELATNVGQELLDN 368
           +VD+IGVV++V P  +I  KS    + KR+IT+ DE+  +V ++LW E A          
Sbjct: 1   IVDVIGVVKSVGPVTTITTKSTGRELDKREITLVDESGHSVELTLWGEQAELFDGSE--- 57

Query: 369 ADKSPIVAIKSLKVGDFQGISLSTLGRSTVLVSPDLPEAKKLKSWYE 415
              +P++AIK +KV +F G SLST   ST++++PD+PEA KL+ WY+
Sbjct: 58  ---NPVIAIKGVKVSEFNGKSLSTGSSSTIIINPDIPEAHKLRGWYD 101

RPA1 is the large subunit of Replication protein A (RPA). RPA is a nuclear ssDNA-binding protein (SSB) which appears to be involved in all aspects of DNA metabolism including replication, recombination, and repair. RPA also mediates specific interactions of various nuclear proteins. In animals, plants, and fungi, RPA is a heterotrimer with subunits of 70KDa (RPA1), 32kDa (RPA2), and 14 KDa (RPA3). In addition to DBD-B, RPA1 contains three other OB folds: DBD-A, DBD-C, and RPA1N. The major DNA binding activity of human RPA (hRPA) and Saccharomyces cerevisiae RPA (ScRPA) is associated with RPA1 DBD-A and DBD-B. RPA1 DBD-C is involved in trimerization. The ssDNA binding mechanism is believed to be multistep and to involve conformational change. Although ScRPA and the hRPA have similar ssDNA-binding properties, they differ functionally. Antibodies to hRPA do not cross-react with ScRPA, and null mutations in the ScRPA subunits are not complemented by corresponding human genes. Also, ScRPA cannot support Simian virus 40 (SV40) DNA replication in vitro, whereas human RPA can. Length = 101

>gnl|CDD|202872 pfam04057, Rep-A_N, Replication factor-A protein 1, N-terminal domain

 Score = 97.0 bits (242), Expect = 2e-24
 Identities = 38/105 (36%), Positives = 60/105 (57%), Gaps = 11/105 (10%)

Query: 5   VSPDAISTILSNPSPDSSSDIPEIVVQVLDLKL-----TGNRYMFNASDGKKRLKAILPS 59
           ++P AI+ IL+      +SD P  V+QV+DLK      +  RY F  SDGK +  A+L +
Sbjct: 1   LTPGAIAAILA---TGDTSDKP--VLQVVDLKPINSGNSPERYRFLLSDGKNKSSAMLAT 55

Query: 60  NLSSEVISGNIQNKGLIRLLDYALNEIPTKSEKYLIVTKCEVVSP 104
            L+  VISG +QN  +++L  Y +N+I     + LI+ + EV+  
Sbjct: 56  QLNPLVISGKLQNGSIVQLTRYTVNDIK-DGRRVLIILELEVLKS 99

Length = 99

>gnl|CDD|239923 cd04477, RPA1N, RPA1N: A subfamily of OB folds corresponding to the N-terminal OB-fold domain of human RPA1 (also called RPA70)

 Score = 78.0 bits (193), Expect = 1e-17
 Identities = 31/100 (31%), Positives = 52/100 (52%), Gaps = 11/100 (11%)

Query: 9   AISTILSNPSPDSSSDIPEIVVQVLDLKL------TGNRYMFNASDGKKRLKAILPSNLS 62
           A++ I +       S++ + V+QVL++K       +  RY    SDG   ++A+L + L+
Sbjct: 2   ALAAIFNGEDR---SNVIKPVLQVLNIKKIDSSNGSSERYRILLSDGVYYVQAMLATQLN 58

Query: 63  SEVISGNIQNKGLIRLLDYALNEIPTKSEKYLIVTKCEVV 102
             V SG +Q   +IRL  +  N I  K ++ LI+   EVV
Sbjct: 59  PLVESGQLQRGSIIRLKRFICNVI--KGKRILIILDLEVV 96

RPA1 is the large subunit of Replication protein A (RPA). RPA is a nuclear ssDNA-binding protein (SSB) which appears to be involved in all aspects of DNA metabolism including replication, recombination, and repair. RPA also mediates specific interactions of various nuclear proteins. In animals, plants, and fungi, RPA is a heterotrimer with subunits of 70KDa (RPA1), 32kDa (RPA2), and 14 KDa (RPA3). RPA1N is known to specifically interact with the p53 tumor suppressor, DNA polymerase alpha, and transcription factors. In addition to RPA1N, RPA1 contains three other OB folds: ssDNA-binding domain (DBD)-A, DBD-B, and DBD-C. Length = 97

>gnl|CDD|239926 cd04480, RPA1_DBD_A_like, RPA1_DBD_A_like: A subgroup of uncharacterized plant OB folds with similarity to the second OB fold, the ssDNA-binding domain (DBD)-A, of human RPA1 (also called RPA70)

 Score = 60.0 bits (146), Expect = 2e-11
 Identities = 22/90 (24%), Positives = 36/90 (40%), Gaps = 4/90 (4%)

Query: 188 TIKVRVTSKGNMRTYKNARGEGCVFNVELTDEDGTQIQATMFNEAARKFYDRFQLGKVYY 247
            I VRV    ++    +      V    L DE G +I AT+    A KF    + GK Y 
Sbjct: 1   KICVRVLRLWDVYNNASGESLEMV----LVDEKGNRIHATIPKRLAAKFRPLLKEGKWYT 56

Query: 248 ISRGTLRVANKQFKTVQNDYEMNLNENSEV 277
           IS   +      ++   + Y++    ++ V
Sbjct: 57  ISNFEVAPNTGSYRPTDHPYKIKFMSDTVV 86

RPA1 is the large subunit of Replication protein A (RPA). RPA is a nuclear ssDNA-binding protein (SSB) which appears to be involved in all aspects of DNA metabolism including replication, recombination, and repair. RPA also mediates specific interactions of various nuclear proteins. In animals, plants, and fungi, RPA is a heterotrimer with subunits of 70KDa (RPA1), 32kDa (RPA2), and 14 KDa (RPA3). In addition to DBD-A, RPA1 contains three other OB folds: DBD-B, DBD-C, and RPA1N. The major DNA binding activity of RPA is associated with DBD-A and DBD-B of RPA1. RPA1 DBD-C is involved in trimerization. The ssDNA-binding mechanism is believed to be multistep and to involve conformational change. Length = 86

>gnl|CDD|224515 COG1599, RFA1, Single-stranded DNA-binding replication protein A (RPA), large (70 kD) subunit and related ssDNA-binding proteins [DNA replication, recombination, and repair]

 Score = 60.2 bits (146), Expect = 1e-09
 Identities = 58/234 (24%), Positives = 88/234 (37%), Gaps = 43/234 (18%)

Query: 190 KVRVTSKGNMRTYKNARGEGCVFNVELTDEDGTQIQATMFNEAARKFYDRFQLGKVYYIS 249
           K RV     ++T+ N  GE  VF+ EL DE+   I  T ++ +        Q G VY I 
Sbjct: 173 KARVVVGSEIKTFDNQGGESKVFSNELEDEERGVIVFTDWDPS--------QDGDVYRIE 224

Query: 250 RGTLRVANKQFKTVQNDYEMNLNENSEVEEAVNET---AFIPQTKFNFVPIDELGRYVNG 306
              ++  NKQ        E  L    EV  A+ +     F+ + K        L      
Sbjct: 225 GARVKTKNKQ-PEENLAEE--LVLRVEVRVAIEKAEREEFVDEVKE----SVSLVEADGA 277

Query: 307 TELVDIIGVVQNVSPTMSIRRKSNNEMVPKRDITVADETKRTVTVSLWNELATNVGQELL 366
              V  +   + V        +        +DI + D T +   V+LW +       E+L
Sbjct: 278 VVDVTRVPECERVV-------RKGGCKGHGKDIGLDDLTGKIR-VTLWGD-----ATEVL 324

Query: 367 DNADKSPIVAIKSLKVGDFQGISLSTLGRSTVLVSPDLPEAKKLKSWYESEGKG 420
            N  +  + A+K + V D  GI+LS              EA  L+ WY+  GK 
Sbjct: 325 IN--EESVEALKGINVEDASGIALSA----------LDTEAVALEIWYDILGKY 366

Length = 407

>gnl|CDD|239927 cd04481, RPA1_DBD_B_like, RPA1_DBD_B_like: A subgroup of uncharacterized, plant OB folds with similarity to the third OB fold, the ssDNA-binding domain (DBD)-B, of human RPA1 (also called RPA70)

 Score = 55.0 bits (133), Expect = 2e-09
 Identities = 29/99 (29%), Positives = 51/99 (51%), Gaps = 5/99 (5%)

Query: 311 DIIGVVQNVSPTMSIRRKSNNEMVPKRDITVADETKRTVTVSLWNELATNVGQELLDNAD 370
           D+IGV+ +V P   +     N+   K D  + D +   +  +LW E A     +     +
Sbjct: 1   DVIGVIVDVGPLEELPP--VNKPSRKLDFEIRDLSDERLKCTLWGEYAEEFDAKFQSAGN 58

Query: 371 KSPIVAI-KSLKVGDFQG-ISLS-TLGRSTVLVSPDLPE 406
             P+VA+ +  K+ +++G  SLS + G S V ++PD+PE
Sbjct: 59  GEPVVAVLRFWKIKEYKGPKSLSNSFGASKVYINPDIPE 97

RPA1 is the large subunit of Replication protein A (RPA). RPA is a nuclear ssDNA-binding protein (SSB) which appears to be involved in all aspects of DNA metabolism including replication, recombination, and repair. RPA also mediates specific interactions of various nuclear proteins. In animals, plants, and fungi, RPA is a heterotrimer with subunits of 70KDa (RPA1), 32kDa (RPA2), and 14 KDa (RPA3). In addition to DBD-B, RPA1 contains three other OB folds: DBD-A, DBD-C, and RPA1N. The major DNA binding activity of RPA is associated with RPA1 DBD-A and DBD-B. RPA1 DBD-C is involved in trimerization. The ssDNA binding mechanism is believed to be multistep and to involve conformational change. Length = 106

>gnl|CDD|216440 pfam01336, tRNA_anti, OB-fold nucleic acid binding domain

 Score = 48.0 bits (115), Expect = 2e-07
 Identities = 20/80 (25%), Positives = 30/80 (37%), Gaps = 10/80 (12%)

Query: 187 WTIKVRVTSKGNMRTYKNARGEGCVFNVELTDEDGTQIQATMFNEAARKFYDRFQLGKVY 246
            T+  RVTS          R  G V  + L D  G  IQ  +F E A K   + + G V 
Sbjct: 1   VTVAGRVTSVR--------RSGGKVAFLTLRDGTG-SIQVVLFKEEAEKLAKKLKEGDVV 51

Query: 247 YISRGTLRVANKQFKTVQND 266
            +  G ++        +  +
Sbjct: 52  LV-TGKVKKRPGGELELVVE 70

This family contains OB-fold domains that bind to nucleic acids. The family includes the anti-codon binding domain of lysyl, aspartyl, and asparaginyl -tRNA synthetases (See pfam00152). Aminoacyl-tRNA synthetases catalyze the addition of an amino acid to the appropriate tRNA molecule EC:6.1.1.-. This family also includes part of RecG helicase involved in DNA repair. Replication factor A is a heterotrimeric complex, that contains a subunit in this family. This domain is also found at the C-terminus of bacterial DNA polymerase III alpha chain. Length = 75

>gnl|CDD|237078 PRK12366, PRK12366, replication factor A; Reviewed

 Score = 52.4 bits (126), Expect = 5e-07
 Identities = 49/197 (24%), Positives = 89/197 (45%), Gaps = 28/197 (14%)

Query: 188 TIKVRVTSKGNMRTYKNARG-EGCVFNVELTDEDGTQIQATMFNEAARKFYDRFQLGKVY 246
           TI+  VT    ++ +    G EG + +  L D+ G+ I+ T++N+      ++  + +V 
Sbjct: 188 TIEGEVTKAYPIKEFTRKDGSEGKLKSFILKDDTGS-IRVTLWNDLTDIEVNKGDIVRVK 246

Query: 247 -YISRGTLRVANKQFKTVQNDYEMNLNENSEVEEAVNETAFIPQTKFNFVPIDELGRYVN 305
            Y+ +G            +   E++ N    +E+   E     + +   V I+EL  + +
Sbjct: 247 GYVKQG-----------YRTGLEISANNIEILEKLEKE-----EKELEIVNIEELTEFED 290

Query: 306 GTELVDIIGVVQNVSPTMSIRRKSNNEMVPKRDITVADETKRTVTVSLWNELATNVGQEL 365
           G E VD+ G +  +S    + R      V  +DI +AD T R V VS W E       ++
Sbjct: 291 G-EEVDVKGRIIAISDKREVERDDRTAEV--QDIELADGTGR-VRVSFWGE-----KAKI 341

Query: 366 LDNADKSPIVAIKSLKV 382
           L+N  +   V I++ KV
Sbjct: 342 LENLKEGDAVKIENCKV 358

Length = 637

>gnl|CDD|180887 PRK07211, PRK07211, replication factor A; Reviewed

 Score = 47.4 bits (113), Expect = 2e-05
 Identities = 65/259 (25%), Positives = 115/259 (44%), Gaps = 35/259 (13%)

Query: 184 QGNWTIKVRVTSKGNMRTYKNARG-EGCVFNVELTDEDGTQIQATMFNEAARKFYDRFQL 242
             + T+   V    ++RT+    G EG V N+ + DE G +++ T++++ A    +    
Sbjct: 171 LSDVTLVGVVLDTDSVRTFDRDDGSEGRVSNLTVGDETG-RVRVTLWDDRADL-AEELDA 228

Query: 243 GKVYYISRGTLRVANKQFKTVQNDYEMNLNENSEVEEAVNETAFIPQTKFNFVPIDELGR 302
           G+   I  G +R  +          E+++ +   VEE   +  ++P T     PI+ L  
Sbjct: 229 GESVEIVDGYVRERD-------GSLELHVGDRGAVEEVDEDVEYVPDT----TPIESLEI 277

Query: 303 YVNGTELVDIIGVVQNVSPTMSIRRKSNNE-MVPKRDITVADETKRTVTVSLWNELATNV 361
                E VDI GVV++  P  +  R   +E  V  R++ + D+T   + V+LW E A   
Sbjct: 278 ----DETVDIAGVVRSADPKRTFDRDDGSEGQV--RNVRIQDDTG-DIRVALWGEKA--- 327

Query: 362 GQELLDNADKSPIVAIKSLKVGD-FQ-GISLSTLGRSTVLVSPDLPEAKKLKSWYESEGK 419
               +   D+   V    +++ D +Q  +  S   +STV+V  D  +A    S   + G 
Sbjct: 328 -DLDIGPGDE---VVAADVEIQDGWQDDLEASAGWQSTVVVLDDGADAATGTSGDAAAGG 383

Query: 420 GTSMASIGSGLGSLAKNGA 438
           G   A    GL + A +G+
Sbjct: 384 GGESA----GLSAFAGDGS 398

Length = 485

>gnl|CDD|239937 cd04491, SoSSB_OBF, SoSSB_OBF: A subfamily of OB folds similar to the OB fold of the crenarchaeote Sulfolobus solfataricus single-stranded (ss) DNA-binding protein (SSoSSB)

 Score = 42.2 bits (100), Expect = 3e-05
 Identities = 25/92 (27%), Positives = 44/92 (47%), Gaps = 11/92 (11%)

Query: 188 TIKVRVTSKGNMRTYKNARGEGCVFNVELTDEDGTQIQATMFNEAARKFYDRFQLGKVYY 247
           +++ +V S    R +     EG V +  + DE GT I+ T+++E A    D  + G V  
Sbjct: 1   SVEGKVLSISEPREFTRDGSEGKVQSGLVGDETGT-IRFTLWDEKA---ADDLEPGDVVR 56

Query: 248 ISRGTLRVANKQFKTVQNDYEMNLNENSEVEE 279
           I    +R  N          E+++ +NSE+E+
Sbjct: 57  IENAYVREFN-------GRLELSVGKNSEIEK 81

SSoSSB has a single OB fold, and it physically and functionally interacts with RNA polymerase. In vitro, SSoSSB can substitute for the basal transcription factor TBP, stimulating transcription from promoters under conditions in which TBP is limiting, and supporting transcription when TBP is absent. SSoSSB selectively melts the duplex DNA of promoter sequences. It also relieves transcriptional repression by the chromatin Alba. In addition, SSoSSB activates reverse gyrase activity, which involves DNA binding, DNA cleavage, strand passage and ligation. SSoSSB stimulates all these steps in the presence of the chromatin protein, Sul7d. SSoSSB antagonizes the inhibitory effect of Sul7d on reverse gyrase supercoiling activity. It also physically and functionally interacts with Mini-chromosome Maintenance (MCM), stimulating the DNA helicase activity of MCM. Length = 82

>gnl|CDD|145722 pfam02721, DUF223, Domain of unknown function DUF223

 Score = 41.5 bits (98), Expect = 7e-05
 Identities = 19/85 (22%), Positives = 37/85 (43%), Gaps = 7/85 (8%)

Query: 216 LTDEDGTQIQATMFNEAARKFYDRFQLGKVYYISRGTLRVANKQFKTVQNDYEMNLNENS 275
           L DE+G +I+AT+    A  + DR   G+   I+   +R  +  ++   ++Y +   + +
Sbjct: 4   LADENGDKIEATIRRRLAAFYADRISEGEWKTITTFVVRPNSGSYRITSHEYGILFMDQT 63

Query: 276 EVEEA--VNETAFIPQTKFNFVPID 298
            V ++       F      N  P D
Sbjct: 64  VVTKSDTRETVLF-----NNLTPFD 83

Length = 95

>gnl|CDD|237078 PRK12366, PRK12366, replication factor A; Reviewed

 Score = 40.0 bits (94), Expect = 0.004
 Identities = 20/77 (25%), Positives = 35/77 (45%), Gaps = 7/77 (9%)

Query: 478 QAMWYRACKTCNKKVTDALGSGYWCEGCQKNDEECSLRYIMVA--RVCDGSGEAWISIFN 535
           Q +    C  C K+V + +   Y CE C     E     +++    + DG+G      + 
Sbjct: 528 QKIILYLCPNCRKRV-EEVDGEYICEFCG----EVEPNELLMLNFTLDDGTGTINCRFYG 582

Query: 536 EEAERIIGCSADELNEL 552
           +  E+++G S +EL EL
Sbjct: 583 KNVEKLLGMSKEELKEL 599

Length = 637

Conserved Domains Detected by HHsearch

Original result of HHsearch against CDD database

ID	Length	Definition	Probability
Query	623
TIGR00617	608	rpa1 replication factor-a protein 1 (rpa1). This f	100.0
PRK12366	637	replication factor A; Reviewed	100.0
PRK08402	355	replication factor A; Reviewed	100.0
PRK07218	423	replication factor A; Provisional	100.0
cd04476	166	RPA1_DBD_C RPA1_DBD_C: A subfamily of OB folds cor	100.0
PF08646	146	Rep_fac-A_C: Replication factor-A C terminal domai	100.0
PRK06386	358	replication factor A; Reviewed	100.0
PRK12366	637	replication factor A; Reviewed	100.0
PRK07211	485	replication factor A; Reviewed	100.0
PRK07211	485	replication factor A; Reviewed	100.0
PRK15491	374	replication factor A; Provisional	99.97
PRK15491	374	replication factor A; Provisional	99.97
PRK14699	484	replication factor A; Provisional	99.97
PRK14699	484	replication factor A; Provisional	99.96
cd04474	104	RPA1_DBD_A RPA1_DBD_A: A subfamily of OB folds cor	99.95
PF04057	101	Rep-A_N: Replication factor-A protein 1, N-termina	99.92
cd04477	97	RPA1N RPA1N: A subfamily of OB folds corresponding	99.91
cd04475	101	RPA1_DBD_B RPA1_DBD_B: A subfamily of OB folds cor	99.87
cd04481	106	RPA1_DBD_B_like RPA1_DBD_B_like: A subgroup of unc	99.83
cd04480	86	RPA1_DBD_A_like RPA1_DBD_A_like: A subgroup of unc	99.77
PF02721	95	DUF223: Domain of unknown function DUF223; InterPr	99.66
PRK08402	355	replication factor A; Reviewed	99.64
PRK07217	311	replication factor A; Reviewed	99.63
PRK06386	358	replication factor A; Reviewed	99.42
PRK07218	423	replication factor A; Provisional	99.34
KOG0851	246	consensus Single-stranded DNA-binding replication	99.23
cd04497	138	hPOT1_OB1_like hPOT1_OB1_like: A subfamily of OB f	99.14
COG1599	407	RFA1 Single-stranded DNA-binding replication prote	99.11
cd04491	82	SoSSB_OBF SoSSB_OBF: A subfamily of OB folds simil	98.94
PRK06461	129	single-stranded DNA-binding protein; Reviewed	98.9
PRK06461	129	single-stranded DNA-binding protein; Reviewed	98.9
cd04491	82	SoSSB_OBF SoSSB_OBF: A subfamily of OB folds simil	98.82
PRK07217	311	replication factor A; Reviewed	98.48
TIGR00617	608	rpa1 replication factor-a protein 1 (rpa1). This f	98.36
COG1599	407	RFA1 Single-stranded DNA-binding replication prote	98.17
PF01336	75	tRNA_anti-codon: OB-fold nucleic acid binding doma	98.01
PF02765	146	POT1: Telomeric single stranded DNA binding POT1/C	97.98
cd04474	104	RPA1_DBD_A RPA1_DBD_A: A subfamily of OB folds cor	97.97
cd04475	101	RPA1_DBD_B RPA1_DBD_B: A subfamily of OB folds cor	97.64
KOG3416	134	consensus Predicted nucleic acid binding protein [	96.94
cd03524	75	RPA2_OBF_family RPA2_OBF_family: A family of oligo	96.91
KOG3416	134	consensus Predicted nucleic acid binding protein [	96.42
cd04497	138	hPOT1_OB1_like hPOT1_OB1_like: A subfamily of OB f	96.34
cd04481	106	RPA1_DBD_B_like RPA1_DBD_B_like: A subgroup of unc	96.24
PF01336	75	tRNA_anti-codon: OB-fold nucleic acid binding doma	95.8
cd04483	92	hOBFC1_like hOBFC1_like: A subfamily of OB folds s	95.65
PF15489	1144	CTC1: CST, telomere maintenance, complex subunit C	95.3
cd03524	75	RPA2_OBF_family RPA2_OBF_family: A family of oligo	95.29
cd04488	75	RecG_wedge_OBF RecG_wedge_OBF: A subfamily of OB f	95.22
cd04485	84	DnaE_OBF DnaE_OBF: A subfamily of OB folds corresp	94.86
PF09103	118	BRCA-2_OB1: BRCA2, oligonucleotide/oligosaccharide	94.14
cd04490	79	PolII_SU_OBF PolII_SU_OBF: A subfamily of OB folds	93.95
PF06075	579	DUF936: Plant protein of unknown function (DUF936)	93.59
cd04490	79	PolII_SU_OBF PolII_SU_OBF: A subfamily of OB folds	93.52
cd04489	78	ExoVII_LU_OBF ExoVII_LU_OBF: A subfamily of OB fol	93.37
PF15072	86	DUF4539: Domain of unknown function (DUF4539)	93.1
cd04492	83	YhaM_OBF_like YhaM_OBF_like: A subfamily of OB fol	92.5
KOG0851	246	consensus Single-stranded DNA-binding replication	90.83
PTZ00401	550	aspartyl-tRNA synthetase; Provisional	90.68
cd04485	84	DnaE_OBF DnaE_OBF: A subfamily of OB folds corresp	90.12
PF14951	389	DUF4503: Domain of unknown function (DUF4503)	90.12
PRK02801	101	primosomal replication protein N; Provisional	89.73
cd04495	100	BRCA2DBD_OB3 BRCA2DBD_OB3: A subfamily of OB folds	89.71
PRK06751	173	single-stranded DNA-binding protein; Provisional	89.44
PRK13480	314	3'-5' exoribonuclease YhaM; Provisional	89.19
KOG4757	522	consensus Predicted telomere binding protein [Gene	88.86
cd04478	95	RPA2_DBD_D RPA2_DBD_D: A subfamily of OB folds cor	88.8
COG1997	89	RPL43A Ribosomal protein L37AE/L43A [Translation,	88.69
PRK07275	162	single-stranded DNA-binding protein; Provisional	88.5
PF02760	170	HIN: HIN-200/IF120x domain; InterPro: IPR004021 Th	88.23
PRK07373	449	DNA polymerase III subunit alpha; Reviewed	88.08
PF02765	146	POT1: Telomeric single stranded DNA binding POT1/C	87.68
PF13240	23	zinc_ribbon_2: zinc-ribbon domain	87.29
PF09104	143	BRCA-2_OB3: BRCA2, oligonucleotide/oligosaccharide	87.0
PRK07459	121	single-stranded DNA-binding protein; Provisional	87.0
PRK08763	164	single-stranded DNA-binding protein; Provisional	86.61
PRK05813	219	single-stranded DNA-binding protein; Provisional	86.29
cd04493	100	BRCA2DBD_OB1 BRCA2DBD_OB1: A subfamily of OB folds	86.06
PF07754	24	DUF1610: Domain of unknown function (DUF1610); Int	86.05
cd04320	102	AspRS_cyto_N AspRS_cyto_N: N-terminal, anticodon r	86.0
PF11325	84	DUF3127: Domain of unknown function (DUF3127); Int	85.86
PRK07274	131	single-stranded DNA-binding protein; Provisional	85.78
cd04489	78	ExoVII_LU_OBF ExoVII_LU_OBF: A subfamily of OB fol	85.31
PRK13480	314	3'-5' exoribonuclease YhaM; Provisional	85.0
cd04322	108	LysRS_N LysRS_N: N-terminal, anticodon recognition	84.6
COG1571	421	Predicted DNA-binding protein containing a Zn-ribb	84.54
PLN02850	530	aspartate-tRNA ligase	84.53
PRK08486	182	single-stranded DNA-binding protein; Provisional	84.52
PF02721	95	DUF223: Domain of unknown function DUF223; InterPr	84.49
cd04496	100	SSB_OBF SSB_OBF: A subfamily of OB folds similar t	84.46
cd04484	82	polC_OBF polC_OBF: A subfamily of OB folds corresp	84.33
PF10341	106	TPP1: Shelterin complex subunit, TPP1/ACD; InterPr	83.79
cd04492	83	YhaM_OBF_like YhaM_OBF_like: A subfamily of OB fol	83.55
PRK07772	186	single-stranded DNA-binding protein; Provisional	83.51
PRK08182	148	single-stranded DNA-binding protein; Provisional	83.43
cd04100	85	Asp_Lys_Asn_RS_N Asp_Lys_Asn_RS_N: N-terminal, ant	83.33
cd04478	95	RPA2_DBD_D RPA2_DBD_D: A subfamily of OB folds cor	83.22
PRK06752	112	single-stranded DNA-binding protein; Validated	83.2
COG5235	258	RFA2 Single-stranded DNA-binding replication prote	82.92
KOG3056	578	consensus Protein required for S-phase initiation	82.92
cd04480	86	RPA1_DBD_A_like RPA1_DBD_A_like: A subgroup of unc	82.6
PRK05733	172	single-stranded DNA-binding protein; Provisional	82.54
PRK13732	175	single-stranded DNA-binding protein; Provisional	82.34
PRK06293	161	single-stranded DNA-binding protein; Provisional	81.9
cd04483	92	hOBFC1_like hOBFC1_like: A subfamily of OB folds s	81.78
cd04323	84	AsnRS_cyto_like_N AsnRS_cyto_like_N: N-terminal, a	81.78
PRK09010	177	single-stranded DNA-binding protein; Provisional	81.14
PRK06863	168	single-stranded DNA-binding protein; Provisional	80.91
PF13742	99	tRNA_anti_2: OB-fold nucleic acid binding domain	80.86

>TIGR00617 rpa1 replication factor-a protein 1 (rpa1)

Probab=100.00  E-value=5.1e-121  Score=1021.41  Aligned_cols=593  Identities=44%  Similarity=0.715  Sum_probs=499.6

Q ss_pred             CCCCCHHHHHHHhcCCCCCCCCCCCcceEEEeeeeecC-----ceEEEEEeCcccceeeccccccccccccCccceeeEE
Q 006973            2 DKTVSPDAISTILSNPSPDSSSDIPEIVVQVLDLKLTG-----NRYMFNASDGKKRLKAILPSNLSSEVISGNIQNKGLI   76 (623)
Q Consensus         2 ~~~lt~ga~~~i~~~~~~~~~~~~~~pvlQvl~~k~~~-----~ryr~~lSDG~~~~~~mlat~ln~~v~~~~l~~~sii   76 (623)
                      +..||+|||.+|+.....  ......|||||+++|+++     +|||++||||.|++++|||||||++|++|+|++|+||
T Consensus         1 ~~~lt~ga~~~i~~~~~~--~~~~~~pv~Qv~~~k~~~~~~~~~ryr~~lsDg~~~~~~ml~t~~n~~~~~~~l~~~~iv   78 (608)
T TIGR00617         1 AVSLSNGAIALIMTNGEA--NGYPPDPVLQVLDLKPINGAQDPRRYRIVISDGIYYSKAMLATQLNPLVREGELQEGTII   78 (608)
T ss_pred             CCccChhHHHHHhccccc--cCCCCCcEEEEEeeEEcCCCCCCceEEEEEECchHHHHHHHHHHHHHHHHhCCccCCCEE
Confidence            357999999999984321  112467999999999985     5999999999999999999999999999999999999


Q ss_pred             EEcceeeecc-CCCceEEEEEEeeeeeccccchh-hccccCCCCCccc-CCCCCcccc--CCCCCC--cccCchhhhhhh
Q 006973           77 RLLDYALNEI-PTKSEKYLIVTKCEVVSPALEME-IKIEVKSDESGII-FKPKQEDEV--KKDGPG--IVLKPKQEMVAK  149 (623)
Q Consensus        77 rl~~y~~~~~-~~~~~~vlii~~lev~~~~~~~~-~~~~~~~~~~~~~-~~~~~~~~~--~~~~~~--~~~~~~~~~~~~  149 (623)
                      ||++|+++.+ +++ |++|||++|||+.+..+.. ++|+|..-..... ..+.....+  ...+..  ....|++..  .
T Consensus        79 ~l~~~~~~~~~~~~-~~~lii~~~ev~~~~~~~~~~ig~p~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~--~  155 (608)
T TIGR00617        79 RLTKFEVNTIGKDG-RKVLIVYELEVVKPELKVRDKIGNPVTYEKYLDSWHEEQVLASKPATNPANPPNAKAPKNEV--A  155 (608)
T ss_pred             EEeEEEEeEEccCC-cEEEEEEeeEEeecccccccccCCCccccccccccCccccccccccccCCCCCCccCCCccc--c
Confidence            9999999999 543 6999999999999765543 6777764322100 011100000  000000  001111100  0


Q ss_pred             hhhhhhccccCCCCccccccCCcCeeeccccCCCCCCeEEEEEEEeeccccccccCCCcccEEEEEEEeCCCCeEEEEEe
Q 006973          150 SAAQILRDQNGNMAPAARLAMTRRVHPLVSLNPYQGNWTIKVRVTSKGNMRTYKNARGEGCVFNVELTDEDGTQIQATMF  229 (623)
Q Consensus       150 ~~~~~~~~~~~~~~~~~~~~~~~~~~~I~~L~p~~~~w~I~~RV~~K~~~r~~~~~~g~g~~f~~~L~D~~G~~I~at~~  229 (623)
                      +..+...+++++++|+...++.++++||++|+||+++|+|+|||++||++|+|++++|+|++|+|+|+| +|++|+|++|
T Consensus       156 ~~~~~~~~~~~~~~~~~~~~~~~~~~pI~~L~py~~~wtIkaRV~~Ks~ir~~~~~~gegkvfsv~L~D-egg~Irat~f  234 (608)
T TIGR00617       156 SYNNAANPERGNAPPAPNSGSTRRVMPIASLSPYQNKWTIKARVTNKSEIRTWSNARGEGKLFNVELLD-ESGEIRATAF  234 (608)
T ss_pred             cccCCCCcccCCCCCCccccCCcceEEHHHCCCCCCceEEEEEEEeccccceecCCCCCceeeEEEEec-CCCeEEEEEC
Confidence            001111112333333333334557999999999999999999999999999999999999999999999 6669999999


Q ss_pred             chHHHHHHhhcccCcEEEEeeeEEEecCCCccccCCceEEEEccCcEEEEccCcCCCCCCCccccccccccccccCCcce
Q 006973          230 NEAARKFYDRFQLGKVYYISRGTLRVANKQFKTVQNDYEMNLNENSEVEEAVNETAFIPQTKFNFVPIDELGRYVNGTEL  309 (623)
Q Consensus       230 ~~~~~kf~~~l~eG~vy~is~~~V~~a~~~~~~~~~~yei~f~~~T~I~~~~d~~~~iP~~~~~f~~i~di~~~~~~~~~  309 (623)
                      ++.+++|+++|++|+||+|++|+|++++++|++++|+|||+|+.+|.|++|.|. .++|.+.|+|++|+||.+ ...+.+
T Consensus       235 ~~~~dkf~~~l~eG~VY~Is~~~Vk~an~~y~~~~~~yei~f~~~T~I~~~~d~-~~iP~~~~~f~~i~dI~~-~~~~~~  312 (608)
T TIGR00617       235 NEQADKFYDIIQEGKVYYISKGSLKPANKQFTNLGNDYEMTLDRDTVIEECEDE-TAIPKIQFNFVKIDDIGG-YEGNSL  312 (608)
T ss_pred             chHHHHHhhhcccCCEEEECceEEEEccccccCCCCCEEEEECCCeEEEECCCc-ccCCcccccceEHHHhhh-hcCCCC
Confidence            999999999999999999999999999999999999999999999999999886 569999999999999987 455679


Q ss_pred             eEEEEEEEEeCCceEEEEccCCceeeEEEEEEEeCCccEEEEEEechhhhhhhhHhhhcCCCCcEEEEEeEEeeecccee
Q 006973          310 VDIIGVVQNVSPTMSIRRKSNNEMVPKRDITVADETKRTVTVSLWNELATNVGQELLDNADKSPIVAIKSLKVGDFQGIS  389 (623)
Q Consensus       310 vDVIGvV~~v~~~~~i~~k~~g~~~~kr~i~l~D~sg~~I~vtLWg~~A~~~~~~~~~~~~~~~Vv~i~~~kV~~f~G~~  389 (623)
                      |||||+|++|+++.+|++|.+|++..||+|+|+|+||.+|+|||||++|..|.      ...++||+|+++||++|+|++
T Consensus       313 VDVIGvV~~v~~~~~i~~k~~g~~~~kR~i~L~D~sg~sI~vTLWG~~A~~~~------~~~~~Vva~kg~~V~~f~g~s  386 (608)
T TIGR00617       313 VDVIGIVQSVSPTQTITSRKNNKEFPKRDITLVDDSGKSVRVTLWGDDATKFD------VSVQPVIAIKGVRVSDFGGKS  386 (608)
T ss_pred             ccEEEEEeEecCceEEEEcCCCCeeeeEEEEEEeCCCCEEEEEEEhhhhhhcC------CCCCCEEEEEeEEEEecCCce
Confidence            99999999999999999888899999999999999999999999999999874      456899999999999999999


Q ss_pred             eecccceEEEEcCChHHHHHHHHHHHhCCCccceeeecCCcCccccCCcccccccceehhccccCCCCC-CCCCeEEEEE
Q 006973          390 LSTLGRSTVLVSPDLPEAKKLKSWYESEGKGTSMASIGSGLGSLAKNGARSMYSDRVSLTHITSNPSLG-DEKPVFFSIK  468 (623)
Q Consensus       390 Ls~~~~S~i~iNPd~pe~~~l~~w~~~~g~~~~~~~~~~~~~~~~~~~~~~~~~~~~ti~~i~~~~~~~-~~~~~~~~v~  468 (623)
                      ||++++|+|++|||+||+++|+.||+++|....+.+++...++.. + .  ...+++||+||++ .++| .++++||+|+
T Consensus       387 Ls~~~~S~i~iNPdipEa~~L~~w~~~~g~~~~~~s~~~~~~~~~-~-~--~~~~~ktI~ei~~-~~lg~~~k~~~f~v~  461 (608)
T TIGR00617       387 LSTGGSSTIIVNPDIPEAEKLKGWYDNEGKGTMASSISDMMSGRV-G-G--SNAERKTIAEIQA-ENLGKSDKPDYFSVK  461 (608)
T ss_pred             EeccCCceEEECCCcHHHHHHHHHHHhcCCCccceeehhcccccc-C-C--cccccccHHHHhh-hccCCCCCCcEEEEE
Confidence            999999999999999999999999999988665555543322111 1 1  2367899999998 5666 4899999999


Q ss_pred             EEEEEEeCCCCeEeccccc--cccceecCCCCeeecCcCCCCccccceeEEEEEEEEeCCCcEEEEEehHhHHHHhCCCH
Q 006973          469 AYISLIKPDQAMWYRACKT--CNKKVTDALGSGYWCEGCQKNDEECSLRYIMVARVCDGSGEAWISIFNEEAERIIGCSA  546 (623)
Q Consensus       469 a~I~~i~~d~~~~Y~aC~~--C~KKv~~~~~~~~~C~kC~~~~~~~~~ry~l~~~i~D~Tg~~~~~~F~~~ae~llG~sA  546 (623)
                      |+|++|+.| +|||+|||.  |+|||.++.+|.|+|++|++++++|.|||+|++.|+|+||++|+++||+.|++|||++|
T Consensus       462 atI~~Ik~d-~~~Y~ACp~~~CnKKV~~~~~g~~~CekC~~~~~~~~~RYil~~~i~D~Tg~~~~t~F~~~ae~llG~sA  540 (608)
T TIGR00617       462 ATISYLKPD-NALYRACPSEDCNKKVVDQGDGTYRCEKCNKNFAEFKYRYILQISISDETGQLWVTAFNDQAEQILGKSA  540 (608)
T ss_pred             EEEEEEecC-CeEeccCChhhCCCccccCCCCCEECCCCCCCCCCccEEEEEEEEEEeCCCCEEEEEEhHHHHHHcCCCH
Confidence            999999998 899999986  99999987668999999999999999999999999999999999999999999999999


Q ss_pred             HHHHHHHhhcCCchhHHHHHHHhcCceEEEEEEEEeeecCceeeeEEEEEEeeccCHHHHHHHHHHHHHh
Q 006973          547 DELNELKSQLGDDNSYQMKLKEVTWVPHLLRVSVAQQEYNNEKRQRVTVRAVAPVDFAAESKFLLEEISK  616 (623)
Q Consensus       547 ~el~~~~~~~~~~~~~~~~l~~~~~~~~~f~v~~k~~~y~~~~r~~~~v~~~~~vd~~~e~~~Ll~~i~~  616 (623)
                      +||.++++++  +.+|+++|+++.|++|.|||++++++||||.|+||+|++++|+||++|+++||++|++
T Consensus       541 ~eL~~l~~~~--~~~~~~i~~~~~~~~~~f~~~~k~e~yn~e~r~~~~v~~~~~vd~~~e~~~L~~~i~~  608 (608)
T TIGR00617       541 AELGELKEED--PDEFEAIFQEAQFVPYIFRLRVKQDTYNDESRQKYTVMSVDPVNYRAEAKYLLQEIEK  608 (608)
T ss_pred             HHHHHHHhcC--HHHHHHHHHHhhCcEEEEEEEEEEcccCCEeeEEEEEEEeeeCCHHHHHHHHHHHhcC
Confidence            9999999754  5689999999999999999999999999999999999999999999999999999964

This family is based on the phylogenomic analysis of JA Eisen (1999, Ph.D. Thesis, Stanford University).

>PRK12366 replication factor A; Reviewed

Probab=100.00  E-value=4.3e-67  Score=590.42  Aligned_cols=436  Identities=19%  Similarity=0.290  Sum_probs=362.0

Q ss_pred             ceEEEeeeeec----C---ceEEEEEeCcccceeeccccccccccccCccceeeEEEEcceeeeccCCCceEEEEEEeee
Q 006973           28 IVVQVLDLKLT----G---NRYMFNASDGKKRLKAILPSNLSSEVISGNIQNKGLIRLLDYALNEIPTKSEKYLIVTKCE  100 (623)
Q Consensus        28 pvlQvl~~k~~----~---~ryr~~lSDG~~~~~~mlat~ln~~v~~~~l~~~siirl~~y~~~~~~~~~~~vlii~~le  100 (623)
                      -|+++.+++.+    |   .+..++|.|.+..++..||-++.++    .|+.|++|+|+.|...--.+         ++|
T Consensus       192 ~V~~~~~~~~f~rkdg~~~~~r~~~l~D~TG~irvTlW~~~a~~----~~~~g~vv~i~g~~~~~~~~---------~~e  258 (637)
T PRK12366        192 EVTKAYPIKEFTRKDGSEGKLKSFILKDDTGSIRVTLWNDLTDI----EVNKGDIVRVKGYVKQGYRT---------GLE  258 (637)
T ss_pred             EEEEccCcEEEEEcCCCeeEEEEEEEEcCCCcEEEEEEChhhcc----cCCCCCEEEEEeEEecCcCC---------ceE
Confidence            34555555554    2   4679999999999999999988865    68999999999876653211         233


Q ss_pred             eeccccchhhccccCCCCCcccCCCCCccccCCCCCCcccCchhhhhhhhhhhhhccccCCCCccccccCCcCeeecccc
Q 006973          101 VVSPALEMEIKIEVKSDESGIIFKPKQEDEVKKDGPGIVLKPKQEMVAKSAAQILRDQNGNMAPAARLAMTRRVHPLVSL  180 (623)
Q Consensus       101 v~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~I~~L  180 (623)
                      +-...  .+++           .....           .                             .....++||++|
T Consensus       259 l~~~~--~~~i-----------~~~~~-----------~-----------------------------~~~~~~~pI~~L  285 (637)
T PRK12366        259 ISANN--IEIL-----------EKLEK-----------E-----------------------------EKELEIVNIEEL  285 (637)
T ss_pred             EEeCC--ceee-----------ccccc-----------c-----------------------------ccccCceeHHHC
Confidence            22211  0010           00000           0                             001136899999


Q ss_pred             CCC-CC-CeEEEEEEEeeccccccccCCCcccEEEEEEEeCCCCeEEEEEechHHHHHHhhcccCcEEEEeeeEEEecCC
Q 006973          181 NPY-QG-NWTIKVRVTSKGNMRTYKNARGEGCVFNVELTDEDGTQIQATMFNEAARKFYDRFQLGKVYYISRGTLRVANK  258 (623)
Q Consensus       181 ~p~-~~-~w~I~~RV~~K~~~r~~~~~~g~g~~f~~~L~D~~G~~I~at~~~~~~~kf~~~l~eG~vy~is~~~V~~a~~  258 (623)
                      +|| .+ +|+|+|||+.|+++|+|++++|+|++|+++|.|++| +|++|+|++.+++|++ |++|+||+|++++|+..+.
T Consensus       286 ~~~~~g~~~~I~grV~~~~~~R~f~~~~g~gkv~s~~l~D~tG-~IR~t~w~~~~d~~~~-l~~G~vy~is~~~vk~y~~  363 (637)
T PRK12366        286 TEFEDGEEVDVKGRIIAISDKREVERDDRTAEVQDIELADGTG-RVRVSFWGEKAKILEN-LKEGDAVKIENCKVRTYYD  363 (637)
T ss_pred             CcccCCCEEEEEEEEEecCCceEEEcCCCcEEEEEEEEEcCCC-eEEEEEeCchhhhhcc-cCCCCEEEEecCEEeeccc
Confidence            999 55 899999999999999999999999999999999999 8999999999999998 5999999999999985443


Q ss_pred             CccccCCceEEEEccCcEEEEccCcCCCCCCCccccccccccccccCCcceeEEEEEEEEeCCceEEEEccCCceeeEEE
Q 006973          259 QFKTVQNDYEMNLNENSEVEEAVNETAFIPQTKFNFVPIDELGRYVNGTELVDIIGVVQNVSPTMSIRRKSNNEMVPKRD  338 (623)
Q Consensus       259 ~~~~~~~~yei~f~~~T~I~~~~d~~~~iP~~~~~f~~i~di~~~~~~~~~vDVIGvV~~v~~~~~i~~k~~g~~~~kr~  338 (623)
                      .  ...+.|||+++..|.|.+ +++ ..+|.+.|+|++|.+|.+....+..|||+|+|++++|+.+|+++ +|++..+|+
T Consensus       364 ~--~~~~~~El~~~~~s~I~~-d~~-~~~p~~~~~~~~i~dI~~~~~~~~~VdVig~V~~v~~~~~i~~k-~G~~~~~r~  438 (637)
T PRK12366        364 N--EGEKRVDLNAGYSSEIIK-DES-ISFEEIEEKIYKIKDILNLEEDDNDITVIARVVEDYPVNEFERS-DGSKGKVRN  438 (637)
T ss_pred             c--CCCcCEEEEcCCceEEEe-ccC-CcccceeeccccHHHhhcccCCCcEEEEEEEEEEccCceEEEec-CCCEeEEEE
Confidence            1  346789999999999998 333 46899999999999998733467899999999999999999876 588899999


Q ss_pred             EEEEeCCccEEEEEEechhhhhhhhHhhhcCCCCcEEEEEeEEeeeccc-eeeecccceEEEEcCChHHHHHHHHHHHhC
Q 006973          339 ITVADETKRTVTVSLWNELATNVGQELLDNADKSPIVAIKSLKVGDFQG-ISLSTLGRSTVLVSPDLPEAKKLKSWYESE  417 (623)
Q Consensus       339 i~l~D~sg~~I~vtLWg~~A~~~~~~~~~~~~~~~Vv~i~~~kV~~f~G-~~Ls~~~~S~i~iNPd~pe~~~l~~w~~~~  417 (623)
                      ++|.|+|| +|++||||+.|...       ...+++|+|++++|++|+| .+||++++|+|.+||+.|+   |+      
T Consensus       439 i~l~D~TG-~I~vtlWg~~a~~~-------~~~G~vi~i~~~~V~~~~g~~~Ls~~~~s~i~~~p~~~e---l~------  501 (637)
T PRK12366        439 IELADGTG-SIRLTLWDDDAEIE-------IKEGDAIKILHPYVKENGDYLDLSIGRYGRIEINPEGEI---IK------  501 (637)
T ss_pred             EEEEeCCC-EEEEEEeccccccC-------CCCCCEEEEEeeEEEeCCCeeEEEecCcceEEECCCCcc---cc------
Confidence            99999999 99999999999731       4568999999999999999 5999999999999999876   21      


Q ss_pred             CCccceeeecCCcCccccCCcccccccceehhccccCCCCCCCCCeEEEEEEEEEEEeCCCCeEeccccccccceecCCC
Q 006973          418 GKGTSMASIGSGLGSLAKNGARSMYSDRVSLTHITSNPSLGDEKPVFFSIKAYISLIKPDQAMWYRACKTCNKKVTDALG  497 (623)
Q Consensus       418 g~~~~~~~~~~~~~~~~~~~~~~~~~~~~ti~~i~~~~~~~~~~~~~~~v~a~I~~i~~d~~~~Y~aC~~C~KKv~~~~~  497 (623)
                                               ..+++|++|.+.        ++|+++|+|++|+.+ ++||+|||.|+|||... +
T Consensus       502 -------------------------~~~~~I~~i~~~--------~~~~v~g~i~~i~~~-~~~y~aCp~CnkKv~~~-~  546 (637)
T PRK12366        502 -------------------------SNRKFIADLEED--------DTVEIRGTVVDIRKQ-KIILYLCPNCRKRVEEV-D  546 (637)
T ss_pred             -------------------------ccccCHHHcccC--------CeEEEEEEEEEEeCC-CEEEecccccCeEeEcC-C
Confidence                                     025678888762        359999999999987 68999999999999874 8


Q ss_pred             CeeecCcCCCCccccceeEEEEEEEEeCCCcEEEEEehHhHHHHhCCCHHHHHHHHhhcCCchhHHHHHHHhcCceEEEE
Q 006973          498 SGYWCEGCQKNDEECSLRYIMVARVCDGSGEAWISIFNEEAERIIGCSADELNELKSQLGDDNSYQMKLKEVTWVPHLLR  577 (623)
Q Consensus       498 ~~~~C~kC~~~~~~~~~ry~l~~~i~D~Tg~~~~~~F~~~ae~llG~sA~el~~~~~~~~~~~~~~~~l~~~~~~~~~f~  577 (623)
                      |.|+|++|++.  +|.|||++++.|+|+||++|+++|++.|++||||+|+||.+|.+         +.|++++|++|.|+
T Consensus       547 g~~~C~~c~~~--~p~~~~~l~~~i~D~TG~~~~t~f~e~ae~l~G~sa~el~~l~~---------~~l~~~~g~~~~~~  615 (637)
T PRK12366        547 GEYICEFCGEV--EPNELLMLNFTLDDGTGTINCRFYGKNVEKLLGMSKEELKELNL---------EALEDLLGEEVVFY  615 (637)
T ss_pred             CcEECCCCCCC--CCcEEEEEEEEEEcCCCCEEEEEEhHHhHHHhCCCHHHHHHHHH---------HHHHHhcCcEEEEE
Confidence            99999999997  79999999999999999999999999999999999999998874         45667899999999


Q ss_pred             EEEEeeecCceeeeEEEEEEeeccCH
Q 006973          578 VSVAQQEYNNEKRQRVTVRAVAPVDF  603 (623)
Q Consensus       578 v~~k~~~y~~~~r~~~~v~~~~~vd~  603 (623)
                      ++++++  |++  +||+|.++.|+|+
T Consensus       616 ~~~k~~--~~~--~r~~v~~v~~~d~  637 (637)
T PRK12366        616 GNVSFR--NEE--LRFNVRRVNNVDV  637 (637)
T ss_pred             EEEeec--Cce--eEEEEEEeecccC
Confidence            999987  665  5599999999985

>PRK08402 replication factor A; Reviewed

Probab=100.00  E-value=2.4e-46  Score=390.62  Aligned_cols=281  Identities=18%  Similarity=0.297  Sum_probs=239.0

Q ss_pred             ccccccccccccCCcceeEEEEEEEEeCCceEEEEccCCceeeEEEEEEEeCCccEEEEEEechhhhhhhhHhhhcCCCC
Q 006973          293 NFVPIDELGRYVNGTELVDIIGVVQNVSPTMSIRRKSNNEMVPKRDITVADETKRTVTVSLWNELATNVGQELLDNADKS  372 (623)
Q Consensus       293 ~f~~i~di~~~~~~~~~vDVIGvV~~v~~~~~i~~k~~g~~~~kr~i~l~D~sg~~I~vtLWg~~A~~~~~~~~~~~~~~  372 (623)
                      ..++|.||..   ....|.+.|.|+++++.+.|.++ +|.....++++|.|+|| .+++||||+.|..+.    +.+..|
T Consensus        61 ~~~kI~dl~~---g~~~V~v~~rVl~~~~~r~f~rr-dG~~~~V~~i~l~DeTG-~ir~TlW~~~a~~~~----~~l~~G  131 (355)
T PRK08402         61 PLMHISDLVP---GMRGVNIVGRVLRKYPPREYTKK-DGSTGRVASLIIYDDTG-RARVVLWDAKVAKYY----NKINVG  131 (355)
T ss_pred             CccCHHHccC---CCceeeEEEEEEEccCCceeecc-CCCcceEEEEEEEcCCC-eEEEEEechhhhhhc----ccCCCC
Confidence            4678888864   34579999999999999999887 48778899999999999 779999999998642    235779


Q ss_pred             cEEEEEeEEeeec-cce-eeecccceEEEEcCChHHHHHHHHHHHhCCCccceeeecCCcCccccCCcccccccceehhc
Q 006973          373 PIVAIKSLKVGDF-QGI-SLSTLGRSTVLVSPDLPEAKKLKSWYESEGKGTSMASIGSGLGSLAKNGARSMYSDRVSLTH  450 (623)
Q Consensus       373 ~Vv~i~~~kV~~f-~G~-~Ls~~~~S~i~iNPd~pe~~~l~~w~~~~g~~~~~~~~~~~~~~~~~~~~~~~~~~~~ti~~  450 (623)
                      +||.|++++|++| +|+ +||.+++|+|.+||++|+++.+.             +++...+         ....+++|++
T Consensus       132 dvi~I~~a~V~e~~~G~~eLsvg~~s~i~~~pd~~ea~~i~-------------~~~~~~~---------~~~~~k~I~e  189 (355)
T PRK08402        132 DVIKVIDAQVRESLSGLPELHINFRARIILNPDDPRVEEIP-------------PLEEVRS---------YNYTRKKIGE  189 (355)
T ss_pred             CEEEEECCEEeecCCCcEEEEECCCceEEeCCCcccccccc-------------ccccccc---------ccccccCHHH
Confidence            9999999999995 898 99999999999999999887721             2211100         1246788999


Q ss_pred             cccCCCCCCCCCeEEEEEEEEEEEeCCCCeEecccccccccee-cCCCCeeecCcCCCCccccceeEEEEEEEEeCCCcE
Q 006973          451 ITSNPSLGDEKPVFFSIKAYISLIKPDQAMWYRACKTCNKKVT-DALGSGYWCEGCQKNDEECSLRYIMVARVCDGSGEA  529 (623)
Q Consensus       451 i~~~~~~~~~~~~~~~v~a~I~~i~~d~~~~Y~aC~~C~KKv~-~~~~~~~~C~kC~~~~~~~~~ry~l~~~i~D~Tg~~  529 (623)
                      |.+    |   .+||+++|+|++|+.  +.+|+|||.|+|||. +++++.|+|+.|++.  +|.|||+|++.|+|+||++
T Consensus       190 i~~----g---d~~v~v~g~Iv~i~~--~~~y~aCp~CnKkv~~~~~~~~~~Ce~~~~v--~p~~ryil~~~l~D~TG~~  258 (355)
T PRK08402        190 LEG----G---ERFVEVRGTIAKVYR--VLVYDACPECRRKVDYDPATDTWICPEHGEV--EPIKITILDFGLDDGTGYI  258 (355)
T ss_pred             ccc----C---CcEEEEEEEEEEEec--CeeEecCCCCCeEEEEecCCCCEeCCCCCCc--CcceeEEEEEEEEcCCCcE
Confidence            855    1   278999999999997  568999999999998 556789999999974  6899999999999999999


Q ss_pred             EEEEehHhHHHHhCCCHHHHHHH-H---hhcCCc-----hhHHHHHHHhcCceEEEEEEEEeeecCceeeeEEEEEEeec
Q 006973          530 WISIFNEEAERIIGCSADELNEL-K---SQLGDD-----NSYQMKLKEVTWVPHLLRVSVAQQEYNNEKRQRVTVRAVAP  600 (623)
Q Consensus       530 ~~~~F~~~ae~llG~sA~el~~~-~---~~~~~~-----~~~~~~l~~~~~~~~~f~v~~k~~~y~~~~r~~~~v~~~~~  600 (623)
                      |+++|++.|++|||++|+||.++ +   +...++     ..|...++.++|++|.||++++++.|||+.   |+|.++.|
T Consensus       259 ~vt~f~e~ae~llG~sa~el~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~g~~~~~rg~~~~d~y~~~~---~~v~~~~~  335 (355)
T PRK08402        259 RVTLFGDDAAELLGVEPEEIAEKLKELIEMGLTPKEAARKLAEEEFYNIIGREIVVRGNVIEDRFLGLI---LKASSWDE  335 (355)
T ss_pred             EEEEecHHHHHHhCCCHHHHHHHHHHhhhcccchhhhhhhHHHHHHHHhcCeEEEEEEEEEecccCCeE---EEEEEccc
Confidence            99999999999999999999998 4   322122     568888999999999999999999999965   99999999


Q ss_pred             cCHHHHHHHHHHHHHhhh
Q 006973          601 VDFAAESKFLLEEISKKV  618 (623)
Q Consensus       601 vd~~~e~~~Ll~~i~~~~  618 (623)
                      +||++|+++|+++|.++.
T Consensus       336 vd~~~e~~~l~~~i~~~~  353 (355)
T PRK08402        336 VDYKREIERVRAELEELG  353 (355)
T ss_pred             CCHHHHHHHHHHHHHHhh
Confidence            999999999999998874

>PRK07218 replication factor A; Provisional

Probab=100.00  E-value=5.5e-35  Score=311.05  Aligned_cols=361  Identities=19%  Similarity=0.242  Sum_probs=285.9

Q ss_pred             CcCeeeccccCCCCCCeEEEEEEEeeccccccccCCCcccEEEEEEEeCCCCeEEEEEechHHHHHHhhcccCcEEEEee
Q 006973          171 TRRVHPLVSLNPYQGNWTIKVRVTSKGNMRTYKNARGEGCVFNVELTDEDGTQIQATMFNEAARKFYDRFQLGKVYYISR  250 (623)
Q Consensus       171 ~~~~~~I~~L~p~~~~w~I~~RV~~K~~~r~~~~~~g~g~~f~~~L~D~~G~~I~at~~~~~~~kf~~~l~eG~vy~is~  250 (623)
                      .+....|++|.|...+.+|+|||+.+|+ |+|....++|.+.+++|.|++| .|+.|+|++.      -|++|++|.|.|
T Consensus        55 ~~~~~kI~Di~~~~~~V~v~~kVl~i~~-rt~r~dg~~g~v~~~~igDeTG-~Ir~tlW~~~------~l~~Gdvv~I~n  126 (423)
T PRK07218         55 TPSSKDIKELSTDDKNVTVTGRVLTIGE-RSIRYQGDDHVIYEGILADETG-TISYTAWKDF------GLSPGDTVTIGN  126 (423)
T ss_pred             CCCCccHhhCCCCCceeEEEEEEEEecc-eeEecCCCceEEEEEEEECCCC-eEEEEEECCC------CCCCCCEEEEec
Confidence            3457899999999989999999999999 9997666688999999999999 9999999965      299999999999


Q ss_pred             eEEEecCCCccccCCceEEEEccCcEEEEccCcCCCCCCCccccccccccccccCCcceeEEEEEEEEeCCceEEEEccC
Q 006973          251 GTLRVANKQFKTVQNDYEMNLNENSEVEEAVNETAFIPQTKFNFVPIDELGRYVNGTELVDIIGVVQNVSPTMSIRRKSN  330 (623)
Q Consensus       251 ~~V~~a~~~~~~~~~~yei~f~~~T~I~~~~d~~~~iP~~~~~f~~i~di~~~~~~~~~vDVIGvV~~v~~~~~i~~k~~  330 (623)
                      +.++..+.       .+++.++..|.|.+.++. ...|...+...+|.||..   ...-|+|.|.|.++.+ .+|.++ +
T Consensus       127 a~vre~~g-------~~el~ig~~t~I~~~de~-~~~~~~~~~~~kI~DL~~---g~~~V~v~g~Vl~~~~-r~f~~~-d  193 (423)
T PRK07218        127 AGVREWDG-------RPELNIGESTTVSLLDDS-SLPPYSIGGDKKLIDLGP---GDRGVNVEARVLELEH-REIDGR-D  193 (423)
T ss_pred             cEeeccCC-------ceEEeccCcceEEEcCcc-cccCccccCccchhhccC---CCCceEEEEEEEEecc-eeEEcC-C
Confidence            99877543       389999999999987664 223322344556666653   3456999999999965 788876 4


Q ss_pred             CceeeEEEEEEEeCCccEEEEEEechhhhhhhhHhhhcCCCCcEEEEEeEEeeeccce-eeecccceEEEEcCChHHHHH
Q 006973          331 NEMVPKRDITVADETKRTVTVSLWNELATNVGQELLDNADKSPIVAIKSLKVGDFQGI-SLSTLGRSTVLVSPDLPEAKK  409 (623)
Q Consensus       331 g~~~~kr~i~l~D~sg~~I~vtLWg~~A~~~~~~~~~~~~~~~Vv~i~~~kV~~f~G~-~Ls~~~~S~i~iNPd~pe~~~  409 (623)
                      |. ...++..|.|+|| +|++|||++.+.         +..|.+|-|.++.+++|+|+ +|+....|+|..+|+..+   
T Consensus       194 g~-~~v~~giigDeTG-~Ir~tlW~~~~~---------l~~Gd~v~I~na~v~e~~G~~elnv~~~t~I~~~d~~i~---  259 (423)
T PRK07218        194 GE-TTILSGVLADETG-RLPFTDWDPLPE---------IEIGASIRIEDAYVREFRGVPSVNVSEFTTVEALDREVS---  259 (423)
T ss_pred             CC-eEEEEEEEECCCc-eEEEEEeccccc---------CCCCCEEEEeeeEEeccCCeEEEEECCceEEEECCCCcc---
Confidence            64 5689999999999 999999998752         35699999999999999986 899999999998885311   


Q ss_pred             HHHHHHhCCCccceeeecCCcCccccCCcccccccceehhccccCCCCCCCCCeE-EEEEEEEEEEeCCCCeEecccccc
Q 006973          410 LKSWYESEGKGTSMASIGSGLGSLAKNGARSMYSDRVSLTHITSNPSLGDEKPVF-FSIKAYISLIKPDQAMWYRACKTC  488 (623)
Q Consensus       410 l~~w~~~~g~~~~~~~~~~~~~~~~~~~~~~~~~~~~ti~~i~~~~~~~~~~~~~-~~v~a~I~~i~~d~~~~Y~aC~~C  488 (623)
                                      +..             ...+++|.++.+.      ...| ..+.|+|+.|... +..|..||.|
T Consensus       260 ----------------v~~-------------~~~~~~I~e~~~~------~g~~~Vev~G~Iv~i~~g-sgli~rCP~C  303 (423)
T PRK07218        260 ----------------VSK-------------DPPRLKIREAVER------GGIFDVELVGNIISVRDG-SGLIERCPEC  303 (423)
T ss_pred             ----------------ccC-------------Cccccchhhhhcc------CCcceEEEEEEEEEeccC-CcceecCcCc
Confidence                            100             1245678887661      1223 6899999999987 4569999999


Q ss_pred             ccceecCCCCeeecCcCCCCccccceeEEEEEEEEeCCCcEEEEEehHhHHHHhCCCHHHHHHHHhhcCCchhHHHHH-H
Q 006973          489 NKKVTDALGSGYWCEGCQKNDEECSLRYIMVARVCDGSGEAWISIFNEEAERIIGCSADELNELKSQLGDDNSYQMKL-K  567 (623)
Q Consensus       489 ~KKv~~~~~~~~~C~kC~~~~~~~~~ry~l~~~i~D~Tg~~~~~~F~~~ae~llG~sA~el~~~~~~~~~~~~~~~~l-~  567 (623)
                      +|+|..     |.|+-|++.  ++.+-.++.+.+.|+||++.+++|++.+++|+|++.++..+|..+.-+.......+ .
T Consensus       304 ~r~v~~-----~~C~~hG~v--e~~~dlrik~vLDDGtg~~~~~~~~e~~e~l~G~~~e~a~~~~~~~~d~~~v~~~i~~  376 (423)
T PRK07218        304 GRVIQK-----GQCRSHGAV--EGEDDLRIKAILDDGTGSVTVILDRELTEIVYGGTLEDAEELAREAMDKDVVAEDIRE  376 (423)
T ss_pred             cccccC-----CcCCCCCCc--CCeeeeEEEEEEECCCCeEEEEEChhhhHhHhCCCHHHHHHHHHhhhcchhhHHHHHH
Confidence            999953     789999986  57788888999999999999999999999999999999988775433333333444 6


Q ss_pred             HhcCceEEEEEEEEeeecCceeeeEEEEEEeeccC--HHHHHHHHHHH
Q 006973          568 EVTWVPHLLRVSVAQQEYNNEKRQRVTVRAVAPVD--FAAESKFLLEE  613 (623)
Q Consensus       568 ~~~~~~~~f~v~~k~~~y~~~~r~~~~v~~~~~vd--~~~e~~~Ll~~  613 (623)
                      .++|+.|.|+..+..+.|.    ..+.+.+...+|  .++-++.||.+
T Consensus       377 ~llG~~~~v~G~~~~~~~g----~~~~a~~~~~~~~~~~~r~~~~l~~  420 (423)
T PRK07218        377 RLVGREYRVRGNLSVDEYG----ANLVAESFWVPDDDPAKRAVALLAE  420 (423)
T ss_pred             hhcCcEEEEEeccccccCC----cEEEEeEccccCCCHHHHHHHHHHh
Confidence            7999999999998888884    567888888886  34444455543

>cd04476 RPA1_DBD_C RPA1_DBD_C: A subfamily of OB folds corresponding to the C-terminal OB fold, the ssDNA-binding domain (DBD)-C, of human RPA1 (also called RPA70)

Probab=100.00  E-value=9.2e-36  Score=283.82  Aligned_cols=154  Identities=45%  Similarity=0.766  Sum_probs=145.4

Q ss_pred             CCCeEEEEEEEEEEEeCCCCeEeccccccccceecCCCCeeecCcCCCCccccceeEEEEEEEEeCCCcEEEEEehHhHH
Q 006973          460 EKPVFFSIKAYISLIKPDQAMWYRACKTCNKKVTDALGSGYWCEGCQKNDEECSLRYIMVARVCDGSGEAWISIFNEEAE  539 (623)
Q Consensus       460 ~~~~~~~v~a~I~~i~~d~~~~Y~aC~~C~KKv~~~~~~~~~C~kC~~~~~~~~~ry~l~~~i~D~Tg~~~~~~F~~~ae  539 (623)
                      +++++|.|+|+|..|+.+ +|||+|||.|+|||.+..++.|+|++|++...+|.+||+|++.|+|+||++|+++||+.|+
T Consensus        13 ~~~~~~~v~a~I~~I~~~-~~~Y~aC~~C~kkv~~~~~~~~~C~~C~~~~~~~~~ry~l~~~i~D~Tg~~~~~~F~~~ae   91 (166)
T cd04476          13 EKPDYFTVKATIVFIKPD-NWWYPACPGCNKKVVEEGNGTYRCEKCNKSVPNPEYRYILSLNVADHTGEAWLTLFDEVAE   91 (166)
T ss_pred             CCCCEEEEEEEEEEEcCC-CeEEccccccCcccEeCCCCcEECCCCCCcCCCccEEEEEEEEEEeCCCCEEEEEehHHHH
Confidence            468899999999999998 8999999999999998744899999999999899999999999999999999999999999


Q ss_pred             HHhCCCHHHHHHHHhhcCCchhHHHHHHHhcCceEEEEEEEEeeecCceeeeEEEEEEeeccCHHHHHHHHHHHHHh
Q 006973          540 RIIGCSADELNELKSQLGDDNSYQMKLKEVTWVPHLLRVSVAQQEYNNEKRQRVTVRAVAPVDFAAESKFLLEEISK  616 (623)
Q Consensus       540 ~llG~sA~el~~~~~~~~~~~~~~~~l~~~~~~~~~f~v~~k~~~y~~~~r~~~~v~~~~~vd~~~e~~~Ll~~i~~  616 (623)
                      +|||++|+||.++.+++  +..++..|.++.|++|.|+++++.++||+|.|++|+|.++.|+++++|+++|++.|++
T Consensus        92 ~l~G~sa~el~~~~~~~--~~~~~~~i~~~~gk~~~f~v~~~~~~y~~e~~~~~~v~~i~~~~~~~~~~~l~~~i~~  166 (166)
T cd04476          92 QIFGKSAEELLELKEED--PDAFPDAIQDLVGKTFLFRVSVKEETYNDEGRIRYTVVKVAPVDYKKESKRLIQSIEK  166 (166)
T ss_pred             HHhCCCHHHHHHHhhcC--HHHHHHHHHHhhCceEEEEEEEEehhcCCcceEEEEEEEcccCCHHHHHHHHHHHhhC
Confidence            99999999999988654  4689999999999999999999999999999999999999999999999999999863

RPA1 is the large subunit of Replication protein A (RPA). RPA is a nuclear ssDNA-binding protein (SSB) which appears to be involved in all aspects of DNA metabolism including replication, recombination, and repair. RPA also mediates specific interactions of various nuclear proteins. In animals, plants, and fungi, RPA is a heterotrimer with subunits of 70KDa (RPA1), 32kDa (RPA2), and 14 KDa (RPA3). In addition to DBD-C, RPA1 contains three other OB folds: DBD-A, DBD-B, and RPA1N. The major DNA binding activity of RPA is associated with RPA1 DBD-A and DBD-B. RPA1 DBD-C is involved in DNA binding and trimerization. It contains two structural insertions not found to date in other OB-folds: a zinc ribbon and a three-helix bundle. RPA1 DBD-C also contains a Cys4-type zinc-binding motif, which plays a role in the ssDNA binding fun

>PF08646 Rep_fac-A_C: Replication factor-A C terminal domain; InterPro: IPR013955 Replication factor A (RP-A) binds and subsequently stabilises single-stranded DNA intermediates and thus prevents complementary DNA from reannealing

Probab=100.00  E-value=3.3e-36  Score=280.71  Aligned_cols=144  Identities=42%  Similarity=0.751  Sum_probs=122.1

Q ss_pred             EEEEEEEEEEEeCCCCeEecccc--ccccceecCCCCeeecCcCCCCccccceeEEEEEEEEeCCCcEEEEEehHhHHHH
Q 006973          464 FFSIKAYISLIKPDQAMWYRACK--TCNKKVTDALGSGYWCEGCQKNDEECSLRYIMVARVCDGSGEAWISIFNEEAERI  541 (623)
Q Consensus       464 ~~~v~a~I~~i~~d~~~~Y~aC~--~C~KKv~~~~~~~~~C~kC~~~~~~~~~ry~l~~~i~D~Tg~~~~~~F~~~ae~l  541 (623)
                      ||+|+|+|..|..+ +|||+|||  .|+|||...++|.|+|++|++..++|.+||+|++.|+|+||++|+++||+.|++|
T Consensus         1 ~~~v~a~I~~I~~~-~~~Y~aC~~~~C~kKv~~~~~~~y~C~~C~~~~~~~~~ry~l~~~i~D~tg~~~~~~F~~~a~~l   79 (146)
T PF08646_consen    1 YFTVRATIVEIKSD-NWYYPACPNEKCNKKVTENGDGSYRCEKCNKTVENPKYRYRLSLKISDGTGSIWVTLFDEEAEQL   79 (146)
T ss_dssp             EEEEEEEEEEEETT-TTEEEE-TSTTTS-B-EEETTTEEEETTTTEEESS-EEEEEEEEEEEETTEEEEEEEEHHHHHHH
T ss_pred             CEEEEEEEEEEECC-CcEECCCCCccCCCEeecCCCcEEECCCCCCcCCCeeEEEEEEEEEEeCCCeEEEEEEhHHHHHH
Confidence            79999999999987 89999999  9999999876789999999999889999999999999999999999999999999


Q ss_pred             hCCCHHHHHHHHhhcCCchhHHHHHHHhcCceEEEEEEEEeeecCceeeeEEEEEEeeccCHHHHHHHH
Q 006973          542 IGCSADELNELKSQLGDDNSYQMKLKEVTWVPHLLRVSVAQQEYNNEKRQRVTVRAVAPVDFAAESKFL  610 (623)
Q Consensus       542 lG~sA~el~~~~~~~~~~~~~~~~l~~~~~~~~~f~v~~k~~~y~~~~r~~~~v~~~~~vd~~~e~~~L  610 (623)
                      ||++|+||.++.+  .++..++.++++++|++|.|+++++.++|+++.|++++|++++|+||++|+++|
T Consensus        80 ~G~~a~el~~~~~--~~~~~~~~~~~~~~~~~~~f~v~~~~~~y~~e~r~~~~v~~i~~vd~~~e~~~l  146 (146)
T PF08646_consen   80 LGMSADELKELKE--EDPEEFPKIIKKLLGKEFVFRVRVKKESYNDESRVKYTVVRIEPVDYAEESKRL  146 (146)
T ss_dssp             HCCHHCCCHHHCC--C-HHHHHHHHHCTTT-EEEEEEEEEE--------EEEEEEEEEE--HHHHHHHH
T ss_pred             hCCCHHHHHHHHh--hchhHHHHHHHHhhCcEEEEEEEEEEhhhCCceEEEEEEEEeEeCCHHHHhhcC
Confidence            9999999999876  346689999999999999999999999999999999999999999999999987

It also plays an essential role in several cellular processes in DNA metabolism including replication, recombination and repair of DNA []. Replication factor-A protein is also known as Replication protein A 70 kDa DNA-binding subunit. This entry is found at the C terminus of Replication factor A.; PDB: 1L1O_F 3U50_C.

>PRK06386 replication factor A; Reviewed

Probab=100.00  E-value=3.2e-31  Score=275.31  Aligned_cols=339  Identities=19%  Similarity=0.232  Sum_probs=272.0

Q ss_pred             eeccccCCCCCCeEEEEEEEeeccccccccCCCcccEEEEEEEeCCCCeEEEEEechHHHHHHhhcccCcEEEEeeeEEE
Q 006973          175 HPLVSLNPYQGNWTIKVRVTSKGNMRTYKNARGEGCVFNVELTDEDGTQIQATMFNEAARKFYDRFQLGKVYYISRGTLR  254 (623)
Q Consensus       175 ~~I~~L~p~~~~w~I~~RV~~K~~~r~~~~~~g~g~~f~~~L~D~~G~~I~at~~~~~~~kf~~~l~eG~vy~is~~~V~  254 (623)
                      +.|++|.|...+-+|+|||+..| .|++..++|+..+.+-+|.|++| .|+.|+|+.     .+.|++|++|.|.|+.++
T Consensus         3 ~kI~DI~~~~~~V~v~akVl~~~-~r~i~~~~g~~~~~~gllgDeTG-~I~fT~W~~-----~~~l~~Gd~v~i~na~v~   75 (358)
T PRK06386          3 SKISDINAARQNVDLKVKVLSLN-KRTIKNDRGETIYYYGIIGDETG-TVPFTAWEF-----PDAVKSGDVIEIKYCYSK   75 (358)
T ss_pred             cchhhcCCCCCcEEEEEEEEEcc-ceEEecCCCCeEEEEEEEECCcc-eEEEEecCC-----cccCCCCCEEEEEeEEEe
Confidence            57999999999999999999999 68998878776677889999999 999999995     246899999999999987


Q ss_pred             ecCCCccccCCceEEEEccCcEEEEccCcCCCCCCCccccccccccccccCCcceeEEEEEEEEeCCceEEEEccCCcee
Q 006973          255 VANKQFKTVQNDYEMNLNENSEVEEAVNETAFIPQTKFNFVPIDELGRYVNGTELVDIIGVVQNVSPTMSIRRKSNNEMV  334 (623)
Q Consensus       255 ~a~~~~~~~~~~yei~f~~~T~I~~~~d~~~~iP~~~~~f~~i~di~~~~~~~~~vDVIGvV~~v~~~~~i~~k~~g~~~  334 (623)
                      ..+.       .++|.++..|+|.+..|.... +...+..++|.||..   ....|+|.|.|.++.+ .++.+  +|...
T Consensus        76 ~~~G-------~~~Lnv~~~t~v~~~~d~~ie-v~~~~~~~KI~DL~~---g~~~v~V~akVle~~e-~e~~~--~g~~~  141 (358)
T PRK06386         76 EYNG-------KIRIYFDSRSEVMLKPDENIE-VKRTYKLVKIRDLSL---VTPYVSVIGKITGITK-KEYDS--DGTSK  141 (358)
T ss_pred             eECC-------EEEEEEcCceEEEecCccccc-cccccCccEeEeccC---CCCceEEEEEEEEccC-ceEec--CCCcc
Confidence            7544       578999999999766543211 222356789999964   3567999999999976 57763  35567


Q ss_pred             eEEEEEEEeCCccEEEEEEechhhhhhhhHhhhcCCCCcEEEEEeEEeeeccce-eeecccceEEEEcCChHHHHHHHHH
Q 006973          335 PKRDITVADETKRTVTVSLWNELATNVGQELLDNADKSPIVAIKSLKVGDFQGI-SLSTLGRSTVLVSPDLPEAKKLKSW  413 (623)
Q Consensus       335 ~kr~i~l~D~sg~~I~vtLWg~~A~~~~~~~~~~~~~~~Vv~i~~~kV~~f~G~-~Ls~~~~S~i~iNPd~pe~~~l~~w  413 (623)
                      ..+++.|.|+|| +|++|||++.           +..+.++-|.++.+.+|+|+ +|+.+..|+|...|+.-|       
T Consensus       142 ~v~sg~lgDeTG-rIr~TlW~~~-----------l~eGd~v~i~na~v~e~~G~~el~v~~~t~I~~~~~~ie-------  202 (358)
T PRK06386        142 IVYQGYIEDDTA-RVRISSFGKP-----------LEDNRFVRIENARVSQYNGYIEISVGNKSVIKEVESDIN-------  202 (358)
T ss_pred             EEEEEEEEcCCC-eEEEEEcccc-----------ccCCCEEEEeeeEEEccCCeEEEEeCCeEEEEECCCCcc-------
Confidence            889999999999 9999999872           34589999999999999996 899999999887664211       


Q ss_pred             HHhCCCccceeeecCCcCccccCCcccccccceehhccccCCCCCCCCCeEEEEEEEEEEEeCCCCeEecccccccccee
Q 006973          414 YESEGKGTSMASIGSGLGSLAKNGARSMYSDRVSLTHITSNPSLGDEKPVFFSIKAYISLIKPDQAMWYRACKTCNKKVT  493 (623)
Q Consensus       414 ~~~~g~~~~~~~~~~~~~~~~~~~~~~~~~~~~ti~~i~~~~~~~~~~~~~~~v~a~I~~i~~d~~~~Y~aC~~C~KKv~  493 (623)
                                  +               ...+++|.+|.+..  +     -..+.|+|+.|... ...|..||.|+|+|.
T Consensus       203 ------------v---------------~~~~~~I~di~~~~--g-----~v~i~G~iv~i~~g-sgli~rCP~C~R~l~  247 (358)
T PRK06386        203 ------------L---------------ESRNIFIFEIKSPV--G-----GITIMGFIVSVGQG-SRIFTKCSVCNKIIE  247 (358)
T ss_pred             ------------c---------------CccccchhhhhccC--C-----eEEEEEEEEEEcCC-cEeEecCcCCCeEcc
Confidence                        1               02357788887721  1     16788999999976 456999999999997


Q ss_pred             cCCCCeeecCcCCCCccccceeEEEEEEEEeCCCcEEEEEehHhHHHHhCCCHHHHHHHHhhcCCchhHHHHH-HHhcCc
Q 006973          494 DALGSGYWCEGCQKNDEECSLRYIMVARVCDGSGEAWISIFNEEAERIIGCSADELNELKSQLGDDNSYQMKL-KEVTWV  572 (623)
Q Consensus       494 ~~~~~~~~C~kC~~~~~~~~~ry~l~~~i~D~Tg~~~~~~F~~~ae~llG~sA~el~~~~~~~~~~~~~~~~l-~~~~~~  572 (623)
                      .     +.|+.|++.  .+.+-.++.+.+.|+||++.+++|++.+++|+|++-+|+.++.-. -+  .. ..+ ..++|+
T Consensus       248 ~-----g~C~~HG~v--~~~~dlr~k~vLDDGtg~~~~~l~~e~~e~l~G~~lee~~~~a~~-~~--~~-~~i~~~llGr  316 (358)
T PRK06386        248 D-----GVCKDHPDA--PVYLDIFGYFTISDGTGFVTCYANKDSFLPYININENEFARKASS-MN--PN-MLIKKNLLGK  316 (358)
T ss_pred             C-----CcCCCCCCC--CCeeEEEEEEEEECCCCeEEEEEChHHhHHHhCCCHHHHHHHhhc-cC--HH-HHhhhhhccc
Confidence            4     489999973  466777778899999999999999999999999999999765421 11  22 222 578999


Q ss_pred             eEEEEEEEEeeecCceeeeEEEEEEeeccCH
Q 006973          573 PHLLRVSVAQQEYNNEKRQRVTVRAVAPVDF  603 (623)
Q Consensus       573 ~~~f~v~~k~~~y~~~~r~~~~v~~~~~vd~  603 (623)
                      .|.|+..+..+.|.    +.+.|.++..+|.
T Consensus       317 ~~~v~G~~~~~~~~----~~~~~~~~~~~~~  343 (358)
T PRK06386        317 CFSVTGDLRKKDDE----IDMNVISAKSITA  343 (358)
T ss_pred             EEEEEcceEeccCC----eEEEEEEeeeccc
Confidence            99999999988777    6899999999986

>PRK12366 replication factor A; Reviewed

Probab=100.00  E-value=9.7e-32  Score=303.71  Aligned_cols=283  Identities=21%  Similarity=0.301  Sum_probs=226.4

Q ss_pred             CcCeeeccccCCCCCCeEEEEEEEeeccccccccCCC-cccEEEEEEEeCCCCeEEEEEechHHHHHHhhcccCcEEEEe
Q 006973          171 TRRVHPLVSLNPYQGNWTIKVRVTSKGNMRTYKNARG-EGCVFNVELTDEDGTQIQATMFNEAARKFYDRFQLGKVYYIS  249 (623)
Q Consensus       171 ~~~~~~I~~L~p~~~~w~I~~RV~~K~~~r~~~~~~g-~g~~f~~~L~D~~G~~I~at~~~~~~~kf~~~l~eG~vy~is  249 (623)
                      ..+++||++|+||+.+|+|+|||+.||++|+|.+.+| +|++|+++|.|++| +|++|+|++.++. ++.|++|+||.|+
T Consensus        60 ~~~~~~I~dl~p~~~~v~i~arV~~~~~~r~~~~~~G~eGkv~~~~v~DetG-~Ir~t~W~~~~~~-~~~le~G~v~~i~  137 (637)
T PRK12366         60 EEEDFKISDIEEGQINVEITGRIIEISNIKTFTRKDGSTGKLANITIADNTG-TIRLTLWNDNAKL-LKGLKEGDVIKIE  137 (637)
T ss_pred             ccceeEHHHCcCCCcceEEEEEEEEccCCeEEECCCCCccEEEEEEEEcCCC-EEEEEEEchhhhh-hccCCCCCEEEEe
Confidence            3468999999999999999999999999999998877 89999999999999 8999999999885 6899999999999


Q ss_pred             eeEEEecCCCccccCCceEEEEccCcEEEEccC-cCCCCCCCccccccccccccccCCcceeEEEEEEEEeCCceEEEEc
Q 006973          250 RGTLRVANKQFKTVQNDYEMNLNENSEVEEAVN-ETAFIPQTKFNFVPIDELGRYVNGTELVDIIGVVQNVSPTMSIRRK  328 (623)
Q Consensus       250 ~~~V~~a~~~~~~~~~~yei~f~~~T~I~~~~d-~~~~iP~~~~~f~~i~di~~~~~~~~~vDVIGvV~~v~~~~~i~~k  328 (623)
                      ++.++.       .+++|+|+++..|+|.++++ ++..+|...++| +|.||..    +..|||+|+|++++|+..|++|
T Consensus       138 ~~~v~~-------~~~~~el~~~~~t~I~~~~~~d~~~i~~~~~~~-~I~el~~----g~~v~v~G~V~~~~~~~~f~rk  205 (637)
T PRK12366        138 NARSRK-------WNNDVELNSGSETRIDKLEKYDESRYPIIKENY-DIPELEP----NLSATIEGEVTKAYPIKEFTRK  205 (637)
T ss_pred             ccEecc-------cCCceEEEcCCcceEEEccccccccCCcccccc-cccccCC----CCeEEEEEEEEEccCcEEEEEc
Confidence            998865       35779999999999999973 235788877666 7777753    5599999999999999999988


Q ss_pred             cCCceeeEEEEEEEeCCccEEEEEEechhhhhhhhHhhhcCCCCcEEEEEeEEeeec-cceeeecccceEEEEcCChHHH
Q 006973          329 SNNEMVPKRDITVADETKRTVTVSLWNELATNVGQELLDNADKSPIVAIKSLKVGDF-QGISLSTLGRSTVLVSPDLPEA  407 (623)
Q Consensus       329 ~~g~~~~kr~i~l~D~sg~~I~vtLWg~~A~~~~~~~~~~~~~~~Vv~i~~~kV~~f-~G~~Ls~~~~S~i~iNPd~pe~  407 (623)
                       +|++..+|++.|.|+|| +|++||||+.|...       ...++++.|++..+..| +|..|+.+..+.|-...+.   
T Consensus       206 -dg~~~~~r~~~l~D~TG-~irvTlW~~~a~~~-------~~~g~vv~i~g~~~~~~~~~~el~~~~~~~i~~~~~~---  273 (637)
T PRK12366        206 -DGSEGKLKSFILKDDTG-SIRVTLWNDLTDIE-------VNKGDIVRVKGYVKQGYRTGLEISANNIEILEKLEKE---  273 (637)
T ss_pred             -CCCeeEEEEEEEEcCCC-cEEEEEEChhhccc-------CCCCCEEEEEeEEecCcCCceEEEeCCceeecccccc---
Confidence             79999999999999999 89999999999531       46799999999888889 5678888665544311100   


Q ss_pred             HHHHHHHHhCCCccceeeecCCcCccccCCcccccccceehhccccCCCCCCCCCeEEEEEEEEEEEeCCCCeEeccccc
Q 006973          408 KKLKSWYESEGKGTSMASIGSGLGSLAKNGARSMYSDRVSLTHITSNPSLGDEKPVFFSIKAYISLIKPDQAMWYRACKT  487 (623)
Q Consensus       408 ~~l~~w~~~~g~~~~~~~~~~~~~~~~~~~~~~~~~~~~ti~~i~~~~~~~~~~~~~~~v~a~I~~i~~d~~~~Y~aC~~  487 (623)
                                    .                  ...+...|++|..-     +....++++|.|..+..-..|-      
T Consensus       274 --------------~------------------~~~~~~pI~~L~~~-----~~g~~~~I~grV~~~~~~R~f~------  310 (637)
T PRK12366        274 --------------E------------------KELEIVNIEELTEF-----EDGEEVDVKGRIIAISDKREVE------  310 (637)
T ss_pred             --------------c------------------cccCceeHHHCCcc-----cCCCEEEEEEEEEecCCceEEE------
Confidence                          0                  01133557777541     1123589999999986543331      


Q ss_pred             cccceecCCCCeeecCcCCCCccccceeEEEEEEEEeCCCcEEEEEehHhHHHHhCC
Q 006973          488 CNKKVTDALGSGYWCEGCQKNDEECSLRYIMVARVCDGSGEAWISIFNEEAERIIGC  544 (623)
Q Consensus       488 C~KKv~~~~~~~~~C~kC~~~~~~~~~ry~l~~~i~D~Tg~~~~~~F~~~ae~llG~  544 (623)
                            .. +|               .-...++.+.|.||++.+++|++.|.++.++
T Consensus       311 ------~~-~g---------------~gkv~s~~l~D~tG~IR~t~w~~~~d~~~~l  345 (637)
T PRK12366        311 ------RD-DR---------------TAEVQDIELADGTGRVRVSFWGEKAKILENL  345 (637)
T ss_pred             ------cC-CC---------------cEEEEEEEEEcCCCeEEEEEeCchhhhhccc
Confidence                  00 11               1366788999999999999999999877553

>PRK07211 replication factor A; Reviewed

Probab=100.00  E-value=1.3e-31  Score=287.36  Aligned_cols=289  Identities=21%  Similarity=0.326  Sum_probs=226.4

Q ss_pred             ceEEEeeeeecC-------ce-EEEEEeCcccceeeccccccccccccCccceeeEEEEcceeeeccCCCceEEEEEEee
Q 006973           28 IVVQVLDLKLTG-------NR-YMFNASDGKKRLKAILPSNLSSEVISGNIQNKGLIRLLDYALNEIPTKSEKYLIVTKC   99 (623)
Q Consensus        28 pvlQvl~~k~~~-------~r-yr~~lSDG~~~~~~mlat~ln~~v~~~~l~~~siirl~~y~~~~~~~~~~~vlii~~l   99 (623)
                      -|+++-++|.+.       +| +.+.|.|-...+++.||.+..+.. -+.|+.|.+++|+.....    ....+    +|
T Consensus        71 RV~~~~~~Rt~~~~~~~~eGkv~~v~l~DeTG~Ir~TlW~d~ad~~-~~~Le~GdV~~I~~~~~~----~ys~~----El  141 (485)
T PRK07211         71 KVLSIGDLRTFERDGEDEDGRVINVEVADETGSVRVAFWDEQAVAA-EEELEVGQVLRIKGRPKD----GYNGL----EV  141 (485)
T ss_pred             EEeEccCceEEEeCCCCCCcEEEEEEEEcCCCeEEEEEechHhHhh-hcccCCCCEEEEeceEec----cccce----EE
Confidence            456666777652       23 589999999999999998876663 447999999999654321    11111    22


Q ss_pred             eeeccccchhhccccCCCCCcccCCCCCccccCCCCCCcccCchhhhhhhhhhhhhccccCCCCccccccCCcCeeeccc
Q 006973          100 EVVSPALEMEIKIEVKSDESGIIFKPKQEDEVKKDGPGIVLKPKQEMVAKSAAQILRDQNGNMAPAARLAMTRRVHPLVS  179 (623)
Q Consensus       100 ev~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~I~~  179 (623)
                      .+-  .  +    .+         .+..           ...+                           ....++||++
T Consensus       142 ~i~--~--v----e~---------~~d~-----------~i~~---------------------------~~~~~~~I~d  166 (485)
T PRK07211        142 SVD--K--V----EP---------DPDA-----------EIDV---------------------------QIGDTYTVED  166 (485)
T ss_pred             EEe--e--E----EE---------cccc-----------cccc---------------------------cccCCccHHH
Confidence            111  0  0    00         0000           0000                           0124789999


Q ss_pred             cCCCCCCeEEEEEEEeeccccccccCCC-cccEEEEEEEeCCCCeEEEEEechHHHHHHhhcccCcEEEEeeeEEEecCC
Q 006973          180 LNPYQGNWTIKVRVTSKGNMRTYKNARG-EGCVFNVELTDEDGTQIQATMFNEAARKFYDRFQLGKVYYISRGTLRVANK  258 (623)
Q Consensus       180 L~p~~~~w~I~~RV~~K~~~r~~~~~~g-~g~~f~~~L~D~~G~~I~at~~~~~~~kf~~~l~eG~vy~is~~~V~~a~~  258 (623)
                      |+|++..|.|+|||+.++++|+|.+.+| +|++++++|.|++| +|++|+|++.+++| +.|++|+||.|++++|+..  
T Consensus       167 L~~~~~~v~I~grV~~v~~iRtf~r~dGseGkv~sv~L~DeTG-~IR~TlW~d~Ad~~-~~le~G~Vv~I~~a~Vre~--  242 (485)
T PRK07211        167 LSLGLSDVTLVGVVLDTDSVRTFDRDDGSEGRVSNLTVGDETG-RVRVTLWDDRADLA-EELDAGESVEIVDGYVRER--  242 (485)
T ss_pred             cCCCCCceEEEEEEEEcCCCeEEECCCCCeeEEEEEEEEcCCC-eEEEEEechhhhhh-ccCCCCCEEEEEeeEEEec--
Confidence            9999999999999999999999998887 89999999999999 79999999999999 7799999999999999875  


Q ss_pred             CccccCCceEEEEccCcEEEEccCcCCCCCCCccccccccccccccCCcceeEEEEEEEEeCCceEEEEccCCceeeEEE
Q 006973          259 QFKTVQNDYEMNLNENSEVEEAVNETAFIPQTKFNFVPIDELGRYVNGTELVDIIGVVQNVSPTMSIRRKSNNEMVPKRD  338 (623)
Q Consensus       259 ~~~~~~~~yei~f~~~T~I~~~~d~~~~iP~~~~~f~~i~di~~~~~~~~~vDVIGvV~~v~~~~~i~~k~~g~~~~kr~  338 (623)
                           .+.|+|+++..|.|++++++...+|.    +.+|.+|.    .+..|||+|+|++++++.+|+++ +|++..+|+
T Consensus       243 -----~g~~ELsl~~~s~I~~~~dev~~vp~----~~~I~dl~----~g~~vdV~GvV~~v~~~rtf~r~-dG~~~~vr~  308 (485)
T PRK07211        243 -----DGSLELHVGDRGAVEEVDEDVEYVPD----TTPIESLE----IDETVDIAGVVRSADPKRTFDRD-DGSEGQVRN  308 (485)
T ss_pred             -----CCcEEEEECCCceEEECCcccccccc----cccHhhcC----CCCceeEEEEEEEccCcEEEEcC-CCCEeEEEE
Confidence                 37899999999999999764234564    35666654    45689999999999999999865 599999999


Q ss_pred             EEEEeCCccEEEEEEechhhhhhhhHhhhcCCCCcEEEEEeEEeeec--cceeeecccceEEEEcCChHH
Q 006973          339 ITVADETKRTVTVSLWNELATNVGQELLDNADKSPIVAIKSLKVGDF--QGISLSTLGRSTVLVSPDLPE  406 (623)
Q Consensus       339 i~l~D~sg~~I~vtLWg~~A~~~~~~~~~~~~~~~Vv~i~~~kV~~f--~G~~Ls~~~~S~i~iNPd~pe  406 (623)
                      ++|.|+|| +|++||||+.|. +      .+..+++|+|++++|++|  +|++||+.++|.|.+-.+-|+
T Consensus       309 l~l~D~TG-~IrvTLWg~~A~-~------~i~~GdvV~Ikg~~V~dg~~ggleLS~g~~s~i~~~~~~~~  370 (485)
T PRK07211        309 VRIQDDTG-DIRVALWGEKAD-L------DIGPGDEVVAADVEIQDGWQDDLEASAGWQSTVVVLDDGAD  370 (485)
T ss_pred             EEEEcCCC-cEEEEEeCcccc-C------CCCCCCEEEEEccEEEecCCCCEEEEecCCceEEEcccccc
Confidence            99999999 899999999994 2      156799999999999998  689999998888876554333

>PRK07211 replication factor A; Reviewed

Probab=100.00  E-value=2.6e-31  Score=285.05  Aligned_cols=274  Identities=21%  Similarity=0.343  Sum_probs=217.8

Q ss_pred             CeeeccccCCCCCCeEEEEEEEeeccccccccC--CCcccEEEEEEEeCCCCeEEEEEechHHHHHHhhcccCcEEEEee
Q 006973          173 RVHPLVSLNPYQGNWTIKVRVTSKGNMRTYKNA--RGEGCVFNVELTDEDGTQIQATMFNEAARKFYDRFQLGKVYYISR  250 (623)
Q Consensus       173 ~~~~I~~L~p~~~~w~I~~RV~~K~~~r~~~~~--~g~g~~f~~~L~D~~G~~I~at~~~~~~~kf~~~l~eG~vy~is~  250 (623)
                      .+.+|++|+|++++|+|+|||+.|+++|+|+++  +++|++|+++|.|++| +|++|+|++.+++|++.|++|+||+|.+
T Consensus        52 e~~~I~dL~pg~~~vtI~aRV~~~~~~Rt~~~~~~~~eGkv~~v~l~DeTG-~Ir~TlW~d~ad~~~~~Le~GdV~~I~~  130 (485)
T PRK07211         52 EVNGIADIEPGMDEVKFLAKVLSIGDLRTFERDGEDEDGRVINVEVADETG-SVRVAFWDEQAVAAEEELEVGQVLRIKG  130 (485)
T ss_pred             ccccHhhCCCCCCceEEEEEEeEccCceEEEeCCCCCCcEEEEEEEEcCCC-eEEEEEechHhHhhhcccCCCCEEEEec
Confidence            467999999999999999999999999999986  4589999999999999 9999999999999999999999999964


Q ss_pred             eEEEecCCCccccCCceEEEEccCcEEEEccCcCCCCCCCccccccccccccccCCcceeEEEEEEEEeCCceEEEEccC
Q 006973          251 GTLRVANKQFKTVQNDYEMNLNENSEVEEAVNETAFIPQTKFNFVPIDELGRYVNGTELVDIIGVVQNVSPTMSIRRKSN  330 (623)
Q Consensus       251 ~~V~~a~~~~~~~~~~yei~f~~~T~I~~~~d~~~~iP~~~~~f~~i~di~~~~~~~~~vDVIGvV~~v~~~~~i~~k~~  330 (623)
                       .++   +.|+..    ||+|+   .|+++.+.  .+|....+|.+|.+|..   ....+||+|+|+.+++++++.++ +
T Consensus       131 -~~~---~~ys~~----El~i~---~ve~~~d~--~i~~~~~~~~~I~dL~~---~~~~v~I~grV~~v~~iRtf~r~-d  193 (485)
T PRK07211        131 -RPK---DGYNGL----EVSVD---KVEPDPDA--EIDVQIGDTYTVEDLSL---GLSDVTLVGVVLDTDSVRTFDRD-D  193 (485)
T ss_pred             -eEe---ccccce----EEEEe---eEEEcccc--cccccccCCccHHHcCC---CCCceEEEEEEEEcCCCeEEECC-C
Confidence             443   667653    99998   48887764  34444569999999975   35689999999999999999765 5


Q ss_pred             CceeeEEEEEEEeCCccEEEEEEechhhhhhhhHhhhcCCCCcEEEEEeEEeeeccc-eeeecccceEEEEcCChHHHHH
Q 006973          331 NEMVPKRDITVADETKRTVTVSLWNELATNVGQELLDNADKSPIVAIKSLKVGDFQG-ISLSTLGRSTVLVSPDLPEAKK  409 (623)
Q Consensus       331 g~~~~kr~i~l~D~sg~~I~vtLWg~~A~~~~~~~~~~~~~~~Vv~i~~~kV~~f~G-~~Ls~~~~S~i~iNPd~pe~~~  409 (623)
                      |++...+++.|.|+|| +|++|||++.|..|.     .+..++|+.|++++|++|+| .+|+....|.|..-++.  +  
T Consensus       194 GseGkv~sv~L~DeTG-~IR~TlW~d~Ad~~~-----~le~G~Vv~I~~a~Vre~~g~~ELsl~~~s~I~~~~de--v--  263 (485)
T PRK07211        194 GSEGRVSNLTVGDETG-RVRVTLWDDRADLAE-----ELDAGESVEIVDGYVRERDGSLELHVGDRGAVEEVDED--V--  263 (485)
T ss_pred             CCeeEEEEEEEEcCCC-eEEEEEechhhhhhc-----cCCCCCEEEEEeeEEEecCCcEEEEECCCceEEECCcc--c--
Confidence            8889999999999999 799999999999873     25679999999999999965 78998888888765541  0  


Q ss_pred             HHHHHHhCCCccceeeecCCcCccccCCcccccccceehhccccCCCCCCCCCeEEEEEEEEEEEeCCCCeEeccccccc
Q 006973          410 LKSWYESEGKGTSMASIGSGLGSLAKNGARSMYSDRVSLTHITSNPSLGDEKPVFFSIKAYISLIKPDQAMWYRACKTCN  489 (623)
Q Consensus       410 l~~w~~~~g~~~~~~~~~~~~~~~~~~~~~~~~~~~~ti~~i~~~~~~~~~~~~~~~v~a~I~~i~~d~~~~Y~aC~~C~  489 (623)
                                  .+  +                .....|.++..        .....|.|.|..+..-..+         
T Consensus       264 ------------~~--v----------------p~~~~I~dl~~--------g~~vdV~GvV~~v~~~rtf---------  296 (485)
T PRK07211        264 ------------EY--V----------------PDTTPIESLEI--------DETVDIAGVVRSADPKRTF---------  296 (485)
T ss_pred             ------------cc--c----------------cccccHhhcCC--------CCceeEEEEEEEccCcEEE---------
Confidence                        00  0                00122443322        1247788888888653222         


Q ss_pred             cceecCCCCeeecCcCCCCccccceeEEEEEEEEeCCCcEEEEEehHhHH
Q 006973          490 KKVTDALGSGYWCEGCQKNDEECSLRYIMVARVCDGSGEAWISIFNEEAE  539 (623)
Q Consensus       490 KKv~~~~~~~~~C~kC~~~~~~~~~ry~l~~~i~D~Tg~~~~~~F~~~ae  539 (623)
                         .         .+++      ....+.++.|.|.||++++++|++.|+
T Consensus       297 ---~---------r~dG------~~~~vr~l~l~D~TG~IrvTLWg~~A~  328 (485)
T PRK07211        297 ---D---------RDDG------SEGQVRNVRIQDDTGDIRVALWGEKAD  328 (485)
T ss_pred             ---E---------cCCC------CEeEEEEEEEEcCCCcEEEEEeCcccc
Confidence               0         0112      235677899999999999999999984

>PRK15491 replication factor A; Provisional

Probab=99.97  E-value=1.1e-29  Score=269.14  Aligned_cols=289  Identities=20%  Similarity=0.293  Sum_probs=224.9

Q ss_pred             ceEEEeeeeec----C--ce-EEEEEeCcccceeeccccccccccccCccceeeEEEEcceeeeccCCCceEEEEEEeee
Q 006973           28 IVVQVLDLKLT----G--NR-YMFNASDGKKRLKAILPSNLSSEVISGNIQNKGLIRLLDYALNEIPTKSEKYLIVTKCE  100 (623)
Q Consensus        28 pvlQvl~~k~~----~--~r-yr~~lSDG~~~~~~mlat~ln~~v~~~~l~~~siirl~~y~~~~~~~~~~~vlii~~le  100 (623)
                      -|+++-++|.+    |  +| +.+.|.|-+..+++.||....+++..+.|+.|.+++|..|....-    +.      +|
T Consensus        75 rVl~~~~~R~f~r~dGs~g~v~~~~v~DeTG~ir~tlW~~~a~~~~~~~le~G~v~~I~~~~~~~y----~g------~E  144 (374)
T PRK15491         75 KVVSIFEPKEFNRNDGTTGRVGNIIVADETGSIRLTLWDDLADLIKTGDIEVGKSLNISGYAKEGY----SG------IE  144 (374)
T ss_pred             EEeeccCCeeeecCCCCceEEEEEEEEcCCCeEEEEEECchhhhhccCCcCCCCEEEEeeeeccCc----cc------EE
Confidence            45666677776    2  34 478999999999999999999888888999999999988732211    11      13


Q ss_pred             eeccccchhhccccCCCCCcccCCCCCccccCCCCCCcccCchhhhhhhhhhhhhccccCCCCccccccCCcCeeecccc
Q 006973          101 VVSPALEMEIKIEVKSDESGIIFKPKQEDEVKKDGPGIVLKPKQEMVAKSAAQILRDQNGNMAPAARLAMTRRVHPLVSL  180 (623)
Q Consensus       101 v~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~I~~L  180 (623)
                      +.-....  .           ......           . .              .             ....+.+|++|
T Consensus       145 i~i~~~~--~-----------i~~~~~-----------~-~--------------~-------------~~~~~~~I~dl  172 (374)
T PRK15491        145 VNIGRYG--G-----------ISESDE-----------N-V--------------K-------------ASINSQKISDI  172 (374)
T ss_pred             EEeCCCc--e-----------eeeccc-----------c-c--------------c-------------cccCcccHHHc
Confidence            2211100  0           000000           0 0              0             01135799999


Q ss_pred             CCCCCCeEEEEEEEeeccccccccCCCc-ccEEEEEEEeCCCCeEEEEEechHHHHHHhhcccCcEEEEeeeEEEecCCC
Q 006973          181 NPYQGNWTIKVRVTSKGNMRTYKNARGE-GCVFNVELTDEDGTQIQATMFNEAARKFYDRFQLGKVYYISRGTLRVANKQ  259 (623)
Q Consensus       181 ~p~~~~w~I~~RV~~K~~~r~~~~~~g~-g~~f~~~L~D~~G~~I~at~~~~~~~kf~~~l~eG~vy~is~~~V~~a~~~  259 (623)
                      .++...+.|+|||+.++++|+|.+.+|+ |+++++.|.|++| +|++|+|++.|++| +.|++|++|+|.++.++.    
T Consensus       173 ~~~~~~V~I~g~V~~~~~~r~~~~~~G~~~~v~~~~l~DetG-~Ir~t~W~~~a~~~-~~l~~Gd~V~i~~~~~r~----  246 (374)
T PRK15491        173 KDGDSDINIVGKVLDISDVRTFQKKDGSQGRVRNITIGDETG-KIRVTLWDGKTDLA-DKLENGDSVEIINGYART----  246 (374)
T ss_pred             CCCCccEEEEEEEEEccCceEEEecCCCeEEEEEEEEECCCC-eEEEEEecchhccc-ccCCCCCEEEEEeceEEE----
Confidence            9998899999999999999999987774 8999999999999 79999999999998 669999999999988864    


Q ss_pred             ccccCCceEEEEccCcEEEEccCcCCCCCCCccccccccccccccCCcceeEEEEEEEEeCCceEEEEccCCceeeEEEE
Q 006973          260 FKTVQNDYEMNLNENSEVEEAVNETAFIPQTKFNFVPIDELGRYVNGTELVDIIGVVQNVSPTMSIRRKSNNEMVPKRDI  339 (623)
Q Consensus       260 ~~~~~~~yei~f~~~T~I~~~~d~~~~iP~~~~~f~~i~di~~~~~~~~~vDVIGvV~~v~~~~~i~~k~~g~~~~kr~i  339 (623)
                       +..+++|||+|...|.|.++++.    +.+.++|++|+||..    +..+||+|+|++++++.+|+++ +|++..+|++
T Consensus       247 -~~~~g~~El~~~~~s~I~~~~~~----~e~~~~f~~I~dl~~----~~~~dv~G~V~~v~~~~~~~~~-~G~~~~~r~i  316 (374)
T PRK15491        247 -NNYSQEVEIQIGNHGSLRKTDRN----VEYEEDFTPIADIIP----GQPYSIKGAVSGLGDLKEFTKS-DGSENKVSNI  316 (374)
T ss_pred             -eccCCCEEEEeCCCceEEECCcc----cccCCCccCHHHcCC----CCceeEEEEEEEcCCcEEEEcc-CCCEeEEEeE
Confidence             34578999999999999998653    355689999999975    3568999999999999999986 5999999999


Q ss_pred             EEEeCCccEEEEEEechhhhhhhhHhhhcCCCCcEEEEEeEEeee-c-cceeeecccceEEEE
Q 006973          340 TVADETKRTVTVSLWNELATNVGQELLDNADKSPIVAIKSLKVGD-F-QGISLSTLGRSTVLV  400 (623)
Q Consensus       340 ~l~D~sg~~I~vtLWg~~A~~~~~~~~~~~~~~~Vv~i~~~kV~~-f-~G~~Ls~~~~S~i~i  400 (623)
                      +|.|+|| +|++||||+.|+....     ...+..|.+-++.+++ | ++..||.+..|++.+
T Consensus       317 ~l~D~Tg-~Ir~tlWg~~a~~~~~-----~~~g~~i~i~~~~~k~g~~~~~e~s~g~~s~~~~  373 (374)
T PRK15491        317 YVSDDTG-RIRIALWGEKAELVDK-----LDIDTPIKIIDAFSKSGYNEDVELSAGNRSRVVV  373 (374)
T ss_pred             EEEeCCC-cEEEEEcccccccccc-----cCCCCeEEEEEEEEeecCCCcEEEEeCCcceEEe
Confidence            9999999 5999999999986321     2334555566777764 5 457999999998875

>PRK15491 replication factor A; Provisional

Probab=99.97  E-value=1e-29  Score=269.22  Aligned_cols=277  Identities=21%  Similarity=0.310  Sum_probs=217.9

Q ss_pred             cCeeeccccCCCCCCeEEEEEEEeeccccccccCCC-cccEEEEEEEeCCCCeEEEEEechHHHHHH-hhcccCcEEEEe
Q 006973          172 RRVHPLVSLNPYQGNWTIKVRVTSKGNMRTYKNARG-EGCVFNVELTDEDGTQIQATMFNEAARKFY-DRFQLGKVYYIS  249 (623)
Q Consensus       172 ~~~~~I~~L~p~~~~w~I~~RV~~K~~~r~~~~~~g-~g~~f~~~L~D~~G~~I~at~~~~~~~kf~-~~l~eG~vy~is  249 (623)
                      +++++|++|+|++++|+|+|||+.++++|+|.+.+| +|++++++|.|++| +|++|+|++.+++|+ +.|++|+||.|+
T Consensus        55 ~~~~kI~dL~~~~~~v~i~arVl~~~~~R~f~r~dGs~g~v~~~~v~DeTG-~ir~tlW~~~a~~~~~~~le~G~v~~I~  133 (374)
T PRK15491         55 VDTTKIADINESSSNVNFTAKVVSIFEPKEFNRNDGTTGRVGNIIVADETG-SIRLTLWDDLADLIKTGDIEVGKSLNIS  133 (374)
T ss_pred             cccccHHHCCCCCCceEEEEEEeeccCCeeeecCCCCceEEEEEEEEcCCC-eEEEEEECchhhhhccCCcCCCCEEEEe
Confidence            457899999999999999999999999999999888 89999999999999 899999999999998 689999999998


Q ss_pred             eeEEEecCCCccccCCceEEEEccCcEEEEccCcCCCCCCCccccccccccccccCCcceeEEEEEEEEeCCceEEEEcc
Q 006973          250 RGTLRVANKQFKTVQNDYEMNLNENSEVEEAVNETAFIPQTKFNFVPIDELGRYVNGTELVDIIGVVQNVSPTMSIRRKS  329 (623)
Q Consensus       250 ~~~V~~a~~~~~~~~~~yei~f~~~T~I~~~~d~~~~iP~~~~~f~~i~di~~~~~~~~~vDVIGvV~~v~~~~~i~~k~  329 (623)
                      ++    +++.|+.    .||++++.|.|.++++.   + ...|+|++|+||..   .+..|||.|.|+.++++++++++ 
T Consensus       134 ~~----~~~~y~g----~Ei~i~~~~~i~~~~~~---~-~~~~~~~~I~dl~~---~~~~V~I~g~V~~~~~~r~~~~~-  197 (374)
T PRK15491        134 GY----AKEGYSG----IEVNIGRYGGISESDEN---V-KASINSQKISDIKD---GDSDINIVGKVLDISDVRTFQKK-  197 (374)
T ss_pred             ee----eccCccc----EEEEeCCCceeeecccc---c-ccccCcccHHHcCC---CCccEEEEEEEEEccCceEEEec-
Confidence            65    5556643    69999999999998654   2 34678999999975   34469999999999999999887 


Q ss_pred             CCceeeEEEEEEEeCCccEEEEEEechhhhhhhhHhhhcCCCCcEEEEEeE--Eeeeccc-eeeecccceEEEEcCChHH
Q 006973          330 NNEMVPKRDITVADETKRTVTVSLWNELATNVGQELLDNADKSPIVAIKSL--KVGDFQG-ISLSTLGRSTVLVSPDLPE  406 (623)
Q Consensus       330 ~g~~~~kr~i~l~D~sg~~I~vtLWg~~A~~~~~~~~~~~~~~~Vv~i~~~--kV~~f~G-~~Ls~~~~S~i~iNPd~pe  406 (623)
                      +|++...+++.|.|+|| .|++||||+.|..+.     .+..|.+|-+.++  |...|+| ..|+....|.|..-.+.++
T Consensus       198 ~G~~~~v~~~~l~DetG-~Ir~t~W~~~a~~~~-----~l~~Gd~V~i~~~~~r~~~~~g~~El~~~~~s~I~~~~~~~e  271 (374)
T PRK15491        198 DGSQGRVRNITIGDETG-KIRVTLWDGKTDLAD-----KLENGDSVEIINGYARTNNYSQEVEIQIGNHGSLRKTDRNVE  271 (374)
T ss_pred             CCCeEEEEEEEEECCCC-eEEEEEecchhcccc-----cCCCCCEEEEEeceEEEeccCCCEEEEeCCCceEEECCcccc
Confidence            48888999999999999 699999999998752     2456888888765  4456766 4788877777664332110


Q ss_pred             HHHHHHHHHhCCCccceeeecCCcCccccCCcccccccceehhccccCCCCCCCCCeEEEEEEEEEEEeCCCCeEecccc
Q 006973          407 AKKLKSWYESEGKGTSMASIGSGLGSLAKNGARSMYSDRVSLTHITSNPSLGDEKPVFFSIKAYISLIKPDQAMWYRACK  486 (623)
Q Consensus       407 ~~~l~~w~~~~g~~~~~~~~~~~~~~~~~~~~~~~~~~~~ti~~i~~~~~~~~~~~~~~~v~a~I~~i~~d~~~~Y~aC~  486 (623)
                                         +               ..+...|.+|...        ..+.+.|.|..+..-..+      
T Consensus       272 -------------------~---------------~~~f~~I~dl~~~--------~~~dv~G~V~~v~~~~~~------  303 (374)
T PRK15491        272 -------------------Y---------------EEDFTPIADIIPG--------QPYSIKGAVSGLGDLKEF------  303 (374)
T ss_pred             -------------------c---------------CCCccCHHHcCCC--------CceeEEEEEEEcCCcEEE------
Confidence                               0               0123346666541        236888888888543222      


Q ss_pred             ccccceecCCCCeeecCcCCCCccccceeEEEEEEEEeCCCcEEEEEehHhHHH
Q 006973          487 TCNKKVTDALGSGYWCEGCQKNDEECSLRYIMVARVCDGSGEAWISIFNEEAER  540 (623)
Q Consensus       487 ~C~KKv~~~~~~~~~C~kC~~~~~~~~~ry~l~~~i~D~Tg~~~~~~F~~~ae~  540 (623)
                            ... +              -....+-++.|.|.||.+.+++||+.|+.
T Consensus       304 ------~~~-~--------------G~~~~~r~i~l~D~Tg~Ir~tlWg~~a~~  336 (374)
T PRK15491        304 ------TKS-D--------------GSENKVSNIYVSDDTGRIRIALWGEKAEL  336 (374)
T ss_pred             ------Ecc-C--------------CCEeEEEeEEEEeCCCcEEEEEccccccc
Confidence                  000 1              12345567899999999999999999964

>PRK14699 replication factor A; Provisional

Probab=99.97  E-value=3.5e-29  Score=272.11  Aligned_cols=290  Identities=20%  Similarity=0.274  Sum_probs=219.9

Q ss_pred             ceEEEeeeeecC------c-eEEEEEeCcccceeeccccccccccccCccceeeEEEEcceeeeccCCCceEEEEEEeee
Q 006973           28 IVVQVLDLKLTG------N-RYMFNASDGKKRLKAILPSNLSSEVISGNIQNKGLIRLLDYALNEIPTKSEKYLIVTKCE  100 (623)
Q Consensus        28 pvlQvl~~k~~~------~-ryr~~lSDG~~~~~~mlat~ln~~v~~~~l~~~siirl~~y~~~~~~~~~~~vlii~~le  100 (623)
                      -|+++-+.|.+.      . -+.++|.|.+..++..||....++..  .|+.|++|+|.+--+.. +.- +     -.+|
T Consensus       184 kVl~~~~~R~f~~~dG~~g~v~~~~igDeTG~ir~tlW~~~a~~~~--~l~~Gd~v~I~~a~vr~-~~~-~-----~~~e  254 (484)
T PRK14699        184 KVLEISEIRTFQRKDGTSGKVGNLLLGDETGTLRVTLWDDKTDFLN--QIEYGDTVELINAYARE-NAF-T-----QKVE  254 (484)
T ss_pred             EEEeccCceEEecCCCCceEEEEEEEEcCCceEEEEEECccccccc--ccCCCCEEEEecceEee-ccc-C-----CceE
Confidence            355655666553      2 35789999999999999988655433  58999999985443321 000 0     0122


Q ss_pred             eeccccchhhccccCCCCCcccCCCCCccccCCCCCCcccCchhhhhhhhhhhhhccccCCCCccccccCCcCeeecccc
Q 006973          101 VVSPALEMEIKIEVKSDESGIIFKPKQEDEVKKDGPGIVLKPKQEMVAKSAAQILRDQNGNMAPAARLAMTRRVHPLVSL  180 (623)
Q Consensus       101 v~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~I~~L  180 (623)
                      +......  .           ......             .+               .           ....++||++|
T Consensus       255 l~~~~~s--~-----------i~~~~~-------------~~---------------e-----------~~~~~~~I~~L  282 (484)
T PRK14699        255 LQVGNRS--I-----------IRKSEK-------------KV---------------E-----------YEEEFTPIEDI  282 (484)
T ss_pred             EEecCce--E-----------eecccc-------------cc---------------c-----------ccccccCHHHc
Confidence            2211100  0           000000             00               0           01136799999


Q ss_pred             CCCCCCeEEEEEEEeeccccccccCCC-cccEEEEEEEeCCCCeEEEEEechHHHHHHhhcccCcEEEEeeeEEEecCCC
Q 006973          181 NPYQGNWTIKVRVTSKGNMRTYKNARG-EGCVFNVELTDEDGTQIQATMFNEAARKFYDRFQLGKVYYISRGTLRVANKQ  259 (623)
Q Consensus       181 ~p~~~~w~I~~RV~~K~~~r~~~~~~g-~g~~f~~~L~D~~G~~I~at~~~~~~~kf~~~l~eG~vy~is~~~V~~a~~~  259 (623)
                      +|++++|+|+|||+.++++|+|.+.+| +|+++++.|.|++| +|++|+|++.+ +|++.|++|+++.+.++.++     
T Consensus       283 ~~~~~~v~I~grV~~~~~~r~~~~~~Gseg~v~~~~l~DeTG-~Ir~T~W~~~a-~~~~~i~~Gd~v~i~~~y~~-----  355 (484)
T PRK14699        283 KADMNNINISGRVLDISEVRTFEKKDGSPGRVGNLLLGDSTG-KIRLTLWDEKT-NFLDEIDFDETVEVLNAYSR-----  355 (484)
T ss_pred             CCCCceeEEEEEEEEcCCCeEEEcCCCCeeEEEEEEEECCCC-eEEEEEeCccc-ccccccCCCceEEEEeEEEE-----
Confidence            999999999999999999999998887 89999999999999 89999999999 77788999999888887754     


Q ss_pred             ccccCCceEEEEccCcEEEEccCcCCCCCCCccccccccccccccCCcceeEEEEEEEEeCCceEEEEccCCceeeEEEE
Q 006973          260 FKTVQNDYEMNLNENSEVEEAVNETAFIPQTKFNFVPIDELGRYVNGTELVDIIGVVQNVSPTMSIRRKSNNEMVPKRDI  339 (623)
Q Consensus       260 ~~~~~~~yei~f~~~T~I~~~~d~~~~iP~~~~~f~~i~di~~~~~~~~~vDVIGvV~~v~~~~~i~~k~~g~~~~kr~i  339 (623)
                      ++..+++|+|+|+..|.|.++++.    +.+.++|++|.+|.    .+..|||+|+|++++++.+|+++ +|++..+|++
T Consensus       356 ~~~~~~~~eL~~~~~t~I~~~~~~----~e~~~~~~~I~die----~~~~vdV~G~V~~v~~~~~~~~~-~g~~~~vr~i  426 (484)
T PRK14699        356 ENTFSQQVELNLGARGIIQKSEKK----VEYREKFTDIADII----PGESYSVQGKVSEIGELREFERE-DGTENVVANL  426 (484)
T ss_pred             eccCCccEEEEecCceeEeecCCc----ceeeeccccHHHcc----CCCeeEEEEEEEEcCCcceEEec-CCCEEEEEEE
Confidence            556688999999999999998764    25678999999995    36689999999999999999987 4999999999


Q ss_pred             EEEeCCccEEEEEEechhhhhhhhHhhhcCCCCcEEEEEeEEeee-ccc-eeeecccceEEEE
Q 006973          340 TVADETKRTVTVSLWNELATNVGQELLDNADKSPIVAIKSLKVGD-FQG-ISLSTLGRSTVLV  400 (623)
Q Consensus       340 ~l~D~sg~~I~vtLWg~~A~~~~~~~~~~~~~~~Vv~i~~~kV~~-f~G-~~Ls~~~~S~i~i  400 (623)
                      +|.|.|| +|+|||||+.|..|..     +..+.-|.+.++.+.. |+| ..||.+.+|++.+
T Consensus       427 ~l~D~TG-~Ir~tlWg~~A~~~~~-----~~~~~~v~~~~~~~~~g~~~~~e~s~g~~s~~~~  483 (484)
T PRK14699        427 QLKDETG-SIRLTLWGEQAYVIED-----LDIDSEIQIIDAYARYGLNEEIELSVGNRSRVII  483 (484)
T ss_pred             EEEcCCC-eEEEEEcchhhhhccc-----cCCCCeEEEechhhhhcccccEEEEecCceEEEe
Confidence            9999999 9999999999997632     3445556666666664 454 6899999998864

>PRK14699 replication factor A; Provisional

Probab=99.96  E-value=6.4e-27  Score=254.47  Aligned_cols=362  Identities=18%  Similarity=0.286  Sum_probs=268.4

Q ss_pred             cceEEEeeeeecC------ceE-EEEEeCcccceeeccccccccccccCccceeeEEEEcceeeeccCCCceEEEEEEee
Q 006973           27 EIVVQVLDLKLTG------NRY-MFNASDGKKRLKAILPSNLSSEVISGNIQNKGLIRLLDYALNEIPTKSEKYLIVTKC   99 (623)
Q Consensus        27 ~pvlQvl~~k~~~------~ry-r~~lSDG~~~~~~mlat~ln~~v~~~~l~~~siirl~~y~~~~~~~~~~~vlii~~l   99 (623)
                      .-|+.+.+.|.+.      .|+ .+.|.|-+..++..||..+.+++..|.|++|++|+|+.|...- .+   .      +
T Consensus        74 ~rVl~i~~~r~f~r~dG~~g~v~~~~iaDeTG~ir~tlW~~~a~~~~~g~l~~GDvv~I~~~~r~~-~~---g------~  143 (484)
T PRK14699         74 ARVVSVFDTKEFTRNDGTIGRVGNLIVGDETGKIKLTLWDNMADLIKAGKIKAGQTLQISGYAKQG-YS---G------V  143 (484)
T ss_pred             EEEEEecCceEEecCCCCceEEEEEEEecCCCeEEEEEecCccchhhhcCCCCCCEEEEcceeccC-CC---C------c
Confidence            3577888888772      344 6899999999999999999999999999999999999974331 11   1      1


Q ss_pred             eeec-cccchhhccccCCCCCcccCCCCCccccCCCCCCcccCchhhhhhhhhhhhhccccCCCCccccccCCcCeeecc
Q 006973          100 EVVS-PALEMEIKIEVKSDESGIIFKPKQEDEVKKDGPGIVLKPKQEMVAKSAAQILRDQNGNMAPAARLAMTRRVHPLV  178 (623)
Q Consensus       100 ev~~-~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~I~  178 (623)
                      |+.. +...              ...+...          . .                            .......|+
T Consensus       144 el~~~~~~~--------------i~~~~~~----------i-~----------------------------v~~~~~~I~  170 (484)
T PRK14699        144 EVNIGNNGV--------------LTESEEE----------I-D----------------------------VAANSQKIK  170 (484)
T ss_pred             eEEeCCCce--------------eeccCcc----------c-c----------------------------cCCCCcchh
Confidence            2111 0000              0000000          0 0                            000135899


Q ss_pred             ccCCCCCCeEEEEEEEeeccccccccCCC-cccEEEEEEEeCCCCeEEEEEechHHHHHHhhcccCcEEEEeeeEEEecC
Q 006973          179 SLNPYQGNWTIKVRVTSKGNMRTYKNARG-EGCVFNVELTDEDGTQIQATMFNEAARKFYDRFQLGKVYYISRGTLRVAN  257 (623)
Q Consensus       179 ~L~p~~~~w~I~~RV~~K~~~r~~~~~~g-~g~~f~~~L~D~~G~~I~at~~~~~~~kf~~~l~eG~vy~is~~~V~~a~  257 (623)
                      +|.|.....+|+|||+.++++|+|...+| +|++++++|.|++| +|++|+|++.++ +++.|++|++|.|.++.++.. 
T Consensus       171 dL~~~~~~V~i~gkVl~~~~~R~f~~~dG~~g~v~~~~igDeTG-~ir~tlW~~~a~-~~~~l~~Gd~v~I~~a~vr~~-  247 (484)
T PRK14699        171 DIKDGMGDLNLTGKVLEISEIRTFQRKDGTSGKVGNLLLGDETG-TLRVTLWDDKTD-FLNQIEYGDTVELINAYAREN-  247 (484)
T ss_pred             hcCCCCCceEEEEEEEeccCceEEecCCCCceEEEEEEEEcCCc-eEEEEEECcccc-cccccCCCCEEEEecceEeec-
Confidence            99999888899999999999999998777 78999999999999 999999999885 777899999999999988763 


Q ss_pred             CCccccCCceEEEEccCcEEEEccCcCCCCCCCccccccccccccccCCcceeEEEEEEEEeCCceEEEEccCCceeeEE
Q 006973          258 KQFKTVQNDYEMNLNENSEVEEAVNETAFIPQTKFNFVPIDELGRYVNGTELVDIIGVVQNVSPTMSIRRKSNNEMVPKR  337 (623)
Q Consensus       258 ~~~~~~~~~yei~f~~~T~I~~~~d~~~~iP~~~~~f~~i~di~~~~~~~~~vDVIGvV~~v~~~~~i~~k~~g~~~~kr  337 (623)
                       .|   .+.++|+++..|.|...++. ..+   ..++++|.+|..   ....++|.|.|+++++++++.++ +|++...+
T Consensus       248 -~~---~~~~el~~~~~s~i~~~~~~-~e~---~~~~~~I~~L~~---~~~~v~I~grV~~~~~~r~~~~~-~Gseg~v~  315 (484)
T PRK14699        248 -AF---TQKVELQVGNRSIIRKSEKK-VEY---EEEFTPIEDIKA---DMNNINISGRVLDISEVRTFEKK-DGSPGRVG  315 (484)
T ss_pred             -cc---CCceEEEecCceEeeccccc-ccc---cccccCHHHcCC---CCceeEEEEEEEEcCCCeEEEcC-CCCeeEEE
Confidence             23   36899999999988887544 222   236889999974   35689999999999999999865 58788999


Q ss_pred             EEEEEeCCccEEEEEEechhhhhhhhHhhhcCCCCcEEEEEeEEeee--ccc-eeeecccceEEEEcCChHHHHHHHHHH
Q 006973          338 DITVADETKRTVTVSLWNELATNVGQELLDNADKSPIVAIKSLKVGD--FQG-ISLSTLGRSTVLVSPDLPEAKKLKSWY  414 (623)
Q Consensus       338 ~i~l~D~sg~~I~vtLWg~~A~~~~~~~~~~~~~~~Vv~i~~~kV~~--f~G-~~Ls~~~~S~i~iNPd~pe~~~l~~w~  414 (623)
                      ++.|.|+|| .|++||||+.|..+ .    .+..+.++-+.++.+++  |++ ..|+....|.|...++..+.       
T Consensus       316 ~~~l~DeTG-~Ir~T~W~~~a~~~-~----~i~~Gd~v~i~~~y~~~~~~~~~~eL~~~~~t~I~~~~~~~e~-------  382 (484)
T PRK14699        316 NLLLGDSTG-KIRLTLWDEKTNFL-D----EIDFDETVEVLNAYSRENTFSQQVELNLGARGIIQKSEKKVEY-------  382 (484)
T ss_pred             EEEEECCCC-eEEEEEeCcccccc-c----ccCCCceEEEEeEEEEeccCCccEEEEecCceeEeecCCccee-------
Confidence            999999999 79999999999432 2    24557788888888874  445 47888877766555432210       


Q ss_pred             HhCCCccceeeecCCcCccccCCcccccccceehhccccCCCCCCCCCeEEEEEEEEEEEeCCCCeEeccccccccceec
Q 006973          415 ESEGKGTSMASIGSGLGSLAKNGARSMYSDRVSLTHITSNPSLGDEKPVFFSIKAYISLIKPDQAMWYRACKTCNKKVTD  494 (623)
Q Consensus       415 ~~~g~~~~~~~~~~~~~~~~~~~~~~~~~~~~ti~~i~~~~~~~~~~~~~~~v~a~I~~i~~d~~~~Y~aC~~C~KKv~~  494 (623)
                                                 ..++..|.+|...        ..+.|.|+|..+.....+            ..
T Consensus       383 ---------------------------~~~~~~I~die~~--------~~vdV~G~V~~v~~~~~~------------~~  415 (484)
T PRK14699        383 ---------------------------REKFTDIADIIPG--------ESYSVQGKVSEIGELREF------------ER  415 (484)
T ss_pred             ---------------------------eeccccHHHccCC--------CeeEEEEEEEEcCCcceE------------Ee
Confidence                                       0134557777331        247899999999764322            11


Q ss_pred             CCCCeeecCcCCCCccccceeEEEEEEEEeCCCcEEEEEehHhHHHH
Q 006973          495 ALGSGYWCEGCQKNDEECSLRYIMVARVCDGSGEAWISIFNEEAERI  541 (623)
Q Consensus       495 ~~~~~~~C~kC~~~~~~~~~ry~l~~~i~D~Tg~~~~~~F~~~ae~l  541 (623)
                      . +|              ....+-++.+.|.||++.+++||+.|+++
T Consensus       416 ~-~g--------------~~~~vr~i~l~D~TG~Ir~tlWg~~A~~~  447 (484)
T PRK14699        416 E-DG--------------TENVVANLQLKDETGSIRLTLWGEQAYVI  447 (484)
T ss_pred             c-CC--------------CEEEEEEEEEEcCCCeEEEEEcchhhhhc
Confidence            1 11              24566789999999999999999999864

>cd04474 RPA1_DBD_A RPA1_DBD_A: A subfamily of OB folds corresponding to the second OB fold, the ssDNA-binding domain (DBD)-A, of human RPA1 (also called RPA70)

Probab=99.95  E-value=1.6e-27  Score=208.71  Aligned_cols=104  Identities=57%  Similarity=1.035  Sum_probs=100.7

Q ss_pred             eccccCCCCCCeEEEEEEEeeccccccccCCCcccEEEEEEEeCCCCeEEEEEechHHHHHHhhcccCcEEEEeeeEEEe
Q 006973          176 PLVSLNPYQGNWTIKVRVTSKGNMRTYKNARGEGCVFNVELTDEDGTQIQATMFNEAARKFYDRFQLGKVYYISRGTLRV  255 (623)
Q Consensus       176 ~I~~L~p~~~~w~I~~RV~~K~~~r~~~~~~g~g~~f~~~L~D~~G~~I~at~~~~~~~kf~~~l~eG~vy~is~~~V~~  255 (623)
                      ||++|+|+.++|+|+|||++||++|.|.+.+++|++|+|+|+|++|++|+|++|++.+++|+++|+||+||+|++|+|++
T Consensus         1 pI~~L~p~~~~~~I~~rV~~k~~~~~f~~~~~~g~~~~~~l~De~~~~I~~t~~~~~~~~f~~~l~eG~vy~i~~~~V~~   80 (104)
T cd04474           1 PISSLNPYQNKWTIKARVTNKSDIRTWSNARGEGKLFSFDLLDEDGGEIRATFFNDAVDKFYDLLEVGKVYYISKGSVKV   80 (104)
T ss_pred             ChhHccCCCCcEEEEEEEeeccccccccCCCCCcEEEEEEEEECCCCEEEEEEehHHHHHhhcccccccEEEEeccEEee
Confidence            79999999999999999999999999999888999999999999999999999999999999999999999999999999


Q ss_pred             cCCCccccCCceEEEEccCcEEEE
Q 006973          256 ANKQFKTVQNDYEMNLNENSEVEE  279 (623)
Q Consensus       256 a~~~~~~~~~~yei~f~~~T~I~~  279 (623)
                      ++++|++++|+|||.|+.+|.|++
T Consensus        81 a~~~y~~~~~~yeI~f~~~t~~~~  104 (104)
T cd04474          81 ANKKFNTLKNDYEITFNRDTSIIE  104 (104)
T ss_pred             ccccCCCCCCcEEEEECCCcEEeC
Confidence            999999999999999999988863

RPA1 is the large subunit of Replication protein A (RPA). RPA is a nuclear ssDNA-binding protein (SSB) which appears to be involved in all aspects of DNA metabolism including replication, recombination, and repair. RPA also mediates specific interactions of various nuclear proteins. In animals, plants, and fungi, RPA is a heterotrimer with subunits of 70KDa (RPA1), 32kDa (RPA2), and 14 KDa (RPA3). In addition to DBD-A, RPA1 contains three other OB folds: DBD-B, DBD-C, and RPA1N. The major DNA binding activity of human RPA (hRPA) and Saccharomyces cerevisiae RPA (ScRPA) is associated with DBD-A and DBD-B of RPA1. RPA1 DBD-C is involved in trimerization. The ssDNA-binding mechanism is believed to be multistep and to involve conformational change. Although ScRPA and the hRPA have similar ssDNA-binding properties, they differ funct

>PF04057 Rep-A_N: Replication factor-A protein 1, N-terminal domain; InterPro: IPR007199 Replication factor-a protein 1 (RPA1) forms a multiprotein complex with RPA2 and RPA3 that binds single-stranded DNA and functions in the recognition of DNA damage for nucleotide excision repair

Probab=99.92  E-value=1.3e-25  Score=194.48  Aligned_cols=92  Identities=35%  Similarity=0.539  Sum_probs=80.4

Q ss_pred             CCHHHHHHHhc-CCCCCCCCCCCcceEEEeeeeecC-------ceEEEEEeCcccceeeccccccccccccCccceeeEE
Q 006973            5 VSPDAISTILS-NPSPDSSSDIPEIVVQVLDLKLTG-------NRYMFNASDGKKRLKAILPSNLSSEVISGNIQNKGLI   76 (623)
Q Consensus         5 lt~ga~~~i~~-~~~~~~~~~~~~pvlQvl~~k~~~-------~ryr~~lSDG~~~~~~mlat~ln~~v~~~~l~~~sii   76 (623)
                      ||+|||++|++ ++.      ..+|||||+++|+++       +|||++||||+|+++||||||||++|++|.|++||||
T Consensus         1 LT~Gai~~I~~~~~~------~~~pvlQVl~~k~i~~~~~~~~~RyR~~lSDG~~~~~amLatqln~lv~~g~l~~~sii   74 (101)
T PF04057_consen    1 LTPGAIEAIFSSGDV------NDNPVLQVLNIKKINSKQGGGSDRYRLVLSDGVHSIQAMLATQLNHLVESGELQKGSII   74 (101)
T ss_dssp             S-TTHHHHHHHHTSS------S--TEEEEEEEEEE----TTS--EEEEEEESSSEEEEEEESGGGHHHHHTTSSSTT-EE
T ss_pred             CChHHHHHHHhCCCC------CCCcEEEEEeeEEccCCCCCCCceEEEEEEChHHHHHHHhHHHhHHHHhcCCcccCCEE
Confidence            89999999999 442      357999999999973       8999999999999999999999999999999999999


Q ss_pred             EEcceeeeccCCCceEEEEEEeeeeec
Q 006973           77 RLLDYALNEIPTKSEKYLIVTKCEVVS  103 (623)
Q Consensus        77 rl~~y~~~~~~~~~~~vlii~~lev~~  103 (623)
                      ||++|.++.+++ +|+++||+++||+.
T Consensus        75 rl~~y~~n~v~~-~k~iiiil~leVv~  100 (101)
T PF04057_consen   75 RLKQYTCNTVKN-GKKIIIILDLEVVQ  100 (101)
T ss_dssp             EEEEEEEEESTT-SSEEEEEEEEEEEE
T ss_pred             EEeEEEEeeccC-CCEEEEEEeeEEEe
Confidence            999999999984 27999999999985

The complex binds to single-stranded DNA sequences participating in DNA replication in addition to those mediating transcriptional repression and activation, and stimulates the activity of cognate strand exchange protein Sep1. It cooperates with T-AG and DNA topoisomerase I to unwind template DNA containing the Simian Virus 40 origin of replication [].; GO: 0003677 DNA binding, 0006260 DNA replication, 0005634 nucleus; PDB: 1EWI_A 2B3G_A 2B29_A.

>cd04477 RPA1N RPA1N: A subfamily of OB folds corresponding to the N-terminal OB-fold domain of human RPA1 (also called RPA70)

Probab=99.91  E-value=1.5e-24  Score=185.77  Aligned_cols=91  Identities=33%  Similarity=0.475  Sum_probs=83.2

Q ss_pred             HHHHHHhcCCCCCCCCCCCcceEEEeeeeecC------ceEEEEEeCcccceeeccccccccccccCccceeeEEEEcce
Q 006973            8 DAISTILSNPSPDSSSDIPEIVVQVLDLKLTG------NRYMFNASDGKKRLKAILPSNLSSEVISGNIQNKGLIRLLDY   81 (623)
Q Consensus         8 ga~~~i~~~~~~~~~~~~~~pvlQvl~~k~~~------~ryr~~lSDG~~~~~~mlat~ln~~v~~~~l~~~siirl~~y   81 (623)
                      ||+++|++++.+   ...+.|||||+++|+++      +|||++||||+|+++|||+||||+++++|+|++||||||++|
T Consensus         1 Gai~~i~~~~~~---~~~~~PvlQv~~ik~i~~~~~~~~RyRi~lSDG~~~~~amLatqln~~v~~g~l~~~sIirl~~y   77 (97)
T cd04477           1 GALAAIFNGEDR---SNVIKPVLQVLNIKKIDSSNGSSERYRILLSDGVYYVQAMLATQLNPLVESGQLQRGSIIRLKRF   77 (97)
T ss_pred             ChHHHhhcCCCc---CCCCCCEEEEEEEEEccCCCCCcceEEEEEEChhHHHHHHHhhhhhhHHhcCCccCCcEEEECeE
Confidence            899999998753   13567999999999984      699999999999999999999999999999999999999999


Q ss_pred             eeeccCCCceEEEEEEeeeeec
Q 006973           82 ALNEIPTKSEKYLIVTKCEVVS  103 (623)
Q Consensus        82 ~~~~~~~~~~~vlii~~lev~~  103 (623)
                      +|+.+++  |+++||+++||+.
T Consensus        78 ~~~~i~~--k~viiIldlevl~   97 (97)
T cd04477          78 ICNVIKG--KRILIILDLEVVQ   97 (97)
T ss_pred             EEEEecC--cEEEEEEeeEEeC
Confidence            9999986  5899999999973

RPA1 is the large subunit of Replication protein A (RPA). RPA is a nuclear ssDNA-binding protein (SSB) which appears to be involved in all aspects of DNA metabolism including replication, recombination, and repair. RPA also mediates specific interactions of various nuclear proteins. In animals, plants, and fungi, RPA is a heterotrimer with subunits of 70KDa (RPA1), 32kDa (RPA2), and 14 KDa (RPA3). RPA1N is known to specifically interact with the p53 tumor suppressor, DNA polymerase alpha, and transcription factors. In addition to RPA1N, RPA1 contains three other OB folds: ssDNA-binding domain (DBD)-A, DBD-B, and DBD-C.

>cd04475 RPA1_DBD_B RPA1_DBD_B: A subfamily of OB folds corresponding to the third OB fold, the ssDNA-binding domain (DBD)-B, of human RPA1 (also called RPA70)

Probab=99.87  E-value=7.7e-22  Score=172.21  Aligned_cols=101  Identities=45%  Similarity=0.813  Sum_probs=94.5

Q ss_pred             eeEEEEEEEEeCCceEEEEccCCceeeEEEEEEEeCCccEEEEEEechhhhhhhhHhhhcCCCCcEEEEEeEEeeeccce
Q 006973          309 LVDIIGVVQNVSPTMSIRRKSNNEMVPKRDITVADETKRTVTVSLWNELATNVGQELLDNADKSPIVAIKSLKVGDFQGI  388 (623)
Q Consensus       309 ~vDVIGvV~~v~~~~~i~~k~~g~~~~kr~i~l~D~sg~~I~vtLWg~~A~~~~~~~~~~~~~~~Vv~i~~~kV~~f~G~  388 (623)
                      +|||+|+|++++++.++++|.+|++..+|+|+|.|+|+.++.|||||++|..+...      .++|++|+++|+++|+|+
T Consensus         1 ~vDvig~V~~v~~~~~i~~k~~g~~~~~r~v~i~D~t~~~i~vtLWg~~a~~~~~~------~~~vv~~~~~~i~~~~~~   74 (101)
T cd04475           1 IVDVIGVVKSVGPVTTITTKSTGRELDKREITLVDESGHSVELTLWGEQAELFDGS------ENPVIAIKGVKVSEFNGK   74 (101)
T ss_pred             CEeEEEEEeEccCcEEEEEecCCCceeEEEEEEEeCCCCEEEEEEEHHHhhhcccC------CCCEEEEEeeEEEecCCe
Confidence            58999999999999999999778999999999999999999999999999997532      289999999999999999


Q ss_pred             eeecccceEEEEcCChHHHHHHHHHHH
Q 006973          389 SLSTLGRSTVLVSPDLPEAKKLKSWYE  415 (623)
Q Consensus       389 ~Ls~~~~S~i~iNPd~pe~~~l~~w~~  415 (623)
                      +|+++.+|+|++||++||+.+|+.||.
T Consensus        75 ~l~~~~~s~i~~np~~~e~~~l~~w~~  101 (101)
T cd04475          75 SLSTGSSSTIIINPDIPEAHKLRGWYD  101 (101)
T ss_pred             EEeecCceeEEECCCcHHHHHHHHhhC
Confidence            999999999999999999999999984

RPA1 is the large subunit of Replication protein A (RPA). RPA is a nuclear ssDNA-binding protein (SSB) which appears to be involved in all aspects of DNA metabolism including replication, recombination, and repair. RPA also mediates specific interactions of various nuclear proteins. In animals, plants, and fungi, RPA is a heterotrimer with subunits of 70KDa (RPA1), 32kDa (RPA2), and 14 KDa (RPA3). In addition to DBD-B, RPA1 contains three other OB folds: DBD-A, DBD-C, and RPA1N. The major DNA binding activity of human RPA (hRPA) and Saccharomyces cerevisiae RPA (ScRPA) is associated with RPA1 DBD-A and DBD-B. RPA1 DBD-C is involved in trimerization. The ssDNA binding mechanism is believed to be multistep and to involve conformational change. Although ScRPA and the hRPA have similar ssDNA-binding properties, they differ functiona

>cd04481 RPA1_DBD_B_like RPA1_DBD_B_like: A subgroup of uncharacterized, plant OB folds with similarity to the third OB fold, the ssDNA-binding domain (DBD)-B, of human RPA1 (also called RPA70)

Probab=99.83  E-value=7.1e-20  Score=161.15  Aligned_cols=101  Identities=30%  Similarity=0.540  Sum_probs=91.9

Q ss_pred             EEEEEEEEeCCceEEEEccCCceeeEEEEEEEeCCccEEEEEEechhhhhhhhHhhhcCCCCcEEEEE-eEEeeeccc-e
Q 006973          311 DIIGVVQNVSPTMSIRRKSNNEMVPKRDITVADETKRTVTVSLWNELATNVGQELLDNADKSPIVAIK-SLKVGDFQG-I  388 (623)
Q Consensus       311 DVIGvV~~v~~~~~i~~k~~g~~~~kr~i~l~D~sg~~I~vtLWg~~A~~~~~~~~~~~~~~~Vv~i~-~~kV~~f~G-~  388 (623)
                      ||||+|++|+++..+..+  |++..+|+|+|+|.++.++.|||||++|.+|...+......+||||+. ++||++|+| +
T Consensus         1 DviG~i~~v~~~~~~~~~--~~~~~kr~~~i~D~~~~~l~~tlwG~~A~~f~~~~~~~~~~~~VVav~~~~rV~~~~g~~   78 (106)
T cd04481           1 DVIGVIVDVGPLEELPPV--NKPSRKLDFEIRDLSDERLKCTLWGEYAEEFDAKFQSAGNGEPVVAVLRFWKIKEYKGPK   78 (106)
T ss_pred             CeeEEEEEecceEecccC--CccceEEEEEEEeCCCCEEEEEEEHHHHHHHHHHHHHhCCCCcEEEEEEeEEEEEEcCCc
Confidence            899999999999999887  778999999999999999999999999999998875446779999885 599999997 7


Q ss_pred             eeecc-cceEEEEcCChHHHHHHHHH
Q 006973          389 SLSTL-GRSTVLVSPDLPEAKKLKSW  413 (623)
Q Consensus       389 ~Ls~~-~~S~i~iNPd~pe~~~l~~w  413 (623)
                      +|++. +.|++++||++||+.+++..
T Consensus        79 ~ls~~~~~s~v~inp~ipe~~~~~~~  104 (106)
T cd04481          79 SLSNSFGASKVYINPDIPEVPEIKMS  104 (106)
T ss_pred             EEEcCCCceEEEECCCcHHHHHHHhh
Confidence            99998 99999999999999999864

RPA1 is the large subunit of Replication protein A (RPA). RPA is a nuclear ssDNA-binding protein (SSB) which appears to be involved in all aspects of DNA metabolism including replication, recombination, and repair. RPA also mediates specific interactions of various nuclear proteins. In animals, plants, and fungi, RPA is a heterotrimer with subunits of 70KDa (RPA1), 32kDa (RPA2), and 14 KDa (RPA3). In addition to DBD-B, RPA1 contains three other OB folds: DBD-A, DBD-C, and RPA1N. The major DNA binding activity of RPA is associated with RPA1 DBD-A and DBD-B. RPA1 DBD-C is involved in trimerization. The ssDNA binding mechanism is believed to be multistep and to involve conformational change.

>cd04480 RPA1_DBD_A_like RPA1_DBD_A_like: A subgroup of uncharacterized plant OB folds with similarity to the second OB fold, the ssDNA-binding domain (DBD)-A, of human RPA1 (also called RPA70)

Probab=99.77  E-value=1.5e-18  Score=146.86  Aligned_cols=86  Identities=26%  Similarity=0.347  Sum_probs=80.3

Q ss_pred             EEEEEEEeeccccccccCCCcccEEEEEEEeCCCCeEEEEEechHHHHHHhhcccCcEEEEeeeEEEecCCCccccCCce
Q 006973          188 TIKVRVTSKGNMRTYKNARGEGCVFNVELTDEDGTQIQATMFNEAARKFYDRFQLGKVYYISRGTLRVANKQFKTVQNDY  267 (623)
Q Consensus       188 ~I~~RV~~K~~~r~~~~~~g~g~~f~~~L~D~~G~~I~at~~~~~~~kf~~~l~eG~vy~is~~~V~~a~~~~~~~~~~y  267 (623)
                      +|+|||+++|+.+...    +|..++|+|+|++|++|+|+++++++++|+++|+||+||.|++|.|.++++.|++++|+|
T Consensus         1 ~I~Vrv~r~W~~~~~~----~~~~~~miL~De~G~~I~a~i~~~~~~~f~~~L~eg~vy~is~f~v~~~~~~y~~~~~~y   76 (86)
T cd04480           1 KICVRVLRLWDVYNNA----SGESLEMVLVDEKGNRIHATIPKRLAAKFRPLLKEGKWYTISNFEVAPNTGSYRPTDHPY   76 (86)
T ss_pred             CEEEEEEEEEcCcCCC----CCcEEEEEEEcCCCCEEEEEECHHHHHhhhhhceeCCEEEEeeEEEEcCCCcccccCCcE
Confidence            4899999999876532    678999999999999999999999999999999999999999999999999999999999


Q ss_pred             EEEEccCcEE
Q 006973          268 EMNLNENSEV  277 (623)
Q Consensus       268 ei~f~~~T~I  277 (623)
                      +|.|..+|+|
T Consensus        77 ~I~f~~~T~V   86 (86)
T cd04480          77 KIKFMSDTVV   86 (86)
T ss_pred             EEEeecCcCC
Confidence            9999998865

RPA1 is the large subunit of Replication protein A (RPA). RPA is a nuclear ssDNA-binding protein (SSB) which appears to be involved in all aspects of DNA metabolism including replication, recombination, and repair. RPA also mediates specific interactions of various nuclear proteins. In animals, plants, and fungi, RPA is a heterotrimer with subunits of 70KDa (RPA1), 32kDa (RPA2), and 14 KDa (RPA3). In addition to DBD-A, RPA1 contains three other OB folds: DBD-B, DBD-C, and RPA1N. The major DNA binding activity of RPA is associated with DBD-A and DBD-B of RPA1. RPA1 DBD-C is involved in trimerization. The ssDNA-binding mechanism is believed to be multistep and to involve conformational change.

>PF02721 DUF223: Domain of unknown function DUF223; InterPro: IPR003871 The function of this domain has not been characterised, but may be involved in nucleic acid or nucleotide binding

Probab=99.66  E-value=3.2e-16  Score=135.04  Aligned_cols=87  Identities=33%  Similarity=0.486  Sum_probs=81.2

Q ss_pred             EEEEEeCCCCeEEEEEechHHHHHHhhcccCcEEEEeeeEEEecCCCccccCCceEEEEccCcEEEEccCcCCCCCCCcc
Q 006973          213 NVELTDEDGTQIQATMFNEAARKFYDRFQLGKVYYISRGTLRVANKQFKTVQNDYEMNLNENSEVEEAVNETAFIPQTKF  292 (623)
Q Consensus       213 ~~~L~D~~G~~I~at~~~~~~~kf~~~l~eG~vy~is~~~V~~a~~~~~~~~~~yei~f~~~T~I~~~~d~~~~iP~~~~  292 (623)
                      +|+|+|++|+.|+|+++++++++|.+.|+||+||.|++|.|.++.+.|++++|+|+|.|..+|+|.++++. ...|  .|
T Consensus         1 emvL~De~G~~I~A~I~~~~~~~f~~~l~Eg~~y~i~~F~V~~~~~~yr~t~h~y~I~f~~~T~V~~~~~~-~~~~--~~   77 (95)
T PF02721_consen    1 EMVLVDEKGDKIQATIPKELVDKFKDSLKEGSWYTISNFTVSPNSGSYRPTDHKYKINFMPNTKVTEIDPP-SDPP--FF   77 (95)
T ss_pred             CEEEEecCCCEEEEEECHHHHHHHHhhcccCCEEEeEeEEEEeCCCceeccCCCEEEEECCcCeEEECCCC-CCCc--eE
Confidence            47899999999999999999999999999999999999999999999999999999999999999999765 3334  79


Q ss_pred             cccccccccc
Q 006973          293 NFVPIDELGR  302 (623)
Q Consensus       293 ~f~~i~di~~  302 (623)
                      +|++|++|.+
T Consensus        78 ~f~~F~~I~~   87 (95)
T PF02721_consen   78 NFTPFDEILE   87 (95)
T ss_pred             eecCHHHHhc
Confidence            9999999986

>PRK08402 replication factor A; Reviewed

Probab=99.64  E-value=9.7e-15  Score=153.40  Aligned_cols=178  Identities=20%  Similarity=0.317  Sum_probs=141.7

Q ss_pred             CeeeccccCCCCCCeEEEEEEEeeccccccccCCC-cccEEEEEEEeCCCCeEEEEEechHHHHHHhhcccCcEEEEeee
Q 006973          173 RVHPLVSLNPYQGNWTIKVRVTSKGNMRTYKNARG-EGCVFNVELTDEDGTQIQATMFNEAARKFYDRFQLGKVYYISRG  251 (623)
Q Consensus       173 ~~~~I~~L~p~~~~w~I~~RV~~K~~~r~~~~~~g-~g~~f~~~L~D~~G~~I~at~~~~~~~kf~~~l~eG~vy~is~~  251 (623)
                      +..+|++|.|+...|++.|||+.+++.|+|...+| .|++.+++|.|++| .|+.|+|++.++++++.|++|+|+.|.++
T Consensus        61 ~~~kI~dl~~g~~~V~v~~rVl~~~~~r~f~rrdG~~~~V~~i~l~DeTG-~ir~TlW~~~a~~~~~~l~~Gdvi~I~~a  139 (355)
T PRK08402         61 PLMHISDLVPGMRGVNIVGRVLRKYPPREYTKKDGSTGRVASLIIYDDTG-RARVVLWDAKVAKYYNKINVGDVIKVIDA  139 (355)
T ss_pred             CccCHHHccCCCceeeEEEEEEEccCCceeeccCCCcceEEEEEEEcCCC-eEEEEEechhhhhhcccCCCCCEEEEECC
Confidence            57899999999999999999999999999987555 58899999999999 89999999999998889999999999999


Q ss_pred             EEEecCCCccccCCceEEEEccCcEEEEccCcC--CCCCCC------ccccccccccccccCCcceeEEEEEEEEeCCce
Q 006973          252 TLRVANKQFKTVQNDYEMNLNENSEVEEAVNET--AFIPQT------KFNFVPIDELGRYVNGTELVDIIGVVQNVSPTM  323 (623)
Q Consensus       252 ~V~~a~~~~~~~~~~yei~f~~~T~I~~~~d~~--~~iP~~------~~~f~~i~di~~~~~~~~~vDVIGvV~~v~~~~  323 (623)
                      .|+...      ...++|.+...|+|...+|.+  ..+|.+      .+.+.+|.+|..   .+.++.|.|.|.++.+-.
T Consensus       140 ~V~e~~------~G~~eLsvg~~s~i~~~pd~~ea~~i~~~~~~~~~~~~~k~I~ei~~---gd~~v~v~g~Iv~i~~~~  210 (355)
T PRK08402        140 QVRESL------SGLPELHINFRARIILNPDDPRVEEIPPLEEVRSYNYTRKKIGELEG---GERFVEVRGTIAKVYRVL  210 (355)
T ss_pred             EEeecC------CCcEEEEECCCceEEeCCCcccccccccccccccccccccCHHHccc---CCcEEEEEEEEEEEecCe
Confidence            997642      234699999999999887753  245554      367788899865   346799999999998711


Q ss_pred             ----------EEEEcc---------CCc-eee---EEEEEEEeCCccEEEEEEechhhhhh
Q 006973          324 ----------SIRRKS---------NNE-MVP---KRDITVADETKRTVTVSLWNELATNV  361 (623)
Q Consensus       324 ----------~i~~k~---------~g~-~~~---kr~i~l~D~sg~~I~vtLWg~~A~~~  361 (623)
                                .+....         .|+ .-.   ...+.|.|.|| .+.|+||++.|+.+
T Consensus       211 ~y~aCp~CnKkv~~~~~~~~~~Ce~~~~v~p~~ryil~~~l~D~TG-~~~vt~f~e~ae~l  270 (355)
T PRK08402        211 VYDACPECRRKVDYDPATDTWICPEHGEVEPIKITILDFGLDDGTG-YIRVTLFGDDAAEL  270 (355)
T ss_pred             eEecCCCCCeEEEEecCCCCEeCCCCCCcCcceeEEEEEEEEcCCC-cEEEEEecHHHHHH
Confidence                      111000         121 112   23678999999 89999999998765

>PRK07217 replication factor A; Reviewed

Probab=99.63  E-value=8.7e-14  Score=141.01  Aligned_cols=208  Identities=13%  Similarity=0.189  Sum_probs=156.6

Q ss_pred             ccccccccccccCCcceeEEEEEEEEeCCceEEEEccCCceeeEEEEEEEeCCccEEEEEEechhhhhhhhHhhhcCCCC
Q 006973          293 NFVPIDELGRYVNGTELVDIIGVVQNVSPTMSIRRKSNNEMVPKRDITVADETKRTVTVSLWNELATNVGQELLDNADKS  372 (623)
Q Consensus       293 ~f~~i~di~~~~~~~~~vDVIGvV~~v~~~~~i~~k~~g~~~~kr~i~l~D~sg~~I~vtLWg~~A~~~~~~~~~~~~~~  372 (623)
                      ..++|.||..   .+.-|+|.|.|..+++..      .+.  ..+.=.|.|+|| +|++|+|++....       .+..|
T Consensus        71 ~~~kI~Di~~---~~~~VsV~aKVl~l~e~~------~~s--i~qvGllgDETG-~IkfT~W~~s~~~-------~leeG  131 (311)
T PRK07217         71 ELVNIADIDE---PEQWVDVTAKVVQLWEPS------SDS--IAQVGLLGDETG-TIKFTKWAKSDLP-------ELEEG  131 (311)
T ss_pred             CceeeeecCC---CCCcEEEEEEEEEecCCC------CCc--eEEEEEEEcCCc-eEEEEEccCCCCC-------cccCC
Confidence            3567888864   456899999999998753      122  233346999999 8999999974211       14669


Q ss_pred             cEEEEEeEEeeeccce-eeecccceEEEEcCChHHHHHHHHHHHhCCCccceeeecCCcCccccCCcccccccceehhcc
Q 006973          373 PIVAIKSLKVGDFQGI-SLSTLGRSTVLVSPDLPEAKKLKSWYESEGKGTSMASIGSGLGSLAKNGARSMYSDRVSLTHI  451 (623)
Q Consensus       373 ~Vv~i~~~kV~~f~G~-~Ls~~~~S~i~iNPd~pe~~~l~~w~~~~g~~~~~~~~~~~~~~~~~~~~~~~~~~~~ti~~i  451 (623)
                      .++-|.++.+.+|+|+ +|+.+..|+|...++.                     +                       ++
T Consensus       132 d~~rI~na~v~ey~G~~~lnlg~~t~I~~~de~---------------------I-----------------------eV  167 (311)
T PRK07217        132 KSYLLKNVVTDEYQGRFSVKLNRTTSIEELDED---------------------I-----------------------EV  167 (311)
T ss_pred             CEEEEEeEEEeeECCEEEEEeCCceEEEeCCCC---------------------c-----------------------cc
Confidence            9999999999999996 8988888888765531                     0                       00


Q ss_pred             ccCCCCCCCCCeEEEEEEEEEEEeCCCCeEeccccc--cccceecCCCCeeecCcCCCCccccceeEEEEEEEEeCCCcE
Q 006973          452 TSNPSLGDEKPVFFSIKAYISLIKPDQAMWYRACKT--CNKKVTDALGSGYWCEGCQKNDEECSLRYIMVARVCDGSGEA  529 (623)
Q Consensus       452 ~~~~~~~~~~~~~~~v~a~I~~i~~d~~~~Y~aC~~--C~KKv~~~~~~~~~C~kC~~~~~~~~~ry~l~~~i~D~Tg~~  529 (623)
                      .+ .        -..+.|.++.|..... ....||.  |+|.+..     +.|+.|++.-  +.+-.++.+.+.|+||++
T Consensus       168 ~~-~--------~vei~G~lVdi~~Gsg-lI~rCP~~~C~Rvl~~-----g~C~~HG~ve--~~~DLrik~vlDDGt~~~  230 (311)
T PRK07217        168 GD-D--------EVEVEGALVDIQSGSG-LIKRCPEEDCTRVLQN-----GRCSEHGKVE--GEFDLRIKGVLDDGEEVQ  230 (311)
T ss_pred             cC-c--------cccceeEEEEEeCCCC-CeecCCccccCccccC-----CCCCCCCCcC--CceeeEEEEEEECCCCeE
Confidence            01 0        0346789999988755 4889999  9999943     4899999764  678888899999999999


Q ss_pred             EEEEehHhHHHHhCCCHHHHHHHHhhcCCchhHHHHH-HHhcCceEEEEEEE
Q 006973          530 WISIFNEEAERIIGCSADELNELKSQLGDDNSYQMKL-KEVTWVPHLLRVSV  580 (623)
Q Consensus       530 ~~~~F~~~ae~llG~sA~el~~~~~~~~~~~~~~~~l-~~~~~~~~~f~v~~  580 (623)
                      .+.+-.+..++|.|++-+|+++|..+.-|.......| +.++|+.|.|+...
T Consensus       231 ~~~~~~e~te~l~G~~l~eak~~a~dald~~vv~~~i~~~llGr~~~v~G~~  282 (311)
T PRK07217        231 EVIFNREATEELTGITLEEAKQMAMDALDTGVVLDELKEKLLGRYYRVTGPT  282 (311)
T ss_pred             EEEEChHHhHHHhCCCHHHHHHHHHHhhchhhHHHHHHHhhcCceEEEEecc
Confidence            9999999999999999999998874322222233334 56899999888854

>PRK06386 replication factor A; Reviewed

Probab=99.42  E-value=1e-10  Score=122.58  Aligned_cols=248  Identities=15%  Similarity=0.139  Sum_probs=170.5

Q ss_pred             CcceEEEeeee--ecC------ceEEEEEeCcccceeeccccccccccccCccceeeEEEEcceeeeccCCCceEEEEEE
Q 006973           26 PEIVVQVLDLK--LTG------NRYMFNASDGKKRLKAILPSNLSSEVISGNIQNKGLIRLLDYALNEIPTKSEKYLIVT   97 (623)
Q Consensus        26 ~~pvlQvl~~k--~~~------~ryr~~lSDG~~~~~~mlat~ln~~v~~~~l~~~siirl~~y~~~~~~~~~~~vlii~   97 (623)
                      -+-...||++-  .+.      ..+..+|.|++..+...+|.+.      ..|+.|+.|+|.+..+..-++.  .-|-+.
T Consensus        15 V~v~akVl~~~~r~i~~~~g~~~~~~gllgDeTG~I~fT~W~~~------~~l~~Gd~v~i~na~v~~~~G~--~~Lnv~   86 (358)
T PRK06386         15 VDLKVKVLSLNKRTIKNDRGETIYYYGIIGDETGTVPFTAWEFP------DAVKSGDVIEIKYCYSKEYNGK--IRIYFD   86 (358)
T ss_pred             EEEEEEEEEccceEEecCCCCeEEEEEEEECCcceEEEEecCCc------ccCCCCCEEEEEeEEEeeECCE--EEEEEc
Confidence            34556666544  332      3567789999999999998852      3579999999999988765542  221111


Q ss_pred             eeeeeccccchhhccccCCCCCcccCCCCCccccCCCCCCcccCchhhhhhhhhhhhhccccCCCCccccccCCcCeeec
Q 006973           98 KCEVVSPALEMEIKIEVKSDESGIIFKPKQEDEVKKDGPGIVLKPKQEMVAKSAAQILRDQNGNMAPAARLAMTRRVHPL  177 (623)
Q Consensus        98 ~lev~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~I  177 (623)
                           .. ..  +           ...+..           ....                    .+      ..+..+|
T Consensus        87 -----~~-t~--v-----------~~~~d~-----------~iev--------------------~~------~~~~~KI  110 (358)
T PRK06386         87 -----SR-SE--V-----------MLKPDE-----------NIEV--------------------KR------TYKLVKI  110 (358)
T ss_pred             -----Cc-eE--E-----------EecCcc-----------cccc--------------------cc------ccCccEe
Confidence                 00 00  0           000000           0000                    00      0135799


Q ss_pred             cccCCCCCCeEEEEEEEeeccccccccCCCcccEEEEEEEeCCCCeEEEEEechHHHHHHhhcccCcEEEEeeeEEEecC
Q 006973          178 VSLNPYQGNWTIKVRVTSKGNMRTYKNARGEGCVFNVELTDEDGTQIQATMFNEAARKFYDRFQLGKVYYISRGTLRVAN  257 (623)
Q Consensus       178 ~~L~p~~~~w~I~~RV~~K~~~r~~~~~~g~g~~f~~~L~D~~G~~I~at~~~~~~~kf~~~l~eG~vy~is~~~V~~a~  257 (623)
                      ++|.|....-+|.|||+..|+ |+|....+.|.+.++.|.|++| +|+.|.|++       .|++|++|.|.|+.+...+
T Consensus       111 ~DL~~g~~~v~V~akVle~~e-~e~~~~g~~~~v~sg~lgDeTG-rIr~TlW~~-------~l~eGd~v~i~na~v~e~~  181 (358)
T PRK06386        111 RDLSLVTPYVSVIGKITGITK-KEYDSDGTSKIVYQGYIEDDTA-RVRISSFGK-------PLEDNRFVRIENARVSQYN  181 (358)
T ss_pred             EeccCCCCceEEEEEEEEccC-ceEecCCCccEEEEEEEEcCCC-eEEEEEccc-------cccCCCEEEEeeeEEEccC
Confidence            999999866689999999987 7887545568899999999999 999999986       3899999999999876653


Q ss_pred             CCccccCCceEEEEccCcEEEEccCcCCCCCCCccccccccccccccCCcceeEEEEEEEEeCC-ceEEEEcc-------
Q 006973          258 KQFKTVQNDYEMNLNENSEVEEAVNETAFIPQTKFNFVPIDELGRYVNGTELVDIIGVVQNVSP-TMSIRRKS-------  329 (623)
Q Consensus       258 ~~~~~~~~~yei~f~~~T~I~~~~d~~~~iP~~~~~f~~i~di~~~~~~~~~vDVIGvV~~v~~-~~~i~~k~-------  329 (623)
                             ..++|+++..|.|++.+++   +. ..-.+.+|.||.+   ....+-+.|.|++|.+ ..-|.+-.       
T Consensus       182 -------G~~el~v~~~t~I~~~~~~---ie-v~~~~~~I~di~~---~~g~v~i~G~iv~i~~gsgli~rCP~C~R~l~  247 (358)
T PRK06386        182 -------GYIEISVGNKSVIKEVESD---IN-LESRNIFIFEIKS---PVGGITIMGFIVSVGQGSRIFTKCSVCNKIIE  247 (358)
T ss_pred             -------CeEEEEeCCeEEEEECCCC---cc-cCccccchhhhhc---cCCeEEEEEEEEEEcCCcEeEecCcCCCeEcc
Confidence                   4589999999999998654   22 2335788899876   2334888899999885 32222110       


Q ss_pred             ----------CCceeeEEEEEEEeCCccEEEEEEechhhhhh
Q 006973          330 ----------NNEMVPKRDITVADETKRTVTVSLWNELATNV  361 (623)
Q Consensus       330 ----------~g~~~~kr~i~l~D~sg~~I~vtLWg~~A~~~  361 (623)
                                .+....+-.+.|-|.+| .++|+|.++.++.+
T Consensus       248 ~g~C~~HG~v~~~~dlr~k~vLDDGtg-~~~~~l~~e~~e~l  288 (358)
T PRK06386        248 DGVCKDHPDAPVYLDIFGYFTISDGTG-FVTCYANKDSFLPY  288 (358)
T ss_pred             CCcCCCCCCCCCeeEEEEEEEEECCCC-eEEEEEChHHhHHH
Confidence                      12222333488888888 89999999998875

>PRK07218 replication factor A; Provisional

Probab=99.34  E-value=2.1e-10  Score=123.25  Aligned_cols=236  Identities=18%  Similarity=0.193  Sum_probs=167.7

Q ss_pred             EEEEEeCcccceeeccccccccccccCccceeeEEEEcceeeeccCCCceEEEEEEeeeeeccccchhhccccCCCCCcc
Q 006973           42 YMFNASDGKKRLKAILPSNLSSEVISGNIQNKGLIRLLDYALNEIPTKSEKYLIVTKCEVVSPALEMEIKIEVKSDESGI  121 (623)
Q Consensus        42 yr~~lSDG~~~~~~mlat~ln~~v~~~~l~~~siirl~~y~~~~~~~~~~~vlii~~lev~~~~~~~~~~~~~~~~~~~~  121 (623)
                      ..++|.|.+..++..||..+       .|+.|++|+|.+-.+..-++  +.     +|.+ .....+.            
T Consensus        95 ~~~~igDeTG~Ir~tlW~~~-------~l~~Gdvv~I~na~vre~~g--~~-----el~i-g~~t~I~------------  147 (423)
T PRK07218         95 YEGILADETGTISYTAWKDF-------GLSPGDTVTIGNAGVREWDG--RP-----ELNI-GESTTVS------------  147 (423)
T ss_pred             EEEEEECCCCeEEEEEECCC-------CCCCCCEEEEeccEeeccCC--ce-----EEec-cCcceEE------------
Confidence            37899999999999999955       28999999999766554333  11     1110 0110100            


Q ss_pred             cCCCCCccccCCCCCCcccCchhhhhhhhhhhhhccccCCCCccccccCCcCeeeccccCCCCCCeEEEEEEEeeccccc
Q 006973          122 IFKPKQEDEVKKDGPGIVLKPKQEMVAKSAAQILRDQNGNMAPAARLAMTRRVHPLVSLNPYQGNWTIKVRVTSKGNMRT  201 (623)
Q Consensus       122 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~I~~L~p~~~~w~I~~RV~~K~~~r~  201 (623)
                       ..+..           . .|                     |.    ......+|.+|.|.....+|.|||+..++ |+
T Consensus       148 -~~de~-----------~-~~---------------------~~----~~~~~~kI~DL~~g~~~V~v~g~Vl~~~~-r~  188 (423)
T PRK07218        148 -LLDDS-----------S-LP---------------------PY----SIGGDKKLIDLGPGDRGVNVEARVLELEH-RE  188 (423)
T ss_pred             -EcCcc-----------c-cc---------------------Cc----cccCccchhhccCCCCceEEEEEEEEecc-ee
Confidence             00000           0 00                     00    01124689999999988899999999976 89


Q ss_pred             cccCCCcccEEEEEEEeCCCCeEEEEEechHHHHHHhhcccCcEEEEeeeEEEecCCCccccCCceEEEEccCcEEEEcc
Q 006973          202 YKNARGEGCVFNVELTDEDGTQIQATMFNEAARKFYDRFQLGKVYYISRGTLRVANKQFKTVQNDYEMNLNENSEVEEAV  281 (623)
Q Consensus       202 ~~~~~g~g~~f~~~L~D~~G~~I~at~~~~~~~kf~~~l~eG~vy~is~~~V~~a~~~~~~~~~~yei~f~~~T~I~~~~  281 (623)
                      |...+|++.+.+.+|.|++| .|+.|.|++.+     .|++|++|.|.|+.++..+       ..++|++++.|+|+..+
T Consensus       189 f~~~dg~~~v~~giigDeTG-~Ir~tlW~~~~-----~l~~Gd~v~I~na~v~e~~-------G~~elnv~~~t~I~~~d  255 (423)
T PRK07218        189 IDGRDGETTILSGVLADETG-RLPFTDWDPLP-----EIEIGASIRIEDAYVREFR-------GVPSVNVSEFTTVEALD  255 (423)
T ss_pred             EEcCCCCeEEEEEEEECCCc-eEEEEEecccc-----cCCCCCEEEEeeeEEeccC-------CeEEEEECCceEEEECC
Confidence            98878888899999999999 99999999853     4899999999999997653       45899999999999986


Q ss_pred             CcCCCCCCCccccccccccccccCCcc-eeEEEEEEEEeCCceEEEEc------------------cCCceeeEEEEEEE
Q 006973          282 NETAFIPQTKFNFVPIDELGRYVNGTE-LVDIIGVVQNVSPTMSIRRK------------------SNNEMVPKRDITVA  342 (623)
Q Consensus       282 d~~~~iP~~~~~f~~i~di~~~~~~~~-~vDVIGvV~~v~~~~~i~~k------------------~~g~~~~kr~i~l~  342 (623)
                      ++ ..++. .+.-++|.++.+.  .+. .|.|.|.|++|.+-.-+..+                  -.+....+..+.|-
T Consensus       256 ~~-i~v~~-~~~~~~I~e~~~~--~g~~~Vev~G~Iv~i~~gsgli~rCP~C~r~v~~~~C~~hG~ve~~~dlrik~vLD  331 (423)
T PRK07218        256 RE-VSVSK-DPPRLKIREAVER--GGIFDVELVGNIISVRDGSGLIERCPECGRVIQKGQCRSHGAVEGEDDLRIKAILD  331 (423)
T ss_pred             CC-ccccC-Cccccchhhhhcc--CCcceEEEEEEEEEeccCCcceecCcCccccccCCcCCCCCCcCCeeeeEEEEEEE
Confidence            54 23332 2445778888752  333 48999999999877432211                  02333456788899


Q ss_pred             eCCccEEEEEEechhhhhh
Q 006973          343 DETKRTVTVSLWNELATNV  361 (623)
Q Consensus       343 D~sg~~I~vtLWg~~A~~~  361 (623)
                      |.+| +++|+|.++.++.+
T Consensus       332 DGtg-~~~~~~~~e~~e~l  349 (423)
T PRK07218        332 DGTG-SVTVILDRELTEIV  349 (423)
T ss_pred             CCCC-eEEEEEChhhhHhH
Confidence            9999 89999999988754

>KOG0851 consensus Single-stranded DNA-binding replication protein A (RPA), large (70 kD) subunit and related ssDNA-binding proteins [Replication, recombination and repair]

Probab=99.23  E-value=9.2e-11  Score=118.83  Aligned_cols=214  Identities=22%  Similarity=0.283  Sum_probs=156.6

Q ss_pred             CeeeccccCCCCCCeEEEEEEEeeccccccccCCCcccEEEEEEEeCCCCeEEEEEechHHHHHHhhcccCcEEEEeeeE
Q 006973          173 RVHPLVSLNPYQGNWTIKVRVTSKGNMRTYKNARGEGCVFNVELTDEDGTQIQATMFNEAARKFYDRFQLGKVYYISRGT  252 (623)
Q Consensus       173 ~~~~I~~L~p~~~~w~I~~RV~~K~~~r~~~~~~g~g~~f~~~L~D~~G~~I~at~~~~~~~kf~~~l~eG~vy~is~~~  252 (623)
                      .++++.+|+|..+.|+|.++|++.|+..  .+.  .|..+.|+|.|+.|..|+|++......+|...|.+|+|+.|.+|.
T Consensus         3 ~~~~l~~l~~~~t~w~i~~~vl~v~~~~--~~~--~~~~~~~il~D~~~~~i~a~i~~~~~~~~~~~l~~~~w~~i~~f~   78 (246)
T KOG0851|consen    3 GFHRLRDLSPSITGWRIQVKVLRVWKKY--SNP--NGEELRLVLADEHGVKIEATVGRRLSSKYEDNLIENEWKIITTFG   78 (246)
T ss_pred             cccchhhcCcCceeeEEEEEEEEEEEec--CCC--CccEEEEEEEecCCcEEEEEcchHHHhhhhhheecceeEEeeeee
Confidence            3789999999999999999999987643  332  357899999999999999999999999999999999999999999


Q ss_pred             EEecCCCccccCCceEEEEccCcEEEEccCcCCCCCCCccccccccccccc-cCCcceeEEEE-EEEEeCCceEEEEccC
Q 006973          253 LRVANKQFKTVQNDYEMNLNENSEVEEAVNETAFIPQTKFNFVPIDELGRY-VNGTELVDIIG-VVQNVSPTMSIRRKSN  330 (623)
Q Consensus       253 V~~a~~~~~~~~~~yei~f~~~T~I~~~~d~~~~iP~~~~~f~~i~di~~~-~~~~~~vDVIG-vV~~v~~~~~i~~k~~  330 (623)
                      |.++...++.+.|+|++.|...+.+.........+|  ..+|.++..+.+. .....++|++| .+..|+.+..-  ...
T Consensus        79 v~~~~~~~~~~~~~~~i~~~~~~~~~~~~~~~~~~~--~~~~~~~~~~v~~~~~~~~~v~~~~~~~~~v~~~~~~--~~~  154 (246)
T KOG0851|consen   79 VNPNSGQVRATTHSFKINFMDFTVVTSSDTRLPCTP--WGKFTPFDSIVEDKSDKRVLVDLIGVAVYDVSQLTVT--PAI  154 (246)
T ss_pred             ecccccceeeeeeEEEEEeccceeeccCCCCcccee--ccccchhhhhhccccCCcEEEEeeceeEEEeeeeEec--ccc
Confidence            999999999999999999987777766543212223  3567777555442 45667899999 67777655421  123


Q ss_pred             CceeeEEEEEEEeCCccEEEEEEechhhhhhhhHhhhcCCCCcEEEEEeEEeeeccceeeecccceEEEEcCChHHHHHH
Q 006973          331 NEMVPKRDITVADETKRTVTVSLWNELATNVGQELLDNADKSPIVAIKSLKVGDFQGISLSTLGRSTVLVSPDLPEAKKL  410 (623)
Q Consensus       331 g~~~~kr~i~l~D~sg~~I~vtLWg~~A~~~~~~~~~~~~~~~Vv~i~~~kV~~f~G~~Ls~~~~S~i~iNPd~pe~~~l  410 (623)
                      ++....+.+...+.++       |     ..       .+.-.++..++..+.+| +++ ...+.+.+..+|+   +..+
T Consensus       155 ~~~~~~~~~~~~~~~~-------~-----~~-------~~~~~~c~~~~~~~~~~-~~~-~~l~~~~~~~~~~---l~~~  210 (246)
T KOG0851|consen  155 DTDVDGFYLTFKICNK-------S-----KF-------SKPVLWCEACGEQATDF-GRK-RSLGGGVIVIAPE---LLFW  210 (246)
T ss_pred             cCCcceEEEEEeeccc-------c-----cc-------cCceEEehhhcchHHhh-hhh-eEecCCcEEccch---heee
Confidence            5567888888888776       1     00       11113344456666677 545 5667777888887   5555


Q ss_pred             HHHHHhCC
Q 006973          411 KSWYESEG  418 (623)
Q Consensus       411 ~~w~~~~g  418 (623)
                      +.|....|
T Consensus       211 ~~~~~~~G  218 (246)
T KOG0851|consen  211 KIWRYFDG  218 (246)
T ss_pred             cccccccC
Confidence            55665555

>cd04497 hPOT1_OB1_like hPOT1_OB1_like: A subfamily of OB folds similar to the first OB fold (OB1) of human protection of telomeres 1 protein (hPOT1), the single OB fold of the N-terminal domain of Schizosaccharomyces pombe POT1 (SpPOT1), and the first OB fold of the N-terminal domain of the alpha subunit (OB1Nalpha) of Oxytricha nova telomere end binding protein (OnTEBP)

Probab=99.14  E-value=4.9e-10  Score=103.31  Aligned_cols=89  Identities=18%  Similarity=0.353  Sum_probs=75.1

Q ss_pred             cccccccccccccCCcceeEEEEEEEEeCCceEEEEccCCceeeEEEEEEEeCCc---cEEEEEEechhhhhhhhHhhhc
Q 006973          292 FNFVPIDELGRYVNGTELVDIIGVVQNVSPTMSIRRKSNNEMVPKRDITVADETK---RTVTVSLWNELATNVGQELLDN  368 (623)
Q Consensus       292 ~~f~~i~di~~~~~~~~~vDVIGvV~~v~~~~~i~~k~~g~~~~kr~i~l~D~sg---~~I~vtLWg~~A~~~~~~~~~~  368 (623)
                      |+|++|++|.+  ..+..|||||+|++++++..    ..|++ -++.|+|+|.|+   ..+.|++|++.++.+..     
T Consensus         1 ~~f~~i~~~~~--~~~~~v~vigVV~~~~~p~~----s~g~d-~~~tl~i~D~S~~~~~~l~v~~F~~~~~~LP~-----   68 (138)
T cd04497           1 YKYTPLSSALK--ESGGSVNVIGVVVDAGPPVR----SKGTD-YCCTLTITDPSLANSDGLTVKLFRPNEESLPI-----   68 (138)
T ss_pred             CceEeHHHHHh--ccCCeEEEEEEEeecCCCcc----cCCCc-EEEEEEEECCCCCCCCcEEEEEECCChhhCCC-----
Confidence            57999999986  35789999999999998753    33655 799999999998   78999999999998753     


Q ss_pred             CCCCcEEEEEeEEeeeccceeeec
Q 006973          369 ADKSPIVAIKSLKVGDFQGISLST  392 (623)
Q Consensus       369 ~~~~~Vv~i~~~kV~~f~G~~Ls~  392 (623)
                      ...|+||++++++|..|+|+.+..
T Consensus        69 v~~GDVIll~~~kv~~~~g~~~~~   92 (138)
T cd04497          69 VKVGDIILLRRVKIQSYNGKPQGI   92 (138)
T ss_pred             CCCCCEEEEEEEEEEEECCceEEE
Confidence            467999999999999999975433

POT1 proteins recognize single-stranded (ss) 3-prime ends of the telomere. A 3-prime ss overhang is conserved in ciliated protozoa, yeast, and mammals. SpPOT1 is essential for telomere maintenance. It binds specifically to the ss G-rich telomeric sequence (GGTTAC) of S. pombe. hPOT1 binds specifically to ss telomeric DNA repeats ending with the sequence GGTTAG. Deletion of the S. pombe pot1+ gene results in a rapid loss of telomere sequences, chromosome mis-segregation and chromosome circularization. hPOT1 is implicated in telomere length regulation. The hPOT1 monomer consists of two closely connected OB folds (OB1-OB

>COG1599 RFA1 Single-stranded DNA-binding replication protein A (RPA), large (70 kD) subunit and related ssDNA-binding proteins [DNA replication, recombination, and repair]

Probab=99.11  E-value=5.1e-10  Score=121.66  Aligned_cols=207  Identities=32%  Similarity=0.446  Sum_probs=156.0

Q ss_pred             cCeeeccccCCCCCCeEEEEEEEeeccccccccCCCcccEEEEEEEeCC-CCeEEEEEechHHHHHHhhcccCcEEEEee
Q 006973          172 RRVHPLVSLNPYQGNWTIKVRVTSKGNMRTYKNARGEGCVFNVELTDED-GTQIQATMFNEAARKFYDRFQLGKVYYISR  250 (623)
Q Consensus       172 ~~~~~I~~L~p~~~~w~I~~RV~~K~~~r~~~~~~g~g~~f~~~L~D~~-G~~I~at~~~~~~~kf~~~l~eG~vy~is~  250 (623)
                      ..+.++..+.|+.     ++||+.+.++|+|.+++|++++|+..|.|++ | .+..+.|.+.        ++|++|.+.+
T Consensus       160 ~~i~~~~~~~~~~-----~~~v~~g~~ik~~~~~~ge~~~~~~~~~d~~~~-~~~~~~~~~~--------~~g~~~~ie~  225 (407)
T COG1599         160 REIGEESLLSPYQ-----KARVVVGSEIKTFDNQGGESKVFSNELEDEERG-VIVFTDWDPS--------QDGDVYRIEG  225 (407)
T ss_pred             cccccccccCccc-----eEEEEecccceeEecCCCccceEeeeeccccee-EEEeccCccc--------ccceeeeecC
Confidence            4567888888887     9999999999999999999999999999998 4 5555555542        9999999999


Q ss_pred             eEEEecCCCccccCCceEEEEccC--cEEEEccCcCCCCCCCccccccccccccccCCcceeEEEEEEEEeCCceEEEEc
Q 006973          251 GTLRVANKQFKTVQNDYEMNLNEN--SEVEEAVNETAFIPQTKFNFVPIDELGRYVNGTELVDIIGVVQNVSPTMSIRRK  328 (623)
Q Consensus       251 ~~V~~a~~~~~~~~~~yei~f~~~--T~I~~~~d~~~~iP~~~~~f~~i~di~~~~~~~~~vDVIGvV~~v~~~~~i~~k  328 (623)
                      .+|+..++++... +.+++.+...  +.+.++.+. ..+|...+. ....++.     +..+|    |+.+.+...+..+
T Consensus       226 ~~v~~~~~~~~~~-~~~e~~~~~~~~~~i~~~~~~-~~~~~~~~~-~~~~~~~-----~~~v~----v~~~~~c~~~~~~  293 (407)
T COG1599         226 ARVKTKNKQPEEN-LAEELVLRVEVRVAIEKAERE-EFVDEVKES-VSLVEAD-----GAVVD----VTRVPECERVVRK  293 (407)
T ss_pred             cEEEEeccccccc-ccceEEEeecceeeccCCCCc-cccceeecc-cccceec-----cceEE----EEECCCceEEEeC
Confidence            9999999988877 9999999887  444444332 233332222 2222221     23344    7777777776554


Q ss_pred             cCCceeeEEEEEEEeCCccEEEEEEechhhhhhhhHhhhcCCCCcEEEEEeEEeeeccceeeecccceEEEEcCChHHHH
Q 006973          329 SNNEMVPKRDITVADETKRTVTVSLWNELATNVGQELLDNADKSPIVAIKSLKVGDFQGISLSTLGRSTVLVSPDLPEAK  408 (623)
Q Consensus       329 ~~g~~~~kr~i~l~D~sg~~I~vtLWg~~A~~~~~~~~~~~~~~~Vv~i~~~kV~~f~G~~Ls~~~~S~i~iNPd~pe~~  408 (623)
                       ++.....+++.+.|.+| .++|+|||+.++..       .+.+.+.++++.++.++.|+.+++          .++++.
T Consensus       294 -~~~~~~~~~~~l~D~~g-~~rv~~~~~~~e~~-------~~~~~~~~~~~~~~~~~~~~~~~~----------~~~~~~  354 (407)
T COG1599         294 -GGCKGHGKDIGLDDLTG-KIRVTLWGDATEVL-------INEESVEALKGINVEDASGIALSA----------LDTEAV  354 (407)
T ss_pred             -CCcccccccceEecCce-EEEEecCCCceEEE-------ecccchhheeeeeeeeccchhhhh----------hhhhhh
Confidence             46667889999999988 89999999844332       466888999999999999987654          667888


Q ss_pred             HHHHHHHhCCCccce
Q 006973          409 KLKSWYESEGKGTSM  423 (623)
Q Consensus       409 ~l~~w~~~~g~~~~~  423 (623)
                      .+..||...|+...+
T Consensus       355 a~~~~~~~~Gk~~~v  369 (407)
T COG1599         355 ALEIWYDILGKYLRV  369 (407)
T ss_pred             hhhcchhcccceEEe
Confidence            899999998876443

>cd04491 SoSSB_OBF SoSSB_OBF: A subfamily of OB folds similar to the OB fold of the crenarchaeote Sulfolobus solfataricus single-stranded (ss) DNA-binding protein (SSoSSB)

Probab=98.94  E-value=6.8e-09  Score=86.84  Aligned_cols=81  Identities=30%  Similarity=0.424  Sum_probs=70.7

Q ss_pred             EEEEEEEeeccccccccCCCcccEEEEEEEeCCCCeEEEEEechHHHHHHhhcccCcEEEEeeeEEEecCCCccccCCce
Q 006973          188 TIKVRVTSKGNMRTYKNARGEGCVFNVELTDEDGTQIQATMFNEAARKFYDRFQLGKVYYISRGTLRVANKQFKTVQNDY  267 (623)
Q Consensus       188 ~I~~RV~~K~~~r~~~~~~g~g~~f~~~L~D~~G~~I~at~~~~~~~kf~~~l~eG~vy~is~~~V~~a~~~~~~~~~~y  267 (623)
                      +|.|||+.+++.|+|.+..++++++++.|.|++| .|++++|++.+   .+.|++|++|.|.++.++..+       ..+
T Consensus         1 ~v~~~V~~~~~~~~~~~~g~~~~~~~~~l~D~TG-~i~~~~W~~~~---~~~~~~G~vv~i~~~~v~~~~-------g~~   69 (82)
T cd04491           1 SVEGKVLSISEPREFTRDGSEGKVQSGLVGDETG-TIRFTLWDEKA---ADDLEPGDVVRIENAYVREFN-------GRL   69 (82)
T ss_pred             CEEEEEEEccCCeEeccCCCeeEEEEEEEECCCC-EEEEEEECchh---cccCCCCCEEEEEeEEEEecC-------CcE
Confidence            4789999999999998444578899999999999 99999999876   777999999999999987754       568


Q ss_pred             EEEEccCcEEEE
Q 006973          268 EMNLNENSEVEE  279 (623)
Q Consensus       268 ei~f~~~T~I~~  279 (623)
                      +|.++..|.|++
T Consensus        70 ql~i~~~~~i~~   81 (82)
T cd04491          70 ELSVGKNSEIEK   81 (82)
T ss_pred             EEEeCCceEEEE
Confidence            999999998875

SSoSSB has a single OB fold, and it physically and functionally interacts with RNA polymerase. In vitro, SSoSSB can substitute for the basal transcription factor TBP, stimulating transcription from promoters under conditions in which TBP is limiting, and supporting transcription when TBP is absent. SSoSSB selectively melts the duplex DNA of promoter sequences. It also relieves transcriptional repression by the chromatin Alba. In addition, SSoSSB activates reverse gyrase activity, which involves DNA binding, DNA cleavage, strand passage and ligation. SSoSSB stimulates all these steps in the presence of the chromatin protein, Sul7d. SSoSSB antagonizes the inhibitory effect of Sul7d on reverse gyrase supercoiling activity. It also physically and functionally interacts with Mini-chromosome Maintenance (MCM), stimulating

>PRK06461 single-stranded DNA-binding protein; Reviewed

Probab=98.90  E-value=1.4e-08  Score=92.33  Aligned_cols=98  Identities=18%  Similarity=0.311  Sum_probs=84.4

Q ss_pred             CeeeccccCCCCCCeEEEEEEEeeccccccccCCCcccEEEEEEEeCCCCeEEEEEechHHHHHHhhcccCcEEEEeeeE
Q 006973          173 RVHPLVSLNPYQGNWTIKVRVTSKGNMRTYKNARGEGCVFNVELTDEDGTQIQATMFNEAARKFYDRFQLGKVYYISRGT  252 (623)
Q Consensus       173 ~~~~I~~L~p~~~~w~I~~RV~~K~~~r~~~~~~g~g~~f~~~L~D~~G~~I~at~~~~~~~kf~~~l~eG~vy~is~~~  252 (623)
                      .+.+|++|.|...+..+.++|+.+++.+.+....+.+++.++.|.|++| .|++++|++.++    .|++|+|+.|.|+.
T Consensus         3 ~~~kI~dL~~g~~~v~~~~~V~~i~~~~~~~~k~~~~~v~~~~l~D~TG-~I~~tlW~~~a~----~l~~GdvV~I~na~   77 (129)
T PRK06461          3 MITKIKDLKPGMERVNVTVRVLEVGEPKVIQTKGGPRTISEAVVGDETG-RVKLTLWGEQAG----SLKEGEVVEIENAW   77 (129)
T ss_pred             CceEHHHcCCCCCceEEEEEEEEcCCceEEEeCCCceEEEEEEEECCCC-EEEEEEeCCccc----cCCCCCEEEEECcE
Confidence            3689999999988999999999999988887666667799999999999 799999998654    58999999999998


Q ss_pred             EEecCCCccccCCceEEEEccCcEEEEccC
Q 006973          253 LRVANKQFKTVQNDYEMNLNENSEVEEAVN  282 (623)
Q Consensus       253 V~~a~~~~~~~~~~yei~f~~~T~I~~~~d  282 (623)
                      +...+       ...+|.+..+|.|.++++
T Consensus        78 v~~f~-------G~lqL~i~~~~~i~~~~~  100 (129)
T PRK06461         78 TTLYR-------GKVQLNVGKYGSISESDD  100 (129)
T ss_pred             EeeeC-------CEEEEEECCCEEEEECCc
Confidence            87543       347899999999998765

>PRK06461 single-stranded DNA-binding protein; Reviewed

Probab=98.90  E-value=1.3e-08  Score=92.63  Aligned_cols=95  Identities=24%  Similarity=0.313  Sum_probs=78.9

Q ss_pred             cccccccccccCCcceeEEEEEEEEeCCceEEEEccCCceeeEEEEEEEeCCccEEEEEEechhhhhhhhHhhhcCCCCc
Q 006973          294 FVPIDELGRYVNGTELVDIIGVVQNVSPTMSIRRKSNNEMVPKRDITVADETKRTVTVSLWNELATNVGQELLDNADKSP  373 (623)
Q Consensus       294 f~~i~di~~~~~~~~~vDVIGvV~~v~~~~~i~~k~~g~~~~kr~i~l~D~sg~~I~vtLWg~~A~~~~~~~~~~~~~~~  373 (623)
                      +++|+||..   ....|+++|+|.++++...+.+| ++ ....++++|.|+|| +|+++||++.|..+        ..+.
T Consensus         4 ~~kI~dL~~---g~~~v~~~~~V~~i~~~~~~~~k-~~-~~~v~~~~l~D~TG-~I~~tlW~~~a~~l--------~~Gd   69 (129)
T PRK06461          4 ITKIKDLKP---GMERVNVTVRVLEVGEPKVIQTK-GG-PRTISEAVVGDETG-RVKLTLWGEQAGSL--------KEGE   69 (129)
T ss_pred             ceEHHHcCC---CCCceEEEEEEEEcCCceEEEeC-CC-ceEEEEEEEECCCC-EEEEEEeCCccccC--------CCCC
Confidence            577888864   23579999999999999888887 24 45688999999999 79999999987653        5689


Q ss_pred             EEEEEeEEeeeccce-eeecccceEEEEcC
Q 006973          374 IVAIKSLKVGDFQGI-SLSTLGRSTVLVSP  402 (623)
Q Consensus       374 Vv~i~~~kV~~f~G~-~Ls~~~~S~i~iNP  402 (623)
                      ||.|+++++++|+|+ +|+....|.|..-+
T Consensus        70 vV~I~na~v~~f~G~lqL~i~~~~~i~~~~   99 (129)
T PRK06461         70 VVEIENAWTTLYRGKVQLNVGKYGSISESD   99 (129)
T ss_pred             EEEEECcEEeeeCCEEEEEECCCEEEEECC
Confidence            999999999999996 89988888887533

>cd04491 SoSSB_OBF SoSSB_OBF: A subfamily of OB folds similar to the OB fold of the crenarchaeote Sulfolobus solfataricus single-stranded (ss) DNA-binding protein (SSoSSB)

Probab=98.82  E-value=4.9e-08  Score=81.61  Aligned_cols=80  Identities=25%  Similarity=0.377  Sum_probs=68.7

Q ss_pred             EEEEEEEEeCCceEEEEccCCceeeEEEEEEEeCCccEEEEEEechhhhhhhhHhhhcCCCCcEEEEEeEEeeeccc-ee
Q 006973          311 DIIGVVQNVSPTMSIRRKSNNEMVPKRDITVADETKRTVTVSLWNELATNVGQELLDNADKSPIVAIKSLKVGDFQG-IS  389 (623)
Q Consensus       311 DVIGvV~~v~~~~~i~~k~~g~~~~kr~i~l~D~sg~~I~vtLWg~~A~~~~~~~~~~~~~~~Vv~i~~~kV~~f~G-~~  389 (623)
                      +|+|.|+.+++...+. + +|+....+++.|.|+|| +|++++|++.+..       .+..+.++.++++++++|+| ..
T Consensus         1 ~v~~~V~~~~~~~~~~-~-~g~~~~~~~~~l~D~TG-~i~~~~W~~~~~~-------~~~~G~vv~i~~~~v~~~~g~~q   70 (82)
T cd04491           1 SVEGKVLSISEPREFT-R-DGSEGKVQSGLVGDETG-TIRFTLWDEKAAD-------DLEPGDVVRIENAYVREFNGRLE   70 (82)
T ss_pred             CEEEEEEEccCCeEec-c-CCCeeEEEEEEEECCCC-EEEEEEECchhcc-------cCCCCCEEEEEeEEEEecCCcEE
Confidence            4789999999999998 5 68889999999999999 9999999998711       25678999999999999987 58


Q ss_pred             eecccceEEEE
Q 006973          390 LSTLGRSTVLV  400 (623)
Q Consensus       390 Ls~~~~S~i~i  400 (623)
                      |+....|.|..
T Consensus        71 l~i~~~~~i~~   81 (82)
T cd04491          71 LSVGKNSEIEK   81 (82)
T ss_pred             EEeCCceEEEE
Confidence            88887777754

SSoSSB has a single OB fold, and it physically and functionally interacts with RNA polymerase. In vitro, SSoSSB can substitute for the basal transcription factor TBP, stimulating transcription from promoters under conditions in which TBP is limiting, and supporting transcription when TBP is absent. SSoSSB selectively melts the duplex DNA of promoter sequences. It also relieves transcriptional repression by the chromatin Alba. In addition, SSoSSB activates reverse gyrase activity, which involves DNA binding, DNA cleavage, strand passage and ligation. SSoSSB stimulates all these steps in the presence of the chromatin protein, Sul7d. SSoSSB antagonizes the inhibitory effect of Sul7d on reverse gyrase supercoiling activity. It also physically and functionally interacts with Mini-chromosome Maintenance (MCM), stimulating

>PRK07217 replication factor A; Reviewed

Probab=98.48  E-value=5.6e-06  Score=84.69  Aligned_cols=171  Identities=12%  Similarity=0.089  Sum_probs=107.4

Q ss_pred             CcCeeeccccCCCCCCeEEEEEEEeeccccccccCCCcccEEEEEEEeCCCCeEEEEEechHHHHHHhhcccCcEEEEee
Q 006973          171 TRRVHPLVSLNPYQGNWTIKVRVTSKGNMRTYKNARGEGCVFNVELTDEDGTQIQATMFNEAARKFYDRFQLGKVYYISR  250 (623)
Q Consensus       171 ~~~~~~I~~L~p~~~~w~I~~RV~~K~~~r~~~~~~g~g~~f~~~L~D~~G~~I~at~~~~~~~kf~~~l~eG~vy~is~  250 (623)
                      ....++|++|+|...+.+|+|||+..|+.+.      +.....-+|.|++| +|+.|.|.+.   -.+.|++|++|.|.|
T Consensus        69 ~~~~~kI~Di~~~~~~VsV~aKVl~l~e~~~------~si~qvGllgDETG-~IkfT~W~~s---~~~~leeGd~~rI~n  138 (311)
T PRK07217         69 GSELVNIADIDEPEQWVDVTAKVVQLWEPSS------DSIAQVGLLGDETG-TIKFTKWAKS---DLPELEEGKSYLLKN  138 (311)
T ss_pred             CCCceeeeecCCCCCcEEEEEEEEEecCCCC------CceEEEEEEEcCCc-eEEEEEccCC---CCCcccCCCEEEEEe
Confidence            3457899999999999999999999987552      21233357999999 9999999963   145599999999999


Q ss_pred             eEEEecCCCccccCCceEEEEccCcEEEEccCcCCCCCCCcccc-ccccccccccC--CcceeEEEEEEEEeCCceEEEE
Q 006973          251 GTLRVANKQFKTVQNDYEMNLNENSEVEEAVNETAFIPQTKFNF-VPIDELGRYVN--GTELVDIIGVVQNVSPTMSIRR  327 (623)
Q Consensus       251 ~~V~~a~~~~~~~~~~yei~f~~~T~I~~~~d~~~~iP~~~~~f-~~i~di~~~~~--~~~~vDVIGvV~~v~~~~~i~~  327 (623)
                      +.+...+.       .++|.++..|+|++.+++ ..++...-.. -.+-+|...-.  ..+..+=++.|..-+.... .-
T Consensus       139 a~v~ey~G-------~~~lnlg~~t~I~~~de~-IeV~~~~vei~G~lVdi~~GsglI~rCP~~~C~Rvl~~g~C~~-HG  209 (311)
T PRK07217        139 VVTDEYQG-------RFSVKLNRTTSIEELDED-IEVGDDEVEVEGALVDIQSGSGLIKRCPEEDCTRVLQNGRCSE-HG  209 (311)
T ss_pred             EEEeeECC-------EEEEEeCCceEEEeCCCC-ccccCccccceeEEEEEeCCCCCeecCCccccCccccCCCCCC-CC
Confidence            99877654       488999999999998654 2222110000 01112211000  0000000222322221110 01


Q ss_pred             ccCCceeeEEEEEEEeCCccEEEEEEechhhhhh
Q 006973          328 KSNNEMVPKRDITVADETKRTVTVSLWNELATNV  361 (623)
Q Consensus       328 k~~g~~~~kr~i~l~D~sg~~I~vtLWg~~A~~~  361 (623)
                      +-.+..-.+....|-|.+| ++.|.|-.+..+.+
T Consensus       210 ~ve~~~DLrik~vlDDGt~-~~~~~~~~e~te~l  242 (311)
T PRK07217        210 KVEGEFDLRIKGVLDDGEE-VQEVIFNREATEEL  242 (311)
T ss_pred             CcCCceeeEEEEEEECCCC-eEEEEEChHHhHHH
Confidence            1134444566788888888 89999988776653

>TIGR00617 rpa1 replication factor-a protein 1 (rpa1)

Probab=98.36  E-value=4.2e-05  Score=87.11  Aligned_cols=258  Identities=14%  Similarity=0.168  Sum_probs=158.2

Q ss_pred             eEEEEEeCcccceeeccccccccccccCccceeeEEEEcceeeeccCCCceEEEEEEeeeeeccccchhhccccCCCCCc
Q 006973           41 RYMFNASDGKKRLKAILPSNLSSEVISGNIQNKGLIRLLDYALNEIPTKSEKYLIVTKCEVVSPALEMEIKIEVKSDESG  120 (623)
Q Consensus        41 ryr~~lSDG~~~~~~mlat~ln~~v~~~~l~~~siirl~~y~~~~~~~~~~~vlii~~lev~~~~~~~~~~~~~~~~~~~  120 (623)
                      -|.+.|.|....+++.+..+..+...+ .|+.|.+..|.++.+...+.   ++-      .+....+  +.-+..+   .
T Consensus       217 vfsv~L~Degg~Irat~f~~~~dkf~~-~l~eG~VY~Is~~~Vk~an~---~y~------~~~~~ye--i~f~~~T---~  281 (608)
T TIGR00617       217 LFNVELLDESGEIRATAFNEQADKFYD-IIQEGKVYYISKGSLKPANK---QFT------NLGNDYE--MTLDRDT---V  281 (608)
T ss_pred             eeEEEEecCCCeEEEEECchHHHHHhh-hcccCCEEEECceEEEEccc---ccc------CCCCCEE--EEECCCe---E
Confidence            478889997777888887776665554 68999999999988875432   110      0111111  1000000   0


Q ss_pred             ccCCCCCccccCCCCCCcccCchhhhhhhhhhhhhccccCCCCccccccCCcCeeeccccCCCCC--CeEEEEEEEeecc
Q 006973          121 IIFKPKQEDEVKKDGPGIVLKPKQEMVAKSAAQILRDQNGNMAPAARLAMTRRVHPLVSLNPYQG--NWTIKVRVTSKGN  198 (623)
Q Consensus       121 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~I~~L~p~~~--~w~I~~RV~~K~~  198 (623)
                      +..-+..           ..-|.                          ..-.++||++|.....  .--|.|.|+..++
T Consensus       282 I~~~~d~-----------~~iP~--------------------------~~~~f~~i~dI~~~~~~~~VDVIGvV~~v~~  324 (608)
T TIGR00617       282 IEECEDE-----------TAIPK--------------------------IQFNFVKIDDIGGYEGNSLVDVIGIVQSVSP  324 (608)
T ss_pred             EEECCCc-----------ccCCc--------------------------ccccceEHHHhhhhcCCCCccEEEEEeEecC
Confidence            0000000           00000                          0124789999976543  5679999999999


Q ss_pred             cccccc-CC-CcccEEEEEEEeCCCCeEEEEEechHHHHHHhhcccCcEEEEeeeEEEecCCCccccCCceEEEEccCcE
Q 006973          199 MRTYKN-AR-GEGCVFNVELTDEDGTQIQATMFNEAARKFYDRFQLGKVYYISRGTLRVANKQFKTVQNDYEMNLNENSE  276 (623)
Q Consensus       199 ~r~~~~-~~-g~g~~f~~~L~D~~G~~I~at~~~~~~~kf~~~l~eG~vy~is~~~V~~a~~~~~~~~~~yei~f~~~T~  276 (623)
                      ++++.. .. .++..-+|.|.|++|..|++|+|++.+..|.  ..+|.|+.|.+++|+..+.        ..|.....|.
T Consensus       325 ~~~i~~k~~g~~~~kR~i~L~D~sg~sI~vTLWG~~A~~~~--~~~~~Vva~kg~~V~~f~g--------~sLs~~~~S~  394 (608)
T TIGR00617       325 TQTITSRKNNKEFPKRDITLVDDSGKSVRVTLWGDDATKFD--VSVQPVIAIKGVRVSDFGG--------KSLSTGGSST  394 (608)
T ss_pred             ceEEEEcCCCCeeeeEEEEEEeCCCCEEEEEEEhhhhhhcC--CCCCCEEEEEeEEEEecCC--------ceEeccCCce
Confidence            998862 22 2445679999999998999999999999987  6899999999999976533        3444444555


Q ss_pred             EEEccCcC-------------CC-----C---C-----CCccccccccccccc-c---CCcceeEEEEEEEEeCCceEE-
Q 006973          277 VEEAVNET-------------AF-----I---P-----QTKFNFVPIDELGRY-V---NGTELVDIIGVVQNVSPTMSI-  325 (623)
Q Consensus       277 I~~~~d~~-------------~~-----i---P-----~~~~~f~~i~di~~~-~---~~~~~vDVIGvV~~v~~~~~i-  325 (623)
                      |..-+|.+             ..     +   .     ...+...+|.+|.+. +   ++...+.|.|.|..+..-... 
T Consensus       395 i~iNPdipEa~~L~~w~~~~g~~~~~~s~~~~~~~~~~~~~~~~ktI~ei~~~~lg~~~k~~~f~v~atI~~Ik~d~~~Y  474 (608)
T TIGR00617       395 IIVNPDIPEAEKLKGWYDNEGKGTMASSISDMMSGRVGGSNAERKTIAEIQAENLGKSDKPDYFSVKATISYLKPDNALY  474 (608)
T ss_pred             EEECCCcHHHHHHHHHHHhcCCCccceeehhccccccCCcccccccHHHHhhhccCCCCCCcEEEEEEEEEEEecCCeEe
Confidence            54322210             00     0   0     002455677777542 1   234578899999988642110 


Q ss_pred             --------EEc----cCC--------ce---e---eEEEEEEEeCCccEEEEEEechhhhhh
Q 006973          326 --------RRK----SNN--------EM---V---PKRDITVADETKRTVTVSLWNELATNV  361 (623)
Q Consensus       326 --------~~k----~~g--------~~---~---~kr~i~l~D~sg~~I~vtLWg~~A~~~  361 (623)
                              ..|    .+|        +.   .   -...+.|.|.|| .+.++++|+.|+.+
T Consensus       475 ~ACp~~~CnKKV~~~~~g~~~CekC~~~~~~~~~RYil~~~i~D~Tg-~~~~t~F~~~ae~l  535 (608)
T TIGR00617       475 RACPSEDCNKKVVDQGDGTYRCEKCNKNFAEFKYRYILQISISDETG-QLWVTAFNDQAEQI  535 (608)
T ss_pred             ccCChhhCCCccccCCCCCEECCCCCCCCCCccEEEEEEEEEEeCCC-CEEEEEEhHHHHHH
Confidence                    001    001        11   1   124788999999 79999999999764

This family is based on the phylogenomic analysis of JA Eisen (1999, Ph.D. Thesis, Stanford University).

>COG1599 RFA1 Single-stranded DNA-binding replication protein A (RPA), large (70 kD) subunit and related ssDNA-binding proteins [DNA replication, recombination, and repair]

Probab=98.17  E-value=3.1e-05  Score=84.46  Aligned_cols=186  Identities=16%  Similarity=0.200  Sum_probs=132.9

Q ss_pred             cCeeeccccCCCCCCeEEEEEEEeeccccccccCCCc-ccEEEEEEEeCCCCeEEE-EEechHHHHHHhhcccCcEEEEe
Q 006973          172 RRVHPLVSLNPYQGNWTIKVRVTSKGNMRTYKNARGE-GCVFNVELTDEDGTQIQA-TMFNEAARKFYDRFQLGKVYYIS  249 (623)
Q Consensus       172 ~~~~~I~~L~p~~~~w~I~~RV~~K~~~r~~~~~~g~-g~~f~~~L~D~~G~~I~a-t~~~~~~~kf~~~l~eG~vy~is  249 (623)
                      ..+..|+++.+...+-.+.+||...+..+.|....|. +++.+..+.|+.| .++. +.|+..+..   .++.|+++.|.
T Consensus        47 ~~~~~i~~~~~~~~~~~v~~~V~~~~e~~~~~~k~g~~~~l~~~~v~Detg-~v~~~~~~~~~a~~---~~e~Gdv~~i~  122 (407)
T COG1599          47 ESIGKISDISEASSRVNVTGRVLSIGEKKTFDRKRGAEGKLAEVLVGDETG-SVKTVTLWNIAALE---KLEPGDVIRIR  122 (407)
T ss_pred             hhcccccccchhhccccEEEEECccccceeeecccccccceEEEEEecCCC-CEEEEeeccccccc---cCCccceEEec
Confidence            3578999999999999999999999998888777765 8899999999999 7888 788876542   47999999998


Q ss_pred             eeEEEecCCCccccCCceEEEEccCcEEEEccCcCCCCCCCccccccccccccccCCcceeEEEEEEEEeCCceEEEEcc
Q 006973          250 RGTLRVANKQFKTVQNDYEMNLNENSEVEEAVNETAFIPQTKFNFVPIDELGRYVNGTELVDIIGVVQNVSPTMSIRRKS  329 (623)
Q Consensus       250 ~~~V~~a~~~~~~~~~~yei~f~~~T~I~~~~d~~~~iP~~~~~f~~i~di~~~~~~~~~vDVIGvV~~v~~~~~i~~k~  329 (623)
                      ++.+...       ....++.+...+.+...++. ...+...+.-..+.++...    ...+ .+.|..-.++..+..  
T Consensus       123 ~~~~~~~-------~~~~~~~~~~~~~v~~~~~~-~~~~~~~~~~~~i~~~~~~----~~~~-~~~v~~g~~ik~~~~--  187 (407)
T COG1599         123 NAYTSLY-------RGGKRLSVGRVGSVADVDDE-EDEARESEDAREIGEESLL----SPYQ-KARVVVGSEIKTFDN--  187 (407)
T ss_pred             Ccccccc-------cCceeeecccccccccCchh-hcccccccccccccccccc----Cccc-eEEEEecccceeEec--
Confidence            8765332       34577888888888877654 1222222222333333321    1122 566667777776655  


Q ss_pred             CCceeeEEEEEEEeCCccEEEEEEechhhhhhhhHhhhcCCCCcEEEEEeEEeeeccce
Q 006973          330 NNEMVPKRDITVADETKRTVTVSLWNELATNVGQELLDNADKSPIVAIKSLKVGDFQGI  388 (623)
Q Consensus       330 ~g~~~~kr~i~l~D~sg~~I~vtLWg~~A~~~~~~~~~~~~~~~Vv~i~~~kV~~f~G~  388 (623)
                      ++.....+...+.|++-..+.+++|...            ..+.+.-+.+++|.-|++.
T Consensus       188 ~~ge~~~~~~~~~d~~~~~~~~~~~~~~------------~~g~~~~ie~~~v~~~~~~  234 (407)
T COG1599         188 QGGESKVFSNELEDEERGVIVFTDWDPS------------QDGDVYRIEGARVKTKNKQ  234 (407)
T ss_pred             CCCccceEeeeecccceeEEEeccCccc------------ccceeeeecCcEEEEeccc
Confidence            3455678888899998338999999765            2256777788888887764

>PF01336 tRNA_anti-codon: OB-fold nucleic acid binding domain; InterPro: IPR004365 The OB-fold (oligonucleotide/oligosaccharide-binding fold) is found in all three kingdoms and its common architecture presents a binding face that has adapted to bind different ligands

Probab=98.01  E-value=3.1e-05  Score=62.89  Aligned_cols=62  Identities=31%  Similarity=0.476  Sum_probs=52.9

Q ss_pred             eEEEEEEEeeccccccccCCCcccEEEEEEEeCCCCeEEEEEechHHHHHHhhcccCcEEEEeeeEEEecCC
Q 006973          187 WTIKVRVTSKGNMRTYKNARGEGCVFNVELTDEDGTQIQATMFNEAARKFYDRFQLGKVYYISRGTLRVANK  258 (623)
Q Consensus       187 w~I~~RV~~K~~~r~~~~~~g~g~~f~~~L~D~~G~~I~at~~~~~~~kf~~~l~eG~vy~is~~~V~~a~~  258 (623)
                      ++|.|+|+++.        ++.++++.++|.|++| .|++.+|++...++.+.|++|+++.+. |.++..+.
T Consensus         1 V~v~G~V~~~~--------~~~~~~~~~~l~D~tg-~i~~~~~~~~~~~~~~~l~~g~~v~v~-G~v~~~~~   62 (75)
T PF01336_consen    1 VTVEGRVTSIR--------RSGGKIVFFTLEDGTG-SIQVVFFNEEYERFREKLKEGDIVRVR-GKVKRYNG   62 (75)
T ss_dssp             EEEEEEEEEEE--------EEETTEEEEEEEETTE-EEEEEEETHHHHHHHHTS-TTSEEEEE-EEEEEETT
T ss_pred             CEEEEEEEEEE--------cCCCCEEEEEEEECCc-cEEEEEccHHhhHHhhcCCCCeEEEEE-EEEEEECC
Confidence            47999999875        2245799999999998 999999999999999999999999999 88877744

The OB-fold is a five/six-stranded closed beta-barrel formed by 70-80 amino acid residues. The strands are connected by loops of varying length which form the functional appendages of the protein. The majority of OB-fold proteins use the same face for ligand binding or as an active site. Different OB-fold proteins use this 'fold-related binding face' to, variously, bind oligosaccharides, oligonucleotides, proteins, metal ions and catalytic substrates. This entry contains OB-fold domains that bind to nucleic acids []. It includes the anti-codon binding domain of lysyl, aspartyl, and asparaginyl-tRNA synthetases (See IPR004364 from INTERPRO). Aminoacyl-tRNA synthetases catalyse the addition of an amino acid to the appropriate tRNA molecule 6.1.1 from EC. This domain is found in RecG helicase involved in DNA repair. Replication factor A is a heterotrimeric complex, that contains a subunit in this family [, ]. This domain is also found at the C terminus of bacterial DNA polymerase III alpha chain.; GO: 0003676 nucleic acid binding; PDB: 1BBU_A 1KRS_A 1BBW_A 1KRT_A 1EQR_B 1IL2_B 1C0A_A 3KFU_A 1EOV_A 1ASY_A ....

>PF02765 POT1: Telomeric single stranded DNA binding POT1/CDC13; InterPro: IPR011564 This entry represents a domain that binds single stranded telomeric DNA and adopts an OB fold []

Probab=97.98  E-value=0.00012  Score=68.28  Aligned_cols=85  Identities=19%  Similarity=0.379  Sum_probs=66.0

Q ss_pred             cccccccccccCCcceeEEEEEEEEeCCceEEEEccCCceeeEEEEEEEeCCc-------cEEEEEEechhhhhhhhHhh
Q 006973          294 FVPIDELGRYVNGTELVDIIGVVQNVSPTMSIRRKSNNEMVPKRDITVADETK-------RTVTVSLWNELATNVGQELL  366 (623)
Q Consensus       294 f~~i~di~~~~~~~~~vDVIGvV~~v~~~~~i~~k~~g~~~~kr~i~l~D~sg-------~~I~vtLWg~~A~~~~~~~~  366 (623)
                      |+++.+...  ..+..|||+|+|++..+.....+|  |+ --...++|.|.|.       ..|.|.++-+..+.+..   
T Consensus         1 ~~~l~~~~~--~~~~~vnvigVV~~~~~p~~~~t~--g~-D~~~tl~i~D~S~~~~~~~~~~l~v~iF~~~~~~LP~---   72 (146)
T PF02765_consen    1 YTPLSTAKE--KFGKFVNVIGVVVDFSPPNPKKTR--GT-DYMCTLTITDPSLNDSNQKLSGLTVNIFRPHKESLPN---   72 (146)
T ss_dssp             BCCGGGSCT--TSSEEEEEEEEEEEEEEECTEEES--SS-CEEEEEEEEBTTCSCSSCCCCEEEEEEEESSHHHSCT---
T ss_pred             Cccchhhhh--cCCCEEEEEEEEEEccCCcceEcC--CC-cEEEEEEEECCCCCccccccCCEEEEEECCCHHHCCC---
Confidence            456664443  357899999999999887444454  43 3578999999996       68999999888877653   


Q ss_pred             hcCCC-CcEEEEEeEEeeeccce
Q 006973          367 DNADK-SPIVAIKSLKVGDFQGI  388 (623)
Q Consensus       367 ~~~~~-~~Vv~i~~~kV~~f~G~  388 (623)
                        ... |.||.++.++|..|+|+
T Consensus        73 --v~~~GDii~l~r~kv~~~~~~   93 (146)
T PF02765_consen   73 --VKSVGDIIRLRRVKVQSYNGK   93 (146)
T ss_dssp             --TCSTTHEEEEEEEEEEEETTE
T ss_pred             --CCCCCCEEEEEEEEEEEECCE
Confidence              334 89999999999999986

It includes the proteins POT1 and CDC13 which have been shown to regulate telomere length, replication and capping [, , ]. ; GO: 0003677 DNA binding, 0000723 telomere maintenance, 0000784 nuclear chromosome, telomeric region; PDB: 1S40_A 1KXL_A 1PH7_A 1PH9_A 1PH2_A 1OTC_A 1PHJ_A 1JB7_A 1PA6_A 1PH1_A ....

>cd04474 RPA1_DBD_A RPA1_DBD_A: A subfamily of OB folds corresponding to the second OB fold, the ssDNA-binding domain (DBD)-A, of human RPA1 (also called RPA70)

Probab=97.97  E-value=7.1e-05  Score=65.53  Aligned_cols=98  Identities=13%  Similarity=0.060  Sum_probs=72.4

Q ss_pred             cccccccccCCcceeEEEEEEEEeCCceEEEEccCCceeeEEEEEEEeCCccEEEEEEechhhhhhhhHhhhcCCCCcEE
Q 006973          296 PIDELGRYVNGTELVDIIGVVQNVSPTMSIRRKSNNEMVPKRDITVADETKRTVTVSLWNELATNVGQELLDNADKSPIV  375 (623)
Q Consensus       296 ~i~di~~~~~~~~~vDVIGvV~~v~~~~~i~~k~~g~~~~kr~i~l~D~sg~~I~vtLWg~~A~~~~~~~~~~~~~~~Vv  375 (623)
                      ||++|...   ....-+.|.|+..+++..+..+.  .+....++.|.|+.|..|++|+|++.|+.|.+.    +..|.|+
T Consensus         1 pI~~L~p~---~~~~~I~~rV~~k~~~~~f~~~~--~~g~~~~~~l~De~~~~I~~t~~~~~~~~f~~~----l~eG~vy   71 (104)
T cd04474           1 PISSLNPY---QNKWTIKARVTNKSDIRTWSNAR--GEGKLFSFDLLDEDGGEIRATFFNDAVDKFYDL----LEVGKVY   71 (104)
T ss_pred             ChhHccCC---CCcEEEEEEEeeccccccccCCC--CCcEEEEEEEEECCCCEEEEEEehHHHHHhhcc----cccccEE
Confidence            46677542   23588999999999999887653  234566999999977799999999999988654    5679999


Q ss_pred             EEEeEEeeeccceeeecccceEEEEcC
Q 006973          376 AIKSLKVGDFQGISLSTLGRSTVLVSP  402 (623)
Q Consensus       376 ~i~~~kV~~f~G~~Ls~~~~S~i~iNP  402 (623)
                      .|.+++|+.-++..-.+...-.|.++.
T Consensus        72 ~i~~~~V~~a~~~y~~~~~~yeI~f~~   98 (104)
T cd04474          72 YISKGSVKVANKKFNTLKNDYEITFNR   98 (104)
T ss_pred             EEeccEEeeccccCCCCCCcEEEEECC
Confidence            999999987665433333344455544

RPA1 is the large subunit of Replication protein A (RPA). RPA is a nuclear ssDNA-binding protein (SSB) which appears to be involved in all aspects of DNA metabolism including replication, recombination, and repair. RPA also mediates specific interactions of various nuclear proteins. In animals, plants, and fungi, RPA is a heterotrimer with subunits of 70KDa (RPA1), 32kDa (RPA2), and 14 KDa (RPA3). In addition to DBD-A, RPA1 contains three other OB folds: DBD-B, DBD-C, and RPA1N. The major DNA binding activity of human RPA (hRPA) and Saccharomyces cerevisiae RPA (ScRPA) is associated with DBD-A and DBD-B of RPA1. RPA1 DBD-C is involved in trimerization. The ssDNA-binding mechanism is believed to be multistep and to involve conformational change. Although ScRPA and the hRPA have similar ssDNA-binding properties, they differ funct

>cd04475 RPA1_DBD_B RPA1_DBD_B: A subfamily of OB folds corresponding to the third OB fold, the ssDNA-binding domain (DBD)-B, of human RPA1 (also called RPA70)

Probab=97.64  E-value=0.00038  Score=60.49  Aligned_cols=84  Identities=21%  Similarity=0.192  Sum_probs=67.2

Q ss_pred             EEEEEEEeeccccccccCC-C-cccEEEEEEEeCCCCeEEEEEechHHHHHHhhcccCcEEEEeeeEEEecCCCccccCC
Q 006973          188 TIKVRVTSKGNMRTYKNAR-G-EGCVFNVELTDEDGTQIQATMFNEAARKFYDRFQLGKVYYISRGTLRVANKQFKTVQN  265 (623)
Q Consensus       188 ~I~~RV~~K~~~r~~~~~~-g-~g~~f~~~L~D~~G~~I~at~~~~~~~kf~~~l~eG~vy~is~~~V~~a~~~~~~~~~  265 (623)
                      -|.|.|+..++++++.... | ++...++.|.|++|..|.+|+|++.++.|....  |.++.|.++++...+        
T Consensus         3 Dvig~V~~v~~~~~i~~k~~g~~~~~r~v~i~D~t~~~i~vtLWg~~a~~~~~~~--~~vv~~~~~~i~~~~--------   72 (101)
T cd04475           3 DVIGVVKSVGPVTTITTKSTGRELDKREITLVDESGHSVELTLWGEQAELFDGSE--NPVIAIKGVKVSEFN--------   72 (101)
T ss_pred             eEEEEEeEccCcEEEEEecCCCceeEEEEEEEeCCCCEEEEEEEHHHhhhcccCC--CCEEEEEeeEEEecC--------
Confidence            4789999999999986543 3 566889999999999999999999999988754  999999999886543        


Q ss_pred             ceEEEEccCcEEEEcc
Q 006973          266 DYEMNLNENSEVEEAV  281 (623)
Q Consensus       266 ~yei~f~~~T~I~~~~  281 (623)
                      ...+.....|.|..-+
T Consensus        73 ~~~l~~~~~s~i~~np   88 (101)
T cd04475          73 GKSLSTGSSSTIIINP   88 (101)
T ss_pred             CeEEeecCceeEEECC
Confidence            1455556677777644

RPA1 is the large subunit of Replication protein A (RPA). RPA is a nuclear ssDNA-binding protein (SSB) which appears to be involved in all aspects of DNA metabolism including replication, recombination, and repair. RPA also mediates specific interactions of various nuclear proteins. In animals, plants, and fungi, RPA is a heterotrimer with subunits of 70KDa (RPA1), 32kDa (RPA2), and 14 KDa (RPA3). In addition to DBD-B, RPA1 contains three other OB folds: DBD-A, DBD-C, and RPA1N. The major DNA binding activity of human RPA (hRPA) and Saccharomyces cerevisiae RPA (ScRPA) is associated with RPA1 DBD-A and DBD-B. RPA1 DBD-C is involved in trimerization. The ssDNA binding mechanism is believed to be multistep and to involve conformational change. Although ScRPA and the hRPA have similar ssDNA-binding properties, they differ functiona

>KOG3416 consensus Predicted nucleic acid binding protein [General function prediction only]

Probab=96.94  E-value=0.0019  Score=56.75  Aligned_cols=70  Identities=21%  Similarity=0.283  Sum_probs=55.8

Q ss_pred             eeeccccCCCCCCeEEEEEEEeeccccccccCCCcc-cEEEEEEEeCCCCeEEEEEechHHHHHHhhcccCcEEEEeeeE
Q 006973          174 VHPLVSLNPYQGNWTIKVRVTSKGNMRTYKNARGEG-CVFNVELTDEDGTQIQATMFNEAARKFYDRFQLGKVYYISRGT  252 (623)
Q Consensus       174 ~~~I~~L~p~~~~w~I~~RV~~K~~~r~~~~~~g~g-~~f~~~L~D~~G~~I~at~~~~~~~kf~~~l~eG~vy~is~~~  252 (623)
                      .++|++|.|+.++..+..-|+.-...+.-+    +| .+-++.+.|++| .|++.+|++    +-..|+.||++.++++-
T Consensus         4 ~i~ikdi~P~~kN~~v~fIvl~~g~~tkTk----dg~~v~~~kVaD~Tg-sI~isvW~e----~~~~~~PGDIirLt~Gy   74 (134)
T KOG3416|consen    4 MIFIKDIKPGLKNINVTFIVLEYGRATKTK----DGHEVRSCKVADETG-SINISVWDE----EGCLIQPGDIIRLTGGY   74 (134)
T ss_pred             chhHhhcChhhhcceEEEEEEeeceeeecc----CCCEEEEEEEecccc-eEEEEEecC----cCcccCCccEEEecccc
Confidence            479999999999988877777654443322    34 588899999999 899999996    45579999999999863

>cd03524 RPA2_OBF_family RPA2_OBF_family: A family of oligonucleotide binding (OB) folds with similarity to the OB fold of the single strand (ss) DNA-binding domain (DBD)-D of human RPA2 (also called RPA32)

Probab=96.91  E-value=0.0064  Score=48.24  Aligned_cols=61  Identities=33%  Similarity=0.465  Sum_probs=49.5

Q ss_pred             EEEEEEeeccccccccCCCcccEEEEEEEeCCCCeEEEEEechHHHHHHhhcccCcEEEEeeeEEEec
Q 006973          189 IKVRVTSKGNMRTYKNARGEGCVFNVELTDEDGTQIQATMFNEAARKFYDRFQLGKVYYISRGTLRVA  256 (623)
Q Consensus       189 I~~RV~~K~~~r~~~~~~g~g~~f~~~L~D~~G~~I~at~~~~~~~kf~~~l~eG~vy~is~~~V~~a  256 (623)
                      +.|+|+.....++     | +..+.+.|.|.+|+.|.+++|.+..+.+...+++|+++.+. +++...
T Consensus         2 v~g~v~~~~~~~~-----~-~~~~~~~l~D~~~~~i~~~~~~~~~~~~~~~~~~g~~v~v~-g~v~~~   62 (75)
T cd03524           2 IVGIVVAVEEIRT-----E-GKVLIFTLTDGTGGTIRVTLFGELAEELENLLKEGQVVYIK-GKVKKF   62 (75)
T ss_pred             eEEEEEeeccccc-----C-CeEEEEEEEcCCCCEEEEEEEchHHHHHHhhccCCCEEEEE-EEEEec
Confidence            6778887655443     1 24788999999955999999999999999999999999998 888654

RPA2 is a subunit of Replication protein A (RPA). RPA is a nuclear ssDNA-binding protein (SSB) which appears to be involved in all aspects of DNA metabolism including replication, recombination, and repair. RPA also mediates specific interactions of various nuclear proteins. In animals, plants, and fungi, RPA is a heterotrimer with subunits of 70KDa (RPA1), 32kDa (RPA2), and 14 KDa (RPA3). RPA contains six OB folds, which are involved in ssDNA binding and in trimerization. The ssDNA binding mechanism is believed to be multistep and to involve conformational change. This family also includes OB folds similar to those found in Escherichia coli SSB, the wedge domain of E. coli RecG (a branched-DNA-specific helicase), E. coli ssDNA specific exodeoxyribonuclease VII large subunit, Pyroco

>KOG3416 consensus Predicted nucleic acid binding protein [General function prediction only]

Probab=96.42  E-value=0.015  Score=51.37  Aligned_cols=85  Identities=20%  Similarity=0.298  Sum_probs=61.2

Q ss_pred             ccccccccccCCcceeEEEEEEEEeCCceEEEEccCCceeeEEEEEEEeCCccEEEEEEechhhhhhhhHhhhcCCCCcE
Q 006973          295 VPIDELGRYVNGTELVDIIGVVQNVSPTMSIRRKSNNEMVPKRDITVADETKRTVTVSLWNELATNVGQELLDNADKSPI  374 (623)
Q Consensus       295 ~~i~di~~~~~~~~~vDVIGvV~~v~~~~~i~~k~~g~~~~kr~i~l~D~sg~~I~vtLWg~~A~~~~~~~~~~~~~~~V  374 (623)
                      .+|.||...+.   .+.|+=+|.+.+..+.  +| +|+  ..|...+.|+|| +|.+.+|++....        +..+.|
T Consensus         5 i~ikdi~P~~k---N~~v~fIvl~~g~~tk--Tk-dg~--~v~~~kVaD~Tg-sI~isvW~e~~~~--------~~PGDI   67 (134)
T KOG3416|consen    5 IFIKDIKPGLK---NINVTFIVLEYGRATK--TK-DGH--EVRSCKVADETG-SINISVWDEEGCL--------IQPGDI   67 (134)
T ss_pred             hhHhhcChhhh---cceEEEEEEeeceeee--cc-CCC--EEEEEEEecccc-eEEEEEecCcCcc--------cCCccE
Confidence            35677765332   3556667777775542  33 465  578999999999 9999999977655        367999


Q ss_pred             EEEEeEEeeeccc-eeeecccce
Q 006973          375 VAIKSLKVGDFQG-ISLSTLGRS  396 (623)
Q Consensus       375 v~i~~~kV~~f~G-~~Ls~~~~S  396 (623)
                      |-+++.-.+-|+| ..|.++.+.
T Consensus        68 irLt~Gy~Si~qg~LtL~~GK~G   90 (134)
T KOG3416|consen   68 IRLTGGYASIFQGCLTLYVGKGG   90 (134)
T ss_pred             EEecccchhhhcCceEEEecCCc
Confidence            9999998888876 577765443

>cd04497 hPOT1_OB1_like hPOT1_OB1_like: A subfamily of OB folds similar to the first OB fold (OB1) of human protection of telomeres 1 protein (hPOT1), the single OB fold of the N-terminal domain of Schizosaccharomyces pombe POT1 (SpPOT1), and the first OB fold of the N-terminal domain of the alpha subunit (OB1Nalpha) of Oxytricha nova telomere end binding protein (OnTEBP)

Probab=96.34  E-value=0.025  Score=52.13  Aligned_cols=84  Identities=15%  Similarity=0.205  Sum_probs=67.1

Q ss_pred             eeeccccC-CCCCCeEEEEEEEeeccccccccCCCcccEEEEEEEeCCC---CeEEEEEechHHHHHHhhcccCcEEEEe
Q 006973          174 VHPLVSLN-PYQGNWTIKVRVTSKGNMRTYKNARGEGCVFNVELTDEDG---TQIQATMFNEAARKFYDRFQLGKVYYIS  249 (623)
Q Consensus       174 ~~~I~~L~-p~~~~w~I~~RV~~K~~~r~~~~~~g~g~~f~~~L~D~~G---~~I~at~~~~~~~kf~~~l~eG~vy~is  249 (623)
                      ++||++|. .....-.+.|-|+...+.+.   .+|.--..+|.|.|+++   ..+++.+|++..+.|-.. ++|+|+.+.
T Consensus         3 f~~i~~~~~~~~~~v~vigVV~~~~~p~~---s~g~d~~~tl~i~D~S~~~~~~l~v~~F~~~~~~LP~v-~~GDVIll~   78 (138)
T cd04497           3 YTPLSSALKESGGSVNVIGVVVDAGPPVR---SKGTDYCCTLTITDPSLANSDGLTVKLFRPNEESLPIV-KVGDIILLR   78 (138)
T ss_pred             eEeHHHHHhccCCeEEEEEEEeecCCCcc---cCCCcEEEEEEEECCCCCCCCcEEEEEECCChhhCCCC-CCCCEEEEE
Confidence            68888887 34457889999998777653   22333577899999988   789999999998887765 999999999


Q ss_pred             eeEEEecCCCcc
Q 006973          250 RGTLRVANKQFK  261 (623)
Q Consensus       250 ~~~V~~a~~~~~  261 (623)
                      +++|+.-+.+..
T Consensus        79 ~~kv~~~~g~~~   90 (138)
T cd04497          79 RVKIQSYNGKPQ   90 (138)
T ss_pred             EEEEEEECCceE
Confidence            999998876543

POT1 proteins recognize single-stranded (ss) 3-prime ends of the telomere. A 3-prime ss overhang is conserved in ciliated protozoa, yeast, and mammals. SpPOT1 is essential for telomere maintenance. It binds specifically to the ss G-rich telomeric sequence (GGTTAC) of S. pombe. hPOT1 binds specifically to ss telomeric DNA repeats ending with the sequence GGTTAG. Deletion of the S. pombe pot1+ gene results in a rapid loss of telomere sequences, chromosome mis-segregation and chromosome circularization. hPOT1 is implicated in telomere length regulation. The hPOT1 monomer consists of two closely connected OB folds (OB1-OB

>cd04481 RPA1_DBD_B_like RPA1_DBD_B_like: A subgroup of uncharacterized, plant OB folds with similarity to the third OB fold, the ssDNA-binding domain (DBD)-B, of human RPA1 (also called RPA70)

Probab=96.24  E-value=0.065  Score=46.89  Aligned_cols=69  Identities=14%  Similarity=0.207  Sum_probs=52.8

Q ss_pred             EEEEEeeccccccccCCCcccEEEEEEEeCCCCeEEEEEechHHHHHHhhc----ccCcEEEEee-eEEEecCC
Q 006973          190 KVRVTSKGNMRTYKNARGEGCVFNVELTDEDGTQIQATMFNEAARKFYDRF----QLGKVYYISR-GTLRVANK  258 (623)
Q Consensus       190 ~~RV~~K~~~r~~~~~~g~g~~f~~~L~D~~G~~I~at~~~~~~~kf~~~l----~eG~vy~is~-~~V~~a~~  258 (623)
                      .|-|+.-+++.+......+....++.|.|.+|..++++.|++.|..|...+    +.+-|+.+-. .+|+..++
T Consensus         3 iG~i~~v~~~~~~~~~~~~~~kr~~~i~D~~~~~l~~tlwG~~A~~f~~~~~~~~~~~~VVav~~~~rV~~~~g   76 (106)
T cd04481           3 IGVIVDVGPLEELPPVNKPSRKLDFEIRDLSDERLKCTLWGEYAEEFDAKFQSAGNGEPVVAVLRFWKIKEYKG   76 (106)
T ss_pred             eEEEEEecceEecccCCccceEEEEEEEeCCCCEEEEEEEHHHHHHHHHHHHHhCCCCcEEEEEEeEEEEEEcC
Confidence            455666666665544334556789999999999999999999999999887    4677777766 78877753

RPA1 is the large subunit of Replication protein A (RPA). RPA is a nuclear ssDNA-binding protein (SSB) which appears to be involved in all aspects of DNA metabolism including replication, recombination, and repair. RPA also mediates specific interactions of various nuclear proteins. In animals, plants, and fungi, RPA is a heterotrimer with subunits of 70KDa (RPA1), 32kDa (RPA2), and 14 KDa (RPA3). In addition to DBD-B, RPA1 contains three other OB folds: DBD-A, DBD-C, and RPA1N. The major DNA binding activity of RPA is associated with RPA1 DBD-A and DBD-B. RPA1 DBD-C is involved in trimerization. The ssDNA binding mechanism is believed to be multistep and to involve conformational change.

>PF01336 tRNA_anti-codon: OB-fold nucleic acid binding domain; InterPro: IPR004365 The OB-fold (oligonucleotide/oligosaccharide-binding fold) is found in all three kingdoms and its common architecture presents a binding face that has adapted to bind different ligands

Probab=95.80  E-value=0.062  Score=43.22  Aligned_cols=66  Identities=24%  Similarity=0.340  Sum_probs=47.1

Q ss_pred             eEEEEEEEEeCCceEEEEccCCceeeEEEEEEEeCCccEEEEEEechhhhhhhhHhhhcCCCCcEEEEEeEEeeeccc--
Q 006973          310 VDIIGVVQNVSPTMSIRRKSNNEMVPKRDITVADETKRTVTVSLWNELATNVGQELLDNADKSPIVAIKSLKVGDFQG--  387 (623)
Q Consensus       310 vDVIGvV~~v~~~~~i~~k~~g~~~~kr~i~l~D~sg~~I~vtLWg~~A~~~~~~~~~~~~~~~Vv~i~~~kV~~f~G--  387 (623)
                      |.|.|.|+.+.       +. +  .....++|.|.|| .|.|++|++.+..+.+    ....+.+|.+. +++..|++  
T Consensus         1 V~v~G~V~~~~-------~~-~--~~~~~~~l~D~tg-~i~~~~~~~~~~~~~~----~l~~g~~v~v~-G~v~~~~~~~   64 (75)
T PF01336_consen    1 VTVEGRVTSIR-------RS-G--GKIVFFTLEDGTG-SIQVVFFNEEYERFRE----KLKEGDIVRVR-GKVKRYNGGE   64 (75)
T ss_dssp             EEEEEEEEEEE-------EE-E--TTEEEEEEEETTE-EEEEEEETHHHHHHHH----TS-TTSEEEEE-EEEEEETTSS
T ss_pred             CEEEEEEEEEE-------cC-C--CCEEEEEEEECCc-cEEEEEccHHhhHHhh----cCCCCeEEEEE-EEEEEECCcc
Confidence            56889998876       11 1  2466899999998 9999999965555433    35678999888 78887754  


Q ss_pred             eeee
Q 006973          388 ISLS  391 (623)
Q Consensus       388 ~~Ls  391 (623)
                      .+|.
T Consensus        65 ~~l~   68 (75)
T PF01336_consen   65 LELI   68 (75)
T ss_dssp             EEEE
T ss_pred             EEEE
Confidence            4443

The OB-fold is a five/six-stranded closed beta-barrel formed by 70-80 amino acid residues. The strands are connected by loops of varying length which form the functional appendages of the protein. The majority of OB-fold proteins use the same face for ligand binding or as an active site. Different OB-fold proteins use this 'fold-related binding face' to, variously, bind oligosaccharides, oligonucleotides, proteins, metal ions and catalytic substrates. This entry contains OB-fold domains that bind to nucleic acids []. It includes the anti-codon binding domain of lysyl, aspartyl, and asparaginyl-tRNA synthetases (See IPR004364 from INTERPRO). Aminoacyl-tRNA synthetases catalyse the addition of an amino acid to the appropriate tRNA molecule 6.1.1 from EC. This domain is found in RecG helicase involved in DNA repair. Replication factor A is a heterotrimeric complex, that contains a subunit in this family [, ]. This domain is also found at the C terminus of bacterial DNA polymerase III alpha chain.; GO: 0003676 nucleic acid binding; PDB: 1BBU_A 1KRS_A 1BBW_A 1KRT_A 1EQR_B 1IL2_B 1C0A_A 3KFU_A 1EOV_A 1ASY_A ....

>cd04483 hOBFC1_like hOBFC1_like: A subfamily of OB folds similar to that found in human OB fold containing protein 1 (hOBFC1)

Probab=95.65  E-value=0.047  Score=46.60  Aligned_cols=68  Identities=16%  Similarity=0.270  Sum_probs=45.5

Q ss_pred             EEEEEEEEeCCceEEEEccCCceeeEEEEEEEeCCccEEEEEEechhhhhh--h--------------hHhhhcCCCCcE
Q 006973          311 DIIGVVQNVSPTMSIRRKSNNEMVPKRDITVADETKRTVTVSLWNELATNV--G--------------QELLDNADKSPI  374 (623)
Q Consensus       311 DVIGvV~~v~~~~~i~~k~~g~~~~kr~i~l~D~sg~~I~vtLWg~~A~~~--~--------------~~~~~~~~~~~V  374 (623)
                      |++|+|.++.+-           ..+..++|.|.|| .|+|.+|......-  .              ....+.+..+.+
T Consensus         1 ~ivG~V~sv~~~-----------~~~~~~tLdDgTG-~Ie~~~W~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~i~~G~v   68 (92)
T cd04483           1 DILGTVVSRRER-----------ETFYSFGVDDGTG-VVNCVCWKNLSYAEVSSRSDAARILKSALMALKQAKVLEIGDL   68 (92)
T ss_pred             CeEEEEEEEEec-----------CCeEEEEEecCCc-eEEEEEEcCcCcccccccccccccccccccccccccccCCCCE
Confidence            689999887421           2468899999999 79999998753110  0              001122456778


Q ss_pred             EEEEeEEeeeccce-eee
Q 006973          375 VAIKSLKVGDFQGI-SLS  391 (623)
Q Consensus       375 v~i~~~kV~~f~G~-~Ls  391 (623)
                      +-++ .+++.|+|+ .|.
T Consensus        69 vrV~-G~i~~frg~~ql~   85 (92)
T cd04483          69 LRVR-GSIRTYRGEREIN   85 (92)
T ss_pred             EEEE-EEEeccCCeeEEE
Confidence            7776 678899984 554

Members of this group belong to the Replication protein A subunit 2 (RPA2) family of OB folds. RPA is a nuclear ssDNA binding protein (SSB) which appears to be involved in all aspects of DNA metabolism including replication, recombination, and repair. RPA also mediates specific interactions of various nuclear proteins. In animals, plants, and fungi, RPA is a heterotrimer with subunits of 70KDa (RPA1), 32kDa (RPA2), and 14 KDa (RPA3). The OB fold domain of RPA2 has dual roles in ssDNA binding and trimerization.

>PF15489 CTC1: CST, telomere maintenance, complex subunit CTC1

Probab=95.30  E-value=4.4  Score=48.75  Aligned_cols=319  Identities=16%  Similarity=0.170  Sum_probs=167.5

Q ss_pred             cCCCCCCeEEEEEEEeeccccccccCCCcccEEEEEEEeCC-CCeEEEEEechHHHHHHhhcccCcEEEEeee-----EE
Q 006973          180 LNPYQGNWTIKVRVTSKGNMRTYKNARGEGCVFNVELTDED-GTQIQATMFNEAARKFYDRFQLGKVYYISRG-----TL  253 (623)
Q Consensus       180 L~p~~~~w~I~~RV~~K~~~r~~~~~~g~g~~f~~~L~D~~-G~~I~at~~~~~~~kf~~~l~eG~vy~is~~-----~V  253 (623)
                      ..+....+.+.|..++.+.... +...+.|+. + ...|+. ..++-..|.+. .-+|++.|+.|.||.+---     .|
T Consensus       700 ~~~~~~tlsF~~~g~wlGg~q~-~eg~~~~~~-e-~~~~~~~~~kVlLlF~G~-svrWF~fLhpg~vYRLva~~~~~p~l  775 (1144)
T PF15489_consen  700 SEVPKPTLSFQVSGSWLGGTQR-KEGTGWGPP-E-PLEDENKDQKVLLLFLGS-SVRWFPFLHPGQVYRLVAPNSPDPML  775 (1144)
T ss_pred             cccCCCceEEEEEEEEecceEe-ccCcccCCC-C-cCcccCCCceEEEEEecC-ceeeEeEecCCcEEEEecCCCCCcee
Confidence            3334457888888888776644 222222221 0 112233 33555555554 5689999999999987421     11


Q ss_pred             EecCC--Cc--cccCCceEEEEccCcEEEEccCcCCCCCCC-----ccccccccccccccCCcceeEEEEEEEEeCCceE
Q 006973          254 RVANK--QF--KTVQNDYEMNLNENSEVEEAVNETAFIPQT-----KFNFVPIDELGRYVNGTELVDIIGVVQNVSPTMS  324 (623)
Q Consensus       254 ~~a~~--~~--~~~~~~yei~f~~~T~I~~~~d~~~~iP~~-----~~~f~~i~di~~~~~~~~~vDVIGvV~~v~~~~~  324 (623)
                      -.+..  ..  -...-.-.+++..+=+++....  .++|..     .+--.++.|+.+.-..+.+|.+-|+|.+..-...
T Consensus       776 ~~~s~~s~r~l~~~~~~scl~vq~~W~le~~~~--~d~~~~l~~~~~~~~ssl~~lls~s~s~sLVSFs~~I~srt~ce~  853 (1144)
T PF15489_consen  776 FGSSCVSQRPLELAGCPSCLTVQDDWTLELESS--QDIPPVLRISKLLPESSLSELLSSSSSDSLVSFSAEILSRTLCEP  853 (1144)
T ss_pred             ecCCCcccccccccCCCccEEeCCCceeccccc--ccchhhhhhcccCccccHHHHhccCCCCceEEEEEEEEEeeeccC
Confidence            10000  00  0011112233332222222211  234421     1123466676653345789999999988632221


Q ss_pred             ----EEEccCCce----ee--EEEEEEEeCCccEEEEEEechhhh-hhhhHhhhcCCCCcEEEEEe--EEeeeccceeee
Q 006973          325 ----IRRKSNNEM----VP--KRDITVADETKRTVTVSLWNELAT-NVGQELLDNADKSPIVAIKS--LKVGDFQGISLS  391 (623)
Q Consensus       325 ----i~~k~~g~~----~~--kr~i~l~D~sg~~I~vtLWg~~A~-~~~~~~~~~~~~~~Vv~i~~--~kV~~f~G~~Ls  391 (623)
                          ..+|..+..    ..  ..-+++.|..+. -.+.+.-+... -+.-    -.-.|.+|-|.+  .||+.++++++.
T Consensus       854 ~~~~~~~~~~~~~~~~~~vkltv~L~v~D~~~p-~~ldVYi~~~h~p~pl----GLLPGA~V~f~~lerkVSRs~nVYC~  928 (1144)
T PF15489_consen  854 LNARRWSKPGNAIASRGCVKLTVALTVADCESP-PHLDVYIEDPHLPYPL----GLLPGARVLFSQLERKVSRSHNVYCC  928 (1144)
T ss_pred             CccccccCCCCCcccccccceEEEEEEecCCCC-CeEEEEecCCCCCCcc----cccCCceeeeehhhhhhhccCcEEEE
Confidence                112211111    11  234566666662 22444333221 1110    022466777764  466666667766


Q ss_pred             cccceEEEEcCChHHHHHHHHHHHhCCCccceeeecCCcCccccCCcccccccceehhccccCCCCCCCCCeEEEEEEEE
Q 006973          392 TLGRSTVLVSPDLPEAKKLKSWYESEGKGTSMASIGSGLGSLAKNGARSMYSDRVSLTHITSNPSLGDEKPVFFSIKAYI  471 (623)
Q Consensus       392 ~~~~S~i~iNPd~pe~~~l~~w~~~~g~~~~~~~~~~~~~~~~~~~~~~~~~~~~ti~~i~~~~~~~~~~~~~~~v~a~I  471 (623)
                      ....|.+.+.-..++            .  .   .             +.......+.+....    ...+....+.+.|
T Consensus       929 ~~psS~VtVlS~p~~------------t--~---~-------------~~~~P~~~L~~~~~~----~~~~~~a~~~chV  974 (1144)
T PF15489_consen  929 FLPSSSVTVLSFPPE------------T--N---V-------------SPPLPHIYLAELLQG----SQSPFQARVSCHV  974 (1144)
T ss_pred             EcCCceEEEEecCcc------------c--C---C-------------CCCCCeEEehhhhCC----CCCCceEEEEEEE
Confidence            666666554332100            0  0   0             011244556555441    1223356778899


Q ss_pred             EEEeCCCCeEeccccccccceecCCCCeeecCc----CCCCccccceeEEEEEEEEeCCCcEEEEEehHhHHHHhCCCHH
Q 006973          472 SLIKPDQAMWYRACKTCNKKVTDALGSGYWCEG----CQKNDEECSLRYIMVARVCDGSGEAWISIFNEEAERIIGCSAD  547 (623)
Q Consensus       472 ~~i~~d~~~~Y~aC~~C~KKv~~~~~~~~~C~k----C~~~~~~~~~ry~l~~~i~D~Tg~~~~~~F~~~ae~llG~sA~  547 (623)
                      +.|..- . --..|..|+.-..+   |  +|..    |...  ....+-..++.+.|+||++.+++-|+..-.+||.+..
T Consensus       975 V~V~~l-~-L~WvCa~C~si~~q---g--~Csr~~p~C~s~--~sV~qA~ar~~vEDGTaeA~v~~~~~~V~~lLgL~~~ 1045 (1144)
T PF15489_consen  975 VSVLSL-Q-LQWVCAHCGSICPQ---G--RCSRQSPPCPSQ--TSVFQASARLLVEDGTAEAVVWCRGHHVAALLGLSPS 1045 (1144)
T ss_pred             EEEEEE-E-eeehhhhccCcccC---C--cCCCCCCCCCCC--cceeeEEEEEEEecCCeeEEEEECCcHHHHHhCCCHH
Confidence            888653 2 36689999865443   2  4633    5432  3456778889999999999999999999999999998


Q ss_pred             HHHHH
Q 006973          548 ELNEL  552 (623)
Q Consensus       548 el~~~  552 (623)
                      |...+
T Consensus      1046 eW~~L 1050 (1144)
T PF15489_consen 1046 EWESL 1050 (1144)
T ss_pred             HHHHH
Confidence            76544

>cd03524 RPA2_OBF_family RPA2_OBF_family: A family of oligonucleotide binding (OB) folds with similarity to the OB fold of the single strand (ss) DNA-binding domain (DBD)-D of human RPA2 (also called RPA32)

Probab=95.29  E-value=0.14  Score=40.23  Aligned_cols=64  Identities=31%  Similarity=0.415  Sum_probs=46.9

Q ss_pred             EEEEEEEEeCCceEEEEccCCceeeEEEEEEEeCCccEEEEEEechhhhhhhhHhhhcCCCCcEEEEEeEEeeeccc
Q 006973          311 DIIGVVQNVSPTMSIRRKSNNEMVPKRDITVADETKRTVTVSLWNELATNVGQELLDNADKSPIVAIKSLKVGDFQG  387 (623)
Q Consensus       311 DVIGvV~~v~~~~~i~~k~~g~~~~kr~i~l~D~sg~~I~vtLWg~~A~~~~~~~~~~~~~~~Vv~i~~~kV~~f~G  387 (623)
                      ++.|+|.++.+...      |+  ....++|.|.+|..++|++|.+....+..    ....+.++.+. +++..|+|
T Consensus         1 ~v~g~v~~~~~~~~------~~--~~~~~~l~D~~~~~i~~~~~~~~~~~~~~----~~~~g~~v~v~-g~v~~~~~   64 (75)
T cd03524           1 TIVGIVVAVEEIRT------EG--KVLIFTLTDGTGGTIRVTLFGELAEELEN----LLKEGQVVYIK-GKVKKFRG   64 (75)
T ss_pred             CeEEEEEeeccccc------CC--eEEEEEEEcCCCCEEEEEEEchHHHHHHh----hccCCCEEEEE-EEEEecCC
Confidence            47899988865432      32  36789999999559999999987776532    24567788887 88887765

RPA2 is a subunit of Replication protein A (RPA). RPA is a nuclear ssDNA-binding protein (SSB) which appears to be involved in all aspects of DNA metabolism including replication, recombination, and repair. RPA also mediates specific interactions of various nuclear proteins. In animals, plants, and fungi, RPA is a heterotrimer with subunits of 70KDa (RPA1), 32kDa (RPA2), and 14 KDa (RPA3). RPA contains six OB folds, which are involved in ssDNA binding and in trimerization. The ssDNA binding mechanism is believed to be multistep and to involve conformational change. This family also includes OB folds similar to those found in Escherichia coli SSB, the wedge domain of E. coli RecG (a branched-DNA-specific helicase), E. coli ssDNA specific exodeoxyribonuclease VII large subunit, Pyroco

>cd04488 RecG_wedge_OBF RecG_wedge_OBF: A subfamily of OB folds corresponding to the OB fold found in the N-terminal (wedge) domain of Escherichia coli RecG

Probab=95.22  E-value=0.16  Score=40.56  Aligned_cols=62  Identities=21%  Similarity=0.257  Sum_probs=43.0

Q ss_pred             EEEEEEEeeccccccccCCCcccEEEEEEEeCCCCeEEEEEechHHHHHHhhcccCcEEEEeeeEEEecC
Q 006973          188 TIKVRVTSKGNMRTYKNARGEGCVFNVELTDEDGTQIQATMFNEAARKFYDRFQLGKVYYISRGTLRVAN  257 (623)
Q Consensus       188 ~I~~RV~~K~~~r~~~~~~g~g~~f~~~L~D~~G~~I~at~~~~~~~kf~~~l~eG~vy~is~~~V~~a~  257 (623)
                      +|.|+|.+.... ..   + .++.+.+.+.|++| .|.+++|+.. ......|++|+.|.+. +++...+
T Consensus         1 ~i~~~V~~~~~~-~~---~-~~~~~~~~~~D~~g-~i~~~~F~~~-~~~~~~~~~G~~~~v~-Gkv~~~~   62 (75)
T cd04488           1 TVEGTVVSVEVV-PR---R-GRRRLKVTLSDGTG-TLTLVFFNFQ-PYLKKQLPPGTRVRVS-GKVKRFR   62 (75)
T ss_pred             CEEEEEEEEEec-cC---C-CccEEEEEEEcCCC-EEEEEEECCC-HHHHhcCCCCCEEEEE-EEEeecC
Confidence            367888775321 11   1 23589999999988 8999999831 2345679999999887 5555443

RecG is a branched-DNA-specific helicase, which catalyzes the interconversion of a DNA replication fork to a four-stranded (Holliday) junction in vivo and in vitro. This interconversion provides a route to repair stalled forks. The RecG monomer contains three domains. The N-terminal domain is named for its wedge structure, and may provide the specificity of RecG for binding branched-DNA structures. During the reversal of fork to Holliday junction, the wedge domain is fixed at the junction of the fork where the leading and lagging strand duplex arms meet, and is thought to promote the unwinding of the nascent leading and lagging strands. In order to form the Holliday junction, these nascent strands would be annealed, and the parental strands reannealed. The wedge domain may also be a processivity factor of RecG on these branched cha

>cd04485 DnaE_OBF DnaE_OBF: A subfamily of OB folds corresponding to the C-terminal OB-fold nucleic acid binding domain of Thermus aquaticus and Escherichia coli type C replicative DNA polymerase III alpha subunit (DnaE)

Probab=94.86  E-value=0.14  Score=41.71  Aligned_cols=44  Identities=23%  Similarity=0.359  Sum_probs=37.6

Q ss_pred             cEEEEEEEeCCCCeEEEEEechHHHHHHhhcccCcEEEEeeeEEEe
Q 006973          210 CVFNVELTDEDGTQIQATMFNEAARKFYDRFQLGKVYYISRGTLRV  255 (623)
Q Consensus       210 ~~f~~~L~D~~G~~I~at~~~~~~~kf~~~l~eG~vy~is~~~V~~  255 (623)
                      +.+.+.|.|.+| .+.+++|++..+++.+.|++|.+|.+. +++..
T Consensus        19 ~~~~~~l~D~tg-~~~~~~f~~~~~~~~~~l~~g~~v~v~-G~v~~   62 (84)
T cd04485          19 RMAFVTLEDLTG-SIEVVVFPETYEKYRDLLKEDALLLVE-GKVER   62 (84)
T ss_pred             EEEEEEEEeCCC-eEEEEECHHHHHHHHHHhcCCCEEEEE-EEEEe
Confidence            478899999999 899999998877889999999999887 45543

The DNA polymerase holoenzyme of E. coli contains two copies of this replicative polymerase, each of which copies a different DNA strand. This group also contains Bacillus subtilis DnaE. Replication in B. subtilis and Staphylococcus aureus requires two different type C polymerases, polC and DnaE, both of which are thought to be included in the DNA polymerase holoenzyme. At the B. subtilis replication fork, polC appears to be involved in leading strand synthesis and DnaE in lagging strand synthesis.

>PF09103 BRCA-2_OB1: BRCA2, oligonucleotide/oligosaccharide-binding, domain 1; InterPro: IPR015187 This domain assumes an OB fold, which consists of a highly curved five-stranded beta-sheet that closes on itself to form a beta-barrel

Probab=94.14  E-value=0.059  Score=48.11  Aligned_cols=70  Identities=21%  Similarity=0.265  Sum_probs=42.9

Q ss_pred             HHHHHhcCCCCCCCCCCCcceEEEeeeeec----CceEEEEEeCcccceeeccccccccccccCccceeeEEEEccee
Q 006973            9 AISTILSNPSPDSSSDIPEIVVQVLDLKLT----GNRYMFNASDGKKRLKAILPSNLSSEVISGNIQNKGLIRLLDYA   82 (623)
Q Consensus         9 a~~~i~~~~~~~~~~~~~~pvlQvl~~k~~----~~ryr~~lSDG~~~~~~mlat~ln~~v~~~~l~~~siirl~~y~   82 (623)
                      ||.+|++++.+.+    ..-||=|.++..-    ++...+.||||=|.+++.+...|..++..|.|..|.-++|..-.
T Consensus         2 aLrrI~E~D~~~~----~~mVL~Vs~i~~~~~~~~~~~~lelTDGWY~Ika~lD~~L~~~l~~gki~vG~KL~v~GA~   75 (118)
T PF09103_consen    2 ALRRILEGDDSAS----KPMVLCVSSISSSDNDSPESAILELTDGWYSIKAQLDPPLTRLLRKGKIRVGQKLRVCGAE   75 (118)
T ss_dssp             HHHHHHTTSSTTB-----SEEEEEEE-------------EEEE-SS-EEEE---HHHHHHHHTT-S-TT-EEEESSBE
T ss_pred             HhHHHhhCCCCcC----CcEEEEEEEEccCCCCCCccCEEEEecCCEEEEEEeCHHHHHHHHhCCccCCccEEEECce
Confidence            7899999986542    2247777777222    16789999999999999999999999999999999988874433

OB1 has a shallow groove formed by one face of the curved sheet and is demarcated by two loops, one between beta 1 and beta 2 and another between beta 4 and beta 5, which allows for weak single strand DNA binding. The domain also binds the 70-amino acid DSS1 (deleted in split-hand/split foot syndrome) protein, which was originally identified as one of three genes that map to a 1.5-Mb locus deleted in an inherited developmental malformation syndrome []. ; GO: 0000724 double-strand break repair via homologous recombination; PDB: 1IYJ_D 1MIU_A.

>cd04490 PolII_SU_OBF PolII_SU_OBF: A subfamily of OB folds corresponding to the OB fold found in Pyrococcus abyssi DNA polymerase II (PolII) small subunit

Probab=93.95  E-value=0.31  Score=40.28  Aligned_cols=55  Identities=22%  Similarity=0.345  Sum_probs=40.3

Q ss_pred             eEEEEEEEEeCCceEEEEccCCceeeEEEEEEEeCCccEEEEEEechhhh--hhhhHhhhcCCCCcEEEEEe
Q 006973          310 VDIIGVVQNVSPTMSIRRKSNNEMVPKRDITVADETKRTVTVSLWNELAT--NVGQELLDNADKSPIVAIKS  379 (623)
Q Consensus       310 vDVIGvV~~v~~~~~i~~k~~g~~~~kr~i~l~D~sg~~I~vtLWg~~A~--~~~~~~~~~~~~~~Vv~i~~  379 (623)
                      +-++|+|.++.     .+|+ |+.    -++|.|.+| ++++++|.+..+  .+...    ...+.+|.+++
T Consensus         2 v~i~GiI~~v~-----~TK~-g~~----~~~leD~~G-~~Ev~~F~~~~~~~~~~~~----l~~d~~v~v~g   58 (79)
T cd04490           2 VSIIGMVNDVR-----STKN-GHR----IVELEDTTG-RITVLLTKDKEELFEEAED----ILPDEVIGVSG   58 (79)
T ss_pred             EEEEEEEeEEE-----EcCC-CCE----EEEEECCCC-EEEEEEeCchhhhhhhhhh----ccCCCEEEEEE
Confidence            34789999987     3453 543    899999999 899999998887  65433    45566776665

PolII is a family D DNA polymerase, having a 3-prime to 5-prime exonuclease activity. P. abyssi PolII is heterodimeric. The large subunit appears to be the polymerase, and the small subunit may be the exonuclease. The small subunit contains a calcineurin-like phosphatase superfamily domain C-terminal to this OB-fold domain.

>PF06075 DUF936: Plant protein of unknown function (DUF936); InterPro: IPR010341 This family consists of several hypothetical proteins from plants

Probab=93.59  E-value=0.14  Score=57.93  Aligned_cols=92  Identities=15%  Similarity=0.243  Sum_probs=72.5

Q ss_pred             CCHHHHHHHhcCCCCCC--CCCCCcceEEEeeeeec--C------ceEEEEEeCcccceeeccccccccccccCccceee
Q 006973            5 VSPDAISTILSNPSPDS--SSDIPEIVVQVLDLKLT--G------NRYMFNASDGKKRLKAILPSNLSSEVISGNIQNKG   74 (623)
Q Consensus         5 lt~ga~~~i~~~~~~~~--~~~~~~pvlQvl~~k~~--~------~ryr~~lSDG~~~~~~mlat~ln~~v~~~~l~~~s   74 (623)
                      ||||-|.+++++...+.  .++--.++|||++|=+.  +      .-|.|-|||+-|.+..-|..+=++||.++.|+-|-
T Consensus         1 L~pGvL~klL~~mn~~~k~~gehRs~lLQV~~IvPaL~~~~l~p~~gF~lkvSDsshs~Yvsl~~~~~dlils~klqlGq   80 (579)
T PF06075_consen    1 LTPGVLLKLLQHMNSDVKVTGEHRSSLLQVTSIVPALAGSDLWPNQGFYLKVSDSSHSTYVSLPDEDDDLILSNKLQLGQ   80 (579)
T ss_pred             CCchHHHHHHHhcCCCCccCCcccccceeeeeeeecccccccCcCCceEEEecccccceeeecChhcccceecCCccccc
Confidence            89999999999653321  22334689999999985  1      45999999999999999999999999999999999


Q ss_pred             EEEEcceeeeccCCCceEEEEEEeeeee
Q 006973           75 LIRLLDYALNEIPTKSEKYLIVTKCEVV  102 (623)
Q Consensus        75 iirl~~y~~~~~~~~~~~vlii~~lev~  102 (623)
                      +|.|.+...-      ..|=++.++..|
T Consensus        81 fi~vdrle~~------~PvP~l~g~rp~  102 (579)
T PF06075_consen   81 FIYVDRLEAA------SPVPVLRGVRPV  102 (579)
T ss_pred             eEEEcccccC------CCCceeecCccC
Confidence            9999887543      245555566555

The function of this family is unknown.

>cd04490 PolII_SU_OBF PolII_SU_OBF: A subfamily of OB folds corresponding to the OB fold found in Pyrococcus abyssi DNA polymerase II (PolII) small subunit

Probab=93.52  E-value=0.39  Score=39.66  Aligned_cols=54  Identities=22%  Similarity=0.213  Sum_probs=42.7

Q ss_pred             EEEEEEEeeccccccccCCCcccEEEEEEEeCCCCeEEEEEechHHH--HHHhhcccCcEEEEee
Q 006973          188 TIKVRVTSKGNMRTYKNARGEGCVFNVELTDEDGTQIQATMFNEAAR--KFYDRFQLGKVYYISR  250 (623)
Q Consensus       188 ~I~~RV~~K~~~r~~~~~~g~g~~f~~~L~D~~G~~I~at~~~~~~~--kf~~~l~eG~vy~is~  250 (623)
                      .+.|.|+..   | . +.+|  +. -+.|-|.+| .+.+++|++..+  ++.++|++|.++.+..
T Consensus         3 ~i~GiI~~v---~-~-TK~g--~~-~~~leD~~G-~~Ev~~F~~~~~~~~~~~~l~~d~~v~v~g   58 (79)
T cd04490           3 SIIGMVNDV---R-S-TKNG--HR-IVELEDTTG-RITVLLTKDKEELFEEAEDILPDEVIGVSG   58 (79)
T ss_pred             EEEEEEeEE---E-E-cCCC--CE-EEEEECCCC-EEEEEEeCchhhhhhhhhhccCCCEEEEEE
Confidence            456667664   3 2 2233  34 788999999 899999999999  9999999999999975

PolII is a family D DNA polymerase, having a 3-prime to 5-prime exonuclease activity. P. abyssi PolII is heterodimeric. The large subunit appears to be the polymerase, and the small subunit may be the exonuclease. The small subunit contains a calcineurin-like phosphatase superfamily domain C-terminal to this OB-fold domain.

>cd04489 ExoVII_LU_OBF ExoVII_LU_OBF: A subfamily of OB folds corresponding to the N-terminal OB-fold domain of Escherichia coli exodeoxyribonuclease VII (ExoVII) large subunit

Probab=93.37  E-value=0.36  Score=39.28  Aligned_cols=54  Identities=19%  Similarity=0.334  Sum_probs=43.0

Q ss_pred             EEEEEEEeeccccccccCCCcccEEEEEEEeCCCCeEEEEEechHHHHHHhhcccCcEEEEee
Q 006973          188 TIKVRVTSKGNMRTYKNARGEGCVFNVELTDEDGTQIQATMFNEAARKFYDRFQLGKVYYISR  250 (623)
Q Consensus       188 ~I~~RV~~K~~~r~~~~~~g~g~~f~~~L~D~~G~~I~at~~~~~~~kf~~~l~eG~vy~is~  250 (623)
                      .|.|-|+.   +|. . .  .| ..-++|.|.+| .|.+++|.+...++.+.|++|+.+.+..
T Consensus         3 ~v~g~v~~---i~~-t-k--~g-~~~~~L~D~~~-~i~~~~f~~~~~~~~~~l~~g~~v~v~g   56 (78)
T cd04489           3 WVEGEISN---LKR-P-S--SG-HLYFTLKDEDA-SIRCVMWRSNARRLGFPLEEGMEVLVRG   56 (78)
T ss_pred             EEEEEEec---CEE-C-C--Cc-EEEEEEEeCCe-EEEEEEEcchhhhCCCCCCCCCEEEEEE
Confidence            46667764   443 2 1  34 77789999998 9999999999999999999999998864

E. coli ExoVII is composed of two non-identical subunits. E. coli ExoVII is a single-strand-specific exonuclease which degrades ssDNA from both 3-prime and 5-prime ends. ExoVII plays a role in methyl-directed mismatch repair in vivo. ExoVII may also guard the genome from mutagenesis by removing excess ssDNA, since the build up of ssDNA would lead to SOS induction and PolIV-dependent mutagenesis.

>PF15072 DUF4539: Domain of unknown function (DUF4539)

Probab=93.10  E-value=0.42  Score=40.16  Aligned_cols=61  Identities=21%  Similarity=0.250  Sum_probs=47.5

Q ss_pred             EEEEEEEeCCCCeEEEEEechHHHHHHhhcccCcEEEEeeeEEEecCCCccccCCceEEEEccCcEEE
Q 006973          211 VFNVELTDEDGTQIQATMFNEAARKFYDRFQLGKVYYISRGTLRVANKQFKTVQNDYEMNLNENSEVE  278 (623)
Q Consensus       211 ~f~~~L~D~~G~~I~at~~~~~~~kf~~~l~eG~vy~is~~~V~~a~~~~~~~~~~yei~f~~~T~I~  278 (623)
                      -..++|.|.+| +|+|++..+..+.|.+.|..|.|..+.+..|-.      +....+-|..+....+.
T Consensus        20 D~~v~l~DpTG-~i~~tiH~~v~~~y~~~l~~GavLlLk~V~Vf~------ps~~~~yLnIt~~Nlv~   80 (86)
T PF15072_consen   20 DAFVVLKDPTG-EIRGTIHRKVLEEYGDELSPGAVLLLKDVTVFS------PSPRSHYLNITLNNLVR   80 (86)
T ss_pred             CeEEEEECCCC-cEEEEEeHHHHhhcCCccccCEEEEEeeeeEEe------cCCCccEEEEehhHeee
Confidence            35688999999 999999999999999999999999999987743      33444555555444433

>cd04492 YhaM_OBF_like YhaM_OBF_like: A subfamily of OB folds similar to that found in Bacillus subtilis YhaM and Staphylococcus aureus cmp-binding factor-1 (SaCBF1)

Probab=92.50  E-value=0.47  Score=38.81  Aligned_cols=43  Identities=19%  Similarity=0.448  Sum_probs=35.9

Q ss_pred             cEEEEEEEeCCCCeEEEEEechHHHHHHhhcccCcEEEEeeeEEEe
Q 006973          210 CVFNVELTDEDGTQIQATMFNEAARKFYDRFQLGKVYYISRGTLRV  255 (623)
Q Consensus       210 ~~f~~~L~D~~G~~I~at~~~~~~~kf~~~l~eG~vy~is~~~V~~  255 (623)
                      +.+.+.|.|.+| .|.+++|++.. .+...|++|.++.+. ++|..
T Consensus        19 ~~~~~~l~D~tg-~i~~~~f~~~~-~~~~~l~~g~~v~v~-G~v~~   61 (83)
T cd04492          19 PYLALTLQDKTG-EIEAKLWDASE-EDEEKFKPGDIVHVK-GRVEE   61 (83)
T ss_pred             cEEEEEEEcCCC-eEEEEEcCCCh-hhHhhCCCCCEEEEE-EEEEE
Confidence            478999999999 89999999654 457889999999998 66644

Both these proteins are 3'-to-5'exoribonucleases. YhaM requires Mn2+ or Co2+ for activity and is inactive in the presence of Mg2+. YhaM also has a Mn2+ dependent 3'-to-5'single-stranded DNA exonuclease activity. SaCBF is also a double-stranded DNA binding protein, binding specifically to cmp, the replication enhancer found in S. aureus plasmid pT181. Proteins in this group combine an N-terminal OB fold with a C-terminal HD domain. The HD domain is found in metal-dependent phosphohydrolases.

>KOG0851 consensus Single-stranded DNA-binding replication protein A (RPA), large (70 kD) subunit and related ssDNA-binding proteins [Replication, recombination and repair]

Probab=90.83  E-value=0.42  Score=48.02  Aligned_cols=69  Identities=20%  Similarity=0.290  Sum_probs=51.3

Q ss_pred             CCCCeEeccccccccceecCCCCeeecCcCCCCccccceeEEEEEEEEeCCCcEEEEEehHhHHHHhCCCHHHH
Q 006973          476 PDQAMWYRACKTCNKKVTDALGSGYWCEGCQKNDEECSLRYIMVARVCDGSGEAWISIFNEEAERIIGCSADEL  549 (623)
Q Consensus       476 ~d~~~~Y~aC~~C~KKv~~~~~~~~~C~kC~~~~~~~~~ry~l~~~i~D~Tg~~~~~~F~~~ae~llG~sA~el  549 (623)
                      .+-.|+|..|+.|+|  .......+.|+.|+....+...+|.+.....+.++.   ..|...+..+.|.++..+
T Consensus       156 ~~~~~~~~~~~~~~~--~~~~~~~~~c~~~~~~~~~~~~~~~l~~~~~~~~~~---l~~~~~~~~~~G~~~~~~  224 (246)
T KOG0851|consen  156 TDVDGFYLTFKICNK--SKFSKPVLWCEACGEQATDFGRKRSLGGGVIVIAPE---LLFWKIWRYFDGKNVRIV  224 (246)
T ss_pred             CCcceEEEEEeeccc--ccccCceEEehhhcchHHhhhhheEecCCcEEccch---heeecccccccCCchhee
Confidence            344789999999998  111134589999998877776667887777777777   778888888888666544

>PTZ00401 aspartyl-tRNA synthetase; Provisional

Probab=90.68  E-value=2.1  Score=48.56  Aligned_cols=99  Identities=19%  Similarity=0.252  Sum_probs=69.6

Q ss_pred             cCeeeccccCCCC---CCeEEEEEEEeeccccccccCCCcccEEEEEEEeCCCCeEEEEEec-----hHHHHHHhhcccC
Q 006973          172 RRVHPLVSLNPYQ---GNWTIKVRVTSKGNMRTYKNARGEGCVFNVELTDEDGTQIQATMFN-----EAARKFYDRFQLG  243 (623)
Q Consensus       172 ~~~~~I~~L~p~~---~~w~I~~RV~~K~~~r~~~~~~g~g~~f~~~L~D~~G~~I~at~~~-----~~~~kf~~~l~eG  243 (623)
                      +.++.|++|++..   ..-+|+|||.++   |.      .|++.=++|.|.+| .|++++-.     +..-+|...|..|
T Consensus        63 ~~~~~i~~l~~~~~~g~~V~v~Grv~~~---R~------~Gk~~Fl~LRd~~~-~iQ~v~~~~~~~~~~~~~~~~~l~~e  132 (550)
T PTZ00401         63 RTFIPVAVLSKPELVDKTVLIRARVSTT---RK------KGKMAFMVLRDGSD-SVQAMAAVEGDVPKEMIDFIGQIPTE  132 (550)
T ss_pred             CceEEHHHCCccccCCCEEEEEEEEEEE---ec------CCCeEEEEEEeCCc-CEEEEEECCCccCHHHHHHHhcCCCC
Confidence            5689999998754   467899999763   32      34555578999999 89999841     3344566779999


Q ss_pred             cEEEEeeeEEEecCCCccccCCceEEEEccCcEEEEc
Q 006973          244 KVYYISRGTLRVANKQFKTVQNDYEMNLNENSEVEEA  280 (623)
Q Consensus       244 ~vy~is~~~V~~a~~~~~~~~~~yei~f~~~T~I~~~  280 (623)
                      +++.+.+.-+++..+.-+....++||....-..+.++
T Consensus       133 siV~V~G~v~~~~~~~~~~~~~~~El~v~~i~vls~a  169 (550)
T PTZ00401        133 SIVDVEATVCKVEQPITSTSHSDIELKVKKIHTVTES  169 (550)
T ss_pred             CEEEEEEEEEecCccCCCCCCccEEEEeeEEEEEeCC
Confidence            9999998655543322234566799988776555554

>cd04485 DnaE_OBF DnaE_OBF: A subfamily of OB folds corresponding to the C-terminal OB-fold nucleic acid binding domain of Thermus aquaticus and Escherichia coli type C replicative DNA polymerase III alpha subunit (DnaE)

Probab=90.12  E-value=2.3  Score=34.40  Aligned_cols=64  Identities=20%  Similarity=0.263  Sum_probs=41.6

Q ss_pred             EEEEEEEeCCceEEEEccCCceeeEEEEEEEeCCccEEEEEEechhhhhhhhHhhhcCCCCcEEEEEeEEeeeccc
Q 006973          312 IIGVVQNVSPTMSIRRKSNNEMVPKRDITVADETKRTVTVSLWNELATNVGQELLDNADKSPIVAIKSLKVGDFQG  387 (623)
Q Consensus       312 VIGvV~~v~~~~~i~~k~~g~~~~kr~i~l~D~sg~~I~vtLWg~~A~~~~~~~~~~~~~~~Vv~i~~~kV~~f~G  387 (623)
                      ++|+|.++..   ..+|+ |+  ....++|.|.+| .+++++|.+....+...    ...+.++.+. .++..|+|
T Consensus         2 i~g~v~~~~~---~~~k~-g~--~~~~~~l~D~tg-~~~~~~f~~~~~~~~~~----l~~g~~v~v~-G~v~~~~~   65 (84)
T cd04485           2 VAGLVTSVRR---RRTKK-GK--RMAFVTLEDLTG-SIEVVVFPETYEKYRDL----LKEDALLLVE-GKVERRDG   65 (84)
T ss_pred             EEEEEEEeEE---EEcCC-CC--EEEEEEEEeCCC-eEEEEECHHHHHHHHHH----hcCCCEEEEE-EEEEecCC
Confidence            5678876542   22342 44  357889999999 79999998664444332    3456677665 46777765

The DNA polymerase holoenzyme of E. coli contains two copies of this replicative polymerase, each of which copies a different DNA strand. This group also contains Bacillus subtilis DnaE. Replication in B. subtilis and Staphylococcus aureus requires two different type C polymerases, polC and DnaE, both of which are thought to be included in the DNA polymerase holoenzyme. At the B. subtilis replication fork, polC appears to be involved in leading strand synthesis and DnaE in lagging strand synthesis.

>PF14951 DUF4503: Domain of unknown function (DUF4503)

Probab=90.12  E-value=0.83  Score=47.73  Aligned_cols=85  Identities=13%  Similarity=0.266  Sum_probs=67.7

Q ss_pred             EEEEEEEEEEEeCCCCeEecccccccc-ceec--CCCCeeecCcCCCCccccceeEEEEEEEEeCC---CcEEEEEehHh
Q 006973          464 FFSIKAYISLIKPDQAMWYRACKTCNK-KVTD--ALGSGYWCEGCQKNDEECSLRYIMVARVCDGS---GEAWISIFNEE  537 (623)
Q Consensus       464 ~~~v~a~I~~i~~d~~~~Y~aC~~C~K-Kv~~--~~~~~~~C~kC~~~~~~~~~ry~l~~~i~D~T---g~~~~~~F~~~  537 (623)
                      ...|.|+|+.++.+-.+.++.|..|+. |+..  ++.|.|+|..|.+.+..|..|--|.+-+.=.+   .++.+-+..+.
T Consensus       256 iCsvqG~VvgVdE~TAfSWPvCd~CGn~rLe~~pe~rg~~~C~~Cs~~V~sP~~r~~LeVfl~Cps~p~ctvKVKL~q~s  335 (389)
T PF14951_consen  256 ICSVQGTVVGVDESTAFSWPVCDRCGNGRLEQSPEDRGAFSCGDCSRVVTSPVLRMHLEVFLDCPSRPQCTVKVKLLQRS  335 (389)
T ss_pred             eEEEeeEEEEecCcccccCccccccCCccceeCccCCCceeccchhhhccCcceeeeEEEEEeCCCCCCceEEEEEhHHH
Confidence            477999999999988888999999974 5542  34688999999999999888888887766333   46788888888


Q ss_pred             HHHHhCCCHHH
Q 006973          538 AERIIGCSADE  548 (623)
Q Consensus       538 ae~llG~sA~e  548 (623)
                      -..||.-.|.|
T Consensus       336 IsslL~~aa~e  346 (389)
T PF14951_consen  336 ISSLLMSAASE  346 (389)
T ss_pred             HHHHHhhhhcc
Confidence            88888776644

>PRK02801 primosomal replication protein N; Provisional

Probab=89.73  E-value=1.7  Score=37.62  Aligned_cols=67  Identities=7%  Similarity=0.037  Sum_probs=51.4

Q ss_pred             CCCeEEEEEEEeeccccccccCCCcccEEEEEEEeC-----CCC------eEEEEEechHHHHHHhhcccCcEEEEeeeE
Q 006973          184 QGNWTIKVRVTSKGNMRTYKNARGEGCVFNVELTDE-----DGT------QIQATMFNEAARKFYDRFQLGKVYYISRGT  252 (623)
Q Consensus       184 ~~~w~I~~RV~~K~~~r~~~~~~g~g~~f~~~L~D~-----~G~------~I~at~~~~~~~kf~~~l~eG~vy~is~~~  252 (623)
                      +++..+.||+++.-++|...+  | ..+.+|.|.=+     .|.      .|.|++|++.++.+...+..|+.+.++++-
T Consensus         2 mN~v~L~Grl~~dpelr~Tp~--G-~~v~~f~La~~~~~~ea~~~r~~~~~i~~va~G~~Ae~~~~~l~kGs~v~V~G~L   78 (101)
T PRK02801          2 TNRLVLSGTVCRTPKRKVSPS--G-IPHCQFVLEHRSVQEEAGLHRQAWCRMPVIVSGNQFQAITQSITVGSKITVQGFI   78 (101)
T ss_pred             ccEEEEEEEECcCcceEECCC--C-CeEEEEEEEEeCeEecCCCceeEEEEEEEEEEcHHHHHHHhhcCCCCEEEEEEEE
Confidence            467889999999999987643  3 24666655322     232      299999999999999999999999999764


Q ss_pred             E
Q 006973          253 L  253 (623)
Q Consensus       253 V  253 (623)
                      -
T Consensus        79 ~   79 (101)
T PRK02801         79 S   79 (101)
T ss_pred             E
Confidence            4

>cd04495 BRCA2DBD_OB3 BRCA2DBD_OB3: A subfamily of OB folds corresponding to the third OB fold (OB3) of the 800-amino acid C-terminal ssDNA binding domain (DBD) of BRCA2 (breast cancer susceptibility gene 2) protein, called BRCA2DBD

Probab=89.71  E-value=2.8  Score=35.88  Aligned_cols=82  Identities=23%  Similarity=0.293  Sum_probs=59.1

Q ss_pred             EEEEEEEEeCCceEEEEccCCceeeEEEEEEEeCCccEEEEEEechhhhhhhhHhhhcCCCCcEEEEEeEEeeecc--ce
Q 006973          311 DIIGVVQNVSPTMSIRRKSNNEMVPKRDITVADETKRTVTVSLWNELATNVGQELLDNADKSPIVAIKSLKVGDFQ--GI  388 (623)
Q Consensus       311 DVIGvV~~v~~~~~i~~k~~g~~~~kr~i~l~D~sg~~I~vtLWg~~A~~~~~~~~~~~~~~~Vv~i~~~kV~~f~--G~  388 (623)
                      |++|+|++|+...         +...-.+.|.|++-.-+-+.+|........+   |....+..|++.++..+-+.  |.
T Consensus         1 D~VGvVvsV~~~~---------~g~~~~vYLaDe~~nll~vkfw~~l~~~~~E---Dvvk~~~lia~SNLQwR~~s~~~i   68 (100)
T cd04495           1 DTVGVVISVGKPI---------EGKFPAVYLADECLNLLCVKFWSSLEQYAYE---DVVKRRVLLAASNLQWRTESTSGV   68 (100)
T ss_pred             CceEEEEEEcccc---------cCccceEEEecCCcCEEEEEEecchHHhhhh---hhcccceEEEEecceEeccccCCC
Confidence            7899999998653         1234578999999999999999976654433   34566788898877666443  44


Q ss_pred             -eeecccceEEEEcCCh
Q 006973          389 -SLSTLGRSTVLVSPDL  404 (623)
Q Consensus       389 -~Ls~~~~S~i~iNPd~  404 (623)
                       +|-.+..|.+-.||.-
T Consensus        69 Ptl~Age~t~FS~nPKe   85 (100)
T cd04495          69 PTLFAGEYSTFSANPKE   85 (100)
T ss_pred             ceeeeecceeecCCccH
Confidence             4555677888888853

BRCA2 participates in homologous recombination-mediated repair of double-strand DNA breaks. It stimulates the displacement of Replication protein A (RPA), the most abundant eukaryotic ssDNA binding protein. It also facilitates filament formation. Mutations that map throughout the BRCA2 protein are associated with breast cancer susceptibility. BRCA2 is a large nuclear protein and its most conserved region is the C-terminal BRCA2DBD. BRCA2DBD binds ssDNA in vitro, and is composed of five structural domains, three of which are OB folds (OB1, OB2, and OB3). BRCA2DBD OB2 and OB3 are arranged in tandem, and their mode of binding can be considered qualitatively similar to two OB folds of RPA1, DBD-A and DBD-B (the major DBDs of RPA).

>PRK06751 single-stranded DNA-binding protein; Provisional

Probab=89.44  E-value=1.4  Score=42.13  Aligned_cols=64  Identities=17%  Similarity=0.267  Sum_probs=49.4

Q ss_pred             CCCeEEEEEEEeeccccccccCCCcccEEEEEEE------eCCC----CeEEEEEechHHHHHHhhcccCcEEEEee
Q 006973          184 QGNWTIKVRVTSKGNMRTYKNARGEGCVFNVELT------DEDG----TQIQATMFNEAARKFYDRFQLGKVYYISR  250 (623)
Q Consensus       184 ~~~w~I~~RV~~K~~~r~~~~~~g~g~~f~~~L~------D~~G----~~I~at~~~~~~~kf~~~l~eG~vy~is~  250 (623)
                      ++...|.|||++--++|...+  | ..+.+|.|+      ++.|    +-|.|++|+..|+.+...|+.|+-+.|.+
T Consensus         2 mN~V~LiGrL~~DpelR~t~s--G-~~v~~fslAvnr~~~~~~ge~~tdwi~~v~wgk~Ae~~~~~l~KG~~V~VeG   75 (173)
T PRK06751          2 MNRVILVGRLTKDPDLRYTPN--G-VAVATFTLAVNRAFANQQGEREADFINCVIWRKQAENVANYLKKGSLAGVDG   75 (173)
T ss_pred             ceEEEEEEEECCCCcEEECCC--C-CEEEEEEEEEccceecCCCCEEEEEEEEEEeCcHHHHHHHHcCCCCEEEEEE
Confidence            467889999999888886543  2 246666554      3334    36899999999999999999999999874

>PRK13480 3'-5' exoribonuclease YhaM; Provisional

Probab=89.19  E-value=1.2  Score=46.83  Aligned_cols=68  Identities=12%  Similarity=0.135  Sum_probs=48.7

Q ss_pred             eccccCCCCCCeEEEEEEEeeccccccccCCCcc-cEEEEEEEeCCCCeEEEEEechHHHHHHhhcccCcEEEEeee
Q 006973          176 PLVSLNPYQGNWTIKVRVTSKGNMRTYKNARGEG-CVFNVELTDEDGTQIQATMFNEAARKFYDRFQLGKVYYISRG  251 (623)
Q Consensus       176 ~I~~L~p~~~~w~I~~RV~~K~~~r~~~~~~g~g-~~f~~~L~D~~G~~I~at~~~~~~~kf~~~l~eG~vy~is~~  251 (623)
                      .|++|.++. .......|..+. +|+-+    .| ..+.++|.|.+| +|.|.+|+.. +.....+++|+++.+.+-
T Consensus         4 ~i~~l~~g~-~v~~~~lv~~~~-~~~~k----nG~~yl~l~l~D~tG-~I~ak~W~~~-~~~~~~~~~g~vv~v~G~   72 (314)
T PRK13480          4 GIEELEVGE-QVDHFLLIKSAT-KGVAS----NGKPFLTLILQDKSG-DIEAKLWDVS-PEDEATYVPETIVHVKGD   72 (314)
T ss_pred             hHhhcCCCC-EeeEEEEEEEce-eeecC----CCCeEEEEEEEcCCc-EEEEEeCCCC-hhhHhhcCCCCEEEEEEE
Confidence            578888875 344444555442 34322    23 488999999999 8999999964 556778999999988753

>KOG4757 consensus Predicted telomere binding protein [General function prediction only]

Probab=88.86  E-value=1.2  Score=47.61  Aligned_cols=86  Identities=14%  Similarity=0.299  Sum_probs=62.6

Q ss_pred             cccccccccccccCCcceeEEEEEEEEeCCceEEEEccCCceeeEEEEEEEe--CCccEEEEEEechhhhhhhhHhhhcC
Q 006973          292 FNFVPIDELGRYVNGTELVDIIGVVQNVSPTMSIRRKSNNEMVPKRDITVAD--ETKRTVTVSLWNELATNVGQELLDNA  369 (623)
Q Consensus       292 ~~f~~i~di~~~~~~~~~vDVIGvV~~v~~~~~i~~k~~g~~~~kr~i~l~D--~sg~~I~vtLWg~~A~~~~~~~~~~~  369 (623)
                      ++|+.+.+=..  -.+..|+++|+|++.+|...  ++  |++ -...+.|+|  .|+..+.|-|+....++++.-    .
T Consensus         7 ~k~Iri~da~k--k~~tiVNl~GiVkef~pp~q--s~--g~D-~~~tv~IvDp~~ss~gLtv~lfSkt~edLP~I----k   75 (522)
T KOG4757|consen    7 LKLIRISDALK--KKNTIVNLIGIVKEFTPPRQ--SL--GKD-WVCTVYIVDPDYSSIGLTVHLFSKTGEDLPVI----K   75 (522)
T ss_pred             hheeechHHHH--hcCcEEEEEEEEEeccChhh--cc--CCc-eEEEEEEeCCCCCCCCcEEEEecCchhhCccc----c
Confidence            34455554332  24689999999999998764  22  443 356889999  677789999999888877531    3


Q ss_pred             CCCcEEEEEeEEeeeccce
Q 006973          370 DKSPIVAIKSLKVGDFQGI  388 (623)
Q Consensus       370 ~~~~Vv~i~~~kV~~f~G~  388 (623)
                      ..|.+|.+...|+.-|+.+
T Consensus        76 ~~GDiillhRiKiq~y~~r   94 (522)
T KOG4757|consen   76 QVGDIILLHRIKIQSYRDR   94 (522)
T ss_pred             ccCcEEEEEEEEEEEhhhh
Confidence            4689999999999888754

>cd04478 RPA2_DBD_D RPA2_DBD_D: A subfamily of OB folds corresponding to the OB fold of the central ssDNA-binding domain (DBD)-D of human RPA2 (also called RPA32)

Probab=88.80  E-value=1.1  Score=38.15  Aligned_cols=57  Identities=14%  Similarity=0.201  Sum_probs=40.9

Q ss_pred             EEEEEEEeeccccccccCCCcccEEEEEEEeCCCCeEEEEEechHHH---HHHhhcccCcEEEEeeeEEEe
Q 006973          188 TIKVRVTSKGNMRTYKNARGEGCVFNVELTDEDGTQIQATMFNEAAR---KFYDRFQLGKVYYISRGTLRV  255 (623)
Q Consensus       188 ~I~~RV~~K~~~r~~~~~~g~g~~f~~~L~D~~G~~I~at~~~~~~~---kf~~~l~eG~vy~is~~~V~~  255 (623)
                      ++.|+|.++..         .+..+.+.|.|.+| .|.|.+|...-.   ...+.+++|+++.+. |+++.
T Consensus         3 ~~vG~V~~~~~---------~~~~~~~tL~D~TG-~I~~~~W~~~~~~~~~~~~~~~~g~~v~v~-G~v~~   62 (95)
T cd04478           3 TLVGVVRNVEE---------QSTNITYTIDDGTG-TIEVRQWLDDDNDDSSEVEPIEEGTYVRVF-GNLKS   62 (95)
T ss_pred             EEEEEEEeeeE---------cccEEEEEEECCCC-cEEEEEeCCCCCcccccccccccCCEEEEE-EEEcc
Confidence            46677766432         23578999999999 899999986533   356779999988775 44433

RPA2 is a subunit of Replication protein A (RPA). RPA is a nuclear ssDNA-binding protein (SSB) which appears to be involved in all aspects of DNA metabolism including replication, recombination, and repair. RPA also mediates specific interactions of various nuclear proteins. In animals, plants, and fungi, RPA is a heterotrimer with subunits of 70KDa (RPA1), 32kDa (RPA2), and 14 KDa (RPA3). The major DNA binding activity of RPA is associated with RPA1 DBD-A and DBD-B; RPA2 DBD-D is a weak ssDNA-binding domain. RPA2 DBD-D is also involved in trimerization. The ssDNA binding mechanism is believed to be multistep and to involve conformational change. N-terminal to human RPA2 DBD-D is a domain containing all the known phosphorylation sites of RPA. Human RPA2 is phosphorylated in a cell cycle dependent manner in response to DNA dam

>COG1997 RPL43A Ribosomal protein L37AE/L43A [Translation, ribosomal structure and biogenesis]

Probab=88.69  E-value=0.3  Score=40.51  Aligned_cols=30  Identities=13%  Similarity=0.352  Sum_probs=22.9

Q ss_pred             eccccccccce-ecCCCCeeecCcCCCCccc
Q 006973          482 YRACKTCNKKV-TDALGSGYWCEGCQKNDEE  511 (623)
Q Consensus       482 Y~aC~~C~KKv-~~~~~~~~~C~kC~~~~~~  511 (623)
                      -..||.|+++- .....|.|.|.+|+..+..
T Consensus        35 ~~~Cp~C~~~~VkR~a~GIW~C~kCg~~fAG   65 (89)
T COG1997          35 KHVCPFCGRTTVKRIATGIWKCRKCGAKFAG   65 (89)
T ss_pred             CCcCCCCCCcceeeeccCeEEcCCCCCeecc
Confidence            45799999874 3345789999999987643

>PRK07275 single-stranded DNA-binding protein; Provisional

Probab=88.50  E-value=1.9  Score=40.83  Aligned_cols=64  Identities=16%  Similarity=0.245  Sum_probs=50.2

Q ss_pred             CCCeEEEEEEEeeccccccccCCCcccEEEEEEE------eCCC----CeEEEEEechHHHHHHhhcccCcEEEEee
Q 006973          184 QGNWTIKVRVTSKGNMRTYKNARGEGCVFNVELT------DEDG----TQIQATMFNEAARKFYDRFQLGKVYYISR  250 (623)
Q Consensus       184 ~~~w~I~~RV~~K~~~r~~~~~~g~g~~f~~~L~------D~~G----~~I~at~~~~~~~kf~~~l~eG~vy~is~  250 (623)
                      ++...|.||+++--++|...+  |. .+.+|.|+      +..|    +-|+|++|+..|+.+...|+.|+-+.|.+
T Consensus         2 ~N~v~LiGrL~~DPElr~t~s--G~-~v~~ftlAv~r~~~~~~ge~~tdfi~vv~wgk~Ae~~~~~l~KG~~V~VeG   75 (162)
T PRK07275          2 INNVVLVGRMTRDAELRYTPS--NV-AVATFTLAVNRTFKSQNGEREADFINCVIWRQQAENLANWAKKGALIGVTG   75 (162)
T ss_pred             eeEEEEEEEECCCCeEEECCC--CC-EEEEEEEEEcCceecCCCCEeeeEEEEEEEcHHHHHHHHHcCCCCEEEEEE
Confidence            357789999999888887653  21 46666664      4334    46999999999999999999999999874

>PF02760 HIN: HIN-200/IF120x domain; InterPro: IPR004021 This domain has no known function

Probab=88.23  E-value=19  Score=33.68  Aligned_cols=144  Identities=17%  Similarity=0.196  Sum_probs=86.9

Q ss_pred             EEEEEEeeccccccccCC-CcccEEEEEEEeCCCCeEEEEEechHHHHHHhhcccCcEEEEeeeEEEecCCCccccCCce
Q 006973          189 IKVRVTSKGNMRTYKNAR-GEGCVFNVELTDEDGTQIQATMFNEAARKFYDRFQLGKVYYISRGTLRVANKQFKTVQNDY  267 (623)
Q Consensus       189 I~~RV~~K~~~r~~~~~~-g~g~~f~~~L~D~~G~~I~at~~~~~~~kf~~~l~eG~vy~is~~~V~~a~~~~~~~~~~y  267 (623)
                      ..|.|+.-.+.-+|..+. |..+.|+-+++-++. -.++-+|+-   .+.+.+..++++.||+..-           +.-
T Consensus         5 ~~VmVLkaTepF~Ye~~e~gkk~MFHATVATet~-fF~VKVfn~---~LKeKF~~kkiI~IS~Y~~-----------~~g   69 (170)
T PF02760_consen    5 KTVMVLKATEPFEYESPEEGKKKMFHATVATETE-FFRVKVFNI---NLKEKFIPKKIIAISDYFG-----------RNG   69 (170)
T ss_dssp             EEEEEEEE---EEEECTTTCEEEEEEEEEE-SS--EEEEEES-G---GGCCTCSTTSEEEEESEEE-----------ETT
T ss_pred             eEEEEEeccCCeEEeCcccCcceEEEEEEecccc-EEEEEEecc---hhHhhcCCCcEEEEehhhc-----------ccc
Confidence            456777777777887665 556799999999988 899999996   5677889999999998632           223


Q ss_pred             EEEEccCcEEEEccC-cCCCCCCCc----cccccccccccccCCcceeEEEEEEEEeCCceEEEEccCCceeeEEEEEEE
Q 006973          268 EMNLNENSEVEEAVN-ETAFIPQTK----FNFVPIDELGRYVNGTELVDIIGVVQNVSPTMSIRRKSNNEMVPKRDITVA  342 (623)
Q Consensus       268 ei~f~~~T~I~~~~d-~~~~iP~~~----~~f~~i~di~~~~~~~~~vDVIGvV~~v~~~~~i~~k~~g~~~~kr~i~l~  342 (623)
                      -|..++.|.|.++.. ..-.+|...    -.--+|++|.. ...+.+|+=+=.|...      +.+     .......|.
T Consensus        70 fLEi~~aSsVse~~~dq~~eVp~~ii~~A~~TpKI~~L~~-q~~Gt~V~G~F~v~KK------~v~-----~~~~~YeI~  137 (170)
T PF02760_consen   70 FLEINEASSVSEVNPDQKMEVPNSIIRRANETPKINDLQK-QASGTFVNGLFTVHKK------TVN-----KKNTIYEIQ  137 (170)
T ss_dssp             EEEE-TTSEEEE--TTC-----HHHHHHHCS---HHHHTT-SSTTEEEEEEEEEEEE------EEE-----SSEEEEEEE
T ss_pred             eEEEeeccEEEecCCCceEEccHHHHHhhccCCchhHHhc-CCCCcEEeEEEEEEEE------EEc-----CCeEEEEEe
Confidence            466678888888753 223455321    12246777765 3456676643333221      111     124467899


Q ss_pred             eCCccEEEEEEechhhhh
Q 006973          343 DETKRTVTVSLWNELATN  360 (623)
Q Consensus       343 D~sg~~I~vtLWg~~A~~  360 (623)
                      |++| .++|...|....-
T Consensus       138 DnTG-~MeVvv~G~~~ni  154 (170)
T PF02760_consen  138 DNTG-KMEVVVYGKWHNI  154 (170)
T ss_dssp             ETTE-EEEEEEEGGGCGC
T ss_pred             cCCC-cEEEEEeccCccc
Confidence            9999 8999999987653

It is found in one or two copies per protein, and is found associated with the PAAD/DAPIN domain IPR004020 from INTERPRO.; PDB: 3RN2_A 3RN5_C 2OQ0_A 3B6Y_A 3RLN_A 3RNU_A 3RLO_A.

>PRK07373 DNA polymerase III subunit alpha; Reviewed

Probab=88.08  E-value=1.5  Score=48.55  Aligned_cols=73  Identities=16%  Similarity=0.190  Sum_probs=53.1

Q ss_pred             eeccccC--CCCCCeEEEEEEEeeccccccccCCCcccEEEEEEEeCCCCeEEEEEechHHHHHHhhcccCcEEEEeeeE
Q 006973          175 HPLVSLN--PYQGNWTIKVRVTSKGNMRTYKNARGEGCVFNVELTDEDGTQIQATMFNEAARKFYDRFQLGKVYYISRGT  252 (623)
Q Consensus       175 ~~I~~L~--p~~~~w~I~~RV~~K~~~r~~~~~~g~g~~f~~~L~D~~G~~I~at~~~~~~~kf~~~l~eG~vy~is~~~  252 (623)
                      .++++|.  +.....+|-|.|+....   ...++|+ .+.-+.|-|.+| .|.+++|.+..+++.+.|++|.++.|.+ +
T Consensus       269 ~~~~~l~~~~~~~~v~vaG~I~~ik~---~~TKkG~-~maf~~leD~tG-~ie~vvFp~~y~~~~~~l~~~~~v~v~G-~  342 (449)
T PRK07373        269 INLSELEEQKEKTKVSAVVMLNEVKK---IVTKKGD-PMAFLQLEDLSG-QSEAVVFPKSYERISELLQVDARLIIWG-K  342 (449)
T ss_pred             cCHHHHhcccCCCEEEEEEEEEEeEe---cccCCCC-EEEEEEEEECCC-CEEEEECHHHHHHHHHHhccCCEEEEEE-E
Confidence            4566664  23345678888887443   3333333 345568899999 8999999999999999999999999964 4


Q ss_pred             E
Q 006973          253 L  253 (623)
Q Consensus       253 V  253 (623)
                      |
T Consensus       343 v  343 (449)
T PRK07373        343 V  343 (449)
T ss_pred             E
Confidence            4

>PF02765 POT1: Telomeric single stranded DNA binding POT1/CDC13; InterPro: IPR011564 This entry represents a domain that binds single stranded telomeric DNA and adopts an OB fold []

Probab=87.68  E-value=3.2  Score=38.46  Aligned_cols=86  Identities=14%  Similarity=0.187  Sum_probs=61.3

Q ss_pred             eeccccCC-CCCCeEEEEEEEeeccccccccCCCcccEEEEEEEeCCC-------CeEEEEEechHHHHHHhhcccCcEE
Q 006973          175 HPLVSLNP-YQGNWTIKVRVTSKGNMRTYKNARGEGCVFNVELTDEDG-------TQIQATMFNEAARKFYDRFQLGKVY  246 (623)
Q Consensus       175 ~~I~~L~p-~~~~w~I~~RV~~K~~~r~~~~~~g~g~~f~~~L~D~~G-------~~I~at~~~~~~~kf~~~l~eG~vy  246 (623)
                      +||+++.. ....-.|.|-|+.....+... .+|..-.++|.|.|.+.       ..|.+.+|....+.+-..-..|||+
T Consensus         2 ~~l~~~~~~~~~~vnvigVV~~~~~p~~~~-t~g~D~~~tl~i~D~S~~~~~~~~~~l~v~iF~~~~~~LP~v~~~GDii   80 (146)
T PF02765_consen    2 TPLSTAKEKFGKFVNVIGVVVDFSPPNPKK-TRGTDYMCTLTITDPSLNDSNQKLSGLTVNIFRPHKESLPNVKSVGDII   80 (146)
T ss_dssp             CCGGGSCTTSSEEEEEEEEEEEEEEECTEE-ESSSCEEEEEEEEBTTCSCSSCCCCEEEEEEEESSHHHSCTTCSTTHEE
T ss_pred             ccchhhhhcCCCEEEEEEEEEEccCCcceE-cCCCcEEEEEEEECCCCCccccccCCEEEEEECCCHHHCCCCCCCCCEE
Confidence            56664333 334677888888876662222 13333477899999985       5799999988888886655559999


Q ss_pred             EEeeeEEEecCCCcc
Q 006973          247 YISRGTLRVANKQFK  261 (623)
Q Consensus       247 ~is~~~V~~a~~~~~  261 (623)
                      .+.+++|+..+.+..
T Consensus        81 ~l~r~kv~~~~~~~~   95 (146)
T PF02765_consen   81 RLRRVKVQSYNGKPQ   95 (146)
T ss_dssp             EEEEEEEEEETTEEE
T ss_pred             EEEEEEEEEECCEEE
Confidence            999999998876533

It includes the proteins POT1 and CDC13 which have been shown to regulate telomere length, replication and capping [, , ]. ; GO: 0003677 DNA binding, 0000723 telomere maintenance, 0000784 nuclear chromosome, telomeric region; PDB: 1S40_A 1KXL_A 1PH7_A 1PH9_A 1PH2_A 1OTC_A 1PHJ_A 1JB7_A 1PA6_A 1PH1_A ....

>PF13240 zinc_ribbon_2: zinc-ribbon domain

Probab=87.29  E-value=0.26  Score=30.54  Aligned_cols=21  Identities=24%  Similarity=0.879  Sum_probs=17.1

Q ss_pred             ccccccceecCCCCeeecCcCCCC
Q 006973          485 CKTCNKKVTDALGSGYWCEGCQKN  508 (623)
Q Consensus       485 C~~C~KKv~~~~~~~~~C~kC~~~  508 (623)
                      ||.|++++.+   +.-+|++|+..
T Consensus         2 Cp~CG~~~~~---~~~fC~~CG~~   22 (23)
T PF13240_consen    2 CPNCGAEIED---DAKFCPNCGTP   22 (23)
T ss_pred             CcccCCCCCC---cCcchhhhCCc
Confidence            9999999975   34579999964

>PF09104 BRCA-2_OB3: BRCA2, oligonucleotide/oligosaccharide-binding, domain 3; InterPro: IPR015188 This domain assumes an OB fold, which consists of a highly curved five-stranded beta-sheet that closes on itself to form a beta-barrel

Probab=87.00  E-value=3.3  Score=38.08  Aligned_cols=108  Identities=22%  Similarity=0.266  Sum_probs=57.0

Q ss_pred             ccccccccc--cCCcceeEEEEEEEEeCCceEEEEccCCceeeEEEEEEEeCCccEEEEEEechhhhhhhhHhhhcCCCC
Q 006973          295 VPIDELGRY--VNGTELVDIIGVVQNVSPTMSIRRKSNNEMVPKRDITVADETKRTVTVSLWNELATNVGQELLDNADKS  372 (623)
Q Consensus       295 ~~i~di~~~--~~~~~~vDVIGvV~~v~~~~~i~~k~~g~~~~kr~i~l~D~sg~~I~vtLWg~~A~~~~~~~~~~~~~~  372 (623)
                      +.|++|.+-  ...-.-||++|+|+.|.      .+ .|   ..--+.|.|....-+-+..|++...--   +.|.+..+
T Consensus         4 ~~f~~l~~p~f~pp~~EvD~VG~VvsV~------~~-~~---f~~~vYLsD~~~Nll~Ikfw~~l~~~~---~eDilk~~   70 (143)
T PF09104_consen    4 THFSDLQDPDFQPPYGEVDTVGFVVSVS------KK-QG---FQPLVYLSDECHNLLAIKFWTGLNQYG---YEDILKPG   70 (143)
T ss_dssp             --CGGGGSTT--TCCCEEEEEEEEEEEE---------TT---S--EEEEE-TTS-EEEEEESS----------SS---TT
T ss_pred             echhhhcCcccCCCccccceEEEEEEEE------ec-CC---CceeEEeecCCccEEEEEeccCccccc---hhhhcCcc
Confidence            355666541  12334699999999991      11 12   223478899999899999999876322   23446789


Q ss_pred             cEEEEEeEEee-ec-cce-eeecccceEEEEcCCh----HHHHHHHHHHH
Q 006973          373 PIVAIKSLKVG-DF-QGI-SLSTLGRSTVLVSPDL----PEAKKLKSWYE  415 (623)
Q Consensus       373 ~Vv~i~~~kV~-~f-~G~-~Ls~~~~S~i~iNPd~----pe~~~l~~w~~  415 (623)
                      .+||+.++.-+ +. .|. .+-.+..|.+.-||..    .....|+.-+.
T Consensus        71 ~liA~SNLqwR~~s~s~iP~~~A~d~S~FS~nPK~~hLqe~~~~Lk~~i~  120 (143)
T PF09104_consen   71 SLIAASNLQWRPESTSGIPTLFATDLSVFSANPKESHLQEAFNKLKNTIE  120 (143)
T ss_dssp             -EEEEEEEEE-S-TTSSS-EEEEECCEEEESS-SSCCCHHHHHHHCHHHH
T ss_pred             eEEEEeeeEeecccccCCCeeEeccceeeecCccHHHHHHHHHHHHHHhh
Confidence            99999876554 22 344 4556677888889853    34445554443

OB3 has a pronounced groove formed by one face of the curved sheet and is demarcated by two loops, one between beta 1 and beta 2 and another between beta 4 and beta 5, which allows for strong ssDNA binding []. ; PDB: 1IYJ_D 1MIU_A.

>PRK07459 single-stranded DNA-binding protein; Provisional

Probab=87.00  E-value=2.7  Score=37.77  Aligned_cols=64  Identities=17%  Similarity=0.247  Sum_probs=50.0

Q ss_pred             CCCeEEEEEEEeeccccccccCCCcccEEEEEEEe------CCCCeEEEEEechHHHHHHhhcccCcEEEEee
Q 006973          184 QGNWTIKVRVTSKGNMRTYKNARGEGCVFNVELTD------EDGTQIQATMFNEAARKFYDRFQLGKVYYISR  250 (623)
Q Consensus       184 ~~~w~I~~RV~~K~~~r~~~~~~g~g~~f~~~L~D------~~G~~I~at~~~~~~~kf~~~l~eG~vy~is~  250 (623)
                      .+...|.||+.+--++|...+  |. .+.+|.|+-      +..+-+.+++|+..|+.+.+.|+.|+-+.+.+
T Consensus         3 ~N~v~LiGrL~~DPelr~t~~--G~-~v~~fslAv~~~~~~~~t~w~~v~~wg~~Ae~~~~~l~KG~~V~V~G   72 (121)
T PRK07459          3 LNSVTLVGRAGRDPEVRYFES--GS-VVCNLTLAVNRRSRDDEPDWFNLEIWGKTAQVAADYVKKGSLIGITG   72 (121)
T ss_pred             ccEEEEEEEccCCCEEEEcCC--CC-EEEEEEEEecccccCCCceEEEEEEehHHHHHHHHHcCCCCEEEEEE
Confidence            356789999999877886543  21 466776653      23457999999999999999999999999974

>PRK08763 single-stranded DNA-binding protein; Provisional

Probab=86.61  E-value=3.2  Score=39.32  Aligned_cols=65  Identities=12%  Similarity=0.205  Sum_probs=49.6

Q ss_pred             CCCCeEEEEEEEeeccccccccCCCcccEEEEEEE------eCCCC------eEEEEEechHHHHHHhhcccCcEEEEee
Q 006973          183 YQGNWTIKVRVTSKGNMRTYKNARGEGCVFNVELT------DEDGT------QIQATMFNEAARKFYDRFQLGKVYYISR  250 (623)
Q Consensus       183 ~~~~w~I~~RV~~K~~~r~~~~~~g~g~~f~~~L~------D~~G~------~I~at~~~~~~~kf~~~l~eG~vy~is~  250 (623)
                      ..++..|.||+.+--++|...+  | ..+.+|.|+      |+.|.      -+++++|+.+++.....|+.|+-++|.+
T Consensus         4 ~~Nkv~LiGrLg~DPelr~t~~--G-~~va~fsVA~~~~~k~~~G~~~e~t~w~~Vv~fgk~Ae~v~~~L~KGs~V~VeG   80 (164)
T PRK08763          4 GINKVILVGNLGNDPDIKYTQS--G-MTITRISLATTSVRKDREGNTQERTEWHRVKFFGKLGEIAGEYLRKGSQCYIEG   80 (164)
T ss_pred             cceEEEEEEEecCCCeEEEcCC--C-CeEEEEEEEeccceecCCCCeeccceEEEEEEehHHHHHHHHhcCCCCEEEEEE
Confidence            3678999999999777776543  2 246566554      44452      3899999999999999999999999974

>PRK05813 single-stranded DNA-binding protein; Provisional

Probab=86.29  E-value=38  Score=33.75  Aligned_cols=166  Identities=13%  Similarity=0.179  Sum_probs=95.0

Q ss_pred             CCCeEEEEEEEeeccccccccCCCcccEEEEEE-----EeCCCCeEEEEEechHHHHHHhhcccCcEEEEeeeEEEecCC
Q 006973          184 QGNWTIKVRVTSKGNMRTYKNARGEGCVFNVEL-----TDEDGTQIQATMFNEAARKFYDRFQLGKVYYISRGTLRVANK  258 (623)
Q Consensus       184 ~~~w~I~~RV~~K~~~r~~~~~~g~g~~f~~~L-----~D~~G~~I~at~~~~~~~kf~~~l~eG~vy~is~~~V~~a~~  258 (623)
                      .++-.+.||+++--++|+-.  .|++ +..|.|     .|+ -+.|.+++|..+++...  |..|+-+.+.+ +++..++
T Consensus         8 ~NkV~L~Grl~~d~e~~~~~--~G~~-~~~f~laV~R~s~~-~D~i~v~v~~rlae~~~--l~kG~~v~VeG-qlrsy~~   80 (219)
T PRK05813          8 NNKVYLEGKVVSELEFSHEM--YGEG-FYNFKLEVPRLSDS-KDILPVTVSERLLAGMD--LKVGTLVIVEG-QLRSYNK   80 (219)
T ss_pred             cCEEEEEEEEcCCceEEEEe--CCeE-EEEEEEEeeccCCC-ccEEEEEEEhhhhhhhc--ccCCCEEEEEE-EEEEecc
Confidence            45788999999988887632  3443 334433     233 35999999999998877  99999999874 4442221


Q ss_pred             CccccCCceEEEEccCcEEEEccCcCCCCCCCccccccccccccccCCcceeEEEEEEEEeCCceEEEEccCCceeeEEE
Q 006973          259 QFKTVQNDYEMNLNENSEVEEAVNETAFIPQTKFNFVPIDELGRYVNGTELVDIIGVVQNVSPTMSIRRKSNNEMVPKRD  338 (623)
Q Consensus       259 ~~~~~~~~yei~f~~~T~I~~~~d~~~~iP~~~~~f~~i~di~~~~~~~~~vDVIGvV~~v~~~~~i~~k~~g~~~~kr~  338 (623)
                      . ....+.|.+.+-.. .|..+...              .+    ...-..|-++|.+..--.+..  +. +|+.  .-.
T Consensus        81 ~-~~G~~R~vl~V~a~-~i~~l~~~--------------~~----~~~~N~V~LiGrL~~DPelR~--t~-~G~~--va~  135 (219)
T PRK05813         81 F-IDGKNRLILTVFAR-NIEYCDER--------------SD----IKNPNEIFLDGYICKEPVYRT--TP-FGRE--IAD  135 (219)
T ss_pred             C-CCCcEEEEEEEEEE-EEEEccCC--------------Cc----cCCccEEEEEEEccCCCeEEE--CC-CCCE--EEE
Confidence            1 12344455443321 12222211              01    112236788898876433321  22 3553  344


Q ss_pred             EEEEeCC----ccEEEEEEechhhhhhhhHhhhcCCCCcEEEEEe-EEeeecc
Q 006973          339 ITVADET----KRTVTVSLWNELATNVGQELLDNADKSPIVAIKS-LKVGDFQ  386 (623)
Q Consensus       339 i~l~D~s----g~~I~vtLWg~~A~~~~~~~~~~~~~~~Vv~i~~-~kV~~f~  386 (623)
                      |.|.=..    -.-|.|++||..|+.. ..    ...|.-|++.| .+...|.
T Consensus       136 f~lAvnr~~~~td~i~~v~wg~~Ae~~-~~----l~KG~~V~V~GrL~sr~y~  183 (219)
T PRK05813        136 LLLAVNRPYNKSDYIPCIAWGRNARFC-KT----LEVGDNIRVWGRVQSREYQ  183 (219)
T ss_pred             EEEEEcCCCCCceEEEEEEEhHHhHHH-hh----CCCCCEEEEEEEEEecceE
Confidence            4444321    2379999999999754 22    45577776654 3444453

>cd04493 BRCA2DBD_OB1 BRCA2DBD_OB1: A subfamily of OB folds corresponding to the first OB fold (OB1) of the 800-amino acid C-terminal ssDNA binding domain (DBD) of BRCA2 (breast cancer susceptibility gene 2) protein, called BRCA2DBD

Probab=86.06  E-value=0.5  Score=40.68  Aligned_cols=52  Identities=19%  Similarity=0.252  Sum_probs=41.5

Q ss_pred             eEEEeeeeecC----ceEEEEEeCcccceeeccccccccccccCccceeeEEEEcc
Q 006973           29 VVQVLDLKLTG----NRYMFNASDGKKRLKAILPSNLSSEVISGNIQNKGLIRLLD   80 (623)
Q Consensus        29 vlQvl~~k~~~----~ryr~~lSDG~~~~~~mlat~ln~~v~~~~l~~~siirl~~   80 (623)
                      ||=|..+...+    .-=.+.|+||=|.+++.|...|+.++++|.|..|.-++|..
T Consensus         6 VL~Vs~I~~~~~~~~~~~~lEltDGWYsi~a~lD~~L~~~l~~gkl~vGqKL~i~G   61 (100)
T cd04493           6 VLCVSGINSEERLSPHMPIIELTDGWYSIRAQLDPPLTNLVRKGKLRVGQKLRICG   61 (100)
T ss_pred             EEEEEEEeeccCCCCcccEEEEecCeEEEEEEeCHHHHHHHHcCCeecccEEEEEC
Confidence            44555555443    23389999999999999999999999999999998888743

BRCA2 participates in homologous recombination-mediated repair of double-strand DNA breaks. It stimulates the displacement of Replication protein A (RPA), the most abundant eukaryotic ssDNA binding protein. It also facilitates filament formation. Mutations that map throughout the BRCA2 protein are associated with breast cancer susceptibility. BRCA2 is a large nuclear protein and its most conserved region is the C-terminal BRCA2DBD. BRCA2DBD binds ssDNA in vitro, and is composed of five structural domains, three of which are OB folds (OB1, OB2, and OB3). BRCA2DBD OB2 and OB3 are arranged in tandem, and their mode of binding can be considered qualitatively similar to two OB folds of RPA1, DBD-A and DBD-B (the major DBDs of RPA). BRCA2DBD OB1 binds DNA weakly.

>PF07754 DUF1610: Domain of unknown function (DUF1610); InterPro: IPR011668 This domain is found in archaeal species

Probab=86.05  E-value=0.56  Score=29.38  Aligned_cols=23  Identities=17%  Similarity=0.628  Sum_probs=17.8

Q ss_pred             ccccccceecCC-CCeeecCcCCC
Q 006973          485 CKTCNKKVTDAL-GSGYWCEGCQK  507 (623)
Q Consensus       485 C~~C~KKv~~~~-~~~~~C~kC~~  507 (623)
                      |..|++.+.... .-.|.|++|+.
T Consensus         1 C~sC~~~i~~r~~~v~f~CPnCG~   24 (24)
T PF07754_consen    1 CTSCGRPIAPREQAVPFPCPNCGF   24 (24)
T ss_pred             CccCCCcccCcccCceEeCCCCCC
Confidence            778988887643 56799999984

It is likely to bind zinc via its four well-conserved cysteine residues.

>cd04320 AspRS_cyto_N AspRS_cyto_N: N-terminal, anticodon recognition domain of the type found in Saccharomyces cerevisiae and human cytoplasmic aspartyl-tRNA synthetase (AspRS)

Probab=86.00  E-value=13  Score=31.97  Aligned_cols=83  Identities=20%  Similarity=0.270  Sum_probs=52.5

Q ss_pred             eEEEEEEEeeccccccccCCCcc-cEEEEEEEeCCCCeEEEEEechH------HHHHHhhcccCcEEEEeeeEEEecCCC
Q 006973          187 WTIKVRVTSKGNMRTYKNARGEG-CVFNVELTDEDGTQIQATMFNEA------ARKFYDRFQLGKVYYISRGTLRVANKQ  259 (623)
Q Consensus       187 w~I~~RV~~K~~~r~~~~~~g~g-~~f~~~L~D~~G~~I~at~~~~~------~~kf~~~l~eG~vy~is~~~V~~a~~~  259 (623)
                      .+|+|||.++   |.      .| ++.=++|.|.+| .|++.+-.+.      .-++...|..|+++.+.+- +....+.
T Consensus         2 V~i~Gwv~~~---R~------~g~k~~Fi~LrD~sg-~iQ~v~~~~~~~~~~~~~~~~~~l~~es~V~V~G~-v~~~~~~   70 (102)
T cd04320           2 VLIRARVHTS---RA------QGAKLAFLVLRQQGY-TIQGVLAASAEGVSKQMVKWAGSLSKESIVDVEGT-VKKPEEP   70 (102)
T ss_pred             EEEEEEEEEe---ec------CCCceEEEEEecCCc-eEEEEEeCCcccCCHHHHHHHhcCCCccEEEEEEE-EECCCCc
Confidence            5788999763   33      23 444467899998 8999997432      2233456899999999985 3332221


Q ss_pred             ccc-cCCceEEEEccCcEEEEc
Q 006973          260 FKT-VQNDYEMNLNENSEVEEA  280 (623)
Q Consensus       260 ~~~-~~~~yei~f~~~T~I~~~  280 (623)
                      .+. ....|||....-..+.++
T Consensus        71 ~~~~~~~~~El~~~~i~il~~~   92 (102)
T cd04320          71 IKSCTQQDVELHIEKIYVVSEA   92 (102)
T ss_pred             ccCCCcCcEEEEEEEEEEEecC
Confidence            111 236799988765555544

This domain is a beta-barrel domain (OB fold) involved in binding the tRNA anticodon stem-loop. The enzymes in this group are homodimeric class2b aminoacyl-tRNA synthetases (aaRSs). aaRSs catalyze the specific attachment of amino acids (AAs) to their cognate tRNAs during protein biosynthesis. This 2-step reaction involves i) the activation of the AA by ATP in the presence of magnesium ions, followed by ii) the transfer of the activated AA to the terminal ribose of tRNA. In the case of the class2b aaRSs, the activated AA is attached to the 3'OH of the terminal ribose. Eukaryotes contain 2 sets of aaRSs, both of which are encoded by the nuclear genome. One set concerns with cytoplasmic protein synthesis, whereas the other exclusively with mitochondrial protein synthesis.

>PF11325 DUF3127: Domain of unknown function (DUF3127); InterPro: IPR021474 This bacterial family of proteins has no known function

Probab=85.86  E-value=5.9  Score=33.07  Aligned_cols=70  Identities=19%  Similarity=0.302  Sum_probs=48.2

Q ss_pred             EEEEEEEeCCceEEEEccCCceeeEEEEEEEeCCc--cEEEEEEechhhhhhhhHhhhcCCCCcEEEE-EeEEeeeccce
Q 006973          312 IIGVVQNVSPTMSIRRKSNNEMVPKRDITVADETK--RTVTVSLWNELATNVGQELLDNADKSPIVAI-KSLKVGDFQGI  388 (623)
Q Consensus       312 VIGvV~~v~~~~~i~~k~~g~~~~kr~i~l~D~sg--~~I~vtLWg~~A~~~~~~~~~~~~~~~Vv~i-~~~kV~~f~G~  388 (623)
                      +-|.|..+-|..+-.++ +|  ..||++.|..+.-  ..|.+.+||+.+..+.     ....|..|.+ -+++-.+|+|+
T Consensus         2 i~Gkii~~l~~~~g~s~-~G--w~Kre~Vlet~~qYP~~i~f~~~~dk~~~l~-----~~~~Gd~V~Vsf~i~~RE~~gr   73 (84)
T PF11325_consen    2 ITGKIIKVLPEQQGVSK-NG--WKKREFVLETEEQYPQKICFEFWGDKIDLLD-----NFQVGDEVKVSFNIEGREWNGR   73 (84)
T ss_pred             cccEEEEEecCcccCcC-CC--cEEEEEEEeCCCcCCceEEEEEEcchhhhhc-----cCCCCCEEEEEEEeeccEecce
Confidence            34676555555544454 36  8999999985543  4899999999988742     2455666655 57777889887


Q ss_pred             e
Q 006973          389 S  389 (623)
Q Consensus       389 ~  389 (623)
                      .
T Consensus        74 ~   74 (84)
T PF11325_consen   74 W   74 (84)
T ss_pred             E
Confidence            4

>PRK07274 single-stranded DNA-binding protein; Provisional

Probab=85.78  E-value=3  Score=38.00  Aligned_cols=64  Identities=17%  Similarity=0.234  Sum_probs=47.9

Q ss_pred             CCCeEEEEEEEeeccccccccCCCcccEEEEEEE------eCCC----CeEEEEEechHHHHHHhhcccCcEEEEee
Q 006973          184 QGNWTIKVRVTSKGNMRTYKNARGEGCVFNVELT------DEDG----TQIQATMFNEAARKFYDRFQLGKVYYISR  250 (623)
Q Consensus       184 ~~~w~I~~RV~~K~~~r~~~~~~g~g~~f~~~L~------D~~G----~~I~at~~~~~~~kf~~~l~eG~vy~is~  250 (623)
                      ++...|.||+..--.+|...+  |. .+.+|.|+      |+.|    +-+++++|+..++.+...|+.|+-+.+.+
T Consensus         2 mN~v~LiGrL~~dPelr~t~~--g~-~~~~fslAv~~~~k~~~g~~~t~w~~v~~fg~~Ae~v~~~l~KG~~V~V~G   75 (131)
T PRK07274          2 YNKVILIGRLTATPELVKTAN--DK-SVARVTLAVNRRFKNQNGEREADFINVVLWGKLAETLASYASKGSLISIDG   75 (131)
T ss_pred             eeEEEEEEEccCCCeEEECCC--CC-EEEEEEEEEcCceecCCCCEEEEEEEEEEehHHHHHHHHHcCCCCEEEEEE
Confidence            467889999998877775533  21 45555554      3444    35889999999999999999999999874

>cd04489 ExoVII_LU_OBF ExoVII_LU_OBF: A subfamily of OB folds corresponding to the N-terminal OB-fold domain of Escherichia coli exodeoxyribonuclease VII (ExoVII) large subunit

Probab=85.31  E-value=3.5  Score=33.32  Aligned_cols=53  Identities=19%  Similarity=0.313  Sum_probs=36.5

Q ss_pred             EEEEEEEEeCCceEEEEccCCceeeEEEEEEEeCCccEEEEEEechhhhhhhhHhhhcCCCCcEEEEE
Q 006973          311 DIIGVVQNVSPTMSIRRKSNNEMVPKRDITVADETKRTVTVSLWNELATNVGQELLDNADKSPIVAIK  378 (623)
Q Consensus       311 DVIGvV~~v~~~~~i~~k~~g~~~~kr~i~l~D~sg~~I~vtLWg~~A~~~~~~~~~~~~~~~Vv~i~  378 (623)
                      =|.|.|.++..     +|+ |    .--++|.|.++ .+++++|.+....+..    ....+.+|.+.
T Consensus         3 ~v~g~v~~i~~-----tk~-g----~~~~~L~D~~~-~i~~~~f~~~~~~~~~----~l~~g~~v~v~   55 (78)
T cd04489           3 WVEGEISNLKR-----PSS-G----HLYFTLKDEDA-SIRCVMWRSNARRLGF----PLEEGMEVLVR   55 (78)
T ss_pred             EEEEEEecCEE-----CCC-c----EEEEEEEeCCe-EEEEEEEcchhhhCCC----CCCCCCEEEEE
Confidence            36788877642     332 3    67899999998 8999999987666533    24556666554

E. coli ExoVII is composed of two non-identical subunits. E. coli ExoVII is a single-strand-specific exonuclease which degrades ssDNA from both 3-prime and 5-prime ends. ExoVII plays a role in methyl-directed mismatch repair in vivo. ExoVII may also guard the genome from mutagenesis by removing excess ssDNA, since the build up of ssDNA would lead to SOS induction and PolIV-dependent mutagenesis.

>PRK13480 3'-5' exoribonuclease YhaM; Provisional

Probab=85.00  E-value=5.4  Score=41.95  Aligned_cols=69  Identities=17%  Similarity=0.320  Sum_probs=48.4

Q ss_pred             cceeEEEEEEEEeCCceEEEEccCCceeeEEEEEEEeCCccEEEEEEechhhhhhhhHhhhcCCCCcEEEEEeEEeeecc
Q 006973          307 TELVDIIGVVQNVSPTMSIRRKSNNEMVPKRDITVADETKRTVTVSLWNELATNVGQELLDNADKSPIVAIKSLKVGDFQ  386 (623)
Q Consensus       307 ~~~vDVIGvV~~v~~~~~i~~k~~g~~~~kr~i~l~D~sg~~I~vtLWg~~A~~~~~~~~~~~~~~~Vv~i~~~kV~~f~  386 (623)
                      +..++.+..|++..--   .+| +|+  ....++|.|.|| +|+..+|+..-+..     .....+.||-++| +|.+|+
T Consensus        11 g~~v~~~~lv~~~~~~---~~k-nG~--~yl~l~l~D~tG-~I~ak~W~~~~~~~-----~~~~~g~vv~v~G-~v~~y~   77 (314)
T PRK13480         11 GEQVDHFLLIKSATKG---VAS-NGK--PFLTLILQDKSG-DIEAKLWDVSPEDE-----ATYVPETIVHVKG-DIINYR   77 (314)
T ss_pred             CCEeeEEEEEEEceee---ecC-CCC--eEEEEEEEcCCc-EEEEEeCCCChhhH-----hhcCCCCEEEEEE-EEEEEC
Confidence            5678888888876421   123 454  478999999999 89999998653322     1246677887664 567899


Q ss_pred             ce
Q 006973          387 GI  388 (623)
Q Consensus       387 G~  388 (623)
                      |.
T Consensus        78 g~   79 (314)
T PRK13480         78 GR   79 (314)
T ss_pred             Cc
Confidence            84

>cd04322 LysRS_N LysRS_N: N-terminal, anticodon recognition domain of lysyl-tRNA synthetases (LysRS)

Probab=84.60  E-value=15  Score=31.97  Aligned_cols=77  Identities=18%  Similarity=0.262  Sum_probs=50.4

Q ss_pred             eEEEEEEEeeccccccccCCCcccEEEEEEEeCCCCeEEEEEech-----HHHHHHhhcccCcEEEEeeeEEEecCCCcc
Q 006973          187 WTIKVRVTSKGNMRTYKNARGEGCVFNVELTDEDGTQIQATMFNE-----AARKFYDRFQLGKVYYISRGTLRVANKQFK  261 (623)
Q Consensus       187 w~I~~RV~~K~~~r~~~~~~g~g~~f~~~L~D~~G~~I~at~~~~-----~~~kf~~~l~eG~vy~is~~~V~~a~~~~~  261 (623)
                      -+|+|||.+   +|.      .|++.=++|.|.+| .+++++...     ...++...|..|+++.+.+. +.....   
T Consensus         2 v~v~GwV~~---~R~------~g~~~Fi~lrd~~~-~lQ~v~~~~~~~~~~~~~~~~~l~~g~~V~v~G~-v~~~~~---   67 (108)
T cd04322           2 VSVAGRIMS---KRG------SGKLSFADLQDESG-KIQVYVNKDDLGEEEFEDFKKLLDLGDIIGVTGT-PFKTKT---   67 (108)
T ss_pred             EEEEEEEEE---Eec------CCCeEEEEEEECCe-EEEEEEECCCCCHHHHHHHHhcCCCCCEEEEEEE-EEecCC---
Confidence            368888876   333      34555578999987 899988643     23445555999999999764 333321   


Q ss_pred             ccCCceEEEEccCcEEEEc
Q 006973          262 TVQNDYEMNLNENSEVEEA  280 (623)
Q Consensus       262 ~~~~~yei~f~~~T~I~~~  280 (623)
                         ..+||....-..+.++
T Consensus        68 ---g~~El~~~~~~ils~~   83 (108)
T cd04322          68 ---GELSIFVKEFTLLSKS   83 (108)
T ss_pred             ---CCEEEEeCEeEEeecc
Confidence               4588876655555544

These enzymes are homodimeric class 2b aminoacyl-tRNA synthetases (aaRSs). This domain is a beta-barrel domain (OB fold) involved in binding the tRNA anticodon stem-loop. aaRSs catalyze the specific attachment of amino acids (AAs) to their cognate tRNAs during protein biosynthesis. This 2-step reaction involves i) the activation of the AA by ATP in the presence of magnesium ions, followed by ii) the transfer of the activated AA to the terminal ribose of tRNA. In the case of the class2b aaRSs, the activated AA is attached to the 3'OH of the terminal ribose. Included in this group are E. coli LysS and LysU. These two isoforms of LysRS are encoded by distinct genes which are differently regulated. Eukaryotes contain 2 sets of aaRSs, both of which encoded by the nuclear genome. One set concerns with cytoplasmic protein synthesis, whereas the other exclusively with mitochondrial protein

>COG1571 Predicted DNA-binding protein containing a Zn-ribbon domain [General function prediction only]

Probab=84.54  E-value=0.5  Score=50.93  Aligned_cols=30  Identities=23%  Similarity=0.649  Sum_probs=25.1

Q ss_pred             eccccccccceecCCCCeeecCcCCCCccc
Q 006973          482 YRACKTCNKKVTDALGSGYWCEGCQKNDEE  511 (623)
Q Consensus       482 Y~aC~~C~KKv~~~~~~~~~C~kC~~~~~~  511 (623)
                      -|-||.|++.+...+.+.|+|.||+...+.
T Consensus       350 ~p~Cp~Cg~~m~S~G~~g~rC~kCg~~~~~  379 (421)
T COG1571         350 NPVCPRCGGRMKSAGRNGFRCKKCGTRARE  379 (421)
T ss_pred             CCCCCccCCchhhcCCCCcccccccccCCc
Confidence            578999999998876668999999987644

>PLN02850 aspartate-tRNA ligase

Probab=84.53  E-value=7.3  Score=44.07  Aligned_cols=98  Identities=17%  Similarity=0.165  Sum_probs=67.5

Q ss_pred             cCeeeccccCCCC--CCeEEEEEEEeeccccccccCCCcccEEEEEEEeCCCCeEEEEEech------HHHHHHhhcccC
Q 006973          172 RRVHPLVSLNPYQ--GNWTIKVRVTSKGNMRTYKNARGEGCVFNVELTDEDGTQIQATMFNE------AARKFYDRFQLG  243 (623)
Q Consensus       172 ~~~~~I~~L~p~~--~~w~I~~RV~~K~~~r~~~~~~g~g~~f~~~L~D~~G~~I~at~~~~------~~~kf~~~l~eG  243 (623)
                      +..+.|.+|++..  ...+|+|||.+   +|      ..|++.=++|.|..| .|++++...      ..-+|...|..|
T Consensus        67 ~~~~~i~~l~~~~~g~~V~v~Grv~~---~R------~~gk~~Fl~Lrd~~~-~iQ~v~~~~~~~~~~~~~~~~~~l~~e  136 (530)
T PLN02850         67 REWTDVSDLGEELAGSEVLIRGRVHT---IR------GKGKSAFLVLRQSGF-TVQCVVFVSEVTVSKGMVKYAKQLSRE  136 (530)
T ss_pred             ceEeEhhhcchhhCCCEEEEEEEEEE---Ec------cCCCeEEEEEEeCCc-CEEEEEECCccccCHHHHHHHhCCCCC
Confidence            4679999998743  47889999976   33      244554467889877 899998643      344667789999


Q ss_pred             cEEEEeeeEEEecCCCccccCCceEEEEccCcEEEEc
Q 006973          244 KVYYISRGTLRVANKQFKTVQNDYEMNLNENSEVEEA  280 (623)
Q Consensus       244 ~vy~is~~~V~~a~~~~~~~~~~yei~f~~~T~I~~~  280 (623)
                      +++.+.+--+++.. .-+....++||....-..+.++
T Consensus       137 s~V~V~G~v~~~~~-~~~~~t~~~El~~~~i~vls~a  172 (530)
T PLN02850        137 SVVDVEGVVSVPKK-PVKGTTQQVEIQVRKIYCVSKA  172 (530)
T ss_pred             CEEEEEEEEEccCc-CCCCCCccEEEEEeEEEEEeCC
Confidence            99999875444322 2222334899988776666554

>PRK08486 single-stranded DNA-binding protein; Provisional

Probab=84.52  E-value=3.9  Score=39.46  Aligned_cols=63  Identities=17%  Similarity=0.258  Sum_probs=47.8

Q ss_pred             CCeEEEEEEEeeccccccccCCCcccEEEEEEE------eCCC------CeEEEEEechHHHHHHhhcccCcEEEEee
Q 006973          185 GNWTIKVRVTSKGNMRTYKNARGEGCVFNVELT------DEDG------TQIQATMFNEAARKFYDRFQLGKVYYISR  250 (623)
Q Consensus       185 ~~w~I~~RV~~K~~~r~~~~~~g~g~~f~~~L~------D~~G------~~I~at~~~~~~~kf~~~l~eG~vy~is~  250 (623)
                      +...|.||+++--++|...+  |. .+.+|.|+      +..|      +-|.+++|+..|+.+...|+.|+-+.|.+
T Consensus         3 N~V~LvGrL~~DPElr~t~s--G~-~va~fslAv~r~~~~~~Ge~~e~t~fi~v~~fg~~AE~~~~~l~KG~~V~VeG   77 (182)
T PRK08486          3 NKVILVGNLTRDVELRYLPS--GS-AIATIGLATSRRFKKQDGEKGEEVCFIDIRLFGRTAEIANQYLSKGSKVLIEG   77 (182)
T ss_pred             eEEEEEEEecCCCEEEECCC--CC-EEEEEEEEEecceecCCCCCcccceEEEEEEEhHHHHHHHHHcCCCCEEEEEE
Confidence            56789999999888887653  21 35555542      3333      36899999999999999999999999974

>PF02721 DUF223: Domain of unknown function DUF223; InterPro: IPR003871 The function of this domain has not been characterised, but may be involved in nucleic acid or nucleotide binding

Probab=84.49  E-value=5.4  Score=33.96  Aligned_cols=61  Identities=15%  Similarity=0.209  Sum_probs=44.9

Q ss_pred             EEEEEeCCccEEEEEEechhhhhhhhHhhhcCCCCcEEEEEeEEeeeccceeeecccceEEEEcC
Q 006973          338 DITVADETKRTVTVSLWNELATNVGQELLDNADKSPIVAIKSLKVGDFQGISLSTLGRSTVLVSP  402 (623)
Q Consensus       338 ~i~l~D~sg~~I~vtLWg~~A~~~~~~~~~~~~~~~Vv~i~~~kV~~f~G~~Ls~~~~S~i~iNP  402 (623)
                      ++.|+|+.|..|..+++.+.+..|...    ..+|.+..+....|..-.|..-.+...=+|.+.+
T Consensus         1 emvL~De~G~~I~A~I~~~~~~~f~~~----l~Eg~~y~i~~F~V~~~~~~yr~t~h~y~I~f~~   61 (95)
T PF02721_consen    1 EMVLVDEKGDKIQATIPKELVDKFKDS----LKEGSWYTISNFTVSPNSGSYRPTDHKYKINFMP   61 (95)
T ss_pred             CEEEEecCCCEEEEEECHHHHHHHHhh----cccCCEEEeEeEEEEeCCCceeccCCCEEEEECC
Confidence            478999999999999999999888654    4678999999999987655432232333444444

>cd04496 SSB_OBF SSB_OBF: A subfamily of OB folds similar to the OB fold of ssDNA-binding protein (SSB)

Probab=84.46  E-value=4.2  Score=34.43  Aligned_cols=61  Identities=18%  Similarity=0.266  Sum_probs=42.2

Q ss_pred             EEEEEEEeeccccccccCCCcccEEEEEE--E---------eCCCCeEEEEEechHHHHHHhhcccCcEEEEeee
Q 006973          188 TIKVRVTSKGNMRTYKNARGEGCVFNVEL--T---------DEDGTQIQATMFNEAARKFYDRFQLGKVYYISRG  251 (623)
Q Consensus       188 ~I~~RV~~K~~~r~~~~~~g~g~~f~~~L--~---------D~~G~~I~at~~~~~~~kf~~~l~eG~vy~is~~  251 (623)
                      +|.|||...-.+|...+  | ..+.+|.|  -         +..-.-+++++|++.++.+...++.|+.+.+.+.
T Consensus         2 ~l~G~l~~~p~~~~~~~--g-~~~~~~~v~~~~~~~~~~~~~~~~~~~~v~~~g~~a~~~~~~~~kG~~V~v~G~   73 (100)
T cd04496           2 ILIGRLGKDPELRYTPS--G-TPVARFSLAVNRRRKDRDEEEEETDWIRVVAFGKLAENAAKYLKKGDLVYVEGR   73 (100)
T ss_pred             EEEEEecCCCEEEECCC--C-CEEEEEEEEEcCceecccccccccEEEEEEEEhHHHHHHHHHhCCCCEEEEEEE
Confidence            46677777666655443  1 13333332  1         2344579999999999999999999999999864

SSBs bind with high affinity to ssDNA. They bind to and protect ssDNA intermediates during DNA metabolic pathways. All bacterial and eukaryotic SSBs studied to date oligomerize to bring together four OB folds in their active state. The majority (e.g. Escherichia coli SSB) have a single OB fold per monomer, which oligomerize to form a homotetramer. However, Deinococcus and Thermus SSB proteins have two OB folds per monomer, which oligomerize to form a homodimer. Mycobacterium tuberculosis SSB varies in quaternary structure from E. coli SSB. It forms a dimer of dimers having a unique dimer interface, which lends the protein greater stability. Included in this group are OB folds similar to Escherichia coli PriB. E.coli PriB is homodimeric with each monomer having a single OB fold. It does not appear to form higher order oligomers. PriB is an essential protein for the replication restart

>cd04484 polC_OBF polC_OBF: A subfamily of OB folds corresponding to the N-terminal OB-fold nucleic acid binding domain of Bacillus subtilis type C replicative DNA polymerase III alpha subunit (polC)

Probab=84.33  E-value=5.6  Score=33.00  Aligned_cols=58  Identities=16%  Similarity=0.247  Sum_probs=42.9

Q ss_pred             eEEEEEEEeeccccccccCCCcccEEEEEEEeCCCCeEEEEEec-hHHHHHHhhcc-cCcEEEEee
Q 006973          187 WTIKVRVTSKGNMRTYKNARGEGCVFNVELTDEDGTQIQATMFN-EAARKFYDRFQ-LGKVYYISR  250 (623)
Q Consensus       187 w~I~~RV~~K~~~r~~~~~~g~g~~f~~~L~D~~G~~I~at~~~-~~~~kf~~~l~-eG~vy~is~  250 (623)
                      -.|+|.|... +.|+.++  | ..++++.|.|.++ .|.|..|. +..+.+ ..|+ +|+|+.+.+
T Consensus         2 v~i~G~Vf~~-e~re~k~--g-~~i~~~~itD~t~-Si~~K~F~~~~~~~~-~~ik~~G~~v~v~G   61 (82)
T cd04484           2 VVVEGEVFDL-EIRELKS--G-RKILTFKVTDYTS-SITVKKFLRKDEKDK-EELKSKGDWVRVRG   61 (82)
T ss_pred             EEEEEEEEEE-EEEEecC--C-CEEEEEEEEcCCC-CEEEEEeccCChhHH-hhcccCCCEEEEEE
Confidence            4688888765 4565553  2 3588999999998 89999998 344444 5589 999999874

Replication in B. subtilis and Staphylococcus aureus requires two different polymerases, polC and DnaE. The holoenzyme is thought to include the two different polymerases. At the B. subtilis replication fork, polC appears to be involved in leading strand synthesis and DnaE in lagging strand synthesis.

>PF10341 TPP1: Shelterin complex subunit, TPP1/ACD; InterPro: IPR019437 EST3 is a component of the telomerase holoenzyme, involved in telomere replication

Probab=83.79  E-value=1.6  Score=38.14  Aligned_cols=59  Identities=20%  Similarity=0.251  Sum_probs=30.5

Q ss_pred             CcceEEEeee-eec-CceEEEEEeCcccceeeccccccccccccCc------cceeeEEEEcceeee
Q 006973           26 PEIVVQVLDL-KLT-GNRYMFNASDGKKRLKAILPSNLSSEVISGN------IQNKGLIRLLDYALN   84 (623)
Q Consensus        26 ~~pvlQvl~~-k~~-~~ryr~~lSDG~~~~~~mlat~ln~~v~~~~------l~~~siirl~~y~~~   84 (623)
                      ...++||+.. +.. +....++||||+|++.|.|+.+.=...+...      =-+|++|.|++|.+.
T Consensus        25 ~~q~~ri~~~~~~~~~~~i~a~lsDs~~~I~a~ft~eai~~fe~~~~~~~t~~t~g~li~I~~~~l~   91 (106)
T PF10341_consen   25 PPQLLRILKFAKSTSDGAITALLSDSTHQILAIFTREAIENFEREEKKRITSSTKGCLILIKDFNLV   91 (106)
T ss_dssp             EEEEEEEEE-S---TTS-EEEEEE-SS-EEEEEE-HHHHHTS--TTS-SSSTT-TTEEEEEEEEEEE
T ss_pred             CCeEEEEEEEecCCCCCcEEEEEEcCCeEEEEEECHHHHHHHHHhccCcccccCCceEEEEEEEEEE
Confidence            3466777776 222 2788999999999999999633222211111      124666666666554

It has been demonstrated that Est3 dimerises and binds to DNA and RNA. Furthermore, Est3 stimulates the dissociation of RNA/DNA hetero-duplexes [, ]. ; GO: 0042162 telomeric DNA binding, 0007004 telomere maintenance via telomerase, 0032508 DNA duplex unwinding, 0000781 chromosome, telomeric region, 0005697 telomerase holoenzyme complex; PDB: 2I46_B.

>cd04492 YhaM_OBF_like YhaM_OBF_like: A subfamily of OB folds similar to that found in Bacillus subtilis YhaM and Staphylococcus aureus cmp-binding factor-1 (SaCBF1)

Probab=83.55  E-value=5.7  Score=32.21  Aligned_cols=62  Identities=19%  Similarity=0.379  Sum_probs=38.9

Q ss_pred             EEEEEEeCCceEEEEccCCceeeEEEEEEEeCCccEEEEEEechhhhhhhhHhhhcCCCCcEEEEEeEEeeeccc
Q 006973          313 IGVVQNVSPTMSIRRKSNNEMVPKRDITVADETKRTVTVSLWNELATNVGQELLDNADKSPIVAIKSLKVGDFQG  387 (623)
Q Consensus       313 IGvV~~v~~~~~i~~k~~g~~~~kr~i~l~D~sg~~I~vtLWg~~A~~~~~~~~~~~~~~~Vv~i~~~kV~~f~G  387 (623)
                      +.+|.++..   ..+|+ |+  ....++|.|.+| .+++++|++....     ......+.++.+. ++|..|+|
T Consensus         3 ~~~v~~~~~---~~tk~-g~--~~~~~~l~D~tg-~i~~~~f~~~~~~-----~~~l~~g~~v~v~-G~v~~~~~   64 (83)
T cd04492           3 FFLIKSKEL---RTAKN-GK--PYLALTLQDKTG-EIEAKLWDASEED-----EEKFKPGDIVHVK-GRVEEYRG   64 (83)
T ss_pred             EEEEEEeee---ecccC-CC--cEEEEEEEcCCC-eEEEEEcCCChhh-----HhhCCCCCEEEEE-EEEEEeCC
Confidence            445555532   22332 43  367899999999 7999999865422     1224556666666 66776765

Both these proteins are 3'-to-5'exoribonucleases. YhaM requires Mn2+ or Co2+ for activity and is inactive in the presence of Mg2+. YhaM also has a Mn2+ dependent 3'-to-5'single-stranded DNA exonuclease activity. SaCBF is also a double-stranded DNA binding protein, binding specifically to cmp, the replication enhancer found in S. aureus plasmid pT181. Proteins in this group combine an N-terminal OB fold with a C-terminal HD domain. The HD domain is found in metal-dependent phosphohydrolases.

>PRK07772 single-stranded DNA-binding protein; Provisional

Probab=83.51  E-value=6.6  Score=37.99  Aligned_cols=64  Identities=14%  Similarity=0.251  Sum_probs=47.1

Q ss_pred             CCCeEEEEEEEeeccccccccCCCcccEEEEEEEe--------------CCCCeEEEEEechHHHHHHhhcccCcEEEEe
Q 006973          184 QGNWTIKVRVTSKGNMRTYKNARGEGCVFNVELTD--------------EDGTQIQATMFNEAARKFYDRFQLGKVYYIS  249 (623)
Q Consensus       184 ~~~w~I~~RV~~K~~~r~~~~~~g~g~~f~~~L~D--------------~~G~~I~at~~~~~~~kf~~~l~eG~vy~is  249 (623)
                      .+..+|.+|+++--++|...+  | ..+.+|.|+-              .+-.-|.|++|+.+++.+...|+.|+-+.+.
T Consensus         4 ~~~VtLiGrL~~DPElR~t~s--G-~~va~FrVAv~~r~~~~~~g~~~d~~t~fi~V~~Wg~~Ae~va~~L~KGd~V~V~   80 (186)
T PRK07772          4 DTTITVVGNLTADPELRFTPS--G-AAVANFTVASTPRTFDRQTNEWKDGEALFLRCSIWRQAAENVAESLTKGMRVIVT   80 (186)
T ss_pred             cCEEEEEEEeCCCCeEEEcCC--C-CEEEEEEEEecCcceecCCCcEeccCceEEEEEEecHHHHHHHHhcCCCCEEEEE
Confidence            456788899988888876543  2 1355555541              1223679999999999999999999999987


Q ss_pred             e
Q 006973          250 R  250 (623)
Q Consensus       250 ~  250 (623)
                      .
T Consensus        81 G   81 (186)
T PRK07772         81 G   81 (186)
T ss_pred             E
Confidence            4

>PRK08182 single-stranded DNA-binding protein; Provisional

Probab=83.43  E-value=4.9  Score=37.45  Aligned_cols=65  Identities=14%  Similarity=0.264  Sum_probs=50.4

Q ss_pred             CCCeEEEEEEEeeccccccccCCCc---ccEEEEEEE------eCCC-------CeEEEEEechHHHHHHhhcccCcEEE
Q 006973          184 QGNWTIKVRVTSKGNMRTYKNARGE---GCVFNVELT------DEDG-------TQIQATMFNEAARKFYDRFQLGKVYY  247 (623)
Q Consensus       184 ~~~w~I~~RV~~K~~~r~~~~~~g~---g~~f~~~L~------D~~G-------~~I~at~~~~~~~kf~~~l~eG~vy~  247 (623)
                      ++.+.|.||+.+--++|.+.+  |.   -.+.+|.|+      +..|       +-+.+++|+..++.+...|+.|+-+.
T Consensus         2 ~N~V~LiGrLg~DPElr~t~~--G~~~~~~va~fslA~~r~~~~~~Ge~~~~~t~w~~V~~wg~~Ae~v~~~l~KG~~V~   79 (148)
T PRK08182          2 STHFVGEGNIGSAPEYREFPN--GNDEPRRLLRLNVYFDNPVPTKDGEYEDRGGFWAPVELWHRDAEHWARLYQKGMRVL   79 (148)
T ss_pred             ccEEEEEEECCCCCeEEECCC--CCeeeeeEEEEEEEecCceECCCCCEEecCcEEEEEEEEhHHHHHHHHhcCCCCEEE
Confidence            467889999999888887654  32   127788775      3334       24899999999999999999999999


Q ss_pred             Eee
Q 006973          248 ISR  250 (623)
Q Consensus       248 is~  250 (623)
                      +.+
T Consensus        80 V~G   82 (148)
T PRK08182         80 VEG   82 (148)
T ss_pred             EEE
Confidence            985

>cd04100 Asp_Lys_Asn_RS_N Asp_Lys_Asn_RS_N: N-terminal, anticodon recognition domain of class 2b aminoacyl-tRNA synthetases (aaRSs)

Probab=83.33  E-value=11  Score=31.08  Aligned_cols=74  Identities=16%  Similarity=0.226  Sum_probs=46.8

Q ss_pred             eEEEEEEEeeccccccccCCCcccEEEEEEEeCCCCeEEEEEechHHH---HHHhhcccCcEEEEeeeEEEecCCCcccc
Q 006973          187 WTIKVRVTSKGNMRTYKNARGEGCVFNVELTDEDGTQIQATMFNEAAR---KFYDRFQLGKVYYISRGTLRVANKQFKTV  263 (623)
Q Consensus       187 w~I~~RV~~K~~~r~~~~~~g~g~~f~~~L~D~~G~~I~at~~~~~~~---kf~~~l~eG~vy~is~~~V~~a~~~~~~~  263 (623)
                      -+|+|||.+   +|.      .|++.=++|.|.+| .+++.+-.+..+   ++...|..|+++.+.+.-.....+.  ..
T Consensus         2 V~i~Gwv~~---~R~------~g~~~Fi~Lrd~~~-~iQ~v~~~~~~~~~~~~~~~l~~~s~V~v~G~~~~~~~~~--~~   69 (85)
T cd04100           2 VTLAGWVHS---RRD------HGGLIFIDLRDGSG-IVQVVVNKEELGEFFEEAEKLRTESVVGVTGTVVKRPEGN--LA   69 (85)
T ss_pred             EEEEEEEeh---hcc------CCCEEEEEEEeCCe-eEEEEEECCcChHHHHHHhCCCCCCEEEEEeEEEECCCCC--CC
Confidence            367888865   332      34554467899988 899988754322   3445699999999987543322111  23


Q ss_pred             CCceEEEEc
Q 006973          264 QNDYEMNLN  272 (623)
Q Consensus       264 ~~~yei~f~  272 (623)
                      ..++||..+
T Consensus        70 ~~~~El~~~   78 (85)
T cd04100          70 TGEIELQAE   78 (85)
T ss_pred             CCCEEEEEe
Confidence            466888654

This domain is a beta-barrel domain (OB fold) involved in binding the tRNA anticodon stem-loop. Class 2b aaRSs include the homodimeric aspartyl-, asparaginyl-, and lysyl-tRNA synthetases (AspRS, AsnRS, and LysRS). aaRSs catalyze the specific attachment of amino acids (AAs) to their cognate tRNAs during protein biosynthesis. This 2-step reaction involves i) the activation of the AA by ATP in the presence of magnesium ions, followed by ii) the transfer of the activated AA to the terminal ribose of tRNA. In the case of the class2b aaRSs, the activated AA is attached to the 3'OH of the terminal ribose. Eukaryotes contain 2 sets of aaRSs, both of which are encoded by the nuclear genome. One set concerns with cytoplasmic protein synthesis, whereas the other exclusively with mitochondrial protein synthesis. Included in this group are archeal and archeal-like A

>cd04478 RPA2_DBD_D RPA2_DBD_D: A subfamily of OB folds corresponding to the OB fold of the central ssDNA-binding domain (DBD)-D of human RPA2 (also called RPA32)

Probab=83.22  E-value=8.2  Score=32.58  Aligned_cols=75  Identities=11%  Similarity=0.073  Sum_probs=53.2

Q ss_pred             EEEeeeeecCceEEEEEeCcccceeeccccccccc--cccCccceeeEEEEcceeeeccCCCceEEEEEEeeeeeccccc
Q 006973           30 VQVLDLKLTGNRYMFNASDGKKRLKAILPSNLSSE--VISGNIQNKGLIRLLDYALNEIPTKSEKYLIVTKCEVVSPALE  107 (623)
Q Consensus        30 lQvl~~k~~~~ryr~~lSDG~~~~~~mlat~ln~~--v~~~~l~~~siirl~~y~~~~~~~~~~~vlii~~lev~~~~~~  107 (623)
                      =.|.+++..+.+++++|.||+..+.+.+|..-+..  -....++.|++|++..-.-.. ++  ++-|.+..+..+....+
T Consensus         6 G~V~~~~~~~~~~~~tL~D~TG~I~~~~W~~~~~~~~~~~~~~~~g~~v~v~G~v~~~-~g--~~ql~i~~i~~v~d~ne   82 (95)
T cd04478           6 GVVRNVEEQSTNITYTIDDGTGTIEVRQWLDDDNDDSSEVEPIEEGTYVRVFGNLKSF-QG--KKSIMAFSIRPVTDFNE   82 (95)
T ss_pred             EEEEeeeEcccEEEEEEECCCCcEEEEEeCCCCCcccccccccccCCEEEEEEEEccc-CC--eeEEEEEEEEEeCCccH
Confidence            34556665567889999999999999998655431  124468999999998776543 33  57777777877765543

RPA2 is a subunit of Replication protein A (RPA). RPA is a nuclear ssDNA-binding protein (SSB) which appears to be involved in all aspects of DNA metabolism including replication, recombination, and repair. RPA also mediates specific interactions of various nuclear proteins. In animals, plants, and fungi, RPA is a heterotrimer with subunits of 70KDa (RPA1), 32kDa (RPA2), and 14 KDa (RPA3). The major DNA binding activity of RPA is associated with RPA1 DBD-A and DBD-B; RPA2 DBD-D is a weak ssDNA-binding domain. RPA2 DBD-D is also involved in trimerization. The ssDNA binding mechanism is believed to be multistep and to involve conformational change. N-terminal to human RPA2 DBD-D is a domain containing all the known phosphorylation sites of RPA. Human RPA2 is phosphorylated in a cell cycle dependent manner in response to DNA dam

>PRK06752 single-stranded DNA-binding protein; Validated

Probab=83.20  E-value=5.1  Score=35.31  Aligned_cols=64  Identities=16%  Similarity=0.145  Sum_probs=48.2

Q ss_pred             CCCeEEEEEEEeeccccccccCCCcccEEEEEEEeC------CC----CeEEEEEechHHHHHHhhcccCcEEEEee
Q 006973          184 QGNWTIKVRVTSKGNMRTYKNARGEGCVFNVELTDE------DG----TQIQATMFNEAARKFYDRFQLGKVYYISR  250 (623)
Q Consensus       184 ~~~w~I~~RV~~K~~~r~~~~~~g~g~~f~~~L~D~------~G----~~I~at~~~~~~~kf~~~l~eG~vy~is~  250 (623)
                      ++...|.||+.+--++|...+  | ..+.+|.|+-.      .|    +-+.+++|+..|+.+...++.|+-+.+.+
T Consensus         2 mN~v~liGrl~~dPelr~t~~--G-~~~~~f~lAv~~~~~~~~g~~~t~~~~v~~wg~~Ae~~~~~l~KG~~V~V~G   75 (112)
T PRK06752          2 MNRVVLIGRLTKEPELYYTKQ--G-VAYARVCVAVNRGFRNSLGEQQVDFINCVVWRKSAENVTEYCTKGSLVGITG   75 (112)
T ss_pred             ceEEEEEEECcCCCEEEECCC--C-CEEEEEEEEECCCeEcCCCCEEEEEEEEEEehHHHHHHHHhcCCCCEEEEEE
Confidence            356788999998877776543  2 24666666532      23    45889999999999999999999999874

>COG5235 RFA2 Single-stranded DNA-binding replication protein A (RPA), medium (30 kD) subunit [DNA replication, recombination, and repair]

Probab=82.92  E-value=5.4  Score=38.69  Aligned_cols=71  Identities=23%  Similarity=0.360  Sum_probs=42.9

Q ss_pred             eeEEEEEEEEeCCceEEEEccCCceeeEEEEEEEeCCccEEEEEEechhhhhhhhHhhhcCCCCcEEEEEeEEeeeccce
Q 006973          309 LVDIIGVVQNVSPTMSIRRKSNNEMVPKRDITVADETKRTVTVSLWNELATNVGQELLDNADKSPIVAIKSLKVGDFQGI  388 (623)
Q Consensus       309 ~vDVIGvV~~v~~~~~i~~k~~g~~~~kr~i~l~D~sg~~I~vtLWg~~A~~~~~~~~~~~~~~~Vv~i~~~kV~~f~G~  388 (623)
                      .|-++|+|.++.      ...+     -.-+.|.|.+| +|+|+.|-..+.+..+. .+ ..++..|-+ +.-++.|+|+
T Consensus        68 ~V~fVGvvrni~------~~tt-----n~~~~iEDGTG-~Ievr~W~~~~~~~e~~-~d-~~~~~yvkV-~G~lk~F~GK  132 (258)
T COG5235          68 NVQFVGVVRNIK------TSTT-----NSMFVIEDGTG-SIEVRFWPGNSYEEEQC-KD-LEEQNYVKV-NGSLKTFNGK  132 (258)
T ss_pred             eEEEEEEEEeee------eccc-----ceEEEEecCCc-eEEEEecCCCchHHHhc-cc-cccccEEEE-ecceeeeCCe
Confidence            355666666553      2222     34578999999 99999998876654321 11 123444443 3456789995


Q ss_pred             -eeeccc
Q 006973          389 -SLSTLG  394 (623)
Q Consensus       389 -~Ls~~~  394 (623)
                       +++...
T Consensus       133 ~~I~~~~  139 (258)
T COG5235         133 RSISASH  139 (258)
T ss_pred             eEEehhh
Confidence             665433

>KOG3056 consensus Protein required for S-phase initiation or completion [Cell cycle control, cell division, chromosome partitioning]

Probab=82.92  E-value=7.2  Score=43.39  Aligned_cols=102  Identities=12%  Similarity=0.279  Sum_probs=69.8

Q ss_pred             Ceeecc----ccCCC---CCCeEEEEEEEeeccccccccCCCcccEEEEEEEeCCCCeEEEEEechHHHHHHhhcccCcE
Q 006973          173 RVHPLV----SLNPY---QGNWTIKVRVTSKGNMRTYKNARGEGCVFNVELTDEDGTQIQATMFNEAARKFYDRFQLGKV  245 (623)
Q Consensus       173 ~~~~I~----~L~p~---~~~w~I~~RV~~K~~~r~~~~~~g~g~~f~~~L~D~~G~~I~at~~~~~~~kf~~~l~eG~v  245 (623)
                      ..++|+    .|-+.   ..+|.+.|-|+.|+.++.-.+.+ .-.++.+.-+++. ..|.+-+|+++..+++. ++.|.|
T Consensus       167 k~i~ls~~~~~l~r~~kf~~~Wvt~GvI~~K~~~K~t~~G~-~y~iwkL~dLk~~-q~vslfLFG~a~k~~wk-~k~GtV  243 (578)
T KOG3056|consen  167 KLIRLSGKLFNLIRGPKFEENWVTMGVIVEKSDPKFTSNGN-PYSIWKLTDLKDH-QTVSLFLFGKAHKRYWK-IKLGTV  243 (578)
T ss_pred             cceeehhhhhhcccCcccccCeEEEEEEeecCCcccccCCC-ceEEEEeeecCcc-ceeEEEEecHHHHHHhh-hccCcE
Confidence            446666    44433   34999999999999998765422 2234455433434 58999999998888776 899999


Q ss_pred             EEEeeeEEEecCCCccccCCceEEEEccCcEEEEc
Q 006973          246 YYISRGTLRVANKQFKTVQNDYEMNLNENSEVEEA  280 (623)
Q Consensus       246 y~is~~~V~~a~~~~~~~~~~yei~f~~~T~I~~~  280 (623)
                      +-|-|+.|.+-+..   ..-.|.|.++..-.|.++
T Consensus       244 ialLNp~v~k~~~g---s~~~f~LsIds~~~ilei  275 (578)
T KOG3056|consen  244 IALLNPEVLKDRPG---SRKSFSLSIDSSKKILEI  275 (578)
T ss_pred             EEEeCccccCCCCC---CcceEEEEecCccceEEe
Confidence            99999988665431   114577777766445444

>cd04480 RPA1_DBD_A_like RPA1_DBD_A_like: A subgroup of uncharacterized plant OB folds with similarity to the second OB fold, the ssDNA-binding domain (DBD)-A, of human RPA1 (also called RPA70)

Probab=82.60  E-value=6.8  Score=32.59  Aligned_cols=51  Identities=14%  Similarity=0.181  Sum_probs=42.3

Q ss_pred             eeeEEEEEEEeCCccEEEEEEechhhhhhhhHhhhcCCCCcEEEEEeEEeeeccc
Q 006973          333 MVPKRDITVADETKRTVTVSLWNELATNVGQELLDNADKSPIVAIKSLKVGDFQG  387 (623)
Q Consensus       333 ~~~kr~i~l~D~sg~~I~vtLWg~~A~~~~~~~~~~~~~~~Vv~i~~~kV~~f~G  387 (623)
                      .....++.|.|+.|..|.++.+.+.+..|...    ..+|.+..+.+.+|..-.+
T Consensus        17 ~~~~~~miL~De~G~~I~a~i~~~~~~~f~~~----L~eg~vy~is~f~v~~~~~   67 (86)
T cd04480          17 SGESLEMVLVDEKGNRIHATIPKRLAAKFRPL----LKEGKWYTISNFEVAPNTG   67 (86)
T ss_pred             CCcEEEEEEEcCCCCEEEEEECHHHHHhhhhh----ceeCCEEEEeeEEEEcCCC
Confidence            45667999999999999999999999988654    4568899898888876554

RPA1 is the large subunit of Replication protein A (RPA). RPA is a nuclear ssDNA-binding protein (SSB) which appears to be involved in all aspects of DNA metabolism including replication, recombination, and repair. RPA also mediates specific interactions of various nuclear proteins. In animals, plants, and fungi, RPA is a heterotrimer with subunits of 70KDa (RPA1), 32kDa (RPA2), and 14 KDa (RPA3). In addition to DBD-A, RPA1 contains three other OB folds: DBD-B, DBD-C, and RPA1N. The major DNA binding activity of RPA is associated with DBD-A and DBD-B of RPA1. RPA1 DBD-C is involved in trimerization. The ssDNA-binding mechanism is believed to be multistep and to involve conformational change.

>PRK05733 single-stranded DNA-binding protein; Provisional

Probab=82.54  E-value=5.9  Score=37.86  Aligned_cols=65  Identities=18%  Similarity=0.227  Sum_probs=48.8

Q ss_pred             CCCCeEEEEEEEeeccccccccCCCcccEEEEEEE------eC-CC------CeEEEEEechHHHHHHhhcccCcEEEEe
Q 006973          183 YQGNWTIKVRVTSKGNMRTYKNARGEGCVFNVELT------DE-DG------TQIQATMFNEAARKFYDRFQLGKVYYIS  249 (623)
Q Consensus       183 ~~~~w~I~~RV~~K~~~r~~~~~~g~g~~f~~~L~------D~-~G------~~I~at~~~~~~~kf~~~l~eG~vy~is  249 (623)
                      .++..+|.|||.+--++|.+.+..   .+.+|.|+      |. .|      +-+.+++|+..++.+.+.|+.|+.++|.
T Consensus         4 ~mNkV~LiGrlg~DPElr~t~nG~---~va~fsVAv~~~~k~~~~Ge~~e~T~w~~Vv~fgk~Ae~v~~~l~KGs~V~Ve   80 (172)
T PRK05733          4 GVNKVILVGTCGQDPEVRYLPNGN---AVTNLSLATSEQWTDKQSGQKVERTEWHRVSLFGKVAEIAGEYLRKGSQVYIE   80 (172)
T ss_pred             cceEEEEEEEecCCCEEEECCCCC---EEEEEEEEEcCccccCCCCcccccceEEEEEEehHHHHHHHHHhCCCCEEEEE
Confidence            367788999999977788765422   45555543      22 23      2399999999999999999999999997


Q ss_pred             e
Q 006973          250 R  250 (623)
Q Consensus       250 ~  250 (623)
                      +
T Consensus        81 G   81 (172)
T PRK05733         81 G   81 (172)
T ss_pred             E
Confidence            4

>PRK13732 single-stranded DNA-binding protein; Provisional

Probab=82.34  E-value=5.9  Score=37.96  Aligned_cols=65  Identities=20%  Similarity=0.268  Sum_probs=50.4

Q ss_pred             CCCCeEEEEEEEeeccccccccCCCcccEEEEEEEeC-------CC------CeEEEEEechHHHHHHhhcccCcEEEEe
Q 006973          183 YQGNWTIKVRVTSKGNMRTYKNARGEGCVFNVELTDE-------DG------TQIQATMFNEAARKFYDRFQLGKVYYIS  249 (623)
Q Consensus       183 ~~~~w~I~~RV~~K~~~r~~~~~~g~g~~f~~~L~D~-------~G------~~I~at~~~~~~~kf~~~l~eG~vy~is  249 (623)
                      ..+..+|.||+.+--++|...+  | ..+.+|.|+-.       .|      +-+++++|+..++.+...|+.|+.+++.
T Consensus         5 ~mN~V~LiGrLg~DPElR~t~n--G-~~va~fslAvn~~~kd~~~Ge~~e~t~w~~Vv~wgk~Ae~v~~~L~KG~~V~Ve   81 (175)
T PRK13732          5 GINKVILVGRLGKDPEVRYIPN--G-GAVANLQVATSESWRDKQTGEMREQTEWHRVVLFGKLAEVAGEYLRKGAQVYIE   81 (175)
T ss_pred             CceEEEEEEEecCCCEEEEcCC--C-CEEEEEEEEEcCccccCCCCceecceeEEEEEEecHHHHHHHHhcCCCCEEEEE
Confidence            3578999999999888887654  2 25666666422       23      2478999999999999999999999997


Q ss_pred             e
Q 006973          250 R  250 (623)
Q Consensus       250 ~  250 (623)
                      +
T Consensus        82 G   82 (175)
T PRK13732         82 G   82 (175)
T ss_pred             E
Confidence            5

>PRK06293 single-stranded DNA-binding protein; Provisional

Probab=81.90  E-value=5.4  Score=37.67  Aligned_cols=64  Identities=13%  Similarity=0.075  Sum_probs=48.9

Q ss_pred             CCCeEEEEEEEeeccccccccCCCcccEEEEEEEeC-------CCCeEEEEEechHHHHHHhhcccCcEEEEee
Q 006973          184 QGNWTIKVRVTSKGNMRTYKNARGEGCVFNVELTDE-------DGTQIQATMFNEAARKFYDRFQLGKVYYISR  250 (623)
Q Consensus       184 ~~~w~I~~RV~~K~~~r~~~~~~g~g~~f~~~L~D~-------~G~~I~at~~~~~~~kf~~~l~eG~vy~is~  250 (623)
                      ++..+|.||+.+--++|...+  | ..+.+|.|+=.       +-+-|+|++|+..++.....|+.|+-+.+.+
T Consensus         1 MN~V~LiGrLg~DPElR~t~s--G-~~v~~FsLAvn~~~~~~~~T~wi~v~awg~~Ae~v~~yL~KG~~V~VeG   71 (161)
T PRK06293          1 MMFGYIVGRLGADPEERMTSK--G-KRVVVLRLGVKSRVGSKDETVWCRCNIWGNRYDKMLPYLKKGSGVIVAG   71 (161)
T ss_pred             CeEEEEEEEecCCCeEEEcCC--C-CEEEEEEEEEeCCCCCccceEEEEEEEEhHHHHHHHHhCCCCCEEEEEE
Confidence            356789999999877876543  2 24667766522       2236999999999999999999999999975

>cd04483 hOBFC1_like hOBFC1_like: A subfamily of OB folds similar to that found in human OB fold containing protein 1 (hOBFC1)

Probab=81.78  E-value=3.5  Score=35.11  Aligned_cols=44  Identities=14%  Similarity=0.408  Sum_probs=33.8

Q ss_pred             cEEEEEEEeCCCCeEEEEEechHH--H------------------HHHhhcccCcEEEEeeeEEEe
Q 006973          210 CVFNVELTDEDGTQIQATMFNEAA--R------------------KFYDRFQLGKVYYISRGTLRV  255 (623)
Q Consensus       210 ~~f~~~L~D~~G~~I~at~~~~~~--~------------------kf~~~l~eG~vy~is~~~V~~  255 (623)
                      ..+.+.|-|.+| .|.|.+|....  +                  +..+.|++|+++.+. +.++.
T Consensus        14 ~~~~~tLdDgTG-~Ie~~~W~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~i~~G~vvrV~-G~i~~   77 (92)
T cd04483          14 TFYSFGVDDGTG-VVNCVCWKNLSYAEVSSRSDAARILKSALMALKQAKVLEIGDLLRVR-GSIRT   77 (92)
T ss_pred             CeEEEEEecCCc-eEEEEEEcCcCcccccccccccccccccccccccccccCCCCEEEEE-EEEec
Confidence            468899999999 89999998542  1                  466679999998887 44443

Members of this group belong to the Replication protein A subunit 2 (RPA2) family of OB folds. RPA is a nuclear ssDNA binding protein (SSB) which appears to be involved in all aspects of DNA metabolism including replication, recombination, and repair. RPA also mediates specific interactions of various nuclear proteins. In animals, plants, and fungi, RPA is a heterotrimer with subunits of 70KDa (RPA1), 32kDa (RPA2), and 14 KDa (RPA3). The OB fold domain of RPA2 has dual roles in ssDNA binding and trimerization.

>cd04323 AsnRS_cyto_like_N AsnRS_cyto_like_N: N-terminal, anticodon recognition domain of the type found in human and Saccharomyces cerevisiae cytoplasmic asparaginyl-tRNA synthetase (AsnRS), in Brugia malayai AsnRs and, in various putative bacterial AsnRSs

Probab=81.78  E-value=11  Score=31.17  Aligned_cols=74  Identities=11%  Similarity=0.118  Sum_probs=47.0

Q ss_pred             eEEEEEEEeeccccccccCCCcccEEEEEEEeCCCCeEEEEEechHHH--HHHhhcccCcEEEEeeeEEEecCCCccccC
Q 006973          187 WTIKVRVTSKGNMRTYKNARGEGCVFNVELTDEDGTQIQATMFNEAAR--KFYDRFQLGKVYYISRGTLRVANKQFKTVQ  264 (623)
Q Consensus       187 w~I~~RV~~K~~~r~~~~~~g~g~~f~~~L~D~~G~~I~at~~~~~~~--kf~~~l~eG~vy~is~~~V~~a~~~~~~~~  264 (623)
                      -+|+|||.++   |.      .|++.=++|.|.+| .+++.+-.+...  ++...|..|+++.+.+ .+....... ...
T Consensus         2 V~v~Gwv~~~---R~------~g~~~Fi~LrD~~~-~iQ~v~~~~~~~~~~~~~~l~~es~V~V~G-~v~~~~~~~-~~~   69 (84)
T cd04323           2 VKVFGWVHRL---RS------QKKLMFLVLRDGTG-FLQCVLSKKLVTEFYDAKSLTQESSVEVTG-EVKEDPRAK-QAP   69 (84)
T ss_pred             EEEEEEEEEE---ec------CCCcEEEEEEcCCe-EEEEEEcCCcchhHHHHhcCCCcCEEEEEE-EEEECCccc-CCC
Confidence            3678888653   32      23454467899988 799988654322  2334588999999976 454443222 335


Q ss_pred             CceEEEEc
Q 006973          265 NDYEMNLN  272 (623)
Q Consensus       265 ~~yei~f~  272 (623)
                      .++||...
T Consensus        70 ~~~Ei~~~   77 (84)
T cd04323          70 GGYELQVD   77 (84)
T ss_pred             CCEEEEEE
Confidence            67888764

This domain is a beta-barrel domain (OB fold) involved in binding the tRNA anticodon stem-loop. The enzymes in this group are homodimeric class2b aminoacyl-tRNA synthetases (aaRSs). aaRSs catalyze the specific attachment of amino acids (AAs) to their cognate tRNAs during protein biosynthesis. This 2-step reaction involves i) the activation of the AA by ATP in the presence of magnesium ions, followed by ii) the transfer of the activated AA to the terminal ribose of tRNA. In the case of the class2b aaRSs, the activated AA is attached to the 3'OH of the terminal ribose. Eukaryotes contain 2 sets of aaRSs, both of which are encoded by the nuclear genome. One set concerns with cytoplasmic synthesis, whereas the other exclusively with

>PRK09010 single-stranded DNA-binding protein; Provisional

Probab=81.14  E-value=5.9  Score=38.04  Aligned_cols=64  Identities=22%  Similarity=0.316  Sum_probs=49.5

Q ss_pred             CCCeEEEEEEEeeccccccccCCCcccEEEEEEE------eC-CC------CeEEEEEechHHHHHHhhcccCcEEEEee
Q 006973          184 QGNWTIKVRVTSKGNMRTYKNARGEGCVFNVELT------DE-DG------TQIQATMFNEAARKFYDRFQLGKVYYISR  250 (623)
Q Consensus       184 ~~~w~I~~RV~~K~~~r~~~~~~g~g~~f~~~L~------D~-~G------~~I~at~~~~~~~kf~~~l~eG~vy~is~  250 (623)
                      .+..+|.+|+.+--++|.+.+  | ..+.+|.|+      |. .|      +-+++++|+..++.+...|+.|+-+++..
T Consensus         6 ~N~V~LiGrLg~DPelR~t~n--G-~~v~~fsVAvn~~~kd~~~Ge~~e~t~w~~V~~fgk~Ae~~~~~L~KGs~V~VeG   82 (177)
T PRK09010          6 VNKVILVGNLGQDPEVRYMPN--G-GAVANITLATSESWRDKQTGEMKEQTEWHRVVLFGKLAEVAGEYLRKGSQVYIEG   82 (177)
T ss_pred             ceEEEEEEEeCCCceEEEcCC--C-CEEEEEEEEEcCccccCcccccccceEEEEEEEehhHHHHHHHhcCCCCEEEEEE
Confidence            568899999999888888764  2 256666554      22 23      24799999999999999999999999975

>PRK06863 single-stranded DNA-binding protein; Provisional

Probab=80.91  E-value=6.5  Score=37.41  Aligned_cols=64  Identities=17%  Similarity=0.254  Sum_probs=49.2

Q ss_pred             CCCeEEEEEEEeeccccccccCCCcccEEEEEEE------eC-CC------CeEEEEEechHHHHHHhhcccCcEEEEee
Q 006973          184 QGNWTIKVRVTSKGNMRTYKNARGEGCVFNVELT------DE-DG------TQIQATMFNEAARKFYDRFQLGKVYYISR  250 (623)
Q Consensus       184 ~~~w~I~~RV~~K~~~r~~~~~~g~g~~f~~~L~------D~-~G------~~I~at~~~~~~~kf~~~l~eG~vy~is~  250 (623)
                      .+...|.||+.+.-++|.+.+..   .+.+|.|+      |. .|      +-+++++|+..++.+...|+.|+-+.+.+
T Consensus         4 ~N~V~LiGrLg~DPElR~t~nG~---~va~fsVAvn~~~~d~~~Ge~~e~t~w~~Vv~fgk~AE~v~~~LkKGs~V~VeG   80 (168)
T PRK06863          4 INKVIIVGHLGNDPEIRTMPNGE---AVANISVATSESWTDKNTGERREVTEWHRIVFYRRQAEVAGEYLRKGSQVYVEG   80 (168)
T ss_pred             ccEEEEEEEcCCCCEEEEcCCCC---EEEEEEEEecCcccccCCCcccccceEEEEEEEhHHHHHHHHHCCCCCEEEEEE
Confidence            56788999999988888875422   46666554      21 12      35899999999999999999999999975

>PF13742 tRNA_anti_2: OB-fold nucleic acid binding domain

Probab=80.86  E-value=12  Score=32.26  Aligned_cols=57  Identities=16%  Similarity=0.243  Sum_probs=43.3

Q ss_pred             CCeEEEEEEEeeccccccccCCCcccEEEEEEEeCCCCeEEEEEechHHHHHH-hhcccCcEEEEee
Q 006973          185 GNWTIKVRVTSKGNMRTYKNARGEGCVFNVELTDEDGTQIQATMFNEAARKFY-DRFQLGKVYYISR  250 (623)
Q Consensus       185 ~~w~I~~RV~~K~~~r~~~~~~g~g~~f~~~L~D~~G~~I~at~~~~~~~kf~-~~l~eG~vy~is~  250 (623)
                      .+..|+|=|+.   ++..     .+....|+|.|++. .|+|++|.....+.. ..+++|+-+.+..
T Consensus        22 ~~vwV~GEIs~---~~~~-----~~gh~YftLkD~~a-~i~~~~~~~~~~~i~~~~l~~G~~V~v~g   79 (99)
T PF13742_consen   22 PNVWVEGEISN---LKRH-----SSGHVYFTLKDEEA-SISCVIFRSRARRIRGFDLKDGDKVLVRG   79 (99)
T ss_pred             CCEEEEEEEee---cEEC-----CCceEEEEEEcCCc-EEEEEEEHHHHhhCCCCCCCCCCEEEEEE
Confidence            45557787765   3221     12478899999885 999999999888888 7899999887763

---

Homologous Structure Templates

Structure Templates Detected by BLAST

Original result of BLAST against Protein Data Bank

ID	Length	Definition	E-value
Query	623
4gop_C	444	Structure And Conformational Change Of A Replicatio		2e-67
1jmc_A	246	Single Stranded Dna-Binding Domain Of Human Replica		1e-52
1fgu_A	252	Ssdna-Binding Domain Of The Large Subunit Of Replic		2e-52
1ynx_A	114	Solution Structure Of Dna Binding Domain A (Dbd-A)		7e-19
1l1o_C	181	Structure Of The Human Replication Protein A (Rpa)		1e-15

>pdb|4GOP|C Chain C, Structure And Conformational Change Of A Replication Protein A Heterotrimer Bound To Ssdna Length = 444

Iteration: 1
 Score =  253 bits (647), Expect = 2e-67,   Method: Compositional matrix adjust.
 Identities = 154/451 (34%), Positives = 251/451 (55%), Gaps = 23/451 (5%)
Query: 174 VHPLVSLNPYQGNWTIKVRVTSKGNMRTYKNARGEGCVFNVELTDEDGTQIQATMFNEAA 233
           ++P+  L+PYQ  WTIK RVTSK ++R + N RGEG +F+V L D+ G +I+AT FN+A 
Sbjct: 3   IYPIEGLSPYQNRWTIKARVTSKSDIRHWSNQRGEGKLFSVNLLDDSG-EIKATGFNDAV 61
Query: 234 RKFYDRFQLGKVYYISRGTLRVANKQFKTVQNDYEMXXXXXXXXXXXXXXTAFIPQTKFN 293
            +FY   Q   VY IS+  + +A KQF  +QN+YE+              T  +P+ K+ 
Sbjct: 62  DRFYPLLQENHVYLISKARVNIAKKQFSNLQNEYEITFENSTEIEECTDATD-VPEVKYE 120
Query: 294 FVPIDELGRYVNGTELVDIIGVVQNVSPTMSIRRKSNNEMVPKRDITVADETKRTVTVSL 353
           FV I+EL   V   +  D+IG++ +      I  K++   V KR++T+ D+  R+V ++L
Sbjct: 121 FVRINEL-ESVEANQQCDVIGILDSYGELSEIVSKASQRPVQKRELTLVDQGNRSVKLTL 179
Query: 354 WNELA----TNVGQELLDNADKSPIVAIKSLKVGDFQGISLSTLGRSTVLVSPDLPEAKK 409
           W + A    TN G       D+ P++A K +KVGDF G SLS    ST+L++PD+ E+  
Sbjct: 180 WGKTAETFPTNAG------VDEKPVLAFKGVKVGDFGGRSLSMFSSSTMLINPDITESHV 233
Query: 410 LKSWYESEGKGTSM---ASIGSGLGSLAKNGARSMYSDRVSLTHITSNPSLG-DEKPVFF 465
           L+ WY+++G         + G G G++   GA +  ++R ++  +  + +LG  EKP +F
Sbjct: 234 LRGWYDNDGAHAQFQPYTNGGVGGGAMGGGGAGANMAERRTIVQV-KDENLGMSEKPDYF 292
Query: 466 SIKAYISLIKPDQAMWYRACKT--CNKKVTDALGSGYWCEGCQKNDEECSLRYIMVARVC 523
           +++A +  IK +  ++Y AC +  CNKKV     + + CE C ++      RYI+   V 
Sbjct: 293 NVRATVVYIKQEN-LYYTACASEGCNKKVNLDHENNWRCEKCDRSYATPEYRYILSTNVA 351
Query: 524 DGSGEAWISIFNEEAERIIGCSADELNELKSQLGDDNSYQMKLKEVTWVPHLLRVSVAQQ 583
           D +G+ W+S FNE+A ++IG SA EL++L+ +   ++ +   L       ++        
Sbjct: 352 DATGQMWLSGFNEDATQLIGMSAGELHKLREE--SESEFSAALHRAANRMYMFNCRAKMD 409
Query: 584 EYNNEKRQRVTVRAVAPVDFAAESKFLLEEI 614
            +N+  R R T+   APVDFA     L++ I
Sbjct: 410 TFNDTARVRYTISRAAPVDFAKAGMELVDAI 440

>pdb|1JMC|A Chain A, Single Stranded Dna-Binding Domain Of Human Replication Protein A Bound To Single Stranded Dna, Rpa70 Subunit, Residues 183-420 Length = 246

Iteration: 1
 Score =  204 bits (518), Expect = 1e-52,   Method: Compositional matrix adjust.
 Identities = 106/251 (42%), Positives = 152/251 (60%), Gaps = 9/251 (3%)
Query: 170 MTRRVHPLVSLNPYQGNWTIKVRVTSKGNMRTYKNARGEGCVFNVELTDEDGTQIQATMF 229
           M  +V P+ SL PYQ  WTI  RVT+K  +RT+ N+RGEG +F++EL DE G +I+AT F
Sbjct: 4   MQSKVVPIASLTPYQSKWTICARVTNKSQIRTWSNSRGEGKLFSLELVDESG-EIRATAF 62
Query: 230 NEAARKFYDRFQLGKVYYISRGTLRVANKQFKTVQNDYEMXXXXXXXXXXXXXXTAFIPQ 289
           NE   KF+   ++ KVYY S+GTL++ANKQF  V+NDYEM                 +P 
Sbjct: 63  NEQVDKFFPLIEVNKVYYFSKGTLKIANKQFTAVKNDYEMTFNNETSVMPCEDD-HHLPT 121
Query: 290 TKFNFVPIDELGRYVNGTELVDIIGVVQNVSPTMSIRRKSNNEMVPKRDITVADETKRTV 349
            +F+F  ID+L      + LVDIIG+ ++      I  +SNN  V KR+I + D + + V
Sbjct: 122 VQFDFTGIDDLENKSKDS-LVDIIGICKSYEDATKITVRSNNREVAKRNIYLMDTSGKVV 180
Query: 350 TVSLWNELATNVGQELLDNADKSPIVAIKSLKVGDFQGISLSTLGRSTVLVSPDLPEAKK 409
           T +LW E A         +  + P++AIK  +V DF G SLS L  ST++ +PD+PEA K
Sbjct: 181 TATLWGEDADKF------DGSRQPVLAIKGARVSDFGGRSLSVLSSSTIIANPDIPEAYK 234
Query: 410 LKSWYESEGKG 420
           L+ W+++EG+ 
Sbjct: 235 LRGWFDAEGQA 245

>pdb|1FGU|A Chain A, Ssdna-Binding Domain Of The Large Subunit Of Replication Protein A Length = 252

Iteration: 1
 Score =  204 bits (518), Expect = 2e-52,   Method: Compositional matrix adjust.
 Identities = 107/254 (42%), Positives = 153/254 (60%), Gaps = 9/254 (3%)
Query: 173 RVHPLVSLNPYQGNWTIKVRVTSKGNMRTYKNARGEGCVFNVELTDEDGTQIQATMFNEA 232
           +V P+ SL PYQ  WTI  RVT+K  +RT+ N+RGEG +F++EL DE G +I+AT FNE 
Sbjct: 3   KVVPIASLTPYQSKWTICARVTNKSQIRTWSNSRGEGKLFSLELVDESG-EIRATAFNEQ 61
Query: 233 ARKFYDRFQLGKVYYISRGTLRVANKQFKTVQNDYEMXXXXXXXXXXXXXXTAFIPQTKF 292
             KF+   ++ KVYY S+GTL++ANKQF  V+NDYEM                 +P  +F
Sbjct: 62  VDKFFPLIEVNKVYYFSKGTLKIANKQFTAVKNDYEMTFNNETSVMPCEDD-HHLPTVQF 120
Query: 293 NFVPIDELGRYVNGTELVDIIGVVQNVSPTMSIRRKSNNEMVPKRDITVADETKRTVTVS 352
           +F  ID+L      + LVDIIG+ ++      I  +SNN  V KR+I + D + + VT +
Sbjct: 121 DFTGIDDLENKSKDS-LVDIIGICKSYEDATKITVRSNNREVAKRNIYLMDTSGKVVTAT 179
Query: 353 LWNELATNVGQELLDNADKSPIVAIKSLKVGDFQGISLSTLGRSTVLVSPDLPEAKKLKS 412
           LW E A         +  + P++AIK  +V DF G SLS L  ST++ +PD+PEA KL+ 
Sbjct: 180 LWGEDADKF------DGSRQPVLAIKGARVSDFGGRSLSVLSSSTIIANPDIPEAYKLRG 233
Query: 413 WYESEGKGTSMASI 426
           W+++EG+     SI
Sbjct: 234 WFDAEGQALDGVSI 247

>pdb|1YNX|A Chain A, Solution Structure Of Dna Binding Domain A (Dbd-A) Of S.Cerevisiae Replication Protein A (Rpa) Length = 114

Iteration: 1
 Score = 92.4 bits (228), Expect = 7e-19,   Method: Compositional matrix adjust.
 Identities = 45/99 (45%), Positives = 64/99 (64%), Gaps = 1/99 (1%)
Query: 171 TRRVHPLVSLNPYQGNWTIKVRVTSKGNMRTYKNARGEGCVFNVELTDEDGTQIQATMFN 230
           TR +  +  L+PYQ  WTIK RV+ KG ++T+ N RG+G +FNV   D  G +I+AT FN
Sbjct: 1   TRPIFAIEQLSPYQNVWTIKARVSYKGEIKTWHNQRGDGKLFNVNFLDTSG-EIRATAFN 59
Query: 231 EAARKFYDRFQLGKVYYISRGTLRVANKQFKTVQNDYEM 269
           + A KF +  Q GKVYY+S+  L+ A  QF  + + YE+
Sbjct: 60  DFATKFNEILQEGKVYYVSKAKLQPAKPQFTNLTHPYEL 98

>pdb|1L1O|C Chain C, Structure Of The Human Replication Protein A (Rpa) Trimerization Core Length = 181

Iteration: 1
 Score = 81.6 bits (200), Expect = 1e-15,   Method: Compositional matrix adjust.
 Identities = 53/167 (31%), Positives = 82/167 (49%), Gaps = 6/167 (3%)
Query: 452 TSNPSLGDEKPVFFSIKAYISLIKPDQAMWYRACKT--CNKKVTDALGSGYWCEGCQKND 509
           + N   GD KP +FS  A +  ++ +  M Y+AC T  CNKKV D     Y CE C    
Sbjct: 15  SENLGQGD-KPDYFSSVATVVYLRKENCM-YQACPTQDCNKKVIDQQNGLYRCEKCDTEF 72
Query: 510 EECSLRYIMVARVCDGSGEAWISIFNEEAERIIGCSADELNELKSQLGDDNSYQMKLKEV 569
                R I+   + D     W++ F E AE I+G +A  L ELK +  ++ +++   +  
Sbjct: 73  PNFKYRMILSVNIADFQENQWVTCFQESAEAILGQNAAYLGELKDK--NEQAFEEVFQNA 130
Query: 570 TWVPHLLRVSVAQQEYNNEKRQRVTVRAVAPVDFAAESKFLLEEISK 616
            +   + RV V  + YN+E R + TV  V PVD+    + L+  I +
Sbjct: 131 NFRSFIFRVRVKVETYNDESRIKATVMDVKPVDYREYGRRLVMSIRR 177

Structure Templates Detected by RPS-BLAST

Original result of RPS-BLAST against PDB70 database

ID	Length	Definition	E-value
Query	623
1jmc_A	246	Protein (replication protein A (RPA)); human ssDNA	6e-71
1l1o_C	181	Replication protein A 70 kDa DNA-binding subunit;	2e-50
3u50_C	172	Telomerase-associated protein 82; TEB1, processivi	4e-45
1ynx_A	114	Replication factor-A protein 1; canonical OB fold,	3e-41
1o7i_A	119	SSB, SSO2364, single stranded DNA binding protein;	2e-17
1o7i_A	119	SSB, SSO2364, single stranded DNA binding protein;	9e-06
2b29_A	123	Replication protein A 70 kDa DNA-binding subunit;	1e-16
1vt4_I	1221	APAF-1 related killer DARK; drosophila apoptosome,	9e-14
2k50_A	115	Replication factor A related protein; uncharacteri	6e-12
2k50_A	115	Replication factor A related protein; uncharacteri	3e-08
3dm3_A	105	Replication factor A; probably plays AN essential	2e-04

>1jmc_A Protein (replication protein A (RPA)); human ssDNA binding replication protein A(RPA), single stranded DNA-binding protein, protein-ssDNA complex; HET: DNA; 2.40A {Homo sapiens} SCOP: b.40.4.3 b.40.4.3 PDB: 1fgu_A Length = 246

 Score =  228 bits (582), Expect = 6e-71
 Identities = 108/250 (43%), Positives = 154/250 (61%), Gaps = 9/250 (3%)

Query: 170 MTRRVHPLVSLNPYQGNWTIKVRVTSKGNMRTYKNARGEGCVFNVELTDEDGTQIQATMF 229
           M  +V P+ SL PYQ  WTI  RVT+K  +RT+ N+RGEG +F++EL DE G  I+AT F
Sbjct: 4   MQSKVVPIASLTPYQSKWTICARVTNKSQIRTWSNSRGEGKLFSLELVDESGE-IRATAF 62

Query: 230 NEAARKFYDRFQLGKVYYISRGTLRVANKQFKTVQNDYEMNLNENSEVEEAVNETAFIPQ 289
           NE   KF+   ++ KVYY S+GTL++ANKQF  V+NDYEM  N  + V     +   +P 
Sbjct: 63  NEQVDKFFPLIEVNKVYYFSKGTLKIANKQFTAVKNDYEMTFNNETSVMP-CEDDHHLPT 121

Query: 290 TKFNFVPIDELGRYVNGTELVDIIGVVQNVSPTMSIRRKSNNEMVPKRDITVADETKRTV 349
            +F+F  ID+L      + LVDIIG+ ++      I  +SNN  V KR+I + D + + V
Sbjct: 122 VQFDFTGIDDLENKSKDS-LVDIIGICKSYEDATKITVRSNNREVAKRNIYLMDTSGKVV 180

Query: 350 TVSLWNELATNVGQELLDNADKSPIVAIKSLKVGDFQGISLSTLGRSTVLVSPDLPEAKK 409
           T +LW E A            + P++AIK  +V DF G SLS L  ST++ +PD+PEA K
Sbjct: 181 TATLWGEDADKFDGS------RQPVLAIKGARVSDFGGRSLSVLSSSTIIANPDIPEAYK 234

Query: 410 LKSWYESEGK 419
           L+ W+++EG+
Sbjct: 235 LRGWFDAEGQ 244

>1l1o_C Replication protein A 70 kDa DNA-binding subunit; eukaryotic SSB, ssDNA binding protein, OB-fold; 2.80A {Homo sapiens} SCOP: b.40.4.3 Length = 181

 Score =  172 bits (436), Expect = 2e-50
 Identities = 51/176 (28%), Positives = 84/176 (47%), Gaps = 5/176 (2%)

Query: 443 SDRVSLTHITSNPSLGDEKPVFFSIKAYISLIKPDQAMWYRACKT--CNKKVTDALGSGY 500
           ++  +L  + S      +KP +FS  A +  ++ +    Y+AC T  CNKKV D     Y
Sbjct: 5   TNWKTLYEVKSENLGQGDKPDYFSSVATVVYLRKEN-CMYQACPTQDCNKKVIDQQNGLY 63

Query: 501 WCEGCQKNDEECSLRYIMVARVCDGSGEAWISIFNEEAERIIGCSADELNELKSQLGDDN 560
            CE C         R I+   + D     W++ F E AE I+G +A  L ELK +  ++ 
Sbjct: 64  RCEKCDTEFPNFKYRMILSVNIADFQENQWVTCFQESAEAILGQNAAYLGELKDK--NEQ 121

Query: 561 SYQMKLKEVTWVPHLLRVSVAQQEYNNEKRQRVTVRAVAPVDFAAESKFLLEEISK 616
           +++   +   +   + RV V  + YN+E R + TV  V PVD+    + L+  I +
Sbjct: 122 AFEEVFQNANFRSFIFRVRVKVETYNDESRIKATVMDVKPVDYREYGRRLVMSIRR 177

>1ynx_A Replication factor-A protein 1; canonical OB fold, DNA binding protein; NMR {Saccharomyces cerevisiae} Length = 114

 Score =  144 bits (364), Expect = 3e-41
 Identities = 50/114 (43%), Positives = 75/114 (65%), Gaps = 1/114 (0%)

Query: 171 TRRVHPLVSLNPYQGNWTIKVRVTSKGNMRTYKNARGEGCVFNVELTDEDGTQIQATMFN 230
           TR +  +  L+PYQ  WTIK RV+ KG ++T+ N RG+G +FNV   D  G +I+AT FN
Sbjct: 1   TRPIFAIEQLSPYQNVWTIKARVSYKGEIKTWHNQRGDGKLFNVNFLDTSG-EIRATAFN 59

Query: 231 EAARKFYDRFQLGKVYYISRGTLRVANKQFKTVQNDYEMNLNENSEVEEAVNET 284
           + A KF +  Q GKVYY+S+  L+ A  QF  + + YE+NL+ ++ +EE  +E+
Sbjct: 60  DFATKFNEILQEGKVYYVSKAKLQPAKPQFTNLTHPYELNLDRDTVIEECFDES 113

>1o7i_A SSB, SSO2364, single stranded DNA binding protein; OB fold; 1.2A {Sulfolobus solfataricus} SCOP: b.40.4.3 Length = 119

 Score = 78.0 bits (192), Expect = 2e-17
 Identities = 19/113 (16%), Positives = 40/113 (35%), Gaps = 14/113 (12%)

Query: 179 SLNPYQGNWTIKVRVTSKGNMRTYKNARGEGCVFNVELTDEDGTQIQATMFNEAARKFYD 238
           +L P   +  + VRV      R  +   G   +    + DE G  ++ T++ + A     
Sbjct: 7   NLKPNMESVNVTVRVLEASEARQIQTKNGVRTISEAIVGDETGR-VKLTLWGKHA----G 61

Query: 239 RFQLGKVYYISRGTLRVANKQFKTVQNDYEMNLNENSEVEEAVNETAFIPQTK 291
             + G+V  I        N      +   ++N    +++ E        P++ 
Sbjct: 62  SIKEGQVVKIE-------NAWTTAFKGQVQLNAGSKTKIAE--ASEDGFPESS 105

>1o7i_A SSB, SSO2364, single stranded DNA binding protein; OB fold; 1.2A {Sulfolobus solfataricus} SCOP: b.40.4.3 Length = 119

 Score = 44.5 bits (105), Expect = 9e-06
 Identities = 21/108 (19%), Positives = 46/108 (42%), Gaps = 14/108 (12%)

Query: 306 GTELVDIIGVVQNVSPTMSIRRKSNNEMVPKRDITVADETKRTVTVSLWNELATNVGQEL 365
             E V++   V   S    I+ K+    +   +  V DET   V ++LW + A       
Sbjct: 11  NMESVNVTVRVLEASEARQIQTKNGVRTI--SEAIVGDET-GRVKLTLWGKHA------- 60

Query: 366 LDNADKSPIVAIKSLKVGDFQG-ISLSTLGRSTVLVSPD--LPEAKKL 410
             +  +  +V I++     F+G + L+   ++ +  + +   PE+ ++
Sbjct: 61  -GSIKEGQVVKIENAWTTAFKGQVQLNAGSKTKIAEASEDGFPESSQI 107

>2b29_A Replication protein A 70 kDa DNA-binding subunit; 1.60A {Homo sapiens} SCOP: b.40.4.3 PDB: 2b3g_A 1ewi_A Length = 123

 Score = 75.3 bits (185), Expect = 1e-16
 Identities = 23/118 (19%), Positives = 54/118 (45%), Gaps = 12/118 (10%)

Query: 1   MDKTVSPDAISTILSNPSPDSSSDIPEIVVQVLDLKL-----TGNRYMFNASDGKKRLKA 55
           M   +S  AI+ I+     +      + ++QV++++      +  RY    SDG   L +
Sbjct: 4   MVGQLSEGAIAAIMQKGDTN-----IKPILQVINIRPITTGNSPPRYRLLMSDGLNTLSS 58

Query: 56  -ILPSNLSSEVISGNIQNKGLIRLLDYALNEIPTKSEKYLIVTKCEVVSPALEMEIKI 112
            +L + L+  V    + +  + ++  + +N +     + +I+ + EV+  A  + +KI
Sbjct: 59  FMLATQLNPLVEEEQLSSNCVCQIHRFIVNTLKDG-RRVVILMELEVLKSAEAVGVKI 115

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

 Score = 73.7 bits (180), Expect = 9e-14
 Identities = 89/635 (14%), Positives = 177/635 (27%), Gaps = 177/635 (27%)

Query: 79  LDYALNEIPTKSEKYLIVTKCEVVSPALEMEIKIEVKSDESGIIFKPKQEDEVKKDGPGI 138
           +D+   E   + +  L      V   A       +   D    I   ++ D        I
Sbjct: 7   MDFETGEHQYQYKDIL-----SVFEDAFVDNFDCKDVQDMPKSILSKEEIDH-------I 54

Query: 139 VLKPKQEMVAKSAAQILRDQNGNMAPAARLAMTRRVHPLVSLNPYQGNWTI-KVRVTSK- 196
           ++              L  +   M         + V  ++ +N Y   + +  ++   + 
Sbjct: 55  IMSKDAVSGTLRLFWTLLSKQEEMV-------QKFVEEVLRIN-Y--KFLMSPIKTEQRQ 104

Query: 197 --GNMRTYKNAR----GEGCVF---NV--------------ELTDEDGTQIQ-------A 226
                R Y   R     +  VF   NV              EL       I         
Sbjct: 105 PSMMTRMYIEQRDRLYNDNQVFAKYNVSRLQPYLKLRQALLELRPAKNVLIDGVLGSGKT 164

Query: 227 TMFNEAAR--KFYDRFQLGKVYYISRGTLRVANKQFKTVQN-DYEMNLNENSEVEEAVNE 283
            +  +     K   +    K+++++           + +Q   Y+++ N  S  + + N 
Sbjct: 165 WVALDVCLSYKVQCKMD-FKIFWLNLKNCNSPETVLEMLQKLLYQIDPNWTSRSDHSSNI 223

Query: 284 TAFIPQTKFNFVPIDELGRYVNGTELVDIIGVVQNV-SP----TMSIRRKSNNEMVPKRD 338
              I   +       EL R +      + + V+ NV +       ++  K    ++  R 
Sbjct: 224 KLRIHSIQ------AELRRLLKSKPYENCLLVLLNVQNAKAWNAFNLSCKI---LLTTRF 274

Query: 339 ITVAD--ETKRTVTVSLWNELATNVGQELLDNADKSPIVAIKSLKVGDFQGISLSTLGRS 396
             V D      T  +SL +   T    E+        ++  K L            L R 
Sbjct: 275 KQVTDFLSAATTTHISLDHHSMTLTPDEVKS------LLL-KYL------DCRPQDLPRE 321

Query: 397 TVLVSPDL----PEAKK--LKSW--YESEGKGTSMASIGSGLGSLAKNGARSMYSDRVSL 448
            +  +P       E+ +  L +W  ++          I S L  L     R M+      
Sbjct: 322 VLTTNPRRLSIIAESIRDGLATWDNWKHVNCDKLTTIIESSLNVLEPAEYRKMFDRLSVF 381

Query: 449 ---THITS-----------------------NPSL--GDEKPVFFSIKA-YISLIKP--- 476
               HI +                         SL     K    SI + Y+ L      
Sbjct: 382 PPSAHIPTILLSLIWFDVIKSDVMVVVNKLHKYSLVEKQPKESTISIPSIYLELKVKLEN 441

Query: 477 DQAM------WYRACKT-CNKKVTDALGSGYWC-------EGCQKNDEECSLRYI----- 517
           + A+       Y   KT  +  +       Y+        +  +  +     R +     
Sbjct: 442 EYALHRSIVDHYNIPKTFDSDDLIPPYLDQYFYSHIGHHLKNIEHPERMTLFRMVFLDFR 501

Query: 518 -MVARVCDGSGEAWISIFNEEAERIIGCSADELNELKSQLG----DDNSYQMKLKEV-TW 571
            +  ++      AW +          G   + L +LK        +D  Y+  +  +  +
Sbjct: 502 FLEQKIRH-DSTAWNA---------SGSILNTLQQLKFYKPYICDNDPKYERLVNAILDF 551

Query: 572 VP----HLLR------VSVA-QQE----YNNEKRQ 591
           +P    +L+       + +A   E    +    +Q
Sbjct: 552 LPKIEENLICSKYTDLLRIALMAEDEAIFEEAHKQ 586

>2k50_A Replication factor A related protein; uncharacterized protein, structural genomics, PSI-2; NMR {Methanothermobacterthermautotrophicus str} Length = 115

 Score = 61.9 bits (150), Expect = 6e-12
 Identities = 26/107 (24%), Positives = 43/107 (40%), Gaps = 10/107 (9%)

Query: 173 RVHPLVSLNPYQGNWTIKVRVTSKGNMRTYKNARG-EGCVFNVELTDEDGTQIQATMFNE 231
           R+  +  L        +  RV    + RT+   +G EG + NV + D+ G +++A  + E
Sbjct: 6   RMDTISKLEEGA-ETPVTGRVMKISSPRTFTTRKGREGKLANVIIADDTG-ELRAVFWTE 63

Query: 232 AARKFYDRFQLGKVYYISRGTLRVANKQFKTVQNDYEMNLNENSEVE 278
              K   +F+ G V  I    +R             E +L   S VE
Sbjct: 64  NI-KLLKKFREGDVIRIKDVNIRGGF------GGRKEAHLMPRSTVE 103

>2k50_A Replication factor A related protein; uncharacterized protein, structural genomics, PSI-2; NMR {Methanothermobacterthermautotrophicus str} Length = 115

 Score = 51.5 bits (123), Expect = 3e-08
 Identities = 23/120 (19%), Positives = 41/120 (34%), Gaps = 13/120 (10%)

Query: 291 KFNFVPIDELGRYVNGTELVDIIGVVQNVSPTMSIRRKSNNEMVPKRDITVADETKRTVT 350
           +     I +L           + G V  +S   +   +   E     ++ +AD+T   + 
Sbjct: 4   EHRMDTISKLEEGAE----TPVTGRVMKISSPRTFTTRKGRE-GKLANVIIADDTGE-LR 57

Query: 351 VSLWNELATNVGQELLDNADKSPIVAIKSLKVGD-FQG-ISLSTLGRSTVLVSPDLPEAK 408
              W E       +LL    +  ++ IK + +   F G      + RSTV V   L    
Sbjct: 58  AVFWTENI-----KLLKKFREGDVIRIKDVNIRGGFGGRKEAHLMPRSTVEVLDPLEHHH 112

>3dm3_A Replication factor A; probably plays AN essential for replication of the chromosome, DNA recombination and repair; 2.40A {Methanocaldococcus jannaschii} Length = 105

 Score = 40.4 bits (94), Expect = 2e-04
 Identities = 18/101 (17%), Positives = 31/101 (30%), Gaps = 15/101 (14%)

Query: 310 VDIIGVVQNVSPTMSIRRKSNNEMVPKRDITVADETKRTVTVSLWNELAT---NVGQELL 366
               G V +  P    +R   +     +   V DET   + V+LW+ L       G    
Sbjct: 17  ATFEGEVISALPIKEFKRADGSIGK-LKSFIVRDETGS-IRVTLWDNLTDIDVGRGD--- 71

Query: 367 DNADKSPIVAIKSLKVGDFQGISLSTLGRSTVLVSPDLPEA 407
                   V ++      + G    T     +L   +  E+
Sbjct: 72  -------YVRVRGYIREGYYGGLECTANYVEILKKGEKIES 105

Structure Templates Detected by HHsearch

Original result of HHsearch against PDB70 database

ID	Length	Definition	Probability
Query	623
4gop_C	444	Putative uncharacterized protein; OB fold, ssDNA b	100.0
1jmc_A	246	Protein (replication protein A (RPA)); human ssDNA	100.0
1l1o_C	181	Replication protein A 70 kDa DNA-binding subunit;	100.0
3u50_C	172	Telomerase-associated protein 82; TEB1, processivi	100.0
1ynx_A	114	Replication factor-A protein 1; canonical OB fold,	99.97
2b29_A	123	Replication protein A 70 kDa DNA-binding subunit;	99.93
3dm3_A	105	Replication factor A; probably plays AN essential	99.47
1o7i_A	119	SSB, SSO2364, single stranded DNA binding protein;	99.46
3e0e_A	97	Replication protein A; structural genomics, PSI-2,	99.4
2k50_A	115	Replication factor A related protein; uncharacteri	99.35
1o7i_A	119	SSB, SSO2364, single stranded DNA binding protein;	99.33
3dm3_A	105	Replication factor A; probably plays AN essential	99.31
2k50_A	115	Replication factor A related protein; uncharacteri	99.21
2k75_A	106	Uncharacterized protein TA0387; closed beta barrel	99.13
3e0e_A	97	Replication protein A; structural genomics, PSI-2,	99.02
1wjj_A	145	Hypothetical protein F20O9.120; DNA-binding protei	98.93
2k75_A	106	Uncharacterized protein TA0387; closed beta barrel	98.88
2kbn_A	109	Conserved protein; nucleic acid binding protein, b	98.71
4gop_C	444	Putative uncharacterized protein; OB fold, ssDNA b	98.65
1jmc_A	246	Protein (replication protein A (RPA)); human ssDNA	98.64
1wjj_A	145	Hypothetical protein F20O9.120; DNA-binding protei	98.51
2kbn_A	109	Conserved protein; nucleic acid binding protein, b	98.47
1xjv_A	294	Protection of telomeres 1; protein-DNA complex, si	98.45
1miu_A	738	BRCA2, breast cancer type 2 susceptibility protein	98.32
1jb7_A	495	Telomere-binding protein alpha subunit; DNA-protei	98.23
1ynx_A	114	Replication factor-A protein 1; canonical OB fold,	98.18
1xjv_A	294	Protection of telomeres 1; protein-DNA complex, si	98.14
1qzg_A	187	Protection of telomeres protein 1; protrein-DNA co	97.87
3u58_A	213	Tetrahymena TEB1 AB; tetrahymena, telomerase, TEB1	97.64
1jb7_A	495	Telomere-binding protein alpha subunit; DNA-protei	97.37
3u4v_A	117	Telomerase-associated protein 82; TEB1, processivi	97.33
1se8_A	301	Single-strand binding protein; DNA binding protein	95.42
2fxq_A	264	Single-strand binding protein; strand beta-sheet e	95.21
3mxn_A	157	RECQ-mediated genome instability protein 1; bloom	94.95
3u4z_A	109	Telomerase-associated protein 82; TEB1, processivi	94.21
3kdf_D	132	Replication protein A 32 kDa subunit; wheat GERM c	93.67
4hik_A	143	Protection of telomeres protein 1; specificity, pl	93.52
4gop_B	136	Putative uncharacterized protein; OB fold, ssDNA b	93.35
3ebe_A	200	Protein MCM10 homolog; OB-fold, zinc finger, CCCH,	92.88
4dni_A	257	Fusion protein of RNA-editing complex proteins MP	92.43
3kf6_A	159	Protein STN1; OB fold, chromosomal protein, DNA-bi	90.32
4gop_B	136	Putative uncharacterized protein; OB fold, ssDNA b	90.11
2pi2_A	270	Replication protein A 32 kDa subunit; FULL-length	90.01
3rn5_A	208	Interferon-inducible protein AIM2; OB fold, DNA bi	88.93
1txy_A	104	Primosomal replication protein N; OB fold, dimer,	88.85
2vw9_A	134	Single-stranded DNA binding protein; DNA replicati	88.38
3fhw_A	115	Primosomal replication protein N; PRIB BPR162 X-RA	87.65
3eiv_A	199	Single-stranded DNA-binding protein 2; DNA damage,	87.08
3en2_A	101	Probable primosomal replication protein N; PRIB RS	86.9
3vdy_A	116	SSB, single-stranded DNA-binding protein SSBB; OB	86.89
3u58_A	213	Tetrahymena TEB1 AB; tetrahymena, telomerase, TEB1	86.53
1qzg_A	187	Protection of telomeres protein 1; protrein-DNA co	86.52
3k8a_A	103	Putative primosomal replication protein; beta-barr	86.43
3ebe_A	200	Protein MCM10 homolog; OB-fold, zinc finger, CCCH,	86.0
1ffk_W	73	Ribosomal protein L37AE; ribosome assembly, RNA-RN	85.21
1z9f_A	153	Single-strand binding protein; TM0604, single stra	84.87
3cc2_Z	116	50S ribosomal protein L37AE, 50S ribosomal protein	84.67
3i7f_A	548	Aspartyl-tRNA synthetase; tRNA ligase, APO, ATP-bi	84.34
1v1q_A	134	Primosomal replication protein N; primosome, DNA r	84.3
1vq8_Z	83	50S ribosomal protein L37AE; ribosome 50S, protein	83.42
3koj_A	108	Uncharacterized protein YCF41; single-strand bindi	83.31
3jyw_9	72	60S ribosomal protein L43; eukaryotic ribosome, RA	83.16
1eov_A	487	ASPRS, aspartyl-tRNA synthetase; aminoacyl tRNA sy	82.08
1qvc_A	145	Single stranded DNA binding protein monomer; beta-	81.64
3afp_A	168	Single-stranded DNA-binding protein; OB-fold, quat	81.53
3tqy_A	158	Single-stranded DNA-binding protein; DNA replicati	81.2

>4gop_C Putative uncharacterized protein; OB fold, ssDNA binding, DNA binding protein-DNA complex; HET: DNA; 3.10A {Ustilago maydis}

Probab=100.00  E-value=6.2e-94  Score=785.45  Aligned_cols=437  Identities=35%  Similarity=0.664  Sum_probs=400.0

Q ss_pred             CeeeccccCCCCCCeEEEEEEEeeccccccccCCCcccEEEEEEEeCCCCeEEEEEechHHHHHHhhcccCcEEEEeeeE
Q 006973          173 RVHPLVSLNPYQGNWTIKVRVTSKGNMRTYKNARGEGCVFNVELTDEDGTQIQATMFNEAARKFYDRFQLGKVYYISRGT  252 (623)
Q Consensus       173 ~~~~I~~L~p~~~~w~I~~RV~~K~~~r~~~~~~g~g~~f~~~L~D~~G~~I~at~~~~~~~kf~~~l~eG~vy~is~~~  252 (623)
                      +++||++|+|++++|+|+|||++||++|+|.+++|+|++|+|+|+|++| +|+|++|++++++|++.|+||+||+|++|+
T Consensus         2 ~~~~I~~L~p~~~~w~I~~rV~~k~~ir~~~~~~~~g~~~~~~L~De~G-~I~at~~~~~~~~f~~~l~eG~vy~Is~~~   80 (444)
T 4gop_C            2 PIYPIEGLSPYQNRWTIKARVTSKSDIRHWSNQRGEGKLFSVNLLDDSG-EIKATGFNDAVDRFYPLLQENHVYLISKAR   80 (444)
T ss_dssp             -CCCSTTCCTTCCSCEEEEECCEECCCEEEECSSCEEEEEEEEEECSSC-EEEEEEETHHHHHHTTTCCTTCEEEEESCE
T ss_pred             CceeHHHCCCCCcceEEEEEEEEccCcceecCCCCCceEEEEEEEcCCC-EEEEEEeHHHHHHHHHheecCCEEEEcCCE
Confidence            4799999999999999999999999999999999999999999999999 999999999999999999999999999999


Q ss_pred             EEecCCCccccCCceEEEEccCcEEEEccCcCCCCCCCccccccccccccccCCcceeEEEEEEEEeCCceEEEEccCCc
Q 006973          253 LRVANKQFKTVQNDYEMNLNENSEVEEAVNETAFIPQTKFNFVPIDELGRYVNGTELVDIIGVVQNVSPTMSIRRKSNNE  332 (623)
Q Consensus       253 V~~a~~~~~~~~~~yei~f~~~T~I~~~~d~~~~iP~~~~~f~~i~di~~~~~~~~~vDVIGvV~~v~~~~~i~~k~~g~  332 (623)
                      |++++++|++++|+|+|.|+.+|+|+++++. ..+|.+.|+|++|++|.+ .+.+.+|||||+|++|+++.+|++|++|+
T Consensus        81 V~~~~~~y~~~~~~~ei~~~~~T~V~~~~d~-~~iP~~~~~f~~i~~i~~-~~~~~~vDViG~V~~v~~~~~i~~k~~g~  158 (444)
T 4gop_C           81 VNIAKKQFSNLQNEYEITFENSTEIEECTDA-TDVPEVKYEFVRINELES-VEANQQCDVIGILDSYGELSEIVSKASQR  158 (444)
T ss_dssp             EEECCGGGCSCCCSEEEEECTTCEEEECSCC-SSSCCCCCCBCCGGGGGG-SCSSCCCBEEEEEEEECCCEEECCTTTCS
T ss_pred             EEecCCccccCCCCEEEEEcCCcEEEEccCc-ccCcceeecccCHHHHhc-cCCCCceEEEEEEEEcCCcEEEEEccCCc
Confidence            9999999999999999999999999999876 579999999999999997 56788999999999999999999887788


Q ss_pred             eeeEEEEEEEeCCccEEEEEEechhhhhhhhHhhhcCCCCcEEEEEeEEeeeccceeeecccceEEEEcCChHHHHHHHH
Q 006973          333 MVPKRDITVADETKRTVTVSLWNELATNVGQELLDNADKSPIVAIKSLKVGDFQGISLSTLGRSTVLVSPDLPEAKKLKS  412 (623)
Q Consensus       333 ~~~kr~i~l~D~sg~~I~vtLWg~~A~~~~~~~~~~~~~~~Vv~i~~~kV~~f~G~~Ls~~~~S~i~iNPd~pe~~~l~~  412 (623)
                      +..+|+|+|.|+||.+|+|||||++|..|...  ...+.++||+|+++||++|+|++||+.++|+|++|||+||+++|++
T Consensus       159 ~~~kr~i~L~D~sg~~i~~tLWg~~A~~f~~~--~~~~~~~VV~i~~~kV~~f~G~~ls~~~~s~i~inPdipea~~l~~  236 (444)
T 4gop_C          159 PVQKRELTLVDQGNRSVKLTLWGKTAETFPTN--AGVDEKPVLAFKGVKVGDFGGRSLSMFSSSTMLINPDITESHVLRG  236 (444)
T ss_dssp             CEEEEEEEEECTTCBEEEEEEEHHHHHTSTTS--TTSSSCCEEEEESCEEECTTSSEEECCTTCEEEESCSSHHHHHHHH
T ss_pred             eeeEEEEEEEeCCCCEEEEEEEhhhhhhhhhh--hccCCCCEEEEEeEEEeecCCeEEeccccceEEECCCCHHHHHHHH
Confidence            89999999999999999999999999998632  1246789999999999999999999999999999999999999999


Q ss_pred             HHHhCCCccceeeecCCcC---ccccCCcccccccceehhccccCCCCCC-CCCeEEEEEEEEEEEeCCCCeEeccccc-
Q 006973          413 WYESEGKGTSMASIGSGLG---SLAKNGARSMYSDRVSLTHITSNPSLGD-EKPVFFSIKAYISLIKPDQAMWYRACKT-  487 (623)
Q Consensus       413 w~~~~g~~~~~~~~~~~~~---~~~~~~~~~~~~~~~ti~~i~~~~~~~~-~~~~~~~v~a~I~~i~~d~~~~Y~aC~~-  487 (623)
                      ||+..|....+.+++...+   ..+.++......+++||+||++ .++|. ++++||+|+|+|+.|+.+ +|||+|||. 
T Consensus       237 w~~~~g~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~kti~~i~~-~~~g~~~~~~~~~v~atI~~i~~~-~~~Y~aC~~~  314 (444)
T 4gop_C          237 WYDNDGAHAQFQPYTNGGVGGGAMGGGGAGANMAERRTIVQVKD-ENLGMSEKPDYFNVRATVVYIKQE-NLYYTACASE  314 (444)
T ss_dssp             HHHHHTTTSCCBCCCCCC---------CTTCCSSEECCHHHHHH-TTTTSSSSCEEEEEEEEEEEECCT-TCEEEECCST
T ss_pred             HHHcCCCCcccccccccccccccccccccccccccceeHHHHhh-hccCCCCCCcEEEEEEEEEEEcCC-ceEEccCCcc
Confidence            9999998877777765421   0011111123467899999998 56664 789999999999999987 799999998 


Q ss_pred             -cccceecCCCCeeecCcCCCCccccceeEEEEEEEEeCCCcEEEEEehHhHHHHhCCCHHHHHHHHhhcCCchhHHHHH
Q 006973          488 -CNKKVTDALGSGYWCEGCQKNDEECSLRYIMVARVCDGSGEAWISIFNEEAERIIGCSADELNELKSQLGDDNSYQMKL  566 (623)
Q Consensus       488 -C~KKv~~~~~~~~~C~kC~~~~~~~~~ry~l~~~i~D~Tg~~~~~~F~~~ae~llG~sA~el~~~~~~~~~~~~~~~~l  566 (623)
                       |+|||.+..+|.|+|++|++.+++|.|||+|++.|+|+||++|+++||+.|++|||++|+||.+++++  ++..|++++
T Consensus       315 ~C~kkv~~~~~g~~~C~~C~~~~~~~~~ry~l~~~v~D~Tg~~~~~~F~~~a~~llG~sa~el~~~~~~--d~~~~~~~~  392 (444)
T 4gop_C          315 GCNKKVNLDHENNWRCEKCDRSYATPEYRYILSTNVADATGQMWLSGFNEDATQLIGMSAGELHKLREE--SESEFSAAL  392 (444)
T ss_dssp             TCCCBEEECTTSCEEETTTTEEESSCEEEECEEEEEEETTEEEEEEECHHHHHHHTTSCHHHHHHHHTT--CHHHHHHHH
T ss_pred             cCCCccccCCCccEECCCCCCcCccccEEEEEEEEEEeCCCCEEEEEehHHHHHHcCCCHHHHHHHHhc--ChHHHHHHH
Confidence             99999887678999999999999999999999999999999999999999999999999999999864  467899999


Q ss_pred             HHhcCceEEEEEEEEeeecCceeeeEEEEEEeeccCHHHHHHHHHHHHHhhh
Q 006973          567 KEVTWVPHLLRVSVAQQEYNNEKRQRVTVRAVAPVDFAAESKFLLEEISKKV  618 (623)
Q Consensus       567 ~~~~~~~~~f~v~~k~~~y~~~~r~~~~v~~~~~vd~~~e~~~Ll~~i~~~~  618 (623)
                      +++.|++|+||+++++++|||+.|+||+|.+++|+||++|+++||++|++||
T Consensus       393 ~~~~~k~~~f~~~~k~~~y~~~~r~~~~v~~~~~~d~~~~~~~l~~~i~~~~  444 (444)
T 4gop_C          393 HRAANRMYMFNCRAKMDTFNDTARVRYTISRAAPVDFAKAGMELVDAIRAYM  444 (444)
T ss_dssp             HTTSSCEEEEEEEEEEEEETTEEEEEEEEEEEEECCHHHHHHHHHHHHHHHC
T ss_pred             HHhhCcEEEEEEEEEeeeeCCeeEEEEEEEEeeeCCHHHHHHHHHHHHHhhC
Confidence            9999999999999999999999999999999999999999999999999985

>1jmc_A Protein (replication protein A (RPA)); human ssDNA binding replication protein A(RPA), single stranded DNA-binding protein, protein-ssDNA complex; HET: DNA; 2.40A {Homo sapiens} SCOP: b.40.4.3 b.40.4.3 PDB: 1fgu_A

Probab=100.00  E-value=3.4e-53  Score=428.47  Aligned_cols=239  Identities=45%  Similarity=0.805  Sum_probs=227.3

Q ss_pred             cCeeeccccCCCCCCeEEEEEEEeeccccccccCCCcccEEEEEEEeCCCCeEEEEEechHHHHHHhhcccCcEEEEeee
Q 006973          172 RRVHPLVSLNPYQGNWTIKVRVTSKGNMRTYKNARGEGCVFNVELTDEDGTQIQATMFNEAARKFYDRFQLGKVYYISRG  251 (623)
Q Consensus       172 ~~~~~I~~L~p~~~~w~I~~RV~~K~~~r~~~~~~g~g~~f~~~L~D~~G~~I~at~~~~~~~kf~~~l~eG~vy~is~~  251 (623)
                      ..++||++|+|++++|+|+|||++||++|+|.+++++|++|+|+|+|++| +|+|++|++.+++|++.|++|+||+|++|
T Consensus         6 ~~~~~I~~L~p~~~~w~I~~rV~~k~~~r~~~~~~~~g~~~~~~L~De~G-~I~at~~~~~~~~~~~~l~~G~vy~i~~~   84 (246)
T 1jmc_A            6 SKVVPIASLTPYQSKWTICARVTNKSQIRTWSNSRGEGKLFSLELVDESG-EIRATAFNEQVDKFFPLIEVNKVYYFSKG   84 (246)
T ss_dssp             -CBCCGGGCCTTCCCCEEEEEEEEECCCEEEECSSCEEEEEEEEEECSSC-EEEEEEEHHHHHHHGGGCCTTCEEEEECC
T ss_pred             cceEEHHHCCCCCCceEEEEEEEEecccceeeCCCCCceEEEEEEECCCC-eEEEEEChHHHHHhhhhcccCCEEEECCC
Confidence            35899999999999999999999999999999999999999999999999 99999999999999999999999999999


Q ss_pred             EEEecCCCccccCCceEEEEccCcEEEEccCcCCCCCCCccccccccccccccCCcceeEEEEEEEEeCCceEEEEccCC
Q 006973          252 TLRVANKQFKTVQNDYEMNLNENSEVEEAVNETAFIPQTKFNFVPIDELGRYVNGTELVDIIGVVQNVSPTMSIRRKSNN  331 (623)
Q Consensus       252 ~V~~a~~~~~~~~~~yei~f~~~T~I~~~~d~~~~iP~~~~~f~~i~di~~~~~~~~~vDVIGvV~~v~~~~~i~~k~~g  331 (623)
                      .|++++++|++++|+|||.|+.+|+|++|++. .++|.+.|+|++|++|.+ .+.+.+|||||+|++|+++.++++|++|
T Consensus        85 ~v~~~~~~y~~~~~~~ei~~~~~T~I~~~~~~-~~iP~~~~~f~~i~~i~~-~~~~~~vDViG~V~~v~~~~~~~~k~~g  162 (246)
T 1jmc_A           85 TLKIANKQFTAVKNDYEMTFNNETSVMPCEDD-HHLPTVQFDFTGIDDLEN-KSKDSLVDIIGICKSYEDATKITVRSNN  162 (246)
T ss_dssp             EEEECCGGGCCCCCSEEEECCTTCEEEECCSC-SCCCCCCCCBCCGGGGGG-SCTTCEEEEEEEEEEECCCEEEEETTTT
T ss_pred             EEEEcccCcccCCCCEEEEEcCCcEEEEccCc-ccCCcceeeeEEHHHHhc-ccCCCceeEEEEEEEecCeEEEEEecCC
Confidence            99999999999999999999999999999876 579999999999999987 5678899999999999999999998779


Q ss_pred             ceeeEEEEEEEeCCccEEEEEEechhhhhhhhHhhhcCCCCcEEEEEeEEeeeccceeeecccceEEEEcCChHHHHHHH
Q 006973          332 EMVPKRDITVADETKRTVTVSLWNELATNVGQELLDNADKSPIVAIKSLKVGDFQGISLSTLGRSTVLVSPDLPEAKKLK  411 (623)
Q Consensus       332 ~~~~kr~i~l~D~sg~~I~vtLWg~~A~~~~~~~~~~~~~~~Vv~i~~~kV~~f~G~~Ls~~~~S~i~iNPd~pe~~~l~  411 (623)
                      ++..+|++.|.|+||.+|+|||||++|..|.      ...++||+|+++||++|+|++|++.++|+|++|||+||+++|+
T Consensus       163 ~~~~~r~~~l~D~sg~~i~~tLWg~~a~~~~------~~~~~vv~i~~~~v~~f~g~~ls~~~~s~i~inpd~pe~~~l~  236 (246)
T 1jmc_A          163 REVAKRNIYLMDTSGKVVTATLWGEDADKFD------GSRQPVLAIKGARVSDFGGRSLSVLSSSTIIANPDIPEAYKLR  236 (246)
T ss_dssp             EEEEEEEEEEECTTCCEEEEEEEHHHHHHCC------CTTCCEEEEEEEEEECTTSSEEECCSSCEEESSCCSHHHHHHH
T ss_pred             CccEEEEEEEECCCCCEEEEEEEchhhhhcc------cCCCCEEEEEEEEEEecCCeEEEecCcceEEECCCCHHHHHHH
Confidence            9999999999999999999999999999874      3568999999999999999999999999999999999999999


Q ss_pred             HHHHhCCC
Q 006973          412 SWYESEGK  419 (623)
Q Consensus       412 ~w~~~~g~  419 (623)
                      +||+++|.
T Consensus       237 ~w~~~~g~  244 (246)
T 1jmc_A          237 GWFDAEGQ  244 (246)
T ss_dssp             HHHHHTTC
T ss_pred             HHHHhcCC
Confidence            99999885

>1l1o_C Replication protein A 70 kDa DNA-binding subunit; eukaryotic SSB, ssDNA binding protein, OB-fold; 2.80A {Homo sapiens} SCOP: b.40.4.3

Probab=100.00  E-value=1.5e-43  Score=339.51  Aligned_cols=172  Identities=31%  Similarity=0.575  Sum_probs=157.3

Q ss_pred             ccceehhccccCCCCCC-CCCeEEEEEEEEEEEeCCCCeEeccccc--cccceecCCCCeeecCcCCCCccccceeEEEE
Q 006973          443 SDRVSLTHITSNPSLGD-EKPVFFSIKAYISLIKPDQAMWYRACKT--CNKKVTDALGSGYWCEGCQKNDEECSLRYIMV  519 (623)
Q Consensus       443 ~~~~ti~~i~~~~~~~~-~~~~~~~v~a~I~~i~~d~~~~Y~aC~~--C~KKv~~~~~~~~~C~kC~~~~~~~~~ry~l~  519 (623)
                      .+++||+||++ .++|. ++|+||+|+|+|++|+.+ +|||+|||.  |+|||.+.++|.|+|++|++.+++|.|||+|+
T Consensus         5 ~~~kti~qi~~-~~lg~~~k~~~f~v~atI~~i~~d-~~~Y~aC~~~~CnKKv~~~~~g~~~CekC~~~~~~~~~ry~l~   82 (181)
T 1l1o_C            5 TNWKTLYEVKS-ENLGQGDKPDYFSSVATVVYLRKE-NCMYQACPTQDCNKKVIDQQNGLYRCEKCDTEFPNFKYRMILS   82 (181)
T ss_dssp             CCBCCHHHHHH-HTTTSSSSCEEEEEEEEEEEECCS-TTEEEBCCSTTCCCBCEEETTTEEEETTTTEEESSCCEEEEEE
T ss_pred             cceEEHHHHhh-hccCCCCCCcEEEEEEEEEEEeCC-CEEECCCCchhcCCccccCCCCeEECCCCCCcCCCceEEEEEE
Confidence            57899999999 56764 899999999999999998 688999999  99999987688999999999999999999999


Q ss_pred             EEEEeCCCcEEEEEehHhHHHHhCCCHHHHHHHHhhcCCchhHHHHHHHhcCceEEEEEEEEeeecCceeeeEEEEEEee
Q 006973          520 ARVCDGSGEAWISIFNEEAERIIGCSADELNELKSQLGDDNSYQMKLKEVTWVPHLLRVSVAQQEYNNEKRQRVTVRAVA  599 (623)
Q Consensus       520 ~~i~D~Tg~~~~~~F~~~ae~llG~sA~el~~~~~~~~~~~~~~~~l~~~~~~~~~f~v~~k~~~y~~~~r~~~~v~~~~  599 (623)
                      +.|+|+||++|+++||+.|++|||+||+||.++.++  ++..|+.+|+++.|++|.|+++++.++|||+.|+||+|+++.
T Consensus        83 ~~i~D~Tg~~~~t~F~~~ae~ilG~sA~el~~l~e~--~~~~~~~~~~~~~~~~~~f~l~vk~e~yn~e~r~~~~v~~~~  160 (181)
T 1l1o_C           83 VNIADFQENQWVTCFQESAEAILGQNAAYLGELKDK--NEQAFEEVFQNANFRSFIFRVRVKVETYNDESRIKATVMDVK  160 (181)
T ss_dssp             EEEECSSCEEEEEEEHHHHHHHHSSCHHHHHHHTTS--CHHHHHHHHHHTTTCEEEEEEEEECCCC-----CEEEEEEEE
T ss_pred             EEEEeCCCCEEEEEEhHHHHHHhCCCHHHHHHHHhh--ChHHHHHHHHHhcCceEEEEEEEEEeecCCEEEEEEEEEEee
Confidence            999999999999999999999999999999999864  367899999999999999999999999999999999999999


Q ss_pred             ccCHHHHHHHHHHHHHhhh
Q 006973          600 PVDFAAESKFLLEEISKKV  618 (623)
Q Consensus       600 ~vd~~~e~~~Ll~~i~~~~  618 (623)
                      |+||++|+++|+++|++|.
T Consensus       161 ~vd~~~e~~~L~~~i~~~~  179 (181)
T 1l1o_C          161 PVDYREYGRRLVMSIRRSA  179 (181)
T ss_dssp             ECCHHHHHHHHHHHHHHHH
T ss_pred             eCCHHHHHHHHHHHHHHhh
Confidence            9999999999999999875

>1ynx_A Replication factor-A protein 1; canonical OB fold, DNA binding protein; NMR {Saccharomyces cerevisiae}

Probab=99.97  E-value=2.9e-30  Score=228.70  Aligned_cols=110  Identities=44%  Similarity=0.804  Sum_probs=107.5

Q ss_pred             CeeeccccCCCCCCeEEEEEEEeeccccccccCCCcccEEEEEEEeCCCCeEEEEEechHHHHHHhhcccCcEEEEeeeE
Q 006973          173 RVHPLVSLNPYQGNWTIKVRVTSKGNMRTYKNARGEGCVFNVELTDEDGTQIQATMFNEAARKFYDRFQLGKVYYISRGT  252 (623)
Q Consensus       173 ~~~~I~~L~p~~~~w~I~~RV~~K~~~r~~~~~~g~g~~f~~~L~D~~G~~I~at~~~~~~~kf~~~l~eG~vy~is~~~  252 (623)
                      .++||++|+|++++|+|+|||++||++|+|++++|+|++|+|+|+|++| +|+|++|++++++|+++|+||+||+|++|.
T Consensus         3 ~~~~Is~L~p~~~~w~I~~rV~~k~~~r~~~~~~~~g~~~~~~L~De~G-~I~at~~~~~~~~f~~~l~eG~vy~Is~~~   81 (114)
T 1ynx_A            3 PIFAIEQLSPYQNVWTIKARVSYKGEIKTWHNQRGDGKLFNVNFLDTSG-EIRATAFNDFATKFNEILQEGKVYYVSKAK   81 (114)
T ss_dssp             CBCCGGGCCTTTCCCEEEEEEEEEEEEEEEECSSCEEEEEEEEEEETTE-EEEEEECHHHHHHHHHHSCSSSEEEEESCE
T ss_pred             ceEEHHHCCCCCCceEEEEEEEEeccceEEecCCCCceEEEEEEECCCC-eEEEEECHHHHHHHHhhcccCcEEEECCcE
Confidence            5899999999999999999999999999999999999999999999999 999999999999999999999999999999


Q ss_pred             EEecCCCccccCCceEEEEccCcEEEEccCc
Q 006973          253 LRVANKQFKTVQNDYEMNLNENSEVEEAVNE  283 (623)
Q Consensus       253 V~~a~~~~~~~~~~yei~f~~~T~I~~~~d~  283 (623)
                      |++++++|++++|+|||.|+.+|+|++|.|+
T Consensus        82 V~~a~~~y~~~~~~yei~f~~~T~I~~~~d~  112 (114)
T 1ynx_A           82 LQPAKPQFTNLTHPYELNLDRDTVIEECFDE  112 (114)
T ss_dssp             EEECCTTTSSSSSCEEEEECSSCEEEESCCC
T ss_pred             EEECCCCcccCCCCEEEEECCCCEEEECCCC
Confidence            9999999999999999999999999999875

>2b29_A Replication protein A 70 kDa DNA-binding subunit; 1.60A {Homo sapiens} SCOP: b.40.4.3 PDB: 2b3g_A 1ewi_A

Probab=99.93  E-value=1e-26  Score=206.88  Aligned_cols=98  Identities=21%  Similarity=0.355  Sum_probs=88.3

Q ss_pred             CCCCCCHHHHHHHhc-CCCCCCCCCCCcceEEEeeeeecC-----ceEEEEEeCcccceee-ccccccccccccCcccee
Q 006973            1 MDKTVSPDAISTILS-NPSPDSSSDIPEIVVQVLDLKLTG-----NRYMFNASDGKKRLKA-ILPSNLSSEVISGNIQNK   73 (623)
Q Consensus         1 m~~~lt~ga~~~i~~-~~~~~~~~~~~~pvlQvl~~k~~~-----~ryr~~lSDG~~~~~~-mlat~ln~~v~~~~l~~~   73 (623)
                      |+..||+|||++|++ +.      ..++|||||+++|+++     +|||++||||.|++++ ||+||||++|++|+|++|
T Consensus         4 M~~~LT~Gai~~I~~~~~------~~~~PvlQVl~~K~i~~~~~~~RyRl~lSDG~~~~~~~mLatqln~~v~~g~l~~~   77 (123)
T 2b29_A            4 MVGQLSEGAIAAIMQKGD------TNIKPILQVINIRPITTGNSPPRYRLLMSDGLNTLSSFMLATQLNPLVEEEQLSSN   77 (123)
T ss_dssp             --CCCCTTHHHHHHHHCC------CSCCCEEEEEEEEEECCTTSCCEEEEEEECSSEEEEEEEECGGGHHHHHTTSSCTT
T ss_pred             hhhcCCHhHHHHHHhcCC------CCCCceEEEEeeeecCCCCCCceEEEEEECcchheeeehhHHHHHHHHhcCCccCC
Confidence            788999999999998 33      3577999999999994     7999999999999998 999999999999999999


Q ss_pred             eEEEEcceeeeccCCCceEEEEEEeeeeeccc
Q 006973           74 GLIRLLDYALNEIPTKSEKYLIVTKCEVVSPA  105 (623)
Q Consensus        74 siirl~~y~~~~~~~~~~~vlii~~lev~~~~  105 (623)
                      |||||++|+++.++++ |+++||+++||+.++
T Consensus        78 sIirl~~y~~~~v~~~-k~vliIl~levl~~~  108 (123)
T 2b29_A           78 CVCQIHRFIVNTLKDG-RRVVILMELEVLKSA  108 (123)
T ss_dssp             CEEEEEEEEEEECSSS-CEEEEEEEEEEEECS
T ss_pred             CEEEEEEEEEEEecCC-cEEEEEEeeEEeecc
Confidence            9999999999999832 799999999999874

>3dm3_A Replication factor A; probably plays AN essential for replication of the chromosome, DNA recombination and repair; 2.40A {Methanocaldococcus jannaschii}

Probab=99.47  E-value=1.9e-13  Score=118.37  Aligned_cols=98  Identities=20%  Similarity=0.235  Sum_probs=88.0

Q ss_pred             CeeeccccCCCCCCeEEEEEEEeeccccccccCCC-cccEEEEEEEeCCCCeEEEEEechHHHHHHhhcccCcEEEEeee
Q 006973          173 RVHPLVSLNPYQGNWTIKVRVTSKGNMRTYKNARG-EGCVFNVELTDEDGTQIQATMFNEAARKFYDRFQLGKVYYISRG  251 (623)
Q Consensus       173 ~~~~I~~L~p~~~~w~I~~RV~~K~~~r~~~~~~g-~g~~f~~~L~D~~G~~I~at~~~~~~~kf~~~l~eG~vy~is~~  251 (623)
                      .++||++|.|+ .+|+|.|||+.++++|+|.+.+| +|+++++.|.|++| .|++|+|++.++.   .|++|++|.| ++
T Consensus         4 ~~~~I~dL~~~-~~v~v~g~V~~~~~~r~~~~~~G~~~~v~~~~l~D~TG-~IrvtlW~~~a~~---~l~~Gdvv~i-~g   77 (105)
T 3dm3_A            4 DTYNIGELSPG-MTATFEGEVISALPIKEFKRADGSIGKLKSFIVRDETG-SIRVTLWDNLTDI---DVGRGDYVRV-RG   77 (105)
T ss_dssp             CEECGGGCCSS-EEEEEEEEEEEEEEEEEEECTTSCEEEEEEEEEEETTE-EEEEEEEGGGGGS---CCCTTCEEEE-EE
T ss_pred             cceEHHHCCCC-CeEEEEEEEEECCCceEEEcCCCCeeEEEEEEEECCCC-cEEEEEECccccc---ccCCCCEEEE-EE
Confidence            57999999999 79999999999999999987666 58999999999999 8999999998887   7999999999 99


Q ss_pred             EEEecCCCccccCCceEEEEccCcEEEEccC
Q 006973          252 TLRVANKQFKTVQNDYEMNLNENSEVEEAVN  282 (623)
Q Consensus       252 ~V~~a~~~~~~~~~~yei~f~~~T~I~~~~d  282 (623)
                      .|+...      .+.++|++...|.|++++.
T Consensus        78 ~vk~~~------~g~~eL~~g~~~~i~~~~~  102 (105)
T 3dm3_A           78 YIREGY------YGGLECTANYVEILKKGEK  102 (105)
T ss_dssp             EEEECT------TSSEEEEEEEEEEEECCC-
T ss_pred             EEEEcc------CCCEEEEeCCceEEEeccc
Confidence            998874      2579999999999998864

>1o7i_A SSB, SSO2364, single stranded DNA binding protein; OB fold; 1.2A {Sulfolobus solfataricus} SCOP: b.40.4.3

Probab=99.46  E-value=5e-13  Score=118.82  Aligned_cols=108  Identities=18%  Similarity=0.275  Sum_probs=94.2

Q ss_pred             eeeccccCCCCCCeEEEEEEEeeccccccccCCCcccEEEEEEEeCCCCeEEEEEechHHHHHHhhcccCcEEEEeeeEE
Q 006973          174 VHPLVSLNPYQGNWTIKVRVTSKGNMRTYKNARGEGCVFNVELTDEDGTQIQATMFNEAARKFYDRFQLGKVYYISRGTL  253 (623)
Q Consensus       174 ~~~I~~L~p~~~~w~I~~RV~~K~~~r~~~~~~g~g~~f~~~L~D~~G~~I~at~~~~~~~kf~~~l~eG~vy~is~~~V  253 (623)
                      +++|++|.|+.+.|.+.++|..++++|+|...+|++++++++|.|++| +|++++|++.++    .|++|++|.|.++.|
T Consensus         2 f~~I~dL~~~~~~v~~~~~V~~~~~~~~~~~k~G~~~~~~~~l~D~TG-~I~~tlW~~~~~----~~~~G~vv~i~~g~v   76 (119)
T 1o7i_A            2 EEKVGNLKPNMESVNVTVRVLEASEARQIQTKNGVRTISEAIVGDETG-RVKLTLWGKHAG----SIKEGQVVKIENAWT   76 (119)
T ss_dssp             BCCGGGCCTTCSSEEEEEEEEEECCCEEECCTTCCEEEEEEEEEETTE-EEEEEEEGGGTT----CCCTTCEEEEEEEEE
T ss_pred             cEEHHHCcCCCCcEEEEEEEEECCCCeeEEecCCCEEEEEEEEEeCCC-EEEEEEECChhh----cCCCCCEEEEEeEEE
Confidence            568999999988999999999999999987777767899999999999 799999999874    489999999999999


Q ss_pred             EecCCCccccCCceEEEEccCcEEEEccCcCCCCCCCcccccccccccc
Q 006973          254 RVANKQFKTVQNDYEMNLNENSEVEEAVNETAFIPQTKFNFVPIDELGR  302 (623)
Q Consensus       254 ~~a~~~~~~~~~~yei~f~~~T~I~~~~d~~~~iP~~~~~f~~i~di~~  302 (623)
                      ...       .+.++|.+...+.|+++++         ++|..+++|.+
T Consensus        77 ~~~-------~g~~qL~i~~~~~i~~~~~---------~~~~~~~~l~~  109 (119)
T 1o7i_A           77 TAF-------KGQVQLNAGSKTKIAEASE---------DGFPESSQIPE  109 (119)
T ss_dssp             EEE-------TTEEEEEECTTCEEEECCC---------TTCCCGGGSCC
T ss_pred             EEe-------CCEEEEEECCCEEEEEcCC---------cCCCcHHHhhh
Confidence            775       3569999999999999754         45677888876

>3e0e_A Replication protein A; structural genomics, PSI-2, protein structure initiative, northeast structural genomics consortium, NESG; 1.60A {Methanococcus maripaludis} PDB: 2k5v_A

Probab=99.40  E-value=9.6e-13  Score=112.47  Aligned_cols=93  Identities=20%  Similarity=0.332  Sum_probs=79.6

Q ss_pred             eeccccCCCCCCeEEEEEEEeeccccccccCCC-cccEEEEEEEeCCCCeEEEEEechHHHHHHhhcccCcEEEEeeeEE
Q 006973          175 HPLVSLNPYQGNWTIKVRVTSKGNMRTYKNARG-EGCVFNVELTDEDGTQIQATMFNEAARKFYDRFQLGKVYYISRGTL  253 (623)
Q Consensus       175 ~~I~~L~p~~~~w~I~~RV~~K~~~r~~~~~~g-~g~~f~~~L~D~~G~~I~at~~~~~~~kf~~~l~eG~vy~is~~~V  253 (623)
                      .||++|.|+ .+|+|.|||+.+.++|+|.+..| +++++++.|.|++| .|++++|++.++.   .|++|++|.| ++.|
T Consensus         3 ~kI~dl~~g-~~v~i~~~V~~~~~~r~~~~~~G~~~~v~~~~l~DeTG-~I~~tlW~~~~~~---~i~~Gdvv~i-~g~v   76 (97)
T 3e0e_A            3 YKISELMPN-LSGTINAEVVTAYPKKEFSRKDGTKGQLKSLFLKDDTG-SIRGTLWNELADF---EVKKGDIAEV-SGYV   76 (97)
T ss_dssp             ECGGGCCTT-EEEEEEEEEEEECCCEEEC----CCEEEEEEEEEETTE-EEEEEEEGGGGGC---CCCTTCEEEE-EEEE
T ss_pred             eEHHHCCCC-CcEEEEEEEEECCCceEEEcCCCCeeEEEEEEEECCCC-cEEEEEECCcccc---ccCCCCEEEE-EEEE
Confidence            589999999 79999999999999999987555 58899999999999 9999999998876   6999999999 8888


Q ss_pred             EecCCCccccCCceEEEEccCcEEEEc
Q 006973          254 RVANKQFKTVQNDYEMNLNENSEVEEA  280 (623)
Q Consensus       254 ~~a~~~~~~~~~~yei~f~~~T~I~~~  280 (623)
                      +...       ..++|.+..++.|+++
T Consensus        77 ~~~~-------~~~el~~g~~~~i~k~   96 (97)
T 3e0e_A           77 KQGY-------SGLEISVDNIGIIEKS   96 (97)
T ss_dssp             EEC---------CEEEEEEEEEEEECC
T ss_pred             EEcC-------CeEEEEECCCcEEEEC
Confidence            6552       3789999999999864

>2k50_A Replication factor A related protein; uncharacterized protein, structural genomics, PSI-2; NMR {Methanothermobacterthermautotrophicus str}

Probab=99.35  E-value=4.5e-12  Score=111.96  Aligned_cols=104  Identities=19%  Similarity=0.290  Sum_probs=89.6

Q ss_pred             ccccccccccccccCCcceeEEEEEEEEeCCceEEEEccCCceeeEEEEEEEeCCccEEEEEEechhhhhhhhHhhhcCC
Q 006973          291 KFNFVPIDELGRYVNGTELVDIIGVVQNVSPTMSIRRKSNNEMVPKRDITVADETKRTVTVSLWNELATNVGQELLDNAD  370 (623)
Q Consensus       291 ~~~f~~i~di~~~~~~~~~vDVIGvV~~v~~~~~i~~k~~g~~~~kr~i~l~D~sg~~I~vtLWg~~A~~~~~~~~~~~~  370 (623)
                      .|+|++|++|..    +..+|++|+|++++++.++++|+ |++..+++++|.|+|| +|++|+|++.+..+.     .+.
T Consensus         4 ~~~~~~I~~L~~----g~~v~i~~~V~~~~~~~~~~~k~-G~~~~~~~~~l~D~TG-~I~~t~w~~~~~~~~-----~l~   72 (115)
T 2k50_A            4 EHRMDTISKLEE----GAETPVTGRVMKISSPRTFTTRK-GREGKLANVIIADDTG-ELRAVFWTENIKLLK-----KFR   72 (115)
T ss_dssp             TTCCCCTTTCCT----TCEEEEEEEEEEECCCEECCCTT-SSCCEEEEEEEEETTE-EEEEEEETTGGGGGG-----TCC
T ss_pred             ccceEEHHHCCC----CCEeEEEEEEEECCCceEEEcCC-CCEEEEEEEEEEeCCC-eEEEEEeCchhhhhh-----cCC
Confidence            578899999874    46789999999999998887774 7667899999999999 999999999887542     357


Q ss_pred             CCcEEEEEeEEeee-ccc-eeeecccceEEEEcCChH
Q 006973          371 KSPIVAIKSLKVGD-FQG-ISLSTLGRSTVLVSPDLP  405 (623)
Q Consensus       371 ~~~Vv~i~~~kV~~-f~G-~~Ls~~~~S~i~iNPd~p  405 (623)
                      .|++|.|++++|++ |+| .+|+....|.+..+||++
T Consensus        73 ~G~vv~i~g~~v~~~f~g~~qL~~~~~~~i~~~~~~~  109 (115)
T 2k50_A           73 EGDVIRIKDVNIRGGFGGRKEAHLMPRSTVEVLDPLE  109 (115)
T ss_dssp             TTSEEEEEEEEECCCSSSSCEEEECTTCCEEEESSCC
T ss_pred             CCCEEEEEeeEEccccCCeEEEEECCCceEEECCccc
Confidence            79999999999987 988 589999999999999875

>1o7i_A SSB, SSO2364, single stranded DNA binding protein; OB fold; 1.2A {Sulfolobus solfataricus} SCOP: b.40.4.3

Probab=99.33  E-value=4.8e-12  Score=112.46  Aligned_cols=102  Identities=23%  Similarity=0.351  Sum_probs=85.5

Q ss_pred             cccccccccccCCcceeEEEEEEEEeCCceEEEEccCCceeeEEEEEEEeCCccEEEEEEechhhhhhhhHhhhcCCCCc
Q 006973          294 FVPIDELGRYVNGTELVDIIGVVQNVSPTMSIRRKSNNEMVPKRDITVADETKRTVTVSLWNELATNVGQELLDNADKSP  373 (623)
Q Consensus       294 f~~i~di~~~~~~~~~vDVIGvV~~v~~~~~i~~k~~g~~~~kr~i~l~D~sg~~I~vtLWg~~A~~~~~~~~~~~~~~~  373 (623)
                      |++|+||..   ....+|++|+|++++++..+.+| +|+ ..+++++|.|+|| +|++|||++.|..        +..|+
T Consensus         2 f~~I~dL~~---~~~~v~~~~~V~~~~~~~~~~~k-~G~-~~~~~~~l~D~TG-~I~~tlW~~~~~~--------~~~G~   67 (119)
T 1o7i_A            2 EEKVGNLKP---NMESVNVTVRVLEASEARQIQTK-NGV-RTISEAIVGDETG-RVKLTLWGKHAGS--------IKEGQ   67 (119)
T ss_dssp             BCCGGGCCT---TCSSEEEEEEEEEECCCEEECCT-TCC-EEEEEEEEEETTE-EEEEEEEGGGTTC--------CCTTC
T ss_pred             cEEHHHCcC---CCCcEEEEEEEEECCCCeeEEec-CCC-EEEEEEEEEeCCC-EEEEEEECChhhc--------CCCCC
Confidence            678899875   23479999999999999888777 476 7899999999999 6999999999854        35699


Q ss_pred             EEEEEeEEeeeccc-eeeecccceEEEEcCC--hHHHHH
Q 006973          374 IVAIKSLKVGDFQG-ISLSTLGRSTVLVSPD--LPEAKK  409 (623)
Q Consensus       374 Vv~i~~~kV~~f~G-~~Ls~~~~S~i~iNPd--~pe~~~  409 (623)
                      ||.|++++|.+|+| .+|+....|+|..+|+  +|++.+
T Consensus        68 vv~i~~g~v~~~~g~~qL~i~~~~~i~~~~~~~~~~~~~  106 (119)
T 1o7i_A           68 VVKIENAWTTAFKGQVQLNAGSKTKIAEASEDGFPESSQ  106 (119)
T ss_dssp             EEEEEEEEEEEETTEEEEEECTTCEEEECCCTTCCCGGG
T ss_pred             EEEEEeEEEEEeCCEEEEEECCCEEEEEcCCcCCCcHHH
Confidence            99999999999999 5899999999999874  444443

>3dm3_A Replication factor A; probably plays AN essential for replication of the chromosome, DNA recombination and repair; 2.40A {Methanocaldococcus jannaschii}

Probab=99.31  E-value=1.5e-11  Score=106.33  Aligned_cols=93  Identities=18%  Similarity=0.261  Sum_probs=78.2

Q ss_pred             ccccccccccccCCcceeEEEEEEEEeCCceEEEEccCCceeeEEEEEEEeCCccEEEEEEechhhhhhhhHhhhcCCCC
Q 006973          293 NFVPIDELGRYVNGTELVDIIGVVQNVSPTMSIRRKSNNEMVPKRDITVADETKRTVTVSLWNELATNVGQELLDNADKS  372 (623)
Q Consensus       293 ~f~~i~di~~~~~~~~~vDVIGvV~~v~~~~~i~~k~~g~~~~kr~i~l~D~sg~~I~vtLWg~~A~~~~~~~~~~~~~~  372 (623)
                      +|++|+||..    +..+||+|+|++++++.+++++ +|++..+|+++|.|+|| +|++||||+.|..       ....+
T Consensus         4 ~~~~I~dL~~----~~~v~v~g~V~~~~~~r~~~~~-~G~~~~v~~~~l~D~TG-~IrvtlW~~~a~~-------~l~~G   70 (105)
T 3dm3_A            4 DTYNIGELSP----GMTATFEGEVISALPIKEFKRA-DGSIGKLKSFIVRDETG-SIRVTLWDNLTDI-------DVGRG   70 (105)
T ss_dssp             CEECGGGCCS----SEEEEEEEEEEEEEEEEEEECT-TSCEEEEEEEEEEETTE-EEEEEEEGGGGGS-------CCCTT
T ss_pred             cceEHHHCCC----CCeEEEEEEEEECCCceEEEcC-CCCeeEEEEEEEECCCC-cEEEEEECccccc-------ccCCC
Confidence            5789999975    2689999999999999999876 68889999999999999 8999999999985       14678


Q ss_pred             cEEEEEeEEeeec--cceeeecccceEEE
Q 006973          373 PIVAIKSLKVGDF--QGISLSTLGRSTVL  399 (623)
Q Consensus       373 ~Vv~i~~~kV~~f--~G~~Ls~~~~S~i~  399 (623)
                      .+|.| .++|+.+  ++..|+....|.|.
T Consensus        71 dvv~i-~g~vk~~~~g~~eL~~g~~~~i~   98 (105)
T 3dm3_A           71 DYVRV-RGYIREGYYGGLECTANYVEILK   98 (105)
T ss_dssp             CEEEE-EEEEEECTTSSEEEEEEEEEEEE
T ss_pred             CEEEE-EEEEEEccCCCEEEEeCCceEEE
Confidence            99999 6777654  46889888777664

>2k50_A Replication factor A related protein; uncharacterized protein, structural genomics, PSI-2; NMR {Methanothermobacterthermautotrophicus str}

Probab=99.21  E-value=6.9e-11  Score=104.28  Aligned_cols=102  Identities=25%  Similarity=0.361  Sum_probs=87.5

Q ss_pred             CeeeccccCCCCCCeEEEEEEEeeccccccccCCC-cccEEEEEEEeCCCCeEEEEEechHHHHHHhhcccCcEEEEeee
Q 006973          173 RVHPLVSLNPYQGNWTIKVRVTSKGNMRTYKNARG-EGCVFNVELTDEDGTQIQATMFNEAARKFYDRFQLGKVYYISRG  251 (623)
Q Consensus       173 ~~~~I~~L~p~~~~w~I~~RV~~K~~~r~~~~~~g-~g~~f~~~L~D~~G~~I~at~~~~~~~kf~~~l~eG~vy~is~~  251 (623)
                      .+++|++|.|+.. .+|.|+|..++++|+|.+.+| ++++++++|.|++| +|++++|++.++.+ +.|++|++|.|++.
T Consensus         6 ~~~~I~~L~~g~~-v~i~~~V~~~~~~~~~~~k~G~~~~~~~~~l~D~TG-~I~~t~w~~~~~~~-~~l~~G~vv~i~g~   82 (115)
T 2k50_A            6 RMDTISKLEEGAE-TPVTGRVMKISSPRTFTTRKGREGKLANVIIADDTG-ELRAVFWTENIKLL-KKFREGDVIRIKDV   82 (115)
T ss_dssp             CCCCTTTCCTTCE-EEEEEEEEEECCCEECCCTTSSCCEEEEEEEEETTE-EEEEEEETTGGGGG-GTCCTTSEEEEEEE
T ss_pred             ceEEHHHCCCCCE-eEEEEEEEECCCceEEEcCCCCEEEEEEEEEEeCCC-eEEEEEeCchhhhh-hcCCCCCEEEEEee
Confidence            4689999999864 599999999999998876665 37899999999999 99999999988766 67999999999998


Q ss_pred             EEEecCCCccccCCceEEEEccCcEEEEccCc
Q 006973          252 TLRVANKQFKTVQNDYEMNLNENSEVEEAVNE  283 (623)
Q Consensus       252 ~V~~a~~~~~~~~~~yei~f~~~T~I~~~~d~  283 (623)
                      .|+..   |+   ..++|.+...+.|++++|-
T Consensus        83 ~v~~~---f~---g~~qL~~~~~~~i~~~~~~  108 (115)
T 2k50_A           83 NIRGG---FG---GRKEAHLMPRSTVEVLDPL  108 (115)
T ss_dssp             EECCC---SS---SSCEEEECTTCCEEEESSC
T ss_pred             EEccc---cC---CeEEEEECCCceEEECCcc
Confidence            87543   32   5699999999999998764

>2k75_A Uncharacterized protein TA0387; closed beta barrel, OB fold, structural genomics, PSI-2, protein structure initiative; NMR {Thermoplasma acidophilum}

Probab=99.13  E-value=3.7e-10  Score=97.91  Aligned_cols=93  Identities=13%  Similarity=0.217  Sum_probs=80.5

Q ss_pred             eeeccccCCCCCCeEEEEEEEeeccccccccCCC-cccEEEEEEEeCCCCeEEEEEechHHHHHHhhcccCcEEEEeeeE
Q 006973          174 VHPLVSLNPYQGNWTIKVRVTSKGNMRTYKNARG-EGCVFNVELTDEDGTQIQATMFNEAARKFYDRFQLGKVYYISRGT  252 (623)
Q Consensus       174 ~~~I~~L~p~~~~w~I~~RV~~K~~~r~~~~~~g-~g~~f~~~L~D~~G~~I~at~~~~~~~kf~~~l~eG~vy~is~~~  252 (623)
                      +++|++|.|+...+++.+||+.+++.| .. ..| ++++.+++|.|++| +|++++|++.       |++|++|.|.|+.
T Consensus         3 ~~kI~dl~pg~~~v~v~~~V~~~~~~~-~~-k~G~~~~v~~~~l~DeTG-~I~~tlW~~~-------l~~Gdvv~i~ng~   72 (106)
T 2k75_A            3 LVKIRDVSLSTPYVSVIGKITGIHKKE-YE-SDGTTKSVYQGYIEDDTA-RIRISSFGKQ-------LQDSDVVRIDNAR   72 (106)
T ss_dssp             BCCSTTCCTTCSEEEEEEEEEEEEEEE-EE-ETTEEEEEEEEEEECSSC-EEEEEEESSC-------CCTTEEEEEEEEE
T ss_pred             cEEHHHcCCCCceEEEEEEEEEccccc-cc-cCCCeeEEEEEEEEcCCC-eEEEEEEcCc-------cCCCCEEEEEeeE
Confidence            578999999988899999999999987 22 233 45699999999999 8999999986       9999999999999


Q ss_pred             EEecCCCccccCCceEEEEccCcEEEEccCc
Q 006973          253 LRVANKQFKTVQNDYEMNLNENSEVEEAVNE  283 (623)
Q Consensus       253 V~~a~~~~~~~~~~yei~f~~~T~I~~~~d~  283 (623)
                      +...       ...++|.++..+.|+++.+.
T Consensus        73 v~~~-------~g~~~L~v~~~~~I~~~~~~   96 (106)
T 2k75_A           73 VAQF-------NGYLSLSVGDSSRIESVNVN   96 (106)
T ss_dssp             EEEE-------TTEEEEEECTTSEEEECCSC
T ss_pred             EeEE-------CCEEEEEECCcEEEEECCCC
Confidence            8764       35689999999999998754

>3e0e_A Replication protein A; structural genomics, PSI-2, protein structure initiative, northeast structural genomics consortium, NESG; 1.60A {Methanococcus maripaludis} PDB: 2k5v_A

Probab=99.02  E-value=2.2e-09  Score=91.47  Aligned_cols=91  Identities=23%  Similarity=0.225  Sum_probs=71.5

Q ss_pred             ccccccccccCCcceeEEEEEEEEeCCceEEEEccCCceeeEEEEEEEeCCccEEEEEEechhhhhhhhHhhhcCCCCcE
Q 006973          295 VPIDELGRYVNGTELVDIIGVVQNVSPTMSIRRKSNNEMVPKRDITVADETKRTVTVSLWNELATNVGQELLDNADKSPI  374 (623)
Q Consensus       295 ~~i~di~~~~~~~~~vDVIGvV~~v~~~~~i~~k~~g~~~~kr~i~l~D~sg~~I~vtLWg~~A~~~~~~~~~~~~~~~V  374 (623)
                      .+|+||..    +..++++|.|.+++++..+.++ +|.+...+++.|.|+|| +|++|||++.|..       .+..+.+
T Consensus         3 ~kI~dl~~----g~~v~i~~~V~~~~~~r~~~~~-~G~~~~v~~~~l~DeTG-~I~~tlW~~~~~~-------~i~~Gdv   69 (97)
T 3e0e_A            3 YKISELMP----NLSGTINAEVVTAYPKKEFSRK-DGTKGQLKSLFLKDDTG-SIRGTLWNELADF-------EVKKGDI   69 (97)
T ss_dssp             ECGGGCCT----TEEEEEEEEEEEECCCEEEC-----CCEEEEEEEEEETTE-EEEEEEEGGGGGC-------CCCTTCE
T ss_pred             eEHHHCCC----CCcEEEEEEEEECCCceEEEcC-CCCeeEEEEEEEECCCC-cEEEEEECCcccc-------ccCCCCE
Confidence            36778764    3689999999999999988776 57778899999999999 9999999999975       1467999


Q ss_pred             EEEEeEEeeeccc-eeeecccceEEE
Q 006973          375 VAIKSLKVGDFQG-ISLSTLGRSTVL  399 (623)
Q Consensus       375 v~i~~~kV~~f~G-~~Ls~~~~S~i~  399 (623)
                      |.+ .++|+.|.| ..|+....+.|.
T Consensus        70 v~i-~g~v~~~~~~~el~~g~~~~i~   94 (97)
T 3e0e_A           70 AEV-SGYVKQGYSGLEISVDNIGIIE   94 (97)
T ss_dssp             EEE-EEEEEEC--CEEEEEEEEEEEE
T ss_pred             EEE-EEEEEEcCCeEEEEECCCcEEE
Confidence            999 679888765 688887777663

>1wjj_A Hypothetical protein F20O9.120; DNA-binding protein-related, structural genomics, riken structural genomics/proteomics initiative, RSGI; NMR {Arabidopsis thaliana} SCOP: b.40.4.3

Probab=98.93  E-value=8.1e-09  Score=93.82  Aligned_cols=98  Identities=13%  Similarity=0.167  Sum_probs=83.5

Q ss_pred             CeeeccccCCCCCCeEEEEEEEeecccc---ccccCCC-------cccEEEEEEEeCCCCeEEEEEechHHHHHHhhccc
Q 006973          173 RVHPLVSLNPYQGNWTIKVRVTSKGNMR---TYKNARG-------EGCVFNVELTDEDGTQIQATMFNEAARKFYDRFQL  242 (623)
Q Consensus       173 ~~~~I~~L~p~~~~w~I~~RV~~K~~~r---~~~~~~g-------~g~~f~~~L~D~~G~~I~at~~~~~~~kf~~~l~e  242 (623)
                      .+++|++|.|...+.++.|||+..++++   ++....|       ++++.++.|.|++| .|+.|+|++.++    +|++
T Consensus        15 ~~~kI~dL~pg~~~v~l~~kVl~~~~v~~~~~~~R~dG~~~~~~r~~~V~~~lVgDeTG-~I~ftlW~e~~~----~l~~   89 (145)
T 1wjj_A           15 VFVKVEQLKPGTTGHTLTVKVIEANIVVPVTRKTRPASSLSRPSQPSRIVECLIGDETG-CILFTARNDQVD----LMKP   89 (145)
T ss_dssp             SSCCSTTCCTTCCCEEEEEEEEEEEECCSSSSCCSCSSCCSSCCCCCCCEEEEEECSSC-EEEEEECTTHHH----HTCT
T ss_pred             cceEHHHcCCCCCceEEEEEEEEcccccccccccccCCccccccCCceEEEEEEEcCCc-EEEEEEecCCcC----cCCC
Confidence            4789999999998999999999999988   5543334       67899999999999 999999998765    4889


Q ss_pred             CcEEEEeeeEEEecCCCccccCCceEEEEccCcEEEEccC
Q 006973          243 GKVYYISRGTLRVANKQFKTVQNDYEMNLNENSEVEEAVN  282 (623)
Q Consensus       243 G~vy~is~~~V~~a~~~~~~~~~~yei~f~~~T~I~~~~d  282 (623)
                      |++|.|.|+.++..+       ...+|.++.++.|++.++
T Consensus        90 Gd~v~i~na~v~~~~-------G~~~L~vgk~g~Ie~~~e  122 (145)
T 1wjj_A           90 GATVILRNSRIDMFK-------GTMRLGVDKWGRIEATGA  122 (145)
T ss_dssp             TCEEEEEEEEEEEET-------TEEEEEECTTCCBCCCSC
T ss_pred             CCEEEEeccEEEeEC-------CEEEEEECCCEEEEECCC
Confidence            999999999887543       358999999999988754

>2k75_A Uncharacterized protein TA0387; closed beta barrel, OB fold, structural genomics, PSI-2, protein structure initiative; NMR {Thermoplasma acidophilum}

Probab=98.88  E-value=1.3e-08  Score=88.23  Aligned_cols=91  Identities=21%  Similarity=0.318  Sum_probs=76.2

Q ss_pred             cccccccccccccCCcceeEEEEEEEEeCCceEEEEccCCceeeEEEEEEEeCCccEEEEEEechhhhhhhhHhhhcCCC
Q 006973          292 FNFVPIDELGRYVNGTELVDIIGVVQNVSPTMSIRRKSNNEMVPKRDITVADETKRTVTVSLWNELATNVGQELLDNADK  371 (623)
Q Consensus       292 ~~f~~i~di~~~~~~~~~vDVIGvV~~v~~~~~i~~k~~g~~~~kr~i~l~D~sg~~I~vtLWg~~A~~~~~~~~~~~~~  371 (623)
                      |+|++|.||..   ....++++|.|.++++..  .++ +|++...+++.|.|+|| +|++|||++.   +        ..
T Consensus         1 ~~~~kI~dl~p---g~~~v~v~~~V~~~~~~~--~~k-~G~~~~v~~~~l~DeTG-~I~~tlW~~~---l--------~~   62 (106)
T 2k75_A            1 SDLVKIRDVSL---STPYVSVIGKITGIHKKE--YES-DGTTKSVYQGYIEDDTA-RIRISSFGKQ---L--------QD   62 (106)
T ss_dssp             CCBCCSTTCCT---TCSEEEEEEEEEEEEEEE--EEE-TTEEEEEEEEEEECSSC-EEEEEEESSC---C--------CT
T ss_pred             CCcEEHHHcCC---CCceEEEEEEEEEccccc--ccc-CCCeeEEEEEEEEcCCC-eEEEEEEcCc---c--------CC
Confidence            57889999975   234699999999999876  344 57767799999999999 8999999988   2        56


Q ss_pred             CcEEEEEeEEeeeccce-eeecccceEEEE
Q 006973          372 SPIVAIKSLKVGDFQGI-SLSTLGRSTVLV  400 (623)
Q Consensus       372 ~~Vv~i~~~kV~~f~G~-~Ls~~~~S~i~i  400 (623)
                      |.+|.++++++..|+|. +|+....|+|..
T Consensus        63 Gdvv~i~ng~v~~~~g~~~L~v~~~~~I~~   92 (106)
T 2k75_A           63 SDVVRIDNARVAQFNGYLSLSVGDSSRIES   92 (106)
T ss_dssp             TEEEEEEEEEEEEETTEEEEEECTTSEEEE
T ss_pred             CCEEEEEeeEEeEECCEEEEEECCcEEEEE
Confidence            89999999999999995 898888887764

>2kbn_A Conserved protein; nucleic acid binding protein, beta barrel, structural genomics, PSI-2, protein structure initiative; NMR {Methanosarcina mazei} PDB: 2ken_A

Probab=98.71  E-value=1.2e-07  Score=82.49  Aligned_cols=94  Identities=19%  Similarity=0.234  Sum_probs=76.9

Q ss_pred             CeeeccccCCCCCCeEEEEEEEeeccccccccCCCcccEEEEEEEeCCCCeEEEEEechHHHHHHhhcccCcEEEEeeeE
Q 006973          173 RVHPLVSLNPYQGNWTIKVRVTSKGNMRTYKNARGEGCVFNVELTDEDGTQIQATMFNEAARKFYDRFQLGKVYYISRGT  252 (623)
Q Consensus       173 ~~~~I~~L~p~~~~w~I~~RV~~K~~~r~~~~~~g~g~~f~~~L~D~~G~~I~at~~~~~~~kf~~~l~eG~vy~is~~~  252 (623)
                      ++.+|++|.|+..+.++.|||+.+|..+.      ......++|.|++| .|++++|++.   -.+.|++|++|.|.|+.
T Consensus         4 ~~~kI~dl~~~~~~v~v~~~V~~~~~~~~------~~~~~~~~l~DeTG-~I~~t~W~~~---~~~~~~~G~~V~i~n~~   73 (109)
T 2kbn_A            4 QLTKIVDIVENGQWANLKAKVIQLWENTH------ESISQVGLLGDETG-IIKFTIWKNA---ELPLLEQGESYLLRSVV   73 (109)
T ss_dssp             CBCCTTTCCSTTCEEEEEEEEEEEEECCC------SSEEEEEEEECTTC-CEEEEEEGGG---CCCCCCTTCEEEEEEEE
T ss_pred             CceEHHHCCCCCCcEEEEEEEEEeEcCCC------CeEEEEEEEECCCC-eEEEEEECcc---cccccCCCCEEEEEEEE
Confidence            46789999998778899999999987432      23466799999999 8999999943   22479999999999999


Q ss_pred             EEecCCCccccCCceEEEEccCcEEEEccCc
Q 006973          253 LRVANKQFKTVQNDYEMNLNENSEVEEAVNE  283 (623)
Q Consensus       253 V~~a~~~~~~~~~~yei~f~~~T~I~~~~d~  283 (623)
                      +...+       ...+|.++..+.|++.+++
T Consensus        74 v~~~~-------G~~~L~v~~~~~I~~~~~~   97 (109)
T 2kbn_A           74 VGEYN-------DRFQVQVNKNSSIEKLSEP   97 (109)
T ss_dssp             EEEET-------TEEEEEECSSSEEEECSSC
T ss_pred             EEEEC-------CEEEEEECCceEEEECCCc
Confidence            97764       3489999999999987553

>4gop_C Putative uncharacterized protein; OB fold, ssDNA binding, DNA binding protein-DNA complex; HET: DNA; 3.10A {Ustilago maydis}

Probab=98.65  E-value=1.5e-06  Score=94.32  Aligned_cols=260  Identities=13%  Similarity=0.076  Sum_probs=162.2

Q ss_pred             eEEEEEeCcccceeeccccccccccccCccceeeEEEEcceeeeccCCCceEEEEEEeeeeeccccchhhccccCCCCCc
Q 006973           41 RYMFNASDGKKRLKAILPSNLSSEVISGNIQNKGLIRLLDYALNEIPTKSEKYLIVTKCEVVSPALEMEIKIEVKSDESG  120 (623)
Q Consensus        41 ryr~~lSDG~~~~~~mlat~ln~~v~~~~l~~~siirl~~y~~~~~~~~~~~vlii~~lev~~~~~~~~~~~~~~~~~~~  120 (623)
                      -|.+.|-|....+++.++.++-+... ..|+.|.++.|.++.+.....+         ...+...  +++.-...+   .
T Consensus        40 ~~~~~L~De~G~I~at~~~~~~~~f~-~~l~eG~vy~Is~~~V~~~~~~---------y~~~~~~--~ei~~~~~T---~  104 (444)
T 4gop_C           40 LFSVNLLDDSGEIKATGFNDAVDRFY-PLLQENHVYLISKARVNIAKKQ---------FSNLQNE--YEITFENST---E  104 (444)
T ss_dssp             EEEEEEECSSCEEEEEEETHHHHHHT-TTCCTTCEEEEESCEEEECCGG---------GCSCCCS--EEEEECTTC---E
T ss_pred             EEEEEEEcCCCEEEEEEeHHHHHHHH-HheecCCEEEEcCCEEEecCCc---------cccCCCC--EEEEEcCCc---E
Confidence            36899999988899988877666554 4799999999999988643221         0000000  001000000   0


Q ss_pred             ccCCCCCccccCCCCCCcccCchhhhhhhhhhhhhccccCCCCccccccCCcCeeeccccCCC--CCCeEEEEEEEeecc
Q 006973          121 IIFKPKQEDEVKKDGPGIVLKPKQEMVAKSAAQILRDQNGNMAPAARLAMTRRVHPLVSLNPY--QGNWTIKVRVTSKGN  198 (623)
Q Consensus       121 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~I~~L~p~--~~~w~I~~RV~~K~~  198 (623)
                      +..-+..           ..-|                      .    ..-.++||++|...  ...--|.|.|+..++
T Consensus       105 V~~~~d~-----------~~iP----------------------~----~~~~f~~i~~i~~~~~~~~vDViG~V~~v~~  147 (444)
T 4gop_C          105 IEECTDA-----------TDVP----------------------E----VKYEFVRINELESVEANQQCDVIGILDSYGE  147 (444)
T ss_dssp             EEECSCC-----------SSSC----------------------C----CCCCBCCGGGGGGSCSSCCCBEEEEEEEECC
T ss_pred             EEEccCc-----------ccCc----------------------c----eeecccCHHHHhccCCCCceEEEEEEEEcCC
Confidence            0000000           0000                      0    01236788888653  234669999999999


Q ss_pred             ccccccC-CC-cccEEEEEEEeCCCCeEEEEEechHHHHHHh--hcccCcEEEEeeeEEEecCCCccccCCceEEEEccC
Q 006973          199 MRTYKNA-RG-EGCVFNVELTDEDGTQIQATMFNEAARKFYD--RFQLGKVYYISRGTLRVANKQFKTVQNDYEMNLNEN  274 (623)
Q Consensus       199 ~r~~~~~-~g-~g~~f~~~L~D~~G~~I~at~~~~~~~kf~~--~l~eG~vy~is~~~V~~a~~~~~~~~~~yei~f~~~  274 (623)
                      ++++... +| ++...++.|.|++|..|++|+|++.|+.|..  .+..|.|+.|.+++|+.-+++        .|+....
T Consensus       148 ~~~i~~k~~g~~~~kr~i~L~D~sg~~i~~tLWg~~A~~f~~~~~~~~~~VV~i~~~kV~~f~G~--------~ls~~~~  219 (444)
T 4gop_C          148 LSEIVSKASQRPVQKRELTLVDQGNRSVKLTLWGKTAETFPTNAGVDEKPVLAFKGVKVGDFGGR--------SLSMFSS  219 (444)
T ss_dssp             CEEECCTTTCSCEEEEEEEEECTTCBEEEEEEEHHHHHTSTTSTTSSSCCEEEEESCEEECTTSS--------EEECCTT
T ss_pred             cEEEEEccCCceeeEEEEEEEeCCCCEEEEEEEhhhhhhhhhhhccCCCCEEEEEeEEEeecCCe--------EEecccc
Confidence            9988643 23 4668899999999999999999999999883  368899999999999754332        4556666


Q ss_pred             cEEEEccCcC------------------CCCC---------------CCccccccccccccc-c---CCcceeEEEEEEE
Q 006973          275 SEVEEAVNET------------------AFIP---------------QTKFNFVPIDELGRY-V---NGTELVDIIGVVQ  317 (623)
Q Consensus       275 T~I~~~~d~~------------------~~iP---------------~~~~~f~~i~di~~~-~---~~~~~vDVIGvV~  317 (623)
                      |+|..-+|.|                  ..+.               .......+|++|.+. +   ++...+.|.|.|.
T Consensus       220 s~i~inPdipea~~l~~w~~~~g~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~kti~~i~~~~~g~~~~~~~~~v~atI~  299 (444)
T 4gop_C          220 STMLINPDITESHVLRGWYDNDGAHAQFQPYTNGGVGGGAMGGGGAGANMAERRTIVQVKDENLGMSEKPDYFNVRATVV  299 (444)
T ss_dssp             CEEEESCSSHHHHHHHHHHHHHTTTSCCBCCCCCC---------CTTCCSSEECCHHHHHHTTTTSSSSCEEEEEEEEEE
T ss_pred             ceEEECCCCHHHHHHHHHHHcCCCCcccccccccccccccccccccccccccceeHHHHhhhccCCCCCCcEEEEEEEEE
Confidence            6666543310                  0010               012345678887652 1   2345788999999


Q ss_pred             EeCCce-------------EEEEccCC--------ce---ee---EEEEEEEeCCccEEEEEEechhhhhh
Q 006973          318 NVSPTM-------------SIRRKSNN--------EM---VP---KRDITVADETKRTVTVSLWNELATNV  361 (623)
Q Consensus       318 ~v~~~~-------------~i~~k~~g--------~~---~~---kr~i~l~D~sg~~I~vtLWg~~A~~~  361 (623)
                      .+..-.             .+....+|        +.   ..   +..+.|.|.|| .+.+++||+.|+++
T Consensus       300 ~i~~~~~~Y~aC~~~~C~kkv~~~~~g~~~C~~C~~~~~~~~~ry~l~~~v~D~Tg-~~~~~~F~~~a~~l  369 (444)
T 4gop_C          300 YIKQENLYYTACASEGCNKKVNLDHENNWRCEKCDRSYATPEYRYILSTNVADATG-QMWLSGFNEDATQL  369 (444)
T ss_dssp             EECCTTCEEEECCSTTCCCBEEECTTSCEEETTTTEEESSCEEEECEEEEEEETTE-EEEEEECHHHHHHH
T ss_pred             EEcCCceEEccCCcccCCCccccCCCccEECCCCCCcCccccEEEEEEEEEEeCCC-CEEEEEehHHHHHH
Confidence            986421             11111112        11   12   34789999999 78999999999854

>1jmc_A Protein (replication protein A (RPA)); human ssDNA binding replication protein A(RPA), single stranded DNA-binding protein, protein-ssDNA complex; HET: DNA; 2.40A {Homo sapiens} SCOP: b.40.4.3 b.40.4.3 PDB: 1fgu_A

Probab=98.64  E-value=7.3e-06  Score=81.73  Aligned_cols=177  Identities=13%  Similarity=0.126  Sum_probs=122.6

Q ss_pred             ccccccccccccCCcceeEEEEEEEEeCCceEEEEccCCceeeEEEEEEEeCCccEEEEEEechhhhhhhhHhhhcCCCC
Q 006973          293 NFVPIDELGRYVNGTELVDIIGVVQNVSPTMSIRRKSNNEMVPKRDITVADETKRTVTVSLWNELATNVGQELLDNADKS  372 (623)
Q Consensus       293 ~f~~i~di~~~~~~~~~vDVIGvV~~v~~~~~i~~k~~g~~~~kr~i~l~D~sg~~I~vtLWg~~A~~~~~~~~~~~~~~  372 (623)
                      .+++|++|...   .....+.|.|+..++++.+..+.  .+....++.|.|++| .|++|+|++.|..|.+.    +..|
T Consensus         7 ~~~~I~~L~p~---~~~w~I~~rV~~k~~~r~~~~~~--~~g~~~~~~L~De~G-~I~at~~~~~~~~~~~~----l~~G   76 (246)
T 1jmc_A            7 KVVPIASLTPY---QSKWTICARVTNKSQIRTWSNSR--GEGKLFSLELVDESG-EIRATAFNEQVDKFFPL----IEVN   76 (246)
T ss_dssp             CBCCGGGCCTT---CCCCEEEEEEEEECCCEEEECSS--CEEEEEEEEEECSSC-EEEEEEEHHHHHHHGGG----CCTT
T ss_pred             ceEEHHHCCCC---CCceEEEEEEEEecccceeeCCC--CCceEEEEEEECCCC-eEEEEEChHHHHHhhhh----cccC
Confidence            57889999753   23578999999999999886542  346678999999999 99999999999987543    5779


Q ss_pred             cEEEEEeEEeeeccc--------eeeecccceEEEEcCChHHHHHHHHHHHhCCCccceeeecCCcCccccCCccccccc
Q 006973          373 PIVAIKSLKVGDFQG--------ISLSTLGRSTVLVSPDLPEAKKLKSWYESEGKGTSMASIGSGLGSLAKNGARSMYSD  444 (623)
Q Consensus       373 ~Vv~i~~~kV~~f~G--------~~Ls~~~~S~i~iNPd~pe~~~l~~w~~~~g~~~~~~~~~~~~~~~~~~~~~~~~~~  444 (623)
                      .++.|.+++|+..++        ..|.....|.|..-++.+                .   +     +       ....+
T Consensus        77 ~vy~i~~~~v~~~~~~y~~~~~~~ei~~~~~T~I~~~~~~~----------------~---i-----P-------~~~~~  125 (246)
T 1jmc_A           77 KVYYFSKGTLKIANKQFTAVKNDYEMTFNNETSVMPCEDDH----------------H---L-----P-------TVQFD  125 (246)
T ss_dssp             CEEEEECCEEEECCGGGCCCCCSEEEECCTTCEEEECCSCS----------------C---C-----C-------CCCCC
T ss_pred             CEEEECCCEEEEcccCcccCCCCEEEEEcCCcEEEEccCcc----------------c---C-----C-------cceee
Confidence            999999999986432        245555566665544321                0   0     0       01123


Q ss_pred             ceehhccccCCCCCCCCCeEEEEEEEEEEEeCCCCeEeccccccccceecCCCCeeecCcCCCCccccceeEEEEEEEEe
Q 006973          445 RVSLTHITSNPSLGDEKPVFFSIKAYISLIKPDQAMWYRACKTCNKKVTDALGSGYWCEGCQKNDEECSLRYIMVARVCD  524 (623)
Q Consensus       445 ~~ti~~i~~~~~~~~~~~~~~~v~a~I~~i~~d~~~~Y~aC~~C~KKv~~~~~~~~~C~kC~~~~~~~~~ry~l~~~i~D  524 (623)
                      ...+++|.+.     +...+..|.|.|..+..-..+  ...         . +|              ....+..+.|.|
T Consensus       126 f~~i~~i~~~-----~~~~~vDViG~V~~v~~~~~~--~~k---------~-~g--------------~~~~~r~~~l~D  174 (246)
T 1jmc_A          126 FTGIDDLENK-----SKDSLVDIIGICKSYEDATKI--TVR---------S-NN--------------REVAKRNIYLMD  174 (246)
T ss_dssp             BCCGGGGGGS-----CTTCEEEEEEEEEEECCCEEE--EET---------T-TT--------------EEEEEEEEEEEC
T ss_pred             eEEHHHHhcc-----cCCCceeEEEEEEEecCeEEE--EEe---------c-CC--------------CccEEEEEEEEC
Confidence            4567777651     223467899999999753211  110         0 11              134578899999


Q ss_pred             CCCc-EEEEEehHhHHHH
Q 006973          525 GSGE-AWISIFNEEAERI  541 (623)
Q Consensus       525 ~Tg~-~~~~~F~~~ae~l  541 (623)
                      .||. +.+++|++.|+.+
T Consensus       175 ~sg~~i~~tLWg~~a~~~  192 (246)
T 1jmc_A          175 TSGKVVTATLWGEDADKF  192 (246)
T ss_dssp             TTCCEEEEEEEHHHHHHC
T ss_pred             CCCCEEEEEEEchhhhhc
Confidence            9995 8999999999875

>1wjj_A Hypothetical protein F20O9.120; DNA-binding protein-related, structural genomics, riken structural genomics/proteomics initiative, RSGI; NMR {Arabidopsis thaliana} SCOP: b.40.4.3

Probab=98.51  E-value=2.6e-07  Score=83.93  Aligned_cols=101  Identities=16%  Similarity=0.175  Sum_probs=78.5

Q ss_pred             CCccccccccccccccCCcceeEEEEEEEEeCCce---EEEEccCCc------eeeEEEEEEEeCCccEEEEEEechhhh
Q 006973          289 QTKFNFVPIDELGRYVNGTELVDIIGVVQNVSPTM---SIRRKSNNE------MVPKRDITVADETKRTVTVSLWNELAT  359 (623)
Q Consensus       289 ~~~~~f~~i~di~~~~~~~~~vDVIGvV~~v~~~~---~i~~k~~g~------~~~kr~i~l~D~sg~~I~vtLWg~~A~  359 (623)
                      ...-.|++|.||..   ...-+++.|.|.+++++.   ...+ .+|.      ....+++.|.|+|| +|++|||++++.
T Consensus        11 ~~kp~~~kI~dL~p---g~~~v~l~~kVl~~~~v~~~~~~~R-~dG~~~~~~r~~~V~~~lVgDeTG-~I~ftlW~e~~~   85 (145)
T 1wjj_A           11 KRKPVFVKVEQLKP---GTTGHTLTVKVIEANIVVPVTRKTR-PASSLSRPSQPSRIVECLIGDETG-CILFTARNDQVD   85 (145)
T ss_dssp             CCCCSSCCSTTCCT---TCCCEEEEEEEEEEEECCSSSSCCS-CSSCCSSCCCCCCCEEEEEECSSC-EEEEEECTTHHH
T ss_pred             ccCccceEHHHcCC---CCCceEEEEEEEEcccccccccccc-cCCccccccCCceEEEEEEEcCCc-EEEEEEecCCcC
Confidence            33456899999975   234699999999999764   2211 2453      56788999999999 899999999886


Q ss_pred             hhhhHhhhcCCCCcEEEEEeEEeeeccce-eeecccceEEEEcC
Q 006973          360 NVGQELLDNADKSPIVAIKSLKVGDFQGI-SLSTLGRSTVLVSP  402 (623)
Q Consensus       360 ~~~~~~~~~~~~~~Vv~i~~~kV~~f~G~-~Ls~~~~S~i~iNP  402 (623)
                      .        +..|.+|.|+++.+..|+|. +|+....++|...+
T Consensus        86 ~--------l~~Gd~v~i~na~v~~~~G~~~L~vgk~g~Ie~~~  121 (145)
T 1wjj_A           86 L--------MKPGATVILRNSRIDMFKGTMRLGVDKWGRIEATG  121 (145)
T ss_dssp             H--------TCTTCEEEEEEEEEEEETTEEEEEECTTCCBCCCS
T ss_pred             c--------CCCCCEEEEeccEEEeECCEEEEEECCCEEEEECC
Confidence            5        35699999999999999995 88888777776443

>2kbn_A Conserved protein; nucleic acid binding protein, beta barrel, structural genomics, PSI-2, protein structure initiative; NMR {Methanosarcina mazei} PDB: 2ken_A

Probab=98.47  E-value=9.1e-07  Score=76.88  Aligned_cols=89  Identities=11%  Similarity=0.205  Sum_probs=69.8

Q ss_pred             cccccccccccCCcceeEEEEEEEEeCCceEEEEccCCceeeEEEEEEEeCCccEEEEEEechh-hhhhhhHhhhcCCCC
Q 006973          294 FVPIDELGRYVNGTELVDIIGVVQNVSPTMSIRRKSNNEMVPKRDITVADETKRTVTVSLWNEL-ATNVGQELLDNADKS  372 (623)
Q Consensus       294 f~~i~di~~~~~~~~~vDVIGvV~~v~~~~~i~~k~~g~~~~kr~i~l~D~sg~~I~vtLWg~~-A~~~~~~~~~~~~~~  372 (623)
                      |++|+||..   .+.-+++.|.|.++++.     + .+  ...+.+.|.|+|| +|++|+|++. +..        +..|
T Consensus         5 ~~kI~dl~~---~~~~v~v~~~V~~~~~~-----~-~~--~~~~~~~l~DeTG-~I~~t~W~~~~~~~--------~~~G   64 (109)
T 2kbn_A            5 LTKIVDIVE---NGQWANLKAKVIQLWEN-----T-HE--SISQVGLLGDETG-IIKFTIWKNAELPL--------LEQG   64 (109)
T ss_dssp             BCCTTTCCS---TTCEEEEEEEEEEEEEC-----C-CS--SEEEEEEEECTTC-CEEEEEEGGGCCCC--------CCTT
T ss_pred             ceEHHHCCC---CCCcEEEEEEEEEeEcC-----C-CC--eEEEEEEEECCCC-eEEEEEECcccccc--------cCCC
Confidence            567888864   35679999999999753     2 23  3567899999999 8999999944 322        5679


Q ss_pred             cEEEEEeEEeeeccc-eeeecccceEEEEcC
Q 006973          373 PIVAIKSLKVGDFQG-ISLSTLGRSTVLVSP  402 (623)
Q Consensus       373 ~Vv~i~~~kV~~f~G-~~Ls~~~~S~i~iNP  402 (623)
                      .+|.++++++.+|+| .+|+....+.|..-+
T Consensus        65 ~~V~i~n~~v~~~~G~~~L~v~~~~~I~~~~   95 (109)
T 2kbn_A           65 ESYLLRSVVVGEYNDRFQVQVNKNSSIEKLS   95 (109)
T ss_dssp             CEEEEEEEEEEEETTEEEEEECSSSEEEECS
T ss_pred             CEEEEEEEEEEEECCEEEEEECCceEEEECC
Confidence            999999999999999 489888888876543

>1xjv_A Protection of telomeres 1; protein-DNA complex, single-stranded DNA, transcription/DNA complex; 1.73A {Homo sapiens} SCOP: b.40.4.3 b.40.4.3 PDB: 3kjo_A 3kjp_A

Probab=98.45  E-value=2.7e-05  Score=79.80  Aligned_cols=224  Identities=14%  Similarity=0.093  Sum_probs=138.0

Q ss_pred             CeeeccccCCCCCCeEEEEEEEeeccccccccCCCcccEEEEEEEeCCCCeEEEEEechHHHHHHhhcccCcEEEEeeeE
Q 006973          173 RVHPLVSLNPYQGNWTIKVRVTSKGNMRTYKNARGEGCVFNVELTDEDGTQIQATMFNEAARKFYDRFQLGKVYYISRGT  252 (623)
Q Consensus       173 ~~~~I~~L~p~~~~w~I~~RV~~K~~~r~~~~~~g~g~~f~~~L~D~~G~~I~at~~~~~~~kf~~~l~eG~vy~is~~~  252 (623)
                      .++||++|.. ...-.+.|.|+.....+.-   +|..-..+|.|.|.+-..|.+.+|.+..+.+-...++|||+.+.+++
T Consensus         5 ~y~~l~~l~~-~~~vnvigVV~~~~~p~~s---~G~d~~~tl~I~D~S~~gl~v~iF~~~~~~LP~v~~~GDII~l~~vk   80 (294)
T 1xjv_A            5 IYTPLNQLKG-GTIVNVYGVVKFFKPPYLS---KGTDYCSVVTIVDQTNVKLTCLLFSGNYEALPIIYKNGDIVRFHRLK   80 (294)
T ss_dssp             CCCCGGGCCS-SEEEEEEEEEEEEEEEEEC---SSSSEEEEEEEECTTCCEEEEEEEESSGGGSCCCCSTTCEEEEEEEE
T ss_pred             eEEEHHHhhC-CCeeEEEEEEEEcCCCccC---CCCeEEEEEEEEcCCCCCEEEEEECCChHHCCCCCCCCCEEEEEEEE
Confidence            4889999965 4568899999988766432   35556889999998877899999998777776666999999999999


Q ss_pred             EEecCCCccccCCceEEEEccCcEEEEccCcC--CCCCCC---cc-------------------------cccccccccc
Q 006973          253 LRVANKQFKTVQNDYEMNLNENSEVEEAVNET--AFIPQT---KF-------------------------NFVPIDELGR  302 (623)
Q Consensus       253 V~~a~~~~~~~~~~yei~f~~~T~I~~~~d~~--~~iP~~---~~-------------------------~f~~i~di~~  302 (623)
                      |+..+....-       ..+....+-.....+  ...|..   .|                         .|+.|.||. 
T Consensus        81 i~~~~g~~~~-------v~~~~~s~~~f~g~~~~~~~p~~~~~~~~~~~~e~~~~~~Lr~w~~~~~~~~~~~~~L~di~-  152 (294)
T 1xjv_A           81 IQVYKKETQG-------ITSSGFASLTFEGTLGAPIIPRTSSKYFNFTTEDHKMVEALRVWASTHMSPSWTLLKLCDVQ-  152 (294)
T ss_dssp             EEEETTEEEE-------EEEEEEEEEEECCSTTCCCCCBCSCSSCCCCHHHHHHHHHHHHHHHHHCC---CCCCGGGCC-
T ss_pred             EEEECCeEEE-------EccCCeEEEEECCCCCCCcCCcccCCCcCCCHHHHHHHHHHHHHHHhccCCCCceeEHHHcc-
Confidence            9876654322       112211111221110  001111   11                         344666664 


Q ss_pred             ccCCcceeEEEEEEEEeCCc--eEEEE-ccCCceeeEEEEEEEeC--------------CccEEEEEEechhhhhhhhHh
Q 006973          303 YVNGTELVDIIGVVQNVSPT--MSIRR-KSNNEMVPKRDITVADE--------------TKRTVTVSLWNELATNVGQEL  365 (623)
Q Consensus       303 ~~~~~~~vDVIGvV~~v~~~--~~i~~-k~~g~~~~kr~i~l~D~--------------sg~~I~vtLWg~~A~~~~~~~  365 (623)
                         .+.++|+++.|+.+...  ..+.. -.||+......+...++              ...++.|++|+++|.-. +  
T Consensus       153 ---~~~f~DLv~qVv~v~~~~~~~~~LyVwDgT~~~~~~~~~~~~~~~~~gd~~~~~~~~~lt~~V~~~d~h~~~~-~--  226 (294)
T 1xjv_A          153 ---PMQYFDLTCQLLGKAEVDGASFLLKVWDGTRTPFPSWRVLIQDLVLEGDLSHIHRLQNLTIDILVYDNHVHVA-R--  226 (294)
T ss_dssp             ---SSCEEEEEEEEEEEEECSSSEEEEEEECSSCCSSCBCCCCCCSSCCEECHHHHHHHGGGSEEEEEETTHHHHH-H--
T ss_pred             ---cCCeeeEEEEEEEEEecCCCeEEEEEECCCCCCCCccccccccccccCcccccccccCeeEEEEEEcchhHHH-h--
Confidence               35799999999987532  11111 11333222111111110              11279999999998532 2  


Q ss_pred             hhcCCCCcEEEEEeEEeeec--------cce---eeec--ccceEEEEcC-ChHHHHHHHHHHHh
Q 006973          366 LDNADKSPIVAIKSLKVGDF--------QGI---SLST--LGRSTVLVSP-DLPEAKKLKSWYES  416 (623)
Q Consensus       366 ~~~~~~~~Vv~i~~~kV~~f--------~G~---~Ls~--~~~S~i~iNP-d~pe~~~l~~w~~~  416 (623)
                        ....|..|.|.+++++.-        +|.   .|..  ...++|.+-| +.+.+.+++++++.
T Consensus       227 --~lk~Gd~V~l~Nv~~k~~~~~~~~~~~~~le~~lh~~~~~~~~i~~l~~~~~~~~~~~~~~~~  289 (294)
T 1xjv_A          227 --SLKVGSFLRIYSLHTKLQSMNSENQTMLSLEFHLHGGTSYGRGIRVLPESNSDVDQLKKDLES  289 (294)
T ss_dssp             --HCCTTCEEEEEEEEEEEEEECTTSCEEEEEEEEECSSCGGGCEEEEECTTSHHHHHHHHHHHH
T ss_pred             --cCCCCcEEEEeeeEEEecccccccCCCcceEEEEecCcccCcEeEEecCCCCCHHHHHHHHhh
Confidence              257799999999888754        221   2322  3456777766 55778888877653

>1miu_A BRCA2, breast cancer type 2 susceptibility protein; tumor suppressor, breast cancer susceptibility, DNA-binding; 3.10A {Mus musculus} SCOP: a.170.1.1 a.171.1.1 b.40.4.3 b.40.4.3 b.40.4.3 PDB: 1iyj_B 1mje_A

Probab=98.32  E-value=5.8e-05  Score=84.40  Aligned_cols=181  Identities=16%  Similarity=0.208  Sum_probs=123.9

Q ss_pred             EEEEEEEeCC--CCeEEEEEechHHHHHHhhcccCcEEEEeeeEEEecCCCccccCCceEEEEccCcEEEEccCcC----
Q 006973          211 VFNVELTDED--GTQIQATMFNEAARKFYDRFQLGKVYYISRGTLRVANKQFKTVQNDYEMNLNENSEVEEAVNET----  284 (623)
Q Consensus       211 ~f~~~L~D~~--G~~I~at~~~~~~~kf~~~l~eG~vy~is~~~V~~a~~~~~~~~~~yei~f~~~T~I~~~~d~~----  284 (623)
                      ++.+-++|-.  +...-.++|+..-+ ..+.|+||++|.|.+......  +.+......+|+-...|.+.+.+..+    
T Consensus       512 ~~klRV~d~~~~~k~~iLSIW~P~ed-l~s~L~EG~~y~iy~L~~s~s--~~~~~~~~lqLtAtk~T~~~~L~~~~~~~~  588 (738)
T 1miu_A          512 VWKLRVTSYKKKEKSALLSIWRPSSD-LSSLLTEGKRYRIYHLAVSKS--KSKFERPSIQLTATKRTQYQQLPVSSETLL  588 (738)
T ss_dssp             EEEEEEEESSSSCCCEEEEEESCCHH-HHHHCCSSCEEEEEEECCCCC--CCSSSCCSCEEEEEEEEEEEEECCCHHHHT
T ss_pred             eEEEEEEeccCCCceEEEEEeCCChH-HHhhccCCcEEEEEEeeccCC--CccCccceEEEeecccceeEECCcchhhhc
Confidence            4567777732  34788999997644 677799999999998654333  32233456789999999999986421    


Q ss_pred             -CCCCCCcccccccccccc--ccCCcceeEEEEEEEEeCCceEEEEccCCceeeEEEEEEEeCCccEEEEEEechhhhhh
Q 006973          285 -AFIPQTKFNFVPIDELGR--YVNGTELVDIIGVVQNVSPTMSIRRKSNNEMVPKRDITVADETKRTVTVSLWNELATNV  361 (623)
Q Consensus       285 -~~iP~~~~~f~~i~di~~--~~~~~~~vDVIGvV~~v~~~~~i~~k~~g~~~~kr~i~l~D~sg~~I~vtLWg~~A~~~  361 (623)
                       .-.|+.   .++|++|.+  ......-||++|+|+.|+..       .|   ..-.+.|.|.+..-+-+..|+..+++ 
T Consensus       589 ~~~~pR~---~~~~~~l~~~~f~p~~~EvDivG~Vv~v~~~-------~~---~~~~vylsD~~~nll~Ikf~~~l~eD-  654 (738)
T 1miu_A          589 QVYQPRE---SLHFSRLSDPAFQPPCSEVDVVGVVVSVVKP-------IG---LAPLVYLSDECLNLLVVKFGIDLNED-  654 (738)
T ss_dssp             TTCCCCC---BCCSGGGGSSSCCTTTTEEEEEEEEEEEECC-------TT---SCCEEEEECSSSCEEEEEESSCCCSC-
T ss_pred             cccCCcc---eeeHHHhcCccccCCCCceeEEEEEEEEccc-------Cc---ccceEEEEcCCCcEEEEEEecCchhh-
Confidence             112222   346666653  23345689999999999643       12   23367889999889999999998743 


Q ss_pred             hhHhhhcCCCCcEEEEEeEEeeec--cce-eeecccceEEEEcCCh----HHHHHHHHHHH
Q 006973          362 GQELLDNADKSPIVAIKSLKVGDF--QGI-SLSTLGRSTVLVSPDL----PEAKKLKSWYE  415 (623)
Q Consensus       362 ~~~~~~~~~~~~Vv~i~~~kV~~f--~G~-~Ls~~~~S~i~iNPd~----pe~~~l~~w~~  415 (623)
                             +..+.+||+.++.....  .|. .|-.+..|.+.-||.-    .+.+.|+.-..
T Consensus       655 -------~~~~~~va~sNL~~r~~~~~~ip~~~a~~~t~fs~~pk~~hl~~~~~~lk~~~~  708 (738)
T 1miu_A          655 -------IKPRVLIAASNLQCQPESTSGVPTLFAGHFSIFSASPKEAYFQEKVNNLKHAIE  708 (738)
T ss_dssp             -------CCSSCEEEEEEEECCSCCSSSCCCEEECTTCEEESSCCCTTTHHHHHHHTHHHH
T ss_pred             -------CccccEEEEeeeEeeccccccCceEEeccceEEecCccHhHHHHHHHHHHHhhh
Confidence                   46799999999887753  243 4556778888889852    45555655443

>1jb7_A Telomere-binding protein alpha subunit; DNA-protein interactions, DNA HYDR sodium ION, quadruplex DNA, DNA-binding protein-DNA complex; 1.86A {Sterkiella nova} SCOP: b.40.4.3 b.40.4.3 b.40.4.3 PDB: 1kix_A 1otc_A* 2i0q_A 1ph6_A 1ph1_A 1phj_A* 1ph3_A 1pa6_A 1ph4_A 1ph7_A 1ph8_A 1ph9_A 1ph5_A* 1ph2_A* 1k8g_A

Probab=98.23  E-value=8.8e-05  Score=80.84  Aligned_cols=343  Identities=13%  Similarity=0.092  Sum_probs=193.6

Q ss_pred             cCeeeccccCC-CCCCeEEEEEEEeeccccccccCCCcccEEEEEEEeCCCC-------eE-----EEEEechHHHHHHh
Q 006973          172 RRVHPLVSLNP-YQGNWTIKVRVTSKGNMRTYKNARGEGCVFNVELTDEDGT-------QI-----QATMFNEAARKFYD  238 (623)
Q Consensus       172 ~~~~~I~~L~p-~~~~w~I~~RV~~K~~~r~~~~~~g~g~~f~~~L~D~~G~-------~I-----~at~~~~~~~kf~~  238 (623)
                      ..+++|+++.- ....-.+.|-|+.....+.   .+|..-.++|.|.|++=.       .|     .+.+|.+..+.+=.
T Consensus        36 y~y~~L~~a~~~~~~~VnviGVVvd~~~P~~---T~G~D~~~t~tI~D~S~~~~~~~~~Gl~~~~~~v~iF~~~~e~LP~  112 (495)
T 1jb7_A           36 YEYVELAKASLTSAQPQHFYAVVIDATFPYK---TNQERYICSLKIVDPTLYLKQQKGAGDASDYATLVLYAKRFEDLPI  112 (495)
T ss_dssp             CCBCCTTTSCSSCCSCEEEEEEEEEECCCEE---CSSSCEEEEEEEEBTTBSBCCTTSSCSCBCCEEEEEEESSGGGSCC
T ss_pred             CccEEHHHHHhccCCeEEEEEEEeecCCcee---cCCCeEEEEEEEEeCCCCcccccccccccCceEEEEECCChHHCCC
Confidence            35899998753 3457889999998776653   234434789999995432       47     99999876555554


Q ss_pred             hcccCcEEEEeeeEEEecCCCcccc-CCce---EEEEccCcEEE--EccC---cCCCCCCC----cc-------------
Q 006973          239 RFQLGKVYYISRGTLRVANKQFKTV-QNDY---EMNLNENSEVE--EAVN---ETAFIPQT----KF-------------  292 (623)
Q Consensus       239 ~l~eG~vy~is~~~V~~a~~~~~~~-~~~y---ei~f~~~T~I~--~~~d---~~~~iP~~----~~-------------  292 (623)
                      ...+|||+.+.+++|+..+....-. ...+   =..|.......  ++..   .....|..    .|             
T Consensus       113 V~~~GDII~LhrvkIq~~ng~~~~v~~~~~~SswavF~~~~~~~~~~i~~~~~~~~~~P~~~S~~~~~~~~~d~~~v~~L  192 (495)
T 1jb7_A          113 IHRAGDIIRVHRATLRLYNGQRQFNANVFYSSSWALFSTDKRSVTQEINNQDAVSDTTPFSFSSKHATIEKNEISILQNL  192 (495)
T ss_dssp             CCEETCEEEEEEEEEEEETTEEEEEEETTTTCEEEEECSSSSCHHHHHHTCCCSCTTSCSEESSSCCCCCTTHHHHHHHH
T ss_pred             CCCCCCEEEEEEEEEEEECCcEEEEecCCCceEEEEEeCCccccccccCCcccCcccCCccccCCCccCCHHHHHHHHHH
Confidence            4489999999999999877654321 1121   13344333000  0000   00111110    11             


Q ss_pred             -----------------cccccc-ccccccCCcceeEEEEEEEEeCCceEEEEccCCceeeEEEEEEEeCCccEEEEEEe
Q 006973          293 -----------------NFVPID-ELGRYVNGTELVDIIGVVQNVSPTMSIRRKSNNEMVPKRDITVADETKRTVTVSLW  354 (623)
Q Consensus       293 -----------------~f~~i~-di~~~~~~~~~vDVIGvV~~v~~~~~i~~k~~g~~~~kr~i~l~D~sg~~I~vtLW  354 (623)
                                       .|..|. ||.    .+.++|++|.|+.+...       ++   .+-.+.+-|.|+..- ++++
T Consensus       193 R~W~~~~~~~~~~~~~~~f~~L~~di~----~~~f~DLv~qVv~~~~~-------d~---~~~~L~VwDgT~~~~-~~~~  257 (495)
T 1jb7_A          193 RKWANQYFSSYSVISSDMYTALNKAQA----QKGDFDVVAKILQVHEL-------DE---YTNELKLKDASGQVF-YTLS  257 (495)
T ss_dssp             HHHHHHHHHHSCSSCGGGSCCGGGGGG----CSSCEEEEEEEEEEEEC-------SS---SEEEEEEEETTCCEE-EEEE
T ss_pred             HHHHHhcccccccccccchhhhhhhhc----cCCceeEEEEEeEEecc-------CC---CeEEEEEEeCCCCCc-ceee
Confidence                             123333 443    46799999999988532       11   356788889998533 2333


Q ss_pred             chhhhhhhhHhhhcCCCCcEEEEEeEEeeeccc-e-eeecccceE-EEEcCChHHHHHHHHHHHhCCCccceeeecCCcC
Q 006973          355 NELATNVGQELLDNADKSPIVAIKSLKVGDFQG-I-SLSTLGRST-VLVSPDLPEAKKLKSWYESEGKGTSMASIGSGLG  431 (623)
Q Consensus       355 g~~A~~~~~~~~~~~~~~~Vv~i~~~kV~~f~G-~-~Ls~~~~S~-i~iNPd~pe~~~l~~w~~~~g~~~~~~~~~~~~~  431 (623)
                      ..  ..|+     ....|.|+.|...+..+-.+ . .+-...-.. ..+.|.-....++++++...... .-..+.....
T Consensus       258 ~~--~~fP-----~~~~G~Vlri~~~~~de~~~~l~~~~~~~w~ni~~~~~~sk~~ke~~~~~l~~~~~-~~~~~~~~~~  329 (495)
T 1jb7_A          258 LK--LKFP-----HVRTGEVVRIRSATYDETSTQKKVLILSHYSNIITFIQSSKLAKELRAKIQDDHSV-EVASLKKNVS  329 (495)
T ss_dssp             ET--TTCT-----TCCTTCEEEEEEEEECTTCCSSCEEEEEEEEEEEEECTTCHHHHHHHHHSCCCCHH-HHHHTTSSSC
T ss_pred             cc--ccCC-----ceeeEEEEEEecCccchhhhhhhhhccccccceeEEcccchhhhhhhhcccchhhh-hhhhcccccC
Confidence            22  1121     12347888888777664322 1 111111122 23556555566777765433200 0000000000


Q ss_pred             ccccC--Ccc--cccccceehhccccCCCCC-CCCC-eEEEEEEEEEEEeCCC--CeEeccccccccceecCCCCeeecC
Q 006973          432 SLAKN--GAR--SMYSDRVSLTHITSNPSLG-DEKP-VFFSIKAYISLIKPDQ--AMWYRACKTCNKKVTDALGSGYWCE  503 (623)
Q Consensus       432 ~~~~~--~~~--~~~~~~~ti~~i~~~~~~~-~~~~-~~~~v~a~I~~i~~d~--~~~Y~aC~~C~KKv~~~~~~~~~C~  503 (623)
                      .....  ...  --.....||.||...+.-. +-.. ..|.+.+.|+.+-+.+  .|.-+-|+.|++. ... .|     
T Consensus       330 ~~~~~lT~~~~~~~~~p~ttL~dIL~~~~~~~~v~~K~~fr~~VRVV~~~P~~i~df~~~~~~~~~~~-~s~-~g-----  402 (495)
T 1jb7_A          330 LNAVVLTEVDKKHAALPSTSLQDLFHHADSDKELQAQDTFRTQFYVTKIEPSDVKEWVKGYDRKTKKS-SSL-KG-----  402 (495)
T ss_dssp             SSCEECEEECGGGTTSCBCCHHHHHHTTTTCHHHHTCSEEEEEEEEEEEESSSGGGGEEEEETTTTEE-ECS-TT-----
T ss_pred             CCCCcCCeecccCCCCCcEEHHHHhcCcccCccccccccEEEEEEEEEecCCCHHHhhhhhccccccc-ccc-cc-----
Confidence            00000  000  0012457889987742100 0011 3488888888886642  4666668999877 221 11     


Q ss_pred             cCCCCccccceeEEEEEEEEeCC-------CcEEEEEehHhHHHHhCCCHHHHHH
Q 006973          504 GCQKNDEECSLRYIMVARVCDGS-------GEAWISIFNEEAERIIGCSADELNE  551 (623)
Q Consensus       504 kC~~~~~~~~~ry~l~~~i~D~T-------g~~~~~~F~~~ae~llG~sA~el~~  551 (623)
                      .|++.    .+.|++.+.|.|.|       +.+.+.++|+.|.++|+++|.+|.+
T Consensus       403 ~~~~~----~~~~~f~LlveD~t~~~~~~~~ri~l~v~g~~~a~Fl~l~a~nL~~  453 (495)
T 1jb7_A          403 ASGKG----DNIFQVQFLVKDASTQLNNNTYRVLLYTQDGLGANFFNVKADNLHK  453 (495)
T ss_dssp             CGGGC----EEEEEEEEEEECGGGTTBSEEEEEEEECTTSTTTTTTSSCCCCTTT
T ss_pred             ccCCC----CceEEEEEEEecCCCCCCCcccEEEEEEeCcchheecCCChHhhhc
Confidence            33332    35788999999999       9999999999888888899988853

>1ynx_A Replication factor-A protein 1; canonical OB fold, DNA binding protein; NMR {Saccharomyces cerevisiae}

Probab=98.18  E-value=2.2e-05  Score=68.71  Aligned_cols=101  Identities=13%  Similarity=0.162  Sum_probs=77.6

Q ss_pred             ccccccccccccCCcceeEEEEEEEEeCCceEEEEccCCceeeEEEEEEEeCCccEEEEEEechhhhhhhhHhhhcCCCC
Q 006973          293 NFVPIDELGRYVNGTELVDIIGVVQNVSPTMSIRRKSNNEMVPKRDITVADETKRTVTVSLWNELATNVGQELLDNADKS  372 (623)
Q Consensus       293 ~f~~i~di~~~~~~~~~vDVIGvV~~v~~~~~i~~k~~g~~~~kr~i~l~D~sg~~I~vtLWg~~A~~~~~~~~~~~~~~  372 (623)
                      ++++|++|....   .-..+.|.|+..+++..+..+ +| +....++.|.|++| +|++|+|++.|..|.+.    +..|
T Consensus         3 ~~~~Is~L~p~~---~~w~I~~rV~~k~~~r~~~~~-~~-~g~~~~~~L~De~G-~I~at~~~~~~~~f~~~----l~eG   72 (114)
T 1ynx_A            3 PIFAIEQLSPYQ---NVWTIKARVSYKGEIKTWHNQ-RG-DGKLFNVNFLDTSG-EIRATAFNDFATKFNEI----LQEG   72 (114)
T ss_dssp             CBCCGGGCCTTT---CCCEEEEEEEEEEEEEEEECS-SC-EEEEEEEEEEETTE-EEEEEECHHHHHHHHHH----SCSS
T ss_pred             ceEEHHHCCCCC---CceEEEEEEEEeccceEEecC-CC-CceEEEEEEECCCC-eEEEEECHHHHHHHHhh----cccC
Confidence            478899997532   348899999999999988764 34 56778999999999 99999999999998654    5679


Q ss_pred             cEEEEEeEEeee----cc----ceeeecccceEEEEcCC
Q 006973          373 PIVAIKSLKVGD----FQ----GISLSTLGRSTVLVSPD  403 (623)
Q Consensus       373 ~Vv~i~~~kV~~----f~----G~~Ls~~~~S~i~iNPd  403 (623)
                      .|+.|.+++|+.    |+    ...|+....|.|..-+|
T Consensus        73 ~vy~Is~~~V~~a~~~y~~~~~~yei~f~~~T~I~~~~d  111 (114)
T 1ynx_A           73 KVYYVSKAKLQPAKPQFTNLTHPYELNLDRDTVIEECFD  111 (114)
T ss_dssp             SEEEEESCEEEECCTTTSSSSSCEEEEECSSCEEEESCC
T ss_pred             cEEEECCcEEEECCCCcccCCCCEEEEECCCCEEEECCC
Confidence            999999999985    33    12455556666655443

>1xjv_A Protection of telomeres 1; protein-DNA complex, single-stranded DNA, transcription/DNA complex; 1.73A {Homo sapiens} SCOP: b.40.4.3 b.40.4.3 PDB: 3kjo_A 3kjp_A

Probab=98.14  E-value=5.9e-05  Score=77.20  Aligned_cols=143  Identities=15%  Similarity=0.232  Sum_probs=98.3

Q ss_pred             ccccccccccccccCCcceeEEEEEEEEeCCceEEEEccCCceeeEEEEEEEeCCccEEEEEEechhhhhhhhHhhhcCC
Q 006973          291 KFNFVPIDELGRYVNGTELVDIIGVVQNVSPTMSIRRKSNNEMVPKRDITVADETKRTVTVSLWNELATNVGQELLDNAD  370 (623)
Q Consensus       291 ~~~f~~i~di~~~~~~~~~vDVIGvV~~v~~~~~i~~k~~g~~~~kr~i~l~D~sg~~I~vtLWg~~A~~~~~~~~~~~~  370 (623)
                      .|.|++|++|.    .+..|+|||+|++++++..  +  .|+ --...|+|.|.|...|.|.+|.+..+.++.    ...
T Consensus         3 ~y~y~~l~~l~----~~~~vnvigVV~~~~~p~~--s--~G~-d~~~tl~I~D~S~~gl~v~iF~~~~~~LP~----v~~   69 (294)
T 1xjv_A            3 NYIYTPLNQLK----GGTIVNVYGVVKFFKPPYL--S--KGT-DYCSVVTIVDQTNVKLTCLLFSGNYEALPI----IYK   69 (294)
T ss_dssp             CCCCCCGGGCC----SSEEEEEEEEEEEEEEEEE--C--SSS-SEEEEEEEECTTCCEEEEEEEESSGGGSCC----CCS
T ss_pred             cceEEEHHHhh----CCCeeEEEEEEEEcCCCcc--C--CCC-eEEEEEEEEcCCCCCEEEEEECCChHHCCC----CCC
Confidence            47899999884    3678999999999986642  2  354 457899999999888999999877666542    125


Q ss_pred             CCcEEEEEeEEeeeccce-ee-ecccceEEEEcCC--------------------hHHHHHHHHHHHhCCCccceeeecC
Q 006973          371 KSPIVAIKSLKVGDFQGI-SL-STLGRSTVLVSPD--------------------LPEAKKLKSWYESEGKGTSMASIGS  428 (623)
Q Consensus       371 ~~~Vv~i~~~kV~~f~G~-~L-s~~~~S~i~iNPd--------------------~pe~~~l~~w~~~~g~~~~~~~~~~  428 (623)
                      .|.||.+++++|..|+|. .+ +....+.+.+++.                    ..-+..||.|+.+...      .  
T Consensus        70 ~GDII~l~~vki~~~~g~~~~v~~~~~s~~~f~g~~~~~~~p~~~~~~~~~~~~e~~~~~~Lr~w~~~~~~------~--  141 (294)
T 1xjv_A           70 NGDIVRFHRLKIQVYKKETQGITSSGFASLTFEGTLGAPIIPRTSSKYFNFTTEDHKMVEALRVWASTHMS------P--  141 (294)
T ss_dssp             TTCEEEEEEEEEEEETTEEEEEEEEEEEEEEECCSTTCCCCCBCSCSSCCCCHHHHHHHHHHHHHHHHHCC---------
T ss_pred             CCCEEEEEEEEEEEECCeEEEEccCCeEEEEECCCCCCCcCCcccCCCcCCCHHHHHHHHHHHHHHHhccC------C--
Confidence            689999999999999985 33 2222333344431                    1236679999975321      0  


Q ss_pred             CcCccccCCcccccccceehhccccCCCCCCCCCeEEEEEEEEEEEe
Q 006973          429 GLGSLAKNGARSMYSDRVSLTHITSNPSLGDEKPVFFSIKAYISLIK  475 (623)
Q Consensus       429 ~~~~~~~~~~~~~~~~~~ti~~i~~~~~~~~~~~~~~~v~a~I~~i~  475 (623)
                                   ......|+||.+        ..||.+.|.|..+-
T Consensus       142 -------------~~~~~~L~di~~--------~~f~DLv~qVv~v~  167 (294)
T 1xjv_A          142 -------------SWTLLKLCDVQP--------MQYFDLTCQLLGKA  167 (294)
T ss_dssp             ---------------CCCCGGGCCS--------SCEEEEEEEEEEEE
T ss_pred             -------------CCceeEHHHccc--------CCeeeEEEEEEEEE
Confidence                         011235676654        25899999999764

>1qzg_A Protection of telomeres protein 1; protrein-DNA complex, single-stranded telomeric DNA, DNA binding protein/DNA complex; HET: TMP; 1.90A {Schizosaccharomyces pombe} SCOP: b.40.4.3 PDB: 1qzh_A

Probab=97.87  E-value=5e-05  Score=71.43  Aligned_cols=90  Identities=10%  Similarity=0.217  Sum_probs=70.8

Q ss_pred             cccccccccccccCCcceeEEEEEEEEeCCceEEEEccCCceeeEEEEEEEeCC----ccEEEEEEechhhhhhhhHhhh
Q 006973          292 FNFVPIDELGRYVNGTELVDIIGVVQNVSPTMSIRRKSNNEMVPKRDITVADET----KRTVTVSLWNELATNVGQELLD  367 (623)
Q Consensus       292 ~~f~~i~di~~~~~~~~~vDVIGvV~~v~~~~~i~~k~~g~~~~kr~i~l~D~s----g~~I~vtLWg~~A~~~~~~~~~  367 (623)
                      +.|+++.++.+.+..+..|+|||||+++++...  +. .|+.--...|+|.|.|    +..|.|.++.+..+.++.    
T Consensus        27 ~~~~~~r~~l~~~~~g~~VNviGVVvd~~~P~~--S~-rGtkD~~~TltI~D~S~~~~~~gL~v~iF~~~~e~LP~----   99 (187)
T 1qzg_A           27 LTFQSIRSSQELQKKNTIVNLFGIVKDFTPSRQ--SL-HGTKDWVTTVYLWDPTCDTSSIGLQIHLFSKQGNDLPV----   99 (187)
T ss_dssp             EEEECHHHHTSCCSSCEEEEEEEEEEEEEEEEE--CS-STTCCEEEEEEEECTTSCTTSCCEEEEEEESSSSCSCC----
T ss_pred             eeEEEHHHHHhhccCCCEEEEEEEEEEccCcee--cC-CCCccEEEEEEEEeCCCCCCCCceEEEEECCChhhCCC----
Confidence            568888887765667889999999999998742  21 2543467899999999    568999999887777643    


Q ss_pred             cCCCCcEEEEEeEEeeeccce
Q 006973          368 NADKSPIVAIKSLKVGDFQGI  388 (623)
Q Consensus       368 ~~~~~~Vv~i~~~kV~~f~G~  388 (623)
                      ....|.||.++.++|..|+|.
T Consensus       100 V~~~GDIIlL~rvkiq~~~g~  120 (187)
T 1qzg_A          100 IKQVGQPLLLHQITLRSYRDR  120 (187)
T ss_dssp             CCSTTCEEEEEEEEEEEETTE
T ss_pred             CCCCCCEEEEEEEEEEEECCe
Confidence            125699999999999999985

>3u58_A Tetrahymena TEB1 AB; tetrahymena, telomerase, TEB1, processivity factor, DNA BIND protein-DNA complex; HET: DNA; 2.61A {Tetrahymena thermophila}

Probab=97.64  E-value=0.0071  Score=52.86  Aligned_cols=162  Identities=14%  Similarity=0.297  Sum_probs=114.8

Q ss_pred             eeeccccCCCCC--CeEEEEEEEeeccccccccCCCcccEEEEEEEeCCCCeEEEEEechHHHHHHhhcccCcEEEEeee
Q 006973          174 VHPLVSLNPYQG--NWTIKVRVTSKGNMRTYKNARGEGCVFNVELTDEDGTQIQATMFNEAARKFYDRFQLGKVYYISRG  251 (623)
Q Consensus       174 ~~~I~~L~p~~~--~w~I~~RV~~K~~~r~~~~~~g~g~~f~~~L~D~~G~~I~at~~~~~~~kf~~~l~eG~vy~is~~  251 (623)
                      -.-|+.|..+.+  .+...+||+.|+.  +|.|.. +.+.|-++-.|....+|..++|.. +|.-|..|++|+.|++.++
T Consensus        11 tllisqlqvgknrfsfkfegrvvykss--tfqnqq-dskyffitaqdannqeinlsfwqk-vdqsyqtlkvgqyyyfigg   86 (213)
T 3u58_A           11 TLLISQLQVGKNRFSFKFEGRVVYKSS--TFQNQQ-DSKYFFITAQDANNQEINLSFWQK-VDQSYQTLKVGQYYYFIGG   86 (213)
T ss_dssp             EECGGGCCTTSCTTSEEEEEEEEEECC--CBCCST-TCCBEEEEEECTTSCEEEEEECSS-HHHHHHHCCTTCEEEEESC
T ss_pred             hhhhhhhhhccceeeEEeeeEEEEeec--cccccc-cccEEEEEeecCCCceechHHHHH-hhhhhheeeeceEEEEEcc
Confidence            357888888776  5678899999986  677755 558898999999999999999986 5777788999999999999


Q ss_pred             EEEecCCCccccCCceEEEEcc-CcEEEEccCcCCCCCCCccccccccccccccCCcceeEEEEEEEEeCCceEEEEccC
Q 006973          252 TLRVANKQFKTVQNDYEMNLNE-NSEVEEAVNETAFIPQTKFNFVPIDELGRYVNGTELVDIIGVVQNVSPTMSIRRKSN  330 (623)
Q Consensus       252 ~V~~a~~~~~~~~~~yei~f~~-~T~I~~~~d~~~~iP~~~~~f~~i~di~~~~~~~~~vDVIGvV~~v~~~~~i~~k~~  330 (623)
                      .|+.-       .+..|+.|.. +-.|.+-+....+-    =.-.-|+++..  ....+..|++.|+++...        
T Consensus        87 evkqf-------knnlelkfkfgdyqiipketlggsg----gstllisevlk--tskqylsvlaqvvdiqss--------  145 (213)
T 3u58_A           87 EVKQF-------KNNLELKFKFGDYQIIPKETLGGSG----GSTLLISEVLK--TSKQYLSVLAQVVDIQSS--------  145 (213)
T ss_dssp             EEEEC-------SSSEEEEECSSCCEEEESTTTTCST----TCCBCHHHHTT--CCCSEEEEEEEEEEEEEC--------
T ss_pred             cHhhh-------ccceEEEEecCceEEechhhcCCCC----CceeehHHHHH--HhHHHHHHHHHhhccccC--------
Confidence            99764       3567888765 45566543221110    01123555543  134578899988876421        


Q ss_pred             CceeeEEEEEEEeCCc-cEEEEEEechhhhhhhh
Q 006973          331 NEMVPKRDITVADETK-RTVTVSLWNELATNVGQ  363 (623)
Q Consensus       331 g~~~~kr~i~l~D~sg-~~I~vtLWg~~A~~~~~  363 (623)
                      .+   ...+.|.|.|. ..+.+.++-+.+-+..+
T Consensus       146 dk---nirlkicdnscnqelkvvifpdlcyewrd  176 (213)
T 3u58_A          146 DK---NIRLKICDNSCNQELKVVIFPDLCYEWRD  176 (213)
T ss_dssp             SS---CEEEEEECTTCSCCEEEEECTTTTGGGTT
T ss_pred             CC---ceEEEeecccccceeEEEEchhHhhHhhh
Confidence            22   23467889884 68999999888776533

>1jb7_A Telomere-binding protein alpha subunit; DNA-protein interactions, DNA HYDR sodium ION, quadruplex DNA, DNA-binding protein-DNA complex; 1.86A {Sterkiella nova} SCOP: b.40.4.3 b.40.4.3 b.40.4.3 PDB: 1kix_A 1otc_A* 2i0q_A 1ph6_A 1ph1_A 1phj_A* 1ph3_A 1pa6_A 1ph4_A 1ph7_A 1ph8_A 1ph9_A 1ph5_A* 1ph2_A* 1k8g_A

Probab=97.37  E-value=0.0017  Score=70.81  Aligned_cols=88  Identities=14%  Similarity=0.177  Sum_probs=67.5

Q ss_pred             CCccccccccccccccCCcceeEEEEEEEEeCCceEEEEccCCceeeEEEEEEEeCCcc-------EE-----EEEEech
Q 006973          289 QTKFNFVPIDELGRYVNGTELVDIIGVVQNVSPTMSIRRKSNNEMVPKRDITVADETKR-------TV-----TVSLWNE  356 (623)
Q Consensus       289 ~~~~~f~~i~di~~~~~~~~~vDVIGvV~~v~~~~~i~~k~~g~~~~kr~i~l~D~sg~-------~I-----~vtLWg~  356 (623)
                      ...|.|++|+++...  .+..|||||||+++++...  +  .|+ --...|+|.|.|-.       .+     .|.++.+
T Consensus        33 ~~~y~y~~L~~a~~~--~~~~VnviGVVvd~~~P~~--T--~G~-D~~~t~tI~D~S~~~~~~~~~Gl~~~~~~v~iF~~  105 (495)
T 1jb7_A           33 GHKYEYVELAKASLT--SAQPQHFYAVVIDATFPYK--T--NQE-RYICSLKIVDPTLYLKQQKGAGDASDYATLVLYAK  105 (495)
T ss_dssp             ---CCBCCTTTSCSS--CCSCEEEEEEEEEECCCEE--C--SSS-CEEEEEEEEBTTBSBCCTTSSCSCBCCEEEEEEES
T ss_pred             cCCCccEEHHHHHhc--cCCeEEEEEEEeecCCcee--c--CCC-eEEEEEEEEeCCCCcccccccccccCceEEEEECC
Confidence            446899999999752  4678999999999998852  2  254 35789999998865       37     9999988


Q ss_pred             hhhhhhhHhhhcC-CCCcEEEEEeEEeeeccce
Q 006973          357 LATNVGQELLDNA-DKSPIVAIKSLKVGDFQGI  388 (623)
Q Consensus       357 ~A~~~~~~~~~~~-~~~~Vv~i~~~kV~~f~G~  388 (623)
                      ..+.++.     + ..|.||.++.++|..|+|.
T Consensus       106 ~~e~LP~-----V~~~GDII~LhrvkIq~~ng~  133 (495)
T 1jb7_A          106 RFEDLPI-----IHRAGDIIRVHRATLRLYNGQ  133 (495)
T ss_dssp             SGGGSCC-----CCEETCEEEEEEEEEEEETTE
T ss_pred             ChHHCCC-----CCCCCCEEEEEEEEEEEECCc
Confidence            7666542     2 3599999999999999995

>3u4v_A Telomerase-associated protein 82; TEB1, processivity factor, DNA BIND protein; 1.80A {Tetrahymena thermophila}

Probab=97.33  E-value=0.0031  Score=50.29  Aligned_cols=89  Identities=18%  Similarity=0.403  Sum_probs=72.1

Q ss_pred             eeeccccCCCCC--CeEEEEEEEeeccccccccCCCcccEEEEEEEeCCCCeEEEEEechHHHHHHhhcccCcEEEEeee
Q 006973          174 VHPLVSLNPYQG--NWTIKVRVTSKGNMRTYKNARGEGCVFNVELTDEDGTQIQATMFNEAARKFYDRFQLGKVYYISRG  251 (623)
Q Consensus       174 ~~~I~~L~p~~~--~w~I~~RV~~K~~~r~~~~~~g~g~~f~~~L~D~~G~~I~at~~~~~~~kf~~~l~eG~vy~is~~  251 (623)
                      -.-|+.|..+.+  .+...+||+.|+.  +|.|.. +.+.|-++-.|....+|..++|.. +|.-|..|++|+.|++.++
T Consensus        15 tllisqlqvgknrfsfkfegrvvykss--tfqnqq-dskyffitaqdannqeinmsfwqk-vdqsyqtlkvgqyyyfigg   90 (117)
T 3u4v_A           15 TLLISQLQVGKNRFSFKFEGRVVYKSS--TFQNQQ-DSKYFFITAQDANNQEINMSFWQK-VDQSYQTLKVGQYYYFIGG   90 (117)
T ss_dssp             EECGGGCCTTCCTTSCEEEEEEEEECC--CEECTT-SCEEEEEEEECTTSCEEEEEEESS-THHHHTTCCTTCEEEEESC
T ss_pred             heehhhhhcccceeeEEeeeEEEEeec--cccccc-cccEEEEEeecCCCceechHHHHH-hhhhhheEeeceEEEEEcc
Confidence            357888888776  5678899999986  677754 568899999999999999999986 5777888999999999999


Q ss_pred             EEEecCCCccccCCceEEEEcc
Q 006973          252 TLRVANKQFKTVQNDYEMNLNE  273 (623)
Q Consensus       252 ~V~~a~~~~~~~~~~yei~f~~  273 (623)
                      .|+.-       .+..|+.|.-
T Consensus        91 evkqf-------knnlelkfkf  105 (117)
T 3u4v_A           91 EVKQF-------KNNLELKFKF  105 (117)
T ss_dssp             EEEEE-------TTEEEEEEET
T ss_pred             chhhh-------ccceEEEEec
Confidence            99764       3456777654

>1se8_A Single-strand binding protein; DNA binding protein; 1.80A {Deinococcus radiodurans} SCOP: b.40.4.3

Probab=95.42  E-value=1.1  Score=45.49  Aligned_cols=178  Identities=18%  Similarity=0.242  Sum_probs=95.2

Q ss_pred             CCCeEEEEEEEeeccccccccCCCcccEEEEEEE------eCCC------CeEEEEEechHHHHHHhh-cccCcEEEEee
Q 006973          184 QGNWTIKVRVTSKGNMRTYKNARGEGCVFNVELT------DEDG------TQIQATMFNEAARKFYDR-FQLGKVYYISR  250 (623)
Q Consensus       184 ~~~w~I~~RV~~K~~~r~~~~~~g~g~~f~~~L~------D~~G------~~I~at~~~~~~~kf~~~-l~eG~vy~is~  250 (623)
                      +++.+|.|||.+.-++|...+  |. .+.+|.|+      |+.|      +-|++++|+..++.+... |+.|+-+.|.+
T Consensus         5 mN~V~LiGrL~~dPelr~t~~--G~-~v~~f~LAv~r~~~~~~G~~~~~t~~i~vv~~g~~Ae~~~~~~l~KG~~V~VeG   81 (301)
T 1se8_A            5 MNHVYLIGALARDPELRYTGN--GM-AVFEATVAGEDRVIGNDGRERNLPWYHRVSILGKPAEWQAERNLKGGDAVVVEG   81 (301)
T ss_dssp             EEEEEEEEEESSCCEEEECTT--SC-EEEEEEEEEEEEC-------CEEEEEEEEEEESHHHHHHHHTCCCTTCEEEEEE
T ss_pred             eeEEEEEEEECCCceEEECCC--CC-EEEEEEEEEcCceECCCCCEecceEEEEEEEEcHHHHHHHhhCCCCCCEEEEEE
Confidence            467899999999888887653  22 45566552      2335      248999999999999999 99999999985


Q ss_pred             eEEEecCCCcc--ccCCceEEEEccCcEEEEccCcCCCCCCCccccccccc-ccc-cc-CCcceeEEEEEEEEeCCceEE
Q 006973          251 GTLRVANKQFK--TVQNDYEMNLNENSEVEEAVNETAFIPQTKFNFVPIDE-LGR-YV-NGTELVDIIGVVQNVSPTMSI  325 (623)
Q Consensus       251 ~~V~~a~~~~~--~~~~~yei~f~~~T~I~~~~d~~~~iP~~~~~f~~i~d-i~~-~~-~~~~~vDVIGvV~~v~~~~~i  325 (623)
                      . +...  .|.  .....|.+.+.-+ .|..+...    +.      ...| .-. .+ ..-..|-++|.|..--++.  
T Consensus        82 ~-L~~r--~~~dkdG~~r~~~ev~a~-~i~~l~~~----~~------~~~d~~gg~rm~~mmN~V~L~GrL~~dPelr--  145 (301)
T 1se8_A           82 T-LEYR--QWEAPEGGKRSAVNVKAL-RMEQLGTQ----PE------LIQDAGGGVRMSGAMNEVLVLGNVTRDPEIR--  145 (301)
T ss_dssp             E-EEEE--EEC-----CEEEEEEEEE-EEEECSSC----CC------EEECTTSCEEEETCEEEEEEEEEECSCCEEE--
T ss_pred             E-EEee--eEECCCCCEEEEEEEEEe-EEEEeecc----cc------cccccccccchhcceeEEEEEEEECcCCEEE--
Confidence            4 3321  111  1122232222111 22222111    00      0000 000 00 0112467888876532222  


Q ss_pred             EEccCCceeeEEEEE----EEeCCc------cEEEEEEechhhhhhhhHhhhcCCCCcEEEEE-eEEeeecc
Q 006973          326 RRKSNNEMVPKRDIT----VADETK------RTVTVSLWNELATNVGQELLDNADKSPIVAIK-SLKVGDFQ  386 (623)
Q Consensus       326 ~~k~~g~~~~kr~i~----l~D~sg------~~I~vtLWg~~A~~~~~~~~~~~~~~~Vv~i~-~~kV~~f~  386 (623)
                      .+. +|..+.+-.|-    -.|..|      .-+.|++||+.|+.+.+     +..|..|.|. .++...|.
T Consensus       146 ~t~-~G~~v~~f~lAv~~~~~d~~Ge~~~~t~~i~vvawg~~Ae~~~~-----l~KG~~V~V~GrL~~~~y~  211 (301)
T 1se8_A          146 YTP-AGDAVLSLSIAVNENYQDRQGQRQEKVHYIDATLWRDLAENMKE-----LRKGDPVMIMGRLVNEGWT  211 (301)
T ss_dssp             ECT-TCCEEEEEEEEEEEEEECTTSCEEEEEEEEEEEEETHHHHHHTT-----CCTTCEEEEEEEEEEEECC
T ss_pred             ECC-CCCEEEEEEEEEcCceEcCCCCcccccEEEEEEECCHHHHHHHh-----cCCCCEEEEEEEEeeeeEE
Confidence            222 35544332222    123333      26999999999988744     3456666665 45666675

>2fxq_A Single-strand binding protein; strand beta-sheet extended loops, DNA binding protein; 1.85A {Thermus aquaticus} PDB: 2ihe_A 2cwa_A 2ihf_A

Probab=95.21  E-value=1.2  Score=44.14  Aligned_cols=179  Identities=15%  Similarity=0.222  Sum_probs=95.8

Q ss_pred             CCCeEEEEEEEeeccccccccCCCcccEEEEEEE------eCCCC------eEEEEEechHHHHHHhhcccCcEEEEeee
Q 006973          184 QGNWTIKVRVTSKGNMRTYKNARGEGCVFNVELT------DEDGT------QIQATMFNEAARKFYDRFQLGKVYYISRG  251 (623)
Q Consensus       184 ~~~w~I~~RV~~K~~~r~~~~~~g~g~~f~~~L~------D~~G~------~I~at~~~~~~~kf~~~l~eG~vy~is~~  251 (623)
                      .++..|.|||.+--++|...+  |. .+.+|.|+      |+.|.      -|++++|+..++.....|+.|+-+.+.+ 
T Consensus         5 ~N~v~L~G~l~~dpelr~t~~--G~-~v~~f~lA~~~~~~~~~G~~~~~t~~~~v~~~g~~Ae~~~~~l~KG~~V~V~G-   80 (264)
T 2fxq_A            5 LNQVFLIGTLTARPDMRYTPG--GL-AILDLNLAGQDAFTDESGQEREVPWYHRVRLLGRQAEMWGDLLEKGQLIFVEG-   80 (264)
T ss_dssp             EEEEEEEEEESSCCCCEECTT--CC-EEEEEEEEEEEEEECTTSCEEEEEEEEEEEEETHHHHHHTTTCCTTCEEEEEE-
T ss_pred             eeEEEEEEEeccCCeEEECCC--CC-EEEEEEEEECCcEECCCCCEecccEEEEEEEEchHHHHHHHhCCCCCEEEEEE-
Confidence            467899999999888887653  22 45555542      44563      4899999999999999999999999985 


Q ss_pred             EEEecCCCcc-ccCCc--eEEEEccCcEEEEccCcCC-CCCCCccccccccccccccCCcceeEEEEEEEEeCCceEEEE
Q 006973          252 TLRVANKQFK-TVQND--YEMNLNENSEVEEAVNETA-FIPQTKFNFVPIDELGRYVNGTELVDIIGVVQNVSPTMSIRR  327 (623)
Q Consensus       252 ~V~~a~~~~~-~~~~~--yei~f~~~T~I~~~~d~~~-~iP~~~~~f~~i~di~~~~~~~~~vDVIGvV~~v~~~~~i~~  327 (623)
                      ++...  .|. .....  ++|..+   .|..+..... ....      ..... .....-..|-++|.|..--++..  +
T Consensus        81 ~L~~~--~~~~dG~~r~~~ev~a~---~i~~l~~~~~~~~~d------~~g~~-~m~~~~N~v~l~G~l~~dpe~r~--t  146 (264)
T 2fxq_A           81 RLEYR--QWEKDGEKKSEVQVRAE---FIDPLEGRGRETLED------ARGQP-RLRRALNQVILMGNLTRDPDLRY--T  146 (264)
T ss_dssp             EEEEC-----------CCEEEEEE---EEEECCCC---------------------CCCCEEEEEEEEESSCCCCEE--C
T ss_pred             EEEee--eEEeCCEEEEEEEEEEE---EEEECcCCccccccc------ccccc-ccccceEEEEEEEEECCCCEEEE--C
Confidence            34332  222 11112  233322   2332211100 0000      00000 00001235778888875433332  2


Q ss_pred             ccCCceeeEEEEEEEeC-------CccEEEEEEechhhhhhhhHhhhcCCCCcEEEEE-eEEeeecc
Q 006973          328 KSNNEMVPKRDITVADE-------TKRTVTVSLWNELATNVGQELLDNADKSPIVAIK-SLKVGDFQ  386 (623)
Q Consensus       328 k~~g~~~~kr~i~l~D~-------sg~~I~vtLWg~~A~~~~~~~~~~~~~~~Vv~i~-~~kV~~f~  386 (623)
                      . +|+.+.+-.|-.-..       .-.-+.|++||+.|+... .    +..|.-|.+. .++...|.
T Consensus       147 ~-~G~~v~~f~lAv~~~~~g~~~~~t~~~~v~~wg~~Ae~~~-~----l~KG~~V~V~G~l~~~~~~  207 (264)
T 2fxq_A          147 P-QGTAVVRLGLAVNERRRGQEEERTHFLEVQAWRELAEWAS-E----LRKGDGLLVIGRLVNDSWT  207 (264)
T ss_dssp             T-TCCEEEEEEEEEECCC-------EEEEEEEEEHHHHHHHT-T----CCTTCEEEEEEEEEEEEEE
T ss_pred             C-CCCEEEEEEEEEcCCcCCCCccccEEEEEEEEChHHHHhh-h----cCCCCEEEEEEEEEeeEEE
Confidence            2 355433222222110       112699999999998764 3    4556666665 45666664

>3mxn_A RECQ-mediated genome instability protein 1; bloom syndrome, helicase, RMI, topoisomerase, replication PR replication; 1.55A {Homo sapiens} PDB: 4day_A 3nbh_A

Probab=94.95  E-value=0.036  Score=50.25  Aligned_cols=103  Identities=20%  Similarity=0.292  Sum_probs=69.0

Q ss_pred             CCeEEEEEEEEEEEeCCCCeEeccccccccceecCCCCeeecCcCCCCccccceeEEEEEEEEeCCCcEEEEEehHhHHH
Q 006973          461 KPVFFSIKAYISLIKPDQAMWYRACKTCNKKVTDALGSGYWCEGCQKNDEECSLRYIMVARVCDGSGEAWISIFNEEAER  540 (623)
Q Consensus       461 ~~~~~~v~a~I~~i~~d~~~~Y~aC~~C~KKv~~~~~~~~~C~kC~~~~~~~~~ry~l~~~i~D~Tg~~~~~~F~~~ae~  540 (623)
                      .+..|.|+|.|+.+...  + |.           . +                --|.|.+.|+|+|+.+.+.+-+++-+.
T Consensus        36 ~~~~~kVKafI~tl~~~--l-~~-----------~-~----------------~~W~l~a~IsDGS~~LdV~f~~~VLt~   84 (157)
T 3mxn_A           36 EVTTVKVKAFIVTLTGN--L-SS-----------S-G----------------GIWSITAKVSDGTAYLDVDFVDEILTS   84 (157)
T ss_dssp             SCEEEEEEEEEEEECSC--C-BC-----------G-G----------------GSCBCEEEEECSSCEEEEEECHHHHHH
T ss_pred             CceEEEEEEEEEEeccc--e-ee-----------c-C----------------CEEEEEEEEeCCceeEEEEeeHHHHHh
Confidence            46679999999999752  2 11           0 1                136788999999999999999999999


Q ss_pred             HhCCCHHHHHHHHhhcCCchh---HHHHHHHh----cCceEEEEEEEEeeecCceeeeEEEEEEeeccCH
Q 006973          541 IIGCSADELNELKSQLGDDNS---YQMKLKEV----TWVPHLLRVSVAQQEYNNEKRQRVTVRAVAPVDF  603 (623)
Q Consensus       541 llG~sA~el~~~~~~~~~~~~---~~~~l~~~----~~~~~~f~v~~k~~~y~~~~r~~~~v~~~~~vd~  603 (623)
                      ++|.|+.|+..++.   |+..   +.+.|.++    .-..-++++....     . .-+-.|.++++++-
T Consensus        85 lIGfS~~E~~~lkk---dp~~~~~l~e~L~~~Q~~L~dl~clM~I~~~~-----~-~~~pVV~~l~d~s~  145 (157)
T 3mxn_A           85 LIGFSVPEMKQSKK---DPLQYQKFLEGLQKCQRDLIDLCCLMTISFNP-----S-LSKAMVLALQDVNM  145 (157)
T ss_dssp             HHSCCHHHHHHHTT---SHHHHHHHHHHHHHHHHHHHHCEEEEEEEEET-----T-TTEEEEEEEECCCH
T ss_pred             hhCCCHHHHHHHhh---CHHHHHHHHHHHHHHHHHHHhhccEEEEEEcC-----C-CCCCEEEEecCCCH
Confidence            99999999999873   2322   22333322    2223345554432     1 12567778888874

>3u4z_A Telomerase-associated protein 82; TEB1, processivity factor, DNA BIND protein; 2.30A {Tetrahymena thermophila}

Probab=94.21  E-value=1.2  Score=35.07  Aligned_cols=88  Identities=15%  Similarity=0.325  Sum_probs=65.7

Q ss_pred             cCCCCCCeEEEEEEEeeccccccccCCCcccEEEEEEEeCCC-CeEEEEEechHHHHHHhhcccCcEEEEeeeEEEecCC
Q 006973          180 LNPYQGNWTIKVRVTSKGNMRTYKNARGEGCVFNVELTDEDG-TQIQATMFNEAARKFYDRFQLGKVYYISRGTLRVANK  258 (623)
Q Consensus       180 L~p~~~~w~I~~RV~~K~~~r~~~~~~g~g~~f~~~L~D~~G-~~I~at~~~~~~~kf~~~l~eG~vy~is~~~V~~a~~  258 (623)
                      |....+..++.|.|+...      .   ..+-+.+-+.|.+- .+.++.+|.+++-.|.+.+..++||++..|.-...|.
T Consensus         8 lktskqylsvlaqvvdiq------s---sdknirlkicdnscnqelkvvifpdlcyewrdkfsinkwyyfnefvrqiynd   78 (109)
T 3u4z_A            8 LKTSKQYLSVLAQVVDIQ------S---SDKNIRLKICDNSCNQELKVVIFPDLCYEWRDKFSINKWYYFNEFVRQIYND   78 (109)
T ss_dssp             TTCCCSEEEEEEEEEEEE------C---CSSCEEEEEECSSCSSCEEEEECTTHHHHHTTTCCTTCEEEEEEEEEEESSS
T ss_pred             HHHHHHHHHHHHHHhhhh------c---CCCceEEEeecccccceeEEEEchhHHHHHHhhcchhhhhhHHHHHHHHhhh
Confidence            344455677888887642      1   12457788899874 5899999999999999999999999999886555443


Q ss_pred             CccccCCceEEEEccCcEEEEccCc
Q 006973          259 QFKTVQNDYEMNLNENSEVEEAVNE  283 (623)
Q Consensus       259 ~~~~~~~~yei~f~~~T~I~~~~d~  283 (623)
                             ...+.-+-++.|.+.+|.
T Consensus        79 -------evqlknnihssikesddq   96 (109)
T 3u4z_A           79 -------EVQLKNNIHSSIKESDDQ   96 (109)
T ss_dssp             -------CEEEECCTTCEEEECSSC
T ss_pred             -------HHhHhhhhhhhhhccccc
Confidence                   356666678999987664

>3kdf_D Replication protein A 32 kDa subunit; wheat GERM cell free, protein complex, center for eukaryotic structural genomics, PSI; HET: MSE; 1.98A {Homo sapiens} SCOP: b.40.4.3 PDB: 2pqa_A 1quq_A 1l1o_B

Probab=93.67  E-value=0.25  Score=43.74  Aligned_cols=69  Identities=17%  Similarity=0.262  Sum_probs=46.1

Q ss_pred             eeEEEEEEEEeCCceEEEEccCCceeeEEEEEEEeCCccEEEEEEechhhhhhhhHhhhcCCCCcEEEEEeEEeeeccce
Q 006973          309 LVDIIGVVQNVSPTMSIRRKSNNEMVPKRDITVADETKRTVTVSLWNELATNVGQELLDNADKSPIVAIKSLKVGDFQGI  388 (623)
Q Consensus       309 ~vDVIGvV~~v~~~~~i~~k~~g~~~~kr~i~l~D~sg~~I~vtLWg~~A~~~~~~~~~~~~~~~Vv~i~~~kV~~f~G~  388 (623)
                      .|.++|+|.++.+         .  .....++|.|.||..|++..|.+....-.+  ...+..+.+|.+.|. ++.|+|+
T Consensus        33 ~V~iVG~V~~~~~---------~--~~~~~~~ldD~TG~~I~~~~W~~~~~~~~~--~~~~~~g~yVrV~G~-l~~f~g~   98 (132)
T 3kdf_D           33 QVTIVGIIRHAEK---------A--PTNIVYKIDDMTAAPMDVRQWVDTDDTSSE--NTVVPPETYVKVAGH-LRSFQNK   98 (132)
T ss_dssp             EEEEEEEEEEEEE---------C--SSEEEEEEECSSSSCEEEEEEC-----------CCCCTTCEEEEEEE-EEEETTE
T ss_pred             EEEEEEEEEEEEE---------c--CCeEEEEEECCCCCEEEEEEEccCCCcccc--cccccCCCEEEEEEE-EEeECCE
Confidence            6899999988742         1  256789999999988999999876432110  123466888877654 8889985


Q ss_pred             -eee
Q 006973          389 -SLS  391 (623)
Q Consensus       389 -~Ls  391 (623)
                       .+.
T Consensus        99 ~qi~  102 (132)
T 3kdf_D           99 KSLV  102 (132)
T ss_dssp             EEEE
T ss_pred             EEEE
Confidence             554

>4hik_A Protection of telomeres protein 1; specificity, plasticity, promiscuity, OB-fold, ssDNA binding stranded telomeric DNA; HET: DNA; 1.64A {Schizosaccharomyces pombe} PDB: 4hid_A* 4him_A* 4hio_A* 4hj5_A* 4hj7_A* 4hj8_A* 4hj9_A* 4hja_A*

Probab=93.52  E-value=0.89  Score=40.73  Aligned_cols=61  Identities=20%  Similarity=0.245  Sum_probs=41.1

Q ss_pred             EEEEEEechhhhhhhhHhhhcCCCCcEEEEEeEEeeec-cce---eeeccc----ce-EEEEcCChHHHHHHHH
Q 006973          348 TVTVSLWNELATNVGQELLDNADKSPIVAIKSLKVGDF-QGI---SLSTLG----RS-TVLVSPDLPEAKKLKS  412 (623)
Q Consensus       348 ~I~vtLWg~~A~~~~~~~~~~~~~~~Vv~i~~~kV~~f-~G~---~Ls~~~----~S-~i~iNPd~pe~~~l~~  412 (623)
                      ++.||||+..|.-..+    ....|..|.|++++++.- +|.   .|....    .. ...++|+.|..++|..
T Consensus        66 tlqVtlwd~ha~~ar~----~lk~Gd~v~L~Nv~iK~~~~g~LEG~l~~dr~~~~ki~v~~ld~~~~~lk~ll~  135 (143)
T 4hik_A           66 SIRCILWDEHDFYCRN----YIKEGDYVVMKNVRTKIDHLGYLECILHGDSAKRYNMSIEKVDSEEPELNEIKS  135 (143)
T ss_dssp             CEEEEECHHHHHHHTT----TCCTTCEEEEEEEEEEECTTSCEEEEECCCTTCCSCCEEEEECTTCGGGHHHHH
T ss_pred             EEEEEEECcHHHHHHh----hCCCCCEEEEEeEEEeecCCceEEEEEcCCCCCCCcceEEEcCCCCHHHHHHHH
Confidence            8999999999876533    367799999999999854 342   233221    11 2345776687777654

>4gop_B Putative uncharacterized protein; OB fold, ssDNA binding, DNA binding protein-DNA complex; HET: DNA; 3.10A {Ustilago maydis}

Probab=93.35  E-value=0.32  Score=43.30  Aligned_cols=69  Identities=22%  Similarity=0.350  Sum_probs=46.5

Q ss_pred             eeEEEEEEEEeCCceEEEEccCCceeeEEEEEEEeCCccEEEEEEechhhhhhhhHhhhcCCCCcEEEEEeEEeeeccce
Q 006973          309 LVDIIGVVQNVSPTMSIRRKSNNEMVPKRDITVADETKRTVTVSLWNELATNVGQELLDNADKSPIVAIKSLKVGDFQGI  388 (623)
Q Consensus       309 ~vDVIGvV~~v~~~~~i~~k~~g~~~~kr~i~l~D~sg~~I~vtLWg~~A~~~~~~~~~~~~~~~Vv~i~~~kV~~f~G~  388 (623)
                      .|.++|+|.++..         +  .....++|.|.|| .|++.+|.+....-... .+.+..+.+|.+.| +++.|+|+
T Consensus        38 ~V~iVG~V~~~~~---------~--~~~~~~~ldD~TG-~I~~~~W~~~~~~~~~~-~~~~~~g~yVrV~G-~v~~f~g~  103 (136)
T 4gop_B           38 QLTFVAVVRNISR---------N--ATNVAYSVEDGTG-QIEVRQWLDSSSDDSSK-ASEIRNNVYVRVLG-TLKSFQNR  103 (136)
T ss_dssp             EEEEEEEEEEEEE---------C--SSEEEEEEECSSC-EEEEEEECC---------CCSCCTTCEEEEEE-EEEEETTE
T ss_pred             EEEEEEEEEEEEe---------c--CCeEEEEEECCCC-CEEEEEecccCCccccc-ccccCCCCEEEEEE-EEEEeCCE
Confidence            6899999998742         1  2477899999999 89999998654321000 12356688888775 47889985


Q ss_pred             -eee
Q 006973          389 -SLS  391 (623)
Q Consensus       389 -~Ls  391 (623)
                       .|.
T Consensus       104 ~qi~  107 (136)
T 4gop_B          104 RSIS  107 (136)
T ss_dssp             EEEE
T ss_pred             EEEE
Confidence             554

>3ebe_A Protein MCM10 homolog; OB-fold, zinc finger, CCCH, DNA replication, metal-binding, zinc-finger, replication; 2.30A {Xenopus laevis} PDB: 3h15_A

Probab=92.88  E-value=0.44  Score=45.29  Aligned_cols=81  Identities=16%  Similarity=0.202  Sum_probs=55.5

Q ss_pred             CcCeeecccc-----CC--CCCCeEEEEEEEeeccccccccCCCccc-EEEEEEEeCCC--CeEEEEEechHHHHHHhhc
Q 006973          171 TRRVHPLVSL-----NP--YQGNWTIKVRVTSKGNMRTYKNARGEGC-VFNVELTDEDG--TQIQATMFNEAARKFYDRF  240 (623)
Q Consensus       171 ~~~~~~I~~L-----~p--~~~~w~I~~RV~~K~~~r~~~~~~g~g~-~f~~~L~D~~G--~~I~at~~~~~~~kf~~~l  240 (623)
                      .+++.+|++|     .|  ...+|.+.|-|+.|++.|.-.+    |+ ..-+.|.|=.+  .++...+|+++.++++ .+
T Consensus        35 ~~k~~~l~~L~~~v~~~~~~e~dwv~~GVV~~Ks~pk~~~~----gk~y~~w~l~DL~~~~~~V~lfLFg~a~~~~~-k~  109 (200)
T 3ebe_A           35 GRKLIRLAQLQNKIATEKLEEEDWVTFGVIVKKITPQSSNN----GKTFSIWRLNDLKDLDKYISLFLFGDVHKEHW-KT  109 (200)
T ss_dssp             TCEECCGGGHHHHHHTTCSTTSCEEEEEEEEEEECC-----------CCEEEEEECSSSTTCCEEEEECHHHHHHHT-TC
T ss_pred             CCeEEeHHHHHhhccCCCCCcCCEEEEEEEEecCCccCcCC----CCeEEEEEEEecCCCCcEEEEEEechHHHHhc-Cc
Confidence            3456777777     22  1359999999999999987433    34 33344544333  4799999999999977 58


Q ss_pred             ccCcEEEEeeeEEEec
Q 006973          241 QLGKVYYISRGTLRVA  256 (623)
Q Consensus       241 ~eG~vy~is~~~V~~a  256 (623)
                      ++|.|+.|-|..+.+.
T Consensus       110 ~~G~ViaiLNP~i~~~  125 (200)
T 3ebe_A          110 DQGTVIGLLNANPMKP  125 (200)
T ss_dssp             CTTEEEEEESCEECCC
T ss_pred             CCceEEEEECCEEccC
Confidence            9999999999987544

>4dni_A Fusion protein of RNA-editing complex proteins MP MP18; krepa3, krepa6, editosome, protein/RNA binding, protein BIND binding protein; 2.55A {Trypanosoma brucei}

Probab=92.43  E-value=8.9  Score=37.69  Aligned_cols=174  Identities=15%  Similarity=0.199  Sum_probs=94.3

Q ss_pred             CCCeEEEEEEEeeccccccccCCCcccEEEEEEEeC---CC----CeEEEEEec-hHHHHHHhhcccCcEEEEeeeEEEe
Q 006973          184 QGNWTIKVRVTSKGNMRTYKNARGEGCVFNVELTDE---DG----TQIQATMFN-EAARKFYDRFQLGKVYYISRGTLRV  255 (623)
Q Consensus       184 ~~~w~I~~RV~~K~~~r~~~~~~g~g~~f~~~L~D~---~G----~~I~at~~~-~~~~kf~~~l~eG~vy~is~~~V~~  255 (623)
                      .++..+.||+++- ++|...+  |.-.+|+|.+.=.   .|    +-|.+++|+ ..++...+.|+.|+-+.+.+ ++..
T Consensus        30 ~N~viLiGrLtrd-ElRyT~~--g~~a~~~lav~~~~~~~ge~~~df~~vv~wg~k~AE~~~~yl~kG~~V~VeG-rL~~  105 (257)
T 4dni_A           30 VNHCVMLGVVQNI-QEGFVFE--DKVLQFTLITDFEGPSPGDPDKDFHTVRVFDSDYSSRVKEQLRDGEWFLVTG-RLRM  105 (257)
T ss_dssp             SEEEEEEEEEEEE-EEEEETT--EEEEEEEEEEECCCCCSSCCCEEEEEEEECSHHHHHHHHHHCCTTCEEEEEE-EEEE
T ss_pred             CcEEEEEEEEece-EEEECCC--CCEEEEEEEEEecCCCCCCCcccEEEEEEECCHHHHHHHHhccCCCEEEEEE-EEEE
Confidence            4688999999999 9997542  2123566654322   22    246777999 89999999999999999874 4544


Q ss_pred             cCCCccccCCceEEEEccCcEEEEccCcCCCCCCCcccccccccccc--ccCCcceeEEEEEEEEeCCceEEEEccCCce
Q 006973          256 ANKQFKTVQNDYEMNLNENSEVEEAVNETAFIPQTKFNFVPIDELGR--YVNGTELVDIIGVVQNVSPTMSIRRKSNNEM  333 (623)
Q Consensus       256 a~~~~~~~~~~yei~f~~~T~I~~~~d~~~~iP~~~~~f~~i~di~~--~~~~~~~vDVIGvV~~v~~~~~i~~k~~g~~  333 (623)
                      ...+=-.-...+|+.+..   |         .|... .+....+...  .+..-..|-++|.+ .  ++..-.+ . |+.
T Consensus       106 ~~~~dG~kr~~~evva~~---v---------~~~~G-~~~~v~~~~g~~~M~~lNkV~LiGrL-~--DPElR~t-~-G~~  167 (257)
T 4dni_A          106 VPQYDGSMRKYYHYPVIQ---V---------HPGCG-SVLKVKLASGAGHMKSVNSVTLVGVV-H--DIQSGFV-Y-EDA  167 (257)
T ss_dssp             EEEECSSSSSEEEEEEEE---E---------CTTTC-EEEEGGGSCSSCTTSCEEEEEEEEEE-E--EEEEEEE-T-TEE
T ss_pred             eECCCCCcEEEEEEEEEE---E---------EecCC-cceeeecccccccccccCEEEEEEEc-C--CCEEEEe-C-CcE
Confidence            211000112234544442   1         11000 0111122211  11112357888988 2  2221112 2 443


Q ss_pred             eeEEEEEEE------eCCc-------cEEEEEEechh--hhhhhhHhhhcCCCCcEEEEE-eEEeeecc
Q 006973          334 VPKRDITVA------DETK-------RTVTVSLWNEL--ATNVGQELLDNADKSPIVAIK-SLKVGDFQ  386 (623)
Q Consensus       334 ~~kr~i~l~------D~sg-------~~I~vtLWg~~--A~~~~~~~~~~~~~~~Vv~i~-~~kV~~f~  386 (623)
                      +  -.|.|.      |..+       .-++|++||+.  |+ +.+.    ...|.-|.+. .++...|.
T Consensus       168 V--a~FslAv~~~~~~~~~~e~~~~Tdw~~Vv~wgk~~~AE-i~~~----L~KG~~V~VeGrL~tr~~~  229 (257)
T 4dni_A          168 V--TQFTLTTTSIDTTHPTQEVVVEKDHHTIRCFGELFSAE-VKQK----VKEGNVVCVNGRLRLSPQL  229 (257)
T ss_dssp             E--EEEEEEEEEEECCCTTCSCEEEEEEEEEEEESHHHHHH-HHHH----CCTTCEEEEEEEEEEEEEE
T ss_pred             E--EEEEEEECCCccCCCCceEccceEEEEEEEECCccHHH-HHhh----CCCCCEEEEEEEEEeeeEE
Confidence            3  233332      2111       25899999999  88 6543    4556666664 45666664

>3kf6_A Protein STN1; OB fold, chromosomal protein, DNA-binding, nucleus, telomere; 1.65A {Schizosaccharomyces pombe}

Probab=90.32  E-value=3  Score=38.04  Aligned_cols=70  Identities=16%  Similarity=0.218  Sum_probs=47.6

Q ss_pred             eeEEEEEEEEeCCceEEEEccCCceeeEEEEEEEeCCccEEEEEEechhhhhhhhHhhhcCCCCcEEEEEeEEeeeccc-
Q 006973          309 LVDIIGVVQNVSPTMSIRRKSNNEMVPKRDITVADETKRTVTVSLWNELATNVGQELLDNADKSPIVAIKSLKVGDFQG-  387 (623)
Q Consensus       309 ~vDVIGvV~~v~~~~~i~~k~~g~~~~kr~i~l~D~sg~~I~vtLWg~~A~~~~~~~~~~~~~~~Vv~i~~~kV~~f~G-  387 (623)
                      .|+++|+|+.+.+      +     -.+..++|-|.||..|+|.+|=+...... .+......|.+|-++| +|+.|+| 
T Consensus        49 ~V~IvGiVv~~~~------~-----~~~~~ytIDD~TG~~I~cv~w~~~~~~~~-~~~~~l~~G~~VrV~G-~v~~fr~~  115 (159)
T 3kf6_A           49 WIQIVGYIAAIDI------Y-----EGKHVLTVDDCSGMVLRVVFIIQDDFSMS-KRAISMSPGNVVCVFG-KINSFRSE  115 (159)
T ss_dssp             EEEEEEEEEEEEE------E-----TTEEEEEEECSSSCEEEEEEEGGGCHHHH-HHHTTCCTTCEEEEEE-EEECSSSS
T ss_pred             EEEEEEEEEEEEE------e-----CCEEEEEEecCCCCeEEEEEEccCCCCcc-cccccCCCCCEEEEEE-EEEeeCCE
Confidence            6899999998742      1     13577889899998899999977621110 1111245688988875 5788888 


Q ss_pred             eeee
Q 006973          388 ISLS  391 (623)
Q Consensus       388 ~~Ls  391 (623)
                      +.|.
T Consensus       116 rqI~  119 (159)
T 3kf6_A          116 VELI  119 (159)
T ss_dssp             CEEE
T ss_pred             EEEE
Confidence            4553

>4gop_B Putative uncharacterized protein; OB fold, ssDNA binding, DNA binding protein-DNA complex; HET: DNA; 3.10A {Ustilago maydis}

Probab=90.11  E-value=0.72  Score=40.93  Aligned_cols=77  Identities=16%  Similarity=0.265  Sum_probs=50.3

Q ss_pred             EEEEEEeCCCcEEEEEehHhHHHHhCCCHHHHHHHHhhcCCchhHHHHHHHhcCceEEEEEEEEeeecCceeeeEEEEEE
Q 006973          518 MVARVCDGSGEAWISIFNEEAERIIGCSADELNELKSQLGDDNSYQMKLKEVTWVPHLLRVSVAQQEYNNEKRQRVTVRA  597 (623)
Q Consensus       518 l~~~i~D~Tg~~~~~~F~~~ae~llG~sA~el~~~~~~~~~~~~~~~~l~~~~~~~~~f~v~~k~~~y~~~~r~~~~v~~  597 (623)
                      +.+.+.|+||.+.+..|.+..+.    ++        .+  ...++      .|  -..+|..+...|++.  ....+.+
T Consensus        55 ~~~~ldD~TG~I~~~~W~~~~~~----~~--------~~--~~~~~------~g--~yVrV~G~v~~f~g~--~qi~~~~  110 (136)
T 4gop_B           55 VAYSVEDGTGQIEVRQWLDSSSD----DS--------SK--ASEIR------NN--VYVRVLGTLKSFQNR--RSISSGH  110 (136)
T ss_dssp             EEEEEECSSCEEEEEEECC----------------------CCSCC------TT--CEEEEEEEEEEETTE--EEEEESE
T ss_pred             EEEEEECCCCCEEEEEecccCCc----cc--------cc--ccccC------CC--CEEEEEEEEEEeCCE--EEEEEEE
Confidence            45678999999999999864321    00        00  00111      12  366777777889985  4566677


Q ss_pred             eecc-CHHHHHHHHHHHHHhhh
Q 006973          598 VAPV-DFAAESKFLLEEISKKV  618 (623)
Q Consensus       598 ~~~v-d~~~e~~~Ll~~i~~~~  618 (623)
                      +.|+ |+.+..-++|+.|...+
T Consensus       111 ir~v~d~Nei~~H~Le~i~~hl  132 (136)
T 4gop_B          111 MRPVIDYNEVMFHRLEAVHAHL  132 (136)
T ss_dssp             EEECSSHHHHHHHHHHHHHHHH
T ss_pred             EEECCCccHHHHHHHHHHHHHH
Confidence            7777 59999999999987544

>2pi2_A Replication protein A 32 kDa subunit; FULL-length RPA14/32, ssDNA binding protein, OB-fold, dioxan replication, DNA binding protein; 2.00A {Homo sapiens} SCOP: b.40.4.3 PDB: 2z6k_A 1dpu_A 1z1d_A

Probab=90.01  E-value=0.68  Score=46.24  Aligned_cols=69  Identities=17%  Similarity=0.290  Sum_probs=47.0

Q ss_pred             eeEEEEEEEEeCCceEEEEccCCceeeEEEEEEEeCCccEEEEEEechhhhhhhhHhhhcCCCCcEEEEEeEEeeeccce
Q 006973          309 LVDIIGVVQNVSPTMSIRRKSNNEMVPKRDITVADETKRTVTVSLWNELATNVGQELLDNADKSPIVAIKSLKVGDFQGI  388 (623)
Q Consensus       309 ~vDVIGvV~~v~~~~~i~~k~~g~~~~kr~i~l~D~sg~~I~vtLWg~~A~~~~~~~~~~~~~~~Vv~i~~~kV~~f~G~  388 (623)
                      .|+++|+|+++.      .   +  .....++|.|.||..|++.+|.+....-.+  ...+..+.+|.+.+ +|+.|+|+
T Consensus        73 ~V~ivG~V~~i~------~---~--~~~~~~~L~D~TG~~I~~k~W~~~~~~~~~--~~~~~~G~yVrV~G-~v~~f~g~  138 (270)
T 2pi2_A           73 QVTIVGIIRHAE------K---A--PTNIVYKIDDMTAAPMDVRQWVDTDDTSSE--NTVVPPETYVKVAG-HLRSFQNK  138 (270)
T ss_dssp             EEEEEEEEEEEE------E---C--SSEEEEEEECSSSSCEEEEEECC---------CCCCCTTCEEEEEE-EEEEETTE
T ss_pred             EEEEEEEEEEEE------e---c--cceEEEEEECCCCCEEEEEEEcCcCcccch--hhcCCCCCEEEEEE-EEEecCCe
Confidence            589999998863      1   2  257789999999977999999865321000  12256788888775 78899985


Q ss_pred             -eee
Q 006973          389 -SLS  391 (623)
Q Consensus       389 -~Ls  391 (623)
                       .|.
T Consensus       139 ~qi~  142 (270)
T 2pi2_A          139 KSLV  142 (270)
T ss_dssp             EEEE
T ss_pred             eEEE
Confidence             454

>3rn5_A Interferon-inducible protein AIM2; OB fold, DNA binding, cytosolic, immune system-DNA complex; HET: DNA; 2.50A {Homo sapiens} PDB: 3rn2_A*

Probab=88.93  E-value=15  Score=34.26  Aligned_cols=176  Identities=18%  Similarity=0.184  Sum_probs=116.7

Q ss_pred             EEEEEEeeccccccccCCCcccEEEEEEEeCCCCeEEEEEechHHHHHHhhcccCcEEEEeeeEEEecCCCccccCCceE
Q 006973          189 IKVRVTSKGNMRTYKNARGEGCVFNVELTDEDGTQIQATMFNEAARKFYDRFQLGKVYYISRGTLRVANKQFKTVQNDYE  268 (623)
Q Consensus       189 I~~RV~~K~~~r~~~~~~g~g~~f~~~L~D~~G~~I~at~~~~~~~kf~~~l~eG~vy~is~~~V~~a~~~~~~~~~~ye  268 (623)
                      ..|.|+.-.+.-+|..+.|+.++|+-+++-++. -.++-+|+-.   +.+.|..++++.||++.           .+.--
T Consensus        15 ~~VmVLkaTepF~Ye~~E~~~~MFHATVATetq-fF~VKVfn~~---LKeKF~pk~iI~ISdY~-----------~~~gf   79 (208)
T 3rn5_A           15 LPVMVLKAKKPFTFETQEGKQEMFHATVATEKE-FFFVKVFNTL---LKDKFIPKRIIIIARYY-----------RHSGF   79 (208)
T ss_dssp             EEEEEEEECCCEEEEETTEEEEEEEEEEECSSC-EEEEEECCGG---GGGTCCTTCEEEEESBE-----------ECSSC
T ss_pred             eEEEEEeccCCeeeecccccceEEEEEEeeccc-eEEEEEecch---hhhhcCCCcEEEEEecc-----------cccce
Confidence            456777777777887766555699999999988 8999999964   46688999999999863           23344


Q ss_pred             EEEccCcEEEEccCc-CCCCCCCcc----ccccccccccccCCcceeEEEEEEEEeCCceEEEEccCCceeeEEEEEEEe
Q 006973          269 MNLNENSEVEEAVNE-TAFIPQTKF----NFVPIDELGRYVNGTELVDIIGVVQNVSPTMSIRRKSNNEMVPKRDITVAD  343 (623)
Q Consensus       269 i~f~~~T~I~~~~d~-~~~iP~~~~----~f~~i~di~~~~~~~~~vDVIGvV~~v~~~~~i~~k~~g~~~~kr~i~l~D  343 (623)
                      |..++.|.|.++..+ .-.+|....    .=-+|++|.. ...+.+|+=+=.|...      +.   .+  ......|.|
T Consensus        80 LEi~~~SsVse~~~dq~~eVp~~ii~~A~~TPKI~~L~~-q~~Gt~V~G~F~v~KK------~v---~~--~~~~YeI~D  147 (208)
T 3rn5_A           80 LEVNSASRVLDAESDQKVNVPLNIIRKAGETPKINTLQT-QPLGTIVNGLFVVQKV------TE---KK--KNILFDLSD  147 (208)
T ss_dssp             EEECTTSEEEECCTTCCCCCCHHHHHHHHSCCCHHHHHT-SCSSCEEEEEEEEEEE------EE---CS--SEEEEEEEE
T ss_pred             EEEecccEEEEccCCceeecCHHHHHhcccCcchhhhhc-CCCCCEEeEEEEEEEE------Ee---cc--ceEEEEEec
Confidence            667888999987533 234564211    1235777765 3456666533333221      11   11  244668899


Q ss_pred             CCccEEEEEEechhhhhhhhHhhhcCCCCcEEEEEeEEeeeccc-eeeecccceEEE
Q 006973          344 ETKRTVTVSLWNELATNVGQELLDNADKSPIVAIKSLKVGDFQG-ISLSTLGRSTVL  399 (623)
Q Consensus       344 ~sg~~I~vtLWg~~A~~~~~~~~~~~~~~~Vv~i~~~kV~~f~G-~~Ls~~~~S~i~  399 (623)
                      +|| .|+|...|....--       +.+|.=+-+....++..++ ..|.+...|-|.
T Consensus       148 nTG-~MeVvv~G~~~~i~-------CEeGDKLrL~cFeL~~~~~~~qL~s~~HSfik  196 (208)
T 3rn5_A          148 NTG-KMEVLGVRNEDTMK-------CKEGDKVRLTFFTLSKNGEKLQLTSGVHSTIK  196 (208)
T ss_dssp             TTE-EEEEEEECSTGGGS-------CCTTCEEEEEEEEEEECSSSEEEECCTTCEEE
T ss_pred             CCC-cEEEEEeccCcccc-------cCCCCeeEEEEEEEeccCCeeeEEEecceeEE
Confidence            999 79999999976542       5677766666666655444 367776666543

>1txy_A Primosomal replication protein N; OB fold, dimer, DNA binding protein; 2.00A {Escherichia coli} SCOP: b.40.4.3 PDB: 1woc_A 2pnh_A 4apv_A

Probab=88.85  E-value=0.92  Score=38.28  Aligned_cols=65  Identities=6%  Similarity=-0.003  Sum_probs=50.6

Q ss_pred             CCCeEEEEEEEeeccccccccCCCcccEEEEEEEeCC----CCe-------EEEEEechHHHHHHhhcccCcEEEEeee
Q 006973          184 QGNWTIKVRVTSKGNMRTYKNARGEGCVFNVELTDED----GTQ-------IQATMFNEAARKFYDRFQLGKVYYISRG  251 (623)
Q Consensus       184 ~~~w~I~~RV~~K~~~r~~~~~~g~g~~f~~~L~D~~----G~~-------I~at~~~~~~~kf~~~l~eG~vy~is~~  251 (623)
                      .++..+.||+++--++|...+  |. .+.+|.|+=.+    -+-       |++++|+..++.....|+.|+-+.+.+.
T Consensus         2 ~N~v~L~G~l~~dpelR~t~~--G~-~v~~f~lA~~~~~~~~~~~r~~~~~~~vv~~g~~Ae~~~~~l~KG~~V~V~G~   77 (104)
T 1txy_A            2 TNRLVLSGTVCRAPLRKVSPS--GI-PHCQFVLEHRSVQEEAGFHRQAWCQMPVIVSGHENQAITHSITVGSRITVQGF   77 (104)
T ss_dssp             CEEEEEEEEEEEEEEEEECTT--SC-EEEEEEEEEEEEEEETTEEEEEEEEEEEEEESSTTHHHHTTCCTTCEEEEEEE
T ss_pred             cEEEEEEEEECCCceEEECCC--CC-EEEEEEEEEeCccccCCceeceeEEEEEEEEhHHHHHHHhhCCCCCEEEEEEE
Confidence            467889999999999997643  22 46666664222    236       9999999999999999999999999864

>2vw9_A Single-stranded DNA binding protein; DNA replication, single-stranded DNA, single-stranded DNA binding protein, oligonucleotide/oligosaccharide binding fold, OB-fold; 2.30A {Helicobacter pylori}

Probab=88.38  E-value=1.6  Score=38.66  Aligned_cols=65  Identities=20%  Similarity=0.263  Sum_probs=49.8

Q ss_pred             CCCeEEEEEEEeeccccccccCCCcccEEEEEE------EeCCCC------eEEEEEechHHHHHHhhcccCcEEEEeee
Q 006973          184 QGNWTIKVRVTSKGNMRTYKNARGEGCVFNVEL------TDEDGT------QIQATMFNEAARKFYDRFQLGKVYYISRG  251 (623)
Q Consensus       184 ~~~w~I~~RV~~K~~~r~~~~~~g~g~~f~~~L------~D~~G~------~I~at~~~~~~~kf~~~l~eG~vy~is~~  251 (623)
                      ++..+|.|||.+--++|...+  | ..+.+|.|      .|+.|.      -|.+++|+..++.+...|+.|+.+.|.+.
T Consensus         2 mN~V~L~GrL~~dPelr~t~~--G-~~v~~f~lA~~~~~~~~~G~~~~~t~~~~v~~wg~~Ae~~~~~l~KG~~V~V~G~   78 (134)
T 2vw9_A            2 FNKVIMVGRLTRNVELKYLPS--G-SAAATIGLATSRRFKKQDGTLGEEVCFIDARLFGRTAEIANQYLSKGSSVLIEGR   78 (134)
T ss_dssp             CCCEEEEEEESSCCEEEECTT--S-CEEEEEEEEEEEEEECSSSCEEEEEEEEEEEEEHHHHHHHHHHCCTTCEEEEEEE
T ss_pred             eeEEEEEEEECCCCEEEECCC--C-CEEEEEEEEEeCCeECCCCCCccccEEEEEEEEcHHHHHHHHhCCCCCEEEEEEE
Confidence            467889999999888887643  2 14555554      244453      49999999999999999999999999863

>3fhw_A Primosomal replication protein N; PRIB BPR162 X-RAY NESG, structural genomics, PSI-2, protein initiative; 1.90A {Bordetella parapertussis} PDB: 3dm4_A 3klw_A

Probab=87.65  E-value=3.9  Score=35.12  Aligned_cols=65  Identities=22%  Similarity=0.222  Sum_probs=49.1

Q ss_pred             CCCeEEEEEEEeeccccccccCCCcccEEEEEEEe-----CCCC-----e-EEEEEechHHHHHHhhcccCcEEEEeeeE
Q 006973          184 QGNWTIKVRVTSKGNMRTYKNARGEGCVFNVELTD-----EDGT-----Q-IQATMFNEAARKFYDRFQLGKVYYISRGT  252 (623)
Q Consensus       184 ~~~w~I~~RV~~K~~~r~~~~~~g~g~~f~~~L~D-----~~G~-----~-I~at~~~~~~~kf~~~l~eG~vy~is~~~  252 (623)
                      +++..+.||+++--++|...  .|. .+.+|.|+-     +.|.     . |.|++|+..++.. ..|..|+-+.|.++-
T Consensus         1 MNkviL~GrL~~dPelRyTp--sG~-~V~~f~LA~~~~~~~~g~~r~~~~~i~vv~~Gk~AE~~-~~l~kGs~V~VeGrL   76 (115)
T 3fhw_A            1 MNTLELSARVLECGAMRHTP--AGL-PALELLLVHESEVVEAGHPRRVELTISAVALGDLALLL-ADTPLGTEMQVQGFL   76 (115)
T ss_dssp             CEEEEEEEEEEEECCCEECT--TSC-EEEEEEEEEEEECCCCC--CEEEEEEEEEEETHHHHHH-TTCCTTCEEEEEEEE
T ss_pred             CCEEEEEEEECcCcceEECC--CCC-EEEEEEEEEcceeecCCCeeeeeEEEEEEEEhHHHHhh-hccCCCCEEEEEEEE
Confidence            36788999999999999543  232 466776643     2342     1 9999999999988 889999999998763

>3eiv_A Single-stranded DNA-binding protein 2; DNA damage, DNA repair, DNA replication, phosphoprotein; 2.14A {Streptomyces coelicolor}

Probab=87.08  E-value=3  Score=39.45  Aligned_cols=64  Identities=13%  Similarity=0.210  Sum_probs=49.3

Q ss_pred             CCCeEEEEEEEeeccccccccCCCcccEEEEEEEeC--------------CCCeEEEEEechHHHHHHhhcccCcEEEEe
Q 006973          184 QGNWTIKVRVTSKGNMRTYKNARGEGCVFNVELTDE--------------DGTQIQATMFNEAARKFYDRFQLGKVYYIS  249 (623)
Q Consensus       184 ~~~w~I~~RV~~K~~~r~~~~~~g~g~~f~~~L~D~--------------~G~~I~at~~~~~~~kf~~~l~eG~vy~is  249 (623)
                      .+..+|.+||++.-++|...+  | ..+.+|.|+=.              +-+-|++++|+.+++.+...|+.|+.++|.
T Consensus         4 ~N~V~LiGrL~~DPElR~T~~--G-~~Va~FsLAvn~R~~d~~~Ge~~d~~T~wi~VvawgklAE~v~~~L~KG~~V~Ve   80 (199)
T 3eiv_A            4 ETVITVVGNLVDDPELRFTPS--G-AAVAKFRVASTPRTFDRQTNEWKDGESLFLTCSVWRQAAENVAESLQRGMRVIVQ   80 (199)
T ss_dssp             CCEEEEEEEESSCCEEEECTT--C-CEEEEEEEEECC-----------CCCCEEEEEEEETHHHHHHHHHCCTTCEEEEE
T ss_pred             ccEEEEEEEECCCCeEEECCC--C-CEEEEEEEEEcCcccccCCCcEecCccEEEEEEEEhHHHHHHHHhcCCCCEEEEE
Confidence            467899999999888887653  2 24666665421              123499999999999999999999999997


Q ss_pred             e
Q 006973          250 R  250 (623)
Q Consensus       250 ~  250 (623)
                      .
T Consensus        81 G   81 (199)
T 3eiv_A           81 G   81 (199)
T ss_dssp             E
T ss_pred             E
Confidence            4

>3en2_A Probable primosomal replication protein N; PRIB RSR213C NESG X-RAY Q8XZT7 Q8XZT7_ralso, structural genomics, PSI-2; 2.30A {Ralstonia solanacearum}

Probab=86.90  E-value=3.4  Score=34.65  Aligned_cols=65  Identities=17%  Similarity=0.059  Sum_probs=48.5

Q ss_pred             CCCeEEEEEEEeeccccccccCCCcccEEEEEEE-----eCCCC-----e-EEEEEechHHHHHHhhcccCcEEEEeeeE
Q 006973          184 QGNWTIKVRVTSKGNMRTYKNARGEGCVFNVELT-----DEDGT-----Q-IQATMFNEAARKFYDRFQLGKVYYISRGT  252 (623)
Q Consensus       184 ~~~w~I~~RV~~K~~~r~~~~~~g~g~~f~~~L~-----D~~G~-----~-I~at~~~~~~~kf~~~l~eG~vy~is~~~  252 (623)
                      +++..+.||+++--++|.-.  .|. .+.+|.|.     ++.|.     . |.|++|+..++.+.. +..|+-+.|.++-
T Consensus         2 MN~v~L~GrLt~dPelRyTp--sG~-~V~~f~LA~~s~~~e~g~~r~~~f~i~vv~wGk~AE~~~~-~~kGs~V~VeGrL   77 (101)
T 3en2_A            2 INRLQLVATLVEREVMRYTP--AGV-PIVNCLLSYSGQAMEAQAARQVEFSIEALGAGKMASVLDR-IAPGTVLECVGFL   77 (101)
T ss_dssp             CCCEEEEEEEEEECCCEECT--TCC-EEEEEEEEEEEEEECC--EEEEEEEEEEEEETHHHHHHTT-SCTTCEEEEEEEE
T ss_pred             cCEEEEEEEECcCccEEECC--CCC-EEEEEEEEEcceEecCCCcEeeeEEEEEEEEhHHHHHHhh-cCCCCEEEEEEEE
Confidence            57899999999999998643  232 46666653     23442     2 999999999998886 7899999998764

>3vdy_A SSB, single-stranded DNA-binding protein SSBB; OB fold; 2.80A {Bacillus subtilis}

Probab=86.89  E-value=2  Score=36.78  Aligned_cols=66  Identities=20%  Similarity=0.238  Sum_probs=50.3

Q ss_pred             CCCCeEEEEEEEeeccccccccCCCcccEEEEEEE-e-----CCC----CeEEEEEechHHHHHHhhcccCcEEEEeee
Q 006973          183 YQGNWTIKVRVTSKGNMRTYKNARGEGCVFNVELT-D-----EDG----TQIQATMFNEAARKFYDRFQLGKVYYISRG  251 (623)
Q Consensus       183 ~~~~w~I~~RV~~K~~~r~~~~~~g~g~~f~~~L~-D-----~~G----~~I~at~~~~~~~kf~~~l~eG~vy~is~~  251 (623)
                      .+++..|.|||.+--++|...+  |. .+.+|.|+ +     +.|    +-|++++|+..++.+...|+.|+.+.+.+.
T Consensus         4 mmN~v~l~G~l~~dpe~r~t~~--G~-~v~~f~la~~~~~~~~~g~~~t~~~~v~~wg~~Ae~~~~~l~KG~~V~V~G~   79 (116)
T 3vdy_A            4 MFNQVMLVGRLTKDPDLRYTSA--GA-AVAHVTLAVNRSFKNASGEIEADYVNCTLWRKTAENTALYCQKGSLVGVSGR   79 (116)
T ss_dssp             CCCCEEEEEEESSCCEEEECTT--SC-EEEEEEEEEECSSCCSSSCCCEEEEEEEEEHHHHHHHHHHCCTTCEEEEEEE
T ss_pred             eEeEEEEEEEEccCcEEEECCC--CC-EEEEEEEEEeccccCCCCccccEEEEEEEECHHHHHHHHhCCCCCEEEEEEE
Confidence            4678999999999888886543  21 45566553 2     223    249999999999999999999999999864

>3u58_A Tetrahymena TEB1 AB; tetrahymena, telomerase, TEB1, processivity factor, DNA BIND protein-DNA complex; HET: DNA; 2.61A {Tetrahymena thermophila}

Probab=86.53  E-value=4.9  Score=35.04  Aligned_cols=86  Identities=15%  Similarity=0.324  Sum_probs=63.2

Q ss_pred             cCCCCCCeEEEEEEEeeccccccccCCCcccEEEEEEEeCCC-CeEEEEEechHHHHHHhhcccCcEEEEeeeEEEecCC
Q 006973          180 LNPYQGNWTIKVRVTSKGNMRTYKNARGEGCVFNVELTDEDG-TQIQATMFNEAARKFYDRFQLGKVYYISRGTLRVANK  258 (623)
Q Consensus       180 L~p~~~~w~I~~RV~~K~~~r~~~~~~g~g~~f~~~L~D~~G-~~I~at~~~~~~~kf~~~l~eG~vy~is~~~V~~a~~  258 (623)
                      |.....-.++.|.|+....         ..+-+.+-+.|.+- .+.++.+|.++|-.|.+.+..++||++..|.-...| 
T Consensus       126 lktskqylsvlaqvvdiqs---------sdknirlkicdnscnqelkvvifpdlcyewrdkfsinkwyyfnefvrqiyn-  195 (213)
T 3u58_A          126 LKTSKQYLSVLAQVVDIQS---------SDKNIRLKICDNSCNQELKVVIFPDLCYEWRDKFSINKWYYFNEFVRQIYN-  195 (213)
T ss_dssp             TTCCCSEEEEEEEEEEEEE---------CSSCEEEEEECTTCSCCEEEEECTTTTGGGTTCCCTTCEEEEEEEEECCSS-
T ss_pred             HHHhHHHHHHHHHhhcccc---------CCCceEEEeecccccceeEEEEchhHhhHhhhhcchhhhhhHHHHHHHHhh-
Confidence            4555667788899986421         12457788899874 589999999999999999999999999887543333 


Q ss_pred             CccccCCceEEEEccCcEEEEcc
Q 006973          259 QFKTVQNDYEMNLNENSEVEEAV  281 (623)
Q Consensus       259 ~~~~~~~~yei~f~~~T~I~~~~  281 (623)
                            ....+.-+-++.|.+.+
T Consensus       196 ------devqlknnihssikesd  212 (213)
T 3u58_A          196 ------DEVQLKNNIHSSIKESD  212 (213)
T ss_dssp             ------SSCEEECCTTCEEEECC
T ss_pred             ------hhhhhhhhhhhhhcccC
Confidence                  23555556677777653

>1qzg_A Protection of telomeres protein 1; protrein-DNA complex, single-stranded telomeric DNA, DNA binding protein/DNA complex; HET: TMP; 1.90A {Schizosaccharomyces pombe} SCOP: b.40.4.3 PDB: 1qzh_A

Probab=86.52  E-value=0.9  Score=42.51  Aligned_cols=85  Identities=18%  Similarity=0.101  Sum_probs=60.8

Q ss_pred             eeeccc-cCC--CCCCeEEEEEEEeeccccccccCCCc-ccEEEEEEEeCC----CCeEEEEEechHHHHHHhhcccCcE
Q 006973          174 VHPLVS-LNP--YQGNWTIKVRVTSKGNMRTYKNARGE-GCVFNVELTDED----GTQIQATMFNEAARKFYDRFQLGKV  245 (623)
Q Consensus       174 ~~~I~~-L~p--~~~~w~I~~RV~~K~~~r~~~~~~g~-g~~f~~~L~D~~----G~~I~at~~~~~~~kf~~~l~eG~v  245 (623)
                      +++|++ |+.  ....-.+.|-|+.-...+.-  .+|. .-...|.|.|++    +..|.+.+|.+..+.+=....+|||
T Consensus        29 ~~~~r~~l~~~~~g~~VNviGVVvd~~~P~~S--~rGtkD~~~TltI~D~S~~~~~~gL~v~iF~~~~e~LP~V~~~GDI  106 (187)
T 1qzg_A           29 FQSIRSSQELQKKNTIVNLFGIVKDFTPSRQS--LHGTKDWVTTVYLWDPTCDTSSIGLQIHLFSKQGNDLPVIKQVGQP  106 (187)
T ss_dssp             EECHHHHTSCCSSCEEEEEEEEEEEEEEEEEC--SSTTCCEEEEEEEECTTSCTTSCCEEEEEEESSSSCSCCCCSTTCE
T ss_pred             EEEHHHHHhhccCCCEEEEEEEEEEccCceec--CCCCccEEEEEEEEeCCCCCCCCceEEEEECCChhhCCCCCCCCCE
Confidence            566655 321  22356788888876655431  1344 346788999988    6679999999877776665699999


Q ss_pred             EEEeeeEEEecCCCc
Q 006973          246 YYISRGTLRVANKQF  260 (623)
Q Consensus       246 y~is~~~V~~a~~~~  260 (623)
                      +.+.+++|+..+...
T Consensus       107 IlL~rvkiq~~~g~~  121 (187)
T 1qzg_A          107 LLLHQITLRSYRDRT  121 (187)
T ss_dssp             EEEEEEEEEEETTEE
T ss_pred             EEEEEEEEEEECCeE
Confidence            999999998877653

>3k8a_A Putative primosomal replication protein; beta-barrel, OB-fold, DNA binding protein; 2.70A {Neisseria gonorrhoeae fa 1090}

Probab=86.43  E-value=4.8  Score=33.81  Aligned_cols=63  Identities=16%  Similarity=0.218  Sum_probs=48.2

Q ss_pred             CCeEEEEEEEeeccccccccCCCcccEEEEEEE-----eCCCC-----e-EEEEEechHHHHHHhhcccCcEEEEeeeE
Q 006973          185 GNWTIKVRVTSKGNMRTYKNARGEGCVFNVELT-----DEDGT-----Q-IQATMFNEAARKFYDRFQLGKVYYISRGT  252 (623)
Q Consensus       185 ~~w~I~~RV~~K~~~r~~~~~~g~g~~f~~~L~-----D~~G~-----~-I~at~~~~~~~kf~~~l~eG~vy~is~~~  252 (623)
                      ++..+.||+++--++|...+  |. .+.+|.|+     ++.|.     . |++++|+..|+ ... |..|+-++|.+.-
T Consensus         8 Nkv~LiG~L~~dPelRytp~--G~-~v~~f~lA~~~~~~~~g~~~~~~~~i~vv~~gk~Ae-~~~-l~KG~~v~veGrL   81 (103)
T 3k8a_A            8 NLVSLAALIEKAFPIRYTPA--GI-PVLDIILKHESWQEENGQQCLVQLEIPARILGRQAE-EWQ-YRQGDCATVEGFL   81 (103)
T ss_dssp             EEEEEEEEEEEECCCEECTT--SC-EEEEEEEEEEEEEEETTEEEEEEEEEEEEEEHHHHH-HST-TCTTCEEEEEEEE
T ss_pred             cEEEEEEEECCCCceEECCC--CC-EEEEEEEEEcccCccCCCEEEeeEEEEEEEEhHHhh-hhc-cCCCCEEEEEEEE
Confidence            78999999999999997543  32 46666664     23452     3 89999999999 655 9999999998653

>3ebe_A Protein MCM10 homolog; OB-fold, zinc finger, CCCH, DNA replication, metal-binding, zinc-finger, replication; 2.30A {Xenopus laevis} PDB: 3h15_A

Probab=86.00  E-value=1  Score=42.78  Aligned_cols=83  Identities=11%  Similarity=0.162  Sum_probs=53.3

Q ss_pred             cccccccccccccCC----cceeEEEEEEEEeCCceEEEEccCCceeeEEEEEEEeCCc--cEEEEEEechhhhhhhhHh
Q 006973          292 FNFVPIDELGRYVNG----TELVDIIGVVQNVSPTMSIRRKSNNEMVPKRDITVADETK--RTVTVSLWNELATNVGQEL  365 (623)
Q Consensus       292 ~~f~~i~di~~~~~~----~~~vDVIGvV~~v~~~~~i~~k~~g~~~~kr~i~l~D~sg--~~I~vtLWg~~A~~~~~~~  365 (623)
                      ..|++|++|...+..    ....=++|+|.+-++...  + .+|+.+  --..|.|..+  ..|.+-|+|+-..++   |
T Consensus        36 ~k~~~l~~L~~~v~~~~~~e~dwv~~GVV~~Ks~pk~--~-~~gk~y--~~w~l~DL~~~~~~V~lfLFg~a~~~~---~  107 (200)
T 3ebe_A           36 RKLIRLAQLQNKIATEKLEEEDWVTFGVIVKKITPQS--S-NNGKTF--SIWRLNDLKDLDKYISLFLFGDVHKEH---W  107 (200)
T ss_dssp             CEECCGGGHHHHHHTTCSTTSCEEEEEEEEEEECC----------CC--EEEEEECSSSTTCCEEEEECHHHHHHH---T
T ss_pred             CeEEeHHHHHhhccCCCCCcCCEEEEEEEEecCCccC--c-CCCCeE--EEEEEEecCCCCcEEEEEEechHHHHh---c
Confidence            468899998653211    123446799999988764  2 236544  3466666665  579999999877664   3


Q ss_pred             hhcCCCCcEEEEEeEEeee
Q 006973          366 LDNADKSPIVAIKSLKVGD  384 (623)
Q Consensus       366 ~~~~~~~~Vv~i~~~kV~~  384 (623)
                      .  ...|.||||-+..+-.
T Consensus       108 k--~~~G~ViaiLNP~i~~  124 (200)
T 3ebe_A          108 K--TDQGTVIGLLNANPMK  124 (200)
T ss_dssp             T--CCTTEEEEEESCEECC
T ss_pred             C--cCCceEEEEECCEEcc
Confidence            2  5679999998877653

>1ffk_W Ribosomal protein L37AE; ribosome assembly, RNA-RNA, protein-RNA, protein-protein; 2.40A {Haloarcula marismortui} SCOP: g.41.8.1 PDB: 1jj2_Y 1k73_1* 1k8a_1* 1k9m_1* 1kc8_1* 1kd1_1* 1kqs_Y* 1m1k_1* 1m90_1* 1n8r_1* 1nji_1* 1q7y_1* 1q81_1* 1q82_1* 1q86_1* 1qvf_Y 1qvg_Y 1w2b_Y 3cxc_Y*

Probab=85.21  E-value=0.33  Score=38.20  Aligned_cols=34  Identities=21%  Similarity=0.298  Sum_probs=25.1

Q ss_pred             cccccccc-ceecCCCCeeecCcCCCCccccceeE
Q 006973          483 RACKTCNK-KVTDALGSGYWCEGCQKNDEECSLRY  516 (623)
Q Consensus       483 ~aC~~C~K-Kv~~~~~~~~~C~kC~~~~~~~~~ry  516 (623)
                      .-||-|+| +|.....|.|.|.+|++.+.--.|.+
T Consensus        28 y~C~fCgk~~vkR~a~GIW~C~~C~~~~AGGAy~~   62 (73)
T 1ffk_W           28 YKCPVCGFPKLKRASTSIWVCGHCGYKIAGGAYTP   62 (73)
T ss_pred             ccCCCCCCceeEEEEeEEEECCCCCcEEECCCccc
Confidence            45999998 66655578999999998865444443

>1z9f_A Single-strand binding protein; TM0604, single stranded DNA-binding protein, structural GENO joint center for structural genomics, JCSG; 2.30A {Thermotoga maritima}

Probab=84.87  E-value=1.9  Score=39.11  Aligned_cols=71  Identities=13%  Similarity=0.155  Sum_probs=51.9

Q ss_pred             CCCCCCeEEEEEEEeeccccccccCCCcccEEEEEEE-eC------CC-----CeEEEEEechHHHHHHhhcccCcEEEE
Q 006973          181 NPYQGNWTIKVRVTSKGNMRTYKNARGEGCVFNVELT-DE------DG-----TQIQATMFNEAARKFYDRFQLGKVYYI  248 (623)
Q Consensus       181 ~p~~~~w~I~~RV~~K~~~r~~~~~~g~g~~f~~~L~-D~------~G-----~~I~at~~~~~~~kf~~~l~eG~vy~i  248 (623)
                      -|..++..|.|||.+--++|...+  | ..+.+|.|+ +.      +|     +-|++++|+..++.....|+.|+-+.|
T Consensus        13 ~~~~N~V~LiGrL~~DPelr~t~~--G-~~va~f~lAv~~r~~~~~~Ge~~~t~~~~v~~wg~~Ae~~~~~l~KG~~V~V   89 (153)
T 1z9f_A           13 MSFFNKIILIGRLVRDPEERYTLS--G-TPVTTFTIAVDRVPRKNAPDDAQTTDFFRIVTFGRLAEFARTYLTKGRLVLV   89 (153)
T ss_dssp             CSCCCCEEEEEEESSCCEEEECC-----CEEEEEEEEEEC-----------CEEEEEEEEEHHHHHHHHHHCCTTCEEEE
T ss_pred             ccceeEEEEEEEECCCCEEEECCC--C-CEEEEEEEEEcCCccccCCCCEeeeEEEEEEEECHHHHHHHhhCCCCCEEEE
Confidence            355678999999999888887643  2 246666654 22      23     249999999999999999999999999


Q ss_pred             eeeEEEe
Q 006973          249 SRGTLRV  255 (623)
Q Consensus       249 s~~~V~~  255 (623)
                      .+ +++.
T Consensus        90 eG-rL~~   95 (153)
T 1z9f_A           90 EG-EMRM   95 (153)
T ss_dssp             EE-EEEE
T ss_pred             EE-EEEe
Confidence            85 4433

>3cc2_Z 50S ribosomal protein L37AE, 50S ribosomal protein L32E; genomic sequnece for R-proteins, ribonucleoprotein, ribosoma protein, RNA-binding; HET: 1MA OMU OMG UR3 PSU; 2.40A {Haloarcula marismortui} SCOP: g.41.8.1 PDB: 3cc4_Z* 3cc7_Z* 3cce_Z* 3ccj_Z* 3ccl_Z* 3ccm_Z* 3ccq_Z* 3ccr_Z* 3ccs_Z* 3ccu_Z* 3ccv_Z* 3cd6_Z* 3cma_Z* 3cme_Z* 3i55_Z* 3i56_Z* 3cpw_Y* 4adx_Z

Probab=84.67  E-value=0.29  Score=41.80  Aligned_cols=28  Identities=21%  Similarity=0.466  Sum_probs=21.9

Q ss_pred             cccccccc-ceecCCCCeeecCcCCCCcc
Q 006973          483 RACKTCNK-KVTDALGSGYWCEGCQKNDE  510 (623)
Q Consensus       483 ~aC~~C~K-Kv~~~~~~~~~C~kC~~~~~  510 (623)
                      .-||.|+| +|.....|.|.|.+|++.+.
T Consensus        61 ytCPfCGk~~vKR~avGIW~C~~Cgk~fA   89 (116)
T 3cc2_Z           61 HACPNCGEDRVDRQGTGIWQCSYCDYKFT   89 (116)
T ss_dssp             EECSSSCCEEEEEEETTEEEETTTCCEEE
T ss_pred             CcCCCCCCceeEecCceeEECCCCCCEEE
Confidence            35999998 56555578999999998754

>3i7f_A Aspartyl-tRNA synthetase; tRNA ligase, APO, ATP-binding, aminoacyl-tRNA synthetase, LI nucleotide-binding, protein biosynthesis; 2.80A {Entamoeba histolytica}

Probab=84.34  E-value=5.9  Score=43.37  Aligned_cols=99  Identities=20%  Similarity=0.179  Sum_probs=69.4

Q ss_pred             cCeeeccccCCC--CCCeEEEEEEEeeccccccccCCCcccEEEEEEEeCCCCeEEEEEech-----HHHHHHhhcccCc
Q 006973          172 RRVHPLVSLNPY--QGNWTIKVRVTSKGNMRTYKNARGEGCVFNVELTDEDGTQIQATMFNE-----AARKFYDRFQLGK  244 (623)
Q Consensus       172 ~~~~~I~~L~p~--~~~w~I~~RV~~K~~~r~~~~~~g~g~~f~~~L~D~~G~~I~at~~~~-----~~~kf~~~l~eG~  244 (623)
                      ...+.|.+|.+.  ....+|+|||.++   |.      .|++.=++|.|.+| .|++.+..+     ..-++...|..|+
T Consensus        48 ~~~~~i~~l~~~~~g~~V~v~Gwv~~~---R~------~gkl~Fi~LrD~~g-~iQ~v~~~~~~~~~~~~~~~~~l~~es  117 (548)
T 3i7f_A           48 LKYTEIEELVPAMAEKTVTIRARVQAV---RG------KGNMVFLFLRKGIY-TCQALVMKSETISKEFVQFCQKISAES  117 (548)
T ss_dssp             CCBCCGGGCSGGGTTCEEEEEEEEEEE---EE------CSSEEEEEEEETTE-EEEEEEECSSSSCHHHHHHHHTCCTTE
T ss_pred             CceEEhhhcchhcCCCEEEEEEEEEEE---ec------CCCeEEEEEEECCe-eEEEEEECCCccCHHHHHHHhCCCCCC
Confidence            456889999753  3478999999773   32      34666678999999 899999751     3345667799999


Q ss_pred             EEEEeeeEEEecCCCccccCCceEEEEccCcEEEEc
Q 006973          245 VYYISRGTLRVANKQFKTVQNDYEMNLNENSEVEEA  280 (623)
Q Consensus       245 vy~is~~~V~~a~~~~~~~~~~yei~f~~~T~I~~~  280 (623)
                      ++.+.+.-++...+.-+.....+||....-..+..+
T Consensus       118 ~V~V~G~v~~~~~~~~~~~~~~~El~~~~i~vls~a  153 (548)
T 3i7f_A          118 ICDITGIVKAVEKPIEKATQQDVEIHVTSIAVVSLA  153 (548)
T ss_dssp             EEEEEEEEEECSSCCTTSSSCSEEEEEEEEEEEECC
T ss_pred             EEEEEEEEEeCCcccccCCCCcEEEEEeEEEEEecC
Confidence            999996544433222123357899998876666655

>1v1q_A Primosomal replication protein N; primosome, DNA replication, DNA binding; 2.1A {Escherichia coli} SCOP: b.40.4.3 PDB: 2ccz_A

Probab=84.30  E-value=2.5  Score=37.39  Aligned_cols=64  Identities=11%  Similarity=0.065  Sum_probs=50.8

Q ss_pred             CCeEEEEEEEeeccccccccCCCcccEEEEEEE-----eCCCC------eEEEEEechHHHHHHhhcccCcEEEEeee
Q 006973          185 GNWTIKVRVTSKGNMRTYKNARGEGCVFNVELT-----DEDGT------QIQATMFNEAARKFYDRFQLGKVYYISRG  251 (623)
Q Consensus       185 ~~w~I~~RV~~K~~~r~~~~~~g~g~~f~~~L~-----D~~G~------~I~at~~~~~~~kf~~~l~eG~vy~is~~  251 (623)
                      ++..+.||+++--++|...+  | ..+.+|.|+     ++.|.      .|+|++|+..++...+.|..|+-++|.+.
T Consensus        20 NkViLiGrL~~DPElRyTps--G-~~Va~ftLA~~~~~~~~G~~~~~~~~i~vv~wGk~AE~~~~yl~KGs~V~VeGr   94 (134)
T 1v1q_A           20 NRLVLSGTVCRAPLRKVSPS--G-IPHCQFVLEHRSVQEEAGFHRQAWCQMPVIVSGHENQAITHSITVGSRITVQGF   94 (134)
T ss_dssp             EEEEEEEEEEEEEEEEECTT--C-CEEEEEEEEEEEEEEETTEEEEEEEEEEEEEESTGGGGGGTTCCTTCEEEEEEE
T ss_pred             eEEEEEEEECcCCceEECCC--C-CEEEEEEEEEeCcCcCCCCEecceEEEEEEEEhHHHHHHHHhcCCCCEEEEEEE
Confidence            78999999999999997643  3 246666653     33452      39999999999999999999999999965

>1vq8_Z 50S ribosomal protein L37AE; ribosome 50S, protein-protein complex, RNA-RNA complex, PROT complex, peptidyl transferase reaction; HET: 1MA OMU OMG UR3 PSU SPS; 2.20A {Haloarcula marismortui} SCOP: g.41.8.1 PDB: 1vq4_Z* 1vq6_Z* 1vq5_Z* 1vq7_Z* 1vq9_Z* 1vqk_Z* 1vql_Z* 1vqm_Z* 1vqn_Z* 1vqo_Z* 1vqp_Z* 1yhq_Z* 1yi2_Z* 1yij_Z* 1yit_Z* 1yj9_Z* 1yjn_Z* 1yjw_Z* 2qa4_Z* 1s72_Z* ...

Probab=83.42  E-value=0.36  Score=39.05  Aligned_cols=27  Identities=19%  Similarity=0.383  Sum_probs=20.7

Q ss_pred             cccccccce-ecCCCCeeecCcCCCCcc
Q 006973          484 ACKTCNKKV-TDALGSGYWCEGCQKNDE  510 (623)
Q Consensus       484 aC~~C~KKv-~~~~~~~~~C~kC~~~~~  510 (623)
                      .||.|++.. .....|.|.|+.|+..+.
T Consensus        29 ~Cp~CG~~~v~r~atGiW~C~~Cg~~~a   56 (83)
T 1vq8_Z           29 ACPNCGEDRVDRQGTGIWQCSYCDYKFT   56 (83)
T ss_dssp             ECSSSCCEEEEEEETTEEEETTTCCEEE
T ss_pred             cCCCCCCcceeccCCCeEECCCCCCEec
Confidence            699999844 344468999999998753

>3koj_A Uncharacterized protein YCF41; single-strand binding protein family, PF00436, SNR59A, NESG, structural genomics, PSI-2; 1.90A {Synechococcus elongatus pcc 6301}

Probab=83.31  E-value=5.2  Score=33.93  Aligned_cols=69  Identities=13%  Similarity=0.188  Sum_probs=52.4

Q ss_pred             CCCCeEEEEEEEeeccccccccCCCcccEEEEEEEeC------CCCeEEEEEechHHHHHHhhcccCcEEEEeeeEEE
Q 006973          183 YQGNWTIKVRVTSKGNMRTYKNARGEGCVFNVELTDE------DGTQIQATMFNEAARKFYDRFQLGKVYYISRGTLR  254 (623)
Q Consensus       183 ~~~~w~I~~RV~~K~~~r~~~~~~g~g~~f~~~L~D~------~G~~I~at~~~~~~~kf~~~l~eG~vy~is~~~V~  254 (623)
                      .++...+.||+++--++|...+  |...+.+|.|+=.      .-+-|++++|+..|+.....|+.|+-+.|.+ +++
T Consensus        10 ~~~~v~LiGrL~~DPelR~t~~--g~~~va~f~lAv~~~~~~~~t~fi~vv~wgk~AE~~~~yl~KG~~V~VeG-rL~   84 (108)
T 3koj_A           10 HMNSCILQATVVEAPQLRYAQD--NQTPVAEMVVQFPGLSSKDAPARLKVVGWGAVAQELQDRCRLNDEVVLEG-RLR   84 (108)
T ss_dssp             SCEEEEEEEEEEEEEEEEECTT--SSSEEEEEEEEECC-----CCEEEEEEEETHHHHHHHHHCCTTCEEEEEE-EEE
T ss_pred             ccceEEEEEEECCCCEEEEeCC--CCEEEEEEEEEECCcccCCCcEEEEEEEEhHHHHHHHHhCCCCCEEEEEE-EEE
Confidence            4567889999999999987653  2125667766432      2235999999999999999999999999975 343

>3jyw_9 60S ribosomal protein L43; eukaryotic ribosome, RACK1 protein, flexible fitting; 8.90A {Thermomyces lanuginosus}

Probab=83.16  E-value=0.49  Score=37.02  Aligned_cols=31  Identities=26%  Similarity=0.505  Sum_probs=22.7

Q ss_pred             ccccccccc-eecCCCCeeecCcCCCCccccc
Q 006973          483 RACKTCNKK-VTDALGSGYWCEGCQKNDEECS  513 (623)
Q Consensus       483 ~aC~~C~KK-v~~~~~~~~~C~kC~~~~~~~~  513 (623)
                      .-||.|+|. |.....|.|.|.+|++.+.--.
T Consensus        27 y~C~fCgk~~vkR~a~GIW~C~~C~~~~AGGA   58 (72)
T 3jyw_9           27 YDCSFCGKKTVKRGAAGIWTCSCCKKTVAGGA   58 (72)
T ss_dssp             BCCSSCCSSCBSBCSSSCBCCSSSCCCCCCSS
T ss_pred             ccCCCCCCceeEecCCCeEECCCCCCEEeCCc
Confidence            359999865 4444578999999998875433

>1eov_A ASPRS, aspartyl-tRNA synthetase; aminoacyl tRNA synthetase, tRNA ligase, APO-enzyme, OB-fold,; 2.30A {Saccharomyces cerevisiae} SCOP: b.40.4.1 d.104.1.1 PDB: 1asy_A* 1asz_A*

Probab=82.08  E-value=5.9  Score=42.84  Aligned_cols=98  Identities=14%  Similarity=0.202  Sum_probs=64.5

Q ss_pred             CeeeccccCCC---CCCeEEEEEEEeeccccccccCCCcccE-EEEEEEeCCCCeEEEEEech-------HHHHHHhhcc
Q 006973          173 RVHPLVSLNPY---QGNWTIKVRVTSKGNMRTYKNARGEGCV-FNVELTDEDGTQIQATMFNE-------AARKFYDRFQ  241 (623)
Q Consensus       173 ~~~~I~~L~p~---~~~w~I~~RV~~K~~~r~~~~~~g~g~~-f~~~L~D~~G~~I~at~~~~-------~~~kf~~~l~  241 (623)
                      +.+.|.+|...   ....+|.|||.++   |.      .|++ .=++|.|.+| .|++++-.+       ..-++...|.
T Consensus        22 ~~~~~~~l~~~~~~g~~V~v~GwV~~~---R~------~g~~l~Fi~LrD~~g-~iQvv~~~~~~~~~~~~~~~~~~~l~   91 (487)
T 1eov_A           22 KRVKFVDLDEAKDSDKEVLFRARVHNT---RQ------QGATLAFLTLRQQAS-LIQGLVKANKEGTISKNMVKWAGSLN   91 (487)
T ss_dssp             CCCCGGGCCTTTTTTCEEEEEEEEEEE---EE------CSSSEEEEEEEETTE-EEEEEEECCSSSSSCHHHHHHHTTCC
T ss_pred             ceeEHHHhcccccCCCEEEEEEEEEEe---ec------cCCccEEEEEEECCc-cEEEEEeccccccccHHHHHHHhcCC
Confidence            34667887653   3468999999874   33      3454 4568999999 899998543       2234456799


Q ss_pred             cCcEEEEeeeEEEecCCCccccCCceEEEEccCcEEEEc
Q 006973          242 LGKVYYISRGTLRVANKQFKTVQNDYEMNLNENSEVEEA  280 (623)
Q Consensus       242 eG~vy~is~~~V~~a~~~~~~~~~~yei~f~~~T~I~~~  280 (623)
                      .|+++.+.+.-++...+.-+.....+||....-..+.++
T Consensus        92 ~e~~V~V~G~v~~~~~~~~~~~~g~~El~~~~i~vl~~a  130 (487)
T 1eov_A           92 LESIVLVRGIVKKVDEPIKSATVQNLEIHITKIYTISET  130 (487)
T ss_dssp             TTCEEEEEEEEEECSSCCTTSSEEEEEEEEEEEEEEECC
T ss_pred             CCCEEEEEEEEEeCCCCCcCCCCCcEEEEEEEEEEeecc
Confidence            999999997654443221112235688888766666655

>1qvc_A Single stranded DNA binding protein monomer; beta-barrel; 2.20A {Escherichia coli} SCOP: b.40.4.3 PDB: 1kaw_A 1eyg_A 1sru_A

Probab=81.64  E-value=3.8  Score=36.65  Aligned_cols=65  Identities=20%  Similarity=0.288  Sum_probs=50.3

Q ss_pred             CCCeEEEEEEEeeccccccccCCCcccEEEEEEEeC-------CC------CeEEEEEechHHHHHHhhcccCcEEEEee
Q 006973          184 QGNWTIKVRVTSKGNMRTYKNARGEGCVFNVELTDE-------DG------TQIQATMFNEAARKFYDRFQLGKVYYISR  250 (623)
Q Consensus       184 ~~~w~I~~RV~~K~~~r~~~~~~g~g~~f~~~L~D~-------~G------~~I~at~~~~~~~kf~~~l~eG~vy~is~  250 (623)
                      +++.+|.+||.+--++|...+  | ..+.+|.|+=.       +|      +-|++++|+..++.+...|+.|+.+.|.+
T Consensus         5 mN~v~L~GrL~~dPelr~t~~--G-~~v~~f~lA~~~~~~~~~~Ge~~~~t~~~~v~~wg~~Ae~~~~~l~KG~~V~V~G   81 (145)
T 1qvc_A            5 VNKVILVGNLGQDPEVRYMPN--G-GAVANITLATSESWRDKATGEMKEQTEWHRVVLFGKLAEVASEYLRKGSQVYIEG   81 (145)
T ss_dssp             EEEEEEEEEESSCCEEECCSS--S-CCEEEEEEEECCCCSCCSSSSCCCCCEEEEEEEETHHHHHHHHHCCTTCEEEEEE
T ss_pred             eEEEEEEEEeCCCCEEEECCC--C-CEEEEEEEEEcCCcccccCCcEecccEEEEEEEehHHHHHHHHhcCCCCEEEEEE
Confidence            467889999999888887643  2 24667766421       13      25999999999999999999999999985


Q ss_pred             e
Q 006973          251 G  251 (623)
Q Consensus       251 ~  251 (623)
                      .
T Consensus        82 ~   82 (145)
T 1qvc_A           82 Q   82 (145)
T ss_dssp             E
T ss_pred             E
Confidence            3

>3afp_A Single-stranded DNA-binding protein; OB-fold, quaternary structure and stability, changes on oligomerisation, water-bridges, DNA damage; 2.05A {Mycobacterium leprae} PDB: 3afq_A 1ue1_A 1ue5_A 1ue6_A 1ue7_A 1x3e_A 1x3f_A 1x3g_A 3a5u_A*

Probab=81.53  E-value=4.1  Score=37.43  Aligned_cols=64  Identities=19%  Similarity=0.308  Sum_probs=49.2

Q ss_pred             CCCeEEEEEEEeeccccccccCCCcccEEEEEEEe------C-CC-------CeEEEEEechHHHHHHhhcccCcEEEEe
Q 006973          184 QGNWTIKVRVTSKGNMRTYKNARGEGCVFNVELTD------E-DG-------TQIQATMFNEAARKFYDRFQLGKVYYIS  249 (623)
Q Consensus       184 ~~~w~I~~RV~~K~~~r~~~~~~g~g~~f~~~L~D------~-~G-------~~I~at~~~~~~~kf~~~l~eG~vy~is  249 (623)
                      .++.+|.+||++--++|...+  | ..+.+|.|+=      . +|       +-|++++|+.+++.+...|+.|+.++|.
T Consensus         4 ~N~V~LiG~L~~dPelr~t~~--G-~~va~f~lAv~~~~~~~~~Ge~~d~~t~~~~v~~wg~~Ae~~~~~l~KG~~V~Ve   80 (168)
T 3afp_A            4 DTTITIVGNLTADPELRFTSS--G-AAVVNFTVASTPRIYDRQSGEWKDGEALFLRCNIWREAAENVAESLTRGARVIVT   80 (168)
T ss_dssp             CCEEEEEEEESSSCCCEECTT--S-CEEEEEEEEECC--------CCCCCCCEEEEEEEEHHHHHHHHHHCCTTCEEEEE
T ss_pred             cCEEEEEEEECCCCEEEECCC--C-CEEEEEEEEEccccccccCCcEecCCcEEEEEEEehHHHHHHHHhCCCCCEEEEE
Confidence            567899999999888887653  2 2466666641      1 12       2599999999999999999999999998


Q ss_pred             e
Q 006973          250 R  250 (623)
Q Consensus       250 ~  250 (623)
                      .
T Consensus        81 G   81 (168)
T 3afp_A           81 G   81 (168)
T ss_dssp             E
T ss_pred             E
Confidence            5

>3tqy_A Single-stranded DNA-binding protein; DNA replication, transferase; 2.60A {Coxiella burnetii}

Probab=81.20  E-value=3.2  Score=37.74  Aligned_cols=66  Identities=23%  Similarity=0.261  Sum_probs=50.5

Q ss_pred             CCCCeEEEEEEEeeccccccccCCCcccEEEEEE------EeC-CCC------eEEEEEechHHHHHHhhcccCcEEEEe
Q 006973          183 YQGNWTIKVRVTSKGNMRTYKNARGEGCVFNVEL------TDE-DGT------QIQATMFNEAARKFYDRFQLGKVYYIS  249 (623)
Q Consensus       183 ~~~~w~I~~RV~~K~~~r~~~~~~g~g~~f~~~L------~D~-~G~------~I~at~~~~~~~kf~~~l~eG~vy~is  249 (623)
                      .+++.+|.|||.+.-++|...+  | ..+.+|.|      .|+ .|.      -|++++|+.+++.+...|+.|+.+.|.
T Consensus         7 ~mN~V~LiGrL~~dPelr~t~~--G-~~v~~f~lA~~~~~~d~~~Ge~~e~t~~i~vv~wg~~Ae~~~~~l~KG~~V~Ve   83 (158)
T 3tqy_A            7 GVNKVILIGNLGQDPEVRYTPN--G-NAVANVTLATSTTWRDKQTGELQERTEWHRIAFFNRLAEIVGEYLRKGSKIYIE   83 (158)
T ss_dssp             CEEEEEEEEEESSSCEEEECTT--C-CEEEEEEEEEEEEEECTTTCCEEEEEEEEEEEEETHHHHHHHHHCCTTCEEEEE
T ss_pred             ccCEEEEEEEECCCCEEEECCC--C-CEEEEEEEEEcCceeccCCCCEeeeeEEEEEEEEhHHHHHHHhhcCCCCEEEEE
Confidence            4578999999999888887653  2 14555544      344 453      379999999999999999999999998


Q ss_pred             ee
Q 006973          250 RG  251 (623)
Q Consensus       250 ~~  251 (623)
                      +.
T Consensus        84 G~   85 (158)
T 3tqy_A           84 GS   85 (158)
T ss_dssp             EE
T ss_pred             EE
Confidence            64

---

Homologous Structure Domains

Structure Domains Detected by RPS-BLAST

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

ID	Length	Definition	E-value
Query	623
d1l1oc_	178	b.40.4.3 (C:) Replication protein A 70 KDa subunit	8e-52
d1jmca2	122	b.40.4.3 (A:299-420) Replication protein A 70 KDa	3e-40
d1jmca1	116	b.40.4.3 (A:183-298) Replication protein A 70 KDa	6e-40
d1o7ia_	115	b.40.4.3 (A:) Archaeal ssDNA-binding protein {Arch	4e-19
d2b3ga1	112	b.40.4.3 (A:3-114) Replication protein A 70 KDa su	7e-15

>d1l1oc_ b.40.4.3 (C:) Replication protein A 70 KDa subunit (RPA70) {Human (Homo sapiens) [TaxId: 9606]} Length = 178

class: All beta proteins
fold: OB-fold
superfamily: Nucleic acid-binding proteins
family: Single strand DNA-binding domain, SSB
domain: Replication protein A 70 KDa subunit (RPA70)
species: Human (Homo sapiens) [TaxId: 9606]

 Score =  174 bits (442), Expect = 8e-52
 Identities = 49/159 (30%), Positives = 78/159 (49%), Gaps = 5/159 (3%)

Query: 460 EKPVFFSIKAYISLIKPDQAMWYRACKT--CNKKVTDALGSGYWCEGCQKNDEECSLRYI 517
           +KP +FS  A +  ++ +    Y+AC T  CNKKV D     Y CE C         R I
Sbjct: 19  DKPDYFSSVATVVYLRKENC-MYQACPTQDCNKKVIDQQNGLYRCEKCDTEFPNFKYRMI 77

Query: 518 MVARVCDGSGEAWISIFNEEAERIIGCSADELNELKSQLGDDNSYQMKLKEVTWVPHLLR 577
           +   + D     W++ F E AE I+G +A  L ELK +  ++ +++   +   +   + R
Sbjct: 78  LSVNIADFQENQWVTCFQESAEAILGQNAAYLGELKDK--NEQAFEEVFQNANFRSFIFR 135

Query: 578 VSVAQQEYNNEKRQRVTVRAVAPVDFAAESKFLLEEISK 616
           V V  + YN+E R + TV  V PVD+    + L+  I +
Sbjct: 136 VRVKVETYNDESRIKATVMDVKPVDYREYGRRLVMSIRR 174

>d1jmca2 b.40.4.3 (A:299-420) Replication protein A 70 KDa subunit (RPA70) {Human (Homo sapiens) [TaxId: 9606]} Length = 122

class: All beta proteins
fold: OB-fold
superfamily: Nucleic acid-binding proteins
family: Single strand DNA-binding domain, SSB
domain: Replication protein A 70 KDa subunit (RPA70)
species: Human (Homo sapiens) [TaxId: 9606]

 Score =  140 bits (355), Expect = 3e-40
 Identities = 50/129 (38%), Positives = 77/129 (59%), Gaps = 7/129 (5%)

Query: 291 KFNFVPIDELGRYVNGTELVDIIGVVQNVSPTMSIRRKSNNEMVPKRDITVADETKRTVT 350
           +F+F  ID+L      + LVDIIG+ ++      I  +SNN  V KR+I + D + + VT
Sbjct: 1   QFDFTGIDDLENKSKDS-LVDIIGICKSYEDATKITVRSNNREVAKRNIYLMDTSGKVVT 59

Query: 351 VSLWNELATNVGQELLDNADKSPIVAIKSLKVGDFQGISLSTLGRSTVLVSPDLPEAKKL 410
            +LW E A         +  + P++AIK  +V DF G SLS L  ST++ +PD+PEA KL
Sbjct: 60  ATLWGEDADKF------DGSRQPVLAIKGARVSDFGGRSLSVLSSSTIIANPDIPEAYKL 113

Query: 411 KSWYESEGK 419
           + W+++EG+
Sbjct: 114 RGWFDAEGQ 122

>d1jmca1 b.40.4.3 (A:183-298) Replication protein A 70 KDa subunit (RPA70) {Human (Homo sapiens) [TaxId: 9606]} Length = 116

class: All beta proteins
fold: OB-fold
superfamily: Nucleic acid-binding proteins
family: Single strand DNA-binding domain, SSB
domain: Replication protein A 70 KDa subunit (RPA70)
species: Human (Homo sapiens) [TaxId: 9606]

 Score =  139 bits (352), Expect = 6e-40
 Identities = 57/117 (48%), Positives = 78/117 (66%), Gaps = 2/117 (1%)

Query: 173 RVHPLVSLNPYQGNWTIKVRVTSKGNMRTYKNARGEGCVFNVELTDEDGTQIQATMFNEA 232
           +V P+ SL PYQ  WTI  RVT+K  +RT+ N+RGEG +F++EL DE G  I+AT FNE 
Sbjct: 1   KVVPIASLTPYQSKWTICARVTNKSQIRTWSNSRGEGKLFSLELVDESGE-IRATAFNEQ 59

Query: 233 ARKFYDRFQLGKVYYISRGTLRVANKQFKTVQNDYEMNLNENSEVEEAVNETAFIPQ 289
             KF+   ++ KVYY S+GTL++ANKQF  V+NDYEM  N  + V    ++   +P 
Sbjct: 60  VDKFFPLIEVNKVYYFSKGTLKIANKQFTAVKNDYEMTFNNETSVMPCEDDHH-LPT 115

>d1o7ia_ b.40.4.3 (A:) Archaeal ssDNA-binding protein {Archaeon Sulfolobus solfataricus [TaxId: 2287]} Length = 115

class: All beta proteins
fold: OB-fold
superfamily: Nucleic acid-binding proteins
family: Single strand DNA-binding domain, SSB
domain: Archaeal ssDNA-binding protein
species: Archaeon Sulfolobus solfataricus [TaxId: 2287]

 Score = 81.1 bits (200), Expect = 4e-19
 Identities = 17/102 (16%), Positives = 36/102 (35%), Gaps = 12/102 (11%)

Query: 179 SLNPYQGNWTIKVRVTSKGNMRTYKNARGEGCVFNVELTDEDGTQIQATMFNEAARKFYD 238
           +L P   +  + VRV      R  +   G   +    + DE G  ++ T++ +       
Sbjct: 7   NLKPNMESVNVTVRVLEASEARQIQTKNGVRTISEAIVGDETGR-VKLTLWGK----HAG 61

Query: 239 RFQLGKVYYISRGTLRVANKQFKTVQNDYEMNLNENSEVEEA 280
             + G+V  I               +   ++N    +++ EA
Sbjct: 62  SIKEGQVVKIENA-------WTTAFKGQVQLNAGSKTKIAEA 96

>d2b3ga1 b.40.4.3 (A:3-114) Replication protein A 70 KDa subunit (RPA70) {Human (Homo sapiens) [TaxId: 9606]} Length = 112

class: All beta proteins
fold: OB-fold
superfamily: Nucleic acid-binding proteins
family: Single strand DNA-binding domain, SSB
domain: Replication protein A 70 KDa subunit (RPA70)
species: Human (Homo sapiens) [TaxId: 9606]

 Score = 69.0 bits (169), Expect = 7e-15
 Identities = 22/114 (19%), Positives = 52/114 (45%), Gaps = 12/114 (10%)

Query: 5   VSPDAISTILSNPSPDSSSDIPEIVVQVLDLKL-----TGNRYMFNASDGKKRLK-AILP 58
           +S  AI+ I+     +      + ++QV++++      +  RY    SDG   L   +L 
Sbjct: 3   LSEGAIAAIMQKGDTN-----IKPILQVINIRPITTGNSPPRYRLLMSDGLNTLSSFMLA 57

Query: 59  SNLSSEVISGNIQNKGLIRLLDYALNEIPTKSEKYLIVTKCEVVSPALEMEIKI 112
           + L+  V    + +  + ++  + +N +     + +I+ + EV+  A  + +KI
Sbjct: 58  TQLNPLVEEEQLSSNCVCQIHRFIVNTLKDG-RRVVILMELEVLKSAEAVGVKI 110

Homologous Domains Detected by HHsearch

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

ID	Length	Definition	Probability
Query	623
d1l1oc_	178	Replication protein A 70 KDa subunit (RPA70) {Huma	100.0
d1jmca2	122	Replication protein A 70 KDa subunit (RPA70) {Huma	99.96
d1jmca1	116	Replication protein A 70 KDa subunit (RPA70) {Huma	99.96
d2b3ga1	112	Replication protein A 70 KDa subunit (RPA70) {Huma	99.94
d1o7ia_	115	Archaeal ssDNA-binding protein {Archaeon Sulfolobu	99.51
d1o7ia_	115	Archaeal ssDNA-binding protein {Archaeon Sulfolobu	99.0
d1wjja_	145	Hypothetical protein At4g28440 (F20O9.120) {Thale	98.79
d1wjja_	145	Hypothetical protein At4g28440 (F20O9.120) {Thale	98.67
d1jmca1	116	Replication protein A 70 KDa subunit (RPA70) {Huma	98.43
d1xjva1	140	Protection of telomeres protein 1, Pot1 {Human (Ho	98.38
d1jmca2	122	Replication protein A 70 KDa subunit (RPA70) {Huma	97.94
d1jb7a1	169	Telomere end binding protein alpha subunit {Oxytri	97.71
d1qzga_	170	Protection of telomeres protein 1, Pot1 {Fission y	97.21
d1se8a_	231	ssDNA-binding protein {Deinococcus radiodurans [Ta	96.52
d1xjva1	140	Protection of telomeres protein 1, Pot1 {Human (Ho	94.46
d1xjva2	151	Protection of telomeres protein 1, Pot1 {Human (Ho	94.08
d1jb7a1	169	Telomere end binding protein alpha subunit {Oxytri	91.91
d1iyjb3	133	OB-fold domains of BRCA2 {Rat (Rattus norvegicus)	91.09
d1eova1	134	Aspartyl-tRNA synthetase (AspRS) {Baker's yeast (S	90.6
d2pi2a1	128	Replication protein A 32 KDa subunit (RPA32) fragm	90.29
d1gm5a2	180	RecG "wedge" domain {Thermotoga maritima [TaxId: 2	90.08
d1v1qa_	111	Primosomal replication protein N, PriB {Escherichi	89.61
d1iyjb5	138	OB-fold domains of BRCA2 {Rat (Rattus norvegicus)	89.34
d1vqoz1	73	Ribosomal protein L37ae {Archaeon Haloarcula maris	88.33
d1c0aa1	106	Aspartyl-tRNA synthetase (AspRS) {Escherichia coli	86.72
d1se8a_	231	ssDNA-binding protein {Deinococcus radiodurans [Ta	86.63
d1e1oa1	143	Lysyl-tRNA synthetase (LysRS) {Escherichia coli, g	86.46
d1n9wa1	93	Aspartyl-tRNA synthetase (AspRS) {Thermus thermoph	86.31
d1qvca_	145	ssDNA-binding protein {Escherichia coli [TaxId: 56	85.97
d1ue1a_	118	ssDNA-binding protein {Mycobacterium tuberculosis	85.64
d1jb7a2	124	Telomere end binding protein alpha subunit {Oxytri	85.28
d1b8aa1	103	Aspartyl-tRNA synthetase (AspRS) {Archaeon Pyrococ	85.26
d1jj2y_	73	Ribosomal protein L37ae {Archaeon Haloarcula maris	84.08
d2akla2	38	Hypothetical protein PA0128, N-terminal domain {Ps	82.91
d1l0wa1	104	Aspartyl-tRNA synthetase (AspRS) {Thermus thermoph	82.24
d1r2za3	46	DNA repair protein MutM (Fpg) {Bacillus stearother	81.89
d1vd4a_	62	Transcription initiation factor TFIIE-alpha {Human	80.2
d1k82a3	44	DNA repair protein MutM (Fpg) {Escherichia coli [T	80.04

>d1l1oc_ b.40.4.3 (C:) Replication protein A 70 KDa subunit (RPA70) {Human (Homo sapiens) [TaxId: 9606]}

class: All beta proteins
fold: OB-fold
superfamily: Nucleic acid-binding proteins
family: Single strand DNA-binding domain, SSB
domain: Replication protein A 70 KDa subunit (RPA70)
species: Human (Homo sapiens) [TaxId: 9606]

Probab=100.00  E-value=7e-44  Score=337.24  Aligned_cols=172  Identities=31%  Similarity=0.575  Sum_probs=157.2

Q ss_pred             ccceehhccccCCCCCC-CCCeEEEEEEEEEEEeCCCCeEeccccc--cccceecCCCCeeecCcCCCCccccceeEEEE
Q 006973          443 SDRVSLTHITSNPSLGD-EKPVFFSIKAYISLIKPDQAMWYRACKT--CNKKVTDALGSGYWCEGCQKNDEECSLRYIMV  519 (623)
Q Consensus       443 ~~~~ti~~i~~~~~~~~-~~~~~~~v~a~I~~i~~d~~~~Y~aC~~--C~KKv~~~~~~~~~C~kC~~~~~~~~~ry~l~  519 (623)
                      ++++||+||++ +++|. ++|+||+|+|+|+.|+.+ +|||+|||.  |+|||.+.++|.|+|++|++.+++|.|||+|+
T Consensus         2 ~~~kti~~i~~-e~lg~~~k~d~f~v~a~I~~i~~~-~~~Y~aCp~~~C~KKv~~~~~g~~~C~kC~~~~~~~~~ry~l~   79 (178)
T d1l1oc_           2 TNWKTLYEVKS-ENLGQGDKPDYFSSVATVVYLRKE-NCMYQACPTQDCNKKVIDQQNGLYRCEKCDTEFPNFKYRMILS   79 (178)
T ss_dssp             CCBCCHHHHHH-HTTTSSSSCEEEEEEEEEEEECCS-TTEEEBCCSTTCCCBCEEETTTEEEETTTTEEESSCCEEEEEE
T ss_pred             CccccHHHHHh-ccCCCCCCCCEEEEEEEEEEEeCC-CeEEcCCCCcccCCccccCCCCcEECCCCCCcCCCceEEEEEE
Confidence            57899999999 67775 899999999999999987 699999996  99999877688999999999999999999999


Q ss_pred             EEEEeCCCcEEEEEehHhHHHHhCCCHHHHHHHHhhcCCchhHHHHHHHhcCceEEEEEEEEeeecCceeeeEEEEEEee
Q 006973          520 ARVCDGSGEAWISIFNEEAERIIGCSADELNELKSQLGDDNSYQMKLKEVTWVPHLLRVSVAQQEYNNEKRQRVTVRAVA  599 (623)
Q Consensus       520 ~~i~D~Tg~~~~~~F~~~ae~llG~sA~el~~~~~~~~~~~~~~~~l~~~~~~~~~f~v~~k~~~y~~~~r~~~~v~~~~  599 (623)
                      +.|+|+||++|+++||+.|++|||+||+||.++.++  ++..|+.+++++.|++|.|++++++++|||+.|+|++|++++
T Consensus        80 ~~i~D~Tg~~~~~~F~~~a~~l~G~sA~EL~~~~~~--d~~~~~~~~~~l~~k~~~f~~~~k~~~yn~e~r~k~~v~~i~  157 (178)
T d1l1oc_          80 VNIADFQENQWVTCFQESAEAILGQNAAYLGELKDK--NEQAFEEVFQNANFRSFIFRVRVKVETYNDESRIKATVMDVK  157 (178)
T ss_dssp             EEEECSSCEEEEEEEHHHHHHHHSSCHHHHHHHTTS--CHHHHHHHHHHTTTCEEEEEEEEECCCC-----CEEEEEEEE
T ss_pred             EEEecCCCCEEEEEehhhHHHHhCCCHHHHHHHhhc--CHHHHHHHHHHhcCcEEEEEEEEEecccCCeeEEEEEEEEeE
Confidence            999999999999999999999999999999999864  467999999999999999999999999999999999999999


Q ss_pred             ccCHHHHHHHHHHHHHhhh
Q 006973          600 PVDFAAESKFLLEEISKKV  618 (623)
Q Consensus       600 ~vd~~~e~~~Ll~~i~~~~  618 (623)
                      |+||++|+++|+++|++|.
T Consensus       158 pvd~~~e~~~L~~~I~~~~  176 (178)
T d1l1oc_         158 PVDYREYGRRLVMSIRRSA  176 (178)
T ss_dssp             ECCHHHHHHHHHHHHHHHH
T ss_pred             eCCHHHHHHHHHHHHHHhh
Confidence            9999999999999999885

>d1jmca2 b.40.4.3 (A:299-420) Replication protein A 70 KDa subunit (RPA70) {Human (Homo sapiens) [TaxId: 9606]}

class: All beta proteins
fold: OB-fold
superfamily: Nucleic acid-binding proteins
family: Single strand DNA-binding domain, SSB
domain: Replication protein A 70 KDa subunit (RPA70)
species: Human (Homo sapiens) [TaxId: 9606]

Probab=99.96  E-value=1.6e-29  Score=224.09  Aligned_cols=122  Identities=41%  Similarity=0.735  Sum_probs=113.8

Q ss_pred             ccccccccccccccCCcceeEEEEEEEEeCCceEEEEccCCceeeEEEEEEEeCCccEEEEEEechhhhhhhhHhhhcCC
Q 006973          291 KFNFVPIDELGRYVNGTELVDIIGVVQNVSPTMSIRRKSNNEMVPKRDITVADETKRTVTVSLWNELATNVGQELLDNAD  370 (623)
Q Consensus       291 ~~~f~~i~di~~~~~~~~~vDVIGvV~~v~~~~~i~~k~~g~~~~kr~i~l~D~sg~~I~vtLWg~~A~~~~~~~~~~~~  370 (623)
                      +|+|++|+||.+ ...+.+|||||+|++|+|+.++++|++|++..||+|+|+|+||.+|+|||||++|..|.      ..
T Consensus         1 ~y~F~~i~di~~-~~~~~~vDViGvv~~v~~~~~i~~k~~g~~~~kR~i~i~D~t~~~i~vtLWg~~a~~~~------~~   73 (122)
T d1jmca2           1 QFDFTGIDDLEN-KSKDSLVDIIGICKSYEDATKITVRSNNREVAKRNIYLMDTSGKVVTATLWGEDADKFD------GS   73 (122)
T ss_dssp             CCCBCCGGGGGG-SCTTCEEEEEEEEEEECCCEEEEETTTTEEEEEEEEEEECTTCCEEEEEEEHHHHHHCC------CT
T ss_pred             CcccEeHHHhhc-cCCCCeEEEEEEEEEccCcEEEEEcCCCCceeEEEEEEEcCCCCEEEEEEEchHhhhhC------CC
Confidence            489999999987 56788999999999999999999998899999999999999999999999999999874      35


Q ss_pred             CCcEEEEEeEEeeeccceeeecccceEEEEcCChHHHHHHHHHHHhCCC
Q 006973          371 KSPIVAIKSLKVGDFQGISLSTLGRSTVLVSPDLPEAKKLKSWYESEGK  419 (623)
Q Consensus       371 ~~~Vv~i~~~kV~~f~G~~Ls~~~~S~i~iNPd~pe~~~l~~w~~~~g~  419 (623)
                      .++||+++++||++|+|++|++.+.|+|++||++|||++||.||+++|+
T Consensus        74 ~~~Vi~~k~~~v~~~~g~sL~~~~~s~i~~Npdi~ea~~Lr~wy~~~g~  122 (122)
T d1jmca2          74 RQPVLAIKGARVSDFGGRSLSVLSSSTIIANPDIPEAYKLRGWFDAEGQ  122 (122)
T ss_dssp             TCCEEEEEEEEEECTTSSEEECCSSCEEESSCCSHHHHHHHHHHHHTTC
T ss_pred             CCCEEEEeeeEEeeccCceEeccCcceEEECCCcHHHHHHHHHHHhcCC
Confidence            6899999999999999999999999999999999999999999999874

>d1jmca1 b.40.4.3 (A:183-298) Replication protein A 70 KDa subunit (RPA70) {Human (Homo sapiens) [TaxId: 9606]}

class: All beta proteins
fold: OB-fold
superfamily: Nucleic acid-binding proteins
family: Single strand DNA-binding domain, SSB
domain: Replication protein A 70 KDa subunit (RPA70)
species: Human (Homo sapiens) [TaxId: 9606]

Probab=99.96  E-value=1.9e-29  Score=222.11  Aligned_cols=115  Identities=50%  Similarity=0.894  Sum_probs=110.8

Q ss_pred             CeeeccccCCCCCCeEEEEEEEeeccccccccCCCcccEEEEEEEeCCCCeEEEEEechHHHHHHhhcccCcEEEEeeeE
Q 006973          173 RVHPLVSLNPYQGNWTIKVRVTSKGNMRTYKNARGEGCVFNVELTDEDGTQIQATMFNEAARKFYDRFQLGKVYYISRGT  252 (623)
Q Consensus       173 ~~~~I~~L~p~~~~w~I~~RV~~K~~~r~~~~~~g~g~~f~~~L~D~~G~~I~at~~~~~~~kf~~~l~eG~vy~is~~~  252 (623)
                      +++||++|+|++++|+|+|||++||++|+|++++|+|++|+|+|+|++| +|+|++|++.+++|++.|++|+||+|++|.
T Consensus         1 ~~~PI~~L~p~~~~~~I~~RV~~k~~~r~f~~~~~~g~v~~~~l~De~G-~I~~t~~~~~~~~f~~~l~~G~vy~i~~~~   79 (116)
T d1jmca1           1 KVVPIASLTPYQSKWTICARVTNKSQIRTWSNSRGEGKLFSLELVDESG-EIRATAFNEQVDKFFPLIEVNKVYYFSKGT   79 (116)
T ss_dssp             CBCCGGGCCTTCCCCEEEEEEEEECCCEEEECSSCEEEEEEEEEECSSC-EEEEEEEHHHHHHHGGGCCTTCEEEEECCE
T ss_pred             CcEeHHHcCCCCCCEEEEEEEEEeccceEEECCCCCceEEEEEEEcCCC-CEEEEEchhhhhhhHhhcccCCEEEEcceE
Confidence            3789999999999999999999999999999999999999999999999 799999999999999999999999999999


Q ss_pred             EEecCCCccccCCceEEEEccCcEEEEccCcCCCCCC
Q 006973          253 LRVANKQFKTVQNDYEMNLNENSEVEEAVNETAFIPQ  289 (623)
Q Consensus       253 V~~a~~~~~~~~~~yei~f~~~T~I~~~~d~~~~iP~  289 (623)
                      |++++++|+.++|+|||.|+.+|+|++++|+ .+||.
T Consensus        80 V~~~~~~y~~~~~~yei~f~~~T~I~~~~d~-~~iP~  115 (116)
T d1jmca1          80 LKIANKQFTAVKNDYEMTFNNETSVMPCEDD-HHLPT  115 (116)
T ss_dssp             EEECCGGGCCCCCSEEEECCTTCEEEECCSC-SCCCC
T ss_pred             EEEccCcEeccCCcEEEEECCCcEEEECCCC-CCCCC
Confidence            9999999999999999999999999999885 67886

>d2b3ga1 b.40.4.3 (A:3-114) Replication protein A 70 KDa subunit (RPA70) {Human (Homo sapiens) [TaxId: 9606]}

class: All beta proteins
fold: OB-fold
superfamily: Nucleic acid-binding proteins
family: Single strand DNA-binding domain, SSB
domain: Replication protein A 70 KDa subunit (RPA70)
species: Human (Homo sapiens) [TaxId: 9606]

Probab=99.94  E-value=1.2e-27  Score=205.93  Aligned_cols=99  Identities=20%  Similarity=0.335  Sum_probs=90.0

Q ss_pred             CCCHHHHHHHhcCCCCCCCCCCCcceEEEeeeeecC-----ceEEEEEeCccccee-eccccccccccccCccceeeEEE
Q 006973            4 TVSPDAISTILSNPSPDSSSDIPEIVVQVLDLKLTG-----NRYMFNASDGKKRLK-AILPSNLSSEVISGNIQNKGLIR   77 (623)
Q Consensus         4 ~lt~ga~~~i~~~~~~~~~~~~~~pvlQvl~~k~~~-----~ryr~~lSDG~~~~~-~mlat~ln~~v~~~~l~~~siir   77 (623)
                      +||+|||++||++..     ....|||||+++|+++     +|||++||||.|+++ +|||||||++|++|+|++|||||
T Consensus         2 qLT~GAi~~I~~~~~-----~~~~PVlQVl~~k~i~~~~~~~RyR~~lSDG~~~~~~amLatqln~~v~~g~l~~~sii~   76 (112)
T d2b3ga1           2 QLSEGAIAAIMQKGD-----TNIKPILQVINIRPITTGNSPPRYRLLMSDGLNTLSSFMLATQLNPLVEEEQLSSNCVCQ   76 (112)
T ss_dssp             GSCTTHHHHHHHHCC-----CCCCCEEEEEEEEEEC---CCCEEEEEEECSSEEEEEEEECGGGHHHHHTTSSCTTCEEE
T ss_pred             ccCHHHHHHHHhCCC-----CCCCCEEEEEeeEeccCCCCcceEEEEEECcchhhhhhhhhhhhhhhhhcCCccCCCEEE
Confidence            699999999997442     2467999999999984     799999999999997 89999999999999999999999


Q ss_pred             EcceeeeccCCCceEEEEEEeeeeeccccch
Q 006973           78 LLDYALNEIPTKSEKYLIVTKCEVVSPALEM  108 (623)
Q Consensus        78 l~~y~~~~~~~~~~~vlii~~lev~~~~~~~  108 (623)
                      |++|+++.++++ |+++||+++||+.+++++
T Consensus        77 l~~y~~n~i~~~-k~vlIIldleVl~~~~ev  106 (112)
T d2b3ga1          77 IHRFIVNTLKDG-RRVVILMELEVLKSAEAV  106 (112)
T ss_dssp             EEEEEEEECTTS-CEEEEEEEEEEEECHHHH
T ss_pred             EeEEEEccccCC-ceEEEEeeeEEecccccc
Confidence            999999999874 799999999999987664

>d1o7ia_ b.40.4.3 (A:) Archaeal ssDNA-binding protein {Archaeon Sulfolobus solfataricus [TaxId: 2287]}

class: All beta proteins
fold: OB-fold
superfamily: Nucleic acid-binding proteins
family: Single strand DNA-binding domain, SSB
domain: Archaeal ssDNA-binding protein
species: Archaeon Sulfolobus solfataricus [TaxId: 2287]

Probab=99.51  E-value=5.6e-14  Score=122.00  Aligned_cols=97  Identities=19%  Similarity=0.314  Sum_probs=87.8

Q ss_pred             eeccccCCCCCCeEEEEEEEeeccccccccCCCcccEEEEEEEeCCCCeEEEEEechHHHHHHhhcccCcEEEEeeeEEE
Q 006973          175 HPLVSLNPYQGNWTIKVRVTSKGNMRTYKNARGEGCVFNVELTDEDGTQIQATMFNEAARKFYDRFQLGKVYYISRGTLR  254 (623)
Q Consensus       175 ~~I~~L~p~~~~w~I~~RV~~K~~~r~~~~~~g~g~~f~~~L~D~~G~~I~at~~~~~~~kf~~~l~eG~vy~is~~~V~  254 (623)
                      ..|++|.|++.+|+|.|||++++++|+|....|+|+++++.|.|++| .|++++|++.+    +.|++|++|.|+|+.|+
T Consensus         3 ~kI~dL~pg~~~v~i~~~V~~~~~~r~~~~~~g~~~v~~~~i~DeTG-~i~~~~W~~~~----~~l~~Gdvv~i~na~v~   77 (115)
T d1o7ia_           3 EKVGNLKPNMESVNVTVRVLEASEARQIQTKNGVRTISEAIVGDETG-RVKLTLWGKHA----GSIKEGQVVKIENAWTT   77 (115)
T ss_dssp             CCGGGCCTTCSSEEEEEEEEEECCCEEECCTTCCEEEEEEEEEETTE-EEEEEEEGGGT----TCCCTTCEEEEEEEEEE
T ss_pred             ccHHHCCCCCCCEEEEEEEEECCCCceeecCCCCEEEEEEEEEcCCC-eEEEEEecccc----ccCCCCCEEEEeeEEEE
Confidence            37999999999999999999999999999888899999999999999 89999999765    46899999999999997


Q ss_pred             ecCCCccccCCceEEEEccCcEEEEccCc
Q 006973          255 VANKQFKTVQNDYEMNLNENSEVEEAVNE  283 (623)
Q Consensus       255 ~a~~~~~~~~~~yei~f~~~T~I~~~~d~  283 (623)
                      ..+       ..++|+++..|.|+++++.
T Consensus        78 ~~~-------g~~el~~~~~s~i~~~~d~   99 (115)
T d1o7ia_          78 AFK-------GQVQLNAGSKTKIAEASED   99 (115)
T ss_dssp             EET-------TEEEEEECTTCEEEECCCT
T ss_pred             EEC-------CeEEEEECCCeEEEECCCc
Confidence            643       5689999999999998764

>d1o7ia_ b.40.4.3 (A:) Archaeal ssDNA-binding protein {Archaeon Sulfolobus solfataricus [TaxId: 2287]}

class: All beta proteins
fold: OB-fold
superfamily: Nucleic acid-binding proteins
family: Single strand DNA-binding domain, SSB
domain: Archaeal ssDNA-binding protein
species: Archaeon Sulfolobus solfataricus [TaxId: 2287]

Probab=99.00  E-value=2.1e-09  Score=92.58  Aligned_cols=94  Identities=22%  Similarity=0.340  Sum_probs=79.4

Q ss_pred             cccccccccCCcceeEEEEEEEEeCCceEEEEccCCceeeEEEEEEEeCCccEEEEEEechhhhhhhhHhhhcCCCCcEE
Q 006973          296 PIDELGRYVNGTELVDIIGVVQNVSPTMSIRRKSNNEMVPKRDITVADETKRTVTVSLWNELATNVGQELLDNADKSPIV  375 (623)
Q Consensus       296 ~i~di~~~~~~~~~vDVIGvV~~v~~~~~i~~k~~g~~~~kr~i~l~D~sg~~I~vtLWg~~A~~~~~~~~~~~~~~~Vv  375 (623)
                      +|+||..   ....+++.|.|.++++++++.++ +| +...+++.|.|+|| +|+++||+++|..        +..|.+|
T Consensus         4 kI~dL~p---g~~~v~i~~~V~~~~~~r~~~~~-~g-~~~v~~~~i~DeTG-~i~~~~W~~~~~~--------l~~Gdvv   69 (115)
T d1o7ia_           4 KVGNLKP---NMESVNVTVRVLEASEARQIQTK-NG-VRTISEAIVGDETG-RVKLTLWGKHAGS--------IKEGQVV   69 (115)
T ss_dssp             CGGGCCT---TCSSEEEEEEEEEECCCEEECCT-TC-CEEEEEEEEEETTE-EEEEEEEGGGTTC--------CCTTCEE
T ss_pred             cHHHCCC---CCCCEEEEEEEEECCCCceeecC-CC-CEEEEEEEEEcCCC-eEEEEEecccccc--------CCCCCEE
Confidence            5677754   23469999999999999999876 35 46778999999999 8999999998754        4569999


Q ss_pred             EEEeEEeeeccce-eeecccceEEEEcCC
Q 006973          376 AIKSLKVGDFQGI-SLSTLGRSTVLVSPD  403 (623)
Q Consensus       376 ~i~~~kV~~f~G~-~Ls~~~~S~i~iNPd  403 (623)
                      .|++++|++|+|. .|+....|+|...++
T Consensus        70 ~i~na~v~~~~g~~el~~~~~s~i~~~~d   98 (115)
T d1o7ia_          70 KIENAWTTAFKGQVQLNAGSKTKIAEASE   98 (115)
T ss_dssp             EEEEEEEEEETTEEEEEECTTCEEEECCC
T ss_pred             EEeeEEEEEECCeEEEEECCCeEEEECCC
Confidence            9999999999984 899999999988775

>d1wjja_ b.40.4.3 (A:) Hypothetical protein At4g28440 (F20O9.120) {Thale cress (Arabidopsis thaliana) [TaxId: 3702]}

class: All beta proteins
fold: OB-fold
superfamily: Nucleic acid-binding proteins
family: Single strand DNA-binding domain, SSB
domain: Hypothetical protein At4g28440 (F20O9.120)
species: Thale cress (Arabidopsis thaliana) [TaxId: 3702]

Probab=98.79  E-value=2e-08  Score=89.64  Aligned_cols=99  Identities=13%  Similarity=0.164  Sum_probs=84.4

Q ss_pred             CeeeccccCCCCCCeEEEEEEEeeccccccccCC----------CcccEEEEEEEeCCCCeEEEEEechHHHHHHhhccc
Q 006973          173 RVHPLVSLNPYQGNWTIKVRVTSKGNMRTYKNAR----------GEGCVFNVELTDEDGTQIQATMFNEAARKFYDRFQL  242 (623)
Q Consensus       173 ~~~~I~~L~p~~~~w~I~~RV~~K~~~r~~~~~~----------g~g~~f~~~L~D~~G~~I~at~~~~~~~kf~~~l~e  242 (623)
                      .++.|++|.|+..+.+|.|||+...+.+.|....          +++++.++.+.|++| .|+.++|++.++    .|++
T Consensus        15 ~~~kI~dL~pg~~~vnl~vkVl~~~~~~~~~r~~~~~~~~~~~g~~~~v~~~~v~DeTG-~i~~tlW~~~~~----~l~~   89 (145)
T d1wjja_          15 VFVKVEQLKPGTTGHTLTVKVIEANIVVPVTRKTRPASSLSRPSQPSRIVECLIGDETG-CILFTARNDQVD----LMKP   89 (145)
T ss_dssp             SSCCSTTCCTTCCCEEEEEEEEEEEECCSSSSCCSCSSCCSSCCCCCCCEEEEEECSSC-EEEEEECTTHHH----HTCT
T ss_pred             ceeEHHHCCCCCCCceEEEEEEEcccceeecccccccccccccCCCcEEEEEEEEccCC-eEEEEEEecccc----ccCc
Confidence            4789999999999999999999999888776432          234699999999999 999999998765    4899


Q ss_pred             CcEEEEeeeEEEecCCCccccCCceEEEEccCcEEEEccCc
Q 006973          243 GKVYYISRGTLRVANKQFKTVQNDYEMNLNENSEVEEAVNE  283 (623)
Q Consensus       243 G~vy~is~~~V~~a~~~~~~~~~~yei~f~~~T~I~~~~d~  283 (623)
                      |++|.|.|+.++..+       ...+|.++..+.|++.++.
T Consensus        90 Gd~v~i~na~v~~~~-------G~~~L~vg~~g~I~~~~e~  123 (145)
T d1wjja_          90 GATVILRNSRIDMFK-------GTMRLGVDKWGRIEATGAA  123 (145)
T ss_dssp             TCEEEEEEEEEEEET-------TEEEEEECTTCCBCCCSCC
T ss_pred             CCEEEEeeEEEEEEC-------CEEEEEECCCEEEEECCCC
Confidence            999999999987653       3489999999999988764

>d1wjja_ b.40.4.3 (A:) Hypothetical protein At4g28440 (F20O9.120) {Thale cress (Arabidopsis thaliana) [TaxId: 3702]}

class: All beta proteins
fold: OB-fold
superfamily: Nucleic acid-binding proteins
family: Single strand DNA-binding domain, SSB
domain: Hypothetical protein At4g28440 (F20O9.120)
species: Thale cress (Arabidopsis thaliana) [TaxId: 3702]

Probab=98.67  E-value=2.6e-08  Score=88.90  Aligned_cols=102  Identities=17%  Similarity=0.210  Sum_probs=82.0

Q ss_pred             CccccccccccccccCCcceeEEEEEEEEeCCceEEEEcc--------CCceeeEEEEEEEeCCccEEEEEEechhhhhh
Q 006973          290 TKFNFVPIDELGRYVNGTELVDIIGVVQNVSPTMSIRRKS--------NNEMVPKRDITVADETKRTVTVSLWNELATNV  361 (623)
Q Consensus       290 ~~~~f~~i~di~~~~~~~~~vDVIGvV~~v~~~~~i~~k~--------~g~~~~kr~i~l~D~sg~~I~vtLWg~~A~~~  361 (623)
                      ....|++|+||..   ...-|++.+.|.++.+...+.++.        +|.....+++.+.|+|| +|+++||++++..+
T Consensus        12 ~k~~~~kI~dL~p---g~~~vnl~vkVl~~~~~~~~~r~~~~~~~~~~~g~~~~v~~~~v~DeTG-~i~~tlW~~~~~~l   87 (145)
T d1wjja_          12 RKPVFVKVEQLKP---GTTGHTLTVKVIEANIVVPVTRKTRPASSLSRPSQPSRIVECLIGDETG-CILFTARNDQVDLM   87 (145)
T ss_dssp             CCCSSCCSTTCCT---TCCCEEEEEEEEEEEECCSSSSCCSCSSCCSSCCCCCCCEEEEEECSSC-EEEEEECTTHHHHT
T ss_pred             cCCceeEHHHCCC---CCCCceEEEEEEEcccceeecccccccccccccCCCcEEEEEEEEccCC-eEEEEEEecccccc
Confidence            3457999999975   245699999999998876554431        24445688999999999 99999999988653


Q ss_pred             hhHhhhcCCCCcEEEEEeEEeeeccce-eeecccceEEEEcCC
Q 006973          362 GQELLDNADKSPIVAIKSLKVGDFQGI-SLSTLGRSTVLVSPD  403 (623)
Q Consensus       362 ~~~~~~~~~~~~Vv~i~~~kV~~f~G~-~Ls~~~~S~i~iNPd  403 (623)
                              ..+.+|.|+++.+.+|+|. .|+....++|...++
T Consensus        88 --------~~Gd~v~i~na~v~~~~G~~~L~vg~~g~I~~~~e  122 (145)
T d1wjja_          88 --------KPGATVILRNSRIDMFKGTMRLGVDKWGRIEATGA  122 (145)
T ss_dssp             --------CTTCEEEEEEEEEEEETTEEEEEECTTCCBCCCSC
T ss_pred             --------CcCCEEEEeeEEEEEECCEEEEEECCCEEEEECCC
Confidence                    5689999999999999994 899988888877665

>d1jmca1 b.40.4.3 (A:183-298) Replication protein A 70 KDa subunit (RPA70) {Human (Homo sapiens) [TaxId: 9606]}

class: All beta proteins
fold: OB-fold
superfamily: Nucleic acid-binding proteins
family: Single strand DNA-binding domain, SSB
domain: Replication protein A 70 KDa subunit (RPA70)
species: Human (Homo sapiens) [TaxId: 9606]

Probab=98.43  E-value=1.6e-06  Score=74.04  Aligned_cols=100  Identities=15%  Similarity=0.123  Sum_probs=79.7

Q ss_pred             cccccccccccCCcceeEEEEEEEEeCCceEEEEccCCceeeEEEEEEEeCCccEEEEEEechhhhhhhhHhhhcCCCCc
Q 006973          294 FVPIDELGRYVNGTELVDIIGVVQNVSPTMSIRRKSNNEMVPKRDITVADETKRTVTVSLWNELATNVGQELLDNADKSP  373 (623)
Q Consensus       294 f~~i~di~~~~~~~~~vDVIGvV~~v~~~~~i~~k~~g~~~~kr~i~l~D~sg~~I~vtLWg~~A~~~~~~~~~~~~~~~  373 (623)
                      .+||++|...   ...+-+.|.|+..+++.+++.+. | +....++.|.|++| .|++++|++.|+.|...    +..|.
T Consensus         2 ~~PI~~L~p~---~~~~~I~~RV~~k~~~r~f~~~~-~-~g~v~~~~l~De~G-~I~~t~~~~~~~~f~~~----l~~G~   71 (116)
T d1jmca1           2 VVPIASLTPY---QSKWTICARVTNKSQIRTWSNSR-G-EGKLFSLELVDESG-EIRATAFNEQVDKFFPL----IEVNK   71 (116)
T ss_dssp             BCCGGGCCTT---CCCCEEEEEEEEECCCEEEECSS-C-EEEEEEEEEECSSC-EEEEEEEHHHHHHHGGG----CCTTC
T ss_pred             cEeHHHcCCC---CCCEEEEEEEEEeccceEEECCC-C-CceEEEEEEEcCCC-CEEEEEchhhhhhhHhh----cccCC
Confidence            5789999752   33577899999999999987653 4 56678999999999 79999999999998554    57799


Q ss_pred             EEEEEeEEeeeccce--------eeecccceEEEEcCC
Q 006973          374 IVAIKSLKVGDFQGI--------SLSTLGRSTVLVSPD  403 (623)
Q Consensus       374 Vv~i~~~kV~~f~G~--------~Ls~~~~S~i~iNPd  403 (623)
                      ++.|.+++|+..++.        .+.....|+|...||
T Consensus        72 vy~i~~~~V~~~~~~y~~~~~~yei~f~~~T~I~~~~d  109 (116)
T d1jmca1          72 VYYFSKGTLKIANKQFTAVKNDYEMTFNNETSVMPCED  109 (116)
T ss_dssp             EEEEECCEEEECCGGGCCCCCSEEEECCTTCEEEECCS
T ss_pred             EEEEcceEEEEccCcEeccCCcEEEEECCCcEEEECCC
Confidence            999999999864432        466677888887765

>d1xjva1 b.40.4.3 (A:6-145) Protection of telomeres protein 1, Pot1 {Human (Homo sapiens) [TaxId: 9606]}

class: All beta proteins
fold: OB-fold
superfamily: Nucleic acid-binding proteins
family: Single strand DNA-binding domain, SSB
domain: Protection of telomeres protein 1, Pot1
species: Human (Homo sapiens) [TaxId: 9606]

Probab=98.38  E-value=1.8e-06  Score=75.92  Aligned_cols=98  Identities=17%  Similarity=0.286  Sum_probs=74.5

Q ss_pred             ccccccccccccccCCcceeEEEEEEEEeCCceEEEEccCCceeeEEEEEEEeCCccEEEEEEechhhhhhhhHhhhcCC
Q 006973          291 KFNFVPIDELGRYVNGTELVDIIGVVQNVSPTMSIRRKSNNEMVPKRDITVADETKRTVTVSLWNELATNVGQELLDNAD  370 (623)
Q Consensus       291 ~~~f~~i~di~~~~~~~~~vDVIGvV~~v~~~~~i~~k~~g~~~~kr~i~l~D~sg~~I~vtLWg~~A~~~~~~~~~~~~  370 (623)
                      +|.+++|++|..    +..|+|+|+|++.+++..  +  .|++ -...|+|+|+|...+.|.+|-+..+.++.    ...
T Consensus         3 ~Y~Y~~la~l~~----~~~vnv~gVV~~~~~p~~--s--~g~D-~~~tl~I~D~S~~gl~v~iF~~~~~~LP~----v~~   69 (140)
T d1xjva1           3 NYIYTPLNQLKG----GTIVNVYGVVKFFKPPYL--S--KGTD-YCSVVTIVDQTNVKLTCLLFSGNYEALPI----IYK   69 (140)
T ss_dssp             CCCCCCGGGCCS----SEEEEEEEEEEEEEEEEE--C--SSSS-EEEEEEEECTTCCEEEEEEEESSGGGSCC----CCS
T ss_pred             cceEeEHHHccC----CCEEEEEEEEeecCCCEE--c--CCCe-EEEEEEEEeCCCCCeEEEEECCChHHCCC----CCC
Confidence            477899999864    678999999999998752  2  3554 46779999999999999999888777653    123


Q ss_pred             CCcEEEEEeEEeeeccce-e-eecccceEEEEc
Q 006973          371 KSPIVAIKSLKVGDFQGI-S-LSTLGRSTVLVS  401 (623)
Q Consensus       371 ~~~Vv~i~~~kV~~f~G~-~-Ls~~~~S~i~iN  401 (623)
                      .|.||.+++++|..|+|. . ++....|...++
T Consensus        70 ~GDII~l~r~~v~~~~~~~~~~~~~~~ss~~F~  102 (140)
T d1xjva1          70 NGDIVRFHRLKIQVYKKETQGITSSGFASLTFE  102 (140)
T ss_dssp             TTCEEEEEEEEEEEETTEEEEEEEEEEEEEEEC
T ss_pred             CCCEEEEEEEEEEEECCeEEEEecCCEEEEEEe
Confidence            589999999999999995 3 333344445565

>d1jmca2 b.40.4.3 (A:299-420) Replication protein A 70 KDa subunit (RPA70) {Human (Homo sapiens) [TaxId: 9606]}

class: All beta proteins
fold: OB-fold
superfamily: Nucleic acid-binding proteins
family: Single strand DNA-binding domain, SSB
domain: Replication protein A 70 KDa subunit (RPA70)
species: Human (Homo sapiens) [TaxId: 9606]

Probab=97.94  E-value=2.2e-05  Score=67.42  Aligned_cols=96  Identities=18%  Similarity=0.110  Sum_probs=74.9

Q ss_pred             eeeccccCCCCC--CeEEEEEEEeeccccccccC-CC-cccEEEEEEEeCCCCeEEEEEechHHHHHHhhcccCcEEEEe
Q 006973          174 VHPLVSLNPYQG--NWTIKVRVTSKGNMRTYKNA-RG-EGCVFNVELTDEDGTQIQATMFNEAARKFYDRFQLGKVYYIS  249 (623)
Q Consensus       174 ~~~I~~L~p~~~--~w~I~~RV~~K~~~r~~~~~-~g-~g~~f~~~L~D~~G~~I~at~~~~~~~kf~~~l~eG~vy~is  249 (623)
                      ++||++|.....  ---|.|.|+..++++++... .| +...-++.|.|++|..|++|+|++.|+.|..  .++.|+.|.
T Consensus         4 F~~i~di~~~~~~~~vDViGvv~~v~~~~~i~~k~~g~~~~kR~i~i~D~t~~~i~vtLWg~~a~~~~~--~~~~Vi~~k   81 (122)
T d1jmca2           4 FTGIDDLENKSKDSLVDIIGICKSYEDATKITVRSNNREVAKRNIYLMDTSGKVVTATLWGEDADKFDG--SRQPVLAIK   81 (122)
T ss_dssp             BCCGGGGGGSCTTCEEEEEEEEEEECCCEEEEETTTTEEEEEEEEEEECTTCCEEEEEEEHHHHHHCCC--TTCCEEEEE
T ss_pred             cEeHHHhhccCCCCeEEEEEEEEEccCcEEEEEcCCCCceeEEEEEEEcCCCCEEEEEEEchHhhhhCC--CCCCEEEEe
Confidence            678888854333  47799999999999998653 23 4556799999999999999999999999864  689999999


Q ss_pred             eeEEEecCCCccccCCceEEEEccCcEEEE
Q 006973          250 RGTLRVANKQFKTVQNDYEMNLNENSEVEE  279 (623)
Q Consensus       250 ~~~V~~a~~~~~~~~~~yei~f~~~T~I~~  279 (623)
                      +++|+..+.        ..|.....|.|..
T Consensus        82 ~~~v~~~~g--------~sL~~~~~s~i~~  103 (122)
T d1jmca2          82 GARVSDFGG--------RSLSVLSSSTIIA  103 (122)
T ss_dssp             EEEEECTTS--------SEEECCSSCEEES
T ss_pred             eeEEeeccC--------ceEeccCcceEEE
Confidence            999964432        2466666777754

>d1jb7a1 b.40.4.3 (A:36-204) Telomere end binding protein alpha subunit {Oxytricha nova [TaxId: 200597]}

class: All beta proteins
fold: OB-fold
superfamily: Nucleic acid-binding proteins
family: Single strand DNA-binding domain, SSB
domain: Telomere end binding protein alpha subunit
species: Oxytricha nova [TaxId: 200597]

Probab=97.71  E-value=0.00021  Score=64.40  Aligned_cols=99  Identities=14%  Similarity=0.206  Sum_probs=71.5

Q ss_pred             cccccccccccccCCcceeEEEEEEEEeCCceEEEEccCCceeeEEEEEEEeCC------------ccEEEEEEechhhh
Q 006973          292 FNFVPIDELGRYVNGTELVDIIGVVQNVSPTMSIRRKSNNEMVPKRDITVADET------------KRTVTVSLWNELAT  359 (623)
Q Consensus       292 ~~f~~i~di~~~~~~~~~vDVIGvV~~v~~~~~i~~k~~g~~~~kr~i~l~D~s------------g~~I~vtLWg~~A~  359 (623)
                      |.|++|.+...  ..+..++|+|||++.+++..    +.|+ --...++|+|+|            +..|.|.|+-+.-+
T Consensus         1 Y~y~~l~~a~~--~~~~~vNv~GVV~~~~~p~~----s~g~-D~~~tl~I~D~S~~~~~~~~~~~~~~~l~v~~F~~~~~   73 (169)
T d1jb7a1           1 YEYVELAKASL--TSAQPQHFYAVVIDATFPYK----TNQE-RYICSLKIVDPTLYLKQQKGAGDASDYATLVLYAKRFE   73 (169)
T ss_dssp             CCBCCTTTSCS--SCCSCEEEEEEEEEECCCEE----CSSS-CEEEEEEEEBTTBSBCCTTSSCSCBCCEEEEEEESSGG
T ss_pred             CeeeeHHHHHH--hcCCeEEEEEEEeecCCcee----cCCC-cEEEEEEEEeCCCCccccccccccCCceEEEEECCCHH
Confidence            56888887543  24567999999999998863    2354 347899999998            34699999988777


Q ss_pred             hhhhHhhhcC-CCCcEEEEEeEEeeeccce-ee-e-ccc-ceEEEEcC
Q 006973          360 NVGQELLDNA-DKSPIVAIKSLKVGDFQGI-SL-S-TLG-RSTVLVSP  402 (623)
Q Consensus       360 ~~~~~~~~~~-~~~~Vv~i~~~kV~~f~G~-~L-s-~~~-~S~i~iNP  402 (623)
                      .++.     + ..|.||.+++++|..|+|. .+ + ... +|-.++++
T Consensus        74 ~LP~-----V~~~GDII~l~rv~i~~~~g~~~~v~~~~~~SswavF~~  116 (169)
T d1jb7a1          74 DLPI-----IHRAGDIIRVHRATLRLYNGQRQFNANVFYSSSWALFST  116 (169)
T ss_dssp             GSCC-----CCEETCEEEEEEEEEEEETTEEEEEEETTTTCEEEEECS
T ss_pred             HCCC-----CCCCCCEEEEEEEEEEEECCceeEEEccccceeEEEEeC
Confidence            6642     2 2489999999999999996 33 2 233 34446665

>d1qzga_ b.40.4.3 (A:) Protection of telomeres protein 1, Pot1 {Fission yeast (Schizosaccharomyces pombe) [TaxId: 4896]}

class: All beta proteins
fold: OB-fold
superfamily: Nucleic acid-binding proteins
family: Single strand DNA-binding domain, SSB
domain: Protection of telomeres protein 1, Pot1
species: Fission yeast (Schizosaccharomyces pombe) [TaxId: 4896]

Probab=97.21  E-value=0.00036  Score=62.32  Aligned_cols=89  Identities=9%  Similarity=0.191  Sum_probs=65.3

Q ss_pred             ccccccccccccccCCcceeEEEEEEEEeCCceEEEEccCCceeeEEEEEEEeCC----ccEEEEEEechhhhhhhhHhh
Q 006973          291 KFNFVPIDELGRYVNGTELVDIIGVVQNVSPTMSIRRKSNNEMVPKRDITVADET----KRTVTVSLWNELATNVGQELL  366 (623)
Q Consensus       291 ~~~f~~i~di~~~~~~~~~vDVIGvV~~v~~~~~i~~k~~g~~~~kr~i~l~D~s----g~~I~vtLWg~~A~~~~~~~~  366 (623)
                      .|.++++++=..  -.+..|+|+|||++.+++..  ++. |..--...|+|+|+|    +..|.|.++-+..+.++.   
T Consensus        22 ~~~~~~~~~~~~--k~~~~VnviGVV~~~~~P~r--s~~-G~~Dy~~tl~I~D~S~~~~~~gl~v~iF~~~~e~LP~---   93 (170)
T d1qzga_          22 TFQSIRSSQELQ--KKNTIVNLFGIVKDFTPSRQ--SLH-GTKDWVTTVYLWDPTCDTSSIGLQIHLFSKQGNDLPV---   93 (170)
T ss_dssp             EEECHHHHTSCC--SSCEEEEEEEEEEEEEEEEE--CSS-TTCCEEEEEEEECTTSCTTSCCEEEEEEESSSSCSCC---
T ss_pred             eeehhhhhHHHh--ccCCEEEEEEEEeeccCcee--cCC-CCCcEEEEEEEEcCCCCCCCCceEEEEECCChHHCCC---
Confidence            355666666433  25789999999999998742  332 332347789999998    346999999887776642   


Q ss_pred             hcCCCCcEEEEEeEEeeeccce
Q 006973          367 DNADKSPIVAIKSLKVGDFQGI  388 (623)
Q Consensus       367 ~~~~~~~Vv~i~~~kV~~f~G~  388 (623)
                       ....|.||.+++++|..|+|.
T Consensus        94 -V~~vGDII~l~rvkvq~~~g~  114 (170)
T d1qzga_          94 -IKQVGQPLLLHQITLRSYRDR  114 (170)
T ss_dssp             -CCSTTCEEEEEEEEEEEETTE
T ss_pred             -cCCCCCEEEEEEEEEEEECCc
Confidence             113499999999999999996

>d1se8a_ b.40.4.3 (A:) ssDNA-binding protein {Deinococcus radiodurans [TaxId: 1299]}

class: All beta proteins
fold: OB-fold
superfamily: Nucleic acid-binding proteins
family: Single strand DNA-binding domain, SSB
domain: ssDNA-binding protein
species: Deinococcus radiodurans [TaxId: 1299]

Probab=96.52  E-value=0.15  Score=47.51  Aligned_cols=177  Identities=19%  Similarity=0.245  Sum_probs=94.5

Q ss_pred             CCCeEEEEEEEeeccccccccCCCcccEEEEEEE------eCCC------CeEEEEEechHHHHHHh-hcccCcEEEEee
Q 006973          184 QGNWTIKVRVTSKGNMRTYKNARGEGCVFNVELT------DEDG------TQIQATMFNEAARKFYD-RFQLGKVYYISR  250 (623)
Q Consensus       184 ~~~w~I~~RV~~K~~~r~~~~~~g~g~~f~~~L~------D~~G------~~I~at~~~~~~~kf~~-~l~eG~vy~is~  250 (623)
                      ++..+|.||+.+--++|+..+  | ..+.+|.|+      |..|      +-+++++|+..++.+.+ .|+.|+-+++.+
T Consensus         3 mN~v~l~G~l~~dpe~r~t~~--G-~~~~~f~lA~~~~~~~~~g~~~~~t~~~~v~~~g~~Ae~~~~~~l~KG~~V~V~G   79 (231)
T d1se8a_           3 MNHVYLIGALARDPELRYTGN--G-MAVFEATVAGEDRVIGNDGRERNLPWYHRVSILGKPAEWQAERNLKGGDAVVVEG   79 (231)
T ss_dssp             EEEEEEEEEESSCCEEEECTT--S-CEEEEEEEEEEEEC-------CEEEEEEEEEEESHHHHHHHHTCCCTTCEEEEEE
T ss_pred             ccEEEEEEEECcCCEEEECCC--C-CEEEEEEEEECCcEECCCCCEEeeeeeeeEEEeCchhhhhhhhccCCCCEEEEEE
Confidence            456789999998777776553  2 246677664      3333      23899999999998765 699999999985


Q ss_pred             eEEEecCCCcc--ccCCc--eEEEEccCcEEEEccCcCCCCCCCcccccccccccc---ccCCcceeEEEEEEEEeCCce
Q 006973          251 GTLRVANKQFK--TVQND--YEMNLNENSEVEEAVNETAFIPQTKFNFVPIDELGR---YVNGTELVDIIGVVQNVSPTM  323 (623)
Q Consensus       251 ~~V~~a~~~~~--~~~~~--yei~f~~~T~I~~~~d~~~~iP~~~~~f~~i~di~~---~~~~~~~vDVIGvV~~v~~~~  323 (623)
                       ++...  .|.  .....  .+|..+   .|..+...    |.      ..++=..   +...-..|.++|.+..-  +.
T Consensus        80 -~l~~~--~~~~~dG~~r~~~~i~a~---~v~~l~~~----~~------~~~~~~~~~~m~~~~N~v~l~G~l~~d--pe  141 (231)
T d1se8a_          80 -TLEYR--QWEAPEGGKRSAVNVKAL---RMEQLGTQ----PE------LIQDAGGGVRMSGAMNEVLVLGNVTRD--PE  141 (231)
T ss_dssp             -EEEEE--EEC-----CEEEEEEEEE---EEEECSSC----CC------EEECTTSCEEEETCEEEEEEEEEECSC--CE
T ss_pred             -EEEee--eeECCCCCEEEEEEEEEE---EEEEccCC----cc------ccccccccccccccceeEEEEEEeCCC--cE
Confidence             44332  121  11111  222222   12222111    10      0000000   01122368899998763  32


Q ss_pred             EEEEccCCceeeEEEEEE----EeCCc------cEEEEEEechhhhhhhhHhhhcCCCCcEEEEEe-EEeeeccc
Q 006973          324 SIRRKSNNEMVPKRDITV----ADETK------RTVTVSLWNELATNVGQELLDNADKSPIVAIKS-LKVGDFQG  387 (623)
Q Consensus       324 ~i~~k~~g~~~~kr~i~l----~D~sg------~~I~vtLWg~~A~~~~~~~~~~~~~~~Vv~i~~-~kV~~f~G  387 (623)
                      .-.+. +|..+..-.|-.    .|..|      .-+.|++||+.|+.+ ..    ...|.-|.+.| ++...|.+
T Consensus       142 ~r~t~-~G~~~~~f~va~~~~~~~~~g~~~~~t~~~~v~~~g~~Ae~~-~~----l~KG~~V~V~G~l~~~~~~~  210 (231)
T d1se8a_         142 IRYTP-AGDAVLSLSIAVNENYQDRQGQRQEKVHYIDATLWRDLAENM-KE----LRKGDPVMIMGRLVNEGWTD  210 (231)
T ss_dssp             EEECT-TCCEEEEEEEEEEEEEECTTSCEEEEEEEEEEEEETHHHHHH-TT----CCTTCEEEEEEEEEEEECC-
T ss_pred             EEECC-CCCEEEEEEEEECCCeECCCCceeeeeEEEEeEecCcHHHHh-hh----CCCCCEEEEEEEeEeceEEC
Confidence            22233 455433222211    23333      259999999999865 22    45577666654 55666754

>d1xjva1 b.40.4.3 (A:6-145) Protection of telomeres protein 1, Pot1 {Human (Homo sapiens) [TaxId: 9606]}

class: All beta proteins
fold: OB-fold
superfamily: Nucleic acid-binding proteins
family: Single strand DNA-binding domain, SSB
domain: Protection of telomeres protein 1, Pot1
species: Human (Homo sapiens) [TaxId: 9606]

Probab=94.46  E-value=0.062  Score=46.10  Aligned_cols=84  Identities=14%  Similarity=0.114  Sum_probs=66.7

Q ss_pred             CeeeccccCCCCCCeEEEEEEEeeccccccccCCCcccEEEEEEEeCCCCeEEEEEechHHHHHHhhcccCcEEEEeeeE
Q 006973          173 RVHPLVSLNPYQGNWTIKVRVTSKGNMRTYKNARGEGCVFNVELTDEDGTQIQATMFNEAARKFYDRFQLGKVYYISRGT  252 (623)
Q Consensus       173 ~~~~I~~L~p~~~~w~I~~RV~~K~~~r~~~~~~g~g~~f~~~L~D~~G~~I~at~~~~~~~kf~~~l~eG~vy~is~~~  252 (623)
                      .++||++|.+.. .-.+.|-|+.....+.   .+|.--...|.|.|++-..+.+.+|.+..+.+-..-..||++.+.+++
T Consensus         5 ~Y~~la~l~~~~-~vnv~gVV~~~~~p~~---s~g~D~~~tl~I~D~S~~gl~v~iF~~~~~~LP~v~~~GDII~l~r~~   80 (140)
T d1xjva1           5 IYTPLNQLKGGT-IVNVYGVVKFFKPPYL---SKGTDYCSVVTIVDQTNVKLTCLLFSGNYEALPIIYKNGDIVRFHRLK   80 (140)
T ss_dssp             CCCCGGGCCSSE-EEEEEEEEEEEEEEEE---CSSSSEEEEEEEECTTCCEEEEEEEESSGGGSCCCCSTTCEEEEEEEE
T ss_pred             eEeEHHHccCCC-EEEEEEEEeecCCCEE---cCCCeEEEEEEEEeCCCCCeEEEEECCChHHCCCCCCCCCEEEEEEEE
Confidence            478999998743 5778888888776653   234334678899999998999999998877777666799999999999


Q ss_pred             EEecCCCc
Q 006973          253 LRVANKQF  260 (623)
Q Consensus       253 V~~a~~~~  260 (623)
                      |+..+.+.
T Consensus        81 v~~~~~~~   88 (140)
T d1xjva1          81 IQVYKKET   88 (140)
T ss_dssp             EEEETTEE
T ss_pred             EEEECCeE
Confidence            99877643

>d1xjva2 b.40.4.3 (A:149-299) Protection of telomeres protein 1, Pot1 {Human (Homo sapiens) [TaxId: 9606]}

class: All beta proteins
fold: OB-fold
superfamily: Nucleic acid-binding proteins
family: Single strand DNA-binding domain, SSB
domain: Protection of telomeres protein 1, Pot1
species: Human (Homo sapiens) [TaxId: 9606]

Probab=94.08  E-value=0.17  Score=43.68  Aligned_cols=114  Identities=14%  Similarity=0.119  Sum_probs=67.6

Q ss_pred             cccccccccccCCcceeEEEEEEEEeCCce--EEEEc-cCCceee--EEEEEEEeC------------CccEEEEEEech
Q 006973          294 FVPIDELGRYVNGTELVDIIGVVQNVSPTM--SIRRK-SNNEMVP--KRDITVADE------------TKRTVTVSLWNE  356 (623)
Q Consensus       294 f~~i~di~~~~~~~~~vDVIGvV~~v~~~~--~i~~k-~~g~~~~--kr~i~l~D~------------sg~~I~vtLWg~  356 (623)
                      +++|+||..    +.++|+++.|..+-...  .+..+ .+|....  .......|.            -+..|.|+||++
T Consensus         2 l~~l~di~~----~~~~DL~cqVv~v~~~~~~~~~L~VwDgT~~~~~~~~~~~e~~~~~gd~~~~~~~~~l~i~V~lyD~   77 (151)
T d1xjva2           2 LLKLCDVQP----MQYFDLTCQLLGKAEVDGASFLLKVWDGTRTPFPSWRVLIQDLVLEGDLSHIHRLQNLTIDILVYDN   77 (151)
T ss_dssp             CCCGGGCCS----SCEEEEEEEEEEEEECSSSEEEEEEECSSCCSSCBCCCCCCSSCCEECHHHHHHHGGGSEEEEEETT
T ss_pred             ceehhhcCC----CcEEEEEEEEEEEEEecCCEEEEEEecCCCCCCcEeccccCCccccccccccccCcceEEEEEEECc
Confidence            456777754    67999999999885331  12111 2332211  111111111            123799999999


Q ss_pred             hhhhhhhHhhhcCCCCcEEEEEeEEeeecc--ce-------e--eecc--cceEEEEcC-ChHHHHHHHHHHHh
Q 006973          357 LATNVGQELLDNADKSPIVAIKSLKVGDFQ--GI-------S--LSTL--GRSTVLVSP-DLPEAKKLKSWYES  416 (623)
Q Consensus       357 ~A~~~~~~~~~~~~~~~Vv~i~~~kV~~f~--G~-------~--Ls~~--~~S~i~iNP-d~pe~~~l~~w~~~  416 (623)
                      .+.-..    + .+.|..|.|++++++--.  |.       .  |..+  ..-.|.+-| +.|.+++|+.|+++
T Consensus        78 H~~~ar----~-lK~GdfV~l~NVh~k~~~~~~~~~~~l~le~hlhgg~~y~rgI~vlp~~~~~~~~lk~~~es  146 (151)
T d1xjva2          78 HVHVAR----S-LKVGSFLRIYSLHTKLQSMNSENQTMLSLEFHLHGGTSYGRGIRVLPESNSDVDQLKKDLES  146 (151)
T ss_dssp             HHHHHH----H-CCTTCEEEEEEEEEEEEEECTTSCEEEEEEEEECSSCGGGCEEEEECTTSHHHHHHHHHHHH
T ss_pred             hHHHHh----h-CCCCCEEEEEEEEEEeccCCCccCCcceEEEEEcCCcccCCeeEECCCCChHHHHHHHHhhh
Confidence            987542    2 577999999999886322  21       1  2111  222466656 56999999999876

>d1jb7a1 b.40.4.3 (A:36-204) Telomere end binding protein alpha subunit {Oxytricha nova [TaxId: 200597]}

class: All beta proteins
fold: OB-fold
superfamily: Nucleic acid-binding proteins
family: Single strand DNA-binding domain, SSB
domain: Telomere end binding protein alpha subunit
species: Oxytricha nova [TaxId: 200597]

Probab=91.91  E-value=0.28  Score=43.16  Aligned_cols=83  Identities=13%  Similarity=0.091  Sum_probs=62.5

Q ss_pred             eeecccc-CCCCCCeEEEEEEEeeccccccccCCCcccEEEEEEEeCC------------CCeEEEEEechHHHHHHhhc
Q 006973          174 VHPLVSL-NPYQGNWTIKVRVTSKGNMRTYKNARGEGCVFNVELTDED------------GTQIQATMFNEAARKFYDRF  240 (623)
Q Consensus       174 ~~~I~~L-~p~~~~w~I~~RV~~K~~~r~~~~~~g~g~~f~~~L~D~~------------G~~I~at~~~~~~~kf~~~l  240 (623)
                      ++||++- ......-.+.|-|+.....+.-   +|..-.++|.|+|++            ++.|.+.+|.+..+.+=..-
T Consensus         3 y~~l~~a~~~~~~~vNv~GVV~~~~~p~~s---~g~D~~~tl~I~D~S~~~~~~~~~~~~~~~l~v~~F~~~~~~LP~V~   79 (169)
T d1jb7a1           3 YVELAKASLTSAQPQHFYAVVIDATFPYKT---NQERYICSLKIVDPTLYLKQQKGAGDASDYATLVLYAKRFEDLPIIH   79 (169)
T ss_dssp             BCCTTTSCSSCCSCEEEEEEEEEECCCEEC---SSSCEEEEEEEEBTTBSBCCTTSSCSCBCCEEEEEEESSGGGSCCCC
T ss_pred             eeeHHHHHHhcCCeEEEEEEEeecCCceec---CCCcEEEEEEEEeCCCCccccccccccCCceEEEEECCCHHHCCCCC
Confidence            6778752 2233467899999988776542   343347789999986            45799999998877776666


Q ss_pred             ccCcEEEEeeeEEEecCCC
Q 006973          241 QLGKVYYISRGTLRVANKQ  259 (623)
Q Consensus       241 ~eG~vy~is~~~V~~a~~~  259 (623)
                      +.||++.+++++++.-+.+
T Consensus        80 ~~GDII~l~rv~i~~~~g~   98 (169)
T d1jb7a1          80 RAGDIIRVHRATLRLYNGQ   98 (169)
T ss_dssp             EETCEEEEEEEEEEEETTE
T ss_pred             CCCCEEEEEEEEEEEECCc
Confidence            7899999999999887764

>d1iyjb3 b.40.4.3 (B:2599-2731) OB-fold domains of BRCA2 {Rat (Rattus norvegicus) [TaxId: 10116]}

class: All beta proteins
fold: OB-fold
superfamily: Nucleic acid-binding proteins
family: Single strand DNA-binding domain, SSB
domain: OB-fold domains of BRCA2
species: Rat (Rattus norvegicus) [TaxId: 10116]

Probab=91.09  E-value=0.1  Score=44.07  Aligned_cols=68  Identities=24%  Similarity=0.198  Sum_probs=51.5

Q ss_pred             HHHHHhcCCCCCCCCCCCcceEEEeeeeecC-----------------ceEEEEEeCcccceeeccccccccccccCccc
Q 006973            9 AISTILSNPSPDSSSDIPEIVVQVLDLKLTG-----------------NRYMFNASDGKKRLKAILPSNLSSEVISGNIQ   71 (623)
Q Consensus         9 a~~~i~~~~~~~~~~~~~~pvlQvl~~k~~~-----------------~ryr~~lSDG~~~~~~mlat~ln~~v~~~~l~   71 (623)
                      ||.+|++++.+.+    ..-||=|..+-..+                 ....+.|+||=|.+++.|...|..++..|.|.
T Consensus         3 alrkI~E~D~~~s----~~mVLcVs~I~~~~~~~~~~~~~~~~~~~~~~~~~lelTDGWYsi~a~lD~~L~~~l~~grl~   78 (133)
T d1iyjb3           3 ALKKILERDDTAA----KTLVLCVSDIISLSTNVSETSGSKASSEDSNKVDTIELTDGWYAVKAQLDPPLLALVKSGRLT   78 (133)
T ss_dssp             HHHHHHTTSSTTC----CSEEEEEEECCCCC-----------------CCCCEEEECSSCEEEECCCHHHHHHHHHTCSC
T ss_pred             HHHHHHhCCCCcc----CcEEEEEEEeeccCCccccccccccccccccccceEEEecCCEEEEEEcCHHHHHHHHcCCcc
Confidence            7899999986542    22455555663321                 33469999999999999999999999999999


Q ss_pred             eeeEEEEcc
Q 006973           72 NKGLIRLLD   80 (623)
Q Consensus        72 ~~siirl~~   80 (623)
                      .|.-+.|..
T Consensus        79 vGqKL~i~G   87 (133)
T d1iyjb3          79 VGQKIITQG   87 (133)
T ss_dssp             TTCEEEESC
T ss_pred             ccceEEEEC
Confidence            988777633

>d1eova1 b.40.4.1 (A:71-204) Aspartyl-tRNA synthetase (AspRS) {Baker's yeast (Saccharomyces cerevisiae) [TaxId: 4932]}

class: All beta proteins
fold: OB-fold
superfamily: Nucleic acid-binding proteins
family: Anticodon-binding domain
domain: Aspartyl-tRNA synthetase (AspRS)
species: Baker's yeast (Saccharomyces cerevisiae) [TaxId: 4932]

Probab=90.60  E-value=0.92  Score=37.99  Aligned_cols=97  Identities=14%  Similarity=0.197  Sum_probs=66.2

Q ss_pred             eeeccccCCC---CCCeEEEEEEEeeccccccccCCCcc-cEEEEEEEeCCCCeEEEEEechH-------HHHHHhhccc
Q 006973          174 VHPLVSLNPY---QGNWTIKVRVTSKGNMRTYKNARGEG-CVFNVELTDEDGTQIQATMFNEA-------ARKFYDRFQL  242 (623)
Q Consensus       174 ~~~I~~L~p~---~~~w~I~~RV~~K~~~r~~~~~~g~g-~~f~~~L~D~~G~~I~at~~~~~-------~~kf~~~l~e  242 (623)
                      .+.|.+|.+.   ...-+|+|||..+   |.      .| ++.=++|.|.+| .|++.+..+.       .-++...|..
T Consensus        23 r~~i~dl~~~~~~g~~V~v~GwV~~~---R~------~G~kl~F~~LrD~sg-~iQ~~v~~~~~~~~~~~~~~~~~~l~~   92 (134)
T d1eova1          23 RVKFVDLDEAKDSDKEVLFRARVHNT---RQ------QGATLAFLTLRQQAS-LIQGLVKANKEGTISKNMVKWAGSLNL   92 (134)
T ss_dssp             CCCGGGCCTTTTTTCEEEEEEEEEEE---EE------CSSSEEEEEEEETTE-EEEEEEECCSSSSSCHHHHHHHTTCCT
T ss_pred             EEEeccccchhcCCCEEEEEEEEEEE---Ee------CCCcEEEEEEEcCCC-cEEEEEEeccccchhHHHHHHHhcCCC
Confidence            4667777543   3467899999773   32      23 454578999999 8999998532       2234567999


Q ss_pred             CcEEEEeeeEEEecCCCccccCCceEEEEccCcEEEEc
Q 006973          243 GKVYYISRGTLRVANKQFKTVQNDYEMNLNENSEVEEA  280 (623)
Q Consensus       243 G~vy~is~~~V~~a~~~~~~~~~~yei~f~~~T~I~~~  280 (623)
                      |+++.+.+--+++..+.-+....+|||..+.-..+.++
T Consensus        93 es~V~V~G~v~~~~~~~~~~~~~~~Ei~v~~i~vls~a  130 (134)
T d1eova1          93 ESIVLVRGIVKKVDEPIKSATVQNLEIHITKIYTISET  130 (134)
T ss_dssp             TCEEEEEEEEEECSSCCTTSSEEEEEEEEEEEEEEECC
T ss_pred             CCEEEEEEEEEeCCccCCCCCCCcEEEEEEEEEEEeCC
Confidence            99999987666554443344567899998876655543

>d2pi2a1 b.40.4.3 (A:44-171) Replication protein A 32 KDa subunit (RPA32) fragment {Human (Homo sapiens) [TaxId: 9606]}

class: All beta proteins
fold: OB-fold
superfamily: Nucleic acid-binding proteins
family: Single strand DNA-binding domain, SSB
domain: Replication protein A 32 KDa subunit (RPA32) fragment
species: Human (Homo sapiens) [TaxId: 9606]

Probab=90.29  E-value=0.48  Score=39.50  Aligned_cols=68  Identities=18%  Similarity=0.287  Sum_probs=44.8

Q ss_pred             eeEEEEEEEEeCCceEEEEccCCceeeEEEEEEEeCCccEEEEEEechhhhhhhhHhhhcCCCCcEEEEEeEEeeeccce
Q 006973          309 LVDIIGVVQNVSPTMSIRRKSNNEMVPKRDITVADETKRTVTVSLWNELATNVGQELLDNADKSPIVAIKSLKVGDFQGI  388 (623)
Q Consensus       309 ~vDVIGvV~~v~~~~~i~~k~~g~~~~kr~i~l~D~sg~~I~vtLWg~~A~~~~~~~~~~~~~~~Vv~i~~~kV~~f~G~  388 (623)
                      .|.++|+|.++...           ...-.++|-|.||..|+|..|-+.......  .+....|..|.+.| +++.|+|+
T Consensus        30 ~V~iVG~V~~i~~~-----------~t~~~y~idDgTG~~i~v~~w~~~~~~~~~--~~~i~~g~yVrV~G-~lk~f~~~   95 (128)
T d2pi2a1          30 QVTIVGIIRHAEKA-----------PTNIVYKIDDMTAAPMDVRQWVDTDDTSSE--NTVVPPETYVKVAG-HLRSFQNK   95 (128)
T ss_dssp             EEEEEEEEEEEEEC-----------SSEEEEEEECSSSSCEEEEEECC---------CCCCCTTCEEEEEE-EEEEETTE
T ss_pred             EEEEEEEEEEEEec-----------CCEEEEEEECCCCCcEEEEEECCCCCCccc--cccccCCCEEEEEE-EEEeeCCe
Confidence            68999999886421           235678999999988999999543221110  12355678877765 77888885


Q ss_pred             -ee
Q 006973          389 -SL  390 (623)
Q Consensus       389 -~L  390 (623)
                       ++
T Consensus        96 ~~i   98 (128)
T d2pi2a1          96 KSL   98 (128)
T ss_dssp             EEE
T ss_pred             EEE
Confidence             45

>d1gm5a2 b.40.4.9 (A:106-285) RecG "wedge" domain {Thermotoga maritima [TaxId: 2336]}

class: All beta proteins
fold: OB-fold
superfamily: Nucleic acid-binding proteins
family: RecG "wedge" domain
domain: RecG "wedge" domain
species: Thermotoga maritima [TaxId: 2336]

Probab=90.08  E-value=0.13  Score=45.90  Aligned_cols=73  Identities=16%  Similarity=0.297  Sum_probs=50.4

Q ss_pred             CeeeccccCCCCCCeEEEEEEEeeccccccccCCCcccEEEEEEEeCCCCeEEEEEechH-HHHHHhhcccCcEEEEeee
Q 006973          173 RVHPLVSLNPYQGNWTIKVRVTSKGNMRTYKNARGEGCVFNVELTDEDGTQIQATMFNEA-ARKFYDRFQLGKVYYISRG  251 (623)
Q Consensus       173 ~~~~I~~L~p~~~~w~I~~RV~~K~~~r~~~~~~g~g~~f~~~L~D~~G~~I~at~~~~~-~~kf~~~l~eG~vy~is~~  251 (623)
                      ..++|++|.++. .-+|.|+|+... .+.+    +..+.+.+.+.|++| .|.+++|+.. ..... .+.+|+.+.|++ 
T Consensus        50 ~~~~i~~l~~g~-~vti~g~V~~~~-~~~~----~~~~~~~~~v~D~~g-~i~l~fFn~~~~~~~~-k~~~G~~v~v~G-  120 (180)
T d1gm5a2          50 KIFKLNDLLPGE-KVTTQGKIVSVE-TKKF----QNMNILTAVLSDGLV-HVPLKWFNQDYLQTYL-KQLTGKEVFVTG-  120 (180)
T ss_dssp             CCCCSSCCCSSC-CCEEEECCCCCE-EEEC----SSCEEEEEEECCSSC-CEEEEECSCCTTHHHH-HTTCSSCEEEEE-
T ss_pred             ccccccccCcce-eeeeeeEEEeec-cccc----cccceeEEEEEeccc-eEEEEEeCcHHHHHHH-hhhcCceEEEEE-
Confidence            467899998875 578999998632 2222    233688999999999 8999999962 22211 123799999874 


Q ss_pred             EEE
Q 006973          252 TLR  254 (623)
Q Consensus       252 ~V~  254 (623)
                      +|+
T Consensus       121 kvk  123 (180)
T d1gm5a2         121 TVK  123 (180)
T ss_dssp             EEC
T ss_pred             EEe
Confidence            443

>d1v1qa_ b.40.4.3 (A:) Primosomal replication protein N, PriB {Escherichia coli [TaxId: 562]}

class: All beta proteins
fold: OB-fold
superfamily: Nucleic acid-binding proteins
family: Single strand DNA-binding domain, SSB
domain: Primosomal replication protein N, PriB
species: Escherichia coli [TaxId: 562]

Probab=89.61  E-value=0.79  Score=37.13  Aligned_cols=65  Identities=11%  Similarity=0.074  Sum_probs=50.1

Q ss_pred             CCCeEEEEEEEeeccccccccCCCcccEEEEEEE-----eCCCC------eEEEEEechHHHHHHhhcccCcEEEEeee
Q 006973          184 QGNWTIKVRVTSKGNMRTYKNARGEGCVFNVELT-----DEDGT------QIQATMFNEAARKFYDRFQLGKVYYISRG  251 (623)
Q Consensus       184 ~~~w~I~~RV~~K~~~r~~~~~~g~g~~f~~~L~-----D~~G~------~I~at~~~~~~~kf~~~l~eG~vy~is~~  251 (623)
                      .+...|.|||++.-++|...+  |. .+.+|.|+     .+.|.      .|.|++|+..++.+.+.|+.|+.+.+.++
T Consensus         6 ~N~v~L~G~l~~dpelr~T~~--G~-~v~~f~la~~~~~~e~~~~r~~~~~i~vv~~g~~Ae~~~~~l~kG~~v~v~G~   81 (111)
T d1v1qa_           6 TNRLVLSGTVCRAPLRKVSPS--GI-PHCQFVLEHRSVQEEAGFHRQAWCQMPVIVSGHENQAITHSITVGSRITVQGF   81 (111)
T ss_dssp             CEEEEEEEEEEEEEEEEECTT--CC-EEEEEEEEEEEEEEETTEEEEEEEEEEEEEESTGGGGGGTTCCTTCEEEEEEE
T ss_pred             eEEEEEEEEecCCcceEECCC--CC-EEEEEEEEeccEEecccceEEEEEEEEEEEeCHHHHHHHHHhcCCCEEEEEEE
Confidence            457889999999999986543  22 46666664     11221      38999999999999999999999999975

>d1iyjb5 b.40.4.3 (B:2980-3117) OB-fold domains of BRCA2 {Rat (Rattus norvegicus) [TaxId: 10116]}

class: All beta proteins
fold: OB-fold
superfamily: Nucleic acid-binding proteins
family: Single strand DNA-binding domain, SSB
domain: OB-fold domains of BRCA2
species: Rat (Rattus norvegicus) [TaxId: 10116]

Probab=89.34  E-value=1.1  Score=37.13  Aligned_cols=103  Identities=19%  Similarity=0.189  Sum_probs=68.4

Q ss_pred             ccccccccc--cCCcceeEEEEEEEEeCCceEEEEccCCceeeEEEEEEEeCCccEEEEEEechhhhhhhhHhhhcCCCC
Q 006973          295 VPIDELGRY--VNGTELVDIIGVVQNVSPTMSIRRKSNNEMVPKRDITVADETKRTVTVSLWNELATNVGQELLDNADKS  372 (623)
Q Consensus       295 ~~i~di~~~--~~~~~~vDVIGvV~~v~~~~~i~~k~~g~~~~kr~i~l~D~sg~~I~vtLWg~~A~~~~~~~~~~~~~~  372 (623)
                      ++|++|.+-  ...=.-+|++|+|++|...       +|.   +--+.|.|..-.-+-+.+|-+.        .+.+..+
T Consensus         4 ~~f~~l~~~~F~pp~~EvD~VGiVVsv~~~-------~~~---~~~vYLaD~~~Nll~ikfw~~l--------~e~vkp~   65 (138)
T d1iyjb5           4 LPFSKLSDPAFQPPCSEVDVVGVVVSVVKP-------IGL---APLVYLSDECLHLLVVKFGIDL--------NEDIKPR   65 (138)
T ss_dssp             CCGGGGGCTTCCCGGGEEEEEEECCEEECC-------SSS---CCEEEEECTTCCEEEEEESSCC--------CSSCCTT
T ss_pred             cchhhccCcccCCCccceeEEEEEEEEccC-------CCc---CceEEEeccccCEEEEEEecCc--------hhhcCcc
Confidence            456666541  1122469999999998522       232   2258999999999999999653        2346778


Q ss_pred             cEEEEEeEEeeec--cce-eeecccceEEEEcCCh----HHHHHHHHHHH
Q 006973          373 PIVAIKSLKVGDF--QGI-SLSTLGRSTVLVSPDL----PEAKKLKSWYE  415 (623)
Q Consensus       373 ~Vv~i~~~kV~~f--~G~-~Ls~~~~S~i~iNPd~----pe~~~l~~w~~  415 (623)
                      ..|++.++..+-.  .|. +|-.+..|.+.-||..    .+.+.|+.-.+
T Consensus        66 ~lia~SNLQwR~~s~s~vPtl~Age~s~FS~~PK~~Hlqe~~~~Lk~~i~  115 (138)
T d1iyjb5          66 VLIAASNLQWRPESTSRVPTLFAGNFSVFSASPKEAHFQERVTNMKHAIE  115 (138)
T ss_dssp             CEEEEEEEEECCCTTCSSCEEEEEEEEEEESSCSSHHHHHHHHHHHHHHH
T ss_pred             eEEEEeccEEccccCCCCceEEeeccceecCCccHHHHHHHHHHHHHHHH
Confidence            9999988776643  344 5666778888889864    34555554443

>d1vqoz1 g.41.8.1 (Z:10-82) Ribosomal protein L37ae {Archaeon Haloarcula marismortui [TaxId: 2238]}

class: Small proteins
fold: Rubredoxin-like
superfamily: Zn-binding ribosomal proteins
family: Ribosomal protein L37ae
domain: Ribosomal protein L37ae
species: Archaeon Haloarcula marismortui [TaxId: 2238]

Probab=88.33  E-value=0.071  Score=39.86  Aligned_cols=29  Identities=21%  Similarity=0.393  Sum_probs=22.7

Q ss_pred             eccccccccc-eecCCCCeeecCcCCCCcc
Q 006973          482 YRACKTCNKK-VTDALGSGYWCEGCQKNDE  510 (623)
Q Consensus       482 Y~aC~~C~KK-v~~~~~~~~~C~kC~~~~~  510 (623)
                      -..||.|+|. |....-|.|.|.+|+..+.
T Consensus        27 ky~Cp~Cgk~~vkR~a~GIW~C~kC~~~~A   56 (73)
T d1vqoz1          27 DHACPNCGEDRVDRQGTGIWQCSYCDYKFT   56 (73)
T ss_dssp             CBCCSSSSCSCEEEEETTEEEETTTCCEEE
T ss_pred             CccCCCCCCceeEEEEEEEEECCCCCCEEe
Confidence            3469999984 6555679999999998764

>d1c0aa1 b.40.4.1 (A:1-106) Aspartyl-tRNA synthetase (AspRS) {Escherichia coli [TaxId: 562]}

class: All beta proteins
fold: OB-fold
superfamily: Nucleic acid-binding proteins
family: Anticodon-binding domain
domain: Aspartyl-tRNA synthetase (AspRS)
species: Escherichia coli [TaxId: 562]

Probab=86.72  E-value=2.1  Score=34.19  Aligned_cols=93  Identities=12%  Similarity=0.086  Sum_probs=60.1

Q ss_pred             eccccCCC--CCCeEEEEEEEeeccccccccCCCcccEEEEEEEeCCCCeEEEEEechHHHHH--HhhcccCcEEEEeee
Q 006973          176 PLVSLNPY--QGNWTIKVRVTSKGNMRTYKNARGEGCVFNVELTDEDGTQIQATMFNEAARKF--YDRFQLGKVYYISRG  251 (623)
Q Consensus       176 ~I~~L~p~--~~~w~I~~RV~~K~~~r~~~~~~g~g~~f~~~L~D~~G~~I~at~~~~~~~kf--~~~l~eG~vy~is~~  251 (623)
                      .+.+|+..  ...-+|+|+|-+   .|.      .|++.=++|.|.+| .+++.+..+..+.+  ...|..+.++.|.+-
T Consensus         5 ~cgeL~~~~~g~~V~v~GWv~~---~R~------~g~i~Fi~LRD~~G-~~Q~v~~~~~~~~~~~~~~l~~Es~v~V~G~   74 (106)
T d1c0aa1           5 YCGQLRLSHVGQQVTLCGWVNR---RRD------LGSLIFIDMRDREG-IVQVFFDPDRADALKLASELRNEFCIQVTGT   74 (106)
T ss_dssp             CGGGCCGGGTTCEEEEEEEEEE---EEE------CSSCEEEEEEETTE-EEEEEECGGGHHHHHHHTTCCTTCEEEEEEE
T ss_pred             EcccCChHHCCCEEEEEEEEEE---eee------CCCcEEEEEEcCCe-EEeEEecccchhHHHHHHhhCccceEEEEeE
Confidence            45566653  346789999865   232      34555578999999 89999877654433  345778899999875


Q ss_pred             EEEecCCCcc--ccCCceEEEEccCcEEE
Q 006973          252 TLRVANKQFK--TVQNDYEMNLNENSEVE  278 (623)
Q Consensus       252 ~V~~a~~~~~--~~~~~yei~f~~~T~I~  278 (623)
                      -++...+..+  ....++||..+.-+.+.
T Consensus        75 V~~r~~~~~n~~~~tg~iEi~v~~i~vl~  103 (106)
T d1c0aa1          75 VRARDEKNINRDMATGEIEVLASSLTIIN  103 (106)
T ss_dssp             EEECCTTTCCTTSTTTTEEEEEEEEEEEE
T ss_pred             EeccCccccCCCCCCCcEEEEEeEEEEEe
Confidence            4433333333  23457999887655543

>d1se8a_ b.40.4.3 (A:) ssDNA-binding protein {Deinococcus radiodurans [TaxId: 1299]}

class: All beta proteins
fold: OB-fold
superfamily: Nucleic acid-binding proteins
family: Single strand DNA-binding domain, SSB
domain: ssDNA-binding protein
species: Deinococcus radiodurans [TaxId: 1299]

Probab=86.63  E-value=3  Score=38.03  Aligned_cols=67  Identities=21%  Similarity=0.313  Sum_probs=47.3

Q ss_pred             CCCCeEEEEEEEeeccccccccCCCcccEEEEEEE------eCCC------CeEEEEEechHHHHHHhhcccCcEEEEee
Q 006973          183 YQGNWTIKVRVTSKGNMRTYKNARGEGCVFNVELT------DEDG------TQIQATMFNEAARKFYDRFQLGKVYYISR  250 (623)
Q Consensus       183 ~~~~w~I~~RV~~K~~~r~~~~~~g~g~~f~~~L~------D~~G------~~I~at~~~~~~~kf~~~l~eG~vy~is~  250 (623)
                      .++.-+|.||+.+.-++|...+  |. .+.+|.|+      |..|      +-+.+++|+..++... .|+.|+-+.+.+
T Consensus       126 ~~N~v~l~G~l~~dpe~r~t~~--G~-~~~~f~va~~~~~~~~~g~~~~~t~~~~v~~~g~~Ae~~~-~l~KG~~V~V~G  201 (231)
T d1se8a_         126 AMNEVLVLGNVTRDPEIRYTPA--GD-AVLSLSIAVNENYQDRQGQRQEKVHYIDATLWRDLAENMK-ELRKGDPVMIMG  201 (231)
T ss_dssp             CEEEEEEEEEECSCCEEEECTT--CC-EEEEEEEEEEEEEECTTSCEEEEEEEEEEEEETHHHHHHT-TCCTTCEEEEEE
T ss_pred             cceeEEEEEEeCCCcEEEECCC--CC-EEEEEEEEECCCeECCCCceeeeeEEEEeEecCcHHHHhh-hCCCCCEEEEEE
Confidence            3457888889888877777653  22 35555543      3344      2599999999999875 599999999985


Q ss_pred             eEEE
Q 006973          251 GTLR  254 (623)
Q Consensus       251 ~~V~  254 (623)
                       ++.
T Consensus       202 -~l~  204 (231)
T d1se8a_         202 -RLV  204 (231)
T ss_dssp             -EEE
T ss_pred             -EeE
Confidence             443

>d1e1oa1 b.40.4.1 (A:11-153) Lysyl-tRNA synthetase (LysRS) {Escherichia coli, gene lysU [TaxId: 562]}

class: All beta proteins
fold: OB-fold
superfamily: Nucleic acid-binding proteins
family: Anticodon-binding domain
domain: Lysyl-tRNA synthetase (LysRS)
species: Escherichia coli, gene lysU [TaxId: 562]

Probab=86.46  E-value=1  Score=38.24  Aligned_cols=78  Identities=17%  Similarity=0.262  Sum_probs=54.3

Q ss_pred             CeEEEEEEEeeccccccccCCCcccEEEEEEEeCCCCeEEEEEech-----HHHHHHhhcccCcEEEEeeeEEEecCCCc
Q 006973          186 NWTIKVRVTSKGNMRTYKNARGEGCVFNVELTDEDGTQIQATMFNE-----AARKFYDRFQLGKVYYISRGTLRVANKQF  260 (623)
Q Consensus       186 ~w~I~~RV~~K~~~r~~~~~~g~g~~f~~~L~D~~G~~I~at~~~~-----~~~kf~~~l~eG~vy~is~~~V~~a~~~~  260 (623)
                      ..+|.|||+.+   |.      -|++.=++|.|.+| .|++.+-.+     ..+.|...|..||++-+.+.-.+..    
T Consensus        56 ~V~vaGRI~~~---R~------~Gk~~F~~i~D~~g-~iQi~~~~~~~~~~~~~~~~k~ld~GDiIgv~G~~~~Tk----  121 (143)
T d1e1oa1          56 EVSVAGRMMTR---RI------MGKASFVTLQDVGG-RIQLYVARDSLPEGVYNDQFKKWDLGDIIGARGTLFKTQ----  121 (143)
T ss_dssp             EEEEEEEEEEE---EE------ETTEEEEEEEETTE-EEEEEEETTTSSTTHHHHTGGGCCTTCEEEEEEEEEECT----
T ss_pred             eEEEEEEEEEE---cc------cCCeeEEEEEeCCc-eEEEEEccccchhhhHHHHHhcCCcccEEEeecccEECC----
Confidence            58899999873   43      34666688999999 999998643     3445678899999999987654333    


Q ss_pred             cccCCceEEEEccCcEEEEc
Q 006973          261 KTVQNDYEMNLNENSEVEEA  280 (623)
Q Consensus       261 ~~~~~~yei~f~~~T~I~~~  280 (623)
                         .....|.....+...+|
T Consensus       122 ---tGElsi~~~~~~lLsK~  138 (143)
T d1e1oa1         122 ---TGELSIHCTELRLLTKA  138 (143)
T ss_dssp             ---TCCEEEEEEEEEEEECC
T ss_pred             ---CCcEEEEeeEEEEeccc
Confidence               24455555554444443

>d1n9wa1 b.40.4.1 (A:1-93) Aspartyl-tRNA synthetase (AspRS) {Thermus thermophilus, AspRS-2 [TaxId: 274]}

class: All beta proteins
fold: OB-fold
superfamily: Nucleic acid-binding proteins
family: Anticodon-binding domain
domain: Aspartyl-tRNA synthetase (AspRS)
species: Thermus thermophilus, AspRS-2 [TaxId: 274]

Probab=86.31  E-value=2  Score=33.29  Aligned_cols=84  Identities=12%  Similarity=-0.023  Sum_probs=56.7

Q ss_pred             eeccccCCCC-CCeEEEEEEEeeccccccccCCCcccEEEEEEEeCCCCeEEEEEechHHHHHHhhcccCcEEEEeeeEE
Q 006973          175 HPLVSLNPYQ-GNWTIKVRVTSKGNMRTYKNARGEGCVFNVELTDEDGTQIQATMFNEAARKFYDRFQLGKVYYISRGTL  253 (623)
Q Consensus       175 ~~I~~L~p~~-~~w~I~~RV~~K~~~r~~~~~~g~g~~f~~~L~D~~G~~I~at~~~~~~~kf~~~l~eG~vy~is~~~V  253 (623)
                      +.|++|..+. ..-+|+|||.+   .|.      .|++.=++|.|.+| .+++.+-..      ..+..|+++.+.+- |
T Consensus         3 ~~I~dl~~~~g~~V~v~GwV~~---~R~------~gk~~Fi~LrD~sg-~iQ~v~~~~------~~~~~e~~v~v~G~-v   65 (93)
T d1n9wa1           3 VLVRDLKAHVGQEVELLGFLHW---RRD------LGRIQFLLLRDRSG-VVQVVTGGL------KLPLPESALRVRGL-V   65 (93)
T ss_dssp             CCGGGGGGCTTSEEEEEEEEEE---EEE------CSSEEEEEEEETTE-EEEEEEESC------CCCCTTCEEEEEEE-E
T ss_pred             EEhHHhhhcCCCEEEEEEEEEe---EEe------CCCcEEEEEEcCCc-cceEEeccc------cccccceEEEEEEE-E
Confidence            3577776554 46899999976   342      34666678999999 799987553      34677888888754 4


Q ss_pred             EecCCCccccCCceEEEEccCcEEEE
Q 006973          254 RVANKQFKTVQNDYEMNLNENSEVEE  279 (623)
Q Consensus       254 ~~a~~~~~~~~~~yei~f~~~T~I~~  279 (623)
                      ....+    ...++||..+.-..+.+
T Consensus        66 ~~~~~----~~~~~Ei~v~~i~il~~   87 (93)
T d1n9wa1          66 VENAK----APGGLEVQAKEVEVLSP   87 (93)
T ss_dssp             EECTT----STTSEEEEEEEEEEEEC
T ss_pred             EECCC----CCCCEEEEEeEEEEEec
Confidence            33321    24679998876555543

>d1qvca_ b.40.4.3 (A:) ssDNA-binding protein {Escherichia coli [TaxId: 562]}

class: All beta proteins
fold: OB-fold
superfamily: Nucleic acid-binding proteins
family: Single strand DNA-binding domain, SSB
domain: ssDNA-binding protein
species: Escherichia coli [TaxId: 562]

Probab=85.97  E-value=2.1  Score=36.14  Aligned_cols=68  Identities=22%  Similarity=0.292  Sum_probs=50.7

Q ss_pred             CCCCeEEEEEEEeeccccccccCCCcccEEEEEEE------eCC-------CCeEEEEEechHHHHHHhhcccCcEEEEe
Q 006973          183 YQGNWTIKVRVTSKGNMRTYKNARGEGCVFNVELT------DED-------GTQIQATMFNEAARKFYDRFQLGKVYYIS  249 (623)
Q Consensus       183 ~~~~w~I~~RV~~K~~~r~~~~~~g~g~~f~~~L~------D~~-------G~~I~at~~~~~~~kf~~~l~eG~vy~is  249 (623)
                      .++.-+|.|||.+--++|...+  | ..+.+|.|+      |..       -+=+.+++|+..++.+...|+.|+.++|.
T Consensus         4 ~mN~v~LiG~l~~dpe~r~~~~--G-~~v~~f~va~~~~~~~~~~~~~~~~t~w~~v~~~g~~Ae~~~~~l~KG~~V~V~   80 (145)
T d1qvca_           4 GVNKVILVGNLGQDPEVRYMPN--G-GAVANITLATSESWRDKATGEMKEQTEWHRVVLFGKLAEVASEYLRKGSQVYIE   80 (145)
T ss_dssp             CEEEEEEEEEESSCCEEECCSS--S-CCEEEEEEEECCCCSCCSSSSCCCCCEEEEEEEETHHHHHHHHHCCTTCEEEEE
T ss_pred             cceEEEEEEECCCCCEEEECCC--C-CEEEEEEEEecccccccccccccccceEEeeEEecchhhhHhhhcccCCEEEEE
Confidence            3567789999998777887653  2 246666665      222       23599999999999999999999999997


Q ss_pred             eeEEE
Q 006973          250 RGTLR  254 (623)
Q Consensus       250 ~~~V~  254 (623)
                      + ++.
T Consensus        81 G-~l~   84 (145)
T d1qvca_          81 G-QLR   84 (145)
T ss_dssp             E-EEE
T ss_pred             E-EEE
Confidence            5 443

>d1ue1a_ b.40.4.3 (A:) ssDNA-binding protein {Mycobacterium tuberculosis [TaxId: 1773]}

class: All beta proteins
fold: OB-fold
superfamily: Nucleic acid-binding proteins
family: Single strand DNA-binding domain, SSB
domain: ssDNA-binding protein
species: Mycobacterium tuberculosis [TaxId: 1773]

Probab=85.64  E-value=1.1  Score=36.54  Aligned_cols=68  Identities=21%  Similarity=0.309  Sum_probs=50.0

Q ss_pred             CCCeEEEEEEEeeccccccccCCCcccEEEEEEEeC------C--------CCeEEEEEechHHHHHHhhcccCcEEEEe
Q 006973          184 QGNWTIKVRVTSKGNMRTYKNARGEGCVFNVELTDE------D--------GTQIQATMFNEAARKFYDRFQLGKVYYIS  249 (623)
Q Consensus       184 ~~~w~I~~RV~~K~~~r~~~~~~g~g~~f~~~L~D~------~--------G~~I~at~~~~~~~kf~~~l~eG~vy~is  249 (623)
                      .+.-+|.||+.+--++|...+  | ..+.+|.|+-.      .        -+-+.+++|+.+++.+.+.|+.|+-+.+.
T Consensus         2 ~N~V~L~G~l~~dpe~r~~~~--G-~~v~~f~lA~~~~~~~~~~~~~~~~~t~~~~v~~~g~~Ae~~~~~l~KG~~V~V~   78 (118)
T d1ue1a_           2 DTTITIVGNLTADPELRFTPS--G-AAVANFTVASTPRIYDRQTGEWKDGEALFLRCNIWREAAENVAESLTRGARVIVS   78 (118)
T ss_dssp             CCEEEEEEEESSCCEEEECTT--S-CEEEEEEEEECCCCCC-----CCCCCCEEEEEEEEHHHHHHHHHHCCTTCEEEEE
T ss_pred             cCEEEEEEEcCcCCEEEECCC--C-CEEEEEEEEecccccccCCCcccccceeeEEEEeChHHHHHHHHhccCCCEEEEE
Confidence            356789999998777887653  2 24666766421      1        13499999999999999999999999998


Q ss_pred             eeEEEe
Q 006973          250 RGTLRV  255 (623)
Q Consensus       250 ~~~V~~  255 (623)
                       +++..
T Consensus        79 -G~L~~   83 (118)
T d1ue1a_          79 -GRLKQ   83 (118)
T ss_dssp             -EEEEE
T ss_pred             -eEeee
Confidence             44433

>d1jb7a2 b.40.4.3 (A:205-328) Telomere end binding protein alpha subunit {Oxytricha nova [TaxId: 200597]}

class: All beta proteins
fold: OB-fold
superfamily: Nucleic acid-binding proteins
family: Single strand DNA-binding domain, SSB
domain: Telomere end binding protein alpha subunit
species: Oxytricha nova [TaxId: 200597]

Probab=85.28  E-value=0.84  Score=36.42  Aligned_cols=87  Identities=15%  Similarity=0.294  Sum_probs=62.8

Q ss_pred             eeeccccCCCCCCeEEEEEEEeeccccccccCCCcccEEEEEEEeCCCCeEEEEEechHHHHHHhhcccCcEEEEeeeEE
Q 006973          174 VHPLVSLNPYQGNWTIKVRVTSKGNMRTYKNARGEGCVFNVELTDEDGTQIQATMFNEAARKFYDRFQLGKVYYISRGTL  253 (623)
Q Consensus       174 ~~~I~~L~p~~~~w~I~~RV~~K~~~r~~~~~~g~g~~f~~~L~D~~G~~I~at~~~~~~~kf~~~l~eG~vy~is~~~V  253 (623)
                      ++||+.-....+.+-+.|+|+...++-+|.|        ++-|-|.+|-    ++|.-....-++.|..|+|+.|....+
T Consensus         7 ~~pL~kAq~~kgDFdvvaKi~qI~e~DeYTn--------elklkD~sgq----tw~t~~~k~KFPhl~~G~vvRIRSat~   74 (124)
T d1jb7a2           7 YTALNKAQAQKGDFDVVAKILQVHELDEYTN--------ELKLKDASGQ----VFYTLSLKLKFPHVRTGEVVRIRSATY   74 (124)
T ss_dssp             SCCGGGGGGCSSCEEEEEEEEEEEECSSSEE--------EEEEEETTCC----EEEEEEETTTCTTCCTTCEEEEEEEEE
T ss_pred             hccHHHHHhhccchhhhhhhheeecchhhcc--------eeeeccCCCC----EeehhhhhhcCCccccCceEEEEeeec
Confidence            5677777667789999999999999888875        3568999994    555555556677899999999987765


Q ss_pred             EecCCCccccCCceEEEEccCcEEE
Q 006973          254 RVANKQFKTVQNDYEMNLNENSEVE  278 (623)
Q Consensus       254 ~~a~~~~~~~~~~yei~f~~~T~I~  278 (623)
                      ...+      ...-.|.|..+|.|.
T Consensus        75 dets------t~kk~L~lShySNIm   93 (124)
T d1jb7a2          75 DETS------TQKKVLILSHYSNII   93 (124)
T ss_dssp             CTTC------CSSCEEEEEEEEEEE
T ss_pred             cccc------ccceeEEeeccccee
Confidence            4332      123456666655553

>d1b8aa1 b.40.4.1 (A:1-103) Aspartyl-tRNA synthetase (AspRS) {Archaeon Pyrococcus kodakaraensis [TaxId: 311400]}

class: All beta proteins
fold: OB-fold
superfamily: Nucleic acid-binding proteins
family: Anticodon-binding domain
domain: Aspartyl-tRNA synthetase (AspRS)
species: Archaeon Pyrococcus kodakaraensis [TaxId: 311400]

Probab=85.26  E-value=1.8  Score=34.34  Aligned_cols=88  Identities=14%  Similarity=0.095  Sum_probs=57.5

Q ss_pred             eeccccCCC--CCCeEEEEEEEeeccccccccCCCcccEEEEEEEeCCCCeEEEEEechHH----HHHHhhcccCcEEEE
Q 006973          175 HPLVSLNPY--QGNWTIKVRVTSKGNMRTYKNARGEGCVFNVELTDEDGTQIQATMFNEAA----RKFYDRFQLGKVYYI  248 (623)
Q Consensus       175 ~~I~~L~p~--~~~w~I~~RV~~K~~~r~~~~~~g~g~~f~~~L~D~~G~~I~at~~~~~~----~kf~~~l~eG~vy~i  248 (623)
                      +.+.+|++.  ...-+|+|||.++   |.      .|++.=++|.|.+| .|++.+..+.+    -++...|..|+++.+
T Consensus         5 h~~~el~~~~~G~~V~v~Gwv~~~---R~------~g~i~Fi~LrD~sg-~iQ~v~~~~~~~~~~~~~~~~l~~es~v~V   74 (103)
T d1b8aa1           5 HYSSEITEELNGQKVKVAGWVWEV---KD------LGGIKFLWIRDRDG-IVQITAPKKKVDPELFKLIPKLRSEDVVAV   74 (103)
T ss_dssp             CCGGGCCGGGTTCEEEEEEEEEEE---EE------ETTEEEEEEEETTE-EEEEEEETTTSCHHHHHHGGGCCTTCEEEE
T ss_pred             cChhhCChhHCCCEEEEEEEEehh---cc------CCCcEEEEEEcCCE-eeeEEEeccccchhhhhHHhhCCcceEEEE
Confidence            446677664  3578899999773   43      34666678999999 79999976432    233345889999999


Q ss_pred             eeeEEEecCCCccccCCceEEEEccCcEE
Q 006973          249 SRGTLRVANKQFKTVQNDYEMNLNENSEV  277 (623)
Q Consensus       249 s~~~V~~a~~~~~~~~~~yei~f~~~T~I  277 (623)
                      .+- |....+    .+..+||....-..+
T Consensus        75 ~G~-v~~~~~----~~~~iEi~v~~i~il   98 (103)
T d1b8aa1          75 EGV-VNFTPK----AKLGFEILPEKIVVL   98 (103)
T ss_dssp             EEE-EEECTT----STTSEEEEEEEEEEE
T ss_pred             EEE-EEECCC----CCccEEEEeeEEEEE
Confidence            864 443321    234588877554333

>d1jj2y_ g.41.8.1 (Y:) Ribosomal protein L37ae {Archaeon Haloarcula marismortui [TaxId: 2238]}

class: Small proteins
fold: Rubredoxin-like
superfamily: Zn-binding ribosomal proteins
family: Ribosomal protein L37ae
domain: Ribosomal protein L37ae
species: Archaeon Haloarcula marismortui [TaxId: 2238]

Probab=84.08  E-value=0.16  Score=37.89  Aligned_cols=28  Identities=21%  Similarity=0.419  Sum_probs=22.3

Q ss_pred             cccccccc-ceecCCCCeeecCcCCCCcc
Q 006973          483 RACKTCNK-KVTDALGSGYWCEGCQKNDE  510 (623)
Q Consensus       483 ~aC~~C~K-Kv~~~~~~~~~C~kC~~~~~  510 (623)
                      .-||-|+| +|....-|.|.|.+|+..+.
T Consensus        28 y~Cp~Cgk~~vkR~a~GIW~C~kC~~~~A   56 (73)
T d1jj2y_          28 HKCPVCGFKKLKRAGTGIWMCGHCGYKIA   56 (73)
T ss_dssp             BCCSSSCCSCEEEEETTEEEETTTCCEEE
T ss_pred             ccCCCCCCCceEEEEEEEEECCCCCCEEe
Confidence            46999996 56666679999999998764

>d2akla2 g.41.3.5 (A:3-40) Hypothetical protein PA0128, N-terminal domain {Pseudomonas aeruginosa [TaxId: 287]}

class: Small proteins
fold: Rubredoxin-like
superfamily: Zinc beta-ribbon
family: PhnA zinc-binding domain
domain: Hypothetical protein PA0128, N-terminal domain
species: Pseudomonas aeruginosa [TaxId: 287]

Probab=82.91  E-value=0.24  Score=31.92  Aligned_cols=28  Identities=25%  Similarity=0.477  Sum_probs=23.9

Q ss_pred             eccccccccceecCCCCeeecCcCCCCc
Q 006973          482 YRACKTCNKKVTDALGSGYWCEGCQKND  509 (623)
Q Consensus       482 Y~aC~~C~KKv~~~~~~~~~C~kC~~~~  509 (623)
                      .+.||+|+.-.+-+.++.|-|+-|+-..
T Consensus         3 lP~CP~C~seytYedg~l~vCPeC~hEW   30 (38)
T d2akla2           3 LPPCPQCNSEYTYEDGALLVCPECAHEW   30 (38)
T ss_dssp             SCCCTTTCCCCCEECSSSEEETTTTEEE
T ss_pred             CCcCCCCCCcceEcCCCEEECCcccCcC
Confidence            5899999999877768899999998654

>d1l0wa1 b.40.4.1 (A:1-104) Aspartyl-tRNA synthetase (AspRS) {Thermus thermophilus, AspRS-1 [TaxId: 274]}

class: All beta proteins
fold: OB-fold
superfamily: Nucleic acid-binding proteins
family: Anticodon-binding domain
domain: Aspartyl-tRNA synthetase (AspRS)
species: Thermus thermophilus, AspRS-1 [TaxId: 274]

Probab=82.24  E-value=3.3  Score=32.79  Aligned_cols=93  Identities=16%  Similarity=0.087  Sum_probs=57.3

Q ss_pred             eeccccCCC--CCCeEEEEEEEeeccccccccCCCcccEEEEEEEeCCCCeEEEEEechH-HHHHHhhcccCcEEEEeee
Q 006973          175 HPLVSLNPY--QGNWTIKVRVTSKGNMRTYKNARGEGCVFNVELTDEDGTQIQATMFNEA-ARKFYDRFQLGKVYYISRG  251 (623)
Q Consensus       175 ~~I~~L~p~--~~~w~I~~RV~~K~~~r~~~~~~g~g~~f~~~L~D~~G~~I~at~~~~~-~~kf~~~l~eG~vy~is~~  251 (623)
                      |.+.+|++.  ...-+|+|+|-+   .|.      .|++.=++|.|.+| .|++.+..+. .-..-..|..+.++.+.+-
T Consensus         5 h~~geL~~~~~g~~V~l~GWV~~---~R~------~g~i~Fi~LRD~~G-~iQ~v~~~~~~~~~~~~~l~~Es~I~V~G~   74 (104)
T d1l0wa1           5 HYAGSLRETHVGEEVVLEGWVNR---RRD------LGGLIFLDLRDREG-LVQLVAHPASPAYATAERVRPEWVVRAKGL   74 (104)
T ss_dssp             SCGGGCCGGGTTCEEEEEEEEEE---EEE------CSSCEEEEEEETTE-EEEEEECTTSTTHHHHTTCCTTCEEEEEEE
T ss_pred             cccccCChHHCCCEEEEEEEEEe---hhc------CCCeEEEEEECCCC-ceEEecccchhHHHHHhhcCcccEEEEEEE
Confidence            345667664  347889999865   232      34555588999999 8999987532 2223345788999999874


Q ss_pred             EEEecCCCccccCCceEEEEccCcEE
Q 006973          252 TLRVANKQFKTVQNDYEMNLNENSEV  277 (623)
Q Consensus       252 ~V~~a~~~~~~~~~~yei~f~~~T~I  277 (623)
                      -.+.....-+....++||....-..+
T Consensus        75 V~~r~~~n~~~~tG~iEi~v~~i~iL  100 (104)
T d1l0wa1          75 VRLRPEPNPRLATGRVEVELSALEVL  100 (104)
T ss_dssp             EEECSSCCTTSTTTTEEEEEEEEEEE
T ss_pred             EeeCCccCCCCCCCCEEEEEeEEEEE
Confidence            33222111122345788887754443

>d1r2za3 g.39.1.8 (A:229-274) DNA repair protein MutM (Fpg) {Bacillus stearothermophilus [TaxId: 1422]}

class: Small proteins
fold: Glucocorticoid receptor-like (DNA-binding domain)
superfamily: Glucocorticoid receptor-like (DNA-binding domain)
family: C-terminal, Zn-finger domain of MutM-like DNA repair proteins
domain: DNA repair protein MutM (Fpg)
species: Bacillus stearothermophilus [TaxId: 1422]

Probab=81.89  E-value=0.22  Score=33.81  Aligned_cols=25  Identities=28%  Similarity=0.735  Sum_probs=18.5

Q ss_pred             ccccccccceec---CCCCeeecCcCCC
Q 006973          483 RACKTCNKKVTD---ALGSGYWCEGCQK  507 (623)
Q Consensus       483 ~aC~~C~KKv~~---~~~~~~~C~kC~~  507 (623)
                      ..|+.|+.++..   .+-++|+|++|++
T Consensus        19 ~~C~~C~~~I~~~~~~gR~t~~Cp~CQK   46 (46)
T d1r2za3          19 NPCKRCGTPIEKTVVAGRGTHYCPRCQR   46 (46)
T ss_dssp             SBCTTTCCBCEEEEETTEEEEECTTTCC
T ss_pred             CccCCCCCeEEEEEECCCcCEEChhhCC
Confidence            358899887654   2346899999985

>d1vd4a_ g.41.3.1 (A:) Transcription initiation factor TFIIE-alpha {Human (Homo sapiens) [TaxId: 9606]}

class: Small proteins
fold: Rubredoxin-like
superfamily: Zinc beta-ribbon
family: Transcriptional factor domain
domain: Transcription initiation factor TFIIE-alpha
species: Human (Homo sapiens) [TaxId: 9606]

Probab=80.20  E-value=0.43  Score=34.45  Aligned_cols=28  Identities=21%  Similarity=0.561  Sum_probs=22.3

Q ss_pred             eccccccccceec--------CCCCeeecCcCCCCc
Q 006973          482 YRACKTCNKKVTD--------ALGSGYWCEGCQKND  509 (623)
Q Consensus       482 Y~aC~~C~KKv~~--------~~~~~~~C~kC~~~~  509 (623)
                      -..||.|+|+...        ...|.+.|+.|+..+
T Consensus        14 ~y~Cp~C~~~ys~Lda~~L~d~~~~~F~C~~C~~el   49 (62)
T d1vd4a_          14 SFKCPVCSSTFTDLEANQLFDPMTGTFRCTFCHTEV   49 (62)
T ss_dssp             EEECSSSCCEEEHHHHHHHEETTTTEEBCSSSCCBC
T ss_pred             ceECCCCCCCcchhhHHHhcCcCCCeEEecCCCCEE
Confidence            4569999999864        236899999999765

>d1k82a3 g.39.1.8 (A:225-268) DNA repair protein MutM (Fpg) {Escherichia coli [TaxId: 562]}

class: Small proteins
fold: Glucocorticoid receptor-like (DNA-binding domain)
superfamily: Glucocorticoid receptor-like (DNA-binding domain)
family: C-terminal, Zn-finger domain of MutM-like DNA repair proteins
domain: DNA repair protein MutM (Fpg)
species: Escherichia coli [TaxId: 562]

Probab=80.04  E-value=0.28  Score=32.92  Aligned_cols=25  Identities=28%  Similarity=0.885  Sum_probs=18.3

Q ss_pred             ccccccccceec---CCCCeeecCcCCC
Q 006973          483 RACKTCNKKVTD---ALGSGYWCEGCQK  507 (623)
Q Consensus       483 ~aC~~C~KKv~~---~~~~~~~C~kC~~  507 (623)
                      ..|+.|+..+..   .+-++|+|++|++
T Consensus        17 ~~C~~C~~~I~~~~~~~R~t~~Cp~CQk   44 (44)
T d1k82a3          17 EPCRVCGTPIVATKHAQRATFYCRQCQK   44 (44)
T ss_dssp             SBCTTTCCBCEEEEETTEEEEECTTTCC
T ss_pred             CCcCCCCCEEEEEEECCcccEEChhhcC
Confidence            358899877643   2356899999985