Citrus Sinensis ID: 024527

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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------
Protein Sequence
MLELRLVQGSLLKKVLEAIKELVNDANFDCSATGFSLQAMDSSHVALVALLLRSEGFEHYRCDRNISMGMNLNNVSKMLKCAGNDDIITLKADDGSDTVTFMFESPTQDKIADFEMKLMDIDSEHLGIPEAEYHAIVRMPSAEFARICKDLASIGDTVVISVTKEGVKFSTRGDIGTANIVLRQNTTVDKPEEATIIEMHEPVSLTFALRYMNSFTRATPLSNTVTISLSSELPVVVEYKIAEMGYIRFYLAPKIEEDEDETKPQV
Secondary Structure (PSIPRED)
cEEEEEcccHHHHHHHHHHHHHHccEEEEEccccEEEEEEccccEEEEEEEEcccccEEEEEcccEEEEEEHHHHHHHHcccccccEEEEEEcccccEEEEEEEcccccEEEEEEEEEEEcccccccccccccEEEEEEEHHHHHHHHHHHHccccEEEEEEEccEEEEEEEEccEEEEEEEEccccccccccHHHHcccccEEEEEEHHHHHHHHcccccccEEEEEEcccccEEEEEEEcccEEEEEEEEcccccccccccccc
Secondary Structure Prediction (SSPRO)
cEEEEEccHHHHHHHHHHHcccccEEEEEEEccEEEEEEEcccccEEEEEEEEHHHccEEcccccEEEEEEHHHHHHHccccccccEEEEEEcccccEEEEEEEccccccEEEEEEEcEcccccccccccccccEEEEEEHHHHHHHHHHHHccccEEEEEEEccEEEEEEEccccEEEEEEccEcccccHHHcEEEEEcccEEEEEEHHHHHHHHHHHHcccEEEEEEcccccEEEEEEEccccEEEEEEcccccccHHHccccc
Coil and Loop (DISEMBL)
MLELRLVQGSLLKKVLEAIKELVndanfdcsatgfslqamDSSHVALVALLLRSegfehyrcdrnismgmnLNNVSKMLKCagnddiitlkaddgsdtvtfmfesptqdkiADFEMKLMDidsehlgipeaeyHAIVRMPSAEFARICKDLASIGDTVVISVTKEgvkfstrgdigtaNIVLrqnttvdkpeeatiiemhepVSLTFALRYMNsftratplsntvtislsselpvvVEYKIAEMGYIrfylapkieededetkpqv
Flexible Loop (DISEMBL)
MLELRLVQGSLLKKVLEAIKELVNDANFDCSATGFSLQAMDSSHVALVALLLRSEGFEHYRCDRNISMGMNLNNVSKMLKCAGNDDIITLKADDGSDTVTFMFESPTQDKIADFEMKLMDIDSEHLGIPEAEYHAIVRMPSAEFARICKDLASIGDTVVISVTKegvkfstrgdigtanivlrqnttvdkpEEATIIEMHEPVSLTFALRYMNSFTRATplsntvtislsselpVVVEYKIAEMGYIRFYlapkieededetkpqv
Low Complexity Region (SEG)
MLELRLVQGSLLKKVLEAIKELVNDANFDCSATGFSLQAMDSSHVALVALLLRSEGFEHYRCDRNISMGMNLNNVSKMLKCAGNDDIITLKADDGSDTVTFMFESPTQDKIADFEMKLMDIDSEHLGIPEAEYHAIVRMPSAEFARICKDLASIGDTVVISVTKEGVKFSTRGDIGTANIVLRQNTTVDKPEEATIIEMHEPVSLTFALRYMNSFTRATPLSNTVTISLSSELPVVVEYKIAEMGYIRFYLAPKIEEDEDETKPQV
Disordered region (IsUnstruct)
****RLVQGSLLKKVLEAIKELVNDANFDCSATGFSLQAMDSSHVALVALLLRSEGFEHYRCDRNISMGMNLNNVSKMLKCAGNDDIITLKADDGSDTVTFMFESPTQDKIADFEMKLMDIDSEHLGIPEAEYHAIVRMPSAEFARICKDLASIGDTVVISVTKEGVKFSTRGDIGTANIVLRQNTTVDKPEEATIIEMHEPVSLTFALRYMNSFTRATPLSNTVTISLSSELPVVVEYKIAEMGYIRFYLAP*************
Disordered Region (DISOPRED)
MLELRLVQGSLLKKVLEAIKELVNDANFDCSATGFSLQAMDSSHVALVALLLRSEGFEHYRCDRNISMGMNLNNVSKMLKCAGNDDIITLKADDGSDTVTFMFESPTQDKIADFEMKLMDIDSEHLGIPEAEYHAIVRMPSAEFARICKDLASIGDTVVISVTKEGVKFSTRGDIGTANIVLRQ**************MHEPVSLTFALRYMNSFTRATPLSNTVTISLSSELPVVVEYKIAEMGYIRFYLAPK************
Disordered Region (DISEMBL)
MLELRLVQGSLLKKVLEAIKELVNDANFDCSATGFSLQAMDSSHVALVALLLRSEGFEHYRCDRNISMGMNLNNVSKMLKCAGNDDIITLKADDGSDTVTFMFESPTQDKIADFEMKLMDIDSEHLGIPEAEYHAIVRMPSAEFARICKDLASIGDTVVISVTKEGVKFSTRGDIGTANIVLRQNTTVDKPEEATIIEMHEPVSLTFALRYMNSFTRATPLSNTVTISLSSELPVVVEYKIAEMGYIRFYLAPKIE**********
Disordered Region (DISPRO)
MLELRLVQGSLLKKVLEAIKELVNDANFDCSATGFSLQAMDSSHVALVALLLRSEGFEHYRCDRNISMGMNLNNVSKMLKCAGNDDIITLKADDGSDTVTFMFESPTQDKIADFEMKLMDIDSEHLGIPEAEYHAIVRMPSAEFARICKDLASIGDTVVISVTKEGVKFSTRGDIGTANIVLRQNTTVDKPEEATIIEMHEPVSLTFALRYMNSFTRATPLSNTVTISLSSELPVVVEYKIAEMGYIRFYLAPKIEE*********
Transmembrane Helix (TMHMM)
oooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooo
Transmembrane Helix (HMMTOP)
oooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooo
Transmembrane Helix (MEMSAT)
iiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiihhhhhhhhhhhhhhhhhhhoooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooo
TM Helix, Signal Peptide (MEMSAT_SVM)
iiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiihhhhhhhhhhhhhhhhoooooooooooooooooooooooooooooooooooooo
TM Helix, Signal Peptide (Phobius)
oooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooo
Signal Peptide (SignalP HMM Mode)
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Signal Peptide (SignalP NN Mode)
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Coiled Coils (COILS)
MLELRLVQGSLLKKVLEAIKELVNDANFDCSATGFSLQAMDSSHVALVALLLRSEGFEHYRCDRNISMGMNLNNVSKMLKCAGNDDIITLKADDGSDTVTFMFESPTQDKIADFEMKLMDIDSEHLGIPEAEYHAIVRMPSAEFARICKDLASIGDTVVISVTKEGVKFSTRGDIGTANIVLRQNTTVDKPEEATIIEMHEPVSLTFALRYMNSFTRATPLSNTVTISLSSELPVVVEYKIAEMGYIRFYLAPKIEEDEDETKPQV
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	266	2.2.26 [Sep-21-2011]
O82797	264	Proliferating cell nuclea	N/A	no	0.992	1.0	0.950	1e-148
Q00268	264	Proliferating cell nuclea	N/A	no	0.992	1.0	0.931	1e-146
O82134	266	Proliferating cell nuclea	N/A	no	0.996	0.996	0.913	1e-145
P24314	268	Proliferating cell nuclea	N/A	no	0.981	0.973	0.931	1e-143
Q9ZW35	264	Proliferating cell nuclea	yes	no	0.992	1.0	0.901	1e-141
Q9MAY3	264	Proliferating cell nuclea	N/A	no	0.981	0.988	0.908	1e-140
Q9M7Q7	263	Proliferating cellular nu	yes	no	0.988	1.0	0.897	1e-140
Q43124	263	Proliferating cell nuclea	N/A	no	0.981	0.992	0.892	1e-139
P17070	263	Proliferating cell nuclea	yes	no	0.977	0.988	0.9	1e-139
Q43266	263	Proliferating cell nuclea	N/A	no	0.988	1.0	0.886	1e-137

>sp|O82797|PCNA_TOBAC Proliferating cell nuclear antigen OS=Nicotiana tabacum GN=PCNA PE=2 SV=1

 Score =  523 bits (1348), Expect = e-148,   Method: Compositional matrix adjust.
 Identities = 251/264 (95%), Positives = 262/264 (99%)

Query: 1   MLELRLVQGSLLKKVLEAIKELVNDANFDCSATGFSLQAMDSSHVALVALLLRSEGFEHY 60
           MLELRLVQGSLLKKVLE+IK+LVNDANFDCSATGFSLQAMDSSHVALVALLLRSEGFEHY
Sbjct: 1   MLELRLVQGSLLKKVLESIKDLVNDANFDCSATGFSLQAMDSSHVALVALLLRSEGFEHY 60

Query: 61  RCDRNISMGMNLNNVSKMLKCAGNDDIITLKADDGSDTVTFMFESPTQDKIADFEMKLMD 120
           RCDRNISMGMNL N++KMLKCAGNDDIITLKADDGSDTVTFMFESPTQDKIADFEMKLMD
Sbjct: 61  RCDRNISMGMNLANMAKMLKCAGNDDIITLKADDGSDTVTFMFESPTQDKIADFEMKLMD 120

Query: 121 IDSEHLGIPEAEYHAIVRMPSAEFARICKDLASIGDTVVISVTKEGVKFSTRGDIGTANI 180
           IDSEHLGIPEAEYHAIVRMPSAEF+RICKDL+SIGDTVVISVTKEGVKFSTRGDIGTANI
Sbjct: 121 IDSEHLGIPEAEYHAIVRMPSAEFSRICKDLSSIGDTVVISVTKEGVKFSTRGDIGTANI 180

Query: 181 VLRQNTTVDKPEEATIIEMHEPVSLTFALRYMNSFTRATPLSNTVTISLSSELPVVVEYK 240
           V RQNTTVDKPEEAT+IEM+EPVSLTFALRY+NSFT+ATPLSNTVTISLSSELPVVVEYK
Sbjct: 181 VCRQNTTVDKPEEATVIEMNEPVSLTFALRYLNSFTKATPLSNTVTISLSSELPVVVEYK 240

Query: 241 IAEMGYIRFYLAPKIEEDEDETKP 264
           IAEMGYIRFYLAPKIEEDE+ETKP
Sbjct: 241 IAEMGYIRFYLAPKIEEDEEETKP 264

This protein is an auxiliary protein of DNA polymerase delta and is involved in the control of eukaryotic DNA replication by increasing the polymerase's processibility during elongation of the leading strand.
Nicotiana tabacum (taxid: 4097)

>sp|Q00268|PCNA1_DAUCA Proliferating cell nuclear antigen OS=Daucus carota PE=3 SV=1

 Score =  517 bits (1331), Expect = e-146,   Method: Compositional matrix adjust.
 Identities = 246/264 (93%), Positives = 262/264 (99%)

Query: 1   MLELRLVQGSLLKKVLEAIKELVNDANFDCSATGFSLQAMDSSHVALVALLLRSEGFEHY 60
           MLELRLVQGSLLKKV+++IK+LVNDANFDCSATGFSLQAMDSSHVALVA+LLRSEGFEHY
Sbjct: 1   MLELRLVQGSLLKKVMDSIKDLVNDANFDCSATGFSLQAMDSSHVALVAVLLRSEGFEHY 60

Query: 61  RCDRNISMGMNLNNVSKMLKCAGNDDIITLKADDGSDTVTFMFESPTQDKIADFEMKLMD 120
           RCDRNISMGMNL N++KMLKCAGNDDIIT+KADDGSDTVTFMFESPTQDKIADFEMKLMD
Sbjct: 61  RCDRNISMGMNLGNMAKMLKCAGNDDIITIKADDGSDTVTFMFESPTQDKIADFEMKLMD 120

Query: 121 IDSEHLGIPEAEYHAIVRMPSAEFARICKDLASIGDTVVISVTKEGVKFSTRGDIGTANI 180
           IDSEHLGIPEAEYHAIVRMPSAEFARICKDL+SIGDTVVISVTKEGVKFSTRGDIGTANI
Sbjct: 121 IDSEHLGIPEAEYHAIVRMPSAEFARICKDLSSIGDTVVISVTKEGVKFSTRGDIGTANI 180

Query: 181 VLRQNTTVDKPEEATIIEMHEPVSLTFALRYMNSFTRATPLSNTVTISLSSELPVVVEYK 240
           V RQNTTVDKPEEAT+IEM+EPVSLTFALRYMNSFT+A+PLS+TVTISLSSELPVVVEYK
Sbjct: 181 VCRQNTTVDKPEEATVIEMNEPVSLTFALRYMNSFTKASPLSSTVTISLSSELPVVVEYK 240

Query: 241 IAEMGYIRFYLAPKIEEDEDETKP 264
           IAEMGYIRFYLAPKIEE+EDE+KP
Sbjct: 241 IAEMGYIRFYLAPKIEEEEDESKP 264

This protein is an auxiliary protein of DNA polymerase delta and is involved in the control of eukaryotic DNA replication by increasing the polymerase's processibility during elongation of the leading strand.

Daucus carota (taxid: 4039)

>sp|O82134|PCNA_PEA Proliferating cell nuclear antigen OS=Pisum sativum GN=PCNA PE=2 SV=1

 Score =  515 bits (1326), Expect = e-145,   Method: Compositional matrix adjust.
 Identities = 242/265 (91%), Positives = 263/265 (99%)

Query: 1   MLELRLVQGSLLKKVLEAIKELVNDANFDCSATGFSLQAMDSSHVALVALLLRSEGFEHY 60
           MLELRLVQGSLLKKVLE+IKELVNDANFDCS+TGFSLQAMDSSHVALVALLLRSEGFEHY
Sbjct: 1   MLELRLVQGSLLKKVLESIKELVNDANFDCSSTGFSLQAMDSSHVALVALLLRSEGFEHY 60

Query: 61  RCDRNISMGMNLNNVSKMLKCAGNDDIITLKADDGSDTVTFMFESPTQDKIADFEMKLMD 120
           RCDRN+SMGMNLNN++KMLKCAGNDDIIT+KADDGSDTVTFMFESPTQDKI+DFEMKLMD
Sbjct: 61  RCDRNLSMGMNLNNMAKMLKCAGNDDIITIKADDGSDTVTFMFESPTQDKISDFEMKLMD 120

Query: 121 IDSEHLGIPEAEYHAIVRMPSAEFARICKDLASIGDTVVISVTKEGVKFSTRGDIGTANI 180
           IDSEHLGIPEAEYHAIVRMPSAEFARICKDL+SIGDTVVI+V+KEGVKFST+GDIG+ANI
Sbjct: 121 IDSEHLGIPEAEYHAIVRMPSAEFARICKDLSSIGDTVVIAVSKEGVKFSTKGDIGSANI 180

Query: 181 VLRQNTTVDKPEEATIIEMHEPVSLTFALRYMNSFTRATPLSNTVTISLSSELPVVVEYK 240
           V RQNTTVDKPEEAT+IEM+EPV+L FALRYMNSFT+ATPLS++VTISLS+ELPVVVEYK
Sbjct: 181 VCRQNTTVDKPEEATVIEMNEPVALQFALRYMNSFTKATPLSSSVTISLSNELPVVVEYK 240

Query: 241 IAEMGYIRFYLAPKIEEDEDETKPQ 265
           IAEMGY+RFYLAPKIEEDE+ETKPQ
Sbjct: 241 IAEMGYVRFYLAPKIEEDEEETKPQ 265

This protein is an auxiliary protein of DNA polymerase delta and is involved in the control of eukaryotic DNA replication by increasing the polymerase's processibility during elongation of the leading strand.

Pisum sativum (taxid: 3888)

>sp|P24314|PCNA_CATRO Proliferating cell nuclear antigen OS=Catharanthus roseus PE=2 SV=1

 Score =  508 bits (1307), Expect = e-143,   Method: Compositional matrix adjust.
 Identities = 243/261 (93%), Positives = 257/261 (98%)

Query: 1   MLELRLVQGSLLKKVLEAIKELVNDANFDCSATGFSLQAMDSSHVALVALLLRSEGFEHY 60
           MLELRLVQGSLLKKVLE++K+LV DANFDCSA+GFSLQAMDSSHVALVALLLRSEGFEHY
Sbjct: 1   MLELRLVQGSLLKKVLESLKDLVTDANFDCSASGFSLQAMDSSHVALVALLLRSEGFEHY 60

Query: 61  RCDRNISMGMNLNNVSKMLKCAGNDDIITLKADDGSDTVTFMFESPTQDKIADFEMKLMD 120
           RCDRN SMGMNLNN++KMLKCAGNDDIITLKADDGSDTVTFMFESPTQDKI+DFEMKLMD
Sbjct: 61  RCDRNPSMGMNLNNMAKMLKCAGNDDIITLKADDGSDTVTFMFESPTQDKISDFEMKLMD 120

Query: 121 IDSEHLGIPEAEYHAIVRMPSAEFARICKDLASIGDTVVISVTKEGVKFSTRGDIGTANI 180
           IDSEHLGIPEAEYHAIVRMPSAEFARICKDL+SIGDTVVISVTKEGVKFSTRGDIGTANI
Sbjct: 121 IDSEHLGIPEAEYHAIVRMPSAEFARICKDLSSIGDTVVISVTKEGVKFSTRGDIGTANI 180

Query: 181 VLRQNTTVDKPEEATIIEMHEPVSLTFALRYMNSFTRATPLSNTVTISLSSELPVVVEYK 240
           V RQNTTVDKP+EATIIEM+EPVSLTFALRY+NSFT+ATPLSN VTISLSSELPVVVEYK
Sbjct: 181 VCRQNTTVDKPDEATIIEMNEPVSLTFALRYLNSFTKATPLSNNVTISLSSELPVVVEYK 240

Query: 241 IAEMGYIRFYLAPKIEEDEDE 261
           IAEMGYIRFYLAPKIEED++E
Sbjct: 241 IAEMGYIRFYLAPKIEEDDEE 261

This protein is an auxiliary protein of DNA polymerase delta and is involved in the control of eukaryotic DNA replication by increasing the polymerase's processibility during elongation of the leading strand.

Catharanthus roseus (taxid: 4058)

>sp|Q9ZW35|PCNA2_ARATH Proliferating cell nuclear antigen 2 OS=Arabidopsis thaliana GN=At2g29570 PE=1 SV=1

 Score =  501 bits (1291), Expect = e-141,   Method: Compositional matrix adjust.
 Identities = 239/265 (90%), Positives = 258/265 (97%), Gaps = 1/265 (0%)

Query: 1   MLELRLVQGSLLKKVLEAIKELVNDANFDCSATGFSLQAMDSSHVALVALLLRSEGFEHY 60
           MLELRLVQGSLLKKVLEA+K+LVNDANFDCS TGFSLQAMDSSHVALV+LLLRSEGFEHY
Sbjct: 1   MLELRLVQGSLLKKVLEAVKDLVNDANFDCSTTGFSLQAMDSSHVALVSLLLRSEGFEHY 60

Query: 61  RCDRNISMGMNLNNVSKMLKCAGNDDIITLKADDGSDTVTFMFESPTQDKIADFEMKLMD 120
           RCDRN+SMGMNL N+SKMLKCAGNDDIIT+KADDGSDTVTFMFESPTQDKIADFEMKLMD
Sbjct: 61  RCDRNLSMGMNLGNMSKMLKCAGNDDIITIKADDGSDTVTFMFESPTQDKIADFEMKLMD 120

Query: 121 IDSEHLGIPEAEYHAIVRMPSAEFARICKDLASIGDTVVISVTKEGVKFSTRGDIGTANI 180
           IDSEHLGIP+AEYH+IVRMPS EF+RICKDL+SIGDTVVISVTKEGVKFST GDIGTANI
Sbjct: 121 IDSEHLGIPDAEYHSIVRMPSGEFSRICKDLSSIGDTVVISVTKEGVKFSTAGDIGTANI 180

Query: 181 VLRQNTTVDKPEEATIIEMHEPVSLTFALRYMNSFTRATPLSNTVTISLSSELPVVVEYK 240
           VLRQNTTVDKPE+A +IEM+EPVSL+FALRYMNSFT+ATPLS TVTISLSSELPVVVEYK
Sbjct: 181 VLRQNTTVDKPEDAIVIEMNEPVSLSFALRYMNSFTKATPLSETVTISLSSELPVVVEYK 240

Query: 241 IAEMGYIRFYLAPKIEEDEDETKPQ 265
           +AEMGYIR+YLAPKIEE+ED TKP+
Sbjct: 241 VAEMGYIRYYLAPKIEEEED-TKPE 264

This protein is an auxiliary protein of DNA polymerase delta and is involved in the control of eukaryotic DNA replication by increasing the polymerase's processibility during elongation of the leading strand.

Arabidopsis thaliana (taxid: 3702)

>sp|Q9MAY3|PCNA_POPNI Proliferating cell nuclear antigen OS=Populus nigra GN=PCNA PE=2 SV=1

 Score =  498 bits (1283), Expect = e-140,   Method: Compositional matrix adjust.
 Identities = 237/261 (90%), Positives = 255/261 (97%)

Query: 1   MLELRLVQGSLLKKVLEAIKELVNDANFDCSATGFSLQAMDSSHVALVALLLRSEGFEHY 60
           MLELRLVQGSLLKKVLE+IK+LVNDANFD S++GFSLQ+MDSSHVALVALLL+SEGFEHY
Sbjct: 1   MLELRLVQGSLLKKVLESIKDLVNDANFDFSSSGFSLQSMDSSHVALVALLLKSEGFEHY 60

Query: 61  RCDRNISMGMNLNNVSKMLKCAGNDDIITLKADDGSDTVTFMFESPTQDKIADFEMKLMD 120
           RCDRN SMGMNL N+SKMLKCAGNDDIIT+K DDGSDTVTFMFESPTQDKIADFEMKLMD
Sbjct: 61  RCDRNTSMGMNLGNMSKMLKCAGNDDIITIKGDDGSDTVTFMFESPTQDKIADFEMKLMD 120

Query: 121 IDSEHLGIPEAEYHAIVRMPSAEFARICKDLASIGDTVVISVTKEGVKFSTRGDIGTANI 180
           IDSEHLGIPEAEYHAIV+MPSAEFARICKDLASIGDTVVISVTKEGVKFSTRGDIGTANI
Sbjct: 121 IDSEHLGIPEAEYHAIVKMPSAEFARICKDLASIGDTVVISVTKEGVKFSTRGDIGTANI 180

Query: 181 VLRQNTTVDKPEEATIIEMHEPVSLTFALRYMNSFTRATPLSNTVTISLSSELPVVVEYK 240
           VLRQNTTVDKPE+AT+IEM+EPVS+TFALRYMNSFT+ATPLSNTVTIS+S +LPVVVEYK
Sbjct: 181 VLRQNTTVDKPEDATVIEMNEPVSMTFALRYMNSFTKATPLSNTVTISMSPDLPVVVEYK 240

Query: 241 IAEMGYIRFYLAPKIEEDEDE 261
           IAEMGY+RFYLAPK+EEDE E
Sbjct: 241 IAEMGYVRFYLAPKMEEDEPE 261

This protein is an auxiliary protein of DNA polymerase delta and is involved in the control of eukaryotic DNA replication by increasing the polymerase's processibility during elongation of the leading strand.

Populus nigra (taxid: 3691)

>sp|Q9M7Q7|PCNA1_ARATH Proliferating cellular nuclear antigen 1 OS=Arabidopsis thaliana GN=PCNA PE=1 SV=2

 Score =  497 bits (1279), Expect = e-140,   Method: Compositional matrix adjust.
 Identities = 237/264 (89%), Positives = 256/264 (96%), Gaps = 1/264 (0%)

Query: 1   MLELRLVQGSLLKKVLEAIKELVNDANFDCSATGFSLQAMDSSHVALVALLLRSEGFEHY 60
           MLELRLVQGSLLKKVLE+IK+LVNDANFDCS+TGFSLQAMDSSHVALV+LLLRSEGFEHY
Sbjct: 1   MLELRLVQGSLLKKVLESIKDLVNDANFDCSSTGFSLQAMDSSHVALVSLLLRSEGFEHY 60

Query: 61  RCDRNISMGMNLNNVSKMLKCAGNDDIITLKADDGSDTVTFMFESPTQDKIADFEMKLMD 120
           RCDRN+SMGMNL N+SKMLKCAGNDDIIT+KADDG DTVTFMFESPTQDKIADFEMKLMD
Sbjct: 61  RCDRNLSMGMNLGNMSKMLKCAGNDDIITIKADDGGDTVTFMFESPTQDKIADFEMKLMD 120

Query: 121 IDSEHLGIPEAEYHAIVRMPSAEFARICKDLASIGDTVVISVTKEGVKFSTRGDIGTANI 180
           IDSEHLGIP+AEYH+IVRMPS EF+RICKDL+SIGDTVVISVTKEGVKFST GDIGTANI
Sbjct: 121 IDSEHLGIPDAEYHSIVRMPSNEFSRICKDLSSIGDTVVISVTKEGVKFSTAGDIGTANI 180

Query: 181 VLRQNTTVDKPEEATIIEMHEPVSLTFALRYMNSFTRATPLSNTVTISLSSELPVVVEYK 240
           VLRQNTTVDKPE+A +IEM EPVSL+FALRYMNSFT+ATPLS+TVTISLSSELPVVVEYK
Sbjct: 181 VLRQNTTVDKPEDAIVIEMKEPVSLSFALRYMNSFTKATPLSDTVTISLSSELPVVVEYK 240

Query: 241 IAEMGYIRFYLAPKIEEDEDETKP 264
           +AEMGYIR+YLAPKIEE+ED T P
Sbjct: 241 VAEMGYIRYYLAPKIEEEED-TNP 263

This protein is an auxiliary protein of DNA polymerase delta and is involved in the control of eukaryotic DNA replication by increasing the polymerase's processibility during elongation of the leading strand.

Arabidopsis thaliana (taxid: 3702)

>sp|Q43124|PCNA_BRANA Proliferating cell nuclear antigen OS=Brassica napus PE=2 SV=1

 Score =  494 bits (1271), Expect = e-139,   Method: Compositional matrix adjust.
 Identities = 233/261 (89%), Positives = 254/261 (97%)

Query: 1   MLELRLVQGSLLKKVLEAIKELVNDANFDCSATGFSLQAMDSSHVALVALLLRSEGFEHY 60
           MLELRLVQGSLLKKVLE+IK+LVNDANFDCS TGFSLQAMDSSHVALV+LLLRSEGFEHY
Sbjct: 1   MLELRLVQGSLLKKVLESIKDLVNDANFDCSTTGFSLQAMDSSHVALVSLLLRSEGFEHY 60

Query: 61  RCDRNISMGMNLNNVSKMLKCAGNDDIITLKADDGSDTVTFMFESPTQDKIADFEMKLMD 120
           RCDRN+SMGMNL N+SKMLKCAGNDDIIT+KADDG DTVTFMFESP QDKIADFEMKLMD
Sbjct: 61  RCDRNLSMGMNLGNMSKMLKCAGNDDIITIKADDGGDTVTFMFESPKQDKIADFEMKLMD 120

Query: 121 IDSEHLGIPEAEYHAIVRMPSAEFARICKDLASIGDTVVISVTKEGVKFSTRGDIGTANI 180
           IDSEHLGIP+AEYH+IVRMPS EF+RICKDL++IGDTVVISVTKEGVKFST GDIGTANI
Sbjct: 121 IDSEHLGIPDAEYHSIVRMPSNEFSRICKDLSTIGDTVVISVTKEGVKFSTAGDIGTANI 180

Query: 181 VLRQNTTVDKPEEATIIEMHEPVSLTFALRYMNSFTRATPLSNTVTISLSSELPVVVEYK 240
           VLRQNTTVDKPE+A +IEM+EPVSL+FALRYMNSFT+ATPLS+TVTISLSSELPVVVEYK
Sbjct: 181 VLRQNTTVDKPEDAIVIEMNEPVSLSFALRYMNSFTKATPLSDTVTISLSSELPVVVEYK 240

Query: 241 IAEMGYIRFYLAPKIEEDEDE 261
           +AEMGYIR+YLAPKIEEDE++
Sbjct: 241 VAEMGYIRYYLAPKIEEDEED 261

This protein is an auxiliary protein of DNA polymerase delta and is involved in the control of eukaryotic DNA replication by increasing the polymerase's processibility during elongation of the leading strand.

Brassica napus (taxid: 3708)

>sp|P17070|PCNA_ORYSJ Proliferating cell nuclear antigen OS=Oryza sativa subsp. japonica GN=Os02g0805200 PE=2 SV=2

 Score =  493 bits (1269), Expect = e-139,   Method: Compositional matrix adjust.
 Identities = 234/260 (90%), Positives = 250/260 (96%)

Query: 1   MLELRLVQGSLLKKVLEAIKELVNDANFDCSATGFSLQAMDSSHVALVALLLRSEGFEHY 60
           MLELRLVQGSLLKKVLEAI+ELV DANFDCS TGFSLQAMDSSHVALVALLLRSEGFEHY
Sbjct: 1   MLELRLVQGSLLKKVLEAIRELVTDANFDCSGTGFSLQAMDSSHVALVALLLRSEGFEHY 60

Query: 61  RCDRNISMGMNLNNVSKMLKCAGNDDIITLKADDGSDTVTFMFESPTQDKIADFEMKLMD 120
           RCDRN+SMGMNLNN++KML+CAGNDDIIT+KADDGSDTVTFMFESP QDKIADFEMKLMD
Sbjct: 61  RCDRNLSMGMNLNNMAKMLRCAGNDDIITIKADDGSDTVTFMFESPNQDKIADFEMKLMD 120

Query: 121 IDSEHLGIPEAEYHAIVRMPSAEFARICKDLASIGDTVVISVTKEGVKFSTRGDIGTANI 180
           IDSEHLGIP++EY AIVRMPS+EF+RICKDL+SIGDTV+ISVTKEGVKFST GDIGTANI
Sbjct: 121 IDSEHLGIPDSEYQAIVRMPSSEFSRICKDLSSIGDTVIISVTKEGVKFSTAGDIGTANI 180

Query: 181 VLRQNTTVDKPEEATIIEMHEPVSLTFALRYMNSFTRATPLSNTVTISLSSELPVVVEYK 240
           V RQN TVDKPE+ATIIEM EPVSLTFALRYMNSFT+A+PLS  VTISLSSELPVVVEYK
Sbjct: 181 VCRQNKTVDKPEDATIIEMQEPVSLTFALRYMNSFTKASPLSEQVTISLSSELPVVVEYK 240

Query: 241 IAEMGYIRFYLAPKIEEDED 260
           IAEMGYIRFYLAPKIEEDE+
Sbjct: 241 IAEMGYIRFYLAPKIEEDEE 260

This protein is an auxiliary protein of DNA polymerase delta and is involved in the control of eukaryotic DNA replication by increasing the polymerase's processibility during elongation of the leading strand.

Oryza sativa subsp. japonica (taxid: 39947)

>sp|Q43266|PCNA_MAIZE Proliferating cell nuclear antigen OS=Zea mays GN=PCNA PE=2 SV=1

 Score =  488 bits (1257), Expect = e-137,   Method: Compositional matrix adjust.
 Identities = 234/264 (88%), Positives = 251/264 (95%), Gaps = 1/264 (0%)

Query: 1   MLELRLVQGSLLKKVLEAIKELVNDANFDCSATGFSLQAMDSSHVALVALLLRSEGFEHY 60
           MLELRLVQGSLLKKVLEAI+ELVNDANFDCS TGFSLQAMDSSHVALVALLLR+EGFEHY
Sbjct: 1   MLELRLVQGSLLKKVLEAIRELVNDANFDCSGTGFSLQAMDSSHVALVALLLRAEGFEHY 60

Query: 61  RCDRNISMGMNLNNVSKMLKCAGNDDIITLKADDGSDTVTFMFESPTQDKIADFEMKLMD 120
           RCDRN+SMGMNLNN++KML+CAGNDDIIT+KADDGSDTVTFMFESP QDKIADFEMKLMD
Sbjct: 61  RCDRNLSMGMNLNNMAKMLRCAGNDDIITIKADDGSDTVTFMFESPKQDKIADFEMKLMD 120

Query: 121 IDSEHLGIPEAEYHAIVRMPSAEFARICKDLASIGDTVVISVTKEGVKFSTRGDIGTANI 180
           IDSEHLGIP++EY AIVRMPS+EF RICKDL+SIGDTVVISVTKEGVKFST G+IG+ANI
Sbjct: 121 IDSEHLGIPDSEYQAIVRMPSSEFMRICKDLSSIGDTVVISVTKEGVKFSTSGEIGSANI 180

Query: 181 VLRQNTTVDKPEEATIIEMHEPVSLTFALRYMNSFTRATPLSNTVTISLSSELPVVVEYK 240
           V RQN T+DKPEEATIIEM EPVSLTFALRYMNSFT+A+ LS  VTISLSSELPVVVEYK
Sbjct: 181 VCRQNQTIDKPEEATIIEMQEPVSLTFALRYMNSFTKASSLSEQVTISLSSELPVVVEYK 240

Query: 241 IAEMGYIRFYLAPKIEEDEDETKP 264
           IAEMGYIRFYLAPKIE+DE E KP
Sbjct: 241 IAEMGYIRFYLAPKIEDDE-EMKP 263

This protein is an auxiliary protein of DNA polymerase delta and is involved in the control of eukaryotic DNA replication by increasing the polymerase's processibility during elongation of the leading strand.

Zea mays (taxid: 4577)

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	266
225434712	266	PREDICTED: proliferating cell nuclear an	0.996	0.996	0.962	1e-148
10946427	264	proliferating cell nuclear antigen [Nico	0.992	1.0	0.954	1e-147
255558840	266	proliferating cell nuclear antigen, puta	1.0	1.0	0.939	1e-146
6225836	264	RecName: Full=Proliferating cell nuclear	0.992	1.0	0.950	1e-146
449450778	266	PREDICTED: proliferating cell nuclear an	0.996	0.996	0.935	1e-146
359806741	266	proliferating cell nuclear antigen [Glyc	1.0	1.0	0.924	1e-146
3947727	264	proliferating cell nuclear antigen [Nico	0.992	1.0	0.946	1e-146
449496631	266	PREDICTED: LOW QUALITY PROTEIN: prolifer	0.996	0.996	0.932	1e-145
356566211	266	PREDICTED: proliferating cell nuclear an	1.0	1.0	0.921	1e-145
350538217	264	proliferating cell nuclear antigen [Sola	0.992	1.0	0.935	1e-145

>gi|225434712|ref|XP_002281090.1| PREDICTED: proliferating cell nuclear antigen [Vitis vinifera] gi|147789518|emb|CAN72062.1| hypothetical protein VITISV_031803 [Vitis vinifera]

 Score =  531 bits (1368), Expect = e-148,   Method: Compositional matrix adjust.
 Identities = 255/265 (96%), Positives = 263/265 (99%)

Query: 1   MLELRLVQGSLLKKVLEAIKELVNDANFDCSATGFSLQAMDSSHVALVALLLRSEGFEHY 60
           MLELRLVQGSLLKKVLEAIK+LVNDANFDCSATGFSLQAMDSSHVALVALLLRSEGFEHY
Sbjct: 1   MLELRLVQGSLLKKVLEAIKDLVNDANFDCSATGFSLQAMDSSHVALVALLLRSEGFEHY 60

Query: 61  RCDRNISMGMNLNNVSKMLKCAGNDDIITLKADDGSDTVTFMFESPTQDKIADFEMKLMD 120
           RCDRNISMGMNLNN+SKMLKCAGNDDIIT+KADDGSDTVTFMFESPTQDKIADFEMKLMD
Sbjct: 61  RCDRNISMGMNLNNMSKMLKCAGNDDIITIKADDGSDTVTFMFESPTQDKIADFEMKLMD 120

Query: 121 IDSEHLGIPEAEYHAIVRMPSAEFARICKDLASIGDTVVISVTKEGVKFSTRGDIGTANI 180
           IDSEHLGIPEAEYHAIVRMPS+EF RICKDL+SIGDTVVISVTKEGVKFSTRGDIGTANI
Sbjct: 121 IDSEHLGIPEAEYHAIVRMPSSEFQRICKDLSSIGDTVVISVTKEGVKFSTRGDIGTANI 180

Query: 181 VLRQNTTVDKPEEATIIEMHEPVSLTFALRYMNSFTRATPLSNTVTISLSSELPVVVEYK 240
           V RQNTTVDKPEEAT+IEM+EPVSLTFALRYMNSFT+ATPLSNTVTISLSSELPVVVEYK
Sbjct: 181 VCRQNTTVDKPEEATVIEMNEPVSLTFALRYMNSFTKATPLSNTVTISLSSELPVVVEYK 240

Query: 241 IAEMGYIRFYLAPKIEEDEDETKPQ 265
           IAEMGYIRFYLAPKIEEDEDETKPQ
Sbjct: 241 IAEMGYIRFYLAPKIEEDEDETKPQ 265

Source: Vitis vinifera

Species: Vitis vinifera

Genus: Vitis

Family: Vitaceae

Order: Vitales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|10946427|gb|AAG24908.1|AF305075_1 proliferating cell nuclear antigen [Nicotiana benthamiana]

 Score =  526 bits (1354), Expect = e-147,   Method: Compositional matrix adjust.
 Identities = 252/264 (95%), Positives = 262/264 (99%)

Query: 1   MLELRLVQGSLLKKVLEAIKELVNDANFDCSATGFSLQAMDSSHVALVALLLRSEGFEHY 60
           MLELRLVQGSLLKKVLE+IKELVNDANFDCSATGFSLQAMDSSHVALVALLLRSEGFEHY
Sbjct: 1   MLELRLVQGSLLKKVLESIKELVNDANFDCSATGFSLQAMDSSHVALVALLLRSEGFEHY 60

Query: 61  RCDRNISMGMNLNNVSKMLKCAGNDDIITLKADDGSDTVTFMFESPTQDKIADFEMKLMD 120
           RCDRNISMGMNL N++KMLKCAGNDDIITLKADDGSDTVTFMFESPTQDKIADFEMKLMD
Sbjct: 61  RCDRNISMGMNLGNMAKMLKCAGNDDIITLKADDGSDTVTFMFESPTQDKIADFEMKLMD 120

Query: 121 IDSEHLGIPEAEYHAIVRMPSAEFARICKDLASIGDTVVISVTKEGVKFSTRGDIGTANI 180
           IDSEHLGIPEAEYHAIVRMPSAEFARICKDL+SIGDTVVISVTKEGVKFSTRGDIGTAN+
Sbjct: 121 IDSEHLGIPEAEYHAIVRMPSAEFARICKDLSSIGDTVVISVTKEGVKFSTRGDIGTANV 180

Query: 181 VLRQNTTVDKPEEATIIEMHEPVSLTFALRYMNSFTRATPLSNTVTISLSSELPVVVEYK 240
           V RQNTTVDKPEEAT+IEM+EPVSLTFALRY+NSFT+ATPLSNTVTISLSSELPVVVEYK
Sbjct: 181 VCRQNTTVDKPEEATVIEMNEPVSLTFALRYLNSFTKATPLSNTVTISLSSELPVVVEYK 240

Query: 241 IAEMGYIRFYLAPKIEEDEDETKP 264
           IAEMGYIRFYLAPKIEEDE+ETKP
Sbjct: 241 IAEMGYIRFYLAPKIEEDEEETKP 264

Source: Nicotiana benthamiana

Species: Nicotiana benthamiana

Genus: Nicotiana

Family: Solanaceae

Order: Solanales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|255558840|ref|XP_002520443.1| proliferating cell nuclear antigen, putative [Ricinus communis] gi|223540285|gb|EEF41856.1| proliferating cell nuclear antigen, putative [Ricinus communis]

 Score =  525 bits (1351), Expect = e-146,   Method: Compositional matrix adjust.
 Identities = 250/266 (93%), Positives = 265/266 (99%)

Query: 1   MLELRLVQGSLLKKVLEAIKELVNDANFDCSATGFSLQAMDSSHVALVALLLRSEGFEHY 60
           MLELRLVQGSLLKKVL++IK+LVNDANFDCS+TGFSLQAMDSSHVALVALLLRSEGFEHY
Sbjct: 1   MLELRLVQGSLLKKVLDSIKDLVNDANFDCSSTGFSLQAMDSSHVALVALLLRSEGFEHY 60

Query: 61  RCDRNISMGMNLNNVSKMLKCAGNDDIITLKADDGSDTVTFMFESPTQDKIADFEMKLMD 120
           RCDRNISMGMNLNN+SKML+C+GNDDIIT+KADDGSDTVTFMFESPTQDKI+DFEMKLMD
Sbjct: 61  RCDRNISMGMNLNNMSKMLRCSGNDDIITIKADDGSDTVTFMFESPTQDKISDFEMKLMD 120

Query: 121 IDSEHLGIPEAEYHAIVRMPSAEFARICKDLASIGDTVVISVTKEGVKFSTRGDIGTANI 180
           IDSEHLGIPEAEYHAIVRMPSAEFA+ICKDL SIGDTVVISVTKEGVKFSTRGDIGTANI
Sbjct: 121 IDSEHLGIPEAEYHAIVRMPSAEFAKICKDLGSIGDTVVISVTKEGVKFSTRGDIGTANI 180

Query: 181 VLRQNTTVDKPEEATIIEMHEPVSLTFALRYMNSFTRATPLSNTVTISLSSELPVVVEYK 240
           V+RQNTTVDKPEEATIIEM+EPVSLTFALRYMNSFT+ATPLS+TVTISLSSELPVVVEYK
Sbjct: 181 VVRQNTTVDKPEEATIIEMNEPVSLTFALRYMNSFTKATPLSSTVTISLSSELPVVVEYK 240

Query: 241 IAEMGYIRFYLAPKIEEDEDETKPQV 266
           IAEMGYIRFYLAPKIEEDEDETKP+V
Sbjct: 241 IAEMGYIRFYLAPKIEEDEDETKPEV 266

Source: Ricinus communis

Species: Ricinus communis

Genus: Ricinus

Family: Euphorbiaceae

Order: Malpighiales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|6225836|sp|O82797.1|PCNA_TOBAC RecName: Full=Proliferating cell nuclear antigen; Short=PCNA gi|3366661|gb|AAC27992.1| proliferating cell nuclear antigen [Nicotiana tabacum] gi|3514105|gb|AAC34126.1| proliferating cell nuclear antigen [Nicotiana tabacum] gi|4586306|dbj|BAA76349.1| proliferating cell nuclear antigen [Nicotiana tabacum]

 Score =  523 bits (1348), Expect = e-146,   Method: Compositional matrix adjust.
 Identities = 251/264 (95%), Positives = 262/264 (99%)

Query: 1   MLELRLVQGSLLKKVLEAIKELVNDANFDCSATGFSLQAMDSSHVALVALLLRSEGFEHY 60
           MLELRLVQGSLLKKVLE+IK+LVNDANFDCSATGFSLQAMDSSHVALVALLLRSEGFEHY
Sbjct: 1   MLELRLVQGSLLKKVLESIKDLVNDANFDCSATGFSLQAMDSSHVALVALLLRSEGFEHY 60

Query: 61  RCDRNISMGMNLNNVSKMLKCAGNDDIITLKADDGSDTVTFMFESPTQDKIADFEMKLMD 120
           RCDRNISMGMNL N++KMLKCAGNDDIITLKADDGSDTVTFMFESPTQDKIADFEMKLMD
Sbjct: 61  RCDRNISMGMNLANMAKMLKCAGNDDIITLKADDGSDTVTFMFESPTQDKIADFEMKLMD 120

Query: 121 IDSEHLGIPEAEYHAIVRMPSAEFARICKDLASIGDTVVISVTKEGVKFSTRGDIGTANI 180
           IDSEHLGIPEAEYHAIVRMPSAEF+RICKDL+SIGDTVVISVTKEGVKFSTRGDIGTANI
Sbjct: 121 IDSEHLGIPEAEYHAIVRMPSAEFSRICKDLSSIGDTVVISVTKEGVKFSTRGDIGTANI 180

Query: 181 VLRQNTTVDKPEEATIIEMHEPVSLTFALRYMNSFTRATPLSNTVTISLSSELPVVVEYK 240
           V RQNTTVDKPEEAT+IEM+EPVSLTFALRY+NSFT+ATPLSNTVTISLSSELPVVVEYK
Sbjct: 181 VCRQNTTVDKPEEATVIEMNEPVSLTFALRYLNSFTKATPLSNTVTISLSSELPVVVEYK 240

Query: 241 IAEMGYIRFYLAPKIEEDEDETKP 264
           IAEMGYIRFYLAPKIEEDE+ETKP
Sbjct: 241 IAEMGYIRFYLAPKIEEDEEETKP 264

Source: Nicotiana tabacum

Species: Nicotiana tabacum

Genus: Nicotiana

Family: Solanaceae

Order: Solanales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|449450778|ref|XP_004143139.1| PREDICTED: proliferating cell nuclear antigen-like [Cucumis sativus]

 Score =  523 bits (1347), Expect = e-146,   Method: Compositional matrix adjust.
 Identities = 248/265 (93%), Positives = 263/265 (99%)

Query: 1   MLELRLVQGSLLKKVLEAIKELVNDANFDCSATGFSLQAMDSSHVALVALLLRSEGFEHY 60
           MLELRLVQGSLLKKVLE+IK+LVNDANFDCSATGFSLQAMDSSHVALVALLLR+EGFEHY
Sbjct: 1   MLELRLVQGSLLKKVLESIKDLVNDANFDCSATGFSLQAMDSSHVALVALLLRAEGFEHY 60

Query: 61  RCDRNISMGMNLNNVSKMLKCAGNDDIITLKADDGSDTVTFMFESPTQDKIADFEMKLMD 120
           RCDRNISMGMNLNN+SKMLKCAGNDDIIT+KADDGSDTVTFMFESPTQDKI+DFEMKLMD
Sbjct: 61  RCDRNISMGMNLNNMSKMLKCAGNDDIITIKADDGSDTVTFMFESPTQDKISDFEMKLMD 120

Query: 121 IDSEHLGIPEAEYHAIVRMPSAEFARICKDLASIGDTVVISVTKEGVKFSTRGDIGTANI 180
           IDSEHLGIP+AEYHAIVRMPS EFARICKDL+SIGDTVVISVTKEGVKFSTRGDIG+ANI
Sbjct: 121 IDSEHLGIPDAEYHAIVRMPSVEFARICKDLSSIGDTVVISVTKEGVKFSTRGDIGSANI 180

Query: 181 VLRQNTTVDKPEEATIIEMHEPVSLTFALRYMNSFTRATPLSNTVTISLSSELPVVVEYK 240
           V RQNTTVDKPEEAT+IEM+EPVSLTFALRYMNSFT+ATPLSNTVTISLSS+LPVVVEYK
Sbjct: 181 VCRQNTTVDKPEEATVIEMNEPVSLTFALRYMNSFTKATPLSNTVTISLSSDLPVVVEYK 240

Query: 241 IAEMGYIRFYLAPKIEEDEDETKPQ 265
           IAEMGY+RFYLAPKIEEDED+TKPQ
Sbjct: 241 IAEMGYVRFYLAPKIEEDEDDTKPQ 265

Source: Cucumis sativus

Species: Cucumis sativus

Genus: Cucumis

Family: Cucurbitaceae

Order: Cucurbitales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|359806741|ref|NP_001241553.1| proliferating cell nuclear antigen [Glycine max] gi|255641634|gb|ACU21089.1| unknown [Glycine max]

 Score =  522 bits (1345), Expect = e-146,   Method: Compositional matrix adjust.
 Identities = 246/266 (92%), Positives = 265/266 (99%)

Query: 1   MLELRLVQGSLLKKVLEAIKELVNDANFDCSATGFSLQAMDSSHVALVALLLRSEGFEHY 60
           MLELRLVQGSLLKKVLE++KELVNDANFDCS+TGFSLQAMDSSHVALVALLLRSEGFEHY
Sbjct: 1   MLELRLVQGSLLKKVLESVKELVNDANFDCSSTGFSLQAMDSSHVALVALLLRSEGFEHY 60

Query: 61  RCDRNISMGMNLNNVSKMLKCAGNDDIITLKADDGSDTVTFMFESPTQDKIADFEMKLMD 120
           RCDRNISMGMNLNN++KMLKCAGNDDIIT+KADDGSDTVTFMFESPTQDKI+DFEMKLMD
Sbjct: 61  RCDRNISMGMNLNNMAKMLKCAGNDDIITIKADDGSDTVTFMFESPTQDKISDFEMKLMD 120

Query: 121 IDSEHLGIPEAEYHAIVRMPSAEFARICKDLASIGDTVVISVTKEGVKFSTRGDIGTANI 180
           IDSEHLGIPEAEYHAIV+MPS+EFARICKDL+SIGDTVVISVTKEGVKFST+GDIGTANI
Sbjct: 121 IDSEHLGIPEAEYHAIVKMPSSEFARICKDLSSIGDTVVISVTKEGVKFSTKGDIGTANI 180

Query: 181 VLRQNTTVDKPEEATIIEMHEPVSLTFALRYMNSFTRATPLSNTVTISLSSELPVVVEYK 240
           V RQNT+VDKPEEAT+IEM+EPVSLTFALRYMNSFT+ATPLSNTVTISLS+ELPVVVEYK
Sbjct: 181 VCRQNTSVDKPEEATVIEMNEPVSLTFALRYMNSFTKATPLSNTVTISLSNELPVVVEYK 240

Query: 241 IAEMGYIRFYLAPKIEEDEDETKPQV 266
           IAEMGY+RFYLAPKIEEDE++TKPQV
Sbjct: 241 IAEMGYVRFYLAPKIEEDEEDTKPQV 266

Source: Glycine max

Species: Glycine max

Genus: Glycine

Family: Fabaceae

Order: Fabales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|3947727|emb|CAA10108.1| proliferating cell nuclear antigen [Nicotiana tabacum]

 Score =  522 bits (1344), Expect = e-146,   Method: Compositional matrix adjust.
 Identities = 250/264 (94%), Positives = 261/264 (98%)

Query: 1   MLELRLVQGSLLKKVLEAIKELVNDANFDCSATGFSLQAMDSSHVALVALLLRSEGFEHY 60
           MLELRLVQGSLLKKVLE+IK+LVNDANFDCSATGFSLQAMDSSHVALVALLLRSEGFEHY
Sbjct: 1   MLELRLVQGSLLKKVLESIKDLVNDANFDCSATGFSLQAMDSSHVALVALLLRSEGFEHY 60

Query: 61  RCDRNISMGMNLNNVSKMLKCAGNDDIITLKADDGSDTVTFMFESPTQDKIADFEMKLMD 120
           RCDRNISMGMNL N++KMLKCAGNDDIITLKADDGSDTVTFMFESPTQDKIADFEMKLMD
Sbjct: 61  RCDRNISMGMNLGNMAKMLKCAGNDDIITLKADDGSDTVTFMFESPTQDKIADFEMKLMD 120

Query: 121 IDSEHLGIPEAEYHAIVRMPSAEFARICKDLASIGDTVVISVTKEGVKFSTRGDIGTANI 180
           IDSEHLGIPEAEYHAIVRMPSAEFARICKDL+SIGD VVISVTKEGVKFSTRGDIGTAN+
Sbjct: 121 IDSEHLGIPEAEYHAIVRMPSAEFARICKDLSSIGDQVVISVTKEGVKFSTRGDIGTANV 180

Query: 181 VLRQNTTVDKPEEATIIEMHEPVSLTFALRYMNSFTRATPLSNTVTISLSSELPVVVEYK 240
           V RQNTTVDKPEEAT+IEM+EPVSLTFALRY+NSFT+ATPLSNTVTISLSSELPVVVEYK
Sbjct: 181 VCRQNTTVDKPEEATVIEMNEPVSLTFALRYLNSFTKATPLSNTVTISLSSELPVVVEYK 240

Query: 241 IAEMGYIRFYLAPKIEEDEDETKP 264
           IAEMGYIRFYLAPKIEEDE+ETKP
Sbjct: 241 IAEMGYIRFYLAPKIEEDEEETKP 264

Source: Nicotiana tabacum

Species: Nicotiana tabacum

Genus: Nicotiana

Family: Solanaceae

Order: Solanales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|449496631|ref|XP_004160184.1| PREDICTED: LOW QUALITY PROTEIN: proliferating cell nuclear antigen-like [Cucumis sativus]

 Score =  521 bits (1341), Expect = e-145,   Method: Compositional matrix adjust.
 Identities = 247/265 (93%), Positives = 262/265 (98%)

Query: 1   MLELRLVQGSLLKKVLEAIKELVNDANFDCSATGFSLQAMDSSHVALVALLLRSEGFEHY 60
           MLELRLVQGSLLKKVLE+IK+LVNDANFDCSATGFSLQAMDSSHVALVALLLR+EGFEHY
Sbjct: 1   MLELRLVQGSLLKKVLESIKDLVNDANFDCSATGFSLQAMDSSHVALVALLLRAEGFEHY 60

Query: 61  RCDRNISMGMNLNNVSKMLKCAGNDDIITLKADDGSDTVTFMFESPTQDKIADFEMKLMD 120
           RCDRNISMGMNLNN+SKMLKCAGNDDIIT+KADDGSDTVTFMFESPTQDKI+DFEMKLMD
Sbjct: 61  RCDRNISMGMNLNNMSKMLKCAGNDDIITIKADDGSDTVTFMFESPTQDKISDFEMKLMD 120

Query: 121 IDSEHLGIPEAEYHAIVRMPSAEFARICKDLASIGDTVVISVTKEGVKFSTRGDIGTANI 180
           IDSEHLGIP+AEYHAIVRMPS EFARICKDL+SIGDTVVISVTKEGVKFSTRGDIG+ANI
Sbjct: 121 IDSEHLGIPDAEYHAIVRMPSVEFARICKDLSSIGDTVVISVTKEGVKFSTRGDIGSANI 180

Query: 181 VLRQNTTVDKPEEATIIEMHEPVSLTFALRYMNSFTRATPLSNTVTISLSSELPVVVEYK 240
           V RQNTTVDKPEEAT+IEM+EPVSLTFALRYMNSFT+ATPLSNTVTISLSS+LPVVVEYK
Sbjct: 181 VCRQNTTVDKPEEATVIEMNEPVSLTFALRYMNSFTKATPLSNTVTISLSSDLPVVVEYK 240

Query: 241 IAEMGYIRFYLAPKIEEDEDETKPQ 265
            AEMGY+RFYLAPKIEEDED+TKPQ
Sbjct: 241 XAEMGYVRFYLAPKIEEDEDDTKPQ 265

Source: Cucumis sativus

Species: Cucumis sativus

Genus: Cucumis

Family: Cucurbitaceae

Order: Cucurbitales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|356566211|ref|XP_003551328.1| PREDICTED: proliferating cell nuclear antigen-like [Glycine max]

 Score =  520 bits (1339), Expect = e-145,   Method: Compositional matrix adjust.
 Identities = 245/266 (92%), Positives = 264/266 (99%)

Query: 1   MLELRLVQGSLLKKVLEAIKELVNDANFDCSATGFSLQAMDSSHVALVALLLRSEGFEHY 60
           MLELRLVQGSLLKKVLE+IKELVNDANFDCS+TGFSLQAMDSSHVALVALLLRSEGFEHY
Sbjct: 1   MLELRLVQGSLLKKVLESIKELVNDANFDCSSTGFSLQAMDSSHVALVALLLRSEGFEHY 60

Query: 61  RCDRNISMGMNLNNVSKMLKCAGNDDIITLKADDGSDTVTFMFESPTQDKIADFEMKLMD 120
           RCDRN SMGMNLNN++KMLKCAGNDDIIT+KADDGSDTVTFMFESPTQDKI+DFEMKLMD
Sbjct: 61  RCDRNTSMGMNLNNMAKMLKCAGNDDIITIKADDGSDTVTFMFESPTQDKISDFEMKLMD 120

Query: 121 IDSEHLGIPEAEYHAIVRMPSAEFARICKDLASIGDTVVISVTKEGVKFSTRGDIGTANI 180
           IDSEHLGIPEAEYHAIV+MPS+EFARICKDL+SIGDTVVIS+TKEGVKFST+GDIGTANI
Sbjct: 121 IDSEHLGIPEAEYHAIVKMPSSEFARICKDLSSIGDTVVISITKEGVKFSTKGDIGTANI 180

Query: 181 VLRQNTTVDKPEEATIIEMHEPVSLTFALRYMNSFTRATPLSNTVTISLSSELPVVVEYK 240
           V RQNT+VDKPEEAT+IEM+EPVSLTFALRYMNSFT+ATPLSNTVTISLS+ELPVVVEYK
Sbjct: 181 VCRQNTSVDKPEEATVIEMNEPVSLTFALRYMNSFTKATPLSNTVTISLSNELPVVVEYK 240

Query: 241 IAEMGYIRFYLAPKIEEDEDETKPQV 266
           IAEMGY+RFYLAPKIEEDE++TKPQV
Sbjct: 241 IAEMGYVRFYLAPKIEEDEEDTKPQV 266

Source: Glycine max

Species: Glycine max

Genus: Glycine

Family: Fabaceae

Order: Fabales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|350538217|ref|NP_001234844.1| proliferating cell nuclear antigen [Solanum lycopersicum] gi|25005275|emb|CAD56690.1| proliferating cell nuclear antigen [Solanum lycopersicum]

 Score =  519 bits (1337), Expect = e-145,   Method: Compositional matrix adjust.
 Identities = 247/264 (93%), Positives = 261/264 (98%)

Query: 1   MLELRLVQGSLLKKVLEAIKELVNDANFDCSATGFSLQAMDSSHVALVALLLRSEGFEHY 60
           MLELRLVQGSLLKKVLE+IK+LVNDANFDCSATGFSLQAMDSSHVALVALLLRSEGFEHY
Sbjct: 1   MLELRLVQGSLLKKVLESIKDLVNDANFDCSATGFSLQAMDSSHVALVALLLRSEGFEHY 60

Query: 61  RCDRNISMGMNLNNVSKMLKCAGNDDIITLKADDGSDTVTFMFESPTQDKIADFEMKLMD 120
           RCDRNISMGMNL N++KMLKCAGNDDIIT+KADDGSDTVTFMFESPTQDKIADFEMKLMD
Sbjct: 61  RCDRNISMGMNLTNMAKMLKCAGNDDIITIKADDGSDTVTFMFESPTQDKIADFEMKLMD 120

Query: 121 IDSEHLGIPEAEYHAIVRMPSAEFARICKDLASIGDTVVISVTKEGVKFSTRGDIGTANI 180
           IDSEHLGIPEAEYHAIVRMPSAEF RICKDL+SIGDTVVISVTKEGVKFSTRGDIGTANI
Sbjct: 121 IDSEHLGIPEAEYHAIVRMPSAEFGRICKDLSSIGDTVVISVTKEGVKFSTRGDIGTANI 180

Query: 181 VLRQNTTVDKPEEATIIEMHEPVSLTFALRYMNSFTRATPLSNTVTISLSSELPVVVEYK 240
           V RQNTTVDKPEEAT+IEM+EPVSLTFALRY+NSFT+A+PLSNTVTISLSSELPVVVEYK
Sbjct: 181 VCRQNTTVDKPEEATVIEMNEPVSLTFALRYLNSFTKASPLSNTVTISLSSELPVVVEYK 240

Query: 241 IAEMGYIRFYLAPKIEEDEDETKP 264
           IAEMGY+R+YLAPKIEEDE+ETKP
Sbjct: 241 IAEMGYVRYYLAPKIEEDEEETKP 264

Source: Solanum lycopersicum

Species: Solanum lycopersicum

Genus: Solanum

Family: Solanaceae

Order: Solanales

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	266
TAIR|locus:2043062	264	PCNA2 "proliferating cell nucl	0.992	1.0	0.901	1.3e-125
TAIR|locus:2025062	263	PCNA1 "proliferating cellular	0.988	1.0	0.897	4.9e-124
UNIPROTKB|P12004	261	PCNA "Proliferating cell nucle	0.973	0.992	0.648	3.9e-92
UNIPROTKB|P61258	261	PCNA "Proliferating cell nucle	0.973	0.992	0.648	3.9e-92
UNIPROTKB|Q3ZBW4	261	PCNA "Proliferating cell nucle	0.973	0.992	0.648	8.1e-92
UNIPROTKB|E2R0D6	261	PCNA "Uncharacterized protein"	0.973	0.992	0.648	8.1e-92
UNIPROTKB|I3L813	261	PCNA "Proliferating cell nucle	0.973	0.992	0.648	8.1e-92
UNIPROTKB|F1NLS0	263	PCNA "Proliferating cell nucle	0.977	0.988	0.646	1.7e-91
UNIPROTKB|Q9DEA3	262	PCNA "Proliferating cell nucle	0.977	0.992	0.646	1.7e-91
RGD|3269	261	Pcna "proliferating cell nucle	0.973	0.992	0.644	2.7e-91

TAIR|locus:2043062 PCNA2 "proliferating cell nuclear antigen 2" [Arabidopsis thaliana (taxid:3702)]

 Score = 1234 (439.4 bits), Expect = 1.3e-125, P = 1.3e-125
 Identities = 239/265 (90%), Positives = 258/265 (97%)

Query:     1 MLELRLVQGSLLKKVLEAIKELVNDANFDCSATGFSLQAMDSSHVALVALLLRSEGFEHY 60
             MLELRLVQGSLLKKVLEA+K+LVNDANFDCS TGFSLQAMDSSHVALV+LLLRSEGFEHY
Sbjct:     1 MLELRLVQGSLLKKVLEAVKDLVNDANFDCSTTGFSLQAMDSSHVALVSLLLRSEGFEHY 60

Query:    61 RCDRNISMGMNLNNVSKMLKCAGNDDIITLKADDGSDTVTFMFESPTQDKIADFEMKLMD 120
             RCDRN+SMGMNL N+SKMLKCAGNDDIIT+KADDGSDTVTFMFESPTQDKIADFEMKLMD
Sbjct:    61 RCDRNLSMGMNLGNMSKMLKCAGNDDIITIKADDGSDTVTFMFESPTQDKIADFEMKLMD 120

Query:   121 IDSEHLGIPEAEYHAIVRMPSAEFARICKDLASIGDTVVISVTKEGVKFSTRGDIGTANI 180
             IDSEHLGIP+AEYH+IVRMPS EF+RICKDL+SIGDTVVISVTKEGVKFST GDIGTANI
Sbjct:   121 IDSEHLGIPDAEYHSIVRMPSGEFSRICKDLSSIGDTVVISVTKEGVKFSTAGDIGTANI 180

Query:   181 VLRQNTTVDKPEEATIIEMHEPVSLTFALRYMNSFTRATPLSNTVTISLSSELPVVVEYK 240
             VLRQNTTVDKPE+A +IEM+EPVSL+FALRYMNSFT+ATPLS TVTISLSSELPVVVEYK
Sbjct:   181 VLRQNTTVDKPEDAIVIEMNEPVSLSFALRYMNSFTKATPLSETVTISLSSELPVVVEYK 240

Query:   241 IAEMGYIRFYLAPKIEEDEDETKPQ 265
             +AEMGYIR+YLAPKIEE+ED TKP+
Sbjct:   241 VAEMGYIRYYLAPKIEEEED-TKPE 264

GO:0003677 "DNA binding" evidence=IEA;ISS

GO:0005634 "nucleus" evidence=ISM;ISS

GO:0006275 "regulation of DNA replication" evidence=IEA;ISS

GO:0030337 "DNA polymerase processivity factor activity" evidence=IEA;ISS

GO:0043626 "PCNA complex" evidence=IEA

GO:0005515 "protein binding" evidence=IPI

GO:0042276 "error-prone translesion synthesis" evidence=IDA

GO:0005829 "cytosol" evidence=RCA

GO:0006260 "DNA replication" evidence=RCA

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

GO:0006306 "DNA methylation" evidence=RCA

GO:0008283 "cell proliferation" evidence=RCA

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

TAIR|locus:2025062 PCNA1 "proliferating cellular nuclear antigen 1" [Arabidopsis thaliana (taxid:3702)]

 Score = 1219 (434.2 bits), Expect = 4.9e-124, P = 4.9e-124
 Identities = 237/264 (89%), Positives = 256/264 (96%)

Query:     1 MLELRLVQGSLLKKVLEAIKELVNDANFDCSATGFSLQAMDSSHVALVALLLRSEGFEHY 60
             MLELRLVQGSLLKKVLE+IK+LVNDANFDCS+TGFSLQAMDSSHVALV+LLLRSEGFEHY
Sbjct:     1 MLELRLVQGSLLKKVLESIKDLVNDANFDCSSTGFSLQAMDSSHVALVSLLLRSEGFEHY 60

Query:    61 RCDRNISMGMNLNNVSKMLKCAGNDDIITLKADDGSDTVTFMFESPTQDKIADFEMKLMD 120
             RCDRN+SMGMNL N+SKMLKCAGNDDIIT+KADDG DTVTFMFESPTQDKIADFEMKLMD
Sbjct:    61 RCDRNLSMGMNLGNMSKMLKCAGNDDIITIKADDGGDTVTFMFESPTQDKIADFEMKLMD 120

Query:   121 IDSEHLGIPEAEYHAIVRMPSAEFARICKDLASIGDTVVISVTKEGVKFSTRGDIGTANI 180
             IDSEHLGIP+AEYH+IVRMPS EF+RICKDL+SIGDTVVISVTKEGVKFST GDIGTANI
Sbjct:   121 IDSEHLGIPDAEYHSIVRMPSNEFSRICKDLSSIGDTVVISVTKEGVKFSTAGDIGTANI 180

Query:   181 VLRQNTTVDKPEEATIIEMHEPVSLTFALRYMNSFTRATPLSNTVTISLSSELPVVVEYK 240
             VLRQNTTVDKPE+A +IEM EPVSL+FALRYMNSFT+ATPLS+TVTISLSSELPVVVEYK
Sbjct:   181 VLRQNTTVDKPEDAIVIEMKEPVSLSFALRYMNSFTKATPLSDTVTISLSSELPVVVEYK 240

Query:   241 IAEMGYIRFYLAPKIEEDEDETKP 264
             +AEMGYIR+YLAPKIEE+ED T P
Sbjct:   241 VAEMGYIRYYLAPKIEEEED-TNP 263

GO:0003677 "DNA binding" evidence=IEA;ISS

GO:0005634 "nucleus" evidence=ISM;ISS;IDA

GO:0006275 "regulation of DNA replication" evidence=IEA;ISS

GO:0030337 "DNA polymerase processivity factor activity" evidence=IEA;ISS

GO:0043626 "PCNA complex" evidence=IEA

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

GO:0005730 "nucleolus" evidence=IDA

GO:0005737 "cytoplasm" evidence=IDA

GO:0005515 "protein binding" evidence=IPI

GO:0005829 "cytosol" evidence=RCA

GO:0006260 "DNA replication" evidence=RCA

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

GO:0006306 "DNA methylation" evidence=RCA

GO:0008283 "cell proliferation" evidence=RCA

GO:0009165 "nucleotide biosynthetic process" evidence=RCA

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

UNIPROTKB|P12004 PCNA "Proliferating cell nuclear antigen" [Homo sapiens (taxid:9606)]

 Score = 918 (328.2 bits), Expect = 3.9e-92, P = 3.9e-92
 Identities = 168/259 (64%), Positives = 223/259 (86%)

Query:     1 MLELRLVQGSLLKKVLEAIKELVNDANFDCSATGFSLQAMDSSHVALVALLLRSEGFEHY 60
             M E RLVQGS+LKKVLEA+K+L+N+A +D S++G +LQ+MDSSHV+LV L LRSEGF+ Y
Sbjct:     1 MFEARLVQGSILKKVLEALKDLINEACWDISSSGVNLQSMDSSHVSLVQLTLRSEGFDTY 60

Query:    61 RCDRNISMGMNLNNVSKMLKCAGNDDIITLKADDGSDTVTFMFESPTQDKIADFEMKLMD 120
             RCDRN++MG+NL ++SK+LKCAGN+DIITL+A+D +DT+  +FE+P Q+K++D+EMKLMD
Sbjct:    61 RCDRNLAMGVNLTSMSKILKCAGNEDIITLRAEDNADTLALVFEAPNQEKVSDYEMKLMD 120

Query:   121 IDSEHLGIPEAEYHAIVRMPSAEFARICKDLASIGDTVVISVTKEGVKFSTRGDIGTANI 180
             +D E LGIPE EY  +V+MPS EFARIC+DL+ IGD VVIS  K+GVKFS  G++G  NI
Sbjct:   121 LDVEQLGIPEQEYSCVVKMPSGEFARICRDLSHIGDAVVISCAKDGVKFSASGELGNGNI 180

Query:   181 VLRQNTTVDKPEEATIIEMHEPVSLTFALRYMNSFTRATPLSNTVTISLSSELPVVVEYK 240
              L Q + VDK EEA  IEM+EPV LTFALRY+N FT+ATPLS+TVT+S+S+++P+VVEYK
Sbjct:   181 KLSQTSNVDKEEEAVTIEMNEPVQLTFALRYLNFFTKATPLSSTVTLSMSADVPLVVEYK 240

Query:   241 IAEMGYIRFYLAPKIEEDE 259
             IA+MG++++YLAPKIE++E
Sbjct:   241 IADMGHLKYYLAPKIEDEE 259

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

GO:0030337 "DNA polymerase processivity factor activity" evidence=IEA

GO:0043626 "PCNA complex" evidence=IEA

GO:0007507 "heart development" evidence=IEA

GO:0033993 "response to lipid" evidence=IEA

GO:0046686 "response to cadmium ion" evidence=IEA

GO:0005663 "DNA replication factor C complex" evidence=TAS

GO:0048015 "phosphatidylinositol-mediated signaling" evidence=NAS

GO:0006281 "DNA repair" evidence=NAS;TAS

GO:0006260 "DNA replication" evidence=NAS

GO:0005515 "protein binding" evidence=IPI

GO:0032077 "positive regulation of deoxyribonuclease activity" evidence=IDA

GO:0019985 "translesion synthesis" evidence=IDA

GO:0070557 "PCNA-p21 complex" evidence=IDA

GO:0030971 "receptor tyrosine kinase binding" evidence=IPI

GO:0005634 "nucleus" evidence=IDA

GO:0008283 "cell proliferation" evidence=TAS

GO:0032405 "MutLalpha complex binding" evidence=IDA

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

GO:0000083 "regulation of transcription involved in G1/S phase of mitotic cell cycle" evidence=TAS

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

GO:0000278 "mitotic cell cycle" evidence=TAS

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

GO:0000723 "telomere maintenance" evidence=TAS

GO:0005654 "nucleoplasm" evidence=TAS

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

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

GO:0006284 "base-excision repair" evidence=TAS

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

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

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

GO:0042802 "identical protein binding" evidence=IPI

GO:0032139 "dinucleotide insertion or deletion binding" evidence=IDA

GO:0000701 "purine-specific mismatch base pair DNA N-glycosylase activity" evidence=IDA

GO:0006298 "mismatch repair" evidence=IDA

GO:0043596 "nuclear replication fork" evidence=IDA

GO:0005730 "nucleolus" evidence=IDA

GO:0005737 "cytoplasm" evidence=IDA

GO:0015630 "microtubule cytoskeleton" evidence=IDA

UNIPROTKB|P61258 PCNA "Proliferating cell nuclear antigen" [Macaca fascicularis (taxid:9541)]

 Score = 918 (328.2 bits), Expect = 3.9e-92, P = 3.9e-92
 Identities = 168/259 (64%), Positives = 223/259 (86%)

Query:     1 MLELRLVQGSLLKKVLEAIKELVNDANFDCSATGFSLQAMDSSHVALVALLLRSEGFEHY 60
             M E RLVQGS+LKKVLEA+K+L+N+A +D S++G +LQ+MDSSHV+LV L LRSEGF+ Y
Sbjct:     1 MFEARLVQGSILKKVLEALKDLINEACWDISSSGVNLQSMDSSHVSLVQLTLRSEGFDTY 60

Query:    61 RCDRNISMGMNLNNVSKMLKCAGNDDIITLKADDGSDTVTFMFESPTQDKIADFEMKLMD 120
             RCDRN++MG+NL ++SK+LKCAGN+DIITL+A+D +DT+  +FE+P Q+K++D+EMKLMD
Sbjct:    61 RCDRNLAMGVNLTSMSKILKCAGNEDIITLRAEDNADTLALVFEAPNQEKVSDYEMKLMD 120

Query:   121 IDSEHLGIPEAEYHAIVRMPSAEFARICKDLASIGDTVVISVTKEGVKFSTRGDIGTANI 180
             +D E LGIPE EY  +V+MPS EFARIC+DL+ IGD VVIS  K+GVKFS  G++G  NI
Sbjct:   121 LDVEQLGIPEQEYSCVVKMPSGEFARICRDLSHIGDAVVISCAKDGVKFSASGELGNGNI 180

Query:   181 VLRQNTTVDKPEEATIIEMHEPVSLTFALRYMNSFTRATPLSNTVTISLSSELPVVVEYK 240
              L Q + VDK EEA  IEM+EPV LTFALRY+N FT+ATPLS+TVT+S+S+++P+VVEYK
Sbjct:   181 KLSQTSNVDKEEEAVTIEMNEPVQLTFALRYLNFFTKATPLSSTVTLSMSADVPLVVEYK 240

Query:   241 IAEMGYIRFYLAPKIEEDE 259
             IA+MG++++YLAPKIE++E
Sbjct:   241 IADMGHLKYYLAPKIEDEE 259

GO:0019985 "translesion synthesis" evidence=ISS

GO:0032077 "positive regulation of deoxyribonuclease activity" evidence=ISS

GO:0070557 "PCNA-p21 complex" evidence=ISS

UNIPROTKB|Q3ZBW4 PCNA "Proliferating cell nuclear antigen" [Bos taurus (taxid:9913)]

 Score = 915 (327.2 bits), Expect = 8.1e-92, P = 8.1e-92
 Identities = 168/259 (64%), Positives = 222/259 (85%)

Query:     1 MLELRLVQGSLLKKVLEAIKELVNDANFDCSATGFSLQAMDSSHVALVALLLRSEGFEHY 60
             M E RLVQGS+LKKVLEA+K+L+N+A +D S++G +LQ+MDSSHV+LV L LRSEGF+ Y
Sbjct:     1 MFEARLVQGSILKKVLEALKDLINEACWDISSSGVNLQSMDSSHVSLVQLTLRSEGFDTY 60

Query:    61 RCDRNISMGMNLNNVSKMLKCAGNDDIITLKADDGSDTVTFMFESPTQDKIADFEMKLMD 120
             RCDRN++MG+NL ++SK+LKCAGN+DIITL+A+D +DT+  +FE+P Q+K++D+EMKLMD
Sbjct:    61 RCDRNLAMGVNLTSMSKILKCAGNEDIITLRAEDNADTLALVFEAPNQEKVSDYEMKLMD 120

Query:   121 IDSEHLGIPEAEYHAIVRMPSAEFARICKDLASIGDTVVISVTKEGVKFSTRGDIGTANI 180
             +D E LGIPE EY  +V+MPS EFARIC+DL+ IGD VVIS  K+GVKFS  G++G  NI
Sbjct:   121 LDVEQLGIPEQEYSCVVKMPSGEFARICRDLSHIGDAVVISCAKDGVKFSASGELGNGNI 180

Query:   181 VLRQNTTVDKPEEATIIEMHEPVSLTFALRYMNSFTRATPLSNTVTISLSSELPVVVEYK 240
              L Q + VDK EEA  IEM+EPV LTFALRY+N FT+ATPLS TVT+S+S+++P+VVEYK
Sbjct:   181 KLSQTSNVDKEEEAVAIEMNEPVQLTFALRYLNFFTKATPLSPTVTLSMSADVPLVVEYK 240

Query:   241 IAEMGYIRFYLAPKIEEDE 259
             IA+MG++++YLAPKIE++E
Sbjct:   241 IADMGHLKYYLAPKIEDEE 259

GO:0032077 "positive regulation of deoxyribonuclease activity" evidence=ISS

GO:0019985 "translesion synthesis" evidence=ISS

GO:0070557 "PCNA-p21 complex" evidence=ISS

GO:0043596 "nuclear replication fork" evidence=IEA

GO:0042802 "identical protein binding" evidence=IEA

GO:0032405 "MutLalpha complex binding" evidence=IEA

GO:0032139 "dinucleotide insertion or deletion binding" evidence=IEA

GO:0030971 "receptor tyrosine kinase binding" evidence=IEA

GO:0015630 "microtubule cytoskeleton" evidence=IEA

GO:0006298 "mismatch repair" evidence=IEA

GO:0005737 "cytoplasm" evidence=IEA

GO:0000701 "purine-specific mismatch base pair DNA N-glycosylase activity" evidence=IEA

GO:0006260 "DNA replication" evidence=IEA

GO:0043626 "PCNA complex" evidence=IEA

GO:0030337 "DNA polymerase processivity factor activity" evidence=IEA

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

UNIPROTKB|E2R0D6 PCNA "Uncharacterized protein" [Canis lupus familiaris (taxid:9615)]

 Score = 915 (327.2 bits), Expect = 8.1e-92, P = 8.1e-92
 Identities = 168/259 (64%), Positives = 222/259 (85%)

Query:     1 MLELRLVQGSLLKKVLEAIKELVNDANFDCSATGFSLQAMDSSHVALVALLLRSEGFEHY 60
             M E RLVQGS+LKKVLEA+K+L+N+A +D S++G +LQ+MDSSHV+LV L LRSEGF+ Y
Sbjct:     1 MFEARLVQGSILKKVLEALKDLINEACWDISSSGVNLQSMDSSHVSLVQLTLRSEGFDTY 60

Query:    61 RCDRNISMGMNLNNVSKMLKCAGNDDIITLKADDGSDTVTFMFESPTQDKIADFEMKLMD 120
             RCDRN++MG+NL ++SK+LKCAGN+DIITL+A+D +DT+  +FE+P Q+K++D+EMKLMD
Sbjct:    61 RCDRNLAMGVNLTSMSKILKCAGNEDIITLRAEDNADTLALVFEAPNQEKVSDYEMKLMD 120

Query:   121 IDSEHLGIPEAEYHAIVRMPSAEFARICKDLASIGDTVVISVTKEGVKFSTRGDIGTANI 180
             +D E LGIPE EY  +V+MPS EFARIC+DL+ IGD VVIS  K+GVKFS  G++G  NI
Sbjct:   121 LDVEQLGIPEQEYSCVVKMPSGEFARICRDLSHIGDAVVISCAKDGVKFSASGELGNGNI 180

Query:   181 VLRQNTTVDKPEEATIIEMHEPVSLTFALRYMNSFTRATPLSNTVTISLSSELPVVVEYK 240
              L Q + VDK EEA  IEM+EPV LTFALRY+N FT+ATPLS TVT+S+S+++P+VVEYK
Sbjct:   181 KLSQTSNVDKEEEAVTIEMNEPVQLTFALRYLNFFTKATPLSPTVTLSMSADVPLVVEYK 240

Query:   241 IAEMGYIRFYLAPKIEEDE 259
             IA+MG++++YLAPKIE++E
Sbjct:   241 IADMGHLKYYLAPKIEDEE 259

GO:0070557 "PCNA-p21 complex" evidence=IEA

GO:0043596 "nuclear replication fork" evidence=IEA

GO:0042802 "identical protein binding" evidence=IEA

GO:0032405 "MutLalpha complex binding" evidence=IEA

GO:0032139 "dinucleotide insertion or deletion binding" evidence=IEA

GO:0032077 "positive regulation of deoxyribonuclease activity" evidence=IEA

GO:0030971 "receptor tyrosine kinase binding" evidence=IEA

GO:0019985 "translesion synthesis" evidence=IEA

GO:0015630 "microtubule cytoskeleton" evidence=IEA

GO:0006298 "mismatch repair" evidence=IEA

GO:0005737 "cytoplasm" evidence=IEA

GO:0000701 "purine-specific mismatch base pair DNA N-glycosylase activity" evidence=IEA

GO:0006260 "DNA replication" evidence=IEA

GO:0043626 "PCNA complex" evidence=IEA

GO:0030337 "DNA polymerase processivity factor activity" evidence=IEA

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

UNIPROTKB|I3L813 PCNA "Proliferating cell nuclear antigen" [Sus scrofa (taxid:9823)]

 Score = 915 (327.2 bits), Expect = 8.1e-92, P = 8.1e-92
 Identities = 168/259 (64%), Positives = 222/259 (85%)

Query:     1 MLELRLVQGSLLKKVLEAIKELVNDANFDCSATGFSLQAMDSSHVALVALLLRSEGFEHY 60
             M E RLVQGS+LKKVLEA+K+L+N+A +D S++G +LQ+MDSSHV+LV L LRSEGF+ Y
Sbjct:     1 MFEARLVQGSILKKVLEALKDLINEACWDISSSGVNLQSMDSSHVSLVQLTLRSEGFDTY 60

Query:    61 RCDRNISMGMNLNNVSKMLKCAGNDDIITLKADDGSDTVTFMFESPTQDKIADFEMKLMD 120
             RCDRN++MG+NL ++SK+LKCAGN+DIITL+A+D +DT+  +FE+P Q+K++D+EMKLMD
Sbjct:    61 RCDRNLAMGVNLTSMSKILKCAGNEDIITLRAEDNADTLALVFEAPNQEKVSDYEMKLMD 120

Query:   121 IDSEHLGIPEAEYHAIVRMPSAEFARICKDLASIGDTVVISVTKEGVKFSTRGDIGTANI 180
             +D E LGIPE EY  +V+MPS EFARIC+DL+ IGD VVIS  K+GVKFS  G++G  NI
Sbjct:   121 LDVEQLGIPEQEYSCVVKMPSGEFARICRDLSHIGDAVVISCAKDGVKFSASGELGNGNI 180

Query:   181 VLRQNTTVDKPEEATIIEMHEPVSLTFALRYMNSFTRATPLSNTVTISLSSELPVVVEYK 240
              L Q + VDK EEA  IEM+EPV LTFALRY+N FT+ATPLS TVT+S+S+++P+VVEYK
Sbjct:   181 KLSQTSNVDKEEEAVTIEMNEPVQLTFALRYLNFFTKATPLSPTVTLSMSADVPLVVEYK 240

Query:   241 IAEMGYIRFYLAPKIEEDE 259
             IA+MG++++YLAPKIE++E
Sbjct:   241 IADMGHLKYYLAPKIEDEE 259

GO:0070557 "PCNA-p21 complex" evidence=IEA

GO:0043596 "nuclear replication fork" evidence=IEA

GO:0042802 "identical protein binding" evidence=IEA

GO:0032405 "MutLalpha complex binding" evidence=IEA

GO:0032139 "dinucleotide insertion or deletion binding" evidence=IEA

GO:0032077 "positive regulation of deoxyribonuclease activity" evidence=IEA

GO:0030971 "receptor tyrosine kinase binding" evidence=IEA

GO:0019985 "translesion synthesis" evidence=IEA

GO:0015630 "microtubule cytoskeleton" evidence=IEA

GO:0006298 "mismatch repair" evidence=IEA

GO:0005737 "cytoplasm" evidence=IEA

GO:0000701 "purine-specific mismatch base pair DNA N-glycosylase activity" evidence=IEA

GO:0006260 "DNA replication" evidence=IEA

GO:0043626 "PCNA complex" evidence=IEA

GO:0030337 "DNA polymerase processivity factor activity" evidence=IEA

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

UNIPROTKB|F1NLS0 PCNA "Proliferating cell nuclear antigen" [Gallus gallus (taxid:9031)]

 Score = 912 (326.1 bits), Expect = 1.7e-91, P = 1.7e-91
 Identities = 168/260 (64%), Positives = 221/260 (85%)

Query:     1 MLELRLVQGSLLKKVLEAIKELVNDANFDCSATGFSLQAMDSSHVALVALLLRSEGFEHY 60
             M E RLVQGS+LK+VLEA+K+L+ +A +D  + G SLQ+MDSSHV+LV L LRSEGF+ Y
Sbjct:     2 MFEARLVQGSVLKRVLEALKDLITEACWDLGSGGISLQSMDSSHVSLVQLTLRSEGFDTY 61

Query:    61 RCDRNISMGMNLNNVSKMLKCAGNDDIITLKADDGSDTVTFMFESPTQDKIADFEMKLMD 120
             RCDRNI+MG+NLN++SK+LKCAGN+DIITL+A+D +DT+  +FE+P Q+K++D+EMKLMD
Sbjct:    62 RCDRNIAMGVNLNSMSKILKCAGNEDIITLRAEDNADTLALVFEAPNQEKVSDYEMKLMD 121

Query:   121 IDSEHLGIPEAEYHAIVRMPSAEFARICKDLASIGDTVVISVTKEGVKFSTRGDIGTANI 180
             +D E LGIPE EY  +V+MPSAEFARIC+DL+ IGD VVIS  K+GVKFS  G++G  NI
Sbjct:   122 LDVEQLGIPEQEYSCVVKMPSAEFARICRDLSHIGDAVVISCAKDGVKFSANGELGNGNI 181

Query:   181 VLRQNTTVDKPEEATIIEMHEPVSLTFALRYMNSFTRATPLSNTVTISLSSELPVVVEYK 240
              L Q + VDK EEA  IEM+EPV LTFALRY+N FT+ATPLS TVT+S+S+++P+VVEYK
Sbjct:   182 KLSQTSNVDKEEEAVTIEMNEPVQLTFALRYLNFFTKATPLSPTVTLSMSADVPLVVEYK 241

Query:   241 IAEMGYIRFYLAPKIEEDED 260
             IA+MG++++YLAPKIE+ ++
Sbjct:   242 IADMGHLKYYLAPKIEDQQE 261

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

GO:0030337 "DNA polymerase processivity factor activity" evidence=IEA

GO:0043626 "PCNA complex" evidence=IEA

GO:0006260 "DNA replication" evidence=IEA

GO:0000701 "purine-specific mismatch base pair DNA N-glycosylase activity" evidence=IEA

GO:0005737 "cytoplasm" evidence=IEA

GO:0006298 "mismatch repair" evidence=IEA

GO:0015630 "microtubule cytoskeleton" evidence=IEA

GO:0019985 "translesion synthesis" evidence=IEA

GO:0030971 "receptor tyrosine kinase binding" evidence=IEA

GO:0032077 "positive regulation of deoxyribonuclease activity" evidence=IEA

GO:0032139 "dinucleotide insertion or deletion binding" evidence=IEA

GO:0032405 "MutLalpha complex binding" evidence=IEA

GO:0042802 "identical protein binding" evidence=IEA

GO:0043596 "nuclear replication fork" evidence=IEA

GO:0070557 "PCNA-p21 complex" evidence=IEA

UNIPROTKB|Q9DEA3 PCNA "Proliferating cell nuclear antigen" [Gallus gallus (taxid:9031)]

 Score = 912 (326.1 bits), Expect = 1.7e-91, P = 1.7e-91
 Identities = 168/260 (64%), Positives = 221/260 (85%)

Query:     1 MLELRLVQGSLLKKVLEAIKELVNDANFDCSATGFSLQAMDSSHVALVALLLRSEGFEHY 60
             M E RLVQGS+LK+VLEA+K+L+ +A +D  + G SLQ+MDSSHV+LV L LRSEGF+ Y
Sbjct:     1 MFEARLVQGSVLKRVLEALKDLITEACWDLGSGGISLQSMDSSHVSLVQLTLRSEGFDTY 60

Query:    61 RCDRNISMGMNLNNVSKMLKCAGNDDIITLKADDGSDTVTFMFESPTQDKIADFEMKLMD 120
             RCDRNI+MG+NLN++SK+LKCAGN+DIITL+A+D +DT+  +FE+P Q+K++D+EMKLMD
Sbjct:    61 RCDRNIAMGVNLNSMSKILKCAGNEDIITLRAEDNADTLALVFEAPNQEKVSDYEMKLMD 120

Query:   121 IDSEHLGIPEAEYHAIVRMPSAEFARICKDLASIGDTVVISVTKEGVKFSTRGDIGTANI 180
             +D E LGIPE EY  +V+MPSAEFARIC+DL+ IGD VVIS  K+GVKFS  G++G  NI
Sbjct:   121 LDVEQLGIPEQEYSCVVKMPSAEFARICRDLSHIGDAVVISCAKDGVKFSANGELGNGNI 180

Query:   181 VLRQNTTVDKPEEATIIEMHEPVSLTFALRYMNSFTRATPLSNTVTISLSSELPVVVEYK 240
              L Q + VDK EEA  IEM+EPV LTFALRY+N FT+ATPLS TVT+S+S+++P+VVEYK
Sbjct:   181 KLSQTSNVDKEEEAVTIEMNEPVQLTFALRYLNFFTKATPLSPTVTLSMSADVPLVVEYK 240

Query:   241 IAEMGYIRFYLAPKIEEDED 260
             IA+MG++++YLAPKIE+ ++
Sbjct:   241 IADMGHLKYYLAPKIEDQQE 260

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

GO:0030337 "DNA polymerase processivity factor activity" evidence=IEA

GO:0043626 "PCNA complex" evidence=IEA

GO:0003677 "DNA binding" evidence=IEA

GO:0006260 "DNA replication" evidence=IEA

GO:0005654 "nucleoplasm" evidence=TAS

GO:0006281 "DNA repair" evidence=TAS

GO:0019985 "translesion synthesis" evidence=ISS;TAS

GO:0070557 "PCNA-p21 complex" evidence=ISS

RGD|3269 Pcna "proliferating cell nuclear antigen" [Rattus norvegicus (taxid:10116)]

 Score = 910 (325.4 bits), Expect = 2.7e-91, P = 2.7e-91
 Identities = 167/259 (64%), Positives = 221/259 (85%)

Query:     1 MLELRLVQGSLLKKVLEAIKELVNDANFDCSATGFSLQAMDSSHVALVALLLRSEGFEHY 60
             M E RL+QGS+LKKVLEA+K+L+N+A +D S+ G +LQ+MDSSHV+LV L LRSEGF+ Y
Sbjct:     1 MFEARLIQGSILKKVLEALKDLINEACWDISSGGVNLQSMDSSHVSLVQLTLRSEGFDTY 60

Query:    61 RCDRNISMGMNLNNVSKMLKCAGNDDIITLKADDGSDTVTFMFESPTQDKIADFEMKLMD 120
             RCDRN++MG+NL ++SK+LKCAGN+DIITL+A+D +DT+  +FE+P Q+K++D+EMKLMD
Sbjct:    61 RCDRNLAMGVNLTSMSKILKCAGNEDIITLRAEDNADTLALVFEAPNQEKVSDYEMKLMD 120

Query:   121 IDSEHLGIPEAEYHAIVRMPSAEFARICKDLASIGDTVVISVTKEGVKFSTRGDIGTANI 180
             +D E LGIPE EY  +V+MPS EFARIC+DL+ IGD VVIS  K+GVKFS  G++G  NI
Sbjct:   121 LDVEQLGIPEQEYSCVVKMPSGEFARICRDLSHIGDAVVISCAKDGVKFSASGELGNGNI 180

Query:   181 VLRQNTTVDKPEEATIIEMHEPVSLTFALRYMNSFTRATPLSNTVTISLSSELPVVVEYK 240
              L Q + VDK EEA  IEM+EPV LTFALRY+N FT+ATPLS TVT+S+S+++P+VVEYK
Sbjct:   181 KLSQTSNVDKEEEAVSIEMNEPVQLTFALRYLNFFTKATPLSPTVTLSMSADVPLVVEYK 240

Query:   241 IAEMGYIRFYLAPKIEEDE 259
             IA+MG++++YLAPKIE++E
Sbjct:   241 IADMGHLKYYLAPKIEDEE 259

GO:0000122 "negative regulation of transcription from RNA polymerase II promoter" evidence=ISO

GO:0000307 "cyclin-dependent protein kinase holoenzyme complex" evidence=ISO

GO:0000701 "purine-specific mismatch base pair DNA N-glycosylase activity" evidence=IEA;ISO

GO:0005515 "protein binding" evidence=IPI

GO:0005622 "intracellular" evidence=ISO

GO:0005634 "nucleus" evidence=ISO;IDA

GO:0005652 "nuclear lamina" evidence=ISO

GO:0005657 "replication fork" evidence=ISO

GO:0005737 "cytoplasm" evidence=IEA;ISO

GO:0006260 "DNA replication" evidence=IEA

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

GO:0006287 "base-excision repair, gap-filling" evidence=ISO

GO:0006298 "mismatch repair" evidence=IEA;ISO

GO:0007507 "heart development" evidence=IEP

GO:0008134 "transcription factor binding" evidence=ISO

GO:0015630 "microtubule cytoskeleton" evidence=IEA;ISO

GO:0019985 "translesion synthesis" evidence=ISO;ISS

GO:0030337 "DNA polymerase processivity factor activity" evidence=IEA

GO:0030971 "receptor tyrosine kinase binding" evidence=IEA;ISO

GO:0032077 "positive regulation of deoxyribonuclease activity" evidence=ISO;ISS

GO:0032139 "dinucleotide insertion or deletion binding" evidence=IEA;ISO

GO:0032405 "MutLalpha complex binding" evidence=IEA;ISO

GO:0033993 "response to lipid" evidence=IDA

GO:0042802 "identical protein binding" evidence=IEA;ISO

GO:0043596 "nuclear replication fork" evidence=IEA;ISO

GO:0043626 "PCNA complex" evidence=IEA

GO:0046686 "response to cadmium ion" evidence=IEP

GO:0070557 "PCNA-p21 complex" evidence=ISO;ISS

GO:0005730 "nucleolus" evidence=ISO

---

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)
Q9M7Q7	PCNA1_ARATH	No assigned EC number	0.8977	0.9887	1.0	yes	no
Q43124	PCNA_BRANA	No assigned EC number	0.8927	0.9812	0.9923	N/A	no
Q6B6N4	PCNA_HAPBU	No assigned EC number	0.6279	0.9699	0.9923	N/A	no
Q9PTP1	PCNA_DANRE	No assigned EC number	0.6240	0.9699	0.9923	yes	no
P61258	PCNA_MACFA	No assigned EC number	0.6486	0.9736	0.9923	N/A	no
Q9DEA3	PCNA_CHICK	No assigned EC number	0.6461	0.9774	0.9923	yes	no
A6UQZ4	PCNA_METVS	No assigned EC number	0.3061	0.8947	0.9558	yes	no
A0RXH7	PCNA_CENSY	No assigned EC number	0.3020	0.8759	0.9395	yes	no
A9A2X4	PCNA_NITMS	No assigned EC number	0.3036	0.8759	0.9395	yes	no
P53358	PCNA_STYCL	No assigned EC number	0.5610	0.9812	0.9886	N/A	no
O82134	PCNA_PEA	No assigned EC number	0.9132	0.9962	0.9962	N/A	no
P24314	PCNA_CATRO	No assigned EC number	0.9310	0.9812	0.9738	N/A	no
Q9W644	PCNA_ANGJA	No assigned EC number	0.6124	0.9699	0.9923	N/A	no
O01377	PCNA_BOMMO	No assigned EC number	0.6138	0.9736	0.9961	N/A	no
O02115	PCNA_CAEEL	No assigned EC number	0.5057	0.9774	0.9885	yes	no
P15873	PCNA_YEAST	No assigned EC number	0.3822	0.9699	1.0	yes	no
P18248	PCNA_XENLA	No assigned EC number	0.6293	0.9736	0.9923	N/A	no
O16852	PCNA_SARCR	No assigned EC number	0.6216	0.9736	0.9961	N/A	no
P17917	PCNA_DROME	No assigned EC number	0.6216	0.9736	0.9961	yes	no
Q00265	PCNA2_DAUCA	No assigned EC number	0.8850	0.9774	0.7123	N/A	no
P61074	PCNA_PLAF7	No assigned EC number	0.3522	0.9511	0.9233	yes	no
P22177	PCNA_SOYBN	No assigned EC number	0.9237	0.8872	1.0	no	no
Q00268	PCNA1_DAUCA	No assigned EC number	0.9318	0.9924	1.0	N/A	no
Q9ZW35	PCNA2_ARATH	No assigned EC number	0.9018	0.9924	1.0	yes	no
P17918	PCNA_MOUSE	No assigned EC number	0.6409	0.9736	0.9923	yes	no
Q9MAY3	PCNA_POPNI	No assigned EC number	0.9080	0.9812	0.9886	N/A	no
O82797	PCNA_TOBAC	No assigned EC number	0.9507	0.9924	1.0	N/A	no
Q3ZBW4	PCNA_BOVIN	No assigned EC number	0.6486	0.9736	0.9923	yes	no
Q54K47	PCNA_DICDI	No assigned EC number	0.5775	0.9624	0.9922	yes	no
Q43266	PCNA_MAIZE	No assigned EC number	0.8863	0.9887	1.0	N/A	no
P17070	PCNA_ORYSJ	No assigned EC number	0.9	0.9774	0.9885	yes	no
P57761	PCNA_CRIGR	No assigned EC number	0.6447	0.9736	0.9923	yes	no
P12004	PCNA_HUMAN	No assigned EC number	0.6486	0.9736	0.9923	yes	no
P04961	PCNA_RAT	No assigned EC number	0.6447	0.9736	0.9923	yes	no
Q03392	PCNA_SCHPO	No assigned EC number	0.5517	0.9774	1.0	yes	no
Q9DDF1	PCNA_COTJA	No assigned EC number	0.6461	0.9774	0.9923	N/A	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	266
PLN00057	263	PLN00057, PLN00057, proliferating cell nuclear ant	0.0
TIGR00590	259	TIGR00590, pcna, proliferating cell nuclear antige	1e-160
cd00577	248	cd00577, PCNA, Proliferating Cell Nuclear Antigen	1e-102
PTZ00113	275	PTZ00113, PTZ00113, proliferating cell nuclear ant	4e-78
pfam02747	128	pfam02747, PCNA_C, Proliferating cell nuclear anti	1e-77
pfam00705	127	pfam00705, PCNA_N, Proliferating cell nuclear anti	3e-75
PHA03383	262	PHA03383, PHA03383, PCNA-like protein; Provisional	2e-53
PTZ00483	264	PTZ00483, PTZ00483, proliferating cell nuclear ant	5e-53
PRK01115	247	PRK01115, PRK01115, DNA polymerase sliding clamp;	1e-47
COG0592	364	COG0592, DnaN, DNA polymerase sliding clamp subuni	6e-23

>gnl|CDD|177688 PLN00057, PLN00057, proliferating cell nuclear antigen; Provisional

 Score =  501 bits (1292), Expect = 0.0
 Identities = 228/261 (87%), Positives = 247/261 (94%)

Query: 1   MLELRLVQGSLLKKVLEAIKELVNDANFDCSATGFSLQAMDSSHVALVALLLRSEGFEHY 60
           MLE RLVQGSLLKKVLEAIK+LV+DANFDCS TG SLQAMDSSHVALVALLLR++GFEHY
Sbjct: 1   MLEARLVQGSLLKKVLEAIKDLVSDANFDCSETGLSLQAMDSSHVALVALLLRADGFEHY 60

Query: 61  RCDRNISMGMNLNNVSKMLKCAGNDDIITLKADDGSDTVTFMFESPTQDKIADFEMKLMD 120
           RCDRN+SMG+NL N+SK+LKCAGNDDIIT+KADDG DTVTFMFESP QD+I+DFE+KLMD
Sbjct: 61  RCDRNLSMGINLANMSKILKCAGNDDIITIKADDGGDTVTFMFESPKQDRISDFELKLMD 120

Query: 121 IDSEHLGIPEAEYHAIVRMPSAEFARICKDLASIGDTVVISVTKEGVKFSTRGDIGTANI 180
           IDSEHLGIPE EY AIVRMPSAEF RICKDL+SIGDTVVISVTKEGVKFST GDIGTANI
Sbjct: 121 IDSEHLGIPETEYSAIVRMPSAEFQRICKDLSSIGDTVVISVTKEGVKFSTSGDIGTANI 180

Query: 181 VLRQNTTVDKPEEATIIEMHEPVSLTFALRYMNSFTRATPLSNTVTISLSSELPVVVEYK 240
           VLRQNTTVDKPEE T+IEM EPVSLTFALRY+NSFT+ATPLS+TVT+SLS ELPVVVEYK
Sbjct: 181 VLRQNTTVDKPEEKTVIEMQEPVSLTFALRYLNSFTKATPLSDTVTLSLSKELPVVVEYK 240

Query: 241 IAEMGYIRFYLAPKIEEDEDE 261
           IAEMGYIR+YLAPKIEEDED 
Sbjct: 241 IAEMGYIRYYLAPKIEEDEDM 261

Length = 263

>gnl|CDD|188067 TIGR00590, pcna, proliferating cell nuclear antigen (pcna)

 Score =  443 bits (1142), Expect = e-160
 Identities = 171/259 (66%), Positives = 223/259 (86%)

Query: 1   MLELRLVQGSLLKKVLEAIKELVNDANFDCSATGFSLQAMDSSHVALVALLLRSEGFEHY 60
           M E RL Q SLLKK+LEAIK+LVNDANFDCS +G SLQAMDSSHV+LV+L LRSEGF+ Y
Sbjct: 1   MFEARLEQASLLKKILEAIKDLVNDANFDCSESGISLQAMDSSHVSLVSLTLRSEGFDTY 60

Query: 61  RCDRNISMGMNLNNVSKMLKCAGNDDIITLKADDGSDTVTFMFESPTQDKIADFEMKLMD 120
           RCDRN+++G+NL ++SK+LKCA N+DI+TLKA+D +DT+  +FESP QDKI+D+E+KLMD
Sbjct: 61  RCDRNLALGVNLTSLSKILKCANNEDIVTLKAEDNADTLILVFESPKQDKISDYELKLMD 120

Query: 121 IDSEHLGIPEAEYHAIVRMPSAEFARICKDLASIGDTVVISVTKEGVKFSTRGDIGTANI 180
           ID EHLGIP+ EY  +V MPS+EFARIC+DL+   D+VVIS TKEGVKFS +GDIG+ N+
Sbjct: 121 IDVEHLGIPDQEYDCVVEMPSSEFARICRDLSQFSDSVVISCTKEGVKFSAKGDIGSGNV 180

Query: 181 VLRQNTTVDKPEEATIIEMHEPVSLTFALRYMNSFTRATPLSNTVTISLSSELPVVVEYK 240
            L+Q +  DK EEA  IEM +PV+LTFA++Y+N FT+ATPLS+ VT+S+S+++P+VVEYK
Sbjct: 181 KLKQTSDTDKEEEAVTIEMKQPVTLTFAIKYLNLFTKATPLSDRVTLSMSNDVPLVVEYK 240

Query: 241 IAEMGYIRFYLAPKIEEDE 259
           I +MG++RF+LAPKIE++E
Sbjct: 241 IKDMGFLRFFLAPKIEDEE 259

All proteins in this family for which functions are known form sliding DNA clamps that are used in DNA replication processes. This family is based on the phylogenomic analysis of JA Eisen (1999, Ph.D. Thesis, Stanford University) [DNA metabolism, DNA replication, recombination, and repair]. Length = 259

>gnl|CDD|238322 cd00577, PCNA, Proliferating Cell Nuclear Antigen (PCNA) domain found in eukaryotes and archaea

 Score =  296 bits (760), Expect = e-102
 Identities = 129/252 (51%), Positives = 175/252 (69%), Gaps = 5/252 (1%)

Query: 5   RLVQGSLLKKVLEAIKELVNDANFDCSATGFSLQAMDSSHVALVALLLRSEGFEHYRCDR 64
            L    LLKK+++A+ +LV++ANFD +  G SLQAMDSSHVALV+L L  E FE YRCD 
Sbjct: 2   TLSNAKLLKKIVDALSKLVDEANFDITEDGISLQAMDSSHVALVSLFLPKELFEEYRCDE 61

Query: 65  NISMGMNLNNVSKMLKCAGNDDIITLKADDGSDTVTFMFESPTQDKIADFEMKLMDIDSE 124
            IS+G+NL ++ K+LKCAGN+D +TL+ADD  D +  +FES   D  ++F +KLMDIDSE
Sbjct: 62  EISLGVNLKSLLKILKCAGNEDCVTLRADDE-DPLKILFESSKGDVTSEFSLKLMDIDSE 120

Query: 125 HLGIPEAEYHAIVRMPSAEFARICKDLASIGDTVVISVTKEGVKFSTRGDIGTANIVLRQ 184
            L IPE EY A V +PS E   I +DL SI D+V IS +K+G KFS  G++G A++ L  
Sbjct: 121 QLPIPELEYDATVTLPSDELKDIVRDLESISDSVTISASKDGFKFSAEGELGGASVTLLP 180

Query: 185 NTTVDKPEEATIIEMHEPVSLTFALRYMNSFTRATPLSNTVTISLSSELPVVVEYKIAEM 244
             +         IE  EPVS T++L+Y+  FT+A PLS+ VT+S  S+ P+ +E+KIA+ 
Sbjct: 181 KDSDLLVT----IECSEPVSSTYSLKYLKDFTKAAPLSDKVTLSFGSDGPLSLEFKIADG 236

Query: 245 GYIRFYLAPKIE 256
           G++ FYLAPKIE
Sbjct: 237 GHLTFYLAPKIE 248

These polymerase processivity factors play a role in DNA replication and repair. PCNA encircles duplex DNA in its central cavity, providing a DNA-bound platform for the attachment of the polymerase. The trimeric PCNA ring is structurally similar to the dimeric ring formed by the DNA polymerase processivity factors in bacteria (beta subunit DNA polymerase III holoenzyme) and in bacteriophages (catalytic subunits in T4 and RB69). This structural correspondence further substantiates the mechanistic connection between eukaryotic and prokaryotic DNA replication that has been suggested on biochemical grounds. PCNA is also involved with proteins involved in cell cycle processes such as DNA repair and apoptosis. Many of these proteins contain a highly conserved motif known as the PIP-box (PCNA interacting protein box) which contains the sequence Qxx[LIM]xxF[FY]. . Length = 248

>gnl|CDD|240275 PTZ00113, PTZ00113, proliferating cell nuclear antigen; Provisional

 Score =  237 bits (605), Expect = 4e-78
 Identities = 100/272 (36%), Positives = 168/272 (61%), Gaps = 12/272 (4%)

Query: 1   MLELRLVQGSLLKKVLEAIKELVNDANFDCSATGFSLQAMDSSHVALVALLLRSEGFEHY 60
           MLE +L   S+L+++ E IK+LV+D N D   TG  LQA+D +HVALV L L   GF HY
Sbjct: 1   MLEAKLNNASVLRRLFECIKDLVSDGNIDFDETGLKLQALDGNHVALVHLKLHDSGFSHY 60

Query: 61  RCDRNISMGMNLNNVSKMLKCAGNDDIITLKADDGSDTVTFMFESPTQDKIADFEMKLMD 120
           RCDR  ++G+N+ +V+K+ K   N+D + +++++  D + F+FE+  +DK++ F +KLM 
Sbjct: 61  RCDRERALGINIASVTKVFKLCSNNDSVLIQSEEDKDNINFVFENNVEDKVSSFSLKLMS 120

Query: 121 IDSEHLGIPEAE--YHAIVRMPSAEFARICKDLASIGDTVVISVTKEGVKFSTRGDIGTA 178
           I+ + L IPE E  + A V + S E   IC+ +    DTV I +    +KF+T+GD+G  
Sbjct: 121 IEQDALSIPENEEGFDAEVTLSSKELTNICRQMNEFSDTVKIEIDSNSIKFTTQGDLGDG 180

Query: 179 NIVLRQNTTVDKPEEATIIEMHEPVSLTFALRYMNSFTRATPLSNTVTISLSSELPVVVE 238
            +VL+      + +    I++ +P+  ++A +Y+N F ++  LS+ VT+ LS   P+ V+
Sbjct: 181 EVVLKPRPPTSEDDCGVTIKVRKPIKQSYATKYLNMFAKSGCLSDVVTLGLSDNRPIEVK 240

Query: 239 YKIAE----------MGYIRFYLAPKIEEDED 260
           Y+I +          +G ++F+LAPK+++D D
Sbjct: 241 YEIKDTSPDARHTHKLGEVKFFLAPKMDDDMD 272

Length = 275

>gnl|CDD|202372 pfam02747, PCNA_C, Proliferating cell nuclear antigen, C-terminal domain

 Score =  230 bits (589), Expect = 1e-77
 Identities = 100/128 (78%), Positives = 115/128 (89%)

Query: 127 GIPEAEYHAIVRMPSAEFARICKDLASIGDTVVISVTKEGVKFSTRGDIGTANIVLRQNT 186
           GIPE+EY  +VRMPSAEFARIC+DL+ IGD+VVIS TKEGVKFS  GDIGT NI L+Q T
Sbjct: 1   GIPESEYDCVVRMPSAEFARICRDLSQIGDSVVISCTKEGVKFSASGDIGTGNIKLKQTT 60

Query: 187 TVDKPEEATIIEMHEPVSLTFALRYMNSFTRATPLSNTVTISLSSELPVVVEYKIAEMGY 246
            VDKPEEA IIEM+EPV+LTFALRY+NSFT+ATPLS TVTIS+SSELP+VVEYKIA+MG 
Sbjct: 61  DVDKPEEAIIIEMNEPVTLTFALRYLNSFTKATPLSPTVTISMSSELPLVVEYKIADMGL 120

Query: 247 IRFYLAPK 254
           +R+YLAPK
Sbjct: 121 LRYYLAPK 128

N-terminal and C-terminal domains of PCNA are topologically identical. Three PCNA molecules are tightly associated to form a closed ring encircling duplex DNA. Length = 128

>gnl|CDD|109749 pfam00705, PCNA_N, Proliferating cell nuclear antigen, N-terminal domain

 Score =  224 bits (573), Expect = 3e-75
 Identities = 97/127 (76%), Positives = 116/127 (91%), Gaps = 2/127 (1%)

Query: 1   MLELRLVQGSLLKKVLEAIKELVNDANFDCSATGFSLQAMDSSHVALVALLLRSEGFEHY 60
           MLE RLVQGSLLKKVLEAIK+LVNDANFDCS +G SLQAMDSSHVALV+LLLRSEGFEHY
Sbjct: 1   MLEARLVQGSLLKKVLEAIKDLVNDANFDCSESGISLQAMDSSHVALVSLLLRSEGFEHY 60

Query: 61  RCDRNISMGMNLNNVSKMLKCAGNDDIITLKADDGSDTVTFMFESPTQDKIA--DFEMKL 118
           RCDRN+S+G+NLN++SK+LKCAGN+DI+TLKA+D +DT+  +FE+  QDK++  D EMKL
Sbjct: 61  RCDRNLSLGVNLNSMSKILKCAGNEDIVTLKAEDNADTLALVFENENQDKVSIYDLEMKL 120

Query: 119 MDIDSEH 125
           MD+DSEH
Sbjct: 121 MDLDSEH 127

N-terminal and C-terminal domains of PCNA are topologically identical. Three PCNA molecules are tightly associated to form a closed ring encircling duplex DNA. Length = 127

>gnl|CDD|177619 PHA03383, PHA03383, PCNA-like protein; Provisional

 Score =  173 bits (440), Expect = 2e-53
 Identities = 79/258 (30%), Positives = 150/258 (58%), Gaps = 4/258 (1%)

Query: 1   MLELRLVQGSLLKKVLEAIKELVNDANFDCSATGFSLQAMDSSHVALVALLLRSEGFEHY 60
           +  +R +QGS++K + + +KE+++D N     TG  + A+D + V+LV + L +E FE Y
Sbjct: 7   LFHIRTIQGSVIKSLFDVLKEILHDVNIFFRPTGVYISALDGAKVSLVHMKLDAESFEEY 66

Query: 61  RCDRNISMGMNLNNVSKMLKCAGNDDIITLKADDGSDTVT-FMFESPTQDKIADFEMKLM 119
            CD+   +G+N++N+ K+L+ AG+ D I  +    S        ++  ++ +  F++KL+
Sbjct: 67  HCDQTYEIGVNVSNMFKLLRTAGSHDSILFRYLKNSPHFLEITIQNFEKNSLTKFQLKLI 126

Query: 120 DIDSEHLGIPEAEYHAIVRMPSAEFARICKDLASIGDTVVISVTKEGVKFSTRGDIGTAN 179
           +IDS  + +P+ E+  I+ +PS  F R+C+D+++I D + I  TK+G + S R D     
Sbjct: 127 EIDSSRIEVPDVEFDTIIILPSNYFQRLCRDMSNITDDLEI--TKKGKEVSFRSDYTCVT 184

Query: 180 IVLRQNTTVDKPEEATIIEMHEP-VSLTFALRYMNSFTRATPLSNTVTISLSSELPVVVE 238
               Q T +   +   I     P  +  F+L+Y+ SFT+A+ +S++V I L    P++++
Sbjct: 185 DFASQETIIGDSDNGQITCNESPDYTGKFSLKYLTSFTKASGMSSSVEIYLKESNPLILK 244

Query: 239 YKIAEMGYIRFYLAPKIE 256
           Y +  +G ++F +APK+ 
Sbjct: 245 YNVGSLGNLKFVIAPKVS 262

Length = 262

>gnl|CDD|185661 PTZ00483, PTZ00483, proliferating cell nuclear antigen; Provisional

 Score =  172 bits (438), Expect = 5e-53
 Identities = 91/271 (33%), Positives = 147/271 (54%), Gaps = 21/271 (7%)

Query: 1   MLELRLVQGSLLKKVLEAIKELVNDANFDCSATGFSLQAMDSSHVALVALLLRSEGFEHY 60
           M E RL  G  L+++ E +K++  D + DCS  G  +QAMD+SH++L+ L L  + F+ Y
Sbjct: 1   MFECRL-DGMFLRRLFETLKDICTDVSIDCSENGLKMQAMDNSHISLIHLNLAPDFFQLY 59

Query: 61  RCDRNISMGMNLNNVSKMLKCAGNDDIITL-KADDGSDTVTF--MFESPTQDKIAD---- 113
           RCD+   +G+N++ + K+L        I L + D+  D V    + E   Q+ +      
Sbjct: 60  RCDKPCVLGLNISFMLKILSVVKEKSTIYLFRGDNTEDPVLNIRIIEEEGQNSLESDSLE 119

Query: 114 FEMKLMDIDSEHLGIPEAEYHAIVRMPSAEFARICKDLASIGDTVVISVTKEGVKFSTRG 173
            ++KL+++  EHL IP+ EYH    M S +F    K L SIGDTV IS+ K+ ++  T G
Sbjct: 120 AQVKLINVQREHLEIPQCEYHCKCVMNSKKFQEFAKYLHSIGDTVSISMKKDEMRLETEG 179

Query: 174 DIGTANIVLRQNTTVDKPEEATIIEMHEPVSLTFALRYMNSFTRATPLSNTVTISLSSEL 233
           +     I   +    D  +    +   E +S  FA RY+  F++AT L++ V+I+LS+ +
Sbjct: 180 E----GIKASKQFHNDVGDVR--VTSTESLSQEFATRYLVLFSKATSLADEVSINLSAGI 233

Query: 234 PVVVEYKIAEM-------GYIRFYLAPKIEE 257
           P+ V++   +         +I FYLAP IEE
Sbjct: 234 PLSVKFNFKDPLTDLQDSSFINFYLAPNIEE 264

Length = 264

>gnl|CDD|234903 PRK01115, PRK01115, DNA polymerase sliding clamp; Validated

 Score =  158 bits (401), Expect = 1e-47
 Identities = 68/257 (26%), Positives = 123/257 (47%), Gaps = 11/257 (4%)

Query: 1   MLELRLVQGSLLKKVLEAIKELVNDANFDCSATGFSLQAMDSSHVALVALLLRSEGFEHY 60
           M++         K +++AI +LV++A F  +  G  L+A+D + VA+V L L  E FE Y
Sbjct: 1   MMKAVYPDAKDFKYIIDAISKLVDEAKFKFTEDGIRLRALDPAKVAMVDLELPKEAFEEY 60

Query: 61  RCDRNISMGMNLNNVSKMLKCAGNDDIITLKADDGSDTVTFMFESPTQDKIADFEMKLMD 120
             D    +G++L ++ K+LK A   D + L+ D+  + +   F     +K  +F + L+D
Sbjct: 61  EVDEEEKIGVDLEDLKKILKRAKKGDKLELELDEEENKLKITFGG---EKTREFSLPLLD 117

Query: 121 IDSEHLGIPEAEYHAIVRMPSAEFARICKDLASIGDTVVISVTKEGVKFSTRGDIGTANI 180
           + SE    P  E      +   +     KD   + D + +   ++       G+ G   +
Sbjct: 118 VSSEEPPEPNLELPVKAVILGDDLKDAIKDAELVSDHIELEADEDKFYIEAEGE-GEDEV 176

Query: 181 VLRQNTTVDKPEEATI-IEMHEPVSLTFALRYMNSFTRATPLSNTVTISLSSELPVVVEY 239
            L             I + + EP   +++L Y+    +AT  S+ VTI   S++P+ +E+
Sbjct: 177 EL------SLDSGPLIELSVEEPAKSSYSLDYLKDMVKATSASDEVTIEFGSDMPLKLEF 230

Query: 240 KIAEMGYIRFYLAPKIE 256
           +IA  G + + LAP+IE
Sbjct: 231 EIAGGGKVTYLLAPRIE 247

Length = 247

>gnl|CDD|223665 COG0592, DnaN, DNA polymerase sliding clamp subunit (PCNA homolog) [DNA replication, recombination, and repair]

 Score = 95.8 bits (239), Expect = 6e-23
 Identities = 61/269 (22%), Positives = 103/269 (38%), Gaps = 17/269 (6%)

Query: 11  LLKKVLEAIKELVNDANFDCSATGFSLQAMDSSHVALVALLLRSEGFEHYRCDRN-ISMG 69
             KK+L+ I +L ++A F  +  G SL A+DS   A V L L +E F  Y  D   +  G
Sbjct: 70  PAKKLLDIISKLPDEAVFLVTEDGISLLAVDSGKSAFVLLTLPAEDFPEYPVDEEEVEFG 129

Query: 70  MNLNNVSKMLKCAGNDDIITLKADDGSDTVTFMFESPTQDKIADFEMKLMDIDSEHLGIP 129
           +    + K++K     D   L+     + V    E     K+         +  E L IP
Sbjct: 130 LPTELLKKIIKRTKFAD-SLLETRYELNGVLLEIEG---TKLRLVATDGHRLAVEELEIP 185

Query: 130 EAEYHAIVRMPSAEFARICKDLA------SIGDTVVISVTKEGVKFSTRGDIGTANIVLR 183
           E E  A V +P+     + K L        +    +     E + FS   +    +    
Sbjct: 186 ELEEDASVIIPAKTLKELIKLLKDADVEIFLVSDQIRFKAGETILFSKLIEGEFPDYERV 245

Query: 184 QNTTVDKPEEATIIEMHEPVSLTFALRYMNSFTRATPLS-NTVTISLSSELPVVVEYKIA 242
                +K      +E+ E +   ++L Y+    +   L+   V +SL ++ P   E +I 
Sbjct: 246 IPKEFEKELTLDRLELKEALKRVYSLSYLKDRGKKLSLADGEVKLSLGNDEPGKAEEEID 305

Query: 243 -----EMGYIRFYLAPKIEEDEDETKPQV 266
                E   I F LA  ++  +     +V
Sbjct: 306 VGYTGEELKIGFNLAYLLDVLKALDSEEV 334

Length = 364

Conserved Domains Detected by HHsearch

Original result of HHsearch against CDD database

ID	Length	Definition	Probability
Query	266
PLN00057	263	proliferating cell nuclear antigen; Provisional	100.0
PTZ00113	275	proliferating cell nuclear antigen; Provisional	100.0
KOG1636	260	consensus DNA polymerase delta processivity factor	100.0
TIGR00590	259	pcna proliferating cell nuclear antigen (pcna). Al	100.0
PHA03383	262	PCNA-like protein; Provisional	100.0
PTZ00483	264	proliferating cell nuclear antigen; Provisional	100.0
PRK01115	247	DNA polymerase sliding clamp; Validated	100.0
cd00577	248	PCNA Proliferating Cell Nuclear Antigen (PCNA) dom	100.0
PF00705	127	PCNA_N: Proliferating cell nuclear antigen, N-term	99.97
PF02747	128	PCNA_C: Proliferating cell nuclear antigen, C-term	99.97
PF02144	275	Rad1: Repair protein Rad1/Rec1/Rad17; InterPro: IP	99.96
PRK14942	373	DNA polymerase III subunit beta; Provisional	99.93
PRK14944	375	DNA polymerase III subunit beta; Provisional	99.92
PRK14940	367	DNA polymerase III subunit beta; Provisional	99.91
PRK14947	384	DNA polymerase III subunit beta; Provisional	99.91
PRK06673	376	DNA polymerase III subunit beta; Validated	99.9
PRK05643	367	DNA polymerase III subunit beta; Validated	99.9
PRK14941	374	DNA polymerase III subunit beta; Provisional	99.89
PRK14945	362	DNA polymerase III subunit beta; Provisional	99.88
PRK07761	376	DNA polymerase III subunit beta; Validated	99.88
PRK14946	366	DNA polymerase III subunit beta; Provisional	99.88
PF04005	292	Hus1: Hus1-like protein; InterPro: IPR007150 Hus1,	99.87
smart00480	345	POL3Bc DNA polymerase III beta subunit.	99.87
cd00140	365	beta_clamp Beta clamp domain. The beta subunit (pr	99.86
TIGR00663	367	dnan DNA polymerase III, beta subunit. University)	99.85
PRK14943	374	DNA polymerase III subunit beta; Provisional	99.84
PF04139	252	Rad9: Rad9; InterPro: IPR007268 Rad9 is required f	99.83
COG0592	364	DnaN DNA polymerase sliding clamp subunit (PCNA ho	99.81
KOG3194	279	consensus Checkpoint 9-1-1 complex, RAD1 component	99.8
COG0592	364	DnaN DNA polymerase sliding clamp subunit (PCNA ho	99.77
KOG3999	284	consensus Checkpoint 9-1-1 complex, HUS1 component	99.58
PF02768	121	DNA_pol3_beta_3: DNA polymerase III beta subunit,	99.52
cd00140	365	beta_clamp Beta clamp domain. The beta subunit (pr	99.51
PF02767	116	DNA_pol3_beta_2: DNA polymerase III beta subunit,	99.11
TIGR00663	367	dnan DNA polymerase III, beta subunit. University)	99.1
PRK14943	374	DNA polymerase III subunit beta; Provisional	99.01
PRK05643	367	DNA polymerase III subunit beta; Validated	98.98
PRK14945	362	DNA polymerase III subunit beta; Provisional	98.84
smart00480	345	POL3Bc DNA polymerase III beta subunit.	98.83
PRK14941	374	DNA polymerase III subunit beta; Provisional	98.65
KOG2810	394	consensus Checkpoint 9-1-1 complex, RAD9 component	98.62
PRK07761	376	DNA polymerase III subunit beta; Validated	98.58
PRK14940	367	DNA polymerase III subunit beta; Provisional	98.53
PRK01115	247	DNA polymerase sliding clamp; Validated	98.48
PRK06673	376	DNA polymerase III subunit beta; Validated	98.39
PRK14944	375	DNA polymerase III subunit beta; Provisional	98.36
PRK14942	373	DNA polymerase III subunit beta; Provisional	98.27
PRK14947	384	DNA polymerase III subunit beta; Provisional	98.27
PRK14946	366	DNA polymerase III subunit beta; Provisional	98.19
PF00712	120	DNA_pol3_beta: DNA polymerase III beta subunit, N-	97.95
PF02747	128	PCNA_C: Proliferating cell nuclear antigen, C-term	97.9
cd00577	248	PCNA Proliferating Cell Nuclear Antigen (PCNA) dom	97.7
PF00705	127	PCNA_N: Proliferating cell nuclear antigen, N-term	97.55
TIGR00590	259	pcna proliferating cell nuclear antigen (pcna). Al	97.45
PLN00057	263	proliferating cell nuclear antigen; Provisional	97.31
PTZ00113	275	proliferating cell nuclear antigen; Provisional	97.19
PF04139	252	Rad9: Rad9; InterPro: IPR007268 Rad9 is required f	97.1
PTZ00483	264	proliferating cell nuclear antigen; Provisional	97.01
PF00712	120	DNA_pol3_beta: DNA polymerase III beta subunit, N-	96.8
PHA03383	262	PCNA-like protein; Provisional	96.76
PF02768	121	DNA_pol3_beta_3: DNA polymerase III beta subunit,	96.56
PHA02545	223	45 sliding clamp; Provisional	95.21
PF02144	275	Rad1: Repair protein Rad1/Rec1/Rad17; InterPro: IP	95.18
KOG1636	260	consensus DNA polymerase delta processivity factor	95.05

>PLN00057 proliferating cell nuclear antigen; Provisional

Probab=100.00  E-value=1.1e-61  Score=419.31  Aligned_cols=262  Identities=87%  Similarity=1.284  Sum_probs=249.3

Q ss_pred             CeeEEEcChhhHHHHHHHHHhhhceeeEEEeCCceEEEEECCCCeEEEEEEecCCCcceeeeCCcEEEEEEhhhHHHHhc
Q 024527            1 MLELRLVQGSLLKKVLEAIKELVNDANFDCSATGFSLQAMDSSHVALVALLLRSEGFEHYRCDRNISMGMNLNNVSKMLK   80 (266)
Q Consensus         1 mf~a~~~~~~~~k~i~~~l~~l~~~~~~~~~~~gl~~~a~D~~r~a~v~~~l~~~~F~~y~~~~~~~~gi~l~~L~~ilk   80 (266)
                      ||+|++.+|+.||++++++++++++|+|+++++||+++|||++||||+++.|++++|++|+|+++.++||+++.|.|+||
T Consensus         1 Mf~a~~~~a~~~k~i~~ai~~lvde~~~~~t~~Gi~~~amD~s~Valv~l~l~~~~F~eY~~d~~~~~gv~l~~l~kiLk   80 (263)
T PLN00057          1 MLEARLVQGSLLKKVLEAIKDLVSDANFDCSETGLSLQAMDSSHVALVALLLRADGFEHYRCDRNLSMGINLANMSKILK   80 (263)
T ss_pred             CeEEEEcchHHHHHHHHHHHHHhheeEEEEcCCeEEEEEEcCCcEEEEEEEeChhcCeEEecCCceEEEEEHHHHHHHHh
Confidence            99999999999999999999999999999999999999999999999999999999999999999999999999999999


Q ss_pred             ccCCCceEEEEEcCCCCeEEEEEeCCCCCeEEEEEEeeeecCCCCCCCCcceeeEEEEEehHHHHHHHHHhhccCCEEEE
Q 024527           81 CAGNDDIITLKADDGSDTVTFMFESPTQDKIADFEMKLMDIDSEHLGIPEAEYHAIVRMPSAEFARICKDLASIGDTVVI  160 (266)
Q Consensus        81 ~~~~~d~l~l~~~~~~~~l~i~~~~~~~~~~~~~~l~li~~~~~~~~ip~~~~~~~i~~~s~~~~~~i~~~~~~~d~v~i  160 (266)
                      +++++|.+.|+++++++.|.|.+++.++++++.|.+++++++.+++++|+.+|+++++|+|+.|+++|++++.+||.|+|
T Consensus        81 ~~~~~d~l~l~~~~~~~~l~i~~~~~~~~~~~~f~l~l~d~~~e~l~iP~~e~~~~v~m~s~~f~~~~kdl~~vsd~v~i  160 (263)
T PLN00057         81 CAGNDDIITIKADDGGDTVTFMFESPKQDRISDFELKLMDIDSEHLGIPETEYSAIVRMPSAEFQRICKDLSSIGDTVVI  160 (263)
T ss_pred             ccCCCCEEEEEecCCCCEEEEEEEcCCCceEEEEEEEeeecCcccCCCCCCceeEEEEEEHHHHHHHHHHHHHcCCEEEE
Confidence            99999999999988889999999998888999999999999999999999999999999999999999999999999999


Q ss_pred             EEeCCeEEEEEEecceeEEEEEeecccCCCCCCceEEEecCcEEEEEehHHHHhccccCCCCceEEEEecCCCcEEEEEE
Q 024527          161 SVTKEGVKFSTRGDIGTANIVLRQNTTVDKPEEATIIEMHEPVSLTFALRYMNSFTRATPLSNTVTISLSSELPVVVEYK  240 (266)
Q Consensus       161 ~~~~~~l~~s~~gd~g~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~f~~~yL~~~~k~~~ls~~v~l~~~~~~Pl~l~~~  240 (266)
                      .++++++.|+++||.|++++.++.....+++++.+.+++++++++.|+++||++++|++++|++|+|+|++++||+|+|.
T Consensus       161 ~~~~~~~~f~~~Gd~g~~~~~l~~~~~~~~~~~~~~i~~~e~~~~~y~l~YL~~~~Ka~~ls~~V~i~~~~~~Pl~l~y~  240 (263)
T PLN00057        161 SVTKEGVKFSTSGDIGTANIVLRQNTTVDKPEEKTVIEMQEPVSLTFALRYLNSFTKATPLSDTVTLSLSKELPVVVEYK  240 (263)
T ss_pred             EEeCCEEEEEEEecCcEEEEEEecCCCCCCccceEEEEecCceEEEEhHHHHHHhhccccCCCeEEEEEcCCCCEEEEEE
Confidence            99999999999999999999997654444444556688899999999999999999999999999999999999999999


Q ss_pred             eCCcEEEEEEEcccCCCCcccC
Q 024527          241 IAEMGYIRFYLAPKIEEDEDET  262 (266)
Q Consensus       241 i~~~g~~~~~iaPr~~~~~~~~  262 (266)
                      ++++|+++||||||+++|++++
T Consensus       241 l~~~g~l~f~LAPri~~~~~~~  262 (263)
T PLN00057        241 IAEMGYIRYYLAPKIEEDEDMD  262 (263)
T ss_pred             eCCCeEEEEEEcCCCCCccccc
Confidence            9888999999999999998665

>PTZ00113 proliferating cell nuclear antigen; Provisional

Probab=100.00  E-value=6.1e-61  Score=414.20  Aligned_cols=262  Identities=38%  Similarity=0.765  Sum_probs=244.7

Q ss_pred             CeeEEEcChhhHHHHHHHHHhhhceeeEEEeCCceEEEEECCCCeEEEEEEecCCCcceeeeCCcEEEEEEhhhHHHHhc
Q 024527            1 MLELRLVQGSLLKKVLEAIKELVNDANFDCSATGFSLQAMDSSHVALVALLLRSEGFEHYRCDRNISMGMNLNNVSKMLK   80 (266)
Q Consensus         1 mf~a~~~~~~~~k~i~~~l~~l~~~~~~~~~~~gl~~~a~D~~r~a~v~~~l~~~~F~~y~~~~~~~~gi~l~~L~~ilk   80 (266)
                      ||+|++.+|+.||++++++++++++++|+++++||+++|||++||||+++.|++++|++|+|+++.++|||++.|.|+||
T Consensus         1 Mfea~~~~a~~~K~i~eal~~lv~e~~f~~t~~Gi~lqamD~shVaLv~l~l~~~~FeeY~cd~~~~lGvn~~~l~KILk   80 (275)
T PTZ00113          1 MLEAKLNNASVLRRLFECIKDLVSDGNIDFDETGLKLQALDGNHVALVHLKLHDSGFSHYRCDRERALGINIASVTKVFK   80 (275)
T ss_pred             CeEEEeccHHHHHHHHHHHHHHhceEEEEECCCeEEEEEECCCcEEEEEEEeCHHhCeEEecCCCcEEEEEHHHHHHHHH
Confidence            99999999999999999999999999999999999999999999999999999999999999999999999999999999


Q ss_pred             ccCCCceEEEEEcCCCCeEEEEEeCCCCCeEEEEEEeeeecCCCCCCCCcc--eeeEEEEEehHHHHHHHHHhhccCCEE
Q 024527           81 CAGNDDIITLKADDGSDTVTFMFESPTQDKIADFEMKLMDIDSEHLGIPEA--EYHAIVRMPSAEFARICKDLASIGDTV  158 (266)
Q Consensus        81 ~~~~~d~l~l~~~~~~~~l~i~~~~~~~~~~~~~~l~li~~~~~~~~ip~~--~~~~~i~~~s~~~~~~i~~~~~~~d~v  158 (266)
                      +++++|.+.|+.+++.+.|.|.+++...+++++|.+++++++.+++.+|+.  +|+++++|+|++|+++|++++.+||.|
T Consensus        81 ~~~~~D~l~l~~~~~~~~l~i~~~~~~~~~~~~f~l~L~di~~e~~~iPe~~~e~~~~v~m~s~~f~~i~rdl~~vgd~V  160 (275)
T PTZ00113         81 LCSNNDSVLIQSEEDKDNINFVFENNVEDKVSSFSLKLMSIEQDALSIPENEEGFDAEVTLSSKELTNICRQMNEFSDTV  160 (275)
T ss_pred             hCCCCCEEEEEEcCCCCEEEEEEEcCCCceEEEEEEEccccCccccCCCCCCCCccEEEEEEHHHHHHHHHHHHHcCCEE
Confidence            999999999998888889999999998888999999999999988888876  899999999999999999999999999


Q ss_pred             EEEEeCCeEEEEEEecceeEEEEEeecccCCCCCCceEEEecCcEEEEEehHHHHhccccCCCCceEEEEecCCCcEEEE
Q 024527          159 VISVTKEGVKFSTRGDIGTANIVLRQNTTVDKPEEATIIEMHEPVSLTFALRYMNSFTRATPLSNTVTISLSSELPVVVE  238 (266)
Q Consensus       159 ~i~~~~~~l~~s~~gd~g~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~f~~~yL~~~~k~~~ls~~v~l~~~~~~Pl~l~  238 (266)
                      +|.++++.+.|+++||.|++++.+++....+.++..+.+++.+++++.|+++||..|+|+.++|+.|+|+|++++||+++
T Consensus       161 ~i~~~~~~v~f~a~Gd~g~~~i~l~~~~~~~~~~~~~~~~v~~~~~~~ysl~YL~~f~Ka~~ls~~V~l~l~~d~Pl~le  240 (275)
T PTZ00113        161 KIEIDSNSIKFTTQGDLGDGEVVLKPRPPTSEDDCGVTIKVRKPIKQSYATKYLNMFAKSGCLSDVVTLGLSDNRPIEVK  240 (275)
T ss_pred             EEEEeCCEEEEEEeccCcEEEEEEecCCCCCCccceEEEEecCceeeEEhHHHHHHhhccccCCCeEEEEEcCCCCEEEE
Confidence            99999999999999999999999976433233344556888999999999999999999999999999999999999999


Q ss_pred             EEeCC----------cEEEEEEEcccCCCCcccCC
Q 024527          239 YKIAE----------MGYIRFYLAPKIEEDEDETK  263 (266)
Q Consensus       239 ~~i~~----------~g~~~~~iaPr~~~~~~~~~  263 (266)
                      |++++          .|+++||||||+++|+ |++
T Consensus       241 y~i~~~~~~~~~~~~~G~l~fyLAPkie~~~-~~~  274 (275)
T PTZ00113        241 YEIKDTSPDARHTHKLGEVKFFLAPKMDDDM-DTK  274 (275)
T ss_pred             EEeccccccccccCCccEEEEEEcCccCccc-ccC
Confidence            99952          5999999999999888 443

>KOG1636 consensus DNA polymerase delta processivity factor (proliferating cell nuclear antigen) [Replication, recombination and repair]

Probab=100.00  E-value=4.4e-62  Score=394.23  Aligned_cols=259  Identities=74%  Similarity=1.156  Sum_probs=253.9

Q ss_pred             CeeEEEcChhhHHHHHHHHHhhhceeeEEEeCCceEEEEECCCCeEEEEEEecCCCcceeeeCCcEEEEEEhhhHHHHhc
Q 024527            1 MLELRLVQGSLLKKVLEAIKELVNDANFDCSATGFSLQAMDSSHVALVALLLRSEGFEHYRCDRNISMGMNLNNVSKMLK   80 (266)
Q Consensus         1 mf~a~~~~~~~~k~i~~~l~~l~~~~~~~~~~~gl~~~a~D~~r~a~v~~~l~~~~F~~y~~~~~~~~gi~l~~L~~ilk   80 (266)
                      ||||++.++..||+|+++++.++++++|+++++|+.+||||.+|||++++.|.++.|+.|+|++++++|++++.|.|+||
T Consensus         1 M~Earl~q~sLlKkIlealkdlV~~a~fdcse~GislQaMD~SHValvsl~l~s~~F~~yRCDRnl~lG~~L~slsKiLk   80 (260)
T KOG1636|consen    1 MLEARLVQASLLKKILEALKDLVNDANFDCSETGISLQAMDSSHVALVSLLLRSEGFEKYRCDRNLSLGMNLKSLSKILK   80 (260)
T ss_pred             CchhHHHHHHHHHHHHHHHHHHHhccCcccccCceEEEEecccceEEEEEEeeccccceeccCCccccccCHHHHHHHHc
Confidence            99999999999999999999999999999999999999999999999999999999999999999999999999999999


Q ss_pred             ccCCCceEEEEEcCCCCeEEEEEeCCCCCeEEEEEEeeeecCCCCCCCCcceeeEEEEEehHHHHHHHHHhhccCCEEEE
Q 024527           81 CAGNDDIITLKADDGSDTVTFMFESPTQDKIADFEMKLMDIDSEHLGIPEAEYHAIVRMPSAEFARICKDLASIGDTVVI  160 (266)
Q Consensus        81 ~~~~~d~l~l~~~~~~~~l~i~~~~~~~~~~~~~~l~li~~~~~~~~ip~~~~~~~i~~~s~~~~~~i~~~~~~~d~v~i  160 (266)
                      +++++|.++|..+++++.+.+.|++.+.+++..|.++|++.+.+.+.||+.+|++.++||+.+|+++|++++.+||.|.|
T Consensus        81 canned~~Tlkaed~~dti~l~fe~~~~dki~dy~lKLmdiD~ehl~IPe~dy~~~~~mPa~EF~ricrdls~f~Dsv~I  160 (260)
T KOG1636|consen   81 CANNEDTVTLKAEDNPDTITLMFESPKQDKIADYELKLMDIDSEHLGIPEQDYDAVVTMPAGEFSRICRDLSTFSDSVVI  160 (260)
T ss_pred             cccCCCceEEEeecCCceEEEEEECCCCCcceeeEEEeeeccHHHcCCCcccceEEEEccHHHHHHHHHHHhhhcCeEEE
Confidence            99999999999999999999999999999999999999999999999999999999999999999999999999999999


Q ss_pred             EEeCCeEEEEEEecceeEEEEEeecccCCCCCCceEEEecCcEEEEEehHHHHhccccCCCCceEEEEecCCCcEEEEEE
Q 024527          161 SVTKEGVKFSTRGDIGTANIVLRQNTTVDKPEEATIIEMHEPVSLTFALRYMNSFTRATPLSNTVTISLSSELPVVVEYK  240 (266)
Q Consensus       161 ~~~~~~l~~s~~gd~g~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~f~~~yL~~~~k~~~ls~~v~l~~~~~~Pl~l~~~  240 (266)
                      .+++..+.|+++||.|++++.+++..+.+++++.+.+++++|++.+|.+|||..|.|+.+|++.|+|+++++.|+.++|.
T Consensus       161 ~~tkegv~F~~~Gdig~asi~l~~~~~~d~~e~av~iE~~~pVtltfa~kYln~ftKatpLs~rV~lsls~~~P~~vey~  240 (260)
T KOG1636|consen  161 SATKEGVKFSAKGDIGTASITLSQCTAVDKPEEAVKIEMNEPVTLTFALKYLNQFTKATPLSDRVTLSLSSEVPVVVEYK  240 (260)
T ss_pred             EEecceeEEEecccccceeEEEccCCCCCCccceEEEEecCcchhhhHHHHHHHhhccccccceEEEEecCCCcEEEEEe
Confidence            99999999999999999999999999999999999999999999999999999999999999999999999999999999


Q ss_pred             eCCcEEEEEEEcccCCCCc
Q 024527          241 IAEMGYIRFYLAPKIEEDE  259 (266)
Q Consensus       241 i~~~g~~~~~iaPr~~~~~  259 (266)
                      +.+.|+++||+||++++++
T Consensus       241 i~~~g~lr~YLAPKieD~e  259 (260)
T KOG1636|consen  241 IEDMGHLRYYLAPKIEDEE  259 (260)
T ss_pred             cccCceEEEEEccccCCCC
Confidence            9999999999999999443

>TIGR00590 pcna proliferating cell nuclear antigen (pcna)

Probab=100.00  E-value=1.9e-60  Score=411.06  Aligned_cols=259  Identities=67%  Similarity=1.109  Sum_probs=246.9

Q ss_pred             CeeEEEcChhhHHHHHHHHHhhhceeeEEEeCCceEEEEECCCCeEEEEEEecCCCcceeeeCCcEEEEEEhhhHHHHhc
Q 024527            1 MLELRLVQGSLLKKVLEAIKELVNDANFDCSATGFSLQAMDSSHVALVALLLRSEGFEHYRCDRNISMGMNLNNVSKMLK   80 (266)
Q Consensus         1 mf~a~~~~~~~~k~i~~~l~~l~~~~~~~~~~~gl~~~a~D~~r~a~v~~~l~~~~F~~y~~~~~~~~gi~l~~L~~ilk   80 (266)
                      ||+|++.+|+.||++++++++++++++|+++++||+++|||++||||+++.|++++|++|+|+++.++|||++.|.|+||
T Consensus         1 Mfea~~~~a~~~k~i~eai~~lv~e~~~~~t~~Gi~~~amD~s~Valv~l~l~~~~F~~Y~~d~~~~~gv~l~~l~kiLk   80 (259)
T TIGR00590         1 MFEARLEQASLLKKILEAIKDLVNDANFDCSESGISLQAMDSSHVSLVSLTLRSEGFDTYRCDRNLALGVNLTSLSKILK   80 (259)
T ss_pred             CeEEEEccHHHHHHHHHHHHHHhceeeEEECCCeEEEEEEcCCcEEEEEEEcCHHhCceEecCCceEEEEEHHHHHHHHh
Confidence            99999999999999999999999999999999999999999999999999999999999999999999999999999999


Q ss_pred             ccCCCceEEEEEcCCCCeEEEEEeCCCCCeEEEEEEeeeecCCCCCCCCcceeeEEEEEehHHHHHHHHHhhccCCEEEE
Q 024527           81 CAGNDDIITLKADDGSDTVTFMFESPTQDKIADFEMKLMDIDSEHLGIPEAEYHAIVRMPSAEFARICKDLASIGDTVVI  160 (266)
Q Consensus        81 ~~~~~d~l~l~~~~~~~~l~i~~~~~~~~~~~~~~l~li~~~~~~~~ip~~~~~~~i~~~s~~~~~~i~~~~~~~d~v~i  160 (266)
                      +++++|.+.|+++++++.|.|.+++.+.++.+.|.+++++++.+++++|+.+|+++++|+|+.|+++|++++.+||.|+|
T Consensus        81 ~~~~~d~l~l~~~~~~~~l~i~~~~~~~~~~~~f~l~l~d~~~e~l~iP~~e~~~~v~m~s~~f~~~~kdl~~v~d~v~i  160 (259)
T TIGR00590        81 CANNEDIVTLKAEDNADTLILVFESPKQDKISDYELKLMDIDVEHLGIPEQEYDCVVEMPSSEFARICRDLSQFSDSVVI  160 (259)
T ss_pred             ccCCCCEEEEEecCCCCEEEEEEEcCCCCeEEEEEEEeeecccccCCCCCCceeEEEEEEHHHHHHHHHHHHHcCCEEEE
Confidence            99999999999988888999999988778899999999999999999999999999999999999999999999999999


Q ss_pred             EEeCCeEEEEEEecceeEEEEEeecccCCCCCCceEEEecCcEEEEEehHHHHhccccCCCCceEEEEecCCCcEEEEEE
Q 024527          161 SVTKEGVKFSTRGDIGTANIVLRQNTTVDKPEEATIIEMHEPVSLTFALRYMNSFTRATPLSNTVTISLSSELPVVVEYK  240 (266)
Q Consensus       161 ~~~~~~l~~s~~gd~g~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~f~~~yL~~~~k~~~ls~~v~l~~~~~~Pl~l~~~  240 (266)
                      .++++++.|+++||.|++++.++......++.+.+.++++++++++|+++||+.++|++++|++|+|+|++++||+|+|.
T Consensus       161 ~~~~~~~~f~~~Gd~g~~~~~~~~~~~~~~~~~~~~i~~~~~~~~~y~l~YL~~~~Ka~~ls~~V~l~~~~~~Pl~l~y~  240 (259)
T TIGR00590       161 SCTKEGVKFSAKGDIGSGNVKLKQTSDTDKEEEAVTIEMKEPVTLTFAIKYLNLFTKATPLSDRVTLSMSNDVPLVVEYK  240 (259)
T ss_pred             EEeCCEEEEEEEecccEEEEEEecCCCCCCCcceEEEEecCceeeeeeHHHHHHhhhhccCCCeEEEEEcCCCCEEEEEE
Confidence            99999999999999999999997654444555556688899999999999999999999999999999999999999999


Q ss_pred             eCCcEEEEEEEcccCCCCc
Q 024527          241 IAEMGYIRFYLAPKIEEDE  259 (266)
Q Consensus       241 i~~~g~~~~~iaPr~~~~~  259 (266)
                      ++++|+++||||||+++|+
T Consensus       241 i~~~g~l~f~lAPrie~~~  259 (259)
T TIGR00590       241 IKDMGFLRFFLAPKIEDEE  259 (259)
T ss_pred             eCCCeEEEEEEcCccCCCC
Confidence            9888999999999999874

All proteins in this family for which functions are known form sliding DNA clamps that are used in DNA replication processes. This family is based on the phylogenomic analysis of JA Eisen (1999, Ph.D. Thesis, Stanford University).

>PHA03383 PCNA-like protein; Provisional

Probab=100.00  E-value=4.7e-59  Score=400.95  Aligned_cols=251  Identities=28%  Similarity=0.613  Sum_probs=235.7

Q ss_pred             CeeEEEcChhhHHHHHHHHHhhhceeeEEEeCCceEEEEECCCCeEEEEEEecCCCcceeeeCCcEEEEEEhhhHHHHhc
Q 024527            1 MLELRLVQGSLLKKVLEAIKELVNDANFDCSATGFSLQAMDSSHVALVALLLRSEGFEHYRCDRNISMGMNLNNVSKMLK   80 (266)
Q Consensus         1 mf~a~~~~~~~~k~i~~~l~~l~~~~~~~~~~~gl~~~a~D~~r~a~v~~~l~~~~F~~y~~~~~~~~gi~l~~L~~ilk   80 (266)
                      ||+|++.+|+.||++++++++++++++|+++++||+++|||++||||+++.|++++|++|+|+++.++|+|++.|.|+||
T Consensus         7 mfe~~~~~a~~~K~iieai~~lv~e~~f~~t~~Gi~lqamD~shVaLv~l~L~~~~F~~Y~~d~~~~iGv~~~~l~KILk   86 (262)
T PHA03383          7 LFHIRTIQGSVIKSLFDVLKEILHDVNIFFRPTGVYISALDGAKVSLVHMKLDAESFEEYHCDQTYEIGVNVSNMFKLLR   86 (262)
T ss_pred             EEEEEecchHHHHHHHHHHHHHhceEEEEECCCcEEEEEECCCcEEEEEEEeCHHhCceEecCCceEEEEEHHHHHHHHh
Confidence            89999999999999999999999999999999999999999999999999999999999999999999999999999999


Q ss_pred             ccCCCceEEEEE-cCCCCeEEEEEeCCCCCeEEEEEEeeeecCCCCCCCCcceeeEEEEEehHHHHHHHHHhhccCCEEE
Q 024527           81 CAGNDDIITLKA-DDGSDTVTFMFESPTQDKIADFEMKLMDIDSEHLGIPEAEYHAIVRMPSAEFARICKDLASIGDTVV  159 (266)
Q Consensus        81 ~~~~~d~l~l~~-~~~~~~l~i~~~~~~~~~~~~~~l~li~~~~~~~~ip~~~~~~~i~~~s~~~~~~i~~~~~~~d~v~  159 (266)
                      +++++|.+.|++ +++++.|.|.+++.+.+++++|.+++++++.+++++|+.+|+++++|+|++|+++|++++.+||.|+
T Consensus        87 ~a~~~D~l~l~~~~~~~~~l~i~~~~~~~~~~~~f~l~Lidi~~e~l~iP~~e~~~~v~m~s~~f~~i~kdl~~igD~v~  166 (262)
T PHA03383         87 TAGSHDSILFRYLKNSPHFLEITIQNFEKNSLTKFQLKLIEIDSSRIEVPDVEFDTIIILPSNYFQRLCRDMSNITDDLE  166 (262)
T ss_pred             ccCCCCEEEEEecCCCCCEEEEEEEeCCCCcEEEEEEEccccCcccCCCCCCCccEEEEEEHHHHHHHHHHHHHcCCeEE
Confidence            999999999986 6777799999999888889999999999999999999999999999999999999999999999999


Q ss_pred             EEEeCCeEEEE----EEecceeEEEEEeecccCCCCCCceEEEecCcEEEEEehHHHHhccccCCCCceEEEEecCCCcE
Q 024527          160 ISVTKEGVKFS----TRGDIGTANIVLRQNTTVDKPEEATIIEMHEPVSLTFALRYMNSFTRATPLSNTVTISLSSELPV  235 (266)
Q Consensus       160 i~~~~~~l~~s----~~gd~g~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~f~~~yL~~~~k~~~ls~~v~l~~~~~~Pl  235 (266)
                      |.++++.+.|+    ++||.|.+++.++..     .+..+.+..+++++.+|+++||.+|+|+.++|++|+|+|++++||
T Consensus       167 i~~~~~~v~f~~~~~~~Gd~~~~~~~~~~~-----~~~~v~~~~~~~~~~~ysl~YL~~~~Ka~~ls~~V~i~l~~d~Pl  241 (262)
T PHA03383        167 ITKKGKEVSFRSDYTCVTDFASQETIIGDS-----DNGQITCNESPDYTGKFSLKYLTSFTKASGMSSSVEIYLKESNPL  241 (262)
T ss_pred             EEEeCCEEEEEEcccccccccceEEEecCC-----CCCceEEecCCceEEEEeHHHHHHhhccccCCCeEEEEEcCCCCE
Confidence            99999999999    999999999998532     233343333678999999999999999999999999999999999


Q ss_pred             EEEEEeCCcEEEEEEEcccCC
Q 024527          236 VVEYKIAEMGYIRFYLAPKIE  256 (266)
Q Consensus       236 ~l~~~i~~~g~~~~~iaPr~~  256 (266)
                      +++|.++++|++.||||||+.
T Consensus       242 ~ley~i~~~G~l~fyLAPri~  262 (262)
T PHA03383        242 ILKYNVGSLGNLKFVIAPKVS  262 (262)
T ss_pred             EEEEEeCCCcEEEEEEccccC
Confidence            999999888999999999974

>PTZ00483 proliferating cell nuclear antigen; Provisional

Probab=100.00  E-value=1.2e-57  Score=392.02  Aligned_cols=250  Identities=34%  Similarity=0.604  Sum_probs=228.9

Q ss_pred             CeeEEEcChhhHHHHHHHHHhhhceeeEEEeCCceEEEEECCCCeEEEEEEecCCCcceeeeCCcEEEEEEhhhHHHHhc
Q 024527            1 MLELRLVQGSLLKKVLEAIKELVNDANFDCSATGFSLQAMDSSHVALVALLLRSEGFEHYRCDRNISMGMNLNNVSKMLK   80 (266)
Q Consensus         1 mf~a~~~~~~~~k~i~~~l~~l~~~~~~~~~~~gl~~~a~D~~r~a~v~~~l~~~~F~~y~~~~~~~~gi~l~~L~~ilk   80 (266)
                      ||+|++. |+.||+++++++.++++++|+++++||+++|||++||||+++.|++++|++|+|+++.++|||+..|.|+||
T Consensus         1 Mfea~~~-a~~lK~i~eai~~lv~e~~f~~~e~Gi~lqAmD~shVaLV~l~L~~~~Fe~Y~cd~~~~lGinl~~l~KiLk   79 (264)
T PTZ00483          1 MFECRLD-GMFLRRLFETLKDICTDVSIDCSENGLKMQAMDNSHISLIHLNLAPDFFQLYRCDKPCVLGLNISFMLKILS   79 (264)
T ss_pred             CeEEEEe-HHHHHHHHHHHHHHhheeEEEECCCcEEEEEECCCcEEEEEEEcCHHhCeEEecCCCeEEEEEHHHHHHHHh
Confidence            9999996 999999999999999999999999999999999999999999999999999999999899999999999999


Q ss_pred             ccCCCceEEEE-EcCC-CCeEEEEEeCCCCC-----eEEEEEEeeeecCCCCCCCCcceeeEEEEEehHHHHHHHHHhhc
Q 024527           81 CAGNDDIITLK-ADDG-SDTVTFMFESPTQD-----KIADFEMKLMDIDSEHLGIPEAEYHAIVRMPSAEFARICKDLAS  153 (266)
Q Consensus        81 ~~~~~d~l~l~-~~~~-~~~l~i~~~~~~~~-----~~~~~~l~li~~~~~~~~ip~~~~~~~i~~~s~~~~~~i~~~~~  153 (266)
                      +++++|.+.|+ .++. ...+.|++.+...+     +++.|.++|++++.+++++|+.+|+++++|+|++|+++|++++.
T Consensus        80 ~a~~~D~l~l~~~~~~~~~~~~i~~~~~~~~~~~~~~~~~f~l~Lidi~~e~l~iP~~e~~~~v~m~s~~f~~i~kdl~~  159 (264)
T PTZ00483         80 VVKEKSTIYLFRGDNTEDPVLNIRIIEEEGQNSLESDSLEAQVKLINVQREHLEIPQCEYHCKCVMNSKKFQEFAKYLHS  159 (264)
T ss_pred             hcCCCCEEEEEeccCCCCceEEEEEeccccccccccceEEEEEEccccCcccCCCCCCCccEEEEEEHHHHHHHHHHHHH
Confidence            99999999997 4333 33566655444322     67799999999999999999999999999999999999999999


Q ss_pred             cCCEEEEEEeCCeEEEEEEecceeEEEEEeecccCCCCCCceEEEecCcEEEEEehHHHHhccccCCCCceEEEEecCCC
Q 024527          154 IGDTVVISVTKEGVKFSTRGDIGTANIVLRQNTTVDKPEEATIIEMHEPVSLTFALRYMNSFTRATPLSNTVTISLSSEL  233 (266)
Q Consensus       154 ~~d~v~i~~~~~~l~~s~~gd~g~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~f~~~yL~~~~k~~~ls~~v~l~~~~~~  233 (266)
                      +||.|+|.++++++.|+++||.|+++..++      ++...+.++++++++.+|+++||.+|+|+.++|++|+|+|++++
T Consensus       160 vsD~v~i~~~~~~v~f~a~Gd~~~~~~~l~------~~~~~v~~~~~~~v~~~fsl~YL~~f~Ka~~lsd~V~i~l~~~~  233 (264)
T PTZ00483        160 IGDTVSISMKKDEMRLETEGEGIKASKQFH------NDVGDVRVTSTESLSQEFATRYLVLFSKATSLADEVSINLSAGI  233 (264)
T ss_pred             cCCEEEEEEECCEEEEEEeecCcEEEEEEc------cCCCceEEEecCcchheehHHHHHHhhccccCCCeEEEEEcCCC
Confidence            999999999999999999999999999984      22334667789999999999999999999999999999999999


Q ss_pred             cEEEEEEeC-------CcEEEEEEEcccCCC
Q 024527          234 PVVVEYKIA-------EMGYIRFYLAPKIEE  257 (266)
Q Consensus       234 Pl~l~~~i~-------~~g~~~~~iaPr~~~  257 (266)
                      ||+++|.++       ++|+++||||||+++
T Consensus       234 Pl~ley~i~~~~~~~~~~G~l~fyLAPrie~  264 (264)
T PTZ00483        234 PLSVKFNFKDPLTDLQDSSFINFYLAPNIEE  264 (264)
T ss_pred             CEEEEEEecccccCCCCceEEEEEEccccCC
Confidence            999999994       579999999999975

>PRK01115 DNA polymerase sliding clamp; Validated

Probab=100.00  E-value=1e-45  Score=318.38  Aligned_cols=246  Identities=27%  Similarity=0.512  Sum_probs=226.3

Q ss_pred             CeeEEEcChhhHHHHHHHHHhhhceeeEEEeCCceEEEEECCCCeEEEEEEecCCCcceeeeCCcEEEEEEhhhHHHHhc
Q 024527            1 MLELRLVQGSLLKKVLEAIKELVNDANFDCSATGFSLQAMDSSHVALVALLLRSEGFEHYRCDRNISMGMNLNNVSKMLK   80 (266)
Q Consensus         1 mf~a~~~~~~~~k~i~~~l~~l~~~~~~~~~~~gl~~~a~D~~r~a~v~~~l~~~~F~~y~~~~~~~~gi~l~~L~~ilk   80 (266)
                      ||+|++.+++.||+++++++.+++++.|+++++||+++|+|++|+|++.+.++++.|++|+|..+..++++++.|.++||
T Consensus         1 ~~~~~~~~~~~lk~i~~~i~~l~~~v~~~~~~~~l~~~atD~~Rla~~~~~~~~~~f~~~~~~~~~~~~v~l~~l~~il~   80 (247)
T PRK01115          1 MMKAVYPDAKDFKYIIDAISKLVDEAKFKFTEDGIRLRALDPAKVAMVDLELPKEAFEEYEVDEEEKIGVDLEDLKKILK   80 (247)
T ss_pred             CeEEEecchHHHHHHHHHHHHHhceEEEEECCCcEEEEEECCccEEEEEEEeCHHhCccEecCCCeEEEEEHHHHHHHHh
Confidence            99999999999999999999999999999999999999999999999999999999999999999889999999999999


Q ss_pred             ccCCCceEEEEEcCCCCeEEEEEeCCCCCeEEEEEEeeeecCCCCCCCCcceeeEEEEEehHHHHHHHHHhhccCCEEEE
Q 024527           81 CAGNDDIITLKADDGSDTVTFMFESPTQDKIADFEMKLMDIDSEHLGIPEAEYHAIVRMPSAEFARICKDLASIGDTVVI  160 (266)
Q Consensus        81 ~~~~~d~l~l~~~~~~~~l~i~~~~~~~~~~~~~~l~li~~~~~~~~ip~~~~~~~i~~~s~~~~~~i~~~~~~~d~v~i  160 (266)
                      ++++++.+.|.++++.+++.|.+++   ++.+.|.++|+++++|+..+|+.+|+++++|++++|+++++|++.+++.|+|
T Consensus        81 ~~~~~~~v~i~~~~~~~~l~~~~~~---~~~~~~~~~Lieg~~p~~~v~p~~~~~~i~~~~~~l~~~~~r~~~~~~~v~i  157 (247)
T PRK01115         81 RAKKGDKLELELDEEENKLKITFGG---EKTREFSLPLLDVSSEEPPEPNLELPVKAVILGDDLKDAIKDAELVSDHIEL  157 (247)
T ss_pred             hCCCCCEEEEEEcCCCCEEEEEEec---CcEEEEEEEeeccCCCCCCCCCCcccEEEEEEHHHHHHHHHHHHhcCCeEEE
Confidence            9988889999997666799999987   4567999999999999887777899999999999999999999999999999


Q ss_pred             EEeCCeEEEEEEecceeEEEEEeecccCCCCCCce-EEEecCcEEEEEehHHHHhccccCCCCceEEEEecCCCcEEEEE
Q 024527          161 SVTKEGVKFSTRGDIGTANIVLRQNTTVDKPEEAT-IIEMHEPVSLTFALRYMNSFTRATPLSNTVTISLSSELPVVVEY  239 (266)
Q Consensus       161 ~~~~~~l~~s~~gd~g~~~~~~~~~~~~~~~~~~~-~~~~~~~~~~~f~~~yL~~~~k~~~ls~~v~l~~~~~~Pl~l~~  239 (266)
                      .++++.++|++.|+ |++.+++..      .++.. .+++.++++++||.+||.+++|+++.+++|.|+|+++.|+.+++
T Consensus       158 ~~~~~~l~lsa~~~-g~a~~~i~~------~~~~~~~~~g~e~~~i~fn~~YL~d~lk~~~~~~~V~l~~~~~~P~~l~~  230 (247)
T PRK01115        158 EADEDKFYIEAEGE-GEDEVELSL------DSGPLIELSVEEPAKSSYSLDYLKDMVKATSASDEVTIEFGSDMPLKLEF  230 (247)
T ss_pred             EEeCCEEEEEEEeC-CceEEEEec------CCCceEEEEecCceeEEEhHHHHHHhhccccCCCeEEEEECCCCCEEEEE
Confidence            99999999999999 999998842      12222 24545789999999999999999997799999999999999999


Q ss_pred             EeCCcEEEEEEEcccCC
Q 024527          240 KIAEMGYIRFYLAPKIE  256 (266)
Q Consensus       240 ~i~~~g~~~~~iaPr~~  256 (266)
                      .++++|++.||||||++
T Consensus       231 ~~~~~~~~~~~i~P~~~  247 (247)
T PRK01115        231 EIAGGGKVTYLLAPRIE  247 (247)
T ss_pred             EeCCCeEEEEEEecccC
Confidence            88888999999999985

>cd00577 PCNA Proliferating Cell Nuclear Antigen (PCNA) domain found in eukaryotes and archaea

Probab=100.00  E-value=3.6e-38  Score=270.81  Aligned_cols=246  Identities=52%  Similarity=0.867  Sum_probs=221.1

Q ss_pred             EEcChhhHHHHHHHHHhhhceeeEEEeCCceEEEEECCCCeEEEEEEecCCCcceeeeCCcEEEEEEhhhHHHHhcccCC
Q 024527            5 RLVQGSLLKKVLEAIKELVNDANFDCSATGFSLQAMDSSHVALVALLLRSEGFEHYRCDRNISMGMNLNNVSKMLKCAGN   84 (266)
Q Consensus         5 ~~~~~~~~k~i~~~l~~l~~~~~~~~~~~gl~~~a~D~~r~a~v~~~l~~~~F~~y~~~~~~~~gi~l~~L~~ilk~~~~   84 (266)
                      ++.+++.|++++++++++.+++.|+++++||+++++|++|++++++.++++.|++|+|+.+..++|+++.|.+++|.++.
T Consensus         2 ~~~~~~~l~~~~~~l~~i~~~v~~~~~~~gl~~~a~d~~r~~~~~~~l~~~~F~~y~~~~~~~~~i~~k~l~~~lk~~~~   81 (248)
T cd00577           2 TLSNAKLLKKIVDALSKLVDEANFDITEDGISLQAMDSSHVALVSLFLPKELFEEYRCDEEISLGVNLKSLLKILKCAGN   81 (248)
T ss_pred             cccchHHHHHHHHHHHHHhcEEeEEECCCceEEEEEcCCcEEEEEEEechhhCeEEecCCceEEEEEHHHHHHHHhhCCC
Confidence            56789999999999999999999999999999999999999999999999999999999889999999999999999988


Q ss_pred             CceEEEEEcCCCCeEEEEEeCCCCCeEEEEEEeeeecCCCCCCCCcceeeEEEEEehHHHHHHHHHhhccCCEEEEEEeC
Q 024527           85 DDIITLKADDGSDTVTFMFESPTQDKIADFEMKLMDIDSEHLGIPEAEYHAIVRMPSAEFARICKDLASIGDTVVISVTK  164 (266)
Q Consensus        85 ~d~l~l~~~~~~~~l~i~~~~~~~~~~~~~~l~li~~~~~~~~ip~~~~~~~i~~~s~~~~~~i~~~~~~~d~v~i~~~~  164 (266)
                      .+.+.+.++++ +++.|.+++...+..+.|.+++++++++++..|..+++++++|+++.|++++++++.+++.|+|.+++
T Consensus        82 ~~~v~i~~~~~-~~l~i~~~~~~~~~~~~~~~~li~~~~~~~~~~~~~~~~~i~i~~~~L~~~i~~~~~~~~~i~i~~~~  160 (248)
T cd00577          82 EDCVTLRADDE-DPLKILFESSKGDVTSEFSLKLMDIDSEQLPIPELEYDATVTLPSDELKDIVRDLESISDSVTISASK  160 (248)
T ss_pred             CCEEEEEecCC-CeEEEEEEcCCCceEEEEEEEccccCcccCCCCCCceeEEEEEEHHHHHHHHHHHHHcCCEEEEEEcC
Confidence            88999999766 68989888765566789999999999998866667999999999999999999999999999999999


Q ss_pred             CeEEEEEEecceeEEEEEeecccCCCCCCc-eEEEecCcEEEEEehHHHHhccccCCCCceEEEEecCCCcEEEEEEeCC
Q 024527          165 EGVKFSTRGDIGTANIVLRQNTTVDKPEEA-TIIEMHEPVSLTFALRYMNSFTRATPLSNTVTISLSSELPVVVEYKIAE  243 (266)
Q Consensus       165 ~~l~~s~~gd~g~~~~~~~~~~~~~~~~~~-~~~~~~~~~~~~f~~~yL~~~~k~~~ls~~v~l~~~~~~Pl~l~~~i~~  243 (266)
                      +.+.|++.|+.|.+.......     .... ..+.+++++++.|+.+||.+++|+++++++|.|+++.++|+.+++.+++
T Consensus       161 ~~l~lss~~~~~~~~~~~~~~-----~~~~~~~~~~~~~~~~~fn~~yL~~~l~~~~~s~~v~i~~~~~~p~~i~~~~~~  235 (248)
T cd00577         161 DGFKFSAEGELGGASVTLLPK-----DSDLLVTIECSEPVSSTYSLKYLKDFTKAAPLSDKVTLSFGSDGPLSLEFKIAD  235 (248)
T ss_pred             CEEEEEEeecCCceEEEEecC-----CCCceEEEEeCCceEEEEhHHHHHHHhhhcccCCeEEEEEcCCCCEEEEEEcCC
Confidence            999999999867665555321     1111 2245689999999999999999999889999999999999999999987


Q ss_pred             cEEEEEEEcccCC
Q 024527          244 MGYIRFYLAPKIE  256 (266)
Q Consensus       244 ~g~~~~~iaPr~~  256 (266)
                      .|.++|||||+++
T Consensus       236 ~~~~~f~lap~~~  248 (248)
T cd00577         236 GGHLTFYLAPKIE  248 (248)
T ss_pred             CcEEEEEEccccC
Confidence            8999999999874

These polymerase processivity factors play a role in DNA replication and repair. PCNA encircles duplex DNA in its central cavity, providing a DNA-bound platform for the attachment of the polymerase. The trimeric PCNA ring is structurally similar to the dimeric ring formed by the DNA polymerase processivity factors in bacteria (beta subunit DNA polymerase III holoenzyme) and in bacteriophages (catalytic subunits in T4 and RB69). This structural correspondence further substantiates the mechanistic connection between eukaryotic and prokaryotic DNA replication that has been suggested on biochemical grounds. PCNA is also involved with proteins involved in cell cycle processes such as DNA repair and apoptosis. Many of these proteins contain a highly conserved motif known as the PIP-box (PCNA interacting protein box) which contains the sequence Qxx[LIM]xxF[FY].

>PF00705 PCNA_N: Proliferating cell nuclear antigen, N-terminal domain; InterPro: IPR022648 Proliferating cell nuclear antigen (PCNA), or cyclin, is a non-histone acidic nuclear protein [] that plays a key role in the control of eukaryotic DNA replication []

Probab=99.97  E-value=1.5e-30  Score=200.80  Aligned_cols=124  Identities=47%  Similarity=0.816  Sum_probs=115.9

Q ss_pred             CeeEEEcChhhHHHHHHHHHhhhceeeEEEeCCceEEEEECCCCeEEEEEEecCCCcceeeeCCcEEEEEEhhhHHHHhc
Q 024527            1 MLELRLVQGSLLKKVLEAIKELVNDANFDCSATGFSLQAMDSSHVALVALLLRSEGFEHYRCDRNISMGMNLNNVSKMLK   80 (266)
Q Consensus         1 mf~a~~~~~~~~k~i~~~l~~l~~~~~~~~~~~gl~~~a~D~~r~a~v~~~l~~~~F~~y~~~~~~~~gi~l~~L~~ilk   80 (266)
                      ||+|++.+|..||+++++++.++++++|+++++||+++|||++|+||+++.+|+++|++|+|+++.++|||++.|.++||
T Consensus         1 Mfea~~~~a~~~K~i~eal~~lv~e~~f~~~~~Gi~~~amD~s~Valv~l~l~~~~F~~Y~~d~~~~igvnl~~l~kiLk   80 (127)
T PF00705_consen    1 MFEAKFSDASLFKKIFEALKDLVDEANFEFTEDGISLQAMDPSHVALVDLELPSEAFEEYRCDKELSIGVNLSDLKKILK   80 (127)
T ss_dssp             SEEEEESSHHHHHHHHHHHTTTCSEEEEEEESSEEEEEEE-TTSSEEEEEEEEGGGSSEEEESSSEEEEEEHHHHHHHHT
T ss_pred             CeEEEEcchHHHHHHHHHHHHHhhEEEEEEccCCEEEEEECCCcEEEEEEEechhcceEEEcCCCEEEEEEHHHHHHHHh
Confidence            99999999999999999999999999999999999999999999999999999999999999999999999999999999


Q ss_pred             ccCCCceEEEEEcCCCCeEEEEEeCCCCCeEE--EEEEeeeecCCC
Q 024527           81 CAGNDDIITLKADDGSDTVTFMFESPTQDKIA--DFEMKLMDIDSE  124 (266)
Q Consensus        81 ~~~~~d~l~l~~~~~~~~l~i~~~~~~~~~~~--~~~l~li~~~~~  124 (266)
                      +++++|.+.|+++++++.+.+.+++.++++.+  .|.++++|.+.+
T Consensus        81 ~~~~~D~l~l~~~~~~~~l~i~~~~~~~~~~~~~~~~l~~id~d~e  126 (127)
T PF00705_consen   81 RAKKDDSLELESDEEPDKLNIVFENEKKGRVREFSLKLMLIDIDSE  126 (127)
T ss_dssp             TSSTTSEEEEEEESSSSEEEEEEEETTSSEEEEEEEEEEEBEEEEE
T ss_pred             hccCCCEEEEEEeCCCCEEEEEEEcCCCCeEEeeeeEEEEeccccC
Confidence            99999999999998888999999999988888  556666666543

It acts as a co-factor for DNA polymerase delta, which is responsible for leading strand DNA replication []. The sequence of PCNA is well conserved between plants and animals, indicating a strong selective pressure for structure conservation, and suggesting that this type of DNA replication mechanism is conserved throughout eukaryotes []. In Saccharomyces cerevisiae (Baker's yeast), POL30, is associated with polymerase III, the yeast analog of polymerase delta. Homologues of PCNA have also been identified in the archaea (Euryarchaeota and Crenarchaeota) and in Paramecium bursaria Chlorella virus 1 (PBCV-1) and in nuclear polyhedrosis viruses. ; GO: 0003677 DNA binding, 0030337 DNA polymerase processivity factor activity, 0006275 regulation of DNA replication, 0043626 PCNA complex; PDB: 1U76_E 2ZVK_B 1VYJ_A 1UL1_B 3P87_D 2ZVM_C 2ZVL_A 1AXC_C 3VKX_A 3TBL_B ....

>PF02747 PCNA_C: Proliferating cell nuclear antigen, C-terminal domain; InterPro: IPR022649 Proliferating cell nuclear antigen (PCNA), or cyclin, is a non-histone acidic nuclear protein [] that plays a key role in the control of eukaryotic DNA replication []

Probab=99.97  E-value=3.7e-29  Score=194.03  Aligned_cols=127  Identities=49%  Similarity=0.895  Sum_probs=113.8

Q ss_pred             CCcceeeEEEEEehHHHHHHHHHhhccCCEEEEEEeCCeEEEEEEecceeEEEEEeecccCCCCCCceEEEecCcEEEEE
Q 024527          128 IPEAEYHAIVRMPSAEFARICKDLASIGDTVVISVTKEGVKFSTRGDIGTANIVLRQNTTVDKPEEATIIEMHEPVSLTF  207 (266)
Q Consensus       128 ip~~~~~~~i~~~s~~~~~~i~~~~~~~d~v~i~~~~~~l~~s~~gd~g~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~f  207 (266)
                      +|+.+|+++++|+|++|+++|++++.+||.|+|.++++++.|+++||.|++++.++.....+++++.+.+++.++++..|
T Consensus         2 iP~~e~~~~v~m~S~~f~~~~kdl~~v~d~v~i~~~~~~~~f~~~Gd~~~~~v~~~~~~~~~~~~~~~~i~~~~~~~~~f   81 (128)
T PF02747_consen    2 IPDLEYDATVTMPSSEFKKICKDLSSVGDTVTISADKDSVIFSAEGDIGSAEVEFKETESSEDDEELIEIEVKEPVSSSF   81 (128)
T ss_dssp             ---SS-SEEEEEEHHHHHHHHHHHHTTCSEEEEEEETTEEEEEEEESSEEEEEEEEEEEEETTCTCESEEEESSEEEEEE
T ss_pred             CCCccceEEEEEEHHHHHHHHHHHHhcCCEEEEEEeCCEEEEEEEeccCcEEEEEeeccccccccccceeeeccceeeEE
Confidence            79999999999999999999999999999999999999999999999999999887654444555566788999999999


Q ss_pred             ehHHHHhccccCCCCceEEEEecCCCcEEEEEEeCCcEEEEEEEccc
Q 024527          208 ALRYMNSFTRATPLSNTVTISLSSELPVVVEYKIAEMGYIRFYLAPK  254 (266)
Q Consensus       208 ~~~yL~~~~k~~~ls~~v~l~~~~~~Pl~l~~~i~~~g~~~~~iaPr  254 (266)
                      +++||..|+|+++++++|+|+|++++||+|+|.++++|++.|||||+
T Consensus        82 sl~YL~~~~Ka~~ls~~V~l~l~~~~Pl~l~f~~~~~g~l~f~LAPK  128 (128)
T PF02747_consen   82 SLDYLNDFSKAAPLSDEVTLELGEDMPLKLEFELADGGSLKFYLAPK  128 (128)
T ss_dssp             EHHHHHHHGGGGGTTSEEEEEEETTSEEEEEEEETTTEEEEEEE-BB
T ss_pred             eHHHHHhhhccccCCceEEEEEcCCCCEEEEEEeCCCeEEEEEEcCC
Confidence            99999999999999999999999999999999999999999999996

It acts as a co-factor for DNA polymerase delta, which is responsible for leading strand DNA replication []. The sequence of PCNA is well conserved between plants and animals, indicating a strong selective pressure for structure conservation, and suggesting that this type of DNA replication mechanism is conserved throughout eukaryotes []. In Saccharomyces cerevisiae (Baker's yeast), POL30, is associated with polymerase III, the yeast analog of polymerase delta. Homologues of PCNA have also been identified in the archaea (Euryarchaeota and Crenarchaeota) and in Paramecium bursaria Chlorella virus 1 (PBCV-1) and in nuclear polyhedrosis viruses. ; GO: 0003677 DNA binding, 0030337 DNA polymerase processivity factor activity, 0006275 regulation of DNA replication, 0043626 PCNA complex; PDB: 1IZ5_A 1IZ4_A 1GE8_A 1ISQ_A 3A2F_B 1RWZ_A 3P83_A 1RXM_A 1RXZ_A 1SXJ_F ....

>PF02144 Rad1: Repair protein Rad1/Rec1/Rad17; InterPro: IPR003021 REC1 of Ustilago maydis plays a key role in regulating the genetic system of the fungus

Probab=99.96  E-value=1e-25  Score=196.39  Aligned_cols=231  Identities=16%  Similarity=0.292  Sum_probs=189.2

Q ss_pred             CeeEEEcChhhHHHHHHHHHhhhceeeEEEeCCceEEEEECCCCeEEEEEEecCCCcceeee-------------CCcEE
Q 024527            1 MLELRLVQGSLLKKVLEAIKELVNDANFDCSATGFSLQAMDSSHVALVALLLRSEGFEHYRC-------------DRNIS   67 (266)
Q Consensus         1 mf~a~~~~~~~~k~i~~~l~~l~~~~~~~~~~~gl~~~a~D~~r~a~v~~~l~~~~F~~y~~-------------~~~~~   67 (266)
                      +|.|++.+++.|.+++++|. +.+.+.+.++++||++.+ +.+|+.++.+.|+++.|++|.+             +....
T Consensus         1 ~f~A~~~~~~~l~~lL~~I~-~~~~a~v~is~~Gi~~~v-E~~~~~qa~a~l~k~LF~~Y~~~~~~~~~~~~~~~~~~~~   78 (275)
T PF02144_consen    1 IFSASTSNVRHLYQLLKCIA-FKNKATVEISEDGIKFTV-EDSKSIQASAFLDKSLFSEYTFNPPPDADDDDEEEEDEVS   78 (275)
T ss_dssp             -EEEEES-THHHHHHHHTT--SSSEEEEEEETTEEEEEE-EETTTEEEEEEEEGGGSSEEEE------------SSS-EE
T ss_pred             CeEEEECCHHHHHHHHHhcc-cCCeEEEEEcCCEEEEEE-ECCcEEEEEEEEChhhceEEEEeccccccccccCCCCceE
Confidence            69999999999999999999 667899999999999987 5799999999999999999999             23689


Q ss_pred             EEEEhhhHHHHhcccCCCc----------------------eEEEEEcCCCCeEEEEEeCCCCCeEEEEEEeeeecCCC-
Q 024527           68 MGMNLNNVSKMLKCAGNDD----------------------IITLKADDGSDTVTFMFESPTQDKIADFEMKLMDIDSE-  124 (266)
Q Consensus        68 ~gi~l~~L~~ilk~~~~~d----------------------~l~l~~~~~~~~l~i~~~~~~~~~~~~~~l~li~~~~~-  124 (266)
                      |+|+++.|.+||..++.++                      .+.|.|.+.+.+|.+.++..  |.++++.+++++++.+ 
T Consensus        79 F~I~L~~LlecL~ifg~~~~~~~~~~~~~~~~~~~~~~~~~~~~lsY~g~G~pL~l~led~--gv~t~c~i~T~~~~~~~  156 (275)
T PF02144_consen   79 FGINLSALLECLNIFGSSDSSSSSSSSGGDPSRNNASGEPTSCRLSYPGEGSPLVLILEDS--GVTTTCEIRTYEPDDPL  156 (275)
T ss_dssp             EEEEHHHHHHHHTTT-SS--TT-----------------EEEEEEEESSSCCEEEEEEEET--TEEEEEEEEEE------
T ss_pred             EEEEhHHHHHHHHHhCCCCCccccccccccccccccccCCceEEEEEcCCCCeEEEEEEeC--CEEEEEEEEEecCCccc
Confidence            9999999999999987422                      58999999999999999984  8899999999998864 


Q ss_pred             CCCCCcceeeEEEEEehHHHHHHHHHhhcc-CCEEEEEEeC---CeEEEEEEecceeEEEEEeecccCCCCCCceE-EEe
Q 024527          125 HLGIPEAEYHAIVRMPSAEFARICKDLASI-GDTVVISVTK---EGVKFSTRGDIGTANIVLRQNTTVDKPEEATI-IEM  199 (266)
Q Consensus       125 ~~~ip~~~~~~~i~~~s~~~~~~i~~~~~~-~d~v~i~~~~---~~l~~s~~gd~g~~~~~~~~~~~~~~~~~~~~-~~~  199 (266)
                      ++++......+++.|.|+.|++++++++.. ++.+.|.+++   +.+.|+++|..|.+++.++      +..+-++ ++|
T Consensus       157 d~~f~~~~~~~kiimks~~L~~al~eL~~~~~~~l~i~~s~~~~p~f~l~s~G~~G~s~v~fp------~~~~~le~f~~  230 (275)
T PF02144_consen  157 DFPFDRSDVVNKIIMKSDWLRDALSELDWSNSEELTIYISPPDKPHFRLSSKGPLGSSKVDFP------NDSDVLETFEC  230 (275)
T ss_dssp             -----TTTEEEEEEEEHHHHHHHHHTT-TS-CSEEEEEE-S-SSSSEEEEEEETTEEEEEEE-------TTSTSEEEEEE
T ss_pred             CcccccccceeEEEEEhHHHHHHHHHHhhccCCeEEEEEEeCCCCEEEEEEEcCCCeEEEEEC------CCCCceeEEEE
Confidence            566654567899999999999999999999 8899999987   6999999999999999995      2233343 788


Q ss_pred             c---CcEEEEEehHHHHhccccCCCCceEEEEecCCCcEEEEEEe
Q 024527          200 H---EPVSLTFALRYMNSFTRATPLSNTVTISLSSELPVVVEYKI  241 (266)
Q Consensus       200 ~---~~~~~~f~~~yL~~~~k~~~ls~~v~l~~~~~~Pl~l~~~i  241 (266)
                      .   +.....|...+|+.+.||+++|.+|.|+++.++-|.+|+.+
T Consensus       231 ~~~~~~~~~~Y~f~~i~~~~kAl~~ssKv~ir~d~~GlLs~Q~mi  275 (275)
T PF02144_consen  231 YDGEEPVISRYKFSLIKKAMKALKISSKVSIRIDENGLLSLQFMI  275 (275)
T ss_dssp             ----S-EEEEEEHHHHCCHHHHHTTSSEEEEEEESSS-EEEEEEE
T ss_pred             eccCceEEEEEeHHHHHHHHHHhhhccEEEEEeCCCcEEEEEEeC
Confidence            7   56777799999999999999999999999999999999854

REC1 mutants are very sensitive to UV light. Mutation leads to a complex phenotype with alterations in DNA repair, recombination, mutagenesis, meiosis and cell division []. The predicted product of the REC1 gene is a polypeptide of 522 amino acid residues with molecular mass 57kDa. The protein shows 3'--5' exonuclease activity, but only in cells over-expressing REC1 []. While it is distinguishable from the major bacterial nucleases, the protein has certain enzymatic features in common with epsilon, the proof-reading exonuclease subunit of Escherichia coli DNA polymerase III holoenzyme []. The rad1 gene of Schizosaccharomyces pombe comprises three exons and encodes a 37kDa protein that exhibits partial similarity to the REC1 gene of U. maydis []. The two genes share putative functional similarities in their respective organisms.; GO: 0003684 damaged DNA binding, 0008853 exodeoxyribonuclease III activity, 0006281 DNA repair, 0005634 nucleus; PDB: 3G65_B 3GGR_C 3A1J_C.

>PRK14942 DNA polymerase III subunit beta; Provisional

Probab=99.93  E-value=2.4e-23  Score=188.98  Aligned_cols=215  Identities=16%  Similarity=0.202  Sum_probs=181.9

Q ss_pred             ChhhHHHHHHH---------HHhhhceeeEEEeCCceEEEEECCCCeEEEEEEecCCCcceeeeCCcEEEEEEhhhHHHH
Q 024527            8 QGSLLKKVLEA---------IKELVNDANFDCSATGFSLQAMDSSHVALVALLLRSEGFEHYRCDRNISMGMNLNNVSKM   78 (266)
Q Consensus         8 ~~~~~k~i~~~---------l~~l~~~~~~~~~~~gl~~~a~D~~r~a~v~~~l~~~~F~~y~~~~~~~~gi~l~~L~~i   78 (266)
                      ++..|+++++.         .+++++|+.|++.+++++++|+|++|+|+....++...      ..+..+.||.+.|.++
T Consensus       138 ~~~~L~~~i~~t~fa~s~de~R~~L~Gv~~~~~~~~l~~vATDg~RLa~~~~~~~~~~------~~~~~~iIP~k~l~el  211 (373)
T PRK14942        138 PSQLINDMIRKTSYAIAHEDQRFIFNGLYMIPDGTKLIFVGTDGRRLCKIERTLPSPL------QFKDSIIVPAKAVREI  211 (373)
T ss_pred             CHHHHHHHHhhEeEEEeccccchhheeEEEEEeCCEEEEEEechHHeEEEecccCCCC------CCCceEEEehHHHHHH
Confidence            36788888887         55889999999999999999999999999887776421      1135689999999999


Q ss_pred             hcccCCCceEEEEEcCCCCeEEEEEeCCCCCeEEEEEEeeeecCCCCC--CCCcceeeEEEEEehHHHHHHHHHhhccCC
Q 024527           79 LKCAGNDDIITLKADDGSDTVTFMFESPTQDKIADFEMKLMDIDSEHL--GIPEAEYHAIVRMPSAEFARICKDLASIGD  156 (266)
Q Consensus        79 lk~~~~~d~l~l~~~~~~~~l~i~~~~~~~~~~~~~~l~li~~~~~~~--~ip~~~~~~~i~~~s~~~~~~i~~~~~~~d  156 (266)
                      +|.+..++.+++.++++  ++.|.+++.      .+.++|+++.+|+|  .+|+ +++.++++++++|.++++|++.+++
T Consensus       212 ~kll~~~~~v~i~~~~~--~i~f~~~~~------~~~srLieG~yPdy~~vIP~-~~~~~~~v~r~~l~~al~Rv~~~~~  282 (373)
T PRK14942        212 SKMIATSETGNIGLIDE--QIYVSANNI------ELLCKLIEGNFPNYEQVIPK-QTKFSVRISKEEFQVSLRQVLTAAE  282 (373)
T ss_pred             HHhcCCCCcEEEEEcCC--EEEEEECCE------EEEEEecccCCCChhhhCCC-CCCeEEEEeHHHHHHHHHHHHHHhh
Confidence            99987666788888755  788888765      89999999999998  7885 8999999999999999999999863


Q ss_pred             ----EEEEEEeCCeEEEEEEe-cceeEEEEEeecccCCCCCCceEEEe-cCcEEEEEehHHHHhccccCCCCceEEEEec
Q 024527          157 ----TVVISVTKEGVKFSTRG-DIGTANIVLRQNTTVDKPEEATIIEM-HEPVSLTFALRYMNSFTRATPLSNTVTISLS  230 (266)
Q Consensus       157 ----~v~i~~~~~~l~~s~~g-d~g~~~~~~~~~~~~~~~~~~~~~~~-~~~~~~~f~~~yL~~~~k~~~ls~~v~l~~~  230 (266)
                          .|.+..+++.+++++.+ +.|.+.+++             .++. |++.++.||.+||.+++++++ +++|.++|+
T Consensus       283 ~~~~~v~l~~~~~~l~isa~~~~~g~~~e~i-------------~~~~~G~~~~I~fN~~ylld~L~~i~-~~~v~l~~~  348 (373)
T PRK14942        283 EPSRQVRLTFSKNNLNLFAQTLGASEADINM-------------PIEYSGEEITIAFKGEYLMDIFRSID-DNEVKIEFS  348 (373)
T ss_pred             cCCceEEEEEeCCEEEEEEeCCCcceEEEEE-------------EEEecCCcEEEEECHHHHHHHHhcCC-CCeEEEEEC
Confidence                58888899999999875 778887776             2445 678999999999999999998 899999999


Q ss_pred             CC-CcEEEEEEeCCcEEEEEEEcc
Q 024527          231 SE-LPVVVEYKIAEMGYIRFYLAP  253 (266)
Q Consensus       231 ~~-~Pl~l~~~i~~~g~~~~~iaP  253 (266)
                      +. .|+.++. . ++..+.|+|+|
T Consensus       349 ~~~~P~~i~~-~-~~~~~~~liMP  370 (373)
T PRK14942        349 DSSSPVIFKD-P-SDPEFISVIMP  370 (373)
T ss_pred             CCCCCEEEEe-C-CCCceEEEEee
Confidence            87 5999985 3 34567799999

>PRK14944 DNA polymerase III subunit beta; Provisional

Probab=99.92  E-value=9.8e-23  Score=185.12  Aligned_cols=216  Identities=11%  Similarity=0.206  Sum_probs=180.0

Q ss_pred             ChhhHHHHHHH---------HHhhhceeeEEEeCCceEEEEECCCCeEEEEEEecCCCcceeeeCCcEEEEEEhhhHHHH
Q 024527            8 QGSLLKKVLEA---------IKELVNDANFDCSATGFSLQAMDSSHVALVALLLRSEGFEHYRCDRNISMGMNLNNVSKM   78 (266)
Q Consensus         8 ~~~~~k~i~~~---------l~~l~~~~~~~~~~~gl~~~a~D~~r~a~v~~~l~~~~F~~y~~~~~~~~gi~l~~L~~i   78 (266)
                      ++..|+++++.         .+++++|+.|++.+++++++|+|+||+|+....++.+.       .+..+.||.+.|.++
T Consensus       134 ~~~~l~~~i~~t~fa~s~de~r~~L~Gv~~~~~~~~l~~vATDghRLa~~~~~~~~~~-------~~~~~iIP~k~l~el  206 (375)
T PRK14944        134 KTHFFKKIIKEINISTSKNEKRPILTGLNLIYQKNLLKALATDSFRMSQKKIKLDFNY-------HNFNIVIPNKSLEEL  206 (375)
T ss_pred             CHHHHHHHHhheeEEEccccCccceeEEEEEEECCEEEEEEEccceeEEEEeccCCCC-------CceEEEEECchHHHH
Confidence            36678888877         46789999999999999999999999999888776432       135689999999999


Q ss_pred             hcccC--CCceEEEEEcCCCCeEEEEEeCCCCCeEEEEEEeeeecCCCCC--CCCcceeeEEEEEehHHHHHHHHHhhcc
Q 024527           79 LKCAG--NDDIITLKADDGSDTVTFMFESPTQDKIADFEMKLMDIDSEHL--GIPEAEYHAIVRMPSAEFARICKDLASI  154 (266)
Q Consensus        79 lk~~~--~~d~l~l~~~~~~~~l~i~~~~~~~~~~~~~~l~li~~~~~~~--~ip~~~~~~~i~~~s~~~~~~i~~~~~~  154 (266)
                      +|.+.  .++.+++.++++  ++.|.+++.      .+..+|+|+.+|+|  .+|+ +|+.+++++.++|.++++|++.+
T Consensus       207 ~kll~~~~~~~v~i~~~~~--~i~f~~~~~------~~~srLieG~fPdy~~viP~-~~~~~~~i~r~~l~~al~Rvsll  277 (375)
T PRK14944        207 SKILEYYQSKNLKIYSDSK--KIFLKIDNL------WFQTSLLEGNYPQIQEIKLT-NFPFSIHLNKDDLMKALERVSLL  277 (375)
T ss_pred             HHHhccCCCCcEEEEEcCC--EEEEEECCE------EEEEEeecccCCChhhhCCC-CCCeEEEEeHHHHHHHHHHHHHH
Confidence            99886  355789988755  888988766      89999999999998  7885 89999999999999999999999


Q ss_pred             CC-------EEEEEEe-CCeEEEEEEe-cceeEEEEEeecccCCCCCCceEEEe-cCcEEEEEehHHHHhccccCCCCce
Q 024527          155 GD-------TVVISVT-KEGVKFSTRG-DIGTANIVLRQNTTVDKPEEATIIEM-HEPVSLTFALRYMNSFTRATPLSNT  224 (266)
Q Consensus       155 ~d-------~v~i~~~-~~~l~~s~~g-d~g~~~~~~~~~~~~~~~~~~~~~~~-~~~~~~~f~~~yL~~~~k~~~ls~~  224 (266)
                      +.       .|++.++ ++.+.+++.+ |.|++.+++.            .++. |+++++.||.+||.++++++. +++
T Consensus       278 s~~~~~~~~~v~l~~~~~~~l~iss~~~e~G~a~e~i~------------~~~~~Ge~~~I~fN~~YL~d~L~~i~-~~~  344 (375)
T PRK14944        278 FSKEQNNTNVVKFILTKEKSIEISSSNESLGTALEKII------------PLKVSANSFEIAFNAKYLEDILKVLS-VKE  344 (375)
T ss_pred             hccccCCCceEEEEEcCCCEEEEEEcCcccCeEEEEEe------------cccccCCcEEEEEcHHHHHHHHhcCC-CCE
Confidence            63       2889985 7899998875 8898877641            1333 678999999999999999997 899


Q ss_pred             EEEEecCC-CcEEEEEEeCCcEEEEEEEccc
Q 024527          225 VTISLSSE-LPVVVEYKIAEMGYIRFYLAPK  254 (266)
Q Consensus       225 v~l~~~~~-~Pl~l~~~i~~~g~~~~~iaPr  254 (266)
                      |.++|.+. .|+.++. .++ ....|+|+|.
T Consensus       345 v~i~~~~~~~p~~i~~-~~~-~~~~~lImPv  373 (375)
T PRK14944        345 IVFYFDSPLKPFIVTT-LEK-DSSIHLILPI  373 (375)
T ss_pred             EEEEECCCCCCEEEEc-CCC-CceEEEEEeC
Confidence            99999987 5999986 333 4567999994

>PRK14940 DNA polymerase III subunit beta; Provisional

Probab=99.91  E-value=3.2e-22  Score=181.50  Aligned_cols=218  Identities=12%  Similarity=0.159  Sum_probs=179.9

Q ss_pred             ChhhHHHHHHHH---------HhhhceeeEEEeCCceEEEEECCCCeEEEEEEecCCCcceeeeCCcEEEEEEhhhHHHH
Q 024527            8 QGSLLKKVLEAI---------KELVNDANFDCSATGFSLQAMDSSHVALVALLLRSEGFEHYRCDRNISMGMNLNNVSKM   78 (266)
Q Consensus         8 ~~~~~k~i~~~l---------~~l~~~~~~~~~~~gl~~~a~D~~r~a~v~~~l~~~~F~~y~~~~~~~~gi~l~~L~~i   78 (266)
                      ++..|+++++.+         +++++++.|++.+++++++|+|++|+|.+...++.+.      .+...+.|+.+.|..+
T Consensus       131 ~~~~L~~~i~~v~~a~s~~~~rpiL~Gv~~~~~~~~l~~vATDg~RLa~~~~~~~~~~------~~~~~viiP~k~l~~l  204 (367)
T PRK14940        131 PTKDLREMINQTIFAVSDDETRYFMNGVYVEFQYGNIICVATDGRRLAYIKKKGESSP------QEFSGVIVPPKILGII  204 (367)
T ss_pred             CHHHHHHHHhhEeEEEcCCCCCceeEEEEEEEeCCEEEEEEEcCceEEEEEeccCCCc------cccceEEEcHHHHHHH
Confidence            366788888774         5689999999999999999999999999888776432      1223578999999877


Q ss_pred             hcccCCCceEEEEEcCCCCeEEEEEeCCCCCeEEEEEEeeeecCCCCC--CCCcceeeEEEEEehHHHHHHHHHhhccCC
Q 024527           79 LKCAGNDDIITLKADDGSDTVTFMFESPTQDKIADFEMKLMDIDSEHL--GIPEAEYHAIVRMPSAEFARICKDLASIGD  156 (266)
Q Consensus        79 lk~~~~~d~l~l~~~~~~~~l~i~~~~~~~~~~~~~~l~li~~~~~~~--~ip~~~~~~~i~~~s~~~~~~i~~~~~~~d  156 (266)
                      .|.+..++.+.+.++++  ++.|..++.      .|.++++++++|+|  .+|+ +++..+++++++|.++++|++.+++
T Consensus       205 ~kll~~~~~v~i~~~~~--~i~f~~~~~------~~~~rlidg~fPdy~~vip~-~~~~~~~i~~~~L~~al~R~~~~~~  275 (367)
T PRK14940        205 NKKLSPEGNVTLCITSQ--NIFFFFGGY------KFSSVLIEGQFPNYKRVIPD-HQERSFCVGRVELMEALKRVSLLVE  275 (367)
T ss_pred             HHhcCCCCcEEEEEeCC--EEEEEECCE------EEEEEEccccccchHhhCCC-CCCEEEEEEHHHHHHHHHHHHHHhc
Confidence            77766667888888755  687877655      89999999999988  5574 7899999999999999999999862


Q ss_pred             ----EEEEEEeCCeEEEEEEe-cceeEEEEEeecccCCCCCCceEEEe-cCcEEEEEehHHHHhccccCCCCceEEEEec
Q 024527          157 ----TVVISVTKEGVKFSTRG-DIGTANIVLRQNTTVDKPEEATIIEM-HEPVSLTFALRYMNSFTRATPLSNTVTISLS  230 (266)
Q Consensus       157 ----~v~i~~~~~~l~~s~~g-d~g~~~~~~~~~~~~~~~~~~~~~~~-~~~~~~~f~~~yL~~~~k~~~ls~~v~l~~~  230 (266)
                          .|.+.++++.+++++.+ |.|++.+++.             ++. |++.++.||.+||.+++++++ +++|.++|.
T Consensus       276 ~~~~~v~l~~~~~~l~l~~~~~e~G~~~e~i~-------------~~~~Ge~~~I~fN~~yl~d~L~~i~-~~~v~l~~~  341 (367)
T PRK14940        276 QKSRRIFLTIQQGLLTLSSQENEIGDAQEEIA-------------CAYTGEEEVIALNYLYLEEPLKVFT-SKEVQVEFT  341 (367)
T ss_pred             cCCceEEEEEeCCEEEEEEcCCCCccEEEEEE-------------EEecCCcEEEEECHHHHHHHHhCCC-CCEEEEEEC
Confidence                58899999999998864 8898888772             444 678999999999999999998 899999999


Q ss_pred             CC-CcEEEEEEeCCcEEEEEEEcc-cCC
Q 024527          231 SE-LPVVVEYKIAEMGYIRFYLAP-KIE  256 (266)
Q Consensus       231 ~~-~Pl~l~~~i~~~g~~~~~iaP-r~~  256 (266)
                      +. .|+.++. .+ +....|+|+| |++
T Consensus       342 ~~~~p~~i~~-~~-~~~~~~liMP~r~~  367 (367)
T PRK14940        342 EAAKAITLRP-VP-ETDCFHIIMPMQTE  367 (367)
T ss_pred             CCCCCEEEEe-CC-CCcEEEEEEeeecC
Confidence            87 5999986 33 3567799999 553

>PRK14947 DNA polymerase III subunit beta; Provisional

Probab=99.91  E-value=8.5e-22  Score=179.41  Aligned_cols=225  Identities=14%  Similarity=0.186  Sum_probs=181.5

Q ss_pred             ChhhHHHHHHH---------HHhhhceeeEEEeC-CceEEEEECCCCeEEEEEEecCCCcceeeeCCcEEEEEEhhhHHH
Q 024527            8 QGSLLKKVLEA---------IKELVNDANFDCSA-TGFSLQAMDSSHVALVALLLRSEGFEHYRCDRNISMGMNLNNVSK   77 (266)
Q Consensus         8 ~~~~~k~i~~~---------l~~l~~~~~~~~~~-~gl~~~a~D~~r~a~v~~~l~~~~F~~y~~~~~~~~gi~l~~L~~   77 (266)
                      ++..|+++++.         .+++++|+.|++.+ +.++++|+|++|+|+....... ....+   ....+.||.+.|.+
T Consensus       131 ~~~~L~~~i~~t~fA~s~de~r~~L~Gv~~~~~~~~~l~~vATDg~RLa~~~~~~~~-~~~~~---~~~~~iIP~k~l~e  206 (384)
T PRK14947        131 SGDFLQELIDRIAFCISDEDAMEAIACLKIKPVADNAIEVCGLNGHQFALLRFLNDD-IHAKL---PQEGILIQKKYLLE  206 (384)
T ss_pred             CHHHHHHHHhheeeEeeccchhhhhceEEEEEcCCCEEEEEEcCccceEEEEccccc-ccccc---CCccEEEechHHHH
Confidence            36678888877         56889999999765 5699999999999998766532 10010   12357999999999


Q ss_pred             HhcccCCCceEEEEEcCCCCeEEEEEeCCCCCeEEEEEEeeeecCCCCC--CCCc--ceeeEEEEEehHHHHHHHHHhhc
Q 024527           78 MLKCAGNDDIITLKADDGSDTVTFMFESPTQDKIADFEMKLMDIDSEHL--GIPE--AEYHAIVRMPSAEFARICKDLAS  153 (266)
Q Consensus        78 ilk~~~~~d~l~l~~~~~~~~l~i~~~~~~~~~~~~~~l~li~~~~~~~--~ip~--~~~~~~i~~~s~~~~~~i~~~~~  153 (266)
                      ++|.+. ++.+.+.++++  ++.|.+++.    ...|..||+++.+|+|  .+|+  .+|+.+++++..+|.++++|++.
T Consensus       207 l~kll~-~~~v~i~~~~~--~i~f~~~~~----~~~~~srLieG~fPdY~~vIP~~~~~~~~~~~i~r~~l~~al~Rvsi  279 (384)
T PRK14947        207 LKKWLG-ADEIELSISEK--RLFFRTGDG----KETFSLPLSYYQYPDYMNFLSKLQGDDVSNLEVDRKECMDALDRILI  279 (384)
T ss_pred             HHHhCC-CCcEEEEEeCC--EEEEEECCc----EEEEEEEeeecccCcceeeCCCCCCCCCEEEEEEHHHHHHHHHHHHH
Confidence            999886 46788888755  788887643    2368899999999998  7886  27899999999999999999999


Q ss_pred             cCC----EEEEEEeCCeEEEEEEe-cceeEEEEEeecccCCCCCCceEEEe-cCcEEEEEehHHHHhccccCCCCceEEE
Q 024527          154 IGD----TVVISVTKEGVKFSTRG-DIGTANIVLRQNTTVDKPEEATIIEM-HEPVSLTFALRYMNSFTRATPLSNTVTI  227 (266)
Q Consensus       154 ~~d----~v~i~~~~~~l~~s~~g-d~g~~~~~~~~~~~~~~~~~~~~~~~-~~~~~~~f~~~yL~~~~k~~~ls~~v~l  227 (266)
                      +++    .|++..+++.+++++.+ |.|++++++             .++. |++.++.||.+||.+++++++ +++|.+
T Consensus       280 ~s~~~~~~v~l~~~~~~l~iss~~~e~G~a~E~i-------------~~~~~Ge~~~I~fN~~YL~d~L~~i~-~~~i~l  345 (384)
T PRK14947        280 FNTDNNRCTYFDFGPGELSLSAQGQDVGSATESL-------------EVTYSGDIKKIAFPTKNLIEILGHFQ-SDKITL  345 (384)
T ss_pred             HhcCCCceEEEEEeCCEEEEEEcCCCCceEEEEE-------------EEEecCCcEEEEECHHHHHHHHhcCC-CCeEEE
Confidence            963    58899999999999875 889988887             2445 678999999999999999997 899999


Q ss_pred             EecCC-CcEEEEEEeCCcEEEEEEEcc-cCCCCc
Q 024527          228 SLSSE-LPVVVEYKIAEMGYIRFYLAP-KIEEDE  259 (266)
Q Consensus       228 ~~~~~-~Pl~l~~~i~~~g~~~~~iaP-r~~~~~  259 (266)
                      +|.+. .|+.++. .++ ....|+|+| |+.+++
T Consensus       346 ~~~~~~~p~~i~~-~~~-~~~~~lIMPvr~~~~~  377 (384)
T PRK14947        346 TLTGAEGPCGITG-EDD-PDYLVIVMPMKIVEET  377 (384)
T ss_pred             EECCCCCCEEEEc-CCC-CceEEEEeceEECCCc
Confidence            99987 5999985 333 456699999 786653

>PRK06673 DNA polymerase III subunit beta; Validated

Probab=99.90  E-value=6.2e-22  Score=180.06  Aligned_cols=212  Identities=16%  Similarity=0.299  Sum_probs=178.3

Q ss_pred             hhhHHHHHHH---------HHhhhceeeEEEeCCceEEEEECCCCeEEEEEEecCCCcceeeeCCcEEEEEEhhhHHHHh
Q 024527            9 GSLLKKVLEA---------IKELVNDANFDCSATGFSLQAMDSSHVALVALLLRSEGFEHYRCDRNISMGMNLNNVSKML   79 (266)
Q Consensus         9 ~~~~k~i~~~---------l~~l~~~~~~~~~~~gl~~~a~D~~r~a~v~~~l~~~~F~~y~~~~~~~~gi~l~~L~~il   79 (266)
                      +..|+++++.         .+++++|++|++.++++.++|+|++|+|+....++.+.        +..+.||.+.|.+++
T Consensus       138 ~~~L~~~i~kt~fA~s~~e~r~~L~Gv~l~~~~~~l~~vaTDg~RLA~~~~~~~~~~--------~~~~iIP~k~l~el~  209 (376)
T PRK06673        138 TKQLIDAFKQTVFAVAKNESRPVLTGVHIELDHNKLICAATDSHRLAIRETLISTNM--------KANCIVPSATINELL  209 (376)
T ss_pred             HHHHHHHHhhEeEEEecCCCChhceeEEEEEeCCEEEEEEecCceEEEEecccCCCC--------CCcEEEEHHHHHHHH
Confidence            6678888877         46789999999999999999999999999888775321        245799999999999


Q ss_pred             cccCC-CceEEEEEcCCCCeEEEEEeCCCCCeEEEEEEeeeecCCCCC--CCCcceeeEEEEEehHHHHHHHHHhhccCC
Q 024527           80 KCAGN-DDIITLKADDGSDTVTFMFESPTQDKIADFEMKLMDIDSEHL--GIPEAEYHAIVRMPSAEFARICKDLASIGD  156 (266)
Q Consensus        80 k~~~~-~d~l~l~~~~~~~~l~i~~~~~~~~~~~~~~l~li~~~~~~~--~ip~~~~~~~i~~~s~~~~~~i~~~~~~~d  156 (266)
                      |.+.. ++.+.+.++++  ++.|.+++.      .+..||+++.+|+|  .+|+ +|+.+++++.++|.++++|++.+++
T Consensus       210 kll~~~~~~v~i~~~~~--~i~f~~~~~------~~~srLieG~fPdy~~vip~-~~~~~v~i~r~~l~~al~Rvsi~~~  280 (376)
T PRK06673        210 KLMNSNLEFVSIYLSES--HIIFTFGTT------TLYSRLIEGKYPNISTLIPN-EFQTVINIDRQRMLQGVDRSSLLAS  280 (376)
T ss_pred             HhccCCCceEEEEEeCC--EEEEEECCE------EEEEEEecccCCChhhcCCC-CCcEEEEEEHHHHHHHHHHHHHhhc
Confidence            98864 45788888754  888888766      89999999999998  7885 8999999999999999999999973


Q ss_pred             -----EEEEEE-eCCeEEEEEEe-cceeEEEEEeecccCCCCCCceEEE-e-cC-cEEEEEehHHHHhccccCCCCceEE
Q 024527          157 -----TVVISV-TKEGVKFSTRG-DIGTANIVLRQNTTVDKPEEATIIE-M-HE-PVSLTFALRYMNSFTRATPLSNTVT  226 (266)
Q Consensus       157 -----~v~i~~-~~~~l~~s~~g-d~g~~~~~~~~~~~~~~~~~~~~~~-~-~~-~~~~~f~~~yL~~~~k~~~ls~~v~  226 (266)
                           .|++.+ +++.+++++.+ |.|++++++.             ++ . ++ ++++.||.+||.+++++++ +++|.
T Consensus       281 ~~~~~~v~l~~~~~~~l~i~s~~~e~G~a~e~i~-------------~~~~~Ge~~~~I~fN~~YLld~L~~i~-~e~v~  346 (376)
T PRK06673        281 EWANNNVNLEIVNESTIQISSNASQIGKISETQQ-------------IDAIQGEKQLNISFDGRFMLDALRAIK-EETVT  346 (376)
T ss_pred             cCCCCcEEEEEcCCCEEEEEEcCCCCCcEEEEEE-------------eeecCCCccEEEEECHHHHHHHHhcCC-CCEEE
Confidence                 388888 68899998875 8899888772             33 2 55 7999999999999999997 89999


Q ss_pred             EEecCC-CcEEEEEEeCCcEEEEEEEcc
Q 024527          227 ISLSSE-LPVVVEYKIAEMGYIRFYLAP  253 (266)
Q Consensus       227 l~~~~~-~Pl~l~~~i~~~g~~~~~iaP  253 (266)
                      ++|.++ .|+.++. .+ +..+.|+|+|
T Consensus       347 l~~~~~~~p~li~~-~~-~~~~~~limP  372 (376)
T PRK06673        347 LSFSGSMRPILIEA-GT-QSAAIHLISP  372 (376)
T ss_pred             EEECCCCCCEEEEc-CC-CCceEEEEEe
Confidence            999987 5998885 33 3467799999

>PRK05643 DNA polymerase III subunit beta; Validated

Probab=99.90  E-value=4.5e-21  Score=174.13  Aligned_cols=214  Identities=18%  Similarity=0.309  Sum_probs=178.5

Q ss_pred             hhhHHHHHHH---------HHhhhceeeEEEeCCceEEEEECCCCeEEEEEEecCCCcceeeeCCcEEEEEEhhhHHHHh
Q 024527            9 GSLLKKVLEA---------IKELVNDANFDCSATGFSLQAMDSSHVALVALLLRSEGFEHYRCDRNISMGMNLNNVSKML   79 (266)
Q Consensus         9 ~~~~k~i~~~---------l~~l~~~~~~~~~~~gl~~~a~D~~r~a~v~~~l~~~~F~~y~~~~~~~~gi~l~~L~~il   79 (266)
                      +..|+++++.         .++++.++.|++.+++++++|+|++|++...+.++...++      +..+-|+.+.|.+++
T Consensus       133 ~~~l~~~i~~v~~a~~~~~~~piL~gi~~~~~~~~l~l~aTD~~rl~~~~~~~~~~~~~------~~~~~vp~k~l~ei~  206 (367)
T PRK05643        133 QKTLKRLIEKTQFAMSTQETRYYLNGVLLEIEGNELRAVATDGHRLAVRKLELEEGSLG------DFSVIIPRKTLLELQ  206 (367)
T ss_pred             HHHHHHHHhheeEEeecCCccccccEEEEEEeCCEEEEEEeccceeEEEEecccCCccc------CceEEEchHHHHHHH
Confidence            5677777775         4567899999999999999999999999988887644332      345789999999999


Q ss_pred             cccCCCceEEEEEcCCCCeEEEEEeCCCCCeEEEEEEeeeecCCCCC--CCCcceeeEEEEEehHHHHHHHHHhhccC--
Q 024527           80 KCAGNDDIITLKADDGSDTVTFMFESPTQDKIADFEMKLMDIDSEHL--GIPEAEYHAIVRMPSAEFARICKDLASIG--  155 (266)
Q Consensus        80 k~~~~~d~l~l~~~~~~~~l~i~~~~~~~~~~~~~~l~li~~~~~~~--~ip~~~~~~~i~~~s~~~~~~i~~~~~~~--  155 (266)
                      |.+..++.+.+..+++  ++.|..++.      .|.++++++++|+|  .+|. +++..+.+++++|.++++++..++  
T Consensus       207 k~l~~~~~v~i~~~~~--~~~~~~~~~------~~~~~li~g~yP~~~~~ip~-~~~~~~~i~~~~L~~~i~rv~~~~~~  277 (367)
T PRK05643        207 KLLDDEEPVEIFISDN--QILFEFGNT------IFTSKLIDGKFPDYRRVIPK-EFDKKLTVDRKELLQALERASILSNE  277 (367)
T ss_pred             HhcCCCCcEEEEEeCC--EEEEEECCE------EEEEEEeeecCCChhhhCCC-CCCEEEEEEHHHHHHHHHHHHHHhcC
Confidence            9887556788888654  788887655      89999999999988  3675 889999999999999999999883  


Q ss_pred             --CEEEEEEeCCeEEEEEEe-cceeEEEEEeecccCCCCCCceEEEe-cCcEEEEEehHHHHhccccCCCCceEEEEecC
Q 024527          156 --DTVVISVTKEGVKFSTRG-DIGTANIVLRQNTTVDKPEEATIIEM-HEPVSLTFALRYMNSFTRATPLSNTVTISLSS  231 (266)
Q Consensus       156 --d~v~i~~~~~~l~~s~~g-d~g~~~~~~~~~~~~~~~~~~~~~~~-~~~~~~~f~~~yL~~~~k~~~ls~~v~l~~~~  231 (266)
                        +.|.+.++++.+++++.+ +.|.+...+.             ++. +++.++.||.+||.+++|+++ +++|.+++++
T Consensus       278 ~~~~i~l~~~~~~l~~~a~~~~~g~a~~~i~-------------~~~~g~~~~i~~n~~yL~d~l~~~~-~~~v~i~~~~  343 (367)
T PRK05643        278 KSRGVKLSLSEGQLKISANNPEQGEAEEELE-------------VEYSGEELEIGFNVKYLLDVLKALD-SEEVRLSFND  343 (367)
T ss_pred             CCceEEEEEeCCEEEEEEECCCCCcEEEEEE-------------EEecCCcEEEEEcHHHHHHHHhcCC-CCEEEEEECC
Confidence              468899999999998875 7888777662             333 678999999999999999998 8899999998


Q ss_pred             C-CcEEEEEEeCCcEEEEEEEcc
Q 024527          232 E-LPVVVEYKIAEMGYIRFYLAP  253 (266)
Q Consensus       232 ~-~Pl~l~~~i~~~g~~~~~iaP  253 (266)
                      + .|+.+++  .+++.+.|+|+|
T Consensus       344 ~~~p~~i~~--~~~~~~~~limP  364 (367)
T PRK05643        344 ANSPFLIRP--PDDDSFLYVIMP  364 (367)
T ss_pred             CCCCEEEEc--CCCCceEEEEEe
Confidence            6 6999987  345678999999

>PRK14941 DNA polymerase III subunit beta; Provisional

Probab=99.89  E-value=8.7e-21  Score=172.54  Aligned_cols=221  Identities=15%  Similarity=0.187  Sum_probs=178.0

Q ss_pred             ChhhHHHHHHH---------HHhhhceeeEEEeCCceEEEEECCCCeEEEEEEecCCCcceeeeCCcEEEEEEhhhHHHH
Q 024527            8 QGSLLKKVLEA---------IKELVNDANFDCSATGFSLQAMDSSHVALVALLLRSEGFEHYRCDRNISMGMNLNNVSKM   78 (266)
Q Consensus         8 ~~~~~k~i~~~---------l~~l~~~~~~~~~~~gl~~~a~D~~r~a~v~~~l~~~~F~~y~~~~~~~~gi~l~~L~~i   78 (266)
                      ++..|+++++.         .+++++++.|++.+++|+++|+|++|++...+.+....      ..+..+.|+.+.|..+
T Consensus       134 ~~~~L~~~i~~v~~a~s~~~~rpiL~Gv~l~~~~~~l~lvATDg~Rla~~~~~~~~~~------~~~~~~iiP~k~l~el  207 (374)
T PRK14941        134 ETSELLDLIQKTIFACSVDGMRPAMMGVLFELEGNTITAVSTDGHRLVRCRKNSSVGV------EEKQKIVVPARVLSIL  207 (374)
T ss_pred             CHHHHHHHHhheeEEEecccchhhhceEEEEEeCCEEEEEEecCeeEEEEEecccCCc------cccceEEechHHHHHH
Confidence            36678888777         45789999999999999999999999999877664321      2235689999999766


Q ss_pred             hcccCCCceEEEEEcCCCCeEEEEEeCCCCCeEEEEEEeeeecCCCCC--CCCcceeeEEEEEehHHHHHHHHHhhccC-
Q 024527           79 LKCAGNDDIITLKADDGSDTVTFMFESPTQDKIADFEMKLMDIDSEHL--GIPEAEYHAIVRMPSAEFARICKDLASIG-  155 (266)
Q Consensus        79 lk~~~~~d~l~l~~~~~~~~l~i~~~~~~~~~~~~~~l~li~~~~~~~--~ip~~~~~~~i~~~s~~~~~~i~~~~~~~-  155 (266)
                      .|.... +.+.+.++.+..++.|..++.      .|..+++++++|+|  .+|. +++.++.++++.|.++++|++.++ 
T Consensus       208 ~kll~~-~~v~i~~~~~~~~i~~~~~~~------~~~s~Li~g~fPdy~~viP~-~~~~~i~i~~~~L~~al~rv~~~~~  279 (374)
T PRK14941        208 QKLAQH-ETVTMSIDSERRFVRFICGNV------VLDAALIVEPYPNYEAVIPV-ENDKKLVINRSNIYDSVKRVGRFSS  279 (374)
T ss_pred             HHhCCC-CceEEEEEcCCCEEEEEECCE------EEEEEEEeecCCCccccCCC-CCCEEEEEeHHHHHHHHHHHHHHcc
Confidence            666553 367787765555888888665      78899999999988  5674 899999999999999999999875 


Q ss_pred             -CEEEEEEeCCeEEEEEEe-cce-eEEEEEeecccCCCCCCceEEEe-cCcEEEEEehHHHHhccccCCCCceEEEEecC
Q 024527          156 -DTVVISVTKEGVKFSTRG-DIG-TANIVLRQNTTVDKPEEATIIEM-HEPVSLTFALRYMNSFTRATPLSNTVTISLSS  231 (266)
Q Consensus       156 -d~v~i~~~~~~l~~s~~g-d~g-~~~~~~~~~~~~~~~~~~~~~~~-~~~~~~~f~~~yL~~~~k~~~ls~~v~l~~~~  231 (266)
                       +.+++.++++.+++++.+ |.| .+.+++             .++. |+++++.||.+||.++++++. +++|.++|.+
T Consensus       280 ~~~v~~~~~~~~l~l~~~~~~~g~~~~e~i-------------~~~~~G~~~~I~fN~~yl~d~L~~~~-~~~v~l~~~~  345 (374)
T PRK14941        280 IGDIKISVEGSVLKVMAENTNEGESAQEEL-------------PCSYTGEDITIGFNSKFIEAALAHLD-EEEIIIELSS  345 (374)
T ss_pred             CCceEEEEECCEEEEEEECcccccceEEEE-------------EeEeCCCcEEEEEcHHHHHHHHhcCC-CCEEEEEECC
Confidence             358999999999999886 776 566666             2444 678999999999999999997 8999999998


Q ss_pred             C-CcEEEEEEe-CCcEEEEEEEcc-cCC
Q 024527          232 E-LPVVVEYKI-AEMGYIRFYLAP-KIE  256 (266)
Q Consensus       232 ~-~Pl~l~~~i-~~~g~~~~~iaP-r~~  256 (266)
                      + .|+.++..- .++..+.|+|+| |+.
T Consensus       346 ~~~p~~i~~~~~~~~~~~~~limPvr~~  373 (374)
T PRK14941        346 PTTAVIFKPKKEEENDDLIILVMPVRIN  373 (374)
T ss_pred             CCCCEEEecCCCCCCCceEEEEeeEEeC
Confidence            7 599998531 234567899999 653

>PRK14945 DNA polymerase III subunit beta; Provisional

Probab=99.88  E-value=1.6e-20  Score=170.31  Aligned_cols=212  Identities=17%  Similarity=0.289  Sum_probs=175.2

Q ss_pred             ChhhHHHHHHH---------HHhhhceeeEEEeCCceEEEEECCCCeEEEEEEecCCCcceeeeCCcEEEEEEhhhHHHH
Q 024527            8 QGSLLKKVLEA---------IKELVNDANFDCSATGFSLQAMDSSHVALVALLLRSEGFEHYRCDRNISMGMNLNNVSKM   78 (266)
Q Consensus         8 ~~~~~k~i~~~---------l~~l~~~~~~~~~~~gl~~~a~D~~r~a~v~~~l~~~~F~~y~~~~~~~~gi~l~~L~~i   78 (266)
                      ++..|+++++.         .+++++++.|++.+++++++|+|++|.+...+.++.        +.+..+.|+.+.|.++
T Consensus       128 ~~~~L~~~i~~v~~avs~~~~~piL~gv~l~~~~~~l~lvATDg~rla~~~~~~~~--------~~~~~~iip~k~l~el  199 (362)
T PRK14945        128 SAGELAKALTHVRYAASNEEFQAIFRGVKLEHSPQGLRAVASDGYRLAIYDLPASQ--------GQGRKLVIPARSADEL  199 (362)
T ss_pred             CHHHHHHHHhhEEEEEecccchhheeeEEEEEeCCEEEEEEEccceEEEEEeccCC--------CCCceEEEEHHHHHHH
Confidence            36677777776         567899999999999999999999999998876542        2346789999999999


Q ss_pred             hcccCCCceEEEEEcCCCCeEEEEEeCCCCCeEEEEEEeeeecCCCCC--CCCcceeeEEEEEehHHHHHHHHHhhccCC
Q 024527           79 LKCAGNDDIITLKADDGSDTVTFMFESPTQDKIADFEMKLMDIDSEHL--GIPEAEYHAIVRMPSAEFARICKDLASIGD  156 (266)
Q Consensus        79 lk~~~~~d~l~l~~~~~~~~l~i~~~~~~~~~~~~~~l~li~~~~~~~--~ip~~~~~~~i~~~s~~~~~~i~~~~~~~d  156 (266)
                      +|.+.+++.+++.++++  ++.|..++.      .|.++++++++|+|  .+| .+++..+.++++.|.++++++..+++
T Consensus       200 ~k~l~~~~~v~i~~~~~--~i~~~~~~~------~~~~~lidg~fP~~~~vip-~~~~~~v~i~~~~L~~~l~r~~~~~~  270 (362)
T PRK14945        200 VRVLKDGDEASLALGEG--VLTLTTGGV------RMNLKLMEGEFPDYERVIP-QDFKLQVTLPAEALREAVNRVAVLSD  270 (362)
T ss_pred             HHhcCCCCcEEEEEcCC--EEEEEECCE------EEEEEeecccCCChhhhCC-CCCCEEEEEEHHHHHHHHHHHhhhhc
Confidence            99997655788888644  788877655      89999999999988  457 37889999999999999999998763


Q ss_pred             -----EEEEEEeCCeEEEEEEecceeEEEEEeecccCCCCCCceEEEe-cC--cEEEEEehHHHHhccccCCCCceEEEE
Q 024527          157 -----TVVISVTKEGVKFSTRGDIGTANIVLRQNTTVDKPEEATIIEM-HE--PVSLTFALRYMNSFTRATPLSNTVTIS  228 (266)
Q Consensus       157 -----~v~i~~~~~~l~~s~~gd~g~~~~~~~~~~~~~~~~~~~~~~~-~~--~~~~~f~~~yL~~~~k~~~ls~~v~l~  228 (266)
                           .|.+.++++.+++++.++.|.+..++.             ++. ++  ++++.||.+||.++++++. . +|.++
T Consensus       271 ~~~~~~v~l~~~~~~l~~~a~~~~g~a~~~i~-------------~~~~G~~~~~~i~fN~~yl~d~L~~~~-~-~v~l~  335 (362)
T PRK14945        271 RNANNRVELLVAEGRLRLTAEGDYGRGQEELA-------------VTQEGSEPAMALAYNARYLLDALAPIE-G-DARLG  335 (362)
T ss_pred             cCCCccEEEEEECCEEEEEecCCCceEEEEEE-------------EEeecCCCCEEEEECHHHHHHHHHhCC-C-cEEEE
Confidence                 378888999999999888888887762             444 33  7999999999999999986 4 69999


Q ss_pred             ecCC-CcEEEEEEeCCcEEEEEEEcc
Q 024527          229 LSSE-LPVVVEYKIAEMGYIRFYLAP  253 (266)
Q Consensus       229 ~~~~-~Pl~l~~~i~~~g~~~~~iaP  253 (266)
                      |.++ .|+.++. .+ +..+.|+|+|
T Consensus       336 ~~~~~~p~~i~~-~~-~~~~~~limP  359 (362)
T PRK14945        336 FSGPTSPSVLRS-VD-DPGYLAVVVP  359 (362)
T ss_pred             ECCCCCCEEEEe-CC-CCcEEEEEEe
Confidence            9987 5999986 33 3457899999

>PRK07761 DNA polymerase III subunit beta; Validated

Probab=99.88  E-value=3.5e-20  Score=168.82  Aligned_cols=222  Identities=15%  Similarity=0.240  Sum_probs=179.5

Q ss_pred             ChhhHHHHHHH---------HHhhhceeeEEEeCCceEEEEECCCCeEEEEEEecCCCcceeeeCCcEEEEEEhhhHHHH
Q 024527            8 QGSLLKKVLEA---------IKELVNDANFDCSATGFSLQAMDSSHVALVALLLRSEGFEHYRCDRNISMGMNLNNVSKM   78 (266)
Q Consensus         8 ~~~~~k~i~~~---------l~~l~~~~~~~~~~~gl~~~a~D~~r~a~v~~~l~~~~F~~y~~~~~~~~gi~l~~L~~i   78 (266)
                      ++..|+++++.         .++++.++.|++.+++|+++|+|++|+++....+....     ++++..+.|+.+.|.++
T Consensus       128 ~~~~L~~~i~~v~~a~s~~~~~piL~gV~l~~~~~~L~l~ATDg~rLa~~~~~~~~~~-----~~~~~~~iIP~k~l~ei  202 (376)
T PRK07761        128 DADAFAEAVSQVAVAAGRDDTLPMLTGVRVEIEGDTVTLAATDRYRLAVRELTWKPAS-----PDISAAALVPARTLSDT  202 (376)
T ss_pred             CHHHHHHHHhhEeEEEEcccchhhhceEEEEEeCCEEEEEEECCceEEEEEeccCCCC-----CCcceeEEEEhHHHHHH
Confidence            35667777766         46789999999999999999999999999876654322     23346789999999999


Q ss_pred             hcccCCCceEEEEEc---CCCCeEEEEEeCCCCCeEEEEEEeeeecCCCCC--CCCcceeeEEEEEehHHHHHHHHHhhc
Q 024527           79 LKCAGNDDIITLKAD---DGSDTVTFMFESPTQDKIADFEMKLMDIDSEHL--GIPEAEYHAIVRMPSAEFARICKDLAS  153 (266)
Q Consensus        79 lk~~~~~d~l~l~~~---~~~~~l~i~~~~~~~~~~~~~~l~li~~~~~~~--~ip~~~~~~~i~~~s~~~~~~i~~~~~  153 (266)
                      +|.+..++.+.+.++   ++...+.|..++.      .|.++++++++|+|  .+|+ ++...+.+++++|.++++|+..
T Consensus       203 ~k~l~~~~~v~i~~~~~~~~~~~i~~~~~~~------~~~~~li~g~fP~~~~vip~-~~~~~~~i~~~~L~~~l~r~~~  275 (376)
T PRK07761        203 AKSLGSGGNVSIALSTGVGGEGLIGFEGGGR------RTTTRLLDGEFPKVRRLFPD-EHPAVAVVETAPLIEAIKRVAL  275 (376)
T ss_pred             HHhcCCCCcEEEEEecCcCCCCEEEEEECCE------EEEEEEecccCCChHhhCCC-CCCEEEEEEHHHHHHHHHHHHH
Confidence            999976667888886   2234677766554      89999999999988  4574 7778999999999999999998


Q ss_pred             cCC---EEEEEEeCCeEEEEEEe-cceeEEEEEeecccCCCCCCceEEEe-cCcEEEEEehHHHHhccccCCCCceEEEE
Q 024527          154 IGD---TVVISVTKEGVKFSTRG-DIGTANIVLRQNTTVDKPEEATIIEM-HEPVSLTFALRYMNSFTRATPLSNTVTIS  228 (266)
Q Consensus       154 ~~d---~v~i~~~~~~l~~s~~g-d~g~~~~~~~~~~~~~~~~~~~~~~~-~~~~~~~f~~~yL~~~~k~~~ls~~v~l~  228 (266)
                      +++   .|.+.++++.+++++.+ |.|.+..++             .++. |+++++.||.+||.+++|+++ +++|.++
T Consensus       276 ~~~~~~~v~l~~~~~~l~l~~~~~~~G~~~e~i-------------~~~~~Ge~~~i~fN~~yl~d~L~~~~-~~~v~l~  341 (376)
T PRK07761        276 VAERNAPVRLEFSDGQLTLSAGGGDDAQASEAL-------------EADLTGEDLTIAFNPQYLLDGLSALH-TPRVRFG  341 (376)
T ss_pred             HhcCCceEEEEEeCCEEEEEEcCCCcceEEEEE-------------EEEecCCcEEEEECHHHHHHHHhcCC-CCeEEEE
Confidence            853   58999999999999865 889888877             2444 678999999999999999998 8999999


Q ss_pred             ecCC-CcEEEEEEeCC----cEEEEEEEcc-cC
Q 024527          229 LSSE-LPVVVEYKIAE----MGYIRFYLAP-KI  255 (266)
Q Consensus       229 ~~~~-~Pl~l~~~i~~----~g~~~~~iaP-r~  255 (266)
                      +.+. .|+.++..-++    +..+.|+|+| |+
T Consensus       342 ~~~~~~p~~i~~~~~~~~~~~~~~~~limPvr~  374 (376)
T PRK07761        342 FTTPSKPALLTGQPEDDGEPSTDYRYLLMPVRL  374 (376)
T ss_pred             ECCCCCCEEEecCcccccCCCCceEEEEEeeec
Confidence            9987 59999864221    2468899999 54

>PRK14946 DNA polymerase III subunit beta; Provisional

Probab=99.88  E-value=2.3e-20  Score=168.92  Aligned_cols=214  Identities=12%  Similarity=0.229  Sum_probs=173.6

Q ss_pred             ChhhHHHHHHH---------HHhhhceeeEEEeCCceEEEEECCCCeEEEEEEecCCCcceeeeCCcEEEEEEhhhHHHH
Q 024527            8 QGSLLKKVLEA---------IKELVNDANFDCSATGFSLQAMDSSHVALVALLLRSEGFEHYRCDRNISMGMNLNNVSKM   78 (266)
Q Consensus         8 ~~~~~k~i~~~---------l~~l~~~~~~~~~~~gl~~~a~D~~r~a~v~~~l~~~~F~~y~~~~~~~~gi~l~~L~~i   78 (266)
                      ++..|+++++.         .+++++|+.|++.+++|+++|+|++|+|+....+...        .+..+.||.+.|.++
T Consensus       131 ~~~~l~~~i~kt~fA~s~de~r~~L~Gv~~~~~~~~l~~vATDg~RLA~~~~~~~~~--------~~~~~iIP~k~l~el  202 (366)
T PRK14946        131 NAKNLKRAIKNTAFATTNNPNQPILSAINLKSEDNFLHFSATDTIRFASEKIEISNP--------SRIDISISAKNLKDF  202 (366)
T ss_pred             CHHHHHHHHhhEEEEEeCCCCcccceEEEEEEeCCEEEEEEecchheEEEEeccCCC--------CcceEEEeccCHHHH
Confidence            36788888887         4678999999999999999999999999988777432        124578899999998


Q ss_pred             hcccCCCceEEEEEcCCCCeEEEEEeCCCCCeEEEEEEeeeecCCCCC--CCCcc-eeeEEEEEehHHHHHHHHHhhccC
Q 024527           79 LKCAGNDDIITLKADDGSDTVTFMFESPTQDKIADFEMKLMDIDSEHL--GIPEA-EYHAIVRMPSAEFARICKDLASIG  155 (266)
Q Consensus        79 lk~~~~~d~l~l~~~~~~~~l~i~~~~~~~~~~~~~~l~li~~~~~~~--~ip~~-~~~~~i~~~s~~~~~~i~~~~~~~  155 (266)
                      +.. ..++.+.+.++++  ++.|.+++.      .+.++|+++.+|+|  .+|+. +|+.+++++.++|.++++|++.++
T Consensus       203 l~~-~~~~~v~i~~~~~--~i~f~~~~~------~~~srLieG~fPdy~~viP~~~~~~~~~~i~r~~l~~al~Rvsl~a  273 (366)
T PRK14946        203 IPP-ELDKDIELFIESS--KISYTYDNL------TIQSRIFTIEYKDISNVLPKDSEILYSLTIEKKEILDLIDKATIIT  273 (366)
T ss_pred             hcc-cCCCcEEEEEeCC--EEEEEECCE------EEEEEEecccCCCHHHhCCCCCCccEEEEEEHHHHHHHHHHhheee
Confidence            431 2345788888754  788888776      89999999999998  78863 377999999999999999999997


Q ss_pred             C----EEEEEEeCCeEEEEEEe-cceeEEEEEeecccCCCCCCceEEEe-cCcEEEEEehHHHHhccccCCCCceEEEEe
Q 024527          156 D----TVVISVTKEGVKFSTRG-DIGTANIVLRQNTTVDKPEEATIIEM-HEPVSLTFALRYMNSFTRATPLSNTVTISL  229 (266)
Q Consensus       156 d----~v~i~~~~~~l~~s~~g-d~g~~~~~~~~~~~~~~~~~~~~~~~-~~~~~~~f~~~yL~~~~k~~~ls~~v~l~~  229 (266)
                      .    .|++.++++.+.+++.+ |.|.+.+++..           .++. |+++++.||.+||.++++++.  ++|.++|
T Consensus       274 ~~~~~~v~l~~~~~~l~lss~~~e~G~a~e~i~~-----------~~~~~Ge~~~IafN~~YL~D~L~~i~--~~v~l~~  340 (366)
T PRK14946        274 PGKDNVINFSLSKNELKGYISQYESGQSNVKTKN-----------VLRFSGELAQVNVNYKYLKDAISVFD--KVINIFI  340 (366)
T ss_pred             cCCCceEEEEEcCCEEEEEEECCCCceEEEEecc-----------cccccCCcEEEEEcHHHHHHHHHhCC--CeEEEEE
Confidence            3    48999999999998875 88998887620           1323 678999999999999999997  5699999


Q ss_pred             cCC-CcEEEEEEeCCcEEEEEEEcc
Q 024527          230 SSE-LPVVVEYKIAEMGYIRFYLAP  253 (266)
Q Consensus       230 ~~~-~Pl~l~~~i~~~g~~~~~iaP  253 (266)
                      .++ .|+.++. . ++....|+||-
T Consensus       341 ~~~~~p~~i~~-~-~~~~~~~li~~  363 (366)
T PRK14946        341 NEKKTKMLIVS-P-EKKEICQLVGL  363 (366)
T ss_pred             CCCCCCEEEEC-C-CCCCeEEEEEE
Confidence            987 5998875 3 34566788774

>PF04005 Hus1: Hus1-like protein; InterPro: IPR007150 Hus1, Rad1, and Rad9 are three evolutionarily conserved proteins required for checkpoint control in fission yeast

Probab=99.87  E-value=5.2e-19  Score=155.59  Aligned_cols=251  Identities=16%  Similarity=0.250  Sum_probs=179.4

Q ss_pred             eeEEEcChhhHHHHHHHHHhhhceeeEEEeCCceEEEEEC-CCCeEEEEEEecCC-CcceeeeCC----cEEEEEEhhhH
Q 024527            2 LELRLVQGSLLKKVLEAIKELVNDANFDCSATGFSLQAMD-SSHVALVALLLRSE-GFEHYRCDR----NISMGMNLNNV   75 (266)
Q Consensus         2 f~a~~~~~~~~k~i~~~l~~l~~~~~~~~~~~gl~~~a~D-~~r~a~v~~~l~~~-~F~~y~~~~----~~~~gi~l~~L   75 (266)
                      |+|++.+.+.|++++.+++++-+.|.++++++.+.+.... ...-.++|+.++.+ .|++|++++    .+.+.++++.|
T Consensus         3 Fka~i~~~~~~~~~~~~~~kl~k~~vlrlt~~~l~~i~~~~~~~g~qvw~~l~~~~~F~~y~i~s~~~N~I~le~~~~~L   82 (292)
T PF04005_consen    3 FKATISDIKLFKKFVSTISKLGKRCVLRLTPERLHFISTSDDSDGIQVWCELPQDSLFSEYRIQSASENEIYLEVNIDSL   82 (292)
T ss_dssp             EEEEEE-HHHHHHHHHHHHHH-SEEEEEE-SSEEEEEEE-SSTT--EEEEEEEGGGT-SEEEEE-SSSS-EEEEEEHHHH
T ss_pred             ceEEecCHHHHHHHHHHHHHhhCEEEEEEeCCEEEEEEecCCCCeEEEEEEEChhhcCcccEEEeCCCCEEEEEEcHHHH
Confidence            8999999999999999999999999999999999999874 67888999999977 999999974    69999999999


Q ss_pred             HHHhcccCCCceEEEEEc--CCCCeEEEEEeCCCC---CeEEEEEEeeeecCC---CCCCCCcc-eeeEEEEEeh-HHHH
Q 024527           76 SKMLKCAGNDDIITLKAD--DGSDTVTFMFESPTQ---DKIADFEMKLMDIDS---EHLGIPEA-EYHAIVRMPS-AEFA  145 (266)
Q Consensus        76 ~~ilk~~~~~d~l~l~~~--~~~~~l~i~~~~~~~---~~~~~~~l~li~~~~---~~~~ip~~-~~~~~i~~~s-~~~~  145 (266)
                      .++||.+.+...++|.+.  ++.+.|.|.+.....   .+...+.+|.--...   +.+..|.. +++..+.||+ ..++
T Consensus        83 ~raLrs~~~a~~~~ikL~kk~~~p~L~~~~~~~~~~~~~~~v~hdiPV~vl~~~~~~~~~eP~~~~~dv~i~LP~l~~l~  162 (292)
T PF04005_consen   83 LRALRSADNASSVKIKLTKKGRMPCLSFEITGTSSSGRSRIVVHDIPVRVLPRREWEELQEPMVPDPDVSIYLPPLKQLR  162 (292)
T ss_dssp             HHHHCTCSSCSEEEEEEE-S-SSSEEEEEEEE--SSST-EEEEEEEEBEE--GGGGGGGS-------SEEEE-S-HHHHH
T ss_pred             HHHHHhhccCceeEEehhhccCCcEEEEEEEeeccCCCccEEEEECCeEecCHHHHHHhhhcccCCCCEEEECCCHHHHH
Confidence            999999987778888873  356689998877643   344566777644322   35667765 6788899999 9999


Q ss_pred             HHHHHhhccCCEEEEEEe-CCeEEEEEEecceeEEEEEeecccCCCCC----------------Cc--eEEEecCcEEEE
Q 024527          146 RICKDLASIGDTVVISVT-KEGVKFSTRGDIGTANIVLRQNTTVDKPE----------------EA--TIIEMHEPVSLT  206 (266)
Q Consensus       146 ~~i~~~~~~~d~v~i~~~-~~~l~~s~~gd~g~~~~~~~~~~~~~~~~----------------~~--~~~~~~~~~~~~  206 (266)
                      .+++++..+|+.++|+++ .|.+.|..+.|..+....|+...+..-..                ..  -..+-++.+++.
T Consensus       163 ~~veR~k~~s~~v~i~an~~G~L~L~v~t~~~~v~t~~~~L~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~sV~  242 (292)
T PF04005_consen  163 SIVERMKNLSDYVTISANMNGELRLSVETDSVSVETEFRGLENPPLDPAELNTVDQLPSEDDSDSDQQEERDPEEFASVR  242 (292)
T ss_dssp             HHHHHHHTT-SEEEEEE-SSS-EEEEEE-SSEEEEEEE-S------------------------SSSSS-------EEEE
T ss_pred             HHHHHHhccCceEEEEEECCCcEEEEEEeCcEEEEEEECCCCCCccccccccccccccccccccccccccCCCCcEEEEE
Confidence            999999999999999999 57999999999999999997643322100                00  001223458999


Q ss_pred             EehHHHHhccccCCCC-ceEEEEecCCCcEEEEEEeCCcEEEEEEEc
Q 024527          207 FALRYMNSFTRATPLS-NTVTISLSSELPVVVEYKIAEMGYIRFYLA  252 (266)
Q Consensus       207 f~~~yL~~~~k~~~ls-~~v~l~~~~~~Pl~l~~~i~~~g~~~~~ia  252 (266)
                      .+.|-+..+++...++ +.|.+.+.++..+.+...+++++.++|||.
T Consensus       243 Vd~K~~~~~l~~~~~~p~~vi~~I~~~~~~vl~~~~~~~~~l~yyip  289 (292)
T PF04005_consen  243 VDIKDLAKFLKSHQLSPSRVICCICHNKALVLHVYLDEDVSLTYYIP  289 (292)
T ss_dssp             EEHHHHHHHHHH--S--SEEEEEEETTTEEEEEEEE-TTEEEEEEEE
T ss_pred             EEHHHHHHhhCccccCCCEEEEEEccCCeEEEEEEEcCCEEEEEEEe
Confidence            9999999999987776 899999999999999998878899999985

These proteins are known to form a stable complex in vivo []. Hus1-Rad1-Rad9 complex may form a PCNA-like ring structure, and could function as a sliding clamp during checkpoint control.; PDB: 3A1J_B 3G65_C 3GGR_B.

>smart00480 POL3Bc DNA polymerase III beta subunit

Probab=99.87  E-value=1e-19  Score=163.93  Aligned_cols=213  Identities=17%  Similarity=0.324  Sum_probs=174.0

Q ss_pred             ChhhHHHHHHH---------HHhhhceeeEEEeCCceEEEEECCCCeEEEEEEecCCCcceeeeCCcEEEEEEhhhHHHH
Q 024527            8 QGSLLKKVLEA---------IKELVNDANFDCSATGFSLQAMDSSHVALVALLLRSEGFEHYRCDRNISMGMNLNNVSKM   78 (266)
Q Consensus         8 ~~~~~k~i~~~---------l~~l~~~~~~~~~~~gl~~~a~D~~r~a~v~~~l~~~~F~~y~~~~~~~~gi~l~~L~~i   78 (266)
                      ++..|+++++.         .+++++++.|++.+++++++|+|++|.+...+.++.+.       .+..+.||.+.|.++
T Consensus       114 ~~~~L~~~i~~v~~a~s~~~~~piL~Gi~~~~~~~~l~lvATDg~rla~~~~~~~~~~-------~~~~~ivP~k~l~el  186 (345)
T smart00480      114 PTKLLKEGIEKTAFAVSTDETRPVLNGVNLEISNGELRLVATDGHRLAVREIKLESEE-------DDFSVIIPRKSLLEL  186 (345)
T ss_pred             CHHHHHHHHhhEEEEEecCCCcceeeEEEEEEECCEEEEEEEcCceEEEEEeccCCCC-------CcceEEEehHHHHHH
Confidence            36677777775         45679999999999999999999999999877654321       135689999999999


Q ss_pred             hcccCC-CceEEEEEcCCCCeEEEEEeCCCCCeEEEEEEeeeecCCCCC--CCCcceeeEEEEEehHHHHHHHHHhhccC
Q 024527           79 LKCAGN-DDIITLKADDGSDTVTFMFESPTQDKIADFEMKLMDIDSEHL--GIPEAEYHAIVRMPSAEFARICKDLASIG  155 (266)
Q Consensus        79 lk~~~~-~d~l~l~~~~~~~~l~i~~~~~~~~~~~~~~l~li~~~~~~~--~ip~~~~~~~i~~~s~~~~~~i~~~~~~~  155 (266)
                      +|.+.+ ++.+++.++++  ++.|..++.      .|.++++++++|+|  .+| .+++.++.+++.+|.++++|+..++
T Consensus       187 ~k~l~~~~~~v~i~~~~~--~~~~~~~~~------~~~~~li~g~fP~~~~vip-~~~~~~~~i~~~~L~~ai~rv~~~~  257 (345)
T smart00480      187 NKLLTDNEELVEIFISSN--QILFETGNV------IFTSRLIDGEFPDYKRVIP-KEFETKLTVNRKELKEALKRVALLA  257 (345)
T ss_pred             HHhccCCCCcEEEEEeCC--EEEEEECCE------EEEEEEeeecCCCchhhCC-CCCCEEEEEEHHHHHHHHHHHhhhh
Confidence            999875 45788888754  788877665      89999999999988  356 4888999999999999999999886


Q ss_pred             C----EEEEEEeCCeEEEEEEe-cceeEEEEEeecccCCCCCCceEEEe-cCcEEEEEehHHHHhccccCCCCceEEEEe
Q 024527          156 D----TVVISVTKEGVKFSTRG-DIGTANIVLRQNTTVDKPEEATIIEM-HEPVSLTFALRYMNSFTRATPLSNTVTISL  229 (266)
Q Consensus       156 d----~v~i~~~~~~l~~s~~g-d~g~~~~~~~~~~~~~~~~~~~~~~~-~~~~~~~f~~~yL~~~~k~~~ls~~v~l~~  229 (266)
                      +    .|.+.++++++.+++.+ |.|.+.+++.             ++. ++++++.||.+||.++++++. +++|.+++
T Consensus       258 ~~~~~~v~l~~~~~~l~~~a~d~~~g~~~e~i~-------------~~~~g~~~~i~fN~~yL~d~l~~~~-~~~v~l~~  323 (345)
T smart00480      258 NEKNRSVKLTLEEGQLKLTANSPEVGEAEEEVD-------------VDYEGEDLEIAFNPKYLLDALKALK-SEEIELKF  323 (345)
T ss_pred             cCCCceEEEEEeCCEEEEEEcCCccceEEEEEE-------------EEecCCcEEEEECHHHHHHHHhcCC-CCEEEEEE
Confidence            4    58899999999999875 8898888773             334 678999999999999999997 89999999


Q ss_pred             cCCC-cEEEEEEeCCcEEEEEEEc
Q 024527          230 SSEL-PVVVEYKIAEMGYIRFYLA  252 (266)
Q Consensus       230 ~~~~-Pl~l~~~i~~~g~~~~~ia  252 (266)
                      .+.. |+.++. .++ ..+.|+|+
T Consensus       324 ~~~~~p~~i~~-~~~-~~~~~lim  345 (345)
T smart00480      324 TDSSSPFLISP-PDD-EKLKYLIM  345 (345)
T ss_pred             CCCCCCEEEEc-CCC-CceEEEeC
Confidence            9875 999985 333 34456653

>cd00140 beta_clamp Beta clamp domain

Probab=99.86  E-value=3e-19  Score=161.76  Aligned_cols=216  Identities=18%  Similarity=0.326  Sum_probs=177.2

Q ss_pred             ChhhHHHHHHHHHh---------hhceeeEEEeCCceEEEEECCCCeEEEEEEecCCCcceeeeCCcEEEEEEhhhHHHH
Q 024527            8 QGSLLKKVLEAIKE---------LVNDANFDCSATGFSLQAMDSSHVALVALLLRSEGFEHYRCDRNISMGMNLNNVSKM   78 (266)
Q Consensus         8 ~~~~~k~i~~~l~~---------l~~~~~~~~~~~gl~~~a~D~~r~a~v~~~l~~~~F~~y~~~~~~~~gi~l~~L~~i   78 (266)
                      +...|.++++.+..         ++.++.|++.++++++.|+|++|.+...+.++...      .++..+.+|.+.|.++
T Consensus       130 ~~~~l~~~l~~v~~~~~~~~~~~~l~gI~~~~~~~~l~l~atD~~~~~~~~~~~~~~~------~~~~~~~i~~~~l~~l  203 (365)
T cd00140         130 PASELKELIKKTAFAVSTDETRPILNGVLLEIEDNKLRAVATDGHRLALREIELESGA------EEDFNVIVPRKTLNEL  203 (365)
T ss_pred             CHHHHHHHHhhEEEEecCccCcccceEEEEEEECCEEEEEEEcCceEEEEEeecCCCC------ccCceEEEechHHHHH
Confidence            36677777776443         34689999999999999999999998888777532      2346789999999999


Q ss_pred             hcccC-CCceEEEEEcCCCCeEEEEEeCCCCCeEEEEEEeeeecCCCCCC--CCcceeeEEEEEehHHHHHHHHHhhccC
Q 024527           79 LKCAG-NDDIITLKADDGSDTVTFMFESPTQDKIADFEMKLMDIDSEHLG--IPEAEYHAIVRMPSAEFARICKDLASIG  155 (266)
Q Consensus        79 lk~~~-~~d~l~l~~~~~~~~l~i~~~~~~~~~~~~~~l~li~~~~~~~~--ip~~~~~~~i~~~s~~~~~~i~~~~~~~  155 (266)
                      +|.++ .++.+.|...++  .+.|..++.      .|.++++++++|+++  +|. .++.++.++++.|.++++++..++
T Consensus       204 ~k~l~~~~~~v~i~~~~~--~l~i~~~~~------~~~~~li~~~yP~~~~~ip~-~~~~~~~i~~~~L~~~l~~~~~~~  274 (365)
T cd00140         204 LKLLEDDDEEVEISISEN--QILFKLGNT------TFTSRLIEGEFPDYERVIPK-EFEKSLTVDREELLEALKRVSLLS  274 (365)
T ss_pred             HHhccCCCCcEEEEEeCC--EEEEEECCE------EEEEEEEeeECCCchhcCCC-CCcEEEEEEHHHHHHHHHHHhhhh
Confidence            99987 467888888654  788877654      899999999999873  575 588999999999999999999987


Q ss_pred             C----EEEEEEeCCeEEEEEEec-ceeEEEEEeecccCCCCCCceEEEe-cCcEEEEEehHHHHhccccCCCCceEEEEe
Q 024527          156 D----TVVISVTKEGVKFSTRGD-IGTANIVLRQNTTVDKPEEATIIEM-HEPVSLTFALRYMNSFTRATPLSNTVTISL  229 (266)
Q Consensus       156 d----~v~i~~~~~~l~~s~~gd-~g~~~~~~~~~~~~~~~~~~~~~~~-~~~~~~~f~~~yL~~~~k~~~ls~~v~l~~  229 (266)
                      +    .|.+.++++++++++.++ .|.+...+.             .+. +++.++.|+.+||.+++|+.+ +++|.+++
T Consensus       275 ~~~~~~v~l~~~~~~l~~~a~~~~~~~~~~~~~-------------~~~~g~~~~i~~~~~yL~d~lk~~~-~~~v~i~~  340 (365)
T cd00140         275 NEKNRGVKLEISEGQLKLSANNPEIGEAEEELE-------------VEYEGEELEIGFNPKYLLDALKAID-SEEVRLSF  340 (365)
T ss_pred             ccCCceEEEEEeCCEEEEEEcCCCCceEEEEEE-------------EEecCCcEEEEECHHHHHHHHhcCC-CCEEEEEE
Confidence            5    799999999999999875 577766662             333 567899999999999999987 78999999


Q ss_pred             cCC-CcEEEEEEeCCcEEEEEEEccc
Q 024527          230 SSE-LPVVVEYKIAEMGYIRFYLAPK  254 (266)
Q Consensus       230 ~~~-~Pl~l~~~i~~~g~~~~~iaPr  254 (266)
                      +++ .|+.+++.-  ++.+.|+|+|.
T Consensus       341 ~~~~~p~~i~~~~--~~~~~~limP~  364 (365)
T cd00140         341 TDSNSPVLITPED--DDNFLYLIMPV  364 (365)
T ss_pred             CCCCCCEEEEcCC--CCcEEEEEEeC
Confidence            998 799998753  47899999993

The beta subunit (processivity factor) of DNA polymerase III holoenzyme, refered to as the beta clamp, forms a ring shaped dimer that encircles dsDNA (sliding clamp) in bacteria. The beta-clamp is structurally similar to the trimeric ring formed by PCNA (found in eukaryotes and archaea) and the processivity factor (found in bacteriophages T4 and RB69). This structural correspondence further substantiates the mechanistic connection between eukaryotic and prokaryotic DNA replication that has been suggested on biochemical grounds.

>TIGR00663 dnan DNA polymerase III, beta subunit

Probab=99.85  E-value=7.4e-19  Score=159.67  Aligned_cols=215  Identities=18%  Similarity=0.291  Sum_probs=172.2

Q ss_pred             ChhhHHHHHHHHH---------hhhceeeEEEeCCceEEEEECCCCeEEEEEEecCCCcceeeeCCcEEEEEEhhhHHHH
Q 024527            8 QGSLLKKVLEAIK---------ELVNDANFDCSATGFSLQAMDSSHVALVALLLRSEGFEHYRCDRNISMGMNLNNVSKM   78 (266)
Q Consensus         8 ~~~~~k~i~~~l~---------~l~~~~~~~~~~~gl~~~a~D~~r~a~v~~~l~~~~F~~y~~~~~~~~gi~l~~L~~i   78 (266)
                      ++..|+++++.+.         +++.++.|++.++.+++.|+|++|+|+....++...      ..+..+.||.+.|..+
T Consensus       130 ~~~~l~~~i~~v~~a~~~~~~r~~L~gi~~~~~~~~l~~~atDg~RLa~~~~~~~~~~------~~~~~~iiP~k~l~el  203 (367)
T TIGR00663       130 PSDVLKEAINQTAFAAGEDETRPVLNGVLIEQKGKTLLLVATDGHRLAVCKLKSEVSD------EEDFSVIIPAKALNEL  203 (367)
T ss_pred             CHHHHHHHHhhEEEEEecCCCCcccceEEEEEeCCEEEEEEecchheEEEeccccCCC------CccceEEEecHHHHHH
Confidence            4677888887743         345689999999999999999999999876654221      2245689999999999


Q ss_pred             hcccCCCceEEE-EEcCCCCeEEEEEeCCCCCeEEEEEEeeeecCCCCC--CCCcceeeEEEEEehHHHHHHHHHhhccC
Q 024527           79 LKCAGNDDIITL-KADDGSDTVTFMFESPTQDKIADFEMKLMDIDSEHL--GIPEAEYHAIVRMPSAEFARICKDLASIG  155 (266)
Q Consensus        79 lk~~~~~d~l~l-~~~~~~~~l~i~~~~~~~~~~~~~~l~li~~~~~~~--~ip~~~~~~~i~~~s~~~~~~i~~~~~~~  155 (266)
                      .|.+.+++.+.+ ..+  ++++.|..++.      .|.++++++++|+|  .+|+ +++.+++++..+|.++++|+..++
T Consensus       204 ~~~l~~~~~~~~~~~~--~~~~~~~~~~~------~~~~rli~g~yP~y~~vip~-~~~~~~~i~~~~L~~al~rv~~~~  274 (367)
T TIGR00663       204 LKLLSENGSVVLKSLN--DQLVYIELGNY------KFTSKLIEGNYPDYKSVIPK-EQKNSFTVNREELKEAIKRVSLLA  274 (367)
T ss_pred             HHHhcCCCCeEEEEEe--CCEEEEEECCE------EEEEEEeeccCCCccccCCC-CCCEEEEEeHHHHHHHHHHHHHHh
Confidence            998875544444 333  34788887765      89999999999987  5674 788999999999999999998876


Q ss_pred             C----EEEEEEeCC-eEEEEEEe-cceeEEEEEeecccCCCCCCceEEEe-cCcEEEEEehHHHHhccccCCCCceEEEE
Q 024527          156 D----TVVISVTKE-GVKFSTRG-DIGTANIVLRQNTTVDKPEEATIIEM-HEPVSLTFALRYMNSFTRATPLSNTVTIS  228 (266)
Q Consensus       156 d----~v~i~~~~~-~l~~s~~g-d~g~~~~~~~~~~~~~~~~~~~~~~~-~~~~~~~f~~~yL~~~~k~~~ls~~v~l~  228 (266)
                      +    .|.+..+++ .+.+++.+ +.|.++..+.             +.. +++.++.||.+||.++++++. +++|.++
T Consensus       275 ~~~~~~v~~~~~~~~~l~i~~~~~~~g~~~e~i~-------------~~~~g~~~~i~fN~~yL~d~l~~~~-~~~v~l~  340 (367)
T TIGR00663       275 DEKRNLVLTLSENGKKLKESSDTQEIGEAEEEIE-------------VAYDGEDLVIAFNIKYLLDALKALK-SKEIQIQ  340 (367)
T ss_pred             cCCCceEEEEECCCCeEEEEEcCCCCccEEEEEE-------------EEecCCcEEEEECHHHHHHHHhcCC-CCEEEEE
Confidence            3    588888888 99998875 7888887772             334 678999999999999999997 8999999


Q ss_pred             ecCC-CcEEEEEEeCCcEEEEEEEcc
Q 024527          229 LSSE-LPVVVEYKIAEMGYIRFYLAP  253 (266)
Q Consensus       229 ~~~~-~Pl~l~~~i~~~g~~~~~iaP  253 (266)
                      +.+. .|+.++..  ++..+.|+|+|
T Consensus       341 ~~~~~~p~~i~~~--~~~~~~~limP  364 (367)
T TIGR00663       341 FNDPSKPLLIEPE--NDEKITYLIMP  364 (367)
T ss_pred             ECCCCCCEEEecC--CCCcEEEEEEe
Confidence            9986 59988753  33457799999

University).

>PRK14943 DNA polymerase III subunit beta; Provisional

Probab=99.84  E-value=1.1e-18  Score=158.86  Aligned_cols=221  Identities=15%  Similarity=0.222  Sum_probs=173.1

Q ss_pred             ChhhHHHHHHHHH---------hhhceeeEEEeCCceEEEEECCCCeEEEEEEecCCCcceeeeCCcEEEEEEhhhHHHH
Q 024527            8 QGSLLKKVLEAIK---------ELVNDANFDCSATGFSLQAMDSSHVALVALLLRSEGFEHYRCDRNISMGMNLNNVSKM   78 (266)
Q Consensus         8 ~~~~~k~i~~~l~---------~l~~~~~~~~~~~gl~~~a~D~~r~a~v~~~l~~~~F~~y~~~~~~~~gi~l~~L~~i   78 (266)
                      +++.|+++++.+.         +++.++.|++.++.++++|+|++|.|+....++..      ++.+..+.++.+.|..+
T Consensus       130 ~~~~l~~~i~~v~~a~s~~~~~~~L~gv~l~~~~~~l~l~aTDg~rla~~~~~~~~~------~~~~~~~ivp~k~l~~l  203 (374)
T PRK14943        130 EQSELRDMLKSVEYAQSTDETRYILNGVYFNFRDGKLTLVATDGRRLALAETELEFP------EDQAGDAILPAKTVGEL  203 (374)
T ss_pred             CHHHHHHHHhhEeEEeccCcCCcceEEEEEEEeCCEEEEEEecchhEEEEEeccCCC------CCcCceEEEehhHHHHH
Confidence            3567777777643         34568999999999999999999999877766432      12234578899999888


Q ss_pred             hcccCCCceEEEEEcCCCCeEEEEEeCC--CCC--eEEEEEEeeeecCCCCC--CCCcceeeEEEEEehHHHHHHHHHhh
Q 024527           79 LKCAGNDDIITLKADDGSDTVTFMFESP--TQD--KIADFEMKLMDIDSEHL--GIPEAEYHAIVRMPSAEFARICKDLA  152 (266)
Q Consensus        79 lk~~~~~d~l~l~~~~~~~~l~i~~~~~--~~~--~~~~~~l~li~~~~~~~--~ip~~~~~~~i~~~s~~~~~~i~~~~  152 (266)
                      +|.+..++.+.+.+++.  .+.+.+...  ..|  .-+.+..+++++++|+|  .+|. +++.++++++.+|.++++|+.
T Consensus       204 ~~~l~~~~~V~i~~~~~--~~~f~~~~~~~~~~~~~~~~~~~~li~g~fP~y~~vip~-~~~~~~~i~~~~l~~al~r~~  280 (374)
T PRK14943        204 RRLLDKGGKLKIRFNDR--QAAFEISIGEDSSGLANDTYLISKLVEGNYPNYRQVIPK-ETKERIKLERELLLECVHRAA  280 (374)
T ss_pred             HHhCCCCCcEEEEEeCC--EEEEEEeccccccccCCCEEEEEEEeeecCCChHHhCCC-CCCeEEEEEHHHHHHHHHHHH
Confidence            88887667789988655  566666211  001  12378899999999998  5674 788999999999999999998


Q ss_pred             ccC----CEEEEEEeCCeEEEEEEe-cceeEEEEEeecccCCCCCCceEEEe-cCcEEEEEehHHHHhccccCCCCceEE
Q 024527          153 SIG----DTVVISVTKEGVKFSTRG-DIGTANIVLRQNTTVDKPEEATIIEM-HEPVSLTFALRYMNSFTRATPLSNTVT  226 (266)
Q Consensus       153 ~~~----d~v~i~~~~~~l~~s~~g-d~g~~~~~~~~~~~~~~~~~~~~~~~-~~~~~~~f~~~yL~~~~k~~~ls~~v~  226 (266)
                      .++    ..|.+.++++.+.+++.. |.|++.+++             .++. +++.++.||.+||.+++++++ +++|+
T Consensus       281 ~~~~~~~~~v~l~~~~~~l~i~~~~~e~G~~~e~i-------------~~~~~G~~~~i~fN~~yl~d~l~~~~-~~~v~  346 (374)
T PRK14943        281 LVSSDKSNSVKLKFSENLLEIASSSEGVGEAHESM-------------AITYSGPELQVAFNPDFFMAPLKALT-KDEVF  346 (374)
T ss_pred             hhcccCCceEEEEEECCEEEEEEcCCCCceEEEEE-------------EEEecCCcEEEEECHHHHHHHHhcCC-CCEEE
Confidence            885    258899999999998875 889888877             2444 678999999999999999997 89999


Q ss_pred             EEecCC-CcEEEEEEeCCcEEEEEEEcc-cC
Q 024527          227 ISLSSE-LPVVVEYKIAEMGYIRFYLAP-KI  255 (266)
Q Consensus       227 l~~~~~-~Pl~l~~~i~~~g~~~~~iaP-r~  255 (266)
                      +++..+ .|+.++.   ++ .+.|+|+| |+
T Consensus       347 l~~~~~~~p~~i~~---~~-~~~~limP~r~  373 (374)
T PRK14943        347 FELKDEMSPGVFKT---LD-EFLCVIMPMRL  373 (374)
T ss_pred             EEECCCCCCEEEec---CC-CeEEEEEeeec
Confidence            999986 5998874   33 45799999 43

>PF04139 Rad9: Rad9; InterPro: IPR007268 Rad9 is required for transient cell-cycle arrests and transcriptional induction of DNA repair in response to DNA damage

Probab=99.83  E-value=4.2e-18  Score=147.07  Aligned_cols=236  Identities=15%  Similarity=0.268  Sum_probs=171.5

Q ss_pred             HHHHHHHHHhhhceeeEEEeCCceEEEEECCCCeEEEEEEecCCCccee--eeC--CcEEEEEEhhhHHHHhcccC----
Q 024527           12 LKKVLEAIKELVNDANFDCSATGFSLQAMDSSHVALVALLLRSEGFEHY--RCD--RNISMGMNLNNVSKMLKCAG----   83 (266)
Q Consensus        12 ~k~i~~~l~~l~~~~~~~~~~~gl~~~a~D~~r~a~v~~~l~~~~F~~y--~~~--~~~~~gi~l~~L~~ilk~~~----   83 (266)
                      |.+++.+++++-+++.++++++||.++|++++|.|+..+.+.+.+|++|  ..+  ......++++.+..++|+..    
T Consensus         1 f~ral~~Lskigeel~ie~~~~~L~l~avNss~Sa~~~~~F~~~FF~~y~~~~~~~~~~~~~i~~K~~l~vfr~~~~~~~   80 (252)
T PF04139_consen    1 FARALQCLSKIGEELYIEITEDGLSLRAVNSSRSAYAQFRFSKSFFDKYQADSDSQDSFSCKISMKSLLSVFRSLSTLEK   80 (252)
T ss_dssp             HHHHHHHHHTT-SEEEEEEETTEEEEEEE-TTSSEEEEEEETGGGSSEEE--SSSS----EEEEHHHHHHHHSSCTCCHH
T ss_pred             CHHHHHHHHhhCCeEEEEEcCCeEEEEEECccccEEEEEEEChHHhhhhcccCCCCCcEEEEEEchhhhhhhcccccccc
Confidence            6789999999999999999999999999999999999999999999999  222  35678999999999999765    


Q ss_pred             CCceEEEEEcCCCCeEEEEEeCCCCCeEEEEEEeeeecCCCCCCCCcceeeEEEEEehHHHHHHHHHhhccCCEEEEEEe
Q 024527           84 NDDIITLKADDGSDTVTFMFESPTQDKIADFEMKLMDIDSEHLGIPEAEYHAIVRMPSAEFARICKDLASIGDTVVISVT  163 (266)
Q Consensus        84 ~~d~l~l~~~~~~~~l~i~~~~~~~~~~~~~~l~li~~~~~~~~ip~~~~~~~i~~~s~~~~~~i~~~~~~~d~v~i~~~  163 (266)
                      +-+.+.|.++...+.|.+++.+. .|.+++|.++..+.+..........+++.++++++.|++++..+..--+.|++.++
T Consensus        81 ~Ve~c~i~i~~~~~~L~~~l~c~-~gI~Kt~~l~~~~~~~~~a~~d~~~~~n~l~~~~~~l~~~l~~f~~~~eeitl~~~  159 (252)
T PF04139_consen   81 NVESCEISIDNDESRLIFQLFCK-NGIIKTYNLPYEECESLQAVFDKESCPNYLVISPRLLKDLLDHFPSSTEEITLEVT  159 (252)
T ss_dssp             CEEEEEEEE-TTSSEEEEEEEEG-GGEEEEEEEE-CE---------GGGSSEEEEEEHHHHHHHHTTS-TT--EEEEEEE
T ss_pred             ceeEEEEEEcCCCcEEEEEEEec-cceEEEEEEEEEeccccccccchhcCCceEEEChHHHHHHHhhcCCChhhEEEEec
Confidence            34678999977778999999876 58999999999988876544444467899999999999999999887789999999


Q ss_pred             CCeEEEEEEecc-----eeEEEEEeecccCCCCCCceEEEecCcEEEEEehHHHHhccccCC-CCceEEEEecCCC-cEE
Q 024527          164 KEGVKFSTRGDI-----GTANIVLRQNTTVDKPEEATIIEMHEPVSLTFALRYMNSFTRATP-LSNTVTISLSSEL-PVV  236 (266)
Q Consensus       164 ~~~l~~s~~gd~-----g~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~f~~~yL~~~~k~~~-ls~~v~l~~~~~~-Pl~  236 (266)
                      ++++.+++-.+.     .....++..     +.++.....+.++..++|++|-++.++..+. ++..+.++|+.++ |+.
T Consensus       160 ~~~v~~~s~~~~~~~~~~~l~t~v~i-----~~~ef~~~~~~~~~~itF~lKefka~l~~ae~~~~~i~~~f~~pG~Pi~  234 (252)
T PF04139_consen  160 DDKVSFKSYTEEIQDSKQPLSTEVTI-----STEEFDEYNVQEDTDITFSLKEFKAILSFAESLSLPISIYFDNPGRPIL  234 (252)
T ss_dssp             CTCEEEEEE-----SSS---EEEEEE------GGGSSEEE--TT-EEEEEHHHHHHHHHHHHHTTEEEEEEESSTTS-EE
T ss_pred             CCEEEEEeecccccccccceEEEEEE-----ehHhcceEEcCCCCEEEEEeHHHHHHHHHHHhcCCcEEEEECCCCCcEE
Confidence            999999886421     122233321     2244445777788999999999999987653 3679999999875 999


Q ss_pred             EEEEeCCcEEEEEEEcc
Q 024527          237 VEYKIAEMGYIRFYLAP  253 (266)
Q Consensus       237 l~~~i~~~g~~~~~iaP  253 (266)
                      +++.=.+.-.++|.+|-
T Consensus       235 ~~~~~~~~~~~~~vlaT  251 (252)
T PF04139_consen  235 FELEQNDHFEAEFVLAT  251 (252)
T ss_dssp             EEEE--SSEEEEEEE--
T ss_pred             EEECCCCcEEEEEEEEc
Confidence            99873245688888873

; GO: 0006281 DNA repair; PDB: 3GGR_A 3G65_A 3A1J_A.

>COG0592 DnaN DNA polymerase sliding clamp subunit (PCNA homolog) [DNA replication, recombination, and repair]

Probab=99.81  E-value=2.4e-20  Score=168.84  Aligned_cols=251  Identities=25%  Similarity=0.328  Sum_probs=197.1

Q ss_pred             EEEcChhhHHHHHHHHHhhhceeeEEEeCCceEEEEECCCCeEEEEEEecCCCcceeeeCCc-EEEEEEhhhHHHHhccc
Q 024527            4 LRLVQGSLLKKVLEAIKELVNDANFDCSATGFSLQAMDSSHVALVALLLRSEGFEHYRCDRN-ISMGMNLNNVSKMLKCA   82 (266)
Q Consensus         4 a~~~~~~~~k~i~~~l~~l~~~~~~~~~~~gl~~~a~D~~r~a~v~~~l~~~~F~~y~~~~~-~~~gi~l~~L~~ilk~~   82 (266)
                      +....+..+|.+++.++++.+++.+.++.+|+...++|+.|+++....+|++.|.+|.++++ ..++++.+.|.++++++
T Consensus        63 ~~g~~~v~~k~l~dii~~L~de~~~~~~~~~~~~~~i~~~~s~f~l~~lp~e~Fp~~~~~~~~~~~~l~~~~Lk~ii~~~  142 (364)
T COG0592          63 AEGEVAVPAKKLLDIISKLPDEAVFLVTEDGISLLAVDSGKSAFVLLTLPAEDFPEYPVDEEEVEFGLPTELLKKIIKRT  142 (364)
T ss_pred             cceeEEEEhHHHHHHHHhCCCCceEEEEecCCceEEEecCceEEEcCCCCHHHCCCCCCCCcCceEEecHHHHHHHHhhe
Confidence            34445678999999999999999999999999999999999999999999999999999986 46899999999999999


Q ss_pred             CCCceEEEEEcCCCCeEEEEEeCCCCCeEEEEEEeeeecCCCCCCCCcceeeEEEEEehHHHHHHH---HHhh----ccC
Q 024527           83 GNDDIITLKADDGSDTVTFMFESPTQDKIADFEMKLMDIDSEHLGIPEAEYHAIVRMPSAEFARIC---KDLA----SIG  155 (266)
Q Consensus        83 ~~~d~l~l~~~~~~~~l~i~~~~~~~~~~~~~~l~li~~~~~~~~ip~~~~~~~i~~~s~~~~~~i---~~~~----~~~  155 (266)
                      ...+.. .+.+..-+.+.+.+++.   ..+.+.+........++++|+.++++.+++|++.|++++   ++.+    ..+
T Consensus       143 ~fa~~~-~e~~~~lngv~~~i~~~---~l~~vatd~~rla~~~~~~~~~~~~~~viIp~k~l~el~k~~~d~~~~~~~~s  218 (364)
T COG0592         143 KFADSL-LETRYELNGVLLEIEGT---KLRLVATDGHRLAVEELEIPELEEDASVIIPAKTLKELIKLLKDADVEIFLVS  218 (364)
T ss_pred             eecccc-hhhhhhcccEEEEEECC---EEEEEEECCceEEEEEeccccCCCCccEEEEhhHHHHHHHhCCCCCeEEEEcC
Confidence            877766 66655555788887765   466777777776666677887788899999999999999   6666    566


Q ss_pred             CEEEEEEeCCeEEEEE--EecceeEEEEEeecccCCCC-CCceEE---EecCcEEEEEehHHHHhccccCCCCc-eEEEE
Q 024527          156 DTVVISVTKEGVKFST--RGDIGTANIVLRQNTTVDKP-EEATII---EMHEPVSLTFALRYMNSFTRATPLSN-TVTIS  228 (266)
Q Consensus       156 d~v~i~~~~~~l~~s~--~gd~g~~~~~~~~~~~~~~~-~~~~~~---~~~~~~~~~f~~~yL~~~~k~~~ls~-~v~l~  228 (266)
                      +.+.+.+++ ...++.  +|+.......+.      +. +..+.+   ++.+.++-.|.+.|++...+...+++ .+++.
T Consensus       219 d~i~f~~~~-~~~~s~lieG~fpd~~~vip------~~~~~~~~l~~~el~~al~r~~~l~~~~~~~~~~~~~~~~v~i~  291 (364)
T COG0592         219 DQIRFKAGE-TILFSKLIEGEFPDYERVIP------KEFEKELTLDRLELKEALKRVYSLSYLKDRGKKLSLADGEVKLS  291 (364)
T ss_pred             CeEEEEECC-EEEEEEEecccCCChhhcCC------CCCceEEEEeHHHHHHHHHHHHHHHhcccCceEEEeeCCeEEEE
Confidence            677777666 333333  344344333331      11 111122   23456888999999999999988888 99999


Q ss_pred             ecCCCcEEEEEEeCC-----cEEEEEEEcccCCCCcccCCCC
Q 024527          229 LSSELPVVVEYKIAE-----MGYIRFYLAPKIEEDEDETKPQ  265 (266)
Q Consensus       229 ~~~~~Pl~l~~~i~~-----~g~~~~~iaPr~~~~~~~~~~~  265 (266)
                      ++++.|+.+++.+..     .+++.|++||+++....-++++
T Consensus       292 ~~~~~~g~~~eei~~~~~g~~~~I~fn~~ylld~l~~~~~~~  333 (364)
T COG0592         292 LGNDEPGKAEEEIDVGYTGEELKIGFNLAYLLDVLKALDSEE  333 (364)
T ss_pred             ecCCCccceEEEEEeccCCceEEEEECHHHHHHHHhcCCCCe
Confidence            999999999998754     4899999999999777666654

>KOG3194 consensus Checkpoint 9-1-1 complex, RAD1 component [Cell cycle control, cell division, chromosome partitioning; Replication, recombination and repair]

Probab=99.80  E-value=6.4e-19  Score=145.86  Aligned_cols=242  Identities=15%  Similarity=0.277  Sum_probs=196.1

Q ss_pred             eeEEEcChhhHHHHHHHHHhhhceeeEEEeCCceEEEEECCCCeEEEEEEecCCCcceeeeCCc-EE----EEEEhhhHH
Q 024527            2 LELRLVQGSLLKKVLEAIKELVNDANFDCSATGFSLQAMDSSHVALVALLLRSEGFEHYRCDRN-IS----MGMNLNNVS   76 (266)
Q Consensus         2 f~a~~~~~~~~k~i~~~l~~l~~~~~~~~~~~gl~~~a~D~~r~a~v~~~l~~~~F~~y~~~~~-~~----~gi~l~~L~   76 (266)
                      +.+...+...+..++.++. .-+.+.+.++.+|+.++. +++++..+.+++.++.|.+|.+.++ +.    .++..+.|.
T Consensus        14 ~~~~~env~tl~~~lkav~-~kd~~t~ha~~dg~kftv-en~~~~~a~~fi~~~~f~sfkvreesv~~~~~~~is~~sl~   91 (279)
T KOG3194|consen   14 STVHLENVTTLLSCLKAVG-FKDDVTIHADADGLKFTV-ENNHVIKAQLFISRELFMSFKVREESVDHMKLMVISNSSLD   91 (279)
T ss_pred             eeehhhhHHhHHHHHhhhc-cccceEEEEecCCcEEEE-EcCeEeeehhhccHHHhcchhhhhhhhhhhhhheeehhhhh
Confidence            3456667777777777777 789999999999999996 5699999999999999999998764 44    566666666


Q ss_pred             HHhcccCCC--ceEEEEEcCCCCeEEEEEeCCCCCeEEEEEEeeeecCCC-CCCCCcceeeEEEEEehHHHHHHHHHhhc
Q 024527           77 KMLKCAGND--DIITLKADDGSDTVTFMFESPTQDKIADFEMKLMDIDSE-HLGIPEAEYHAIVRMPSAEFARICKDLAS  153 (266)
Q Consensus        77 ~ilk~~~~~--d~l~l~~~~~~~~l~i~~~~~~~~~~~~~~l~li~~~~~-~~~ip~~~~~~~i~~~s~~~~~~i~~~~~  153 (266)
                      ......-.+  -.++++|++-+.++...++..  |.+..+..-..+.... ++.....+.-+++.+.+..|.+|+++++.
T Consensus        92 ~~~s~~m~~~~~~~kvsY~G~g~P~i~~vEd~--G~vt~c~~~tte~~kd~D~n~~~t~v~~kiilKse~L~eAlkeLD~  169 (279)
T KOG3194|consen   92 SFSSMIMSDDLVECKVSYDGHGSPFILIVEDA--GVVTECVELTTELEKDLDFNFLETNVIFKIILKSEGLHEALKELDM  169 (279)
T ss_pred             hhhccccCCCceEEEEEecCCCCceEEEEecc--ceEEEeeecchhhhhccCccccchhhHHHHHHhhHHHHHHHHHhhh
Confidence            666543333  468899988888998888876  6676776666655442 44444445667889999999999999999


Q ss_pred             cCCEEEEEEeCC--eEEEEEEecceeEEEEEeecccCCCCCCceE-EEecCcEEEEEehHHHHhccccCCCCceEEEEec
Q 024527          154 IGDTVVISVTKE--GVKFSTRGDIGTANIVLRQNTTVDKPEEATI-IEMHEPVSLTFALRYMNSFTRATPLSNTVTISLS  230 (266)
Q Consensus       154 ~~d~v~i~~~~~--~l~~s~~gd~g~~~~~~~~~~~~~~~~~~~~-~~~~~~~~~~f~~~yL~~~~k~~~ls~~v~l~~~  230 (266)
                      .++.+.|+.+++  .+.+++.|+.|.+++.++      +.+..++ +++.+++...|....+.+++||..++.+|.+++.
T Consensus       170 tsevl~It~s~dk~~F~L~tfG~lG~S~i~~P------s~s~~mEs~~~~~ev~~sy~fSli~~~tkAl~lasKv~lR~D  243 (279)
T KOG3194|consen  170 TSEVLQITMSPDKPYFRLSTFGNLGSSHIDYP------SDSSLMESFQCFDEVIGSYDFSLIDKITKALKLASKVLLRMD  243 (279)
T ss_pred             cceeEEEEecCCCcEEEEEEecccCcceecCC------CcHHHHHHhhhhhhhhceEeehhhHHHHHHHhhhheEEEEEc
Confidence            999999999866  999999999999999984      2222333 7777889999999999999999999999999999


Q ss_pred             CCCcEEEEEEeCC-cE---EEEEEEcc
Q 024527          231 SELPVVVEYKIAE-MG---YIRFYLAP  253 (266)
Q Consensus       231 ~~~Pl~l~~~i~~-~g---~~~~~iaP  253 (266)
                      +++-|.+++.+.+ +|   ++.|++.|
T Consensus       244 erGvLS~qimi~~~dg~itfiefc~vp  270 (279)
T KOG3194|consen  244 ERGVLSVQIMIQTDDGIITFIEFCMVP  270 (279)
T ss_pred             CCcEEEEEEEEecCCceEEEEEEEEee
Confidence            9999999999754 44   88999999

>COG0592 DnaN DNA polymerase sliding clamp subunit (PCNA homolog) [DNA replication, recombination, and repair]

Probab=99.77  E-value=3.2e-16  Score=141.98  Aligned_cols=213  Identities=18%  Similarity=0.246  Sum_probs=178.5

Q ss_pred             hhhHHHHHHH---------HHhhhceeeEEEeCCceEEEEECCCCeEEEEEEecCCCcceeeeCCcEEEEEEhhhHHHHh
Q 024527            9 GSLLKKVLEA---------IKELVNDANFDCSATGFSLQAMDSSHVALVALLLRSEGFEHYRCDRNISMGMNLNNVSKML   79 (266)
Q Consensus         9 ~~~~k~i~~~---------l~~l~~~~~~~~~~~gl~~~a~D~~r~a~v~~~l~~~~F~~y~~~~~~~~gi~l~~L~~il   79 (266)
                      ...|+++++.         .+...+++.|++.++-++..|+|++|+++.+..++...+       +..+.|+.+.|.++.
T Consensus       132 ~~~Lk~ii~~~~fa~~~~e~~~~lngv~~~i~~~~l~~vatd~~rla~~~~~~~~~~~-------~~~viIp~k~l~el~  204 (364)
T COG0592         132 TELLKKIIKRTKFADSLLETRYELNGVLLEIEGTKLRLVATDGHRLAVEELEIPELEE-------DASVIIPAKTLKELI  204 (364)
T ss_pred             HHHHHHHHhheeecccchhhhhhcccEEEEEECCEEEEEEECCceEEEEEeccccCCC-------CccEEEEhhHHHHHH
Confidence            5667777765         566789999999999999999999999999999997653       267899999999999


Q ss_pred             cccCCCceEEEEEcCCCCeEEEEEeCCCCCeEEEEEEeeeecCCCCC--CCCcceeeEEEEEehHHHHHHHHHhhccCC-
Q 024527           80 KCAGNDDIITLKADDGSDTVTFMFESPTQDKIADFEMKLMDIDSEHL--GIPEAEYHAIVRMPSAEFARICKDLASIGD-  156 (266)
Q Consensus        80 k~~~~~d~l~l~~~~~~~~l~i~~~~~~~~~~~~~~l~li~~~~~~~--~ip~~~~~~~i~~~s~~~~~~i~~~~~~~d-  156 (266)
                      |.+...+ +.+...++  ++.|..++.      .+..+++|+++|++  .+| .++..++++...+|.++++++..++. 
T Consensus       205 k~~~d~~-~~~~~~sd--~i~f~~~~~------~~~s~lieG~fpd~~~vip-~~~~~~~~l~~~el~~al~r~~~l~~~  274 (364)
T COG0592         205 KLLKDAD-VEIFLVSD--QIRFKAGET------ILFSKLIEGEFPDYERVIP-KEFEKELTLDRLELKEALKRVYSLSYL  274 (364)
T ss_pred             HhCCCCC-eEEEEcCC--eEEEEECCE------EEEEEEecccCCChhhcCC-CCCceEEEEeHHHHHHHHHHHHHHHhc
Confidence            8888777 77777544  888888764      89999999999987  667 59999999999999999999999974 


Q ss_pred             ---EEEEEEeCCeEEEEEEe-cceeEEEEEeecccCCCCCCceEEEecCcEEEEEehHHHHhccccCCCCceEEEEecCC
Q 024527          157 ---TVVISVTKEGVKFSTRG-DIGTANIVLRQNTTVDKPEEATIIEMHEPVSLTFALRYMNSFTRATPLSNTVTISLSSE  232 (266)
Q Consensus       157 ---~v~i~~~~~~l~~s~~g-d~g~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~f~~~yL~~~~k~~~ls~~v~l~~~~~  232 (266)
                         .+.+...++.+.+++.. +.|++..++..            -..+++.++.|+..|+.+.+++.+ +++|.+.|++.
T Consensus       275 ~~~~~~~~~~~~~v~i~~~~~~~g~~~eei~~------------~~~g~~~~I~fn~~ylld~l~~~~-~~~v~~~~~~~  341 (364)
T COG0592         275 KDRGKKLSLADGEVKLSLGNDEPGKAEEEIDV------------GYTGEELKIGFNLAYLLDVLKALD-SEEVQFGFNDS  341 (364)
T ss_pred             ccCceEEEeeCCeEEEEecCCCccceEEEEEe------------ccCCceEEEEECHHHHHHHHhcCC-CCeEEEEEcCC
Confidence               45566666899998875 67888888731            111688999999999999999998 99999999986


Q ss_pred             -CcEEEEEEeCCcEEEEEEEcc
Q 024527          233 -LPVVVEYKIAEMGYIRFYLAP  253 (266)
Q Consensus       233 -~Pl~l~~~i~~~g~~~~~iaP  253 (266)
                       .|+.++..  ++..+.|+|+|
T Consensus       342 ~~p~~i~~~--~~~~~~~~imP  361 (364)
T COG0592         342 SSPFLIRPE--ENDDFKYLIMP  361 (364)
T ss_pred             CCcEEEEeC--CCCCceEEEEE
Confidence             49999873  44578899999

>KOG3999 consensus Checkpoint 9-1-1 complex, HUS1 component [Cell cycle control, cell division, chromosome partitioning; Replication, recombination and repair]

Probab=99.58  E-value=6.6e-13  Score=111.09  Aligned_cols=251  Identities=12%  Similarity=0.150  Sum_probs=182.6

Q ss_pred             eeEEEcC---hhhHHHHHHHHHhhhceeeEEEeCCceEEEEECC--CCeEEEEEEecC-CCcceeeeCC------cEEEE
Q 024527            2 LELRLVQ---GSLLKKVLEAIKELVNDANFDCSATGFSLQAMDS--SHVALVALLLRS-EGFEHYRCDR------NISMG   69 (266)
Q Consensus         2 f~a~~~~---~~~~k~i~~~l~~l~~~~~~~~~~~gl~~~a~D~--~r~a~v~~~l~~-~~F~~y~~~~------~~~~g   69 (266)
                      |+|.+.+   -..|++++.++.++-+.|+++++++.+.|...|.  ++..++|..+.+ .+|++|+++.      ++.++
T Consensus         3 Fka~l~d~~~l~~f~ril~al~Kl~K~C~l~l~~e~lnFI~c~~~~~~~~~~ws~~~~e~iF~dy~m~s~~p~~e~I~L~   82 (284)
T KOG3999|consen    3 FKALLQDNAVLLLFTRILPALDKLGKNCHLRLTKEHLNFIHCDLLDGGSVQVWSQLEKEVIFDDYRMESQNPNNEEINLE   82 (284)
T ss_pred             hhhhhccchHHHHHHHHHHHHHHhhhceEEEecccceEEEEecccCCCceEEEEeeehhhcchhheeeccCCCcceEEEE
Confidence            7788888   5689999999999999999999999999987554  467778888885 4899999864      58999


Q ss_pred             EEhhhHHHHhcccCC-CceEEEEEcC-CCCeEEEEEe--CCC--CCeEEEEEEeeee--cCCC-CCCCCcc-eeeEEEEE
Q 024527           70 MNLNNVSKMLKCAGN-DDIITLKADD-GSDTVTFMFE--SPT--QDKIADFEMKLMD--IDSE-HLGIPEA-EYHAIVRM  139 (266)
Q Consensus        70 i~l~~L~~ilk~~~~-~d~l~l~~~~-~~~~l~i~~~--~~~--~~~~~~~~l~li~--~~~~-~~~ip~~-~~~~~i~~  139 (266)
                      ++...|.++||.+.. ...+++.+.+ ..+++....+  +..  ..+...+.+|+--  ..+- +|..|.. +-+..+-|
T Consensus        83 v~~~nl~rAlrs~~~g~~~lklKLskk~~p~~t~~~~~lt~~a~~s~iVtHdIPItii~~s~w~~~~~P~vp~~dl~I~l  162 (284)
T KOG3999|consen   83 VDSANLYRALRSLVGGANRLKLKLSKKQFPCLTVSVEVLTFEAKGSRIVTHDIPITIISRSYWSEYQEPLVPAPDLSIQL  162 (284)
T ss_pred             ecHHHHHHHHHHhcCcccceEEEehhccCCCceeeeeeeccccccCceeEecCCeEEecHHHhhhhcCcCCCCCCcceeC
Confidence            999999999999876 4567777743 2334433222  111  2344566666532  2221 4444432 45566899


Q ss_pred             eh-HHHHHHHHHhhccCCEEEEEEe-CCeEEEEEEecceeEEEEEeecccCCCCCCce-EEE-ecCcEEEEEehHHHHhc
Q 024527          140 PS-AEFARICKDLASIGDTVVISVT-KEGVKFSTRGDIGTANIVLRQNTTVDKPEEAT-IIE-MHEPVSLTFALRYMNSF  215 (266)
Q Consensus       140 ~s-~~~~~~i~~~~~~~d~v~i~~~-~~~l~~s~~gd~g~~~~~~~~~~~~~~~~~~~-~~~-~~~~~~~~f~~~yL~~~  215 (266)
                      |. +.++..++.+..+|+.+.++++ +|.+.++++.+.+...+.|....+..-.++.. ... .++.++...+.+-+..+
T Consensus       163 P~l~~lk~~vdk~Knis~~l~~tan~~GeLqv~v~~e~~~vtt~Fq~L~~~~~~s~s~~edr~~e~~a~~~ld~r~~~~~  242 (284)
T KOG3999|consen  163 PDLNQLKSFVDKMKNISDVLNVTANKSGELQVSVSIELIRVTTEFQDLSNPPLKSSSPVEDRSAEARAEVALDSRDASSF  242 (284)
T ss_pred             CCHHHHHHHHHHhhcccceEEEEEecCceEEEEEEEeeEEEEEEhhhccCCCCCCcccccccChhhhhhheehhhhHHHH
Confidence            98 8999999999999999999998 78999999999999999997654433322222 222 25568899999999999


Q ss_pred             cccCCCC-ceEEEEecCCCcEEEEEEeCCcEEEEEEEc
Q 024527          216 TRATPLS-NTVTISLSSELPVVVEYKIAEMGYIRFYLA  252 (266)
Q Consensus       216 ~k~~~ls-~~v~l~~~~~~Pl~l~~~i~~~g~~~~~ia  252 (266)
                      +++.+.. ....+.+..+.-..+.+--..+..++|+|.
T Consensus       243 ~~s~~~~~~~l~c~i~~~~~v~~~~~~~~dvvL~y~vp  280 (284)
T KOG3999|consen  243 FVSVQVFSTSLQCNITKNDSVHYGIAPQEDVVLQYIVP  280 (284)
T ss_pred             HHHhhcCcceeEEeeccCceEEEeeccCccEEEEEEec
Confidence            9988875 466666666555433332224678888875

>PF02768 DNA_pol3_beta_3: DNA polymerase III beta subunit, C-terminal domain; InterPro: IPR022635 This entry describes the C-terminal domain of the beta chain of DNA polymerase III

Probab=99.52  E-value=4.3e-13  Score=102.92  Aligned_cols=109  Identities=23%  Similarity=0.444  Sum_probs=90.4

Q ss_pred             CCcceeeEEEEEehHHHHHHHHHhhccCC----EEEEEEeCCeEEEEEEe-cceeEEEEEeecccCCCCCCceEEEe-cC
Q 024527          128 IPEAEYHAIVRMPSAEFARICKDLASIGD----TVVISVTKEGVKFSTRG-DIGTANIVLRQNTTVDKPEEATIIEM-HE  201 (266)
Q Consensus       128 ip~~~~~~~i~~~s~~~~~~i~~~~~~~d----~v~i~~~~~~l~~s~~g-d~g~~~~~~~~~~~~~~~~~~~~~~~-~~  201 (266)
                      +|. ++..+++++..+|.++++|+..+++    .|.+.++++++.+++.+ |.|++.+++.             +.. ++
T Consensus         4 iP~-~~~~~i~i~r~~L~~al~Rv~~~~~~~~~~v~l~~~~~~l~l~~~~~~~g~~~e~i~-------------~~~~g~   69 (121)
T PF02768_consen    4 IPT-EFETSITIDRKELLDALKRVSIISSEKNNPVKLSFSDNQLTLSSQSSEIGEAEEEIP-------------IEYEGE   69 (121)
T ss_dssp             S-S-SESEEEEEEHHHHHHHHHHHHHHHTTTTGEEEEEEETTEEEEEEEETTTEEEEEEEE--------------EEEES
T ss_pred             CCC-CCCEEEEEEHHHHHHHHHHHHHHhhcCCceEEEEEECCEEEEEEcCCCCceEEEEEe-------------eeecCC
Confidence            674 8999999999999999999999874    79999999999999985 8899988873             333 78


Q ss_pred             cEEEEEehHHHHhccccCCCCceEEEEecCCC-cEEEEEEeCCcEEEEEEEcc
Q 024527          202 PVSLTFALRYMNSFTRATPLSNTVTISLSSEL-PVVVEYKIAEMGYIRFYLAP  253 (266)
Q Consensus       202 ~~~~~f~~~yL~~~~k~~~ls~~v~l~~~~~~-Pl~l~~~i~~~g~~~~~iaP  253 (266)
                      +.++.||.+||.+++++++ +++|.+++.++. |+.++..  ++....|+|+|
T Consensus        70 ~~~i~fN~~yL~d~L~~~~-~~~V~l~~~~~~~p~~i~~~--~d~~~~~liMP  119 (121)
T PF02768_consen   70 PLEIAFNPKYLLDALKAID-GEEVTLEFSDPSSPILITPE--EDPDFKYLIMP  119 (121)
T ss_dssp             -EEEEEEHHHHHHHHHCC--SSEEEEEESSTTS-EEEEET--TSSCEEEEE--
T ss_pred             ceEEEECHHHHHHHHhhcC-CCEEEEEEcCCCCCEEEEeC--CCCceEEEEEe
Confidence            9999999999999999998 899999999875 9998863  45678899999

This is a complex, multichain enzyme responsible for most of the replicative synthesis in bacteria. The beta chain is required for initiation of replication from an RNA primer, nucleotide triphosphate (dNTP) residues being added to the 5'-end of the growing DNA chain.; GO: 0003677 DNA binding, 0003887 DNA-directed DNA polymerase activity, 0008408 3'-5' exonuclease activity, 0006260 DNA replication, 0009360 DNA polymerase III complex; PDB: 3P16_A 3RB9_B 2AVT_B 2XUR_B 3Q4K_A 3BEP_A 3D1G_A 1UNN_B 3Q4J_D 2POL_A ....

>cd00140 beta_clamp Beta clamp domain

Probab=99.51  E-value=1.4e-11  Score=111.53  Aligned_cols=193  Identities=14%  Similarity=0.208  Sum_probs=148.9

Q ss_pred             hhhHHHHHHHH---------HhhhceeeEEEeCCceEEEEECCCCeEEEEEEecCCCcceeeeCCcEEEEEEhhhHHHHh
Q 024527            9 GSLLKKVLEAI---------KELVNDANFDCSATGFSLQAMDSSHVALVALLLRSEGFEHYRCDRNISMGMNLNNVSKML   79 (266)
Q Consensus         9 ~~~~k~i~~~l---------~~l~~~~~~~~~~~gl~~~a~D~~r~a~v~~~l~~~~F~~y~~~~~~~~gi~l~~L~~il   79 (266)
                      +..|+.+++.+         ++++.++.|++.++++++.|+|++|.+...+....       +.++-.+.|+.+.|.+++
T Consensus         7 ~~~l~~~i~~~~~~~~~~~~~p~L~gvl~e~~~~~l~~~atd~~~~~~~~~~~~~-------~~~~g~~~vp~k~l~~i~   79 (365)
T cd00140           7 REALLEALQKVSRAIESRNTIPILSNVLIEASDGGLTLTATDLEISIKTTIPAEE-------VEEEGSVTVPAKKLLDIV   79 (365)
T ss_pred             HHHHHHHHHHHHhHhCCCCChhHhcCEEEEEECCEEEEEEecceEEEEEEEecee-------cccCeEEEEEhHHHHHHH
Confidence            55666666664         35678999999999999999999999987665432       234567899999999999


Q ss_pred             cccCCCceEEEEEcCCCCeEEEEEeCCCCCeEEEEEEeeee-cCCCCCCCCcceeeEEEEEehHHHHHHHHHhhcc-CC-
Q 024527           80 KCAGNDDIITLKADDGSDTVTFMFESPTQDKIADFEMKLMD-IDSEHLGIPEAEYHAIVRMPSAEFARICKDLASI-GD-  156 (266)
Q Consensus        80 k~~~~~d~l~l~~~~~~~~l~i~~~~~~~~~~~~~~l~li~-~~~~~~~ip~~~~~~~i~~~s~~~~~~i~~~~~~-~d-  156 (266)
                      |.+.. +.+.+..++  +.+.|+.++.      .|.+++++ .++|+++..  ++...+.++++.|.++++++... ++ 
T Consensus        80 k~l~~-~~v~i~~~~--~~l~i~~g~~------~~~~~~~~~~~fP~~~~~--~~~~~~~i~~~~l~~~l~~v~~~~~~~  148 (365)
T cd00140          80 RKLPD-EEVTLETEE--NRLTIKSGKS------RFSLNTLPAEEFPELPEI--ENGSSFTIPASELKELIKKTAFAVSTD  148 (365)
T ss_pred             HhCCC-CcEEEEEcC--CEEEEEECcE------EEEEcCCCHHHCCCCCCC--CCCcEEEECHHHHHHHHhhEEEEecCc
Confidence            99985 789999875  4788888765      89999999 488887654  66789999999999999999864 32 


Q ss_pred             -------EEEEEEeCCeEEEEEEecceeEEEEEeecccCCCCCCceEEE--ecCcEEEEEehHHHHhccccCC-CCceEE
Q 024527          157 -------TVVISVTKEGVKFSTRGDIGTANIVLRQNTTVDKPEEATIIE--MHEPVSLTFALRYMNSFTRATP-LSNTVT  226 (266)
Q Consensus       157 -------~v~i~~~~~~l~~s~~gd~g~~~~~~~~~~~~~~~~~~~~~~--~~~~~~~~f~~~yL~~~~k~~~-ls~~v~  226 (266)
                             .|.|.++++.+.+.+..-...+...+.             +.  .+++.++.++.+||.+++|..+ -++.|+
T Consensus       149 ~~~~~l~gI~~~~~~~~l~l~atD~~~~~~~~~~-------------~~~~~~~~~~~~i~~~~l~~l~k~l~~~~~~v~  215 (365)
T cd00140         149 ETRPILNGVLLEIEDNKLRAVATDGHRLALREIE-------------LESGAEEDFNVIVPRKTLNELLKLLEDDDEEVE  215 (365)
T ss_pred             cCcccceEEEEEEECCEEEEEEEcCceEEEEEee-------------cCCCCccCceEEEechHHHHHHHhccCCCCcEE
Confidence                   478888899999987631122222221             11  2456788999999999999886 367899


Q ss_pred             EEecCC
Q 024527          227 ISLSSE  232 (266)
Q Consensus       227 l~~~~~  232 (266)
                      +.+.++
T Consensus       216 i~~~~~  221 (365)
T cd00140         216 ISISEN  221 (365)
T ss_pred             EEEeCC
Confidence            998775

The beta subunit (processivity factor) of DNA polymerase III holoenzyme, refered to as the beta clamp, forms a ring shaped dimer that encircles dsDNA (sliding clamp) in bacteria. The beta-clamp is structurally similar to the trimeric ring formed by PCNA (found in eukaryotes and archaea) and the processivity factor (found in bacteriophages T4 and RB69). This structural correspondence further substantiates the mechanistic connection between eukaryotic and prokaryotic DNA replication that has been suggested on biochemical grounds.

>PF02767 DNA_pol3_beta_2: DNA polymerase III beta subunit, central domain; InterPro: IPR022637 This entry describes the central domain of the beta chain of DNA polymerase III

Probab=99.11  E-value=1.4e-09  Score=82.79  Aligned_cols=103  Identities=17%  Similarity=0.312  Sum_probs=83.5

Q ss_pred             hhhHHHHHHH---------HHhhhceeeEEEeCCceEEEEECCCCeEEEEEEecCCCcceeeeCCcEEEEEEhhhHHHHh
Q 024527            9 GSLLKKVLEA---------IKELVNDANFDCSATGFSLQAMDSSHVALVALLLRSEGFEHYRCDRNISMGMNLNNVSKML   79 (266)
Q Consensus         9 ~~~~k~i~~~---------l~~l~~~~~~~~~~~gl~~~a~D~~r~a~v~~~l~~~~F~~y~~~~~~~~gi~l~~L~~il   79 (266)
                      +..|+++++.         .++.+++++|++.+++|+++|+|++|+|+....+.....      .+..+.|+.+.+..+.
T Consensus         4 ~~~l~~~i~~v~fa~s~d~~r~~L~Gv~~~~~~~~l~~vATDg~RLa~~~~~~~~~~~------~~~~~iIp~k~l~~l~   77 (116)
T PF02767_consen    4 AKELKEAIKKVAFAASKDESRPILNGVLFEIENNKLRLVATDGHRLAVREIELDEENE------DEFSFIIPAKALKELK   77 (116)
T ss_dssp             HHHHHHHHHHHGGGS-SSTTSGGGGEEEEEEETTEEEEEEEESSEEEEEEEEEEEECE------SEEEEEEEHHHHHHHH
T ss_pred             HHHHHHHHhheeEEEecCCCCceeeeEEEEEECCEEEEEEeCCceEEEEEEecCcccc------cceEEEEechHHHHHh
Confidence            5677777766         457899999999999999999999999999998886542      1478999999999999


Q ss_pred             cccCC-CceEEEEEcCCCCeEEEEEeCCCCCeEEEEEEeeeecCCCC
Q 024527           80 KCAGN-DDIITLKADDGSDTVTFMFESPTQDKIADFEMKLMDIDSEH  125 (266)
Q Consensus        80 k~~~~-~d~l~l~~~~~~~~l~i~~~~~~~~~~~~~~l~li~~~~~~  125 (266)
                      |.+.. ++.++|.++++  ++.|..++.      .+..+++++++|+
T Consensus        78 k~l~~~~~~v~i~~~~~--~i~f~~~~~------~~~srli~g~yPd  116 (116)
T PF02767_consen   78 KLLSDEDEEVEISISDN--QIIFKFDNI------EITSRLIDGEYPD  116 (116)
T ss_dssp             HHSSTTSSEEEEEEESS--EEEEEESSE------EEEEE-BSS----
T ss_pred             hhcccCCceEEEEEcCC--EEEEEECCE------EEEEEEecccCCC
Confidence            98876 67899999855  899998876      8999999999874

This is a complex, multichain enzyme responsible for most of the replicative synthesis in bacteria. The beta chain is required for initiation of replication from an RNA primer, nucleotide triphosphate (dNTP) residues being added to the 5'-end of the growing DNA chain.; GO: 0003677 DNA binding, 0003887 DNA-directed DNA polymerase activity, 0008408 3'-5' exonuclease activity, 0006260 DNA replication, 0009360 DNA polymerase III complex; PDB: 3T0P_B 3P16_A 3RB9_B 2AWA_C 1VPK_A 2AVT_B 2XUR_B 3Q4K_A 3BEP_A 3D1G_A ....

>TIGR00663 dnan DNA polymerase III, beta subunit

Probab=99.10  E-value=3.4e-08  Score=89.82  Aligned_cols=199  Identities=14%  Similarity=0.176  Sum_probs=138.7

Q ss_pred             hhhHHHHHHH---------HHhhhceeeEEEeCCceEEEEECCCCeEEEEEEecCCCcceeeeCCcEEEEEEhhhHHHHh
Q 024527            9 GSLLKKVLEA---------IKELVNDANFDCSATGFSLQAMDSSHVALVALLLRSEGFEHYRCDRNISMGMNLNNVSKML   79 (266)
Q Consensus         9 ~~~~k~i~~~---------l~~l~~~~~~~~~~~gl~~~a~D~~r~a~v~~~l~~~~F~~y~~~~~~~~gi~l~~L~~il   79 (266)
                      ...|.++++.         ..+++.++.|++.+++++++|+|.++.+...+. +.+      +.++-.+.|+.+.|.+++
T Consensus         7 ~~~L~~~l~~v~~~i~~~~~~piL~gvlle~~~~~l~l~atD~~~~~~~~~~-~~~------~~~~g~~~vp~k~l~ei~   79 (367)
T TIGR00663         7 RDDLLKELSKVQRVLSNRPTIPILSNILLEVKDDKLTITATDLDISLESQIF-TIN------SEQEGSVTINAKKFLDIV   79 (367)
T ss_pred             HHHHHHHHHHHHhHhcCCCchhhhcCEEEEEECCEEEEEEECCceEEEEEEe-ccc------cccCeEEEEEhHHHHHHH
Confidence            5556666555         345788999999999999999999999877654 111      233456899999999999


Q ss_pred             cccCCCceEEEEEcCCCCeEEEEEeCCCCCeEEEEEEeeeec-CCCCCCCCcceeeEEEEEehHHHHHHHHHhhccC--C
Q 024527           80 KCAGNDDIITLKADDGSDTVTFMFESPTQDKIADFEMKLMDI-DSEHLGIPEAEYHAIVRMPSAEFARICKDLASIG--D  156 (266)
Q Consensus        80 k~~~~~d~l~l~~~~~~~~l~i~~~~~~~~~~~~~~l~li~~-~~~~~~ip~~~~~~~i~~~s~~~~~~i~~~~~~~--d  156 (266)
                      |.+. ++.+.+..+++  ++.|..+..      .|.+++++. ++|+++.+  .....+.++++.|++++++.....  +
T Consensus        80 k~l~-~~~i~i~~~~~--~l~i~~~~~------~~~~~~l~~~~fP~~~~~--~~~~~~~i~~~~l~~~i~~v~~a~~~~  148 (367)
T TIGR00663        80 RALP-DSKITLEVKND--KLAITSEKS------RFKLPTLSAEEFPNLPTI--EEGVSIEIPSDVLKEAINQTAFAAGED  148 (367)
T ss_pred             HhCC-CCceEEEEcCC--EEEEEECcE------EEEecCCCHHHCCCCCCc--CCCcEEEECHHHHHHHHhhEEEEEecC
Confidence            9987 46788888654  688877554      799999985 88887554  335688999999999999987753  2


Q ss_pred             -------EEEEEEeCCeEEEEEEe-cceeEEEEEeecccCCCCCCceEEEecCcEEEEEehHHHHhccccCCCCceEEEE
Q 024527          157 -------TVVISVTKEGVKFSTRG-DIGTANIVLRQNTTVDKPEEATIIEMHEPVSLTFALRYMNSFTRATPLSNTVTIS  228 (266)
Q Consensus       157 -------~v~i~~~~~~l~~s~~g-d~g~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~f~~~yL~~~~k~~~ls~~v~l~  228 (266)
                             .|.|..+++.+.+.+.. .. =+...+..           .....++.+...+.++|..+.|..+-.+.+.+.
T Consensus       149 ~~r~~L~gi~~~~~~~~l~~~atDg~R-La~~~~~~-----------~~~~~~~~~~iiP~k~l~el~~~l~~~~~~~~~  216 (367)
T TIGR00663       149 ETRPVLNGVLIEQKGKTLLLVATDGHR-LAVCKLKS-----------EVSDEEDFSVIIPAKALNELLKLLSENGSVVLK  216 (367)
T ss_pred             CCCcccceEEEEEeCCEEEEEEecchh-eEEEeccc-----------cCCCCccceEEEecHHHHHHHHHhcCCCCeEEE
Confidence                   47888889999887763 31 11111100           001123467789999999999987633344443


Q ss_pred             ecCCCcEEE
Q 024527          229 LSSELPVVV  237 (266)
Q Consensus       229 ~~~~~Pl~l  237 (266)
                      ..++.-+.+
T Consensus       217 ~~~~~~~~~  225 (367)
T TIGR00663       217 SLNDQLVYI  225 (367)
T ss_pred             EEeCCEEEE
Confidence            333333433

University).

>PRK14943 DNA polymerase III subunit beta; Provisional

Probab=99.01  E-value=1.3e-07  Score=86.30  Aligned_cols=199  Identities=8%  Similarity=0.112  Sum_probs=134.3

Q ss_pred             hhhHHHHHHH---------HHhhhceeeEEEeCCceEEEEECCCCeEEEEEEecCCCcceeeeCCcEEEEEEhhhHHHHh
Q 024527            9 GSLLKKVLEA---------IKELVNDANFDCSATGFSLQAMDSSHVALVALLLRSEGFEHYRCDRNISMGMNLNNVSKML   79 (266)
Q Consensus         9 ~~~~k~i~~~---------l~~l~~~~~~~~~~~gl~~~a~D~~r~a~v~~~l~~~~F~~y~~~~~~~~gi~l~~L~~il   79 (266)
                      ...|.++++.         ..+++.++.|++.+++|+++|+|.++.+...+  +.      .++++-.+.|+.+.|.+++
T Consensus         7 ~~~L~~~l~~v~~~v~~~~~~piL~gill~~~~~~l~l~aTD~~~~~~~~~--~~------~~~~~g~~~vpak~l~ei~   78 (374)
T PRK14943          7 KDHFLNGLRQVLNVVSSKTTMPILSNVLIEAENGQISLTTTNLDLGIRCVI--KA------NVLREGTVTLPVKKLATIV   78 (374)
T ss_pred             HHHHHHHHHHHHhHhCCCCChHHhcCEEEEEECCEEEEEEECccEEEEEEE--Ee------eeccCeEEEEEhHHHHHHH
Confidence            4555555555         35678999999999999999999865444433  32      1334567899999999999


Q ss_pred             cccCCCceEEEEEcCCCCeEEEEEeCCCCCeEEEEEEeeee-cCCCCCCCCcceeeEEEEEehHHHHHHHHHhhccC--C
Q 024527           80 KCAGNDDIITLKADDGSDTVTFMFESPTQDKIADFEMKLMD-IDSEHLGIPEAEYHAIVRMPSAEFARICKDLASIG--D  156 (266)
Q Consensus        80 k~~~~~d~l~l~~~~~~~~l~i~~~~~~~~~~~~~~l~li~-~~~~~~~ip~~~~~~~i~~~s~~~~~~i~~~~~~~--d  156 (266)
                      |.+.+ +.+.+..++ ++++.|..++.      .|.++.++ .++|+  +|..++...+.++.+.|.+++++.....  +
T Consensus        79 k~l~~-~~i~i~~~~-~~~~~i~~~~~------~~~l~~l~~~~fP~--~p~~~~~~~~~i~~~~l~~~i~~v~~a~s~~  148 (374)
T PRK14943         79 RELPE-AEVQVDANQ-NNQAKVESGGS------QFKIMGIPAEEFPP--LPSFEQATVFQLEQSELRDMLKSVEYAQSTD  148 (374)
T ss_pred             HhCCC-CceEEEEcC-CCeEEEEECCE------EEEEccCCHHHCCC--CCCCCCCcEEEECHHHHHHHHhhEeEEeccC
Confidence            99874 478887753 23787776654      78877665 67776  4544677889999999999999998643  1


Q ss_pred             -------EEEEEEeCCeEEEEEE-ecceeEEEEEeecccCCCCCCceEEEecCcEEEEEehHHHHhccccCCCCceEEEE
Q 024527          157 -------TVVISVTKEGVKFSTR-GDIGTANIVLRQNTTVDKPEEATIIEMHEPVSLTFALRYMNSFTRATPLSNTVTIS  228 (266)
Q Consensus       157 -------~v~i~~~~~~l~~s~~-gd~g~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~f~~~yL~~~~k~~~ls~~v~l~  228 (266)
                             .|.|..+++.+++.+. |.... ......           ...+..+.+.....+.|..+.|.++-.++|.+.
T Consensus       149 ~~~~~L~gv~l~~~~~~l~l~aTDg~rla-~~~~~~-----------~~~~~~~~~~ivp~k~l~~l~~~l~~~~~V~i~  216 (374)
T PRK14943        149 ETRYILNGVYFNFRDGKLTLVATDGRRLA-LAETEL-----------EFPEDQAGDAILPAKTVGELRRLLDKGGKLKIR  216 (374)
T ss_pred             cCCcceEEEEEEEeCCEEEEEEecchhEE-EEEecc-----------CCCCCcCceEEEehhHHHHHHHhCCCCCcEEEE
Confidence                   4788888999998876 33221 111110           011122234456666666666665535689999


Q ss_pred             ecCCC-cEEE
Q 024527          229 LSSEL-PVVV  237 (266)
Q Consensus       229 ~~~~~-Pl~l  237 (266)
                      ++++. ++.+
T Consensus       217 ~~~~~~~f~~  226 (374)
T PRK14943        217 FNDRQAAFEI  226 (374)
T ss_pred             EeCCEEEEEE
Confidence            98764 5544

>PRK05643 DNA polymerase III subunit beta; Validated

Probab=98.98  E-value=7.3e-07  Score=81.07  Aligned_cols=196  Identities=14%  Similarity=0.152  Sum_probs=139.2

Q ss_pred             hhhHHHHHHHH---------HhhhceeeEEEeCCceEEEEECCCCeEEEEEEecCCCcceeeeCCcEEEEEEhhhHHHHh
Q 024527            9 GSLLKKVLEAI---------KELVNDANFDCSATGFSLQAMDSSHVALVALLLRSEGFEHYRCDRNISMGMNLNNVSKML   79 (266)
Q Consensus         9 ~~~~k~i~~~l---------~~l~~~~~~~~~~~gl~~~a~D~~r~a~v~~~l~~~~F~~y~~~~~~~~gi~l~~L~~il   79 (266)
                      .+.|.++++.+         .+++.++.+++.++++++.|+|..+.+...+...-.    +   ++-.+.|+.+.|.+++
T Consensus         7 ~~~l~~~l~~~~~~i~~~~~~piL~~ili~~~~~~l~l~atd~~~~~~~~~~~~~~----~---~~G~~~v~~k~l~eii   79 (367)
T PRK05643          7 RNALLKALQLVQGAVERRNTIPILSNVLIEAEGGKLSLTATDLEISIETTIPAEVE----V---EEGSITVPAKKLLDIV   79 (367)
T ss_pred             HHHHHHHHHHHhhhcCCCCChhHhcCEEEEEeCCEEEEEEECcceEEEEEEEeeEc----c---cCeEEEEEhHHHHHHH
Confidence            45566666553         456889999999999999999988777665543311    1   3456899999999999


Q ss_pred             cccCCCceEEEEEcCCCCeEEEEEeCCCCCeEEEEEEeeeec-CCCCCCCCcceeeEEEEEehHHHHHHHHHhhcc-C-C
Q 024527           80 KCAGNDDIITLKADDGSDTVTFMFESPTQDKIADFEMKLMDI-DSEHLGIPEAEYHAIVRMPSAEFARICKDLASI-G-D  156 (266)
Q Consensus        80 k~~~~~d~l~l~~~~~~~~l~i~~~~~~~~~~~~~~l~li~~-~~~~~~ip~~~~~~~i~~~s~~~~~~i~~~~~~-~-d  156 (266)
                      |.+.+++.+.++..++ +.+.|..+..      .|.++++++ ++|+++.+  +....+.+++..|.++++...-. + +
T Consensus        80 k~l~~~~~i~i~~~~~-~~l~i~~~~~------~~~l~~~~~~~fP~~~~~--~~~~~~~i~~~~l~~~i~~v~~a~~~~  150 (367)
T PRK05643         80 RKLPDGAEITLELEEN-NRLTIKSGKS------RFNLPTLPAEDFPNLPEI--EEEVSFTLPQKTLKRLIEKTQFAMSTQ  150 (367)
T ss_pred             HcCCCCCcEEEEECCC-CEEEEEECCE------EEEeccCCHHHCCCCCCC--CCCcEEEECHHHHHHHHhheeEEeecC
Confidence            9998655899988543 3787776554      899999987 66765443  55578899999999999998753 2 2


Q ss_pred             -------EEEEEEeCCeEEEEEE-ecceeEEEEEeecccCCCCCCceEEEecCcEEEEEehHHHHhccccCCCCceEEEE
Q 024527          157 -------TVVISVTKEGVKFSTR-GDIGTANIVLRQNTTVDKPEEATIIEMHEPVSLTFALRYMNSFTRATPLSNTVTIS  228 (266)
Q Consensus       157 -------~v~i~~~~~~l~~s~~-gd~g~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~f~~~yL~~~~k~~~ls~~v~l~  228 (266)
                             .|.|.++++.+++.+. |... +...+..    +       ....++.+.....+.|..+.|..+-.+.|.+.
T Consensus       151 ~~~piL~gi~~~~~~~~l~l~aTD~~rl-~~~~~~~----~-------~~~~~~~~~~vp~k~l~ei~k~l~~~~~v~i~  218 (367)
T PRK05643        151 ETRYYLNGVLLEIEGNELRAVATDGHRL-AVRKLEL----E-------EGSLGDFSVIIPRKTLLELQKLLDDEEPVEIF  218 (367)
T ss_pred             CccccccEEEEEEeCCEEEEEEecccee-EEEEecc----c-------CCcccCceEEEchHHHHHHHHhcCCCCcEEEE
Confidence                   4778888899988876 2321 1222210    0       00113466789999999999988633468888


Q ss_pred             ecCC
Q 024527          229 LSSE  232 (266)
Q Consensus       229 ~~~~  232 (266)
                      +.++
T Consensus       219 ~~~~  222 (367)
T PRK05643        219 ISDN  222 (367)
T ss_pred             EeCC
Confidence            8765

>PRK14945 DNA polymerase III subunit beta; Provisional

Probab=98.84  E-value=4.1e-06  Score=76.16  Aligned_cols=180  Identities=13%  Similarity=0.161  Sum_probs=128.8

Q ss_pred             HhhhceeeEEEeCCceEEEEECCCCeEEEEEEecCCCcceeeeCCcEEEEEEhhhHHHHhcccCCCceEEEEEcCCCCeE
Q 024527           20 KELVNDANFDCSATGFSLQAMDSSHVALVALLLRSEGFEHYRCDRNISMGMNLNNVSKMLKCAGNDDIITLKADDGSDTV   99 (266)
Q Consensus        20 ~~l~~~~~~~~~~~gl~~~a~D~~r~a~v~~~l~~~~F~~y~~~~~~~~gi~l~~L~~ilk~~~~~d~l~l~~~~~~~~l   99 (266)
                      .+++.++.+++.++++.++|+|..-..  ...++.+      +.++-.+.|+.+.|.+++|.+.+ +.+.++.+  ++.+
T Consensus        27 ~piL~~ili~a~~~~l~l~atd~~~~i--~~~i~~~------i~~~G~~~v~ak~l~~ivk~lp~-~~i~~~~~--~~~l   95 (362)
T PRK14945         27 NPLLTYLKVELSEGGLTLSGTNGEVDL--EVTLPAE------VQGPGRVVVPAHLFFQIVRNLPG-ELVELEFQ--GGEL   95 (362)
T ss_pred             hhhhcCEEEEEeCCEEEEEEECCcEEE--EEEEeee------eccCeEEEEEccCHHHHHHhCCC-CcEEEEEc--CCEE
Confidence            346799999999999999999965333  3333432      34556789999999999999974 47888875  3378


Q ss_pred             EEEEeCCCCCeEEEEEEeeeecC-CCCCCCCcceeeEEEEEehHHHHHHHHHhhcc-C-C-------EEEEEEeCCeEEE
Q 024527          100 TFMFESPTQDKIADFEMKLMDID-SEHLGIPEAEYHAIVRMPSAEFARICKDLASI-G-D-------TVVISVTKEGVKF  169 (266)
Q Consensus       100 ~i~~~~~~~~~~~~~~l~li~~~-~~~~~ip~~~~~~~i~~~s~~~~~~i~~~~~~-~-d-------~v~i~~~~~~l~~  169 (266)
                      .|+.+..      +|.++.++++ +|.++.++..   .+.++.+.|+++++...-. + +       .|.+.++++.+++
T Consensus        96 ~i~~~~~------~~~l~~~~~~~fP~~~~~~~~---~~~i~~~~L~~~i~~v~~avs~~~~~piL~gv~l~~~~~~l~l  166 (362)
T PRK14945         96 EVRSGSS------RTKLQTAPPEGYPELSFPSQG---DVRLSAGELAKALTHVRYAASNEEFQAIFRGVKLEHSPQGLRA  166 (362)
T ss_pred             EEEECCE------EEEeccCChHHCCCCCCCCCc---eEEECHHHHHHHHhhEEEEEecccchhheeeEEEEEeCCEEEE
Confidence            8876544      8999999874 5766555422   3699999999999998764 2 2       5788888999998


Q ss_pred             EEE-ecceeEEEEEeecccCCCCCCceEEEecCcEEEEEehHHHHhccccCCCCceEEEEecCCC
Q 024527          170 STR-GDIGTANIVLRQNTTVDKPEEATIIEMHEPVSLTFALRYMNSFTRATPLSNTVTISLSSEL  233 (266)
Q Consensus       170 s~~-gd~g~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~f~~~yL~~~~k~~~ls~~v~l~~~~~~  233 (266)
                      .|. |... +...+.             ++..++.++..+.+.|.++.|.++-.+.|.+.+.++.
T Consensus       167 vATDg~rl-a~~~~~-------------~~~~~~~~~iip~k~l~el~k~l~~~~~v~i~~~~~~  217 (362)
T PRK14945        167 VASDGYRL-AIYDLP-------------ASQGQGRKLVIPARSADELVRVLKDGDEASLALGEGV  217 (362)
T ss_pred             EEEccceE-EEEEec-------------cCCCCCceEEEEHHHHHHHHHhcCCCCcEEEEEcCCE
Confidence            876 2321 111221             1123456788999999999998863347888887653

>smart00480 POL3Bc DNA polymerase III beta subunit

Probab=98.83  E-value=2.8e-06  Score=76.71  Aligned_cols=181  Identities=13%  Similarity=0.182  Sum_probs=130.5

Q ss_pred             HHhhhceeeEEEeCCceEEEEECCCCeEEEEEEecCCCcceeeeC-CcEEEEEEhhhHHHHhcccCCCceEEEEEcCCCC
Q 024527           19 IKELVNDANFDCSATGFSLQAMDSSHVALVALLLRSEGFEHYRCD-RNISMGMNLNNVSKMLKCAGNDDIITLKADDGSD   97 (266)
Q Consensus        19 l~~l~~~~~~~~~~~gl~~~a~D~~r~a~v~~~l~~~~F~~y~~~-~~~~~gi~l~~L~~ilk~~~~~d~l~l~~~~~~~   97 (266)
                      ..+++.++.+++.+++|+++|+|........+...        +. ++-++.|+.+.|.+++|.+.+ +.+.++.+++  
T Consensus        10 ~~piL~~ill~a~~~~l~l~atd~e~~i~~~i~~~--------~~~~~G~~~v~a~~l~~ivk~lp~-~~i~~~~~~~--   78 (345)
T smart00480       10 TIPILSNILLEAKDDGLTLTATDLEISIKSSISAE--------VEDEEGSVTVPAKKFLDIVRKLPD-KEITLSVEED--   78 (345)
T ss_pred             ChhHhcCEEEEEECCEEEEEEECCceEEEEEEEee--------EccCCeEEEEEhHHHHHHHHhCCC-CceEEEEcCC--
Confidence            45789999999999999999999775444444322        23 456789999999999999975 6788888654  


Q ss_pred             eEEEEEeCCCCCeEEEEEEeeeec-CCCCCCCCcceeeEEEEEehHHHHHHHHHhhcc-C-C-------EEEEEEeCCeE
Q 024527           98 TVTFMFESPTQDKIADFEMKLMDI-DSEHLGIPEAEYHAIVRMPSAEFARICKDLASI-G-D-------TVVISVTKEGV  167 (266)
Q Consensus        98 ~l~i~~~~~~~~~~~~~~l~li~~-~~~~~~ip~~~~~~~i~~~s~~~~~~i~~~~~~-~-d-------~v~i~~~~~~l  167 (266)
                      ++.|+.+..      +|.++.++. ++|.++.+  +....+.+++..|+++++...-. + +       .|.|.++++.+
T Consensus        79 ~l~i~~~~~------~~~l~~~~~~~fP~~~~~--~~~~~~~i~~~~L~~~i~~v~~a~s~~~~~piL~Gi~~~~~~~~l  150 (345)
T smart00480       79 KLVITSGKS------RFNLPTLDAEEFPELPFI--EEGVTFELPTKLLKEGIEKTAFAVSTDETRPVLNGVNLEISNGEL  150 (345)
T ss_pred             EEEEEECcE------EEEecCCCHHHCCCCCCc--CCCcEEEECHHHHHHHHhhEEEEEecCCCcceeeEEEEEEECCEE
Confidence            677765443      799999986 56665443  44568899999999999998763 3 2       46788888999


Q ss_pred             EEEEE-ecceeEEEEEeecccCCCCCCceEEEec-CcEEEEEehHHHHhccccCCC-CceEEEEecCC
Q 024527          168 KFSTR-GDIGTANIVLRQNTTVDKPEEATIIEMH-EPVSLTFALRYMNSFTRATPL-SNTVTISLSSE  232 (266)
Q Consensus       168 ~~s~~-gd~g~~~~~~~~~~~~~~~~~~~~~~~~-~~~~~~f~~~yL~~~~k~~~l-s~~v~l~~~~~  232 (266)
                      .+.+. |... +...+.             ++.. ++.++..+.++|.++.|.++- .+.|.+.++++
T Consensus       151 ~lvATDg~rl-a~~~~~-------------~~~~~~~~~~ivP~k~l~el~k~l~~~~~~v~i~~~~~  204 (345)
T smart00480      151 RLVATDGHRL-AVREIK-------------LESEEDDFSVIIPRKSLLELNKLLTDNEELVEIFISSN  204 (345)
T ss_pred             EEEEEcCceE-EEEEec-------------cCCCCCcceEEEehHHHHHHHHhccCCCCcEEEEEeCC
Confidence            88776 3321 111221             1111 236788999999999998863 35788888866

>PRK14941 DNA polymerase III subunit beta; Provisional

Probab=98.65  E-value=3.4e-05  Score=70.48  Aligned_cols=191  Identities=12%  Similarity=0.174  Sum_probs=130.7

Q ss_pred             HHhhhceeeEEEeCCceEEEEECCCCeEEEEEEecCCCcceeeeCCcEEEEEEhhhHHHHhcccCCCceEEEEEcC----
Q 024527           19 IKELVNDANFDCSATGFSLQAMDSSHVALVALLLRSEGFEHYRCDRNISMGMNLNNVSKMLKCAGNDDIITLKADD----   94 (266)
Q Consensus        19 l~~l~~~~~~~~~~~gl~~~a~D~~r~a~v~~~l~~~~F~~y~~~~~~~~gi~l~~L~~ilk~~~~~d~l~l~~~~----   94 (266)
                      ..+++.++.|++.+++|.++|+|.. ++ +...++.      .++++-.+.|+.+.|.+++|.+.+ +.+.++.++    
T Consensus        26 ~~piL~~ill~a~~~~l~l~atD~e-~~-i~~~i~~------~~~~~G~~~v~a~~l~~ivk~lp~-~~i~~~~~~~~~~   96 (374)
T PRK14941         26 IDPRFENIHLTLENGKLTLFATDGE-LS-ITAKTEV------ESSDSGNIGIRARTLQDFLRSMYD-TEVTFSIERQEIS   96 (374)
T ss_pred             chhHhcCEEEEEECCEEEEEEECCC-eE-EEEEEee------eeccceEEEEEhHHHHHHHHcCCC-CcEEEEEeccccC
Confidence            3467999999999999999999965 33 3334443      245566789999999999999964 478888752    


Q ss_pred             CCCeEEEEEeCCCCCeEEEEEEeeeecCCCCCCCCcceeeEEEEEehHHHHHHHHHhhcc-C-C-------EEEEEEeCC
Q 024527           95 GSDTVTFMFESPTQDKIADFEMKLMDIDSEHLGIPEAEYHAIVRMPSAEFARICKDLASI-G-D-------TVVISVTKE  165 (266)
Q Consensus        95 ~~~~l~i~~~~~~~~~~~~~~l~li~~~~~~~~ip~~~~~~~i~~~s~~~~~~i~~~~~~-~-d-------~v~i~~~~~  165 (266)
                      +++.+.|.-+..      +|.++.+..++|.  +|..+....+.++++.|+++++...-. + +       -|.+.++++
T Consensus        97 ~~~~l~I~~~~~------~f~l~~~~~~~p~--~~~~~~~~~~~i~~~~L~~~i~~v~~a~s~~~~rpiL~Gv~l~~~~~  168 (374)
T PRK14941         97 DHGTVHIATDKG------RYKIPCLFESKPE--KQEKNFDISLDLETSELLDLIQKTIFACSVDGMRPAMMGVLFELEGN  168 (374)
T ss_pred             CCCEEEEEECCE------EEEeeccCcccCC--CcCCCCceEEEECHHHHHHHHhheeEEEecccchhhhceEEEEEeCC
Confidence            344777765443      7999999766543  344456678999999999999998653 3 2       478888899


Q ss_pred             eEEEEEEecceeEEEEEeecccCCCCCCceEEEecCcEEEEEehHHHHhccccCCCCceEEEEecCC-CcEEEE
Q 024527          166 GVKFSTRGDIGTANIVLRQNTTVDKPEEATIIEMHEPVSLTFALRYMNSFTRATPLSNTVTISLSSE-LPVVVE  238 (266)
Q Consensus       166 ~l~~s~~gd~g~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~f~~~yL~~~~k~~~ls~~v~l~~~~~-~Pl~l~  238 (266)
                      .+++.|..-.--+......       +    ....++.++....+.|..+.|... .+.+.+.++.+ .-+.++
T Consensus       169 ~l~lvATDg~Rla~~~~~~-------~----~~~~~~~~~iiP~k~l~el~kll~-~~~v~i~~~~~~~~i~~~  230 (374)
T PRK14941        169 TITAVSTDGHRLVRCRKNS-------S----VGVEEKQKIVVPARVLSILQKLAQ-HETVTMSIDSERRFVRFI  230 (374)
T ss_pred             EEEEEEecCeeEEEEEecc-------c----CCccccceEEechHHHHHHHHhCC-CCceEEEEEcCCCEEEEE
Confidence            9999876211112222210       0    011234578899999987777654 44788888853 345444

>KOG2810 consensus Checkpoint 9-1-1 complex, RAD9 component [Cell cycle control, cell division, chromosome partitioning; Replication, recombination and repair]

Probab=98.62  E-value=5.7e-08  Score=86.59  Aligned_cols=232  Identities=13%  Similarity=0.140  Sum_probs=168.1

Q ss_pred             EcChhhHHHHHHHHHhhhceeeEEEeCCceEEEEECCCCeEEEEEEecCCCcceeeeCCc-EEEE--EEhhhHHHHhccc
Q 024527            6 LVQGSLLKKVLEAIKELVNDANFDCSATGFSLQAMDSSHVALVALLLRSEGFEHYRCDRN-ISMG--MNLNNVSKMLKCA   82 (266)
Q Consensus         6 ~~~~~~~k~i~~~l~~l~~~~~~~~~~~gl~~~a~D~~r~a~v~~~l~~~~F~~y~~~~~-~~~g--i~l~~L~~ilk~~   82 (266)
                      -.+.+.+.+++-+++++-+++.++++++||.+++.+..|.++..+.+.+.+|+.|....+ ..++  +.++...+++|.+
T Consensus         7 ~~nlr~lArai~sLSri~~ev~iev~~~~l~l~t~N~srSa~~~~~f~~~FF~~ydf~~~q~~~~~~v~mK~clsvFRgl   86 (394)
T KOG2810|consen    7 GSNLRVLARAIVSLSRIGEEVTIEVSPLGLCLKTVNESRSAFSCATFKEMFFGVYDFQPPQADFGCKVSMKFCLSVFRGL   86 (394)
T ss_pred             cchhHHHHHHhhhHhhhcceeEEEEcCCeeEEEecccccchhhhhhhhHhhccchhcCCccccchhhhhHHHHHHHHhhh
Confidence            356789999999999999999999999999999999999999999999999999998653 5556  8999999999943


Q ss_pred             ----CCCceEEEEEcCCCC-eEEEEEeCCCCCeEEEEEEeeeecCCCCCCCCcceeeEEEEEehHHHHHHHHHhhccCCE
Q 024527           83 ----GNDDIITLKADDGSD-TVTFMFESPTQDKIADFEMKLMDIDSEHLGIPEAEYHAIVRMPSAEFARICKDLASIGDT  157 (266)
Q Consensus        83 ----~~~d~l~l~~~~~~~-~l~i~~~~~~~~~~~~~~l~li~~~~~~~~ip~~~~~~~i~~~s~~~~~~i~~~~~~~d~  157 (266)
                          .........+.+.+. +|.+++.+. .+..+.+.+.+.|-+...-.+....++..+.++++.+.++.+.+..-...
T Consensus        87 ~~~~~~~~~~~~~~~d~~s~rl~~~l~ck-l~~~kt~~atl~d~qS~~~~~d~~~~~n~~~~~~~~L~~~~~nF~~~~~E  165 (394)
T KOG2810|consen   87 LFFAESTHLCESILFDAPSRRLIFTLKCK-LGVGKTILATLSDTQSIQHVLDSSECPNILVQLAKILTPIPDNFAGSDIE  165 (394)
T ss_pred             cccccccceeeeecCCCCCcceEEEehhh-hcccceEEEEeecchhhhhccCcccCCcceecchhhcccccccccccchh
Confidence                233445555655555 899999876 35566788888887765333333478999999999999999998886668


Q ss_pred             EEEEEeCCeEEEEEE-ecceeEEEEEeecccCCCCCCc-e-EEEecCcEEEEEehHHHHhccccC-CCCceEEEEecCC-
Q 024527          158 VVISVTKEGVKFSTR-GDIGTANIVLRQNTTVDKPEEA-T-IIEMHEPVSLTFALRYMNSFTRAT-PLSNTVTISLSSE-  232 (266)
Q Consensus       158 v~i~~~~~~l~~s~~-gd~g~~~~~~~~~~~~~~~~~~-~-~~~~~~~~~~~f~~~yL~~~~k~~-~ls~~v~l~~~~~-  232 (266)
                      +++.+.++++..... ...+...+..+....-.+.... . .....++.+..++++..+.++-.+ .++..+..+++-. 
T Consensus       166 ~Tm~a~~~r~~~~~~~~~i~~~~i~~~p~~t~~k~~~se~e~~~~~~p~ev~gsl~~~~~~~lfae~l~s~~~~~~~~p~  245 (394)
T KOG2810|consen  166 LTMKATDGRRLIENFLTSIVGPEISLSPGPTPVKIDGSELEEEDVAEPSEVPGSLKEFKFIVLFAEALGSSVCAYFGLPG  245 (394)
T ss_pred             heeeccCCceecccchhhhcchhhcCCcCCcCcCCCcchhheeeecccceeecchhHHHHHHHHHHHhccchhcccCCCC
Confidence            888888887766542 1222222222221110111111 1 123357889999999888766433 3477888888876 


Q ss_pred             CcEEEE
Q 024527          233 LPVVVE  238 (266)
Q Consensus       233 ~Pl~l~  238 (266)
                      .|+.+.
T Consensus       246 k~~ll~  251 (394)
T KOG2810|consen  246 KPLLLA  251 (394)
T ss_pred             chhhhh
Confidence            477665

>PRK07761 DNA polymerase III subunit beta; Validated

Probab=98.58  E-value=3.6e-05  Score=70.37  Aligned_cols=180  Identities=15%  Similarity=0.193  Sum_probs=125.2

Q ss_pred             HhhhceeeEEEeCCceEEEEECCCCeEEEEEEecCCCcceeeeCCcEEEEEEhhhHHHHhcccCCCceEEEEEcCCCCeE
Q 024527           20 KELVNDANFDCSATGFSLQAMDSSHVALVALLLRSEGFEHYRCDRNISMGMNLNNVSKMLKCAGNDDIITLKADDGSDTV   99 (266)
Q Consensus        20 ~~l~~~~~~~~~~~gl~~~a~D~~r~a~v~~~l~~~~F~~y~~~~~~~~gi~l~~L~~ilk~~~~~d~l~l~~~~~~~~l   99 (266)
                      .+++.++.+++.+++|+++|.|. .+++ ...++.      .+.++-++.|+.+.|.+++|.+.+ +.+.++.+++  .+
T Consensus        27 ~piL~~iliea~~~~l~l~atd~-~~~i-~~~i~~------~i~~~G~~~v~~k~l~~iik~lp~-~~i~~~~~~~--~l   95 (376)
T PRK07761         27 VPVLAGVLLEADDGGLTLSGFDY-EVSA-RVTIEA------EVDEPGRVLVSGRLLADITRSLPN-KPVDISVDGS--RV   95 (376)
T ss_pred             cHHHcCeEEEEeCCEEEEEEECc-cEEE-EEEEEe------EeccCceEEEEHHHHHHHHHhCCC-CcEEEEEcCC--EE
Confidence            45688899999999999999994 4443 333443      245556789999999999999975 3788887643  67


Q ss_pred             EEEEeCCCCCeEEEEEEeeeec-CCCCCCCCcceeeEEEEEehHHHHHHHHHhhccC--C-------EEEEEEeCCeEEE
Q 024527          100 TFMFESPTQDKIADFEMKLMDI-DSEHLGIPEAEYHAIVRMPSAEFARICKDLASIG--D-------TVVISVTKEGVKF  169 (266)
Q Consensus       100 ~i~~~~~~~~~~~~~~l~li~~-~~~~~~ip~~~~~~~i~~~s~~~~~~i~~~~~~~--d-------~v~i~~~~~~l~~  169 (266)
                      .|.-+..      +|.++.+++ ++|.++..+.  . ..++++..|.++++......  +       .|.+.++++.+.+
T Consensus        96 ~I~~~~~------~~~l~~~~~~~fP~~~~~~~--~-~~~i~~~~L~~~i~~v~~a~s~~~~~piL~gV~l~~~~~~L~l  166 (376)
T PRK07761         96 TLTCGSA------RFTLPTMPVEDYPTLPELPE--A-TGTVDADAFAEAVSQVAVAAGRDDTLPMLTGVRVEIEGDTVTL  166 (376)
T ss_pred             EEEECce------EEEecCCCHHHCCCCCCCCC--c-ceEECHHHHHHHHhhEeEEEEcccchhhhceEEEEEeCCEEEE
Confidence            7765443      799999986 5565543221  1 24899999999999987652  1       4788888999988


Q ss_pred             EEEecceeEEE-EEeecccCCCCCCceEEEecCcEEEEEehHHHHhccccCCCCceEEEEec
Q 024527          170 STRGDIGTANI-VLRQNTTVDKPEEATIIEMHEPVSLTFALRYMNSFTRATPLSNTVTISLS  230 (266)
Q Consensus       170 s~~gd~g~~~~-~~~~~~~~~~~~~~~~~~~~~~~~~~f~~~yL~~~~k~~~ls~~v~l~~~  230 (266)
                      .|. |..+... ....    .  .    ....++.++....+.|.++.|..+-.+.+.+.++
T Consensus       167 ~AT-Dg~rLa~~~~~~----~--~----~~~~~~~~~iIP~k~l~ei~k~l~~~~~v~i~~~  217 (376)
T PRK07761        167 AAT-DRYRLAVRELTW----K--P----ASPDISAAALVPARTLSDTAKSLGSGGNVSIALS  217 (376)
T ss_pred             EEE-CCceEEEEEecc----C--C----CCCCcceeEEEEhHHHHHHHHhcCCCCcEEEEEe
Confidence            775 3222222 1100    0  0    0123356788999999999998864557999987

>PRK14940 DNA polymerase III subunit beta; Provisional

Probab=98.53  E-value=3e-05  Score=70.67  Aligned_cols=186  Identities=11%  Similarity=0.091  Sum_probs=127.8

Q ss_pred             HHhhhceeeEEEeCCceEEEEECCCCeEEEEEEecCCCcceeeeCCcEEEEEEhhhHHHHhcccCCCceEEEEEcCCCCe
Q 024527           19 IKELVNDANFDCSATGFSLQAMDSSHVALVALLLRSEGFEHYRCDRNISMGMNLNNVSKMLKCAGNDDIITLKADDGSDT   98 (266)
Q Consensus        19 l~~l~~~~~~~~~~~gl~~~a~D~~r~a~v~~~l~~~~F~~y~~~~~~~~gi~l~~L~~ilk~~~~~d~l~l~~~~~~~~   98 (266)
                      ..+++.++.+++.+++++++|+|..-..  ...++.      .+.++-.+.|+.+.|.+++|.+.++ .+.++.+++  +
T Consensus        26 ~~piL~~ill~a~~~~l~l~atD~e~~i--~~~i~~------~i~e~G~v~v~ak~l~~ivk~lp~~-~i~~~~~~~--~   94 (367)
T PRK14940         26 ALSILSNVLLAAQDGSLTIKATDTKVSF--ETSIPV------NILAEGSTTVFCDKFVGILSSLPTG-EIELELCDE--Q   94 (367)
T ss_pred             chHHhcCEEEEEECCEEEEEEECCceEE--EEEEEe------eeccCeEEEEEhHHHHHHHHhCCCC-ceEEEEcCC--E
Confidence            3467899999999999999999965333  333332      2455667899999999999999754 788887654  6


Q ss_pred             EEEEEeCCCCCeEEEEEEeeeec-CCCCCCCCcceeeEEEEEehHHHHHHHHHhhcc-C-C-------EEEEEEeCCeEE
Q 024527           99 VTFMFESPTQDKIADFEMKLMDI-DSEHLGIPEAEYHAIVRMPSAEFARICKDLASI-G-D-------TVVISVTKEGVK  168 (266)
Q Consensus        99 l~i~~~~~~~~~~~~~~l~li~~-~~~~~~ip~~~~~~~i~~~s~~~~~~i~~~~~~-~-d-------~v~i~~~~~~l~  168 (266)
                      +.|.-+..    ..+|.++.++. ++|.++.+  +....+.+++..|+++++...-. + +       -|.+.++++.++
T Consensus        95 l~I~~~~~----~~~f~l~~~~~~~fP~~~~~--~~~~~~~i~~~~L~~~i~~v~~a~s~~~~rpiL~Gv~~~~~~~~l~  168 (367)
T PRK14940         95 LVITPPNK----KISFQLKTISHESFPCFPEN--EGGVSFAIPTKDLREMINQTIFAVSDDETRYFMNGVYVEFQYGNII  168 (367)
T ss_pred             EEEEEcCC----ceEEEEccCChHHCCCCCCC--CCCeEEEECHHHHHHHHhhEeEEEcCCCCCceeEEEEEEEeCCEEE
Confidence            77765322    12799999987 45655443  44467899999999999998753 3 2       477888899999


Q ss_pred             EEEEeccee-EEEEEeecccCCCCCCceEEEecCcEEEEEehHHHHhccccCCCCceEEEEecCCC
Q 024527          169 FSTRGDIGT-ANIVLRQNTTVDKPEEATIIEMHEPVSLTFALRYMNSFTRATPLSNTVTISLSSEL  233 (266)
Q Consensus       169 ~s~~gd~g~-~~~~~~~~~~~~~~~~~~~~~~~~~~~~~f~~~yL~~~~k~~~ls~~v~l~~~~~~  233 (266)
                      +.|. |.-. +......    +       ....+..++....++|..+.|...-++.|.+.++++.
T Consensus       169 ~vAT-Dg~RLa~~~~~~----~-------~~~~~~~~viiP~k~l~~l~kll~~~~~v~i~~~~~~  222 (367)
T PRK14940        169 CVAT-DGRRLAYIKKKG----E-------SSPQEFSGVIVPPKILGIINKKLSPEGNVTLCITSQN  222 (367)
T ss_pred             EEEE-cCceEEEEEecc----C-------CCccccceEEEcHHHHHHHHHhcCCCCcEEEEEeCCE
Confidence            8876 2111 1112210    0       0112234677889999877776543668999888765

>PRK01115 DNA polymerase sliding clamp; Validated

Probab=98.48  E-value=8e-06  Score=70.17  Aligned_cols=108  Identities=16%  Similarity=0.213  Sum_probs=89.4

Q ss_pred             ChhhHHHHHHHHHhhhceeeEEEeCCceEEEEECCCCeEEEEEEecCCCcceeeeCCcEEEEEEhhhHHHHhcccCCCce
Q 024527            8 QGSLLKKVLEAIKELVNDANFDCSATGFSLQAMDSSHVALVALLLRSEGFEHYRCDRNISMGMNLNNVSKMLKCAGNDDI   87 (266)
Q Consensus         8 ~~~~~k~i~~~l~~l~~~~~~~~~~~gl~~~a~D~~r~a~v~~~l~~~~F~~y~~~~~~~~gi~l~~L~~ilk~~~~~d~   87 (266)
                      +...|+++++.++-+.+.+.|.++++++++.+.++ ..+...+..+++.|.+|+++++++++.|++.|.+++|.+...+.
T Consensus       137 ~~~~l~~~~~r~~~~~~~v~i~~~~~~l~lsa~~~-g~a~~~i~~~~~~~~~~~g~e~~~i~fn~~YL~d~lk~~~~~~~  215 (247)
T PRK01115        137 LGDDLKDAIKDAELVSDHIELEADEDKFYIEAEGE-GEDEVELSLDSGPLIELSVEEPAKSSYSLDYLKDMVKATSASDE  215 (247)
T ss_pred             EHHHHHHHHHHHHhcCCeEEEEEeCCEEEEEEEeC-CceEEEEecCCCceEEEEecCceeEEEhHHHHHHhhccccCCCe
Confidence            36899999999998999999999999999999887 88888888889999999997789999999999999999887789


Q ss_pred             EEEEEcCCCCeEEEEEeCCCCCeEEEEEEe
Q 024527           88 ITLKADDGSDTVTFMFESPTQDKIADFEMK  117 (266)
Q Consensus        88 l~l~~~~~~~~l~i~~~~~~~~~~~~~~l~  117 (266)
                      +.|++.++ .++.++..-.+.+..+.+..|
T Consensus       216 V~l~~~~~-~P~~l~~~~~~~~~~~~~i~P  244 (247)
T PRK01115        216 VTIEFGSD-MPLKLEFEIAGGGKVTYLLAP  244 (247)
T ss_pred             EEEEECCC-CCEEEEEEeCCCeEEEEEEec
Confidence            99999664 577777532223444444444

>PRK06673 DNA polymerase III subunit beta; Validated

Probab=98.39  E-value=0.00011  Score=67.30  Aligned_cols=186  Identities=13%  Similarity=0.139  Sum_probs=123.2

Q ss_pred             HhhhceeeEEEeCCceEEEEECCCCeEEEEEEecCCCcc--eeeeCCcEEEEEEhhhHHHHhcccCCCceEEEEEcCCCC
Q 024527           20 KELVNDANFDCSATGFSLQAMDSSHVALVALLLRSEGFE--HYRCDRNISMGMNLNNVSKMLKCAGNDDIITLKADDGSD   97 (266)
Q Consensus        20 ~~l~~~~~~~~~~~gl~~~a~D~~r~a~v~~~l~~~~F~--~y~~~~~~~~gi~l~~L~~ilk~~~~~d~l~l~~~~~~~   97 (266)
                      .+++.++.|++.+++|+++|.|.. +++ ...++.+.-+  ...+.++-.+.++.+.|.+++|.+.++  +.+...++ .
T Consensus        27 ~piL~~ill~a~~~~l~l~atD~e-~~i-~~~i~~~~~~~~~~~i~~~G~v~v~ak~l~~ivk~lp~~--i~~~~~~~-~  101 (376)
T PRK06673         27 IPILSGIKITADQSGITLIASNSN-IFI-EKFIPSAIDDEQITTILQAGTIVVPAKYFIEIIKKMPSD--IVIKSKNE-Q  101 (376)
T ss_pred             chhhcCEEEEEcCCeEEEEEECCc-EEE-EEEEecccccccccccccCEEEEEEhHHHHHHHHcCCCC--cEEEECCC-C
Confidence            356899999999999999999954 332 4444433211  123445567899999999999999853  66665433 3


Q ss_pred             eEEEEEeCCCCCeEEEEEEeeeec-CCCCCCCCcceeeEEEEEehHHHHHHHHHhhcc-C-C-------EEEEEEeCCeE
Q 024527           98 TVTFMFESPTQDKIADFEMKLMDI-DSEHLGIPEAEYHAIVRMPSAEFARICKDLASI-G-D-------TVVISVTKEGV  167 (266)
Q Consensus        98 ~l~i~~~~~~~~~~~~~~l~li~~-~~~~~~ip~~~~~~~i~~~s~~~~~~i~~~~~~-~-d-------~v~i~~~~~~l  167 (266)
                      .+.|+-+..      +|.++.++. ++|.+  |..+....+.+++..|+++++...-. + +       -|.+..+++++
T Consensus       102 ~l~I~~~~~------~f~l~~~~~~dfP~~--~~~~~~~~~~i~~~~L~~~i~kt~fA~s~~e~r~~L~Gv~l~~~~~~l  173 (376)
T PRK06673        102 TITIQSGEI------TLNLNGFPANEFPNV--PQIDDHTEIQIETKQLIDAFKQTVFAVAKNESRPVLTGVHIELDHNKL  173 (376)
T ss_pred             EEEEEECCE------EEEEcCCCHHHCCCC--CCCCCCceEEECHHHHHHHHhhEeEEEecCCCChhceeEEEEEeCCEE
Confidence            677765443      799999986 45554  33345567899999999999987532 2 2       36677778888


Q ss_pred             EEEEEeccee-EEEEEeecccCCCCCCceEEEecCcEEEEEehHHHHhccccCCC-CceEEEEecCC
Q 024527          168 KFSTRGDIGT-ANIVLRQNTTVDKPEEATIIEMHEPVSLTFALRYMNSFTRATPL-SNTVTISLSSE  232 (266)
Q Consensus       168 ~~s~~gd~g~-~~~~~~~~~~~~~~~~~~~~~~~~~~~~~f~~~yL~~~~k~~~l-s~~v~l~~~~~  232 (266)
                      .+-|. |.-+ +.....             ++...+.......+.|..+.|...- .+.|.+.++++
T Consensus       174 ~~vaT-Dg~RLA~~~~~-------------~~~~~~~~~iIP~k~l~el~kll~~~~~~v~i~~~~~  226 (376)
T PRK06673        174 ICAAT-DSHRLAIRETL-------------ISTNMKANCIVPSATINELLKLMNSNLEFVSIYLSES  226 (376)
T ss_pred             EEEEe-cCceEEEEecc-------------cCCCCCCcEEEEHHHHHHHHHhccCCCceEEEEEeCC
Confidence            87665 3112 111110             1111124577889999999988752 45788887765

>PRK14944 DNA polymerase III subunit beta; Provisional

Probab=98.36  E-value=0.00022  Score=65.15  Aligned_cols=186  Identities=12%  Similarity=0.183  Sum_probs=125.4

Q ss_pred             HhhhceeeEEEeCCceEEEEECCCCeEEEEEEecCCCcceeeeCCcEEEEEEhhhHHHHhcccCCCceEEEEEcCCCCeE
Q 024527           20 KELVNDANFDCSATGFSLQAMDSSHVALVALLLRSEGFEHYRCDRNISMGMNLNNVSKMLKCAGNDDIITLKADDGSDTV   99 (266)
Q Consensus        20 ~~l~~~~~~~~~~~gl~~~a~D~~r~a~v~~~l~~~~F~~y~~~~~~~~gi~l~~L~~ilk~~~~~d~l~l~~~~~~~~l   99 (266)
                      .+++.++.+++.+++|+++|+|.. +++ ...++.+.   -++.++-.+.|+.+.|.+++|.+.+ +.+.++..++ +.+
T Consensus        27 ~piL~~ili~a~~~~l~l~atD~e-i~i-~~~i~~~~---~~v~e~G~v~v~ak~l~~ivk~Lp~-~~I~~~~~~~-~~l   99 (375)
T PRK14944         27 FPIFNALKIQTKKNFLILEANNGN-IAI-KIEIKDES---LKIKKEGKIACLGRYFIEIIKKIND-SLIKMTVMEN-NFL   99 (375)
T ss_pred             chhhcCEEEEEECCEEEEEEECcc-EEE-EEEEeCCc---ceeecceEEEEehHhHHHHHHhCCC-CcEEEEEcCC-CEE
Confidence            467899999999999999999955 433 44455421   1455666789999999999999974 4788877533 377


Q ss_pred             EEEEeCCCCCeEEEEEEeeeecC-CCCCCCCcceeeEEEEEehHHHHHHHHHhhcc-C-C-------EEEEEEeCCeEEE
Q 024527          100 TFMFESPTQDKIADFEMKLMDID-SEHLGIPEAEYHAIVRMPSAEFARICKDLASI-G-D-------TVVISVTKEGVKF  169 (266)
Q Consensus       100 ~i~~~~~~~~~~~~~~l~li~~~-~~~~~ip~~~~~~~i~~~s~~~~~~i~~~~~~-~-d-------~v~i~~~~~~l~~  169 (266)
                      .|+-+..      +|.++.++++ +|.++.+ .+-...+.+++..|+++++...-. + |       -|.+...++++.+
T Consensus       100 ~I~s~~s------~f~L~~~~~~~fP~~~~~-~~~~~~~~i~~~~l~~~i~~t~fa~s~de~r~~L~Gv~~~~~~~~l~~  172 (375)
T PRK14944        100 VIKTEFC------EYKLKLMDLCNFLELDFF-FEKKEFFEIKTHFFKKIIKEINISTSKNEKRPILTGLNLIYQKNLLKA  172 (375)
T ss_pred             EEEECcE------EEEEcCCCHHHCCCCCcc-cCcCeEEEECHHHHHHHHhheeEEEccccCccceeEEEEEEECCEEEE
Confidence            7765443      7999999874 4544321 244467899999999999998642 3 2       3667777888888


Q ss_pred             EEEeccee-EEEEEeecccCCCCCCceEEEe-cCcEEEEEehHHHHhccccCCC--CceEEEEecCCC
Q 024527          170 STRGDIGT-ANIVLRQNTTVDKPEEATIIEM-HEPVSLTFALRYMNSFTRATPL--SNTVTISLSSEL  233 (266)
Q Consensus       170 s~~gd~g~-~~~~~~~~~~~~~~~~~~~~~~-~~~~~~~f~~~yL~~~~k~~~l--s~~v~l~~~~~~  233 (266)
                      -|. |.-+ +.....             ++. ..+.+.....+.|..+.|...-  .+.|.+.++++.
T Consensus       173 vAT-DghRLa~~~~~-------------~~~~~~~~~~iIP~k~l~el~kll~~~~~~~v~i~~~~~~  226 (375)
T PRK14944        173 LAT-DSFRMSQKKIK-------------LDFNYHNFNIVIPNKSLEELSKILEYYQSKNLKIYSDSKK  226 (375)
T ss_pred             EEE-ccceeEEEEec-------------cCCCCCceEEEEECchHHHHHHHhccCCCCcEEEEEcCCE
Confidence            765 3112 111110             100 1235677888889888887642  457888887543

>PRK14942 DNA polymerase III subunit beta; Provisional

Probab=98.27  E-value=0.0005  Score=62.80  Aligned_cols=190  Identities=13%  Similarity=0.158  Sum_probs=125.8

Q ss_pred             HhhhceeeEEEeCCceEEEEECCCCeEEEEEEecCCCcceeeeCCcEEEEEEhhhHHHHhcccCCCc-eEEEEEcC-CCC
Q 024527           20 KELVNDANFDCSATGFSLQAMDSSHVALVALLLRSEGFEHYRCDRNISMGMNLNNVSKMLKCAGNDD-IITLKADD-GSD   97 (266)
Q Consensus        20 ~~l~~~~~~~~~~~gl~~~a~D~~r~a~v~~~l~~~~F~~y~~~~~~~~gi~l~~L~~ilk~~~~~d-~l~l~~~~-~~~   97 (266)
                      .+++.++.+++.++++.++|+|.. ++ +...++.      +++++=.+.++.+.|.+++|.+.+++ .+.++.++ +++
T Consensus        27 ~pIL~~ili~a~~~~l~l~atD~e-i~-i~~~i~~------~i~e~G~~~vpak~l~eivr~lp~~~~~i~~~~~~~~~~   98 (373)
T PRK14942         27 KSILSNLKIEAEEKEVFLSATDLE-IS-IKTSVPA------TVGQKGTASLPAKQLSSFFKTIHFETTLLSLEESDSESS   98 (373)
T ss_pred             chhhcCEEEEEECCEEEEEEECCC-eE-EEEEEee------eeccCeEEEEEhHHHHHHHHhCCCCCceEEEEEccCCCC
Confidence            467899999999999999999955 33 2333442      24556779999999999999997543 57787732 334


Q ss_pred             eEEEEEeCCCCCeEEEEEEeeeec-CCCCCCCCcceeeEEEEEehHHHHHHHHHhhcc-C-C-------EEEEEEeCCeE
Q 024527           98 TVTFMFESPTQDKIADFEMKLMDI-DSEHLGIPEAEYHAIVRMPSAEFARICKDLASI-G-D-------TVVISVTKEGV  167 (266)
Q Consensus        98 ~l~i~~~~~~~~~~~~~~l~li~~-~~~~~~ip~~~~~~~i~~~s~~~~~~i~~~~~~-~-d-------~v~i~~~~~~l  167 (266)
                      .+.|...+.++  ..+|.++.+++ ++|+++  ..+....+.+++..|+++++...-. + |       -|.+..+++.+
T Consensus        99 ~~~I~~~~~~~--~~~f~l~~~~~~dfP~~~--~~~~~~~~~i~~~~L~~~i~~t~fa~s~de~R~~L~Gv~~~~~~~~l  174 (373)
T PRK14942         99 IVYITDASGKN--DYKSKISGMDAEEIKTIS--KVDESQVSSFPSQLINDMIRKTSYAIAHEDQRFIFNGLYMIPDGTKL  174 (373)
T ss_pred             EEEEEECCCCC--ccEEEEccCCHHHCCCCC--CCCCceEEEECHHHHHHHHhhEeEEEeccccchhheeEEEEEeCCEE
Confidence            67775422210  12799999987 455544  3355567889999999999987643 2 2       46677778888


Q ss_pred             EEEEEeccee-EEEEEeecccCCCCCCceEEEecCcEEEEEehHHHHhccccCCCCceEEEEecCCC
Q 024527          168 KFSTRGDIGT-ANIVLRQNTTVDKPEEATIIEMHEPVSLTFALRYMNSFTRATPLSNTVTISLSSEL  233 (266)
Q Consensus       168 ~~s~~gd~g~-~~~~~~~~~~~~~~~~~~~~~~~~~~~~~f~~~yL~~~~k~~~ls~~v~l~~~~~~  233 (266)
                      ++-|. |.-+ +......    +.       ....+.......+.|..+.|...-.+.+++.++++.
T Consensus       175 ~~vAT-Dg~RLa~~~~~~----~~-------~~~~~~~~iIP~k~l~el~kll~~~~~v~i~~~~~~  229 (373)
T PRK14942        175 IFVGT-DGRRLCKIERTL----PS-------PLQFKDSIIVPAKAVREISKMIATSETGNIGLIDEQ  229 (373)
T ss_pred             EEEEe-chHHeEEEeccc----CC-------CCCCCceEEEehHHHHHHHHhcCCCCcEEEEEcCCE
Confidence            87665 3111 1111100    00       011234678889999999998764567888888764

>PRK14947 DNA polymerase III subunit beta; Provisional

Probab=98.27  E-value=0.00073  Score=61.95  Aligned_cols=186  Identities=10%  Similarity=0.099  Sum_probs=122.6

Q ss_pred             HhhhceeeEEEeCCceEEEEECCCCeEEEEEEecCCCcceeeeCCcEEEEEEhhhHHHHhcccCCCceEEEEEcCCCCeE
Q 024527           20 KELVNDANFDCSATGFSLQAMDSSHVALVALLLRSEGFEHYRCDRNISMGMNLNNVSKMLKCAGNDDIITLKADDGSDTV   99 (266)
Q Consensus        20 ~~l~~~~~~~~~~~gl~~~a~D~~r~a~v~~~l~~~~F~~y~~~~~~~~gi~l~~L~~ilk~~~~~d~l~l~~~~~~~~l   99 (266)
                      .+++.++.+++.+++|.++|+|.. +++ ...++.      .++++-++.|+.+.|.+++|.+.++ .+.++.+++.+.+
T Consensus        27 ~pIL~~ili~a~~~~L~l~atD~e-i~i-~~~i~~------~i~e~G~~~v~ak~l~divk~lp~~-~i~i~~~~~~~~l   97 (384)
T PRK14947         27 AAYLRTIWLKAEDGTLSIMSTDSN-IEF-RGTYPA------EVTEPGLAGVQGRAFVDLVRKLPPG-EITLKLDASSGNL   97 (384)
T ss_pred             chhhcCEEEEEECCEEEEEEECCc-EEE-EEEEee------eeccCeEEEEEhHHHHHHHHhCCCC-ceEEEEeCCCCEE
Confidence            456899999999999999999955 332 333442      2455677899999999999999854 7888886544477


Q ss_pred             EEEEeCCCCCeEEEEEEeeeec-CCCCCCCCcceeeEEEEEehHHHHHHHHHhhcc-C-C-------EEEEEEe-CCeEE
Q 024527          100 TFMFESPTQDKIADFEMKLMDI-DSEHLGIPEAEYHAIVRMPSAEFARICKDLASI-G-D-------TVVISVT-KEGVK  168 (266)
Q Consensus       100 ~i~~~~~~~~~~~~~~l~li~~-~~~~~~ip~~~~~~~i~~~s~~~~~~i~~~~~~-~-d-------~v~i~~~-~~~l~  168 (266)
                      .|.-+..      +|.++.+++ ++|.++  ..+-...+.+++..|+++++...-. + |       -|.+... ++.+.
T Consensus        98 ~I~~g~s------~f~l~~~~~~~fP~~~--~~~~~~~~~i~~~~L~~~i~~t~fA~s~de~r~~L~Gv~~~~~~~~~l~  169 (384)
T PRK14947         98 LIEQGRR------KYKLPVNDPSWFQNFS--AFPAEGAVVWSGDFLQELIDRIAFCISDEDAMEAIACLKIKPVADNAIE  169 (384)
T ss_pred             EEEECCe------EEEEcCCCHHHCCCCC--CCCCCcEEEECHHHHHHHHhheeeEeeccchhhhhceEEEEEcCCCEEE
Confidence            7765433      799999987 456543  3333457889999999999988643 3 2       3556543 45677


Q ss_pred             EEEEeccee-EEEEEeecccCCCCCCceEEEecCcEEEEEehHHHHhccccCCCCceEEEEecCCC
Q 024527          169 FSTRGDIGT-ANIVLRQNTTVDKPEEATIIEMHEPVSLTFALRYMNSFTRATPLSNTVTISLSSEL  233 (266)
Q Consensus       169 ~s~~gd~g~-~~~~~~~~~~~~~~~~~~~~~~~~~~~~~f~~~yL~~~~k~~~ls~~v~l~~~~~~  233 (266)
                      +-|. |.-+ +...+..    +...     ......++....+.|..+.|..+ .+.|.+.++++.
T Consensus       170 ~vAT-Dg~RLa~~~~~~----~~~~-----~~~~~~~~iIP~k~l~el~kll~-~~~v~i~~~~~~  224 (384)
T PRK14947        170 VCGL-NGHQFALLRFLN----DDIH-----AKLPQEGILIQKKYLLELKKWLG-ADEIELSISEKR  224 (384)
T ss_pred             EEEc-CccceEEEEccc----cccc-----cccCCccEEEechHHHHHHHhCC-CCcEEEEEeCCE
Confidence            7654 3111 1111110    0000     00112356778888988888876 678888888655

>PRK14946 DNA polymerase III subunit beta; Provisional

Probab=98.19  E-value=0.00052  Score=62.50  Aligned_cols=181  Identities=11%  Similarity=0.156  Sum_probs=117.2

Q ss_pred             hhceeeEEEeCCceEEEEECCCCeEEEEEEecCCCcceeeeCCcEEEEEEhhhHHHHhcccCCCceEEEEEcCCCCeEEE
Q 024527           22 LVNDANFDCSATGFSLQAMDSSHVALVALLLRSEGFEHYRCDRNISMGMNLNNVSKMLKCAGNDDIITLKADDGSDTVTF  101 (266)
Q Consensus        22 l~~~~~~~~~~~gl~~~a~D~~r~a~v~~~l~~~~F~~y~~~~~~~~gi~l~~L~~ilk~~~~~d~l~l~~~~~~~~l~i  101 (266)
                      ++.++.+++++++++++|+|.. +++ ...++..  +.-+++++-.+.|+.+.|.+++|.+. + .+.++.+++  .+.|
T Consensus        28 iL~~iliea~~~~l~l~atD~e-i~i-~~~i~~~--~~~~i~e~G~~~v~ak~l~eIvk~lp-~-~I~~~~~~~--~l~I   99 (366)
T PRK14946         28 PLSGFFLKLTRSGLFIISTNSE-LSY-KSFINKK--DLIEINDVGSCLIDGVFLKNIIKKSD-N-QISFELIGS--ELKV   99 (366)
T ss_pred             ccccEEEEEECCeEEEEEECCc-EEE-EEEEeCC--cCceeccCeEEEEEcHHHHHHHHcCC-C-cEEEEEeCC--EEEE
Confidence            5788999999999999999944 443 3344420  01124556779999999999999995 3 377777644  6777


Q ss_pred             EEeCCCCCeEEEEEEeeeec-CCCCCCCCcceeeEEEEEehHHHHHHHHHhhcc-C-C-------EEEEEEeCCeEEEEE
Q 024527          102 MFESPTQDKIADFEMKLMDI-DSEHLGIPEAEYHAIVRMPSAEFARICKDLASI-G-D-------TVVISVTKEGVKFST  171 (266)
Q Consensus       102 ~~~~~~~~~~~~~~l~li~~-~~~~~~ip~~~~~~~i~~~s~~~~~~i~~~~~~-~-d-------~v~i~~~~~~l~~s~  171 (266)
                      +-+..      +|.++.++. ++|.+  |..+....+.+++..|+++++...-. + |       -|.+..+++++.+-|
T Consensus       100 ~s~~s------~f~l~~~~~~~fP~~--~~~~~~~~~~i~~~~l~~~i~kt~fA~s~de~r~~L~Gv~~~~~~~~l~~vA  171 (366)
T PRK14946        100 FWEDA------QFSKTLRDSSFFPEI--NFEQKGIKLTVNAKNLKRAIKNTAFATTNNPNQPILSAINLKSEDNFLHFSA  171 (366)
T ss_pred             EECce------EEEEcCCCHHHCCCC--CcccCCcEEEECHHHHHHHHhhEEEEEeCCCCcccceEEEEEEeCCEEEEEE
Confidence            65433      799999987 44554  43355568899999999999988642 3 2       366677788888866


Q ss_pred             Eeccee-EEEEEeecccCCCCCCceEEEecCcEEEEEehHHHHhccccCCCCceEEEEecCCC
Q 024527          172 RGDIGT-ANIVLRQNTTVDKPEEATIIEMHEPVSLTFALRYMNSFTRATPLSNTVTISLSSEL  233 (266)
Q Consensus       172 ~gd~g~-~~~~~~~~~~~~~~~~~~~~~~~~~~~~~f~~~yL~~~~k~~~ls~~v~l~~~~~~  233 (266)
                      . |.-+ +.....             ++...+.++....+.|..++.. ...+.|.+.++++.
T Consensus       172 T-Dg~RLA~~~~~-------------~~~~~~~~~iIP~k~l~ell~~-~~~~~v~i~~~~~~  219 (366)
T PRK14946        172 T-DTIRFASEKIE-------------ISNPSRIDISISAKNLKDFIPP-ELDKDIELFIESSK  219 (366)
T ss_pred             e-cchheEEEEec-------------cCCCCcceEEEeccCHHHHhcc-cCCCcEEEEEeCCE
Confidence            5 3112 111111             0001123445566777776321 12457888888654

>PF00712 DNA_pol3_beta: DNA polymerase III beta subunit, N-terminal domain; InterPro: IPR022634 This entry describes the N-terminal domain of the beta chain of DNA polymerase III

Probab=97.95  E-value=0.00013  Score=55.60  Aligned_cols=99  Identities=15%  Similarity=0.233  Sum_probs=72.1

Q ss_pred             hhhHHHHHHHHH---------hhhceeeEEEeCCceEEEEECCCCeEEEEEEecCCCcceeeeCCcEEEEEEhhhHHHHh
Q 024527            9 GSLLKKVLEAIK---------ELVNDANFDCSATGFSLQAMDSSHVALVALLLRSEGFEHYRCDRNISMGMNLNNVSKML   79 (266)
Q Consensus         9 ~~~~k~i~~~l~---------~l~~~~~~~~~~~gl~~~a~D~~r~a~v~~~l~~~~F~~y~~~~~~~~gi~l~~L~~il   79 (266)
                      ...|.+.++.++         +++.++.+++.+++|.++|+|..-.  +...++...-     .++-.+.|+.+.|.+++
T Consensus         7 k~~L~~~l~~v~~~i~~k~~~piL~~ili~a~~~~l~l~atD~e~~--i~~~i~~~~~-----~~~G~~~v~ak~l~~iv   79 (120)
T PF00712_consen    7 KEELLKALSKVSKVIPSKSTIPILSNILIEAKDNKLTLTATDLEIS--IRTTIPAEIE-----EEEGSILVPAKKLFDIV   79 (120)
T ss_dssp             HHHHHHHHHHHHTCSSSSSSSGGGGEEEEEEETTEEEEEEE-SSEE--EEEEEETEEE-----EE-EEEEEEHHHHHHHH
T ss_pred             HHHHHHHHHHHHhhhCCCCChHHhccEEEEEeCCEEEEEEEcCeEE--EEEEEeceee-----cCCeEEEEEhHHHHHHH
Confidence            445555666644         4688999999999999999996533  3444444321     23467899999999999


Q ss_pred             cccCCCceEEEEEcCCCCeEEEEEeCCCCCeEEEEEEeeeecC
Q 024527           80 KCAGNDDIITLKADDGSDTVTFMFESPTQDKIADFEMKLMDID  122 (266)
Q Consensus        80 k~~~~~d~l~l~~~~~~~~l~i~~~~~~~~~~~~~~l~li~~~  122 (266)
                      |.+.+++.+.++.++  +.+.|+.+..      +|.++.++.+
T Consensus        80 k~lp~~~~I~i~~~~--~~l~I~~~~~------~f~l~~~~~~  114 (120)
T PF00712_consen   80 KKLPDDEEITIEVEE--NKLTIKSGKS------RFKLPTLDAE  114 (120)
T ss_dssp             HHSSSTSEEEEEEET--TEEEEEETTE------EEEEE-BEGG
T ss_pred             HhCCCCCeEEEEEeC--CEEEEEECCE------EEEEcCCCHH
Confidence            999987899999976  4888885443      8999999864

This is a complex, multichain enzyme responsible for most of the replicative synthesis in bacteria. The beta chain is required for initiation of replication from an RNA primer, nucleotide triphosphate (dNTP) residues being added to the 5'-end of the growing DNA chain.; GO: 0003677 DNA binding, 0003887 DNA-directed DNA polymerase activity, 0008408 3'-5' exonuclease activity, 0006260 DNA replication, 0009360 DNA polymerase III complex; PDB: 3P16_A 3RB9_B 2AWA_C 1VPK_A 2XUR_B 3Q4K_A 3BEP_A 3D1G_A 1UNN_B 3Q4J_D ....

>PF02747 PCNA_C: Proliferating cell nuclear antigen, C-terminal domain; InterPro: IPR022649 Proliferating cell nuclear antigen (PCNA), or cyclin, is a non-histone acidic nuclear protein [] that plays a key role in the control of eukaryotic DNA replication []

Probab=97.90  E-value=0.0018  Score=49.97  Aligned_cols=107  Identities=16%  Similarity=0.213  Sum_probs=82.1

Q ss_pred             ChhhHHHHHHHHHhhhceeeEEEeCCceEEEEECCCCeEEEEEE----e-cCCCcceeeeCCcEEEEEEhhhHHHHhccc
Q 024527            8 QGSLLKKVLEAIKELVNDANFDCSATGFSLQAMDSSHVALVALL----L-RSEGFEHYRCDRNISMGMNLNNVSKMLKCA   82 (266)
Q Consensus         8 ~~~~~k~i~~~l~~l~~~~~~~~~~~gl~~~a~D~~r~a~v~~~----l-~~~~F~~y~~~~~~~~gi~l~~L~~ilk~~   82 (266)
                      .+..|+++++.+..+-+.+.+.++++++.+.+.....-+-+.+.    . ..+...+.+|.++++-..+++.|..+.|.+
T Consensus        14 ~S~~f~~~~kdl~~v~d~v~i~~~~~~~~f~~~Gd~~~~~v~~~~~~~~~~~~~~~~i~~~~~~~~~fsl~YL~~~~Ka~   93 (128)
T PF02747_consen   14 PSSEFKKICKDLSSVGDTVTISADKDSVIFSAEGDIGSAEVEFKETESSEDDEELIEIEVKEPVSSSFSLDYLNDFSKAA   93 (128)
T ss_dssp             EHHHHHHHHHHHHTTCSEEEEEEETTEEEEEEEESSEEEEEEEEEEEEETTCTCESEEEESSEEEEEEEHHHHHHHGGGG
T ss_pred             EHHHHHHHHHHHHhcCCEEEEEEeCCEEEEEEEeccCcEEEEEeeccccccccccceeeeccceeeEEeHHHHHhhhccc
Confidence            37899999999999999999999999999998755443333221    1 234456778888888899999999999988


Q ss_pred             CCCceEEEEEcCCCCeEEEEEeCCCCCeEEEEEE
Q 024527           83 GNDDIITLKADDGSDTVTFMFESPTQDKIADFEM  116 (266)
Q Consensus        83 ~~~d~l~l~~~~~~~~l~i~~~~~~~~~~~~~~l  116 (266)
                      .-.+.++|.+.++. +|.+++.-.+.|.. .|.+
T Consensus        94 ~ls~~V~l~l~~~~-Pl~l~f~~~~~g~l-~f~L  125 (128)
T PF02747_consen   94 PLSDEVTLELGEDM-PLKLEFELADGGSL-KFYL  125 (128)
T ss_dssp             GTTSEEEEEEETTS-EEEEEEEETTTEEE-EEEE
T ss_pred             cCCceEEEEEcCCC-CEEEEEEeCCCeEE-EEEE
Confidence            87899999997654 77777765544544 4443

It acts as a co-factor for DNA polymerase delta, which is responsible for leading strand DNA replication []. The sequence of PCNA is well conserved between plants and animals, indicating a strong selective pressure for structure conservation, and suggesting that this type of DNA replication mechanism is conserved throughout eukaryotes []. In Saccharomyces cerevisiae (Baker's yeast), POL30, is associated with polymerase III, the yeast analog of polymerase delta. Homologues of PCNA have also been identified in the archaea (Euryarchaeota and Crenarchaeota) and in Paramecium bursaria Chlorella virus 1 (PBCV-1) and in nuclear polyhedrosis viruses. ; GO: 0003677 DNA binding, 0030337 DNA polymerase processivity factor activity, 0006275 regulation of DNA replication, 0043626 PCNA complex; PDB: 1IZ5_A 1IZ4_A 1GE8_A 1ISQ_A 3A2F_B 1RWZ_A 3P83_A 1RXM_A 1RXZ_A 1SXJ_F ....

>cd00577 PCNA Proliferating Cell Nuclear Antigen (PCNA) domain found in eukaryotes and archaea

Probab=97.70  E-value=0.0021  Score=54.76  Aligned_cols=106  Identities=17%  Similarity=0.280  Sum_probs=83.1

Q ss_pred             EEEcChhhHHHHHHHHHhhhceeeEEEeCCceEEEEECCC-CeEEEEEEecCCCcceeeeCCcEEEEEEhhhHHHHhccc
Q 024527            4 LRLVQGSLLKKVLEAIKELVNDANFDCSATGFSLQAMDSS-HVALVALLLRSEGFEHYRCDRNISMGMNLNNVSKMLKCA   82 (266)
Q Consensus         4 a~~~~~~~~k~i~~~l~~l~~~~~~~~~~~gl~~~a~D~~-r~a~v~~~l~~~~F~~y~~~~~~~~gi~l~~L~~ilk~~   82 (266)
                      ++++ .+.|+++++-+..+.+.+.+.++++++.+.+-.+. ..+.....-....+..|.+.++..++.+.+.|.++++.+
T Consensus       133 i~i~-~~~L~~~i~~~~~~~~~i~i~~~~~~l~lss~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~fn~~yL~~~l~~~  211 (248)
T cd00577         133 VTLP-SDELKDIVRDLESISDSVTISASKDGFKFSAEGELGGASVTLLPKDSDLLVTIECSEPVSSTYSLKYLKDFTKAA  211 (248)
T ss_pred             EEEE-HHHHHHHHHHHHHcCCEEEEEEcCCEEEEEEeecCCceEEEEecCCCCceEEEEeCCceEEEEhHHHHHHHhhhc
Confidence            4333 68999999999999999999999999999987763 333333333455677788899999999999999999998


Q ss_pred             CCCceEEEEEcCCCCeEEEEEeCCCCCeE
Q 024527           83 GNDDIITLKADDGSDTVTFMFESPTQDKI  111 (266)
Q Consensus        83 ~~~d~l~l~~~~~~~~l~i~~~~~~~~~~  111 (266)
                      +..+.+.|..+++ .++.++......+..
T Consensus       212 ~~s~~v~i~~~~~-~p~~i~~~~~~~~~~  239 (248)
T cd00577         212 PLSDKVTLSFGSD-GPLSLEFKIADGGHL  239 (248)
T ss_pred             ccCCeEEEEEcCC-CCEEEEEEcCCCcEE
Confidence            8678999999776 688887766533333

These polymerase processivity factors play a role in DNA replication and repair. PCNA encircles duplex DNA in its central cavity, providing a DNA-bound platform for the attachment of the polymerase. The trimeric PCNA ring is structurally similar to the dimeric ring formed by the DNA polymerase processivity factors in bacteria (beta subunit DNA polymerase III holoenzyme) and in bacteriophages (catalytic subunits in T4 and RB69). This structural correspondence further substantiates the mechanistic connection between eukaryotic and prokaryotic DNA replication that has been suggested on biochemical grounds. PCNA is also involved with proteins involved in cell cycle processes such as DNA repair and apoptosis. Many of these proteins contain a highly conserved motif known as the PIP-box (PCNA interacting protein box) which contains the sequence Qxx[LIM]xxF[FY].

>PF00705 PCNA_N: Proliferating cell nuclear antigen, N-terminal domain; InterPro: IPR022648 Proliferating cell nuclear antigen (PCNA), or cyclin, is a non-histone acidic nuclear protein [] that plays a key role in the control of eukaryotic DNA replication []

Probab=97.55  E-value=0.0087  Score=46.13  Aligned_cols=105  Identities=11%  Similarity=0.224  Sum_probs=80.0

Q ss_pred             EEEE-ehHHHHHHHHHhhccCCEEEEEEeCCeEEEEEEeccee--EEEEEeecccCCCCCCceEEEecCcEEEEEehHHH
Q 024527          136 IVRM-PSAEFARICKDLASIGDTVVISVTKEGVKFSTRGDIGT--ANIVLRQNTTVDKPEEATIIEMHEPVSLTFALRYM  212 (266)
Q Consensus       136 ~i~~-~s~~~~~~i~~~~~~~d~v~i~~~~~~l~~s~~gd~g~--~~~~~~~~~~~~~~~~~~~~~~~~~~~~~f~~~yL  212 (266)
                      ++++ +++.|+++++-++.+-+.+.|.++++.+.+.+-....-  +...++       .+.....+|.++..+..+++.|
T Consensus         3 ea~~~~a~~~K~i~eal~~lv~e~~f~~~~~Gi~~~amD~s~Valv~l~l~-------~~~F~~Y~~d~~~~igvnl~~l   75 (127)
T PF00705_consen    3 EAKFSDASLFKKIFEALKDLVDEANFEFTEDGISLQAMDPSHVALVDLELP-------SEAFEEYRCDKELSIGVNLSDL   75 (127)
T ss_dssp             EEEESSHHHHHHHHHHHTTTCSEEEEEEESSEEEEEEE-TTSSEEEEEEEE-------GGGSSEEEESSSEEEEEEHHHH
T ss_pred             EEEEcchHHHHHHHHHHHHHhhEEEEEEccCCEEEEEECCCcEEEEEEEec-------hhcceEEEcCCCEEEEEEHHHH
Confidence            4555 56999999999999999999999999999988753222  444442       1223358888899999999999


Q ss_pred             HhccccCCCCceEEEEecCCC-cEEEEEEeCCcEEE
Q 024527          213 NSFTRATPLSNTVTISLSSEL-PVVVEYKIAEMGYI  247 (266)
Q Consensus       213 ~~~~k~~~ls~~v~l~~~~~~-Pl~l~~~i~~~g~~  247 (266)
                      .+++|.+.-.+.+.++..++. -+.+.+.-...+.+
T Consensus        76 ~kiLk~~~~~D~l~l~~~~~~~~l~i~~~~~~~~~~  111 (127)
T PF00705_consen   76 KKILKRAKKDDSLELESDEEPDKLNIVFENEKKGRV  111 (127)
T ss_dssp             HHHHTTSSTTSEEEEEEESSSSEEEEEEEETTSSEE
T ss_pred             HHHHhhccCCCEEEEEEeCCCCEEEEEEEcCCCCeE
Confidence            999999987889999987764 45566665554544

It acts as a co-factor for DNA polymerase delta, which is responsible for leading strand DNA replication []. The sequence of PCNA is well conserved between plants and animals, indicating a strong selective pressure for structure conservation, and suggesting that this type of DNA replication mechanism is conserved throughout eukaryotes []. In Saccharomyces cerevisiae (Baker's yeast), POL30, is associated with polymerase III, the yeast analog of polymerase delta. Homologues of PCNA have also been identified in the archaea (Euryarchaeota and Crenarchaeota) and in Paramecium bursaria Chlorella virus 1 (PBCV-1) and in nuclear polyhedrosis viruses. ; GO: 0003677 DNA binding, 0030337 DNA polymerase processivity factor activity, 0006275 regulation of DNA replication, 0043626 PCNA complex; PDB: 1U76_E 2ZVK_B 1VYJ_A 1UL1_B 3P87_D 2ZVM_C 2ZVL_A 1AXC_C 3VKX_A 3TBL_B ....

>TIGR00590 pcna proliferating cell nuclear antigen (pcna)

Probab=97.45  E-value=0.0091  Score=51.78  Aligned_cols=111  Identities=12%  Similarity=0.181  Sum_probs=82.4

Q ss_pred             hhhHHHHHHHHHhhhceeeEEEeCCceEEEEECCCCeEEEEEEecC-----CCcceeeeCCcEEEEEEhhhHHHHhcccC
Q 024527            9 GSLLKKVLEAIKELVNDANFDCSATGFSLQAMDSSHVALVALLLRS-----EGFEHYRCDRNISMGMNLNNVSKMLKCAG   83 (266)
Q Consensus         9 ~~~~k~i~~~l~~l~~~~~~~~~~~gl~~~a~D~~r~a~v~~~l~~-----~~F~~y~~~~~~~~gi~l~~L~~ilk~~~   83 (266)
                      ...|+++++.++.+-+.+.+.++++++++.+-...-.+-+.+.-..     +...+++++++.+-..+++.|..+.|.++
T Consensus       141 s~~f~~~~kdl~~v~d~v~i~~~~~~~~f~~~Gd~g~~~~~~~~~~~~~~~~~~~~i~~~~~~~~~y~l~YL~~~~Ka~~  220 (259)
T TIGR00590       141 SSEFARICRDLSQFSDSVVISCTKEGVKFSAKGDIGSGNVKLKQTSDTDKEEEAVTIEMKEPVTLTFAIKYLNLFTKATP  220 (259)
T ss_pred             HHHHHHHHHHHHHcCCEEEEEEeCCEEEEEEEecccEEEEEEecCCCCCCCcceEEEEecCceeeeeeHHHHHHhhhhcc
Confidence            7799999999999999999999999999998654444434443222     22356778888888999999999999888


Q ss_pred             CCceEEEEEcCCCCeEEEEEeCCCCCeEEEEEEeeee
Q 024527           84 NDDIITLKADDGSDTVTFMFESPTQDKIADFEMKLMD  120 (266)
Q Consensus        84 ~~d~l~l~~~~~~~~l~i~~~~~~~~~~~~~~l~li~  120 (266)
                      -.+.++|.++.+. +|.+++.-.+.|..+.|--|-++
T Consensus       221 ls~~V~l~~~~~~-Pl~l~y~i~~~g~l~f~lAPrie  256 (259)
T TIGR00590       221 LSDRVTLSMSNDV-PLVVEYKIKDMGFLRFFLAPKIE  256 (259)
T ss_pred             CCCeEEEEEcCCC-CEEEEEEeCCCeEEEEEEcCccC
Confidence            7899999997554 67776664444656444444343

All proteins in this family for which functions are known form sliding DNA clamps that are used in DNA replication processes. This family is based on the phylogenomic analysis of JA Eisen (1999, Ph.D. Thesis, Stanford University).

>PLN00057 proliferating cell nuclear antigen; Provisional

Probab=97.31  E-value=0.016  Score=50.39  Aligned_cols=111  Identities=12%  Similarity=0.191  Sum_probs=84.1

Q ss_pred             hhhHHHHHHHHHhhhceeeEEEeCCceEEEEECCCCeEEEEEEecCC-------CcceeeeCCcEEEEEEhhhHHHHhcc
Q 024527            9 GSLLKKVLEAIKELVNDANFDCSATGFSLQAMDSSHVALVALLLRSE-------GFEHYRCDRNISMGMNLNNVSKMLKC   81 (266)
Q Consensus         9 ~~~~k~i~~~l~~l~~~~~~~~~~~gl~~~a~D~~r~a~v~~~l~~~-------~F~~y~~~~~~~~gi~l~~L~~ilk~   81 (266)
                      +..|+++++.+..+-+.+.++++++++.+.+......+  .+.+.+.       .-.++++.++++-..+++.|..+.|.
T Consensus       141 s~~f~~~~kdl~~vsd~v~i~~~~~~~~f~~~Gd~g~~--~~~l~~~~~~~~~~~~~~i~~~e~~~~~y~l~YL~~~~Ka  218 (263)
T PLN00057        141 SAEFQRICKDLSSIGDTVVISVTKEGVKFSTSGDIGTA--NIVLRQNTTVDKPEEKTVIEMQEPVSLTFALRYLNSFTKA  218 (263)
T ss_pred             HHHHHHHHHHHHHcCCEEEEEEeCCEEEEEEEecCcEE--EEEEecCCCCCCccceEEEEecCceEEEEhHHHHHHhhcc
Confidence            78999999999999999999999999999997544444  4444322       13456778888889999999999998


Q ss_pred             cCCCceEEEEEcCCCCeEEEEEeCCCCCeEEEEEEeeeecC
Q 024527           82 AGNDDIITLKADDGSDTVTFMFESPTQDKIADFEMKLMDID  122 (266)
Q Consensus        82 ~~~~d~l~l~~~~~~~~l~i~~~~~~~~~~~~~~l~li~~~  122 (266)
                      ++-.+.+.|.+..+. +|.+++.-.+.|..+.|--|-++-+
T Consensus       219 ~~ls~~V~i~~~~~~-Pl~l~y~l~~~g~l~f~LAPri~~~  258 (263)
T PLN00057        219 TPLSDTVTLSLSKEL-PVVVEYKIAEMGYIRYYLAPKIEED  258 (263)
T ss_pred             ccCCCeEEEEEcCCC-CEEEEEEeCCCeEEEEEEcCCCCCc
Confidence            887899999997554 6777666544566655555555544

>PTZ00113 proliferating cell nuclear antigen; Provisional

Probab=97.19  E-value=0.023  Score=49.70  Aligned_cols=114  Identities=14%  Similarity=0.172  Sum_probs=84.1

Q ss_pred             hhhHHHHHHHHHhhhceeeEEEeCCceEEEEECCCCeEEEEEEec-----CCCcceeeeCCcEEEEEEhhhHHHHhcccC
Q 024527            9 GSLLKKVLEAIKELVNDANFDCSATGFSLQAMDSSHVALVALLLR-----SEGFEHYRCDRNISMGMNLNNVSKMLKCAG   83 (266)
Q Consensus         9 ~~~~k~i~~~l~~l~~~~~~~~~~~gl~~~a~D~~r~a~v~~~l~-----~~~F~~y~~~~~~~~gi~l~~L~~ilk~~~   83 (266)
                      +..|+++++.++.+-+.+.++++++++.+.+-.....+-+.+.-.     .+..-+++++++++...+++.|..+.|.+.
T Consensus       143 s~~f~~i~rdl~~vgd~V~i~~~~~~v~f~a~Gd~g~~~i~l~~~~~~~~~~~~~~~~v~~~~~~~ysl~YL~~f~Ka~~  222 (275)
T PTZ00113        143 SKELTNICRQMNEFSDTVKIEIDSNSIKFTTQGDLGDGEVVLKPRPPTSEDDCGVTIKVRKPIKQSYATKYLNMFAKSGC  222 (275)
T ss_pred             HHHHHHHHHHHHHcCCEEEEEEeCCEEEEEEeccCcEEEEEEecCCCCCCccceEEEEecCceeeEEhHHHHHHhhcccc
Confidence            779999999999999999999999999999876555554444321     234466778889999999999999999877


Q ss_pred             CCceEEEEEcCCCCeEEEEEeCC----------CCCeEEEEEEeeeecCC
Q 024527           84 NDDIITLKADDGSDTVTFMFESP----------TQDKIADFEMKLMDIDS  123 (266)
Q Consensus        84 ~~d~l~l~~~~~~~~l~i~~~~~----------~~~~~~~~~l~li~~~~  123 (266)
                      -.+.++|.+..+. +|.+.+.-.          ..|..+.|--|-++.+.
T Consensus       223 ls~~V~l~l~~d~-Pl~ley~i~~~~~~~~~~~~~G~l~fyLAPkie~~~  271 (275)
T PTZ00113        223 LSDVVTLGLSDNR-PIEVKYEIKDTSPDARHTHKLGEVKFFLAPKMDDDM  271 (275)
T ss_pred             CCCeEEEEEcCCC-CEEEEEEeccccccccccCCccEEEEEEcCccCccc
Confidence            7899999997554 555554432          13566555545555443

>PF04139 Rad9: Rad9; InterPro: IPR007268 Rad9 is required for transient cell-cycle arrests and transcriptional induction of DNA repair in response to DNA damage

Probab=97.10  E-value=0.0065  Score=52.40  Aligned_cols=109  Identities=17%  Similarity=0.305  Sum_probs=78.9

Q ss_pred             ChhhHHHHHHHHHhhhceeeEEEeCCceEEEEEC-----CCCeEEEEEEecCCCcceeeeCCcEEEEEEhhhHHHHhccc
Q 024527            8 QGSLLKKVLEAIKELVNDANFDCSATGFSLQAMD-----SSHVALVALLLRSEGFEHYRCDRNISMGMNLNNVSKMLKCA   82 (266)
Q Consensus         8 ~~~~~k~i~~~l~~l~~~~~~~~~~~gl~~~a~D-----~~r~a~v~~~l~~~~F~~y~~~~~~~~gi~l~~L~~ilk~~   82 (266)
                      +++.|+++++....=.+++.+.++++.+.++...     +.+.....+.+..+-|++|.+.++..+.++++.|.-++.-+
T Consensus       136 ~~~~l~~~l~~f~~~~eeitl~~~~~~v~~~s~~~~~~~~~~~l~t~v~i~~~ef~~~~~~~~~~itF~lKefka~l~~a  215 (252)
T PF04139_consen  136 SPRLLKDLLDHFPSSTEEITLEVTDDKVSFKSYTEEIQDSKQPLSTEVTISTEEFDEYNVQEDTDITFSLKEFKAILSFA  215 (252)
T ss_dssp             EHHHHHHHHTTS-TT--EEEEEEECTCEEEEEE-----SSS---EEEEEE-GGGSSEEE--TT-EEEEEHHHHHHHHHHH
T ss_pred             ChHHHHHHHhhcCCChhhEEEEecCCEEEEEeecccccccccceEEEEEEehHhcceEEcCCCCEEEEEeHHHHHHHHHH
Confidence            4789999999888778999999999999988643     44667789999999999999999999999999999999987


Q ss_pred             CC-CceEEEEEcCCCCeEEEEEeCCCCCeEEEEEEe
Q 024527           83 GN-DDIITLKADDGSDTVTFMFESPTQDKIADFEMK  117 (266)
Q Consensus        83 ~~-~d~l~l~~~~~~~~l~i~~~~~~~~~~~~~~l~  117 (266)
                      .. +..+.+.++..|+|+.|.+++. .+..-.|.+.
T Consensus       216 e~~~~~i~~~f~~pG~Pi~~~~~~~-~~~~~~~vla  250 (252)
T PF04139_consen  216 ESLSLPISIYFDNPGRPILFELEQN-DHFEAEFVLA  250 (252)
T ss_dssp             HHTTEEEEEEESSTTS-EEEEEE---SSEEEEEEE-
T ss_pred             HhcCCcEEEEECCCCCcEEEEECCC-CcEEEEEEEE
Confidence            53 4579999999999999999853 2344455443

; GO: 0006281 DNA repair; PDB: 3GGR_A 3G65_A 3A1J_A.

>PTZ00483 proliferating cell nuclear antigen; Provisional

Probab=97.01  E-value=0.032  Score=48.49  Aligned_cols=94  Identities=7%  Similarity=0.099  Sum_probs=73.9

Q ss_pred             hhhHHHHHHHHHhhhceeeEEEeCCceEEEEECCCCeEEEEEEecCCCcceeeeCCcEEEEEEhhhHHHHhcccCCCceE
Q 024527            9 GSLLKKVLEAIKELVNDANFDCSATGFSLQAMDSSHVALVALLLRSEGFEHYRCDRNISMGMNLNNVSKMLKCAGNDDII   88 (266)
Q Consensus         9 ~~~~k~i~~~l~~l~~~~~~~~~~~gl~~~a~D~~r~a~v~~~l~~~~F~~y~~~~~~~~gi~l~~L~~ilk~~~~~d~l   88 (266)
                      +..|+++++.++.+-+.+.+.++++++++.+-.....+-+.+.-+... -..+++++++....++.|..+.|.+.-.+.+
T Consensus       147 s~~f~~i~kdl~~vsD~v~i~~~~~~v~f~a~Gd~~~~~~~l~~~~~~-v~~~~~~~v~~~fsl~YL~~f~Ka~~lsd~V  225 (264)
T PTZ00483        147 SKKFQEFAKYLHSIGDTVSISMKKDEMRLETEGEGIKASKQFHNDVGD-VRVTSTESLSQEFATRYLVLFSKATSLADEV  225 (264)
T ss_pred             HHHHHHHHHHHHHcCCEEEEEEECCEEEEEEeecCcEEEEEEccCCCc-eEEEecCcchheehHHHHHHhhccccCCCeE
Confidence            779999999999999999999999999999976666555555422222 3344777777788999999999987878999


Q ss_pred             EEEEcCCCCeEEEEEe
Q 024527           89 TLKADDGSDTVTFMFE  104 (266)
Q Consensus        89 ~l~~~~~~~~l~i~~~  104 (266)
                      +|.+..+. |+.+.+.
T Consensus       226 ~i~l~~~~-Pl~ley~  240 (264)
T PTZ00483        226 SINLSAGI-PLSVKFN  240 (264)
T ss_pred             EEEEcCCC-CEEEEEE
Confidence            99997554 5666554

>PF00712 DNA_pol3_beta: DNA polymerase III beta subunit, N-terminal domain; InterPro: IPR022634 This entry describes the N-terminal domain of the beta chain of DNA polymerase III

Probab=96.80  E-value=0.12  Score=39.08  Aligned_cols=100  Identities=8%  Similarity=0.139  Sum_probs=71.0

Q ss_pred             EEEEehHHHHHHHHHhhccCC---------EEEEEEeCCeEEEEEEecceeEEEEEeecccCCCCCCceEEEec-CcEEE
Q 024527          136 IVRMPSAEFARICKDLASIGD---------TVVISVTKEGVKFSTRGDIGTANIVLRQNTTVDKPEEATIIEMH-EPVSL  205 (266)
Q Consensus       136 ~i~~~s~~~~~~i~~~~~~~d---------~v~i~~~~~~l~~s~~gd~g~~~~~~~~~~~~~~~~~~~~~~~~-~~~~~  205 (266)
                      ++++..++|.++++.+..+-.         .|.|.++++.+++++..-.-.....+.             .... ++-+.
T Consensus         2 kf~i~k~~L~~~l~~v~~~i~~k~~~piL~~ili~a~~~~l~l~atD~e~~i~~~i~-------------~~~~~~~G~~   68 (120)
T PF00712_consen    2 KFTINKEELLKALSKVSKVIPSKSTIPILSNILIEAKDNKLTLTATDLEISIRTTIP-------------AEIEEEEGSI   68 (120)
T ss_dssp             EEEEEHHHHHHHHHHHHTCSSSSSSSGGGGEEEEEEETTEEEEEEE-SSEEEEEEEE-------------TEEEEE-EEE
T ss_pred             EEEEEHHHHHHHHHHHHhhhCCCCChHHhccEEEEEeCCEEEEEEEcCeEEEEEEEe-------------ceeecCCeEE
Confidence            578899999999999998742         699999999999998752223333331             2223 67789


Q ss_pred             EEehHHHHhccccCCCCceEEEEecCCCcEEEEEEeCCcEEEEEEEc
Q 024527          206 TFALRYMNSFTRATPLSNTVTISLSSELPVVVEYKIAEMGYIRFYLA  252 (266)
Q Consensus       206 ~f~~~yL~~~~k~~~ls~~v~l~~~~~~Pl~l~~~i~~~g~~~~~ia  252 (266)
                      ..+.++|.+++|.++-.+.|.++..+ .-+.++   .+.+.++.-..
T Consensus        69 ~v~ak~l~~ivk~lp~~~~I~i~~~~-~~l~I~---~~~~~f~l~~~  111 (120)
T PF00712_consen   69 LVPAKKLFDIVKKLPDDEEITIEVEE-NKLTIK---SGKSRFKLPTL  111 (120)
T ss_dssp             EEEHHHHHHHHHHSSSTSEEEEEEET-TEEEEE---ETTEEEEEE-B
T ss_pred             EEEhHHHHHHHHhCCCCCeEEEEEeC-CEEEEE---ECCEEEEEcCC
Confidence            99999999999999833899999988 445554   24455544433

This is a complex, multichain enzyme responsible for most of the replicative synthesis in bacteria. The beta chain is required for initiation of replication from an RNA primer, nucleotide triphosphate (dNTP) residues being added to the 5'-end of the growing DNA chain.; GO: 0003677 DNA binding, 0003887 DNA-directed DNA polymerase activity, 0008408 3'-5' exonuclease activity, 0006260 DNA replication, 0009360 DNA polymerase III complex; PDB: 3P16_A 3RB9_B 2AWA_C 1VPK_A 2XUR_B 3Q4K_A 3BEP_A 3D1G_A 1UNN_B 3Q4J_D ....

>PHA03383 PCNA-like protein; Provisional

Probab=96.76  E-value=0.1  Score=45.38  Aligned_cols=118  Identities=14%  Similarity=0.120  Sum_probs=80.5

Q ss_pred             EEEEE-ehHHHHHHHHHhhccCCEEEEEEeCCeEEEEEEecceeEEEEEeecccCCCCCCceEEEecCcEEEEEehHHHH
Q 024527          135 AIVRM-PSAEFARICKDLASIGDTVVISVTKEGVKFSTRGDIGTANIVLRQNTTVDKPEEATIIEMHEPVSLTFALRYMN  213 (266)
Q Consensus       135 ~~i~~-~s~~~~~~i~~~~~~~d~v~i~~~~~~l~~s~~gd~g~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~f~~~yL~  213 (266)
                      .++++ +++.|+++++.++.+-+.+.|.++++.+.+.+-....-+=+.+..     ..+.....+|.++.++.+++..|.
T Consensus         8 fe~~~~~a~~~K~iieai~~lv~e~~f~~t~~Gi~lqamD~shVaLv~l~L-----~~~~F~~Y~~d~~~~iGv~~~~l~   82 (262)
T PHA03383          8 FHIRTIQGSVIKSLFDVLKEILHDVNIFFRPTGVYISALDGAKVSLVHMKL-----DAESFEEYHCDQTYEIGVNVSNMF   82 (262)
T ss_pred             EEEEecchHHHHHHHHHHHHHhceEEEEECCCcEEEEEECCCcEEEEEEEe-----CHHhCceEecCCceEEEEEHHHHH
Confidence            34444 669999999999999999999999999999886432222222221     112222478888989999999999


Q ss_pred             hccccCCCCceEEEEecCC--CcEEEEEEeCC-cEEEEEEEcccCCCC
Q 024527          214 SFTRATPLSNTVTISLSSE--LPVVVEYKIAE-MGYIRFYLAPKIEED  258 (266)
Q Consensus       214 ~~~k~~~ls~~v~l~~~~~--~Pl~l~~~i~~-~g~~~~~iaPr~~~~  258 (266)
                      +++|.+.-.+.+.++...+  .-|.+.+.-.. +..-.|.+ |.++-+
T Consensus        83 KILk~a~~~D~l~l~~~~~~~~~l~i~~~~~~~~~~~~f~l-~Lidi~  129 (262)
T PHA03383         83 KLLRTAGSHDSILFRYLKNSPHFLEITIQNFEKNSLTKFQL-KLIEID  129 (262)
T ss_pred             HHHhccCCCCEEEEEecCCCCCEEEEEEEeCCCCcEEEEEE-EccccC
Confidence            9999998788999986333  35666554222 23344444 445533

>PF02768 DNA_pol3_beta_3: DNA polymerase III beta subunit, C-terminal domain; InterPro: IPR022635 This entry describes the C-terminal domain of the beta chain of DNA polymerase III

Probab=96.56  E-value=0.084  Score=39.99  Aligned_cols=89  Identities=15%  Similarity=0.202  Sum_probs=65.5

Q ss_pred             ChhhHHHHHHHHHhhhc----eeeEEEeCCceEEEEECCCCeEEEEEEecCCCcceeeeCCcEEEEEEhhhHHHHhcccC
Q 024527            8 QGSLLKKVLEAIKELVN----DANFDCSATGFSLQAMDSSHVALVALLLRSEGFEHYRCDRNISMGMNLNNVSKMLKCAG   83 (266)
Q Consensus         8 ~~~~~k~i~~~l~~l~~----~~~~~~~~~gl~~~a~D~~r~a~v~~~l~~~~F~~y~~~~~~~~gi~l~~L~~ilk~~~   83 (266)
                      +...|..+++-+.-+.+    .+.|.++++.+++.+.++. .+-..-.++.    .|. .+++.+++|.+.|.++|+.+.
T Consensus        15 ~r~~L~~al~Rv~~~~~~~~~~v~l~~~~~~l~l~~~~~~-~g~~~e~i~~----~~~-g~~~~i~fN~~yL~d~L~~~~   88 (121)
T PF02768_consen   15 DRKELLDALKRVSIISSEKNNPVKLSFSDNQLTLSSQSSE-IGEAEEEIPI----EYE-GEPLEIAFNPKYLLDALKAID   88 (121)
T ss_dssp             EHHHHHHHHHHHHHHHTTTTGEEEEEEETTEEEEEEEETT-TEEEEEEEE-----EEE-ES-EEEEEEHHHHHHHHHCC-
T ss_pred             EHHHHHHHHHHHHHHhhcCCceEEEEEECCEEEEEEcCCC-CceEEEEEee----eec-CCceEEEECHHHHHHHHhhcC
Confidence            46778888888876653    7999999999999997754 2334444543    233 457999999999999999987


Q ss_pred             CCceEEEEEcCCCCeEEEEE
Q 024527           84 NDDIITLKADDGSDTVTFMF  103 (266)
Q Consensus        84 ~~d~l~l~~~~~~~~l~i~~  103 (266)
                       ++.+.|.+.+...++.|+-
T Consensus        89 -~~~V~l~~~~~~~p~~i~~  107 (121)
T PF02768_consen   89 -GEEVTLEFSDPSSPILITP  107 (121)
T ss_dssp             -SSEEEEEESSTTS-EEEEE
T ss_pred             -CCEEEEEEcCCCCCEEEEe
Confidence             5789999987777877754

This is a complex, multichain enzyme responsible for most of the replicative synthesis in bacteria. The beta chain is required for initiation of replication from an RNA primer, nucleotide triphosphate (dNTP) residues being added to the 5'-end of the growing DNA chain.; GO: 0003677 DNA binding, 0003887 DNA-directed DNA polymerase activity, 0008408 3'-5' exonuclease activity, 0006260 DNA replication, 0009360 DNA polymerase III complex; PDB: 3P16_A 3RB9_B 2AVT_B 2XUR_B 3Q4K_A 3BEP_A 3D1G_A 1UNN_B 3Q4J_D 2POL_A ....

>PHA02545 45 sliding clamp; Provisional

Probab=95.21  E-value=1.6  Score=36.66  Aligned_cols=120  Identities=13%  Similarity=0.194  Sum_probs=77.5

Q ss_pred             ceEEEEECCCCeEEEEEEecCCCcceeeeCCcEEE-EEEhhhHHHHhcccCCCceEEEEEcCCCCeEEEEEeCCCCCeEE
Q 024527           34 GFSLQAMDSSHVALVALLLRSEGFEHYRCDRNISM-GMNLNNVSKMLKCAGNDDIITLKADDGSDTVTFMFESPTQDKIA  112 (266)
Q Consensus        34 gl~~~a~D~~r~a~v~~~l~~~~F~~y~~~~~~~~-gi~l~~L~~ilk~~~~~d~l~l~~~~~~~~l~i~~~~~~~~~~~  112 (266)
                      |=.+.......++++.+.++..+=        ..+ .-+|..|..+|..++.+-.+  ..+.+ ..+.+  .+.+    +
T Consensus        26 Gn~I~T~s~~~~~yAeAtI~d~fd--------~e~~IYDL~~FLsiL~l~~~~aei--~~~~~-~~i~i--~~~r----~   88 (223)
T PHA02545         26 GNFIMTKSVNGVIYAEATIEDEFD--------SEFAIYDLNSFLSILSLVGDDAEI--TFDED-GNIVI--RGGR----S   88 (223)
T ss_pred             CCEEEEEecCceEEEEEeeccccc--------ceeeEeeHHHHHHHHhccCCCCee--EEccC-ceEEe--cCCc----e
Confidence            334445677899999999997652        223 44789999999988643333  34322 23333  2221    1


Q ss_pred             EEEEeeeecCC-----CCCCCCcceeeEEEEEehHHHHHHHHHhhccC-CEEEEEEeCCeEEEEEE
Q 024527          113 DFEMKLMDIDS-----EHLGIPEAEYHAIVRMPSAEFARICKDLASIG-DTVVISVTKEGVKFSTR  172 (266)
Q Consensus       113 ~~~l~li~~~~-----~~~~ip~~~~~~~i~~~s~~~~~~i~~~~~~~-d~v~i~~~~~~l~~s~~  172 (266)
                      ....+--+++.     ..+..|  .-+.++.+.+.+|+++.|..+.++ +.+.|...++++.+.+.
T Consensus        89 ki~~~~ad~~~Iv~P~k~i~~P--~~dv~f~L~aedl~ql~kas~~l~l~dl~~~~~~G~ivi~~~  152 (223)
T PHA02545         89 KIKYPYADPSTIVKPKKRVTFP--VADVEFELKAEDLQQLLKASRVLGLDDLAITNIDGKIVINLF  152 (223)
T ss_pred             EEEEecCCCceEecCCcccCCC--CccEEEEEcHHHHHHHHHHHHhcCCCeEEEEeeCCEEEEEEE
Confidence            23333333322     134444  245678889999999999999987 78999999999988765

>PF02144 Rad1: Repair protein Rad1/Rec1/Rad17; InterPro: IPR003021 REC1 of Ustilago maydis plays a key role in regulating the genetic system of the fungus

Probab=95.18  E-value=0.26  Score=43.08  Aligned_cols=95  Identities=14%  Similarity=0.244  Sum_probs=71.5

Q ss_pred             ChhhHHHHHHHHHhh-hceeeEEEeC---CceEEEEECCCCeEEEEEEecCCCcceeeeC---CcEEEEEEhhhHHHHhc
Q 024527            8 QGSLLKKVLEAIKEL-VNDANFDCSA---TGFSLQAMDSSHVALVALLLRSEGFEHYRCD---RNISMGMNLNNVSKMLK   80 (266)
Q Consensus         8 ~~~~~k~i~~~l~~l-~~~~~~~~~~---~gl~~~a~D~~r~a~v~~~l~~~~F~~y~~~---~~~~~gi~l~~L~~ilk   80 (266)
                      .+..|+.++.-+... -+.+.+.+++   .++++.+..+...+-+++--.++.++.|+|.   +...-.-+++.|.++.|
T Consensus       172 ks~~L~~al~eL~~~~~~~l~i~~s~~~~p~f~l~s~G~~G~s~v~fp~~~~~le~f~~~~~~~~~~~~Y~f~~i~~~~k  251 (275)
T PF02144_consen  172 KSDWLRDALSELDWSNSEELTIYISPPDKPHFRLSSKGPLGSSKVDFPNDSDVLETFECYDGEEPVISRYKFSLIKKAMK  251 (275)
T ss_dssp             EHHHHHHHHHTT-TS-CSEEEEEE-S-SSSSEEEEEEETTEEEEEEE-TTSTSEEEEEE----S-EEEEEEHHHHCCHHH
T ss_pred             EhHHHHHHHHHHhhccCCeEEEEEEeCCCCEEEEEEEcCCCeEEEEECCCCCceeEEEEeccCceEEEEEeHHHHHHHHH
Confidence            477899999999988 8889999999   5999999865555444444446689999999   44444599999999999


Q ss_pred             ccCCCceEEEEEcCCCCeEEEEE
Q 024527           81 CAGNDDIITLKADDGSDTVTFMF  103 (266)
Q Consensus        81 ~~~~~d~l~l~~~~~~~~l~i~~  103 (266)
                      .++-..++.|..+.++ -|.+++
T Consensus       252 Al~~ssKv~ir~d~~G-lLs~Q~  273 (275)
T PF02144_consen  252 ALKISSKVSIRIDENG-LLSLQF  273 (275)
T ss_dssp             HHTTSSEEEEEEESSS--EEEEE
T ss_pred             HhhhccEEEEEeCCCc-EEEEEE
Confidence            9988889999998664 677654

REC1 mutants are very sensitive to UV light. Mutation leads to a complex phenotype with alterations in DNA repair, recombination, mutagenesis, meiosis and cell division []. The predicted product of the REC1 gene is a polypeptide of 522 amino acid residues with molecular mass 57kDa. The protein shows 3'--5' exonuclease activity, but only in cells over-expressing REC1 []. While it is distinguishable from the major bacterial nucleases, the protein has certain enzymatic features in common with epsilon, the proof-reading exonuclease subunit of Escherichia coli DNA polymerase III holoenzyme []. The rad1 gene of Schizosaccharomyces pombe comprises three exons and encodes a 37kDa protein that exhibits partial similarity to the REC1 gene of U. maydis []. The two genes share putative functional similarities in their respective organisms.; GO: 0003684 damaged DNA binding, 0008853 exodeoxyribonuclease III activity, 0006281 DNA repair, 0005634 nucleus; PDB: 3G65_B 3GGR_C 3A1J_C.

>KOG1636 consensus DNA polymerase delta processivity factor (proliferating cell nuclear antigen) [Replication, recombination and repair]

Probab=95.05  E-value=0.87  Score=38.23  Aligned_cols=111  Identities=9%  Similarity=0.149  Sum_probs=78.8

Q ss_pred             hhhHHHHHHHHHhhhceeeEEEeCCceEEEEECCCCeEEEEEEecCCCc-----ceeeeCCcEEEEEEhhhHHHHhcccC
Q 024527            9 GSLLKKVLEAIKELVNDANFDCSATGFSLQAMDSSHVALVALLLRSEGF-----EHYRCDRNISMGMNLNNVSKMLKCAG   83 (266)
Q Consensus         9 ~~~~k~i~~~l~~l~~~~~~~~~~~gl~~~a~D~~r~a~v~~~l~~~~F-----~~y~~~~~~~~gi~l~~L~~ilk~~~   83 (266)
                      +..|.+|.+-++.+-+-+.+.++.+|++|.+......|-+.+.--...=     -.-++++++++.+.++.|+.+-|-..
T Consensus       141 a~EF~ricrdls~f~Dsv~I~~tkegv~F~~~Gdig~asi~l~~~~~~d~~e~av~iE~~~pVtltfa~kYln~ftKatp  220 (260)
T KOG1636|consen  141 AGEFSRICRDLSTFSDSVVISATKEGVKFSAKGDIGTASITLSQCTAVDKPEEAVKIEMNEPVTLTFALKYLNQFTKATP  220 (260)
T ss_pred             HHHHHHHHHHHhhhcCeEEEEEecceeEEEecccccceeEEEccCCCCCCccceEEEEecCcchhhhHHHHHHHhhcccc
Confidence            7899999999999999999999999999999776666655544333221     12334567788888888888888655


Q ss_pred             CCceEEEEEcCCCCeEEEEEeCCCCCeEEEEEEeeee
Q 024527           84 NDDIITLKADDGSDTVTFMFESPTQDKIADFEMKLMD  120 (266)
Q Consensus        84 ~~d~l~l~~~~~~~~l~i~~~~~~~~~~~~~~l~li~  120 (266)
                      =.+.++|++..+. ++.+.+.-.+.|-.|.|--|-++
T Consensus       221 Ls~rV~lsls~~~-P~~vey~i~~~g~lr~YLAPKie  256 (260)
T KOG1636|consen  221 LSDRVTLSLSSEV-PVVVEYKIEDMGHLRYYLAPKIE  256 (260)
T ss_pred             ccceEEEEecCCC-cEEEEEecccCceEEEEEccccC
Confidence            5688999996554 66665543333556555544444

---

Homologous Structure Templates

Structure Templates Detected by BLAST

Original result of BLAST against Protein Data Bank

ID	Length	Definition	E-value
Query	266
2zvw_A	275	Crystal Structure Of Proliferating Cell Nuclear Ant		1e-139
2zvv_A	276	Crystal Structure Of Proliferating Cellular Nuclear		1e-139
1axc_A	261	Human Pcna Length = 261		1e-104
1axc_C	261	Human Pcna Length = 261		1e-103
3v60_B	258	Structure Of S. Cerevisiae Pcna Conjugated To Sumo		4e-59
3f1w_A	258	Crystal Structure Of A Mutant Proliferating Cell Nu		3e-58
2od8_A	258	Structure Of A Peptide Derived From Cdc9 Bound To P		5e-58
3gpm_A	258	Structure Of The Trimeric Form Of The E113g Pcna Mu		7e-58
3k4x_A	798	Eukaryotic Sliding Clamp Pcna Bound To Dna Length =		2e-57
1sxj_F	283	Crystal Structure Of The Eukaryotic Clamp Loader (R		4e-55
3p91_A	265	Crystal Structure Of Proliferating Cellular Nuclear		4e-44
3l0w_A	169	Structure Of Split Monoubiquitinated Pcna With Ubiq		8e-36
3pge_B	171	Structure Of Sumoylated Pcna Length = 171		1e-35
2nti_E	246	Crystal Structure Of Pcna123 Heterotrimer. Length =		7e-17
3fds_D	245	Structural Insight Into Recruitment Of Translesion		8e-17
2izo_B	246	Structure Of An Archaeal Pcna1-Pcna2-Fen1 Complex L		1e-16
3ifv_A	247	Crystal Structure Of The Haloferax Volcanii Prolife		2e-16
2ix2_B	245	Crystal Structure Of The Heterotrimeric Pcna From S		3e-16
1iz4_A	249	Pyrococcus Furiosus Pcna Mutant (Met73leuASP143ALA)		3e-16
1ge8_A	249	Proliferating Cell Nuclear Antigen (Pcna) Homolog F		3e-16
2hii_B	245	Heterotrimeric Pcna Sliding Clamp Length = 245		7e-16
1rwz_A	245	Crystal Structure Of Proliferating Cell Nuclear Ant		9e-16
1iz5_A	249	Pyrococcus Furiosus Pcna Mutant (Met73leu, Asp143al		3e-15
1ud9_A	245	Crystal Structure Of Proliferating Cell Nuclear Ant		6e-15
3lx1_A	255	Crystal Structure Analysis Of Pcna1 From Thermococc		2e-14
3l0x_B	94	Structure Of Split Yeast Pcna Length = 94		2e-14
3pge_A	200	Structure Of Sumoylated Pcna Length = 200		3e-14
3l0w_B	169	Structure Of Split Monoubiquitinated Pcna With Ubiq		6e-14
3aix_A	246	Crystal Structure Of Pcna2-Pcna3 Complex From Sulfo		2e-13
3a2f_B	248	Crystal Structure Of Pyrococcus Furiosus Dna Polyme		2e-13
3lx2_A	259	Crystal Structure Analysis Of Pcna From Thermococcu		3e-12
2hii_C	252	Heterotrimeric Pcna Sliding Clamp Length = 252		9e-10
2ijx_A	244	Crystal Structure Of Pcna3 Monomer From Sulfolobus		1e-09
2ix2_C	259	Crystal Structure Of The Heterotrimeric Pcna From S		2e-09
3aix_B	248	Crystal Structure Of Pcna2-Pcna3 Complex From Sulfo		1e-07

>pdb|2ZVW|A Chain A, Crystal Structure Of Proliferating Cell Nuclear Antigen 2 And Short Peptide From Human P21 Length = 275

Iteration: 1
 Score =  490 bits (1261), Expect = e-139,   Method: Compositional matrix adjust.
 Identities = 232/255 (90%), Positives = 249/255 (97%)
Query: 1   MLELRLVQGSLLKKVLEAIKELVNDANFDCSATGFSLQAMDSSHVALVALLLRSEGFEHY 60
           MLELRLVQGSLLKKVLEA+K+LVNDANFDCS TGFSLQAMDSSHVALV+LLLRSEGFEHY
Sbjct: 21  MLELRLVQGSLLKKVLEAVKDLVNDANFDCSTTGFSLQAMDSSHVALVSLLLRSEGFEHY 80
Query: 61  RCDRNISMGMNLNNVSKMLKCAGNDDIITLKADDGSDTVTFMFESPTQDKIADFEMKLMD 120
           RCDRN+SMGMNL N+SKMLKCAGNDDIIT+KADDGSDTVTFMFESPTQDKIADFEMKLMD
Sbjct: 81  RCDRNLSMGMNLGNMSKMLKCAGNDDIITIKADDGSDTVTFMFESPTQDKIADFEMKLMD 140
Query: 121 IDSEHLGIPEAEYHAIVRMPSAEFARICKDLASIGDTVVISVTKEGVKFSTRGDIGTANI 180
           IDSEHLGIP+AEYH+IVRMPS EF+RICKDL+SIGDTVVISVTKEGVKFST GDIGTANI
Sbjct: 141 IDSEHLGIPDAEYHSIVRMPSGEFSRICKDLSSIGDTVVISVTKEGVKFSTAGDIGTANI 200
Query: 181 VLRQNTTVDKPEEATIIEMHEPVSLTFALRYMNSFTRATPLSNTVTISLSSELPVVVEYK 240
           VLRQNTTVDKPE+A +IEM+EPVSL+FALRYMNSFT+ATPLS TVTISLSSELPVVVEYK
Sbjct: 201 VLRQNTTVDKPEDAIVIEMNEPVSLSFALRYMNSFTKATPLSETVTISLSSELPVVVEYK 260
Query: 241 IAEMGYIRFYLAPKI 255
           +AEMGYIR+YLAPKI
Sbjct: 261 VAEMGYIRYYLAPKI 275

>pdb|2ZVV|A Chain A, Crystal Structure Of Proliferating Cellular Nuclear Antigen 1 And Short Peptide From Human P21 Length = 276

Iteration: 1
 Score =  489 bits (1260), Expect = e-139,   Method: Compositional matrix adjust.
 Identities = 232/256 (90%), Positives = 250/256 (97%)
Query: 1   MLELRLVQGSLLKKVLEAIKELVNDANFDCSATGFSLQAMDSSHVALVALLLRSEGFEHY 60
           MLELRLVQGSLLKKVLE+IK+LVNDANFDCS+TGFSLQAMDSSHVALV+LLLRSEGFEHY
Sbjct: 21  MLELRLVQGSLLKKVLESIKDLVNDANFDCSSTGFSLQAMDSSHVALVSLLLRSEGFEHY 80
Query: 61  RCDRNISMGMNLNNVSKMLKCAGNDDIITLKADDGSDTVTFMFESPTQDKIADFEMKLMD 120
           RCDRN+SMGMNL N+SKMLKCAGNDDIIT+KADDG DTVTFMFESPTQDKIADFEMKLMD
Sbjct: 81  RCDRNLSMGMNLGNMSKMLKCAGNDDIITIKADDGGDTVTFMFESPTQDKIADFEMKLMD 140
Query: 121 IDSEHLGIPEAEYHAIVRMPSAEFARICKDLASIGDTVVISVTKEGVKFSTRGDIGTANI 180
           IDSEHLGIP+AEYH+IVRMPS EF+RICKDL+SIGDTVVISVTKEGVKFST GDIGTANI
Sbjct: 141 IDSEHLGIPDAEYHSIVRMPSNEFSRICKDLSSIGDTVVISVTKEGVKFSTAGDIGTANI 200
Query: 181 VLRQNTTVDKPEEATIIEMHEPVSLTFALRYMNSFTRATPLSNTVTISLSSELPVVVEYK 240
           VLRQNTTVDKPE+A +IEM EPVSL+FALRYMNSFT+ATPLS+TVTISLSSELPVVVEYK
Sbjct: 201 VLRQNTTVDKPEDAIVIEMKEPVSLSFALRYMNSFTKATPLSDTVTISLSSELPVVVEYK 260
Query: 241 IAEMGYIRFYLAPKIE 256
           +AEMGYIR+YLAPKIE
Sbjct: 261 VAEMGYIRYYLAPKIE 276

>pdb|1AXC|A Chain A, Human Pcna Length = 261

Iteration: 1
 Score =  374 bits (961), Expect = e-104,   Method: Compositional matrix adjust.
 Identities = 168/259 (64%), Positives = 223/259 (86%)
Query: 1   MLELRLVQGSLLKKVLEAIKELVNDANFDCSATGFSLQAMDSSHVALVALLLRSEGFEHY 60
           M E RLVQGS+LKKVLEA+K+L+N+A +D S++G +LQ+MDSSHV+LV L LRSEGF+ Y
Sbjct: 1   MFEARLVQGSILKKVLEALKDLINEACWDISSSGVNLQSMDSSHVSLVQLTLRSEGFDTY 60
Query: 61  RCDRNISMGMNLNNVSKMLKCAGNDDIITLKADDGSDTVTFMFESPTQDKIADFEMKLMD 120
           RCDRN++MG+NL ++SK+LKCAGN+DIITL+A+D +DT+  +FE+P Q+K++D+EMKLMD
Sbjct: 61  RCDRNLAMGVNLTSMSKILKCAGNEDIITLRAEDNADTLALVFEAPNQEKVSDYEMKLMD 120
Query: 121 IDSEHLGIPEAEYHAIVRMPSAEFARICKDLASIGDTVVISVTKEGVKFSTRGDIGTANI 180
           +D E LGIPE EY  +V+MPS EFARIC+DL+ IGD VVIS  K+GVKFS  G++G  NI
Sbjct: 121 LDVEQLGIPEQEYSCVVKMPSGEFARICRDLSHIGDAVVISCAKDGVKFSASGELGNGNI 180
Query: 181 VLRQNTTVDKPEEATIIEMHEPVSLTFALRYMNSFTRATPLSNTVTISLSSELPVVVEYK 240
            L Q + VDK EEA  IEM+EPV LTFALRY+N FT+ATPLS+TVT+S+S+++P+VVEYK
Sbjct: 181 KLSQTSNVDKEEEAVTIEMNEPVQLTFALRYLNFFTKATPLSSTVTLSMSADVPLVVEYK 240
Query: 241 IAEMGYIRFYLAPKIEEDE 259
           IA+MG++++YLAPKIE++E
Sbjct: 241 IADMGHLKYYLAPKIEDEE 259

>pdb|1AXC|C Chain C, Human Pcna Length = 261

Iteration: 1
 Score =  372 bits (955), Expect = e-103,   Method: Compositional matrix adjust.
 Identities = 167/258 (64%), Positives = 222/258 (86%)
Query: 2   LELRLVQGSLLKKVLEAIKELVNDANFDCSATGFSLQAMDSSHVALVALLLRSEGFEHYR 61
            E RLVQGS+LKKVLEA+K+L+N+A +D S++G +LQ+MDSSHV+LV L LRSEGF+ YR
Sbjct: 2   FEARLVQGSILKKVLEALKDLINEACWDISSSGVNLQSMDSSHVSLVQLTLRSEGFDTYR 61
Query: 62  CDRNISMGMNLNNVSKMLKCAGNDDIITLKADDGSDTVTFMFESPTQDKIADFEMKLMDI 121
           CDRN++MG+NL ++SK+LKCAGN+DIITL+A+D +DT+  +FE+P Q+K++D+EMKLMD+
Sbjct: 62  CDRNLAMGVNLTSMSKILKCAGNEDIITLRAEDNADTLALVFEAPNQEKVSDYEMKLMDL 121
Query: 122 DSEHLGIPEAEYHAIVRMPSAEFARICKDLASIGDTVVISVTKEGVKFSTRGDIGTANIV 181
           D E LGIPE EY  +V+MPS EFARIC+DL+ IGD VVIS  K+GVKFS  G++G  NI 
Sbjct: 122 DVEQLGIPEQEYSCVVKMPSGEFARICRDLSHIGDAVVISCAKDGVKFSASGELGNGNIK 181
Query: 182 LRQNTTVDKPEEATIIEMHEPVSLTFALRYMNSFTRATPLSNTVTISLSSELPVVVEYKI 241
           L Q + VDK EEA  IEM+EPV LTFALRY+N FT+ATPLS+TVT+S+S+++P+VVEYKI
Sbjct: 182 LSQTSNVDKEEEAVTIEMNEPVQLTFALRYLNFFTKATPLSSTVTLSMSADVPLVVEYKI 241
Query: 242 AEMGYIRFYLAPKIEEDE 259
           A+MG++++YLAPKIE++E
Sbjct: 242 ADMGHLKYYLAPKIEDEE 259

>pdb|3V60|B Chain B, Structure Of S. Cerevisiae Pcna Conjugated To Sumo On Lysine 164 Length = 258

Iteration: 1
 Score =  224 bits (570), Expect = 4e-59,   Method: Compositional matrix adjust.
 Identities = 100/259 (38%), Positives = 171/259 (66%), Gaps = 1/259 (0%)
Query: 1   MLELRLVQGSLLKKVLEAIKELVNDANFDCSATGFSLQAMDSSHVALVALLLRSEGFEHY 60
           MLE +  + SL K++++  K+ V   NF C   G   QA+D S V LV+L +  E F+ Y
Sbjct: 1   MLEAKFEEASLFKRIIDGFKDCVQLVNFQCKEDGIIAQAVDDSRVLLVSLEIGVEAFQEY 60
Query: 61  RCDRNISMGMNLNNVSKMLKCAGNDDIITLKADDGSDTVTFMFESPTQDKIADFEMKLMD 120
           RCD  +++GM+L ++SK+L+C  N D +TL AD+  D++  +FE   +D+IA++ +KLMD
Sbjct: 61  RCDHPVTLGMDLTSLSKILRCGNNTDTLTLIADNTPDSIILLFEDTKKDRIAEYSLKLMD 120
Query: 121 IDSEHLGIPEAEYHAIVRMPSAEFARICKDLASIGDTVVISVTKEGVKFSTRGDIGTANI 180
           ID++ LGI E +Y + + +PS+EF++I +DL+ + D++ I +TKE +KF   GDIG+ ++
Sbjct: 121 IDADFLGIEELQYDSTLSLPSSEFSKIVRDLSQLSDSINIMITKETIKFVADGDIGSGSV 180
Query: 181 VLRQNTTVDKPEEATIIEMHEPVSLTFALRYMNSFTRATPLSNTVTISLSSELPVVVEYK 240
           +++    ++ PE +  +EM +PV LTF  +Y+    + + LS+ V I LSSE P + ++ 
Sbjct: 181 IIKPFVDMEHPETSIKLEMDQPVDLTFGAKYLLDIIKGSSLSDRVGIRLSSEAPALFQFD 240
Query: 241 IAEMGYIRFYLAPKIEEDE 259
           +   G+++F+LAPK  ++E
Sbjct: 241 LKS-GFLQFFLAPKFNDEE 258

>pdb|3F1W|A Chain A, Crystal Structure Of A Mutant Proliferating Cell Nuclear Antigen That Blocks Translesion Synthesis Length = 258

Iteration: 1
 Score =  221 bits (563), Expect = 3e-58,   Method: Compositional matrix adjust.
 Identities = 99/259 (38%), Positives = 171/259 (66%), Gaps = 1/259 (0%)
Query: 1   MLELRLVQGSLLKKVLEAIKELVNDANFDCSATGFSLQAMDSSHVALVALLLRSEGFEHY 60
           MLE +  + SL K++++  K+ V   NF C   G   QA+D S V LV+L +  E F+ Y
Sbjct: 1   MLEAKFEEASLFKRIIDGFKDCVQLVNFQCKEDGIIAQAVDDSRVLLVSLEIGVEAFQEY 60
Query: 61  RCDRNISMGMNLNNVSKMLKCAGNDDIITLKADDGSDTVTFMFESPTQDKIADFEMKLMD 120
           RCD  +++GM+L ++SK+L+C  N D +TL AD+  D++  +FE   +D+IA++ +KLMD
Sbjct: 61  RCDHPVTLGMDLTSLSKILRCGNNTDTLTLIADNTPDSIILLFEDTKKDRIAEYSLKLMD 120
Query: 121 IDSEHLGIPEAEYHAIVRMPSAEFARICKDLASIGDTVVISVTKEGVKFSTRGDIGTANI 180
           ID++ L I E +Y + + +PS+EF++I +DL+ + D++ I +TKE +KF   GDIG++++
Sbjct: 121 IDADFLKIEELQYDSTLSLPSSEFSKIVRDLSQLSDSINIMITKETIKFVADGDIGSSSV 180
Query: 181 VLRQNTTVDKPEEATIIEMHEPVSLTFALRYMNSFTRATPLSNTVTISLSSELPVVVEYK 240
           +++    ++ PE +  +EM +PV LTF  +Y+    + + LS+ V I LSSE P + ++ 
Sbjct: 181 IIKPFVDMEHPETSIKLEMDQPVDLTFGAKYLLDIIKGSSLSDRVGIRLSSEAPALFQFD 240
Query: 241 IAEMGYIRFYLAPKIEEDE 259
           +   G+++F+LAPK  ++E
Sbjct: 241 LKS-GFLQFFLAPKFNDEE 258

>pdb|2OD8|A Chain A, Structure Of A Peptide Derived From Cdc9 Bound To Pcna Length = 258

Iteration: 1
 Score =  221 bits (562), Expect = 5e-58,   Method: Compositional matrix adjust.
 Identities = 99/259 (38%), Positives = 170/259 (65%), Gaps = 1/259 (0%)
Query: 1   MLELRLVQGSLLKKVLEAIKELVNDANFDCSATGFSLQAMDSSHVALVALLLRSEGFEHY 60
           MLE +  + SL K++++  K+ V   NF C   G   QA+D S V LV+L +  E F+ Y
Sbjct: 1   MLEAKFEEASLFKRIIDGFKDCVQLVNFQCKEDGIIAQAVDDSRVLLVSLEIGVEAFQEY 60
Query: 61  RCDRNISMGMNLNNVSKMLKCAGNDDIITLKADDGSDTVTFMFESPTQDKIADFEMKLMD 120
           RCD  +++GM+L ++SK+L+C  N D +TL AD+  D++  +FE   +D+IA++ +KLMD
Sbjct: 61  RCDHPVTLGMDLTSLSKILRCGNNTDTLTLIADNTPDSIILLFEDTKKDRIAEYSLKLMD 120
Query: 121 IDSEHLGIPEAEYHAIVRMPSAEFARICKDLASIGDTVVISVTKEGVKFSTRGDIGTANI 180
           ID++ L I E +Y + + +PS+EF++I +DL+ + D++ I +TKE +KF   GDIG+ ++
Sbjct: 121 IDADFLKIEELQYDSTLSLPSSEFSKIVRDLSQLSDSINIMITKETIKFVADGDIGSGSV 180
Query: 181 VLRQNTTVDKPEEATIIEMHEPVSLTFALRYMNSFTRATPLSNTVTISLSSELPVVVEYK 240
           +++    ++ PE +  +EM +PV LTF  +Y+    + + LS+ V I LSSE P + ++ 
Sbjct: 181 IIKPFVDMEHPETSIKLEMDQPVDLTFGAKYLLDIIKGSSLSDRVGIRLSSEAPALFQFD 240
Query: 241 IAEMGYIRFYLAPKIEEDE 259
           +   G+++F+LAPK  ++E
Sbjct: 241 LKS-GFLQFFLAPKFNDEE 258

>pdb|3GPM|A Chain A, Structure Of The Trimeric Form Of The E113g Pcna Mutant Protein Length = 258

Iteration: 1
 Score =  220 bits (560), Expect = 7e-58,   Method: Compositional matrix adjust.
 Identities = 99/259 (38%), Positives = 169/259 (65%), Gaps = 1/259 (0%)
Query: 1   MLELRLVQGSLLKKVLEAIKELVNDANFDCSATGFSLQAMDSSHVALVALLLRSEGFEHY 60
           MLE +  + SL K++++  K+ V   NF C   G   QA+D S V LV+L +  E F+ Y
Sbjct: 1   MLEAKFEEASLFKRIIDGFKDCVQLVNFQCKEDGIIAQAVDDSRVLLVSLEIGVEAFQEY 60
Query: 61  RCDRNISMGMNLNNVSKMLKCAGNDDIITLKADDGSDTVTFMFESPTQDKIADFEMKLMD 120
           RCD  +++GM+L ++SK+L+C  N D +TL AD+  D++  +FE   +D+IA + +KLMD
Sbjct: 61  RCDHPVTLGMDLTSLSKILRCGNNTDTLTLIADNTPDSIILLFEDTKKDRIAGYSLKLMD 120
Query: 121 IDSEHLGIPEAEYHAIVRMPSAEFARICKDLASIGDTVVISVTKEGVKFSTRGDIGTANI 180
           ID++ L I E +Y + + +PS+EF++I +DL+ + D++ I +TKE +KF   GDIG+ ++
Sbjct: 121 IDADFLKIEELQYDSTLSLPSSEFSKIVRDLSQLSDSINIMITKETIKFVADGDIGSGSV 180
Query: 181 VLRQNTTVDKPEEATIIEMHEPVSLTFALRYMNSFTRATPLSNTVTISLSSELPVVVEYK 240
           +++    ++ PE +  +EM +PV LTF  +Y+    + + LS+ V I LSSE P + ++ 
Sbjct: 181 IIKPFVDMEHPETSIKLEMDQPVDLTFGAKYLLDIIKGSSLSDRVGIRLSSEAPALFQFD 240
Query: 241 IAEMGYIRFYLAPKIEEDE 259
           +   G+++F+LAPK  ++E
Sbjct: 241 LKS-GFLQFFLAPKFNDEE 258

>pdb|3K4X|A Chain A, Eukaryotic Sliding Clamp Pcna Bound To Dna Length = 798

Iteration: 1
 Score =  219 bits (557), Expect = 2e-57,   Method: Compositional matrix adjust.
 Identities = 98/258 (37%), Positives = 170/258 (65%), Gaps = 1/258 (0%)
Query: 1   MLELRLVQGSLLKKVLEAIKELVNDANFDCSATGFSLQAMDSSHVALVALLLRSEGFEHY 60
           MLE +  + SL K++++  K+ V   NF C   G   QA+D S V LV+L +  E F+ Y
Sbjct: 7   MLEAKFEEASLFKRIIDGFKDCVQLVNFQCKEDGIIAQAVDDSRVLLVSLEIGVEAFQEY 66
Query: 61  RCDRNISMGMNLNNVSKMLKCAGNDDIITLKADDGSDTVTFMFESPTQDKIADFEMKLMD 120
           RCD  +++GM+L ++SK+L+C  N D +TL AD+  D++  +FE   +D+IA++ +KLMD
Sbjct: 67  RCDHPVTLGMDLTSLSKILRCGNNTDTLTLIADNTPDSIILLFEDTKKDRIAEYSLKLMD 126
Query: 121 IDSEHLGIPEAEYHAIVRMPSAEFARICKDLASIGDTVVISVTKEGVKFSTRGDIGTANI 180
           ID++ L I E +Y + + +PS+EF++I +DL+ + D++ I +TKE +KF   GDIG+ ++
Sbjct: 127 IDADFLKIEELQYDSTLSLPSSEFSKIVRDLSQLSDSINIMITKETIKFVADGDIGSGSV 186
Query: 181 VLRQNTTVDKPEEATIIEMHEPVSLTFALRYMNSFTRATPLSNTVTISLSSELPVVVEYK 240
           +++    ++ PE +  +EM +PV LTF  +Y+    + + LS+ V I LSSE P + ++ 
Sbjct: 187 IIKPFVDMEHPETSIKLEMDQPVDLTFGAKYLLDIIKGSSLSDRVGIRLSSEAPALFQFD 246
Query: 241 IAEMGYIRFYLAPKIEED 258
           + + G+++F+LAPK  ++
Sbjct: 247 L-KSGFLQFFLAPKFNDE 263

>pdb|1SXJ|F Chain F, Crystal Structure Of The Eukaryotic Clamp Loader (Replication Factor C, Rfc) Bound To The Dna Sliding Clamp (Proliferating Cell Nuclear Antigen, Pcna) Length = 283

Iteration: 1
 Score =  211 bits (536), Expect = 4e-55,   Method: Compositional matrix adjust.
 Identities = 95/258 (36%), Positives = 166/258 (64%), Gaps = 1/258 (0%)
Query: 2   LELRLVQGSLLKKVLEAIKELVNDANFDCSATGFSLQAMDSSHVALVALLLRSEGFEHYR 61
           LE +  + SL K++++  K+ V   NF C   G   QA+D S V LV+L +  E F+ YR
Sbjct: 27  LEAKFEEASLFKRIIDGFKDCVQLVNFQCKEDGIIAQAVDDSRVLLVSLEIGVEAFQEYR 86
Query: 62  CDRNISMGMNLNNVSKMLKCAGNDDIITLKADDGSDTVTFMFESPTQDKIADFEMKLMDI 121
           CD  +++G +L ++SK+L+C  N D +TL AD+  D++  +FE   +D+IA++ +KL DI
Sbjct: 87  CDHPVTLGXDLTSLSKILRCGNNTDTLTLIADNTPDSIILLFEDTKKDRIAEYSLKLXDI 146
Query: 122 DSEHLGIPEAEYHAIVRMPSAEFARICKDLASIGDTVVISVTKEGVKFSTRGDIGTANIV 181
           D++ L I E +Y + + +PS+EF++I +DL+ + D++ I +TKE +KF   GDIG+ +++
Sbjct: 147 DADFLKIEELQYDSTLSLPSSEFSKIVRDLSQLSDSINIXITKETIKFVADGDIGSGSVI 206
Query: 182 LRQNTTVDKPEEATIIEMHEPVSLTFALRYMNSFTRATPLSNTVTISLSSELPVVVEYKI 241
           ++     + PE +  +E  +PV LTF  +Y+    + + LS+ V I LSSE P + ++ +
Sbjct: 207 IKPFVDXEHPETSIKLEXDQPVDLTFGAKYLLDIIKGSSLSDRVGIRLSSEAPALFQFDL 266
Query: 242 AEMGYIRFYLAPKIEEDE 259
            + G+++F+LAPK  ++E
Sbjct: 267 -KSGFLQFFLAPKFNDEE 283

>pdb|3P91|A Chain A, Crystal Structure Of Proliferating Cellular Nuclear Antigen From Entamoeba Histolytica Length = 265

Iteration: 1
 Score =  174 bits (442), Expect = 4e-44,   Method: Compositional matrix adjust.
 Identities = 97/265 (36%), Positives = 166/265 (62%), Gaps = 14/265 (5%)
Query: 5   RLVQGSLLKKVLEAIKELVNDANFDCSATGFSLQAMDSSHVALVALLLRSEGFEHYRCDR 64
           +  + +L K+V+E++K  ++  NFDCS  G ++Q MD+SHV+LV+LL+ ++ F+ ++C +
Sbjct: 10  KFKEAALFKRVVESLKSTIDKTNFDCSDAGIAVQCMDNSHVSLVSLLIETDAFDEFQCLK 69
Query: 65  NISMGMNLNNVSKMLKCAGNDDIITL---KADDGSDTVTFMFESPTQDKIADFEMKLMDI 121
            I++G+NL ++SK+LK   ND  + L   K DD   ++T    S   +K   F + L+DI
Sbjct: 70  PITLGINLTHLSKILKALDNDCGLILDVKKVDDAVLSIT----SEGTNKTMKFGLNLVDI 125
Query: 122 DSEHLGIPEAEYHAIVRMPSAEFARICKDLASIG-DTVVISVTKEGVKFSTRGDIGTANI 180
           ++E + IPE +  AI+ + SAEF +I KD +++G D++ I  TK  V  +T+G +    +
Sbjct: 126 EAESVEIPELQSDAIITLSSAEFLKITKDFSALGDDSITIGCTKNEVTLTTKGAMCETCM 185
Query: 181 VLRQNTTVDKPEEATIIEMHEPVSLTFALRYMNSFTRATPLSNTVTISLSSELPVVVEYK 240
            L     VD       IE ++ V+ +FAL+ ++ F ++ PL++ V +SLS + P+++E+K
Sbjct: 186 TLSALENVDS--NGLQIEHNKDVTASFALKQISEFAKSAPLADNVKLSLSGQAPLIMEFK 243
Query: 241 IAEMGYIRFYLAPKIEEDEDETKPQ 265
             E   ++FYLAPK +E EDE  PQ
Sbjct: 244 -GEACVLKFYLAPKFDE-EDE--PQ 264

>pdb|3L0W|A Chain A, Structure Of Split Monoubiquitinated Pcna With Ubiquitin In Position Two Length = 169

Iteration: 1
 Score =  147 bits (370), Expect = 8e-36,   Method: Compositional matrix adjust.
 Identities = 65/163 (39%), Positives = 109/163 (66%)
Query: 1   MLELRLVQGSLLKKVLEAIKELVNDANFDCSATGFSLQAMDSSHVALVALLLRSEGFEHY 60
           MLE +  + SL K++++  K+ V   NF C   G   QA+D S V LV+L +  E F+ Y
Sbjct: 7   MLEAKFEEASLFKRIIDGFKDCVQLVNFQCKEDGIIAQAVDDSRVLLVSLEIGVEAFQEY 66
Query: 61  RCDRNISMGMNLNNVSKMLKCAGNDDIITLKADDGSDTVTFMFESPTQDKIADFEMKLMD 120
           RCD  +++GM+L ++SK+L+C  N D +TL AD+  D++  +FE   +D+IA++ +KLMD
Sbjct: 67  RCDHPVTLGMDLTSLSKILRCGNNTDTLTLIADNTPDSIILLFEDTKKDRIAEYSLKLMD 126
Query: 121 IDSEHLGIPEAEYHAIVRMPSAEFARICKDLASIGDTVVISVT 163
           ID++ L I E +Y + + +PS+EF++I +DL+ + D++ I +T
Sbjct: 127 IDADFLKIEELQYDSTLSLPSSEFSKIVRDLSQLSDSINIMIT 169

>pdb|3PGE|B Chain B, Structure Of Sumoylated Pcna Length = 171

Iteration: 1
 Score =  146 bits (369), Expect = 1e-35,   Method: Compositional matrix adjust.
 Identities = 65/163 (39%), Positives = 109/163 (66%)
Query: 1   MLELRLVQGSLLKKVLEAIKELVNDANFDCSATGFSLQAMDSSHVALVALLLRSEGFEHY 60
           MLE +  + SL K++++  K+ V   NF C   G   QA+D S V LV+L +  E F+ Y
Sbjct: 9   MLEAKFEEASLFKRIIDGFKDCVQLVNFQCKEDGIIAQAVDDSRVLLVSLEIGVEAFQEY 68
Query: 61  RCDRNISMGMNLNNVSKMLKCAGNDDIITLKADDGSDTVTFMFESPTQDKIADFEMKLMD 120
           RCD  +++GM+L ++SK+L+C  N D +TL AD+  D++  +FE   +D+IA++ +KLMD
Sbjct: 69  RCDHPVTLGMDLTSLSKILRCGNNTDTLTLIADNTPDSIILLFEDTKKDRIAEYSLKLMD 128
Query: 121 IDSEHLGIPEAEYHAIVRMPSAEFARICKDLASIGDTVVISVT 163
           ID++ L I E +Y + + +PS+EF++I +DL+ + D++ I +T
Sbjct: 129 IDADFLKIEELQYDSTLSLPSSEFSKIVRDLSQLSDSINIMIT 171

>pdb|2NTI|E Chain E, Crystal Structure Of Pcna123 Heterotrimer. Length = 246

Iteration: 1
 Score = 84.0 bits (206), Expect = 7e-17,   Method: Compositional matrix adjust.
 Identities = 58/256 (22%), Positives = 124/256 (48%), Gaps = 14/256 (5%)
Query: 1   MLELRLVQGSLLKKVLEAIKELVNDANFDCSATGFSLQAMDSSHVALVALLLRSEGFEHY 60
           M++ +++       +L  + + +++ANF  +  G  +  +D S V  + + L S  FE +
Sbjct: 1   MMKAKVIDAVSFSYILRTVGDFLSEANFIVTKEGIRVSGIDPSRVVFLDIFLPSSYFEGF 60
Query: 61  RCDRNISM-GMNLNNVSKMLKCAGNDDIITLKADDGSDTVTFMFESPTQDKIADFEMKLM 119
              +   + G  L +V+ +LK    DD + L +++   T+TF  E         FE+ L+
Sbjct: 61  EVSQEKEIIGFKLEDVNDILKRVLKDDTLILSSNESKLTLTFDGEFTRS-----FELPLI 115
Query: 120 DIDSEHLGIPEAEYHAIVRMPSAEFARICKDLASIGDTVVISVTKEGVKFSTRGDIGTAN 179
            ++S        E+    ++ +  FA I  +L+ +G+ + I   +  + F   GD+ TA 
Sbjct: 116 QVESTQPPSVNLEFPFKAQLLTITFADIIDELSDLGEVLNIHSKENKLYFEVIGDLSTAK 175
Query: 180 IVLRQNTTVDKPEEATIIEMHEP-VSLTFALRYMNSFTRATPLSNTVTISLSSELPVVVE 238
           + L  +         T++E     VS ++ + Y+ + T+    S+++ +   S++P+ + 
Sbjct: 176 VELSTDN-------GTLLEASGADVSSSYGMEYVANTTKMRRASDSMELYFGSQIPLKLR 228
Query: 239 YKIAEMGYIRFYLAPK 254
           +K+ + GY  FY+AP+
Sbjct: 229 FKLPQEGYGDFYIAPR 244

>pdb|3FDS|D Chain D, Structural Insight Into Recruitment Of Translesion Dna Polymerase Dpo4 To Sliding Clamp Pcna Length = 245

Iteration: 1
 Score = 84.0 bits (206), Expect = 8e-17,   Method: Compositional matrix adjust.
 Identities = 57/256 (22%), Positives = 124/256 (48%), Gaps = 14/256 (5%)
Query: 1   MLELRLVQGSLLKKVLEAIKELVNDANFDCSATGFSLQAMDSSHVALVALLLRSEGFEHY 60
           M++ +++       +L  + + +++ANF  +  G  +  +D S V  + + L S  FE +
Sbjct: 1   MMKAKVIDAVSFSYILRTVGDFLSEANFIVTKEGIRVSGIDPSRVVFLDIFLPSSYFEGF 60
Query: 61  RCDRNISM-GMNLNNVSKMLKCAGNDDIITLKADDGSDTVTFMFESPTQDKIADFEMKLM 119
              +   + G  L +V+ +LK    DD + L +++   T+TF       +    FE+ L+
Sbjct: 61  EVSQEKEIIGFKLEDVNDILKRVLKDDTLILSSNESKLTLTF-----DGEFTRSFELPLI 115
Query: 120 DIDSEHLGIPEAEYHAIVRMPSAEFARICKDLASIGDTVVISVTKEGVKFSTRGDIGTAN 179
            ++S        E+    ++ +  FA I  +L+ +G+ + I   +  + F   GD+ TA 
Sbjct: 116 QVESTQPPSVNLEFPFKAQLLTITFADIIDELSDLGEVLNIHSKENKLYFEVIGDLSTAK 175
Query: 180 IVLRQNTTVDKPEEATIIEMHEP-VSLTFALRYMNSFTRATPLSNTVTISLSSELPVVVE 238
           + L  +         T++E     VS ++ + Y+ + T+    S+++ +   S++P+ + 
Sbjct: 176 VELSTDN-------GTLLEASGADVSSSYGMEYVANTTKMRRASDSMELYFGSQIPLKLR 228
Query: 239 YKIAEMGYIRFYLAPK 254
           +K+ + GY  FY+AP+
Sbjct: 229 FKLPQEGYGDFYIAPR 244

>pdb|2IZO|B Chain B, Structure Of An Archaeal Pcna1-Pcna2-Fen1 Complex Length = 246

Iteration: 1
 Score = 83.6 bits (205), Expect = 1e-16,   Method: Compositional matrix adjust.
 Identities = 58/256 (22%), Positives = 124/256 (48%), Gaps = 14/256 (5%)
Query: 1   MLELRLVQGSLLKKVLEAIKELVNDANFDCSATGFSLQAMDSSHVALVALLLRSEGFEHY 60
           M++ +++       +L  + + +++ANF  +  G  +  +D S V  + + L S  FE +
Sbjct: 1   MMKAKVIDAVSFSYILRTVGDFLSEANFIVTKEGIRVSGIDPSRVVFLDIFLPSSYFEGF 60
Query: 61  RCDRNISM-GMNLNNVSKMLKCAGNDDIITLKADDGSDTVTFMFESPTQDKIADFEMKLM 119
              +   + G  L +V+ +LK    DD + L +++   T+TF  E         FE+ L+
Sbjct: 61  EVSQEKEIIGFKLEDVNDILKRVLKDDTLILSSNESKLTLTFDGEFTRS-----FELPLI 115
Query: 120 DIDSEHLGIPEAEYHAIVRMPSAEFARICKDLASIGDTVVISVTKEGVKFSTRGDIGTAN 179
            ++S        E+    ++ +  FA I  +L+ +G+ + I   +  + F   GD+ TA 
Sbjct: 116 QVESTSPPSVNLEFPFKAQLLTITFADIIDELSDLGEVLNIHSKENKLYFEVIGDLSTAK 175
Query: 180 IVLRQNTTVDKPEEATIIEMHEP-VSLTFALRYMNSFTRATPLSNTVTISLSSELPVVVE 238
           + L  +         T++E     VS ++ + Y+ + T+    S+++ +   S++P+ + 
Sbjct: 176 VELSTDN-------GTLLEASGADVSSSYGMEYVANTTKMRRASDSMELYFGSQIPLKLR 228
Query: 239 YKIAEMGYIRFYLAPK 254
           +K+ + GY  FY+AP+
Sbjct: 229 FKLPQEGYGDFYIAPR 244

>pdb|3IFV|A Chain A, Crystal Structure Of The Haloferax Volcanii Proliferating Cell Nuclear Antigen Length = 247

Iteration: 1
 Score = 82.8 bits (203), Expect = 2e-16,   Method: Compositional matrix adjust.
 Identities = 67/258 (25%), Positives = 120/258 (46%), Gaps = 20/258 (7%)
Query: 6   LVQGSLLKKVLEAIKELVNDANFDCSATGFSLQAMDSSHVALVALLLRSEGFEHYRCDRN 65
           +V  + L+  L+++  LV++     +    S++A+D ++V +V L L +  FE Y     
Sbjct: 5   IVSAATLRDALDSVSVLVDECKIRLNEESLSIRAVDPANVGMVDLTLDAAAFESYEAHGG 64
Query: 66  ISMGMNLNNVSKMLKCAGNDDIITLKADDGSDTVTFMFESPTQDKIADFEMKLMDIDS-- 123
           + +G+NL+ + ++   AG  D+I L  D+ +  +    +  +      + + L+D DS  
Sbjct: 65  V-IGVNLSRLEEVAGMAGAGDLIHLTLDEETRKLNIRIDGLS------YTLALIDPDSIR 117
Query: 124 EHLGIPEAEYHAIVRMPSAEFARICKDLASIGDTVVISV--TKEGVKFSTRGDIGTANIV 181
           +   IP+ +  A + +      R  K    + D + + V   +E       GD    ++ 
Sbjct: 118 QEPDIPDLDLAANIVLEGTHLDRGIKAADMVSDHIRLRVDGAEETFHIEAEGDTDDVDLS 177
Query: 182 LRQNTTVDKPEEATIIEMHEPVSLTFALRYMNSFTRATPLSNTVTISLSSELPVVVEYKI 241
           L        P +   IE     SL F+L Y+    +A P    VT+ L  E PV + Y+I
Sbjct: 178 L-------PPADLISIEAGAADSL-FSLDYLKDMNKAIPTDAEVTVELGEEFPVKLHYQI 229
Query: 242 AE-MGYIRFYLAPKIEED 258
           AE MG I + LAP+I+ D
Sbjct: 230 AEGMGTITYMLAPRIQSD 247

>pdb|2IX2|B Chain B, Crystal Structure Of The Heterotrimeric Pcna From Sulfolobus Solfataricus Length = 245

Iteration: 1
 Score = 82.4 bits (202), Expect = 3e-16,   Method: Compositional matrix adjust.
 Identities = 57/242 (23%), Positives = 118/242 (48%), Gaps = 14/242 (5%)
Query: 15  VLEAIKELVNDANFDCSATGFSLQAMDSSHVALVALLLRSEGFEHYRCDRNISM-GMNLN 73
           +L  + + +++ANF  +  G  +  +D S V  + + L S  FE +   +   + G  L 
Sbjct: 14  ILRTVGDFLSEANFIVTKEGIRVSGIDPSRVVFLDIFLPSSYFEGFEVSQEKEIIGFKLE 73
Query: 74  NVSKMLKCAGNDDIITLKADDGSDTVTFMFESPTQDKIADFEMKLMDIDSEHLGIPEAEY 133
           +V+ +LK    DD + L +++   T+TF  E         FE+ L+ ++S        E+
Sbjct: 74  DVNDILKRVLKDDTLILSSNESKLTLTFDGEFTRS-----FELPLIQVESTQPPSVNLEF 128
Query: 134 HAIVRMPSAEFARICKDLASIGDTVVISVTKEGVKFSTRGDIGTANIVLRQNTTVDKPEE 193
               ++ +  FA I  +L+ +G+ + I   +  + F   GD+ TA + L  +        
Sbjct: 129 PFKAQLLTITFADIIDELSDLGEVLNIHSKENKLYFEVIGDLSTAKVELSTDN------- 181
Query: 194 ATIIEMHEP-VSLTFALRYMNSFTRATPLSNTVTISLSSELPVVVEYKIAEMGYIRFYLA 252
            T++E     VS ++ + Y+ + T+    S+++ +   S++P+ + +K+ + GY  FY+A
Sbjct: 182 GTLLEASGADVSSSYGMEYVANTTKMRRASDSMELYFGSQIPLKLRFKLPQEGYGDFYIA 241
Query: 253 PK 254
           P+
Sbjct: 242 PR 243

>pdb|1IZ4|A Chain A, Pyrococcus Furiosus Pcna Mutant (Met73leuASP143ALA): Tetragonal Form Length = 249

Iteration: 1
 Score = 82.0 bits (201), Expect = 3e-16,   Method: Compositional matrix adjust.
 Identities = 59/246 (23%), Positives = 114/246 (46%), Gaps = 13/246 (5%)
Query: 14  KVLEAIKELVNDANFDCSATGFSLQAMDSSHVALVALLLRSEGFEHYRCDRNISMGMNLN 73
           ++++   +L+++A F  +  G S++AMD S V L+ L L S  F  Y      ++G+NL+
Sbjct: 15  QLIDTASKLIDEAAFKVTEDGISMRAMDPSRVVLIDLNLPSSIFSKYEVVEPETIGVNLD 74
Query: 74  NVSKMLKCAGNDDIITLKADDGSDTVTFMFESPTQDKIADFEMKLMDIDSEHLGIPEAEY 133
           ++ K+LK     D + LK  + +    F+  +        F + L+D++   + +PE  +
Sbjct: 75  HLKKILKRGKAKDTLILKKGEEN----FLEITIQGTATRTFRVPLIDVEEMEVDLPELPF 130
Query: 134 HAIVRMPSAEFARICKDLASIGDTVVISVTKEGVKFSTRGDIGTANI--VLRQNTTVDKP 191
            A V +         KD + + D++     +        G+     I   L     +D  
Sbjct: 131 TAKVVVLGEVLKAAVKDASLVSDSIKFIARENEFIMKAEGETQEVEIKLTLEDEGLLD-- 188
Query: 192 EEATIIEMHEPVSLTFALRYMNSFTRATPLSNTVTISLSSELPVVVEYKIAEMGYIRFYL 251
                IE+ E     + + Y++   +    ++ VTI   +E+P+ +EY I + G + F L
Sbjct: 189 -----IEVQEETKSAYGVSYLSDMVKGLGKADEVTIKFGNEMPMQMEYYIRDEGRLTFLL 243
Query: 252 APKIEE 257
           AP++EE
Sbjct: 244 APRVEE 249

>pdb|1GE8|A Chain A, Proliferating Cell Nuclear Antigen (Pcna) Homolog From Pyrococcus Furiosus Length = 249

Iteration: 1
 Score = 82.0 bits (201), Expect = 3e-16,   Method: Compositional matrix adjust.
 Identities = 59/246 (23%), Positives = 114/246 (46%), Gaps = 13/246 (5%)
Query: 14  KVLEAIKELVNDANFDCSATGFSLQAMDSSHVALVALLLRSEGFEHYRCDRNISMGMNLN 73
           ++++   +L+++A F  +  G S++AMD S V L+ L L S  F  Y      ++G+NL+
Sbjct: 15  QLIDTASKLIDEAAFKVTEDGISMRAMDPSRVVLIDLNLPSSIFSKYEVVEPETIGVNLD 74
Query: 74  NVSKMLKCAGNDDIITLKADDGSDTVTFMFESPTQDKIADFEMKLMDIDSEHLGIPEAEY 133
           ++ K+LK     D + LK  + +    F+  +        F + L+D++   + +PE  +
Sbjct: 75  HLKKILKRGKAKDTLILKKGEEN----FLEITIQGTATRTFRVPLIDVEEMEVDLPELPF 130
Query: 134 HAIVRMPSAEFARICKDLASIGDTVVISVTKEGVKFSTRGDIGTANI--VLRQNTTVDKP 191
            A V +         KD + + D++     +        G+     I   L     +D  
Sbjct: 131 TAKVVVLGEVLKDAVKDASLVSDSIKFIARENEFIMKAEGETQEVEIKLTLEDEGLLD-- 188
Query: 192 EEATIIEMHEPVSLTFALRYMNSFTRATPLSNTVTISLSSELPVVVEYKIAEMGYIRFYL 251
                IE+ E     + + Y++   +    ++ VTI   +E+P+ +EY I + G + F L
Sbjct: 189 -----IEVQEETKSAYGVSYLSDMVKGLGKADEVTIKFGNEMPMQMEYYIRDEGRLTFLL 243
Query: 252 APKIEE 257
           AP++EE
Sbjct: 244 APRVEE 249

>pdb|2HII|B Chain B, Heterotrimeric Pcna Sliding Clamp Length = 245

Iteration: 1
 Score = 80.9 bits (198), Expect = 7e-16,   Method: Compositional matrix adjust.
 Identities = 57/242 (23%), Positives = 116/242 (47%), Gaps = 14/242 (5%)
Query: 15  VLEAIKELVNDANFDCSATGFSLQAMDSSHVALVALLLRSEGFEHYRCDRNISM-GMNLN 73
           +L  + + +++ANF  +  G  +  +D S V  + + L S  FE +   +   + G  L 
Sbjct: 14  ILRTVGDFLSEANFIVTKEGIRVSGIDPSRVVFLDIFLPSSYFEGFEVSQEKEIIGFKLE 73
Query: 74  NVSKMLKCAGNDDIITLKADDGSDTVTFMFESPTQDKIADFEMKLMDIDSEHLGIPEAEY 133
           +V+ +LK    DD + L +++   T+TF  E         FE+ L+ ++S        E+
Sbjct: 74  DVNDILKRVLKDDTLILSSNESKLTLTFDGEFTRS-----FELPLIQVESTQPPSVNLEF 128
Query: 134 HAIVRMPSAEFARICKDLASIGDTVVISVTKEGVKFSTRGDIGTANIVLRQNTTVDKPEE 193
               ++ +  FA I  +L+ +G+ + I   +  + F   GD+ TA + L  +        
Sbjct: 129 PFKAQLLTITFADIIDELSDLGEVLNIHSKENKLYFEVIGDLSTAKVELSTDN------- 181
Query: 194 ATIIEMHEP-VSLTFALRYMNSFTRATPLSNTVTISLSSELPVVVEYKIAEMGYIRFYLA 252
            T++E     VS ++   Y+ + T+    S++  +   S++P+ + +K+ + GY  FY+A
Sbjct: 182 GTLLEASGADVSSSYGXEYVANTTKXRRASDSXELYFGSQIPLKLRFKLPQEGYGDFYIA 241
Query: 253 PK 254
           P+
Sbjct: 242 PR 243

>pdb|1RWZ|A Chain A, Crystal Structure Of Proliferating Cell Nuclear Antigen (Pcna) From A. Fulgidus Length = 245

Iteration: 1
 Score = 80.5 bits (197), Expect = 9e-16,   Method: Compositional matrix adjust.
 Identities = 68/260 (26%), Positives = 120/260 (46%), Gaps = 26/260 (10%)
Query: 6   LVQGSLLKKVLEAIKELVNDANFDCSATGFSLQAMDSSHVALVALLLRSEGFEHYRCDRN 65
           ++ G LLK V  AI  LV++A       G   +A+D ++VA+V + +  + FE Y  D  
Sbjct: 5   IMTGELLKTVTRAIVALVSEARIHFLEKGLHSRAVDPANVAMVIVDIPKDSFEVYNIDEE 64
Query: 66  ISMGMNLNNVSKMLKCAGNDDIITLKADDGSDTVTFMFESPTQDKIADFEMKLMDIDSEH 125
            ++G++++ +  + K     D++ L  +D         ES  + K    E K+  ID   
Sbjct: 65  KTIGVDMDRIFDISKSISTKDLVELIVED---------ESTLKVKFGSVEYKVALIDPSA 115
Query: 126 L----GIPEAEYHAIVRMPSAEFARICKDLASIGDTVVISVTKEGVKFSTRGDIGTANIV 181
           +     IPE E  A + M + EF +       I D V+    KEG +   +GD+ +  IV
Sbjct: 116 IRKEPRIPELELPAKIVMDAGEFKKAIAAADKISDQVIFRSDKEGFRIEAKGDVDS--IV 173
Query: 182 LRQNTTVDKPEEATIIEMH--EPVSLTFALRYMNSFTRATPLSNTVTISLSSELPVVVEY 239
                      E  +IE +  E  S+ F++ Y+  F +     + +TI L +  PV + +
Sbjct: 174 FHMT-------ETELIEFNGGEARSM-FSVDYLKEFCKVAGSGDLLTIHLGTNYPVRLVF 225
Query: 240 K-IAEMGYIRFYLAPKIEED 258
           + +     + + LAP+IE +
Sbjct: 226 ELVGGRAKVEYILAPRIESE 245

>pdb|1IZ5|A Chain A, Pyrococcus Furiosus Pcna Mutant (Met73leu, Asp143ala, Asp147ala): Orthorhombic Form Length = 249

Iteration: 1
 Score = 79.0 bits (193), Expect = 3e-15,   Method: Compositional matrix adjust.
 Identities = 58/246 (23%), Positives = 113/246 (45%), Gaps = 13/246 (5%)
Query: 14  KVLEAIKELVNDANFDCSATGFSLQAMDSSHVALVALLLRSEGFEHYRCDRNISMGMNLN 73
           ++++   +L+++A F  +  G S++AMD S V L+ L L S  F  Y      ++G+NL+
Sbjct: 15  QLIDTASKLIDEAAFKVTEDGISMRAMDPSRVVLIDLNLPSSIFSKYEVVEPETIGVNLD 74
Query: 74  NVSKMLKCAGNDDIITLKADDGSDTVTFMFESPTQDKIADFEMKLMDIDSEHLGIPEAEY 133
           ++ K+LK     D + LK  + +    F+  +        F + L+D++   + +PE  +
Sbjct: 75  HLKKILKRGKAKDTLILKKGEEN----FLEITIQGTATRTFRVPLIDVEEMEVDLPELPF 130
Query: 134 HAIVRMPSAEFARICKDLASIGDTVVISVTKEGVKFSTRGDIGTANI--VLRQNTTVDKP 191
            A V +         K  + + D++     +        G+     I   L     +D  
Sbjct: 131 TAKVVVLGEVLKAAVKAASLVSDSIKFIARENEFIMKAEGETQEVEIKLTLEDEGLLD-- 188
Query: 192 EEATIIEMHEPVSLTFALRYMNSFTRATPLSNTVTISLSSELPVVVEYKIAEMGYIRFYL 251
                IE+ E     + + Y++   +    ++ VTI   +E+P+ +EY I + G + F L
Sbjct: 189 -----IEVQEETKSAYGVSYLSDMVKGLGKADEVTIKFGNEMPMQMEYYIRDEGRLTFLL 243
Query: 252 APKIEE 257
           AP++EE
Sbjct: 244 APRVEE 249

>pdb|1UD9|A Chain A, Crystal Structure Of Proliferating Cell Nuclear Antigen (Pcna) Homolog From Sulfolobus Tokodaii Length = 245

Iteration: 1
 Score = 77.8 bits (190), Expect = 6e-15,   Method: Compositional matrix adjust.
 Identities = 60/246 (24%), Positives = 117/246 (47%), Gaps = 14/246 (5%)
Query: 12  LKKVLEAIKELVNDANFDCSATGFSLQAMDSSHVALVALLLRSEGFEHYRCDRNISMGMN 71
           LK +++A+ +LV++A FD    G  L A+D +H++L+ + L  E F+ Y        G N
Sbjct: 11  LKAIIQALLKLVDEALFDIKPEGIQLVAIDKAHISLIKIELPKEMFKEYDVPEEFKFGFN 70
Query: 72  LNNVSKMLKCAGNDDIITLKADDGSDTVTFMFESPTQDKIADFEMKLMDIDSEHLGIPEA 131
              +SK+LK A   + I + AD  S  V  +  S   +++      + +I+     +PE 
Sbjct: 71  TQYMSKLLKAAKRKEEIIIDAD--SPEVVKLTLSGALNRV----FNVNNIEVLPPEVPEV 124
Query: 132 --EYHAIVRMPSAEFARICKDLASIGDTVVISVTKEGVKFSTRGDIGTANIVLRQNTTVD 189
             E+     + ++       ++A + DT++IS  +E V     G+     +   ++T   
Sbjct: 125 NLEFDIKATINASGLKNAIGEIAEVADTLLISGNEEKVVVKGEGE-NKVEVEFSKDTG-- 181
Query: 190 KPEEATIIEMHEPVSLTFALRYMNSFTRATPLSNTVTISLSSELPVVVEYKIAEMGYIRF 249
                  IE ++  S  + + Y+N     T LS+ V ++ + + P+ +E+ +   G + +
Sbjct: 182 ---SLADIEFNKESSSAYDVEYLNDIISLTKLSDYVKVAFADQKPMQLEFNMEGGGKVTY 238
Query: 250 YLAPKI 255
            LAPK+
Sbjct: 239 LLAPKL 244

>pdb|3LX1|A Chain A, Crystal Structure Analysis Of Pcna1 From Thermococcus Kodakaraensis Tk0535 Length = 255

Iteration: 1
 Score = 76.3 bits (186), Expect = 2e-14,   Method: Compositional matrix adjust.
 Identities = 59/236 (25%), Positives = 114/236 (48%), Gaps = 9/236 (3%)
Query: 22  LVNDANFDCSATGFSLQAMDSSHVALVALLLRSEGFEHYRCDRNISMGMNLNNVSKMLKC 81
           L+++A F  +  G S++AMD S V L+ L L    F  Y  +   ++G+N++   K+LK 
Sbjct: 23  LIDEAAFKFTEEGISMRAMDPSRVVLIDLNLPESIFSKYEVEEPETIGINMDQFKKILKR 82
Query: 82  AGNDDIITLKADDGSDTVTFMFESPTQDKIADFEMKLMDIDSEHLGIPEAEYHAIVRMPS 141
               D + L+  D  + +   FE   +     F + L+D++   L +PE  + A V +  
Sbjct: 83  GKAKDTLILRKGD-ENFLEITFEGTAK---RTFRLPLIDVEELELELPELPFTAKVVLLG 138
Query: 142 AEFARICKDLASIGDTVVISVTKEGVKFSTRGDIGTANIVLRQNTTVDKPEEATIIEMHE 201
                  KD + + D +   + KE  +F+ + +  T  + +R      + E    +E+ E
Sbjct: 139 EVLKEGIKDASLVSDAIKF-IAKEN-EFTMKAEGETNEVEIRLTL---EDEGLLDLEVEE 193
Query: 202 PVSLTFALRYMNSFTRATPLSNTVTISLSSELPVVVEYKIAEMGYIRFYLAPKIEE 257
                + +RY++   +    ++ V +   +E+P+ +EY I + G + F LAP++EE
Sbjct: 194 ETKSAYGIRYLSDMVKGIGKADEVILRFGNEMPLQMEYMIRDEGRLTFLLAPRVEE 249

>pdb|3L0X|B Chain B, Structure Of Split Yeast Pcna Length = 94

Iteration: 1
 Score = 76.3 bits (186), Expect = 2e-14,   Method: Compositional matrix adjust.
 Identities = 33/95 (34%), Positives = 61/95 (64%), Gaps = 1/95 (1%)
Query: 165 EGVKFSTRGDIGTANIVLRQNTTVDKPEEATIIEMHEPVSLTFALRYMNSFTRATPLSNT 224
           E +KF   GDIG+ +++++    ++ PE +  +EM +PV LTF  +Y+    + + LS+ 
Sbjct: 1   ETIKFVADGDIGSGSVIIKPFVDMEHPETSIKLEMDQPVDLTFGAKYLLDIIKGSSLSDR 60
Query: 225 VTISLSSELPVVVEYKIAEMGYIRFYLAPKIEEDE 259
           V I LSSE P + ++ + + G+++F+LAPK  ++E
Sbjct: 61  VGIRLSSEAPALFQFDL-KSGFLQFFLAPKFNDEE 94

>pdb|3PGE|A Chain A, Structure Of Sumoylated Pcna Length = 200

Iteration: 1
 Score = 75.5 bits (184), Expect = 3e-14,   Method: Compositional matrix adjust.
 Identities = 33/95 (34%), Positives = 61/95 (64%), Gaps = 1/95 (1%)
Query: 165 EGVKFSTRGDIGTANIVLRQNTTVDKPEEATIIEMHEPVSLTFALRYMNSFTRATPLSNT 224
           E +KF   GDIG+ +++++    ++ PE +  +EM +PV LTF  +Y+    + + LS+ 
Sbjct: 107 ETIKFVADGDIGSGSVIIKPFVDMEHPETSIKLEMDQPVDLTFGAKYLLDIIKGSSLSDR 166
Query: 225 VTISLSSELPVVVEYKIAEMGYIRFYLAPKIEEDE 259
           V I LSSE P + ++ + + G+++F+LAPK  ++E
Sbjct: 167 VGIRLSSEAPALFQFDL-KSGFLQFFLAPKFNDEE 200

>pdb|3L0W|B Chain B, Structure Of Split Monoubiquitinated Pcna With Ubiquitin In Position Two Length = 169

Iteration: 1
 Score = 74.3 bits (181), Expect = 6e-14,   Method: Compositional matrix adjust.
 Identities = 46/162 (28%), Positives = 82/162 (50%), Gaps = 11/162 (6%)
Query: 100 TFMFESPTQDKIADFEMKLMDIDSEHLGIPEAEYHAIVRMPSAEFARICKDLASIGDTVV 159
           T   E  + D I + + K+ D +    GIP  +   I      E  R   D     ++ +
Sbjct: 12  TITLEVESSDTIDNVKSKIQDKE----GIPPDQQRLIFAGKQLEDGRTLSDYNIQKESTL 67
Query: 160 ISVTK------EGVKFSTRGDIGTANIVLRQNTTVDKPEEATIIEMHEPVSLTFALRYMN 213
             V +      E +KF   GDIG+ +++++    ++ PE +  +EM +PV LTF  +Y+ 
Sbjct: 68  HLVLRLRGGGGETIKFVADGDIGSGSVIIKPFVDMEHPETSIKLEMDQPVDLTFGAKYLL 127
Query: 214 SFTRATPLSNTVTISLSSELPVVVEYKIAEMGYIRFYLAPKI 255
              + + LS+ V I LSSE P + ++ + + G+++F+LAPK 
Sbjct: 128 DIIKGSSLSDRVGIRLSSEAPALFQFDL-KSGFLQFFLAPKF 168

>pdb|3AIX|A Chain A, Crystal Structure Of Pcna2-Pcna3 Complex From Sulfolobus Tokodaii (I222) Length = 246

Iteration: 1
 Score = 72.8 bits (177), Expect = 2e-13,   Method: Compositional matrix adjust.
 Identities = 54/266 (20%), Positives = 114/266 (42%), Gaps = 31/266 (11%)
Query: 2   LELRLVQGSLLKKVLEAIKELVNDANFDCSATGFSLQAMDSSHVALVALLLRSEGFEHYR 61
           + ++++       +   ++E +++   D ++ G  ++ +D S V  + +L+ +  FE Y 
Sbjct: 1   MRVKVIDADAFSYIFRTLEEFIDEITLDFTSDGLKIRGIDPSRVTFIDILIPAGYFEEYN 60
Query: 62  CDRNISMGMNLNNVSKMLKCAGNDDIITLKAD---------DGSDTVTFMFESPTQDKIA 112
            ++   +G+ L + + +LK    +D + L+ D         DG    TF F S    +I 
Sbjct: 61  VEKEEKVGVKLEDFTDVLKTVTKNDSLYLETDENQNIKVTLDGVYERTFTFPSIVASEIE 120
Query: 113 DFEMKLMDIDSEHLGIPEAEYHAIVRMPSAEFARICKDLASIG-DTVVISVTKEGVKFST 171
              + L             E+    +  +  F  I  ++  IG D++        +  S 
Sbjct: 121 TPNLNL-------------EFPFKAKALTVTFTDIIDEIEDIGGDSITFKAEGGKLYLSA 167
Query: 172 RGDIGTANIVLRQNTTVDKPEEATIIEMHEP-VSLTFALRYMNSFTRATPLSNTVTISLS 230
             D+G++ I L         E   ++E         + L Y+ + ++    S+TV I+  
Sbjct: 168 NSDMGSSTIELST-------ENGGLLESEGGDAESVYGLEYVVNTSKMRKPSDTVEIAFG 220
Query: 231 SELPVVVEYKIAEMGYIRFYLAPKIE 256
           S++P+ + Y + + GY  FY+AP+ E
Sbjct: 221 SQIPLKLRYNLPQGGYADFYIAPRAE 246

>pdb|3A2F|B Chain B, Crystal Structure Of Pyrococcus Furiosus Dna PolymerasePCNA Monomer Mutant Complex Length = 248

Iteration: 1
 Score = 72.8 bits (177), Expect = 2e-13,   Method: Compositional matrix adjust.
 Identities = 57/246 (23%), Positives = 108/246 (43%), Gaps = 13/246 (5%)
Query: 14  KVLEAIKELVNDANFDCSATGFSLQAMDSSHVALVALLLRSEGFEHYRCDRNISMGMNLN 73
           ++++   +L+++A F  +  G S +A D S V L+ L L S  F  Y      ++G+NL+
Sbjct: 14  QLIDTASKLIDEAAFKVTEDGISXRAXDPSRVVLIDLNLPSSIFSKYEVVEPETIGVNLD 73
Query: 74  NVSKMLKCAGNDDIITLKADDGSDTVTFMFESPTQDKIADFEMKLMDIDSEHLGIPEAEY 133
           ++ K+LK     D + LK  + +    F+  +        F + L+D++   + +PE  +
Sbjct: 74  HLKKILKRGKAKDTLILKKGEEN----FLEITIQGTATRTFRVPLIDVEEXEVDLPELPF 129
Query: 134 HAIVRMPSAEFARICKDLASIGDTVVISVTKEGVKFSTRGDIGTANI--VLRQNTTVDKP 191
            A V +         K  + + D++     +        G+     I   L     +D  
Sbjct: 130 TAKVVVLGEVLKAAVKAASLVSDSIKFIARENEFIXKAEGETQEVEIKLTLEDEGLLD-- 187
Query: 192 EEATIIEMHEPVSLTFALRYMNSFTRATPLSNTVTISLSSELPVVVEYKIAEMGYIRFYL 251
                IE+ E     + + Y++   +    ++ VTI   +E P   EY I + G + F L
Sbjct: 188 -----IEVQEETKSAYGVSYLSDXVKGLGKADEVTIKFGNEXPXQXEYYIRDEGRLTFLL 242
Query: 252 APKIEE 257
           AP++EE
Sbjct: 243 APRVEE 248

>pdb|3LX2|A Chain A, Crystal Structure Analysis Of Pcna From Thermococcus Kodakaraensis Tk0582 Length = 259

Iteration: 1
 Score = 68.6 bits (166), Expect = 3e-12,   Method: Compositional matrix adjust.
 Identities = 51/246 (20%), Positives = 109/246 (44%), Gaps = 8/246 (3%)
Query: 12  LKKVLEAIKELVNDANFDCSATGFSLQAMDSSHVALVALLLRSEGFEHYRCDRNISMGMN 71
            + ++  +++  ++A F  +  G  ++A+D S V LV L L    F  Y  +   ++  +
Sbjct: 13  FESLIATLEKFFDEAVFQVNMEGIQMRAIDPSRVVLVDLNLPEMLFSKYSVESEEAIAFD 72
Query: 72  LNNVSKMLKCAGNDDIITLKADDGSDTVTFMFESPTQDKIADFEMKLMDIDSEHLGIPEA 131
           L    K+LK A + D + L+   G +   F+      D+   F++ L+D ++  + IP  
Sbjct: 73  LKRFLKVLKLARSRDTLVLR--KGGEN--FLEVGLLGDENTWFKLPLIDANTPEIEIPSL 128
Query: 132 EYHAIVRMPSAEFARICKDLASIGDTVVISVTKEGVKFSTRGDIGTANIVLRQNTTVDKP 191
            +     + +    R  K    + D++    T E + F   G+      VL    T++ P
Sbjct: 129 PWTVKAVVLAGALKRAVKAAKLVSDSIYFMATPEKLTFKAEGNDSEVRTVL----TMEDP 184
Query: 192 EEATIIEMHEPVSLTFALRYMNSFTRATPLSNTVTISLSSELPVVVEYKIAEMGYIRFYL 251
               +          + + Y+    R+   ++ V I    ++P++++Y + + G + F +
Sbjct: 185 GLLDLEHKMTKAKSAYGVAYLEDILRSLADADEVIIRFGFDIPLLLKYMVRDAGEVSFLI 244
Query: 252 APKIEE 257
           AP++EE
Sbjct: 245 APRVEE 250

>pdb|2HII|C Chain C, Heterotrimeric Pcna Sliding Clamp Length = 252

Iteration: 1
 Score = 60.5 bits (145), Expect = 9e-10,   Method: Compositional matrix adjust.
 Identities = 49/247 (19%), Positives = 112/247 (45%), Gaps = 10/247 (4%)
Query: 11  LLKKVLEAIKELVNDANFDCSATGFSLQAMDSSHVALVALLLRSEGFEHYRCDRNISMGM 70
           +LK +++A+  LV++A          L A+D +H++L+++ L  E F+ Y  +     G 
Sbjct: 10  VLKDIIQALARLVDEAVLKFKQDSVELVALDRAHISLISVNLPREXFKEYDVNDEFKFGF 69
Query: 71  NLNNVSKMLKCAGNDDIITLKADDGSDTVTFMFESPTQDKIADFEMKLMDIDSEHLGIPE 130
           N   + K+LK A   + I + A +  D+V       T     +F ++ +++  + +    
Sbjct: 70  NTQYLXKILKVAKRKEAIEI-ASESPDSVIINIIGSTN---REFNVRNLEVSEQEIPEIN 125
Query: 131 AEYHAIVRMPSAEFARICKDLASIGDTVVISVTKEGVKFSTRGDIGTANIVLRQNTTVDK 190
            ++     + S  F     +++++ D VV+   ++ +     G+     +   ++T   +
Sbjct: 126 LQFDISATISSDGFKSAISEVSTVTDNVVVEGHEDRILIKAEGE-SEVEVEFSKDTGGLQ 184
Query: 191 PEEATIIEMHEPVSLTFALRYMNSFTRATPLSNTVTISLSSELPVVVEYKIAEMGYIRFY 250
                 +E  +    +++  Y++     T LS+ V IS  ++ P+ + +     G + + 
Sbjct: 185 D-----LEFSKESKNSYSAEYLDDVLSLTKLSDYVKISFGNQKPLQLFFNXEGGGKVTYL 239
Query: 251 LAPKIEE 257
           LAPK+ E
Sbjct: 240 LAPKVLE 246

>pdb|2IJX|A Chain A, Crystal Structure Of Pcna3 Monomer From Sulfolobus Solfataricus. Length = 244

Iteration: 1
 Score = 59.7 bits (143), Expect = 1e-09,   Method: Compositional matrix adjust.
 Identities = 48/245 (19%), Positives = 112/245 (45%), Gaps = 10/245 (4%)
Query: 11  LLKKVLEAIKELVNDANFDCSATGFSLQAMDSSHVALVALLLRSEGFEHYRCDRNISMGM 70
           +LK +++A+  LV++A          L A+D +H++L+++ L  E F+ Y  +     G 
Sbjct: 10  VLKDIIQALARLVDEAVLKFKQDSVELVALDRAHISLISVNLPREMFKEYDVNDEFKFGF 69
Query: 71  NLNNVSKMLKCAGNDDIITLKADDGSDTVTFMFESPTQDKIADFEMKLMDIDSEHLGIPE 130
           N   + K+LK A   + I + A +  D+V       T     +F ++ +++  + +    
Sbjct: 70  NTQYLMKILKVAKRKEAIEI-ASESPDSVIINIIGSTN---REFNVRNLEVSEQEIPEIN 125
Query: 131 AEYHAIVRMPSAEFARICKDLASIGDTVVISVTKEGVKFSTRGDIGTANIVLRQNTTVDK 190
            ++     + S  F     +++++ D VV+   ++ +     G+     +   ++T   +
Sbjct: 126 LQFDISATISSDGFKSAISEVSTVTDNVVVEGHEDRILIKAEGE-SEVEVEFSKDTGGLQ 184
Query: 191 PEEATIIEMHEPVSLTFALRYMNSFTRATPLSNTVTISLSSELPVVVEYKIAEMGYIRFY 250
                 +E  +    +++  Y++     T LS+ V IS  ++ P+ + + +   G + + 
Sbjct: 185 D-----LEFSKESKNSYSAEYLDDVLSLTKLSDYVKISFGNQKPLQLFFNMEGGGKVTYL 239
Query: 251 LAPKI 255
           LAPK+
Sbjct: 240 LAPKV 244

>pdb|2IX2|C Chain C, Crystal Structure Of The Heterotrimeric Pcna From Sulfolobus Solfataricus Length = 259

Iteration: 1
 Score = 59.3 bits (142), Expect = 2e-09,   Method: Compositional matrix adjust.
 Identities = 48/245 (19%), Positives = 112/245 (45%), Gaps = 10/245 (4%)
Query: 11  LLKKVLEAIKELVNDANFDCSATGFSLQAMDSSHVALVALLLRSEGFEHYRCDRNISMGM 70
           +LK +++A+  LV++A          L A+D +H++L+++ L  E F+ Y  +     G 
Sbjct: 25  VLKDIIQALARLVDEAVLKFKQDSVELVALDRAHISLISVNLPREMFKEYDVNDEFKFGF 84
Query: 71  NLNNVSKMLKCAGNDDIITLKADDGSDTVTFMFESPTQDKIADFEMKLMDIDSEHLGIPE 130
           N   + K+LK A   + I + A +  D+V       T     +F ++ +++  + +    
Sbjct: 85  NTQYLMKILKVAKRKEAIEI-ASESPDSVIINIIGSTN---REFNVRNLEVSEQEIPEIN 140
Query: 131 AEYHAIVRMPSAEFARICKDLASIGDTVVISVTKEGVKFSTRGDIGTANIVLRQNTTVDK 190
            ++     + S  F     +++++ D VV+   ++ +     G+     +   ++T   +
Sbjct: 141 LQFDISATISSDGFKSAISEVSTVTDNVVVEGHEDRILIKAEGE-SEVEVEFSKDTGGLQ 199
Query: 191 PEEATIIEMHEPVSLTFALRYMNSFTRATPLSNTVTISLSSELPVVVEYKIAEMGYIRFY 250
                 +E  +    +++  Y++     T LS+ V IS  ++ P+ + + +   G + + 
Sbjct: 200 D-----LEFSKESKNSYSAEYLDDVLSLTKLSDYVKISFGNQKPLQLFFNMEGGGKVTYL 254
Query: 251 LAPKI 255
           LAPK+
Sbjct: 255 LAPKV 259

>pdb|3AIX|B Chain B, Crystal Structure Of Pcna2-Pcna3 Complex From Sulfolobus Tokodaii (I222) Length = 248

Iteration: 1
 Score = 53.1 bits (126), Expect = 1e-07,   Method: Compositional matrix adjust.
 Identities = 56/247 (22%), Positives = 106/247 (42%), Gaps = 13/247 (5%)
Query: 10  SLLKKVLEAIKELVNDANFDCSATGFSLQAMDSSHVALVALLLRSEGFEHYRCDRNISMG 69
           SLL  +L+   E++   NF   +  FS    D   V +V   +  E  E Y  D+ + + 
Sbjct: 14  SLLSGLLKVTDEII--LNFTEDSI-FSRYLTDD-KVLMVIFKIPKEYLEDYTIDKPLGIK 69
Query: 70  MNLNNVSKML-KCAGNDDIITLKADDGSDTVTFMFESPTQDKIADFEMKLMDIDSEHLGI 128
           +N+N++ K+L K       +TL+  +    VT   E       ++  +K      + L  
Sbjct: 70  ININDLKKILGKAKSKSATVTLEETEAGLKVTVRDEKTGTR--SNIYIKGEKTSIDQLTE 127
Query: 129 PEAEYHAIVRMPSAEFARICKDLASIGDTVVISVTKEGVKFSTRGDIGTANIVLRQNTTV 188
           P+                I +DL+ +G+ V IS  +  V  ST     T   +L+Q    
Sbjct: 128 PKVNLSVTFTTDGDVLKDIARDLSLVGEEVEISADENTVTLSTEEAGRTYKSLLKQ---- 183
Query: 189 DKPEEATIIEMHEPVSLTFALRYMNSFTRATPLSNTVTISLSSELPVVVEYKIAEMGYIR 248
           DKP ++  + +  P    +++  +    + T +S  VT+   + +P+ +E      G + 
Sbjct: 184 DKPLKS--LNVESPSKAVYSIEVLKDVFKVTSISQNVTVGFGNNIPMKIEVPTDSGGQLI 241
Query: 249 FYLAPKI 255
           F++AP++
Sbjct: 242 FWIAPRL 248

Structure Templates Detected by RPS-BLAST

Original result of RPS-BLAST against PDB70 database

ID	Length	Definition	E-value
Query	266
1u7b_A	261	PCNA, cyclin, proliferating cell nuclear antigen;	2e-77
3fds_C	249	DNA polymerase sliding clamp B; protein-protein co	3e-77
1plq_A	258	Proliferating cell nuclear antigen (PCNA); DNA-bin	9e-76
2zvv_A	276	PCNA 1, proliferating cellular nuclear antigen 1;	4e-74
3k4x_A	798	PCNA, proliferating cell nuclear antigen; DNA repl	1e-70
3k4x_A	798	PCNA, proliferating cell nuclear antigen; DNA repl	1e-67
3k4x_A	798	PCNA, proliferating cell nuclear antigen; DNA repl	2e-67
3lx2_A	259	DNA polymerase sliding clamp 2; PCNA, DNA processi	2e-69
3p91_A	265	Proliferating cell nuclear antigen; DNA binding pr	2e-68
3aiz_A	248	DNA polymerase sliding clamp B; protein-protein co	9e-68
1iz5_A	249	Proliferating cell nuclear antigen; DNA, replicati	2e-64
3fds_D	245	DNA polymerase sliding clamp C; protein-protein co	2e-62
2ijx_A	244	DNA polymerase sliding clamp A; PCNA3 subunit, pro	3e-62
3aiz_C	246	DNA polymerase sliding clamp C; protein-protein co	4e-61
3ifv_A	247	PCNA; processivity factor, sliding clamp, halophil	5e-60
1ud9_A	245	DNA polymerase sliding clamp A; DNA-binding, DNA r	4e-58
1rwz_A	245	DNA polymerase sliding clamp; torus, processivity	2e-57
3l0w_B	169	Monoubiquitinated proliferating cell nuclear antig	5e-48
3pge_A	200	SUMO-modified proliferating cell nuclear antigen;	3e-42
3a1j_C	263	Cell cycle checkpoint protein RAD1; DNA damage, DN	1e-39
3g65_A	296	Cell cycle checkpoint control protein RAD9A; PCNA,	7e-27
3a1j_A	266	Cell cycle checkpoint control protein RAD9A; DNA d	1e-25

>1u7b_A PCNA, cyclin, proliferating cell nuclear antigen; sliding clamp, DNA processing, FEN1, PIP- BOX, replication; 1.88A {Homo sapiens} SCOP: d.131.1.2 d.131.1.2 PDB: 1u76_A 1axc_A 1ul1_A 1vyj_A 1vym_A 1w60_A 2zvk_A* 2zvl_A* 2zvm_A* 3p87_A 3vkx_A* Length = 261

 Score =  234 bits (597), Expect = 2e-77
 Identities = 168/260 (64%), Positives = 223/260 (85%)

Query: 1   MLELRLVQGSLLKKVLEAIKELVNDANFDCSATGFSLQAMDSSHVALVALLLRSEGFEHY 60
           M E RLVQGS+LKKVLEA+K+L+N+A +D S++G +LQ+MDSSHV+LV L LRSEGF+ Y
Sbjct: 1   MFEARLVQGSILKKVLEALKDLINEACWDISSSGVNLQSMDSSHVSLVQLTLRSEGFDTY 60

Query: 61  RCDRNISMGMNLNNVSKMLKCAGNDDIITLKADDGSDTVTFMFESPTQDKIADFEMKLMD 120
           RCDRN++MG+NL ++SK+LKCAGN+DIITL+A+D +DT+  +FE+P Q+K++D+EMKLMD
Sbjct: 61  RCDRNLAMGVNLTSMSKILKCAGNEDIITLRAEDNADTLALVFEAPNQEKVSDYEMKLMD 120

Query: 121 IDSEHLGIPEAEYHAIVRMPSAEFARICKDLASIGDTVVISVTKEGVKFSTRGDIGTANI 180
           +D E LGIPE EY  +V+MPS EFARIC+DL+ IGD VVIS  K+GVKFS  G++G  NI
Sbjct: 121 LDVEQLGIPEQEYSCVVKMPSGEFARICRDLSHIGDAVVISCAKDGVKFSASGELGNGNI 180

Query: 181 VLRQNTTVDKPEEATIIEMHEPVSLTFALRYMNSFTRATPLSNTVTISLSSELPVVVEYK 240
            L Q + VDK EEA  IEM+EPV LTFALRY+N FT+ATPLS+TVT+S+S+++P+VVEYK
Sbjct: 181 KLSQTSNVDKEEEAVTIEMNEPVQLTFALRYLNFFTKATPLSSTVTLSMSADVPLVVEYK 240

Query: 241 IAEMGYIRFYLAPKIEEDED 260
           IA+MG++++YLAPKIE++E 
Sbjct: 241 IADMGHLKYYLAPKIEDEEG 260

>3fds_C DNA polymerase sliding clamp B; protein-protein complex, DNA damage, DNA repair, DNA replica DNA-binding, DNA-directed DNA polymerase; HET: DNA 1PE PGE; 2.05A {Sulfolobus solfataricus} PDB: 2io4_A* 2nti_D* 2hii_A 2hik_A 2ix2_A* 2izo_C* Length = 249

 Score =  233 bits (595), Expect = 3e-77
 Identities = 32/256 (12%), Positives = 92/256 (35%), Gaps = 8/256 (3%)

Query: 1   MLELRLVQGSLLKKVLEAIKELVNDANFDCSATGFSLQAMDSSHVALVALLLRSEGFEHY 60
           M+++           + +I  + +    + +  G   + +    V +  + +  +    Y
Sbjct: 1   MVKIVYPNAKDFFSFINSITNVTDSIILNFTEDGIFSRHLTEDKVLMAIMRIPKDVLSEY 60

Query: 61  RCDRNISMGMNLNNVSKMLKCAGNDDIITLKADDGSDTVTFMFESPTQDKIADFEMKLMD 120
             D   S+ +++++V K+L  A +    T++  +    +  +         +   +K   
Sbjct: 61  SIDSPTSVKLDVSSVKKILSKASSKK-ATIELTETDSGLKIIIRDEKSGAKSTIYIKAEK 119

Query: 121 IDSEHLGIPEAEYHAIVRMPSAEFARICKDLASIGDTVVISVTKEGVKFSTRGDIGTANI 180
              E L  P+           +    I  D+  +G+ + IS  ++ +K     +      
Sbjct: 120 GQVEQLTEPKVNLAVNFTTDESVLNVIAADVTLVGEEMRISTEEDKIKIEAGEEGKRYVA 179

Query: 181 VLRQNTTVDKPEEATIIEMHEPVSLTFALRYMNSFTRA-TPLSNTVTISLSSELPVVVEY 239
            L ++      +    + +    S +++        +     S    +S    LP+ ++ 
Sbjct: 180 FLMKD------KPLKELSIDTSASSSYSAEMFKDAVKGLRGFSAPTMVSFGENLPMKIDV 233

Query: 240 KIAEMGYIRFYLAPKI 255
           +    G++ F++AP++
Sbjct: 234 EAVSGGHMIFWIAPRL 249

>1plq_A Proliferating cell nuclear antigen (PCNA); DNA-binding, nuclear protein, DNA replication, processivity; 2.30A {Saccharomyces cerevisiae} SCOP: d.131.1.2 d.131.1.2 PDB: 1plr_A 2od8_A* 1sxj_F* 3f1w_A 3v60_B 3v61_B 3v62_B* 3gpn_A 3gpm_A 3l0w_A 3l0x_A 3l10_A 3pge_B 3l0x_B Length = 258

 Score =  230 bits (586), Expect = 9e-76
 Identities = 99/259 (38%), Positives = 170/259 (65%), Gaps = 1/259 (0%)

Query: 1   MLELRLVQGSLLKKVLEAIKELVNDANFDCSATGFSLQAMDSSHVALVALLLRSEGFEHY 60
           MLE +  + SL K++++  K+ V   NF C   G   QA+D S V LV+L +  E F+ Y
Sbjct: 1   MLEAKFEEASLFKRIIDGFKDCVQLVNFQCKEDGIIAQAVDDSRVLLVSLEIGVEAFQEY 60

Query: 61  RCDRNISMGMNLNNVSKMLKCAGNDDIITLKADDGSDTVTFMFESPTQDKIADFEMKLMD 120
           RCD  +++GM+L ++SK+L+C  N D +TL AD+  D++  +FE   +D+IA++ +KLMD
Sbjct: 61  RCDHPVTLGMDLTSLSKILRCGNNTDTLTLIADNTPDSIILLFEDTKKDRIAEYSLKLMD 120

Query: 121 IDSEHLGIPEAEYHAIVRMPSAEFARICKDLASIGDTVVISVTKEGVKFSTRGDIGTANI 180
           ID++ L I E +Y + + +PS+EF++I +DL+ + D++ I +TKE +KF   GDIG+ ++
Sbjct: 121 IDADFLKIEELQYDSTLSLPSSEFSKIVRDLSQLSDSINIMITKETIKFVADGDIGSGSV 180

Query: 181 VLRQNTTVDKPEEATIIEMHEPVSLTFALRYMNSFTRATPLSNTVTISLSSELPVVVEYK 240
           +++    ++ PE +  +EM +PV LTF  +Y+    + + LS+ V I LSSE P + ++ 
Sbjct: 181 IIKPFVDMEHPETSIKLEMDQPVDLTFGAKYLLDIIKGSSLSDRVGIRLSSEAPALFQFD 240

Query: 241 IAEMGYIRFYLAPKIEEDE 259
           +   G+++F+LAPK  ++E
Sbjct: 241 LKS-GFLQFFLAPKFNDEE 258

>2zvv_A PCNA 1, proliferating cellular nuclear antigen 1; protein-peptide complex, DNA replication, DNA-binding, nucleus, DNA binding protein; 2.00A {Arabidopsis thaliana} PDB: 2zvw_A Length = 276

 Score =  226 bits (576), Expect = 4e-74
 Identities = 232/256 (90%), Positives = 250/256 (97%)

Query: 1   MLELRLVQGSLLKKVLEAIKELVNDANFDCSATGFSLQAMDSSHVALVALLLRSEGFEHY 60
           MLELRLVQGSLLKKVLE+IK+LVNDANFDCS+TGFSLQAMDSSHVALV+LLLRSEGFEHY
Sbjct: 21  MLELRLVQGSLLKKVLESIKDLVNDANFDCSSTGFSLQAMDSSHVALVSLLLRSEGFEHY 80

Query: 61  RCDRNISMGMNLNNVSKMLKCAGNDDIITLKADDGSDTVTFMFESPTQDKIADFEMKLMD 120
           RCDRN+SMGMNL N+SKMLKCAGNDDIIT+KADDG DTVTFMFESPTQDKIADFEMKLMD
Sbjct: 81  RCDRNLSMGMNLGNMSKMLKCAGNDDIITIKADDGGDTVTFMFESPTQDKIADFEMKLMD 140

Query: 121 IDSEHLGIPEAEYHAIVRMPSAEFARICKDLASIGDTVVISVTKEGVKFSTRGDIGTANI 180
           IDSEHLGIP+AEYH+IVRMPS EF+RICKDL+SIGDTVVISVTKEGVKFST GDIGTANI
Sbjct: 141 IDSEHLGIPDAEYHSIVRMPSNEFSRICKDLSSIGDTVVISVTKEGVKFSTAGDIGTANI 200

Query: 181 VLRQNTTVDKPEEATIIEMHEPVSLTFALRYMNSFTRATPLSNTVTISLSSELPVVVEYK 240
           VLRQNTTVDKPE+A +IEM EPVSL+FALRYMNSFT+ATPLS+TVTISLSSELPVVVEYK
Sbjct: 201 VLRQNTTVDKPEDAIVIEMKEPVSLSFALRYMNSFTKATPLSDTVTISLSSELPVVVEYK 260

Query: 241 IAEMGYIRFYLAPKIE 256
           +AEMGYIR+YLAPKIE
Sbjct: 261 VAEMGYIRYYLAPKIE 276

>3k4x_A PCNA, proliferating cell nuclear antigen; DNA replication, DNA-binding; HET: DNA; 2.98A {Saccharomyces cerevisiae} Length = 798

 Score =  231 bits (588), Expect = 1e-70
 Identities = 98/259 (37%), Positives = 169/259 (65%), Gaps = 1/259 (0%)

Query: 1   MLELRLVQGSLLKKVLEAIKELVNDANFDCSATGFSLQAMDSSHVALVALLLRSEGFEHY 60
            LE +  + SL K++++  K+ V   NF C   G   QA+D S V LV+L +  E F+ Y
Sbjct: 541 ALEAKFEEASLFKRIIDGFKDCVQLVNFQCKEDGIIAQAVDDSRVLLVSLEIGVEAFQEY 600

Query: 61  RCDRNISMGMNLNNVSKMLKCAGNDDIITLKADDGSDTVTFMFESPTQDKIADFEMKLMD 120
           RCD  +++GM+L ++SK+L+C  N D +TL AD+  D++  +FE   +D+IA++ +KLMD
Sbjct: 601 RCDHPVTLGMDLTSLSKILRCGNNTDTLTLIADNTPDSIILLFEDTKKDRIAEYSLKLMD 660

Query: 121 IDSEHLGIPEAEYHAIVRMPSAEFARICKDLASIGDTVVISVTKEGVKFSTRGDIGTANI 180
           ID++ L I E +Y + + +PS+EF++I +DL+ + D++ I +TKE +KF   GDIG+ ++
Sbjct: 661 IDADFLKIEELQYDSTLSLPSSEFSKIVRDLSQLSDSINIMITKETIKFVADGDIGSGSV 720

Query: 181 VLRQNTTVDKPEEATIIEMHEPVSLTFALRYMNSFTRATPLSNTVTISLSSELPVVVEYK 240
           +++    ++ PE +  +EM +PV LTF  +Y+    + + LS+ V I LSSE P + ++ 
Sbjct: 721 IIKPFVDMEHPETSIKLEMDQPVDLTFGAKYLLDIIKGSSLSDRVGIRLSSEAPALFQFD 780

Query: 241 IAEMGYIRFYLAPKIEEDE 259
           +   G+++F+LAPK  ++E
Sbjct: 781 LKS-GFLQFFLAPKFNDEE 798

>3k4x_A PCNA, proliferating cell nuclear antigen; DNA replication, DNA-binding; HET: DNA; 2.98A {Saccharomyces cerevisiae} Length = 798

 Score =  222 bits (567), Expect = 1e-67
 Identities = 98/265 (36%), Positives = 171/265 (64%), Gaps = 1/265 (0%)

Query: 1   MLELRLVQGSLLKKVLEAIKELVNDANFDCSATGFSLQAMDSSHVALVALLLRSEGFEHY 60
           MLE +  + SL K++++  K+ V   NF C   G   QA+D S V LV+L +  E F+ Y
Sbjct: 7   MLEAKFEEASLFKRIIDGFKDCVQLVNFQCKEDGIIAQAVDDSRVLLVSLEIGVEAFQEY 66

Query: 61  RCDRNISMGMNLNNVSKMLKCAGNDDIITLKADDGSDTVTFMFESPTQDKIADFEMKLMD 120
           RCD  +++GM+L ++SK+L+C  N D +TL AD+  D++  +FE   +D+IA++ +KLMD
Sbjct: 67  RCDHPVTLGMDLTSLSKILRCGNNTDTLTLIADNTPDSIILLFEDTKKDRIAEYSLKLMD 126

Query: 121 IDSEHLGIPEAEYHAIVRMPSAEFARICKDLASIGDTVVISVTKEGVKFSTRGDIGTANI 180
           ID++ L I E +Y + + +PS+EF++I +DL+ + D++ I +TKE +KF   GDIG+ ++
Sbjct: 127 IDADFLKIEELQYDSTLSLPSSEFSKIVRDLSQLSDSINIMITKETIKFVADGDIGSGSV 186

Query: 181 VLRQNTTVDKPEEATIIEMHEPVSLTFALRYMNSFTRATPLSNTVTISLSSELPVVVEYK 240
           +++    ++ PE +  +EM +PV LTF  +Y+    + + LS+ V I LSSE P + ++ 
Sbjct: 187 IIKPFVDMEHPETSIKLEMDQPVDLTFGAKYLLDIIKGSSLSDRVGIRLSSEAPALFQFD 246

Query: 241 IAEMGYIRFYLAPKIEEDEDETKPQ 265
           +   G+++F+LAPK  ++   ++  
Sbjct: 247 LKS-GFLQFFLAPKFNDEGSNSQSN 270

>3k4x_A PCNA, proliferating cell nuclear antigen; DNA replication, DNA-binding; HET: DNA; 2.98A {Saccharomyces cerevisiae} Length = 798

 Score =  222 bits (565), Expect = 2e-67
 Identities = 97/265 (36%), Positives = 170/265 (64%), Gaps = 1/265 (0%)

Query: 1   MLELRLVQGSLLKKVLEAIKELVNDANFDCSATGFSLQAMDSSHVALVALLLRSEGFEHY 60
            LE +  + SL K++++  K+ V   NF C   G   QA+D S V LV+L +  E F+ Y
Sbjct: 274 ALEAKFEEASLFKRIIDGFKDCVQLVNFQCKEDGIIAQAVDDSRVLLVSLEIGVEAFQEY 333

Query: 61  RCDRNISMGMNLNNVSKMLKCAGNDDIITLKADDGSDTVTFMFESPTQDKIADFEMKLMD 120
           RCD  +++GM+L ++SK+L+C  N D +TL AD+  D++  +FE   +D+IA++ +KLMD
Sbjct: 334 RCDHPVTLGMDLTSLSKILRCGNNTDTLTLIADNTPDSIILLFEDTKKDRIAEYSLKLMD 393

Query: 121 IDSEHLGIPEAEYHAIVRMPSAEFARICKDLASIGDTVVISVTKEGVKFSTRGDIGTANI 180
           ID++ L I E +Y + + +PS+EF++I +DL+ + D++ I +TKE +KF   GDIG+ ++
Sbjct: 394 IDADFLKIEELQYDSTLSLPSSEFSKIVRDLSQLSDSINIMITKETIKFVADGDIGSGSV 453

Query: 181 VLRQNTTVDKPEEATIIEMHEPVSLTFALRYMNSFTRATPLSNTVTISLSSELPVVVEYK 240
           +++    ++ PE +  +EM +PV LTF  +Y+    + + LS+ V I LSSE P + ++ 
Sbjct: 454 IIKPFVDMEHPETSIKLEMDQPVDLTFGAKYLLDIIKGSSLSDRVGIRLSSEAPALFQFD 513

Query: 241 IAEMGYIRFYLAPKIEEDEDETKPQ 265
           +   G+++F+LAPK  ++   ++  
Sbjct: 514 LKS-GFLQFFLAPKFNDEGSNSQAS 537

>3lx2_A DNA polymerase sliding clamp 2; PCNA, DNA processivity factor, trimer, toroidal, DNA replica DNA-binding, DNA binding protein; HET: DNA; 2.40A {Thermococcus kodakarensis} Length = 259

 Score =  214 bits (545), Expect = 2e-69
 Identities = 51/263 (19%), Positives = 110/263 (41%), Gaps = 8/263 (3%)

Query: 1   MLELRLVQGSLLKKVLEAIKELVNDANFDCSATGFSLQAMDSSHVALVALLLRSEGFEHY 60
             E+        + ++  +++  ++A F  +  G  ++A+D S V LV L L    F  Y
Sbjct: 2   TFEIVFDSAREFESLIATLEKFFDEAVFQVNMEGIQMRAIDPSRVVLVDLNLPEMLFSKY 61

Query: 61  RCDRNISMGMNLNNVSKMLKCAGNDDIITLKADDGSDTVTFMFESPTQDKIADFEMKLMD 120
             +   ++  +L    K+LK A + D + L+    +    F+      D+   F++ L+D
Sbjct: 62  SVESEEAIAFDLKRFLKVLKLARSRDTLVLRKGGEN----FLEVGLLGDENTWFKLPLID 117

Query: 121 IDSEHLGIPEAEYHAIVRMPSAEFARICKDLASIGDTVVISVTKEGVKFSTRGDIGTANI 180
            ++  + IP   +     + +    R  K    + D++    T E + F   G+      
Sbjct: 118 ANTPEIEIPSLPWTVKAVVLAGALKRAVKAAKLVSDSIYFMATPEKLTFKAEGNDSEVRT 177

Query: 181 VLRQNTTVDKPEEATIIEMHEPVSLTFALRYMNSFTRATPLSNTVTISLSSELPVVVEYK 240
           VL    T++ P    +          + + Y+    R+   ++ V I    ++P++++Y 
Sbjct: 178 VL----TMEDPGLLDLEHKMTKAKSAYGVAYLEDILRSLADADEVIIRFGFDIPLLLKYM 233

Query: 241 IAEMGYIRFYLAPKIEEDEDETK 263
           + + G + F +AP++EE      
Sbjct: 234 VRDAGEVSFLIAPRVEEGRSHHH 256

>3p91_A Proliferating cell nuclear antigen; DNA binding protein, DNA replication, processivity, sliding; 2.40A {Entamoeba histolytica} Length = 265

 Score =  211 bits (538), Expect = 2e-68
 Identities = 88/262 (33%), Positives = 158/262 (60%), Gaps = 5/262 (1%)

Query: 1   MLELRLVQGSLLKKVLEAIKELVNDANFDCSATGFSLQAMDSSHVALVALLLRSEGFEHY 60
               +  + +L K+V+E++K  ++  NFDCS  G ++Q MD+SHV+LV+LL+ ++ F+ +
Sbjct: 6   AFHAKFKEAALFKRVVESLKSTIDKTNFDCSDAGIAVQCMDNSHVSLVSLLIETDAFDEF 65

Query: 61  RCDRNISMGMNLNNVSKMLKCAGNDDIITLKADDGSDTVTFMFESPTQDKIADFEMKLMD 120
           +C + I++G+NL ++SK+LK   ND  + L      D V     S   +K   F + L+D
Sbjct: 66  QCLKPITLGINLTHLSKILKALDNDCGLILDVKKVDDAV-LSITSEGTNKTMKFGLNLVD 124

Query: 121 IDSEHLGIPEAEYHAIVRMPSAEFARICKDLASIGDT-VVISVTKEGVKFSTRGDIGTAN 179
           I++E + IPE +  AI+ + SAEF +I KD +++GD  + I  TK  V  +T+G +    
Sbjct: 125 IEAESVEIPELQSDAIITLSSAEFLKITKDFSALGDDSITIGCTKNEVTLTTKGAMCETC 184

Query: 180 IVLRQNTTVDKPEEATIIEMHEPVSLTFALRYMNSFTRATPLSNTVTISLSSELPVVVEY 239
           + L      +       IE ++ V+ +FAL+ ++ F ++ PL++ V +SLS + P+++E+
Sbjct: 185 MTLSALE--NVDSNGLQIEHNKDVTASFALKQISEFAKSAPLADNVKLSLSGQAPLIMEF 242

Query: 240 KIAEMGYIRFYLAPKIEEDEDE 261
           K  E   ++FYLAPK +E+++ 
Sbjct: 243 KG-EACVLKFYLAPKFDEEDEP 263

>3aiz_A DNA polymerase sliding clamp B; protein-protein complex, replication; HET: DNA; 2.80A {Sulfolobus tokodaii} PDB: 3aix_B* Length = 248

 Score =  209 bits (532), Expect = 9e-68
 Identities = 40/255 (15%), Positives = 98/255 (38%), Gaps = 7/255 (2%)

Query: 1   MLELRLVQGSLLKKVLEAIKELVNDANFDCSATGFSLQAMDSSHVALVALLLRSEGFEHY 60
           M++           +L  + ++ ++   + +      + +    V +V   +  E  E Y
Sbjct: 1   MIKATYSSAKDFYSLLSGLLKVTDEIILNFTEDSIFSRYLTDDKVLMVIFKIPKEYLEDY 60

Query: 61  RCDRNISMGMNLNNVSKMLKCAGNDDIITLKADDGSDTVTFMFESPTQDKIADFEMKLMD 120
             D+ + + +N+N++ K+L  A +        ++    +            ++  +K   
Sbjct: 61  TIDKPLGIKININDLKKILGKAKSKSATVT-LEETEAGLKVTVRDEKTGTRSNIYIKGEK 119

Query: 121 IDSEHLGIPEAEYHAIVRMPSAEFARICKDLASIGDTVVISVTKEGVKFSTRGDIGTANI 180
              + L  P+                I +DL+ +G+ V IS  +  V  ST     T   
Sbjct: 120 TSIDQLTEPKVNLSVTFTTDGDVLKDIARDLSLVGEEVEISADENTVTLSTEEAGRTYKS 179

Query: 181 VLRQNTTVDKPEEATIIEMHEPVSLTFALRYMNSFTRATPLSNTVTISLSSELPVVVEYK 240
           +L+Q+      +    + +  P    +++  +    + T +S  VT+   + +P+ +E  
Sbjct: 180 LLKQD------KPLKSLNVESPSKAVYSIEVLKDVFKVTSISQNVTVGFGNNIPMKIEVP 233

Query: 241 IAEMGYIRFYLAPKI 255
               G + F++AP++
Sbjct: 234 TDSGGQLIFWIAPRL 248

>1iz5_A Proliferating cell nuclear antigen; DNA, replication, processivity, sliding clamp, DNA binding protein; 1.80A {Pyrococcus furiosus} SCOP: d.131.1.2 d.131.1.2 PDB: 3a2f_B* 1iz4_A 1ge8_A 1isq_A 3lx1_A* Length = 249

 Score =  200 bits (510), Expect = 2e-64
 Identities = 59/257 (22%), Positives = 115/257 (44%), Gaps = 9/257 (3%)

Query: 1   MLELRLVQGSLLKKVLEAIKELVNDANFDCSATGFSLQAMDSSHVALVALLLRSEGFEHY 60
             E+         ++++   +L+++A F  +  G S++AMD S V L+ L L S  F  Y
Sbjct: 2   PFEIVFEGAKEFAQLIDTASKLIDEAAFKVTEDGISMRAMDPSRVVLIDLNLPSSIFSKY 61

Query: 61  RCDRNISMGMNLNNVSKMLKCAGNDDIITLKADDGSDTVTFMFESPTQDKIADFEMKLMD 120
                 ++G+NL+++ K+LK     D + LK  + +    F+  +        F + L+D
Sbjct: 62  EVVEPETIGVNLDHLKKILKRGKAKDTLILKKGEEN----FLEITIQGTATRTFRVPLID 117

Query: 121 IDSEHLGIPEAEYHAIVRMPSAEFARICKDLASIGDTVVISVTKEGVKFSTRGDIGTANI 180
           ++   + +PE  + A V +         K  + + D++     +        G+     I
Sbjct: 118 VEEMEVDLPELPFTAKVVVLGEVLKAAVKAASLVSDSIKFIARENEFIMKAEGETQEVEI 177

Query: 181 VLRQNTTVDKPEEATIIEMHEPVSLTFALRYMNSFTRATPLSNTVTISLSSELPVVVEYK 240
            L       + E    IE+ E     + + Y++   +    ++ VTI   +E+P+ +EY 
Sbjct: 178 KLTL-----EDEGLLDIEVQEETKSAYGVSYLSDMVKGLGKADEVTIKFGNEMPMQMEYY 232

Query: 241 IAEMGYIRFYLAPKIEE 257
           I + G + F LAP++EE
Sbjct: 233 IRDEGRLTFLLAPRVEE 249

>3fds_D DNA polymerase sliding clamp C; protein-protein complex, DNA damage, DNA repair, DNA replica DNA-binding, DNA-directed DNA polymerase; HET: DNA 1PE PGE; 2.05A {Sulfolobus solfataricus} PDB: 2nti_E* 2io4_B* 2ix2_B* 2hik_B 2hii_B* 2izo_B* Length = 245

 Score =  195 bits (496), Expect = 2e-62
 Identities = 56/255 (21%), Positives = 121/255 (47%), Gaps = 12/255 (4%)

Query: 1   MLELRLVQGSLLKKVLEAIKELVNDANFDCSATGFSLQAMDSSHVALVALLLRSEGFEHY 60
           M++ +++       +L  + + +++ANF  +  G  +  +D S V  + + L S  FE +
Sbjct: 1   MMKAKVIDAVSFSYILRTVGDFLSEANFIVTKEGIRVSGIDPSRVVFLDIFLPSSYFEGF 60

Query: 61  RCDRN-ISMGMNLNNVSKMLKCAGNDDIITLKADDGSDTVTFMFESPTQDKIADFEMKLM 119
              +    +G  L +V+ +LK    DD + L +++   T+TF  E         FE+ L+
Sbjct: 61  EVSQEKEIIGFKLEDVNDILKRVLKDDTLILSSNESKLTLTFDGEFTR-----SFELPLI 115

Query: 120 DIDSEHLGIPEAEYHAIVRMPSAEFARICKDLASIGDTVVISVTKEGVKFSTRGDIGTAN 179
            ++S        E+    ++ +  FA I  +L+ +G+ + I   +  + F   GD+ TA 
Sbjct: 116 QVESTQPPSVNLEFPFKAQLLTITFADIIDELSDLGEVLNIHSKENKLYFEVIGDLSTAK 175

Query: 180 IVLRQNTTVDKPEEATIIEMHEPVSLTFALRYMNSFTRATPLSNTVTISLSSELPVVVEY 239
           + L  +          +      VS ++ + Y+ + T+    S+++ +   S++P+ + +
Sbjct: 176 VELSTD------NGTLLEASGADVSSSYGMEYVANTTKMRRASDSMELYFGSQIPLKLRF 229

Query: 240 KIAEMGYIRFYLAPK 254
           K+ + GY  FY+AP+
Sbjct: 230 KLPQEGYGDFYIAPR 244

>2ijx_A DNA polymerase sliding clamp A; PCNA3 subunit, protein-protein interaction, PCNA123 heterotr binding protein; HET: DNA; 1.90A {Sulfolobus solfataricus} PDB: 2nti_F* 2hii_C 2hik_C 2ix2_C* Length = 244

 Score =  195 bits (495), Expect = 3e-62
 Identities = 44/254 (17%), Positives = 111/254 (43%), Gaps = 10/254 (3%)

Query: 2   LELRLVQGSLLKKVLEAIKELVNDANFDCSATGFSLQAMDSSHVALVALLLRSEGFEHYR 61
           +++      +LK +++A+  LV++A          L A+D +H++L+++ L  E F+ Y 
Sbjct: 1   MKVVYDDVRVLKDIIQALARLVDEAVLKFKQDSVELVALDRAHISLISVNLPREMFKEYD 60

Query: 62  CDRNISMGMNLNNVSKMLKCAGNDDIITLKADDGSDTVTFMFESPTQDKIADFEMKLMDI 121
            +     G N   + K+LK A   + I + ++     +  +  S  +    +F ++ +++
Sbjct: 61  VNDEFKFGFNTQYLMKILKVAKRKEAIEIASESPDSVIINIIGSTNR----EFNVRNLEV 116

Query: 122 DSEHLGIPEAEYHAIVRMPSAEFARICKDLASIGDTVVISVTKEGVKFSTRGDIGTANIV 181
             + +     ++     + S  F     +++++ D VV+   ++ +     G+       
Sbjct: 117 SEQEIPEINLQFDISATISSDGFKSAISEVSTVTDNVVVEGHEDRILIKAEGESEVEVEF 176

Query: 182 LRQNTTVDKPEEATIIEMHEPVSLTFALRYMNSFTRATPLSNTVTISLSSELPVVVEYKI 241
            +    +         E  +    +++  Y++     T LS+ V IS  ++ P+ + + +
Sbjct: 177 SKDTGGLQDL------EFSKESKNSYSAEYLDDVLSLTKLSDYVKISFGNQKPLQLFFNM 230

Query: 242 AEMGYIRFYLAPKI 255
              G + + LAPK+
Sbjct: 231 EGGGKVTYLLAPKV 244

>3aiz_C DNA polymerase sliding clamp C; protein-protein complex, replication; HET: DNA; 2.80A {Sulfolobus tokodaii} PDB: 3aix_A* Length = 246

 Score =  192 bits (488), Expect = 4e-61
 Identities = 45/256 (17%), Positives = 113/256 (44%), Gaps = 11/256 (4%)

Query: 2   LELRLVQGSLLKKVLEAIKELVNDANFDCSATGFSLQAMDSSHVALVALLLRSEGFEHYR 61
           + ++++       +   ++E +++   D ++ G  ++ +D S V  + +L+ +  FE Y 
Sbjct: 1   MRVKVIDADAFSYIFRTLEEFIDEITLDFTSDGLKIRGIDPSRVTFIDILIPAGYFEEYN 60

Query: 62  CDRNISMGMNLNNVSKMLKCAGNDDIITLKADDGSDTVTFMFESPTQDKIADFEMKLMDI 121
            ++   +G+ L + + +LK    +D + L+ D+  + +    +   +       +   +I
Sbjct: 61  VEKEEKVGVKLEDFTDVLKTVTKNDSLYLETDENQN-IKVTLDGVYERTFTFPSIVASEI 119

Query: 122 DSEHLGIPEAEYHAIVRMPSAEFARICKDLASIG-DTVVISVTKEGVKFSTRGDIGTANI 180
           ++ +L +    +    +  +  F  I  ++  IG D++        +  S   D+G++ I
Sbjct: 120 ETPNLNLE---FPFKAKALTVTFTDIIDEIEDIGGDSITFKAEGGKLYLSANSDMGSSTI 176

Query: 181 VLRQNTTVDKPEEATIIEMHEPVSLTFALRYMNSFTRATPLSNTVTISLSSELPVVVEYK 240
            L             +          + L Y+ + ++    S+TV I+  S++P+ + Y 
Sbjct: 177 ELSTE------NGGLLESEGGDAESVYGLEYVVNTSKMRKPSDTVEIAFGSQIPLKLRYN 230

Query: 241 IAEMGYIRFYLAPKIE 256
           + + GY  FY+AP+ E
Sbjct: 231 LPQGGYADFYIAPRAE 246

>3ifv_A PCNA; processivity factor, sliding clamp, halophilic, replication; 2.00A {Haloferax volcanii} PDB: 3hi8_A Length = 247

 Score =  189 bits (481), Expect = 5e-60
 Identities = 64/261 (24%), Positives = 114/261 (43%), Gaps = 17/261 (6%)

Query: 1   MLELRLVQGSLLKKVLEAIKELVNDANFDCSATGFSLQAMDSSHVALVALLLRSEGFEHY 60
           M +   V  + L+  L+++  LV++     +    S++A+D ++V +V L L +  FE Y
Sbjct: 1   MFKAI-VSAATLRDALDSVSVLVDECKIRLNEESLSIRAVDPANVGMVDLTLDAAAFESY 59

Query: 61  RCDRNISMGMNLNNVSKMLKCAGNDDIITLKADDGSDTVTFMFESPTQDKIADFEMKLMD 120
                  +G+NL+ + ++   AG  D+I L  D+ +  +    +  +        +   D
Sbjct: 60  EAHGG-VIGVNLSRLEEVAGMAGAGDLIHLTLDEETRKLNIRIDGLSY----TLALIDPD 114

Query: 121 IDSEHLGIPEAEYHAIVRMPSAEFARICKDLASIGDTVVISV--TKEGVKFSTRGDIGTA 178
              +   IP+ +  A + +      R  K    + D + + V   +E       GD    
Sbjct: 115 SIRQEPDIPDLDLAANIVLEGTHLDRGIKAADMVSDHIRLRVDGAEETFHIEAEGDTDDV 174

Query: 179 NIVLRQNTTVDKPEEATIIEMHEPVSLTFALRYMNSFTRATPLSNTVTISLSSELPVVVE 238
           ++ L        P +   IE     S  F+L Y+    +A P    VT+ L  E PV + 
Sbjct: 175 DLSL-------PPADLISIEAGAADS-LFSLDYLKDMNKAIPTDAEVTVELGEEFPVKLH 226

Query: 239 YKIAE-MGYIRFYLAPKIEED 258
           Y+IAE MG I + LAP+I+ D
Sbjct: 227 YQIAEGMGTITYMLAPRIQSD 247

>1ud9_A DNA polymerase sliding clamp A; DNA-binding, DNA replication, DNA binding protein; HET: DNA; 1.68A {Sulfolobus tokodaii} SCOP: d.131.1.2 d.131.1.2 Length = 245

 Score =  184 bits (468), Expect = 4e-58
 Identities = 54/252 (21%), Positives = 110/252 (43%), Gaps = 10/252 (3%)

Query: 4   LRLVQGSLLKKVLEAIKELVNDANFDCSATGFSLQAMDSSHVALVALLLRSEGFEHYRCD 63
           +       LK +++A+ +LV++A FD    G  L A+D +H++L+ + L  E F+ Y   
Sbjct: 3   IVYDDVRDLKAIIQALLKLVDEALFDIKPEGIQLVAIDKAHISLIKIELPKEMFKEYDVP 62

Query: 64  RNISMGMNLNNVSKMLKCAGNDDIITLKADDGSDTVTFMFESPTQDKIADFEMKLMDIDS 123
                G N   +SK+LK A   + I + AD        +  + +      F +  +++  
Sbjct: 63  EEFKFGFNTQYMSKLLKAAKRKEEIIIDADSP----EVVKLTLSGALNRVFNVNNIEVLP 118

Query: 124 EHLGIPEAEYHAIVRMPSAEFARICKDLASIGDTVVISVTKEGVKFSTRGDIGTANIVLR 183
             +     E+     + ++       ++A + DT++IS  +E V     G+        +
Sbjct: 119 PEVPEVNLEFDIKATINASGLKNAIGEIAEVADTLLISGNEEKVVVKGEGENKVEVEFSK 178

Query: 184 QNTTVDKPEEATIIEMHEPVSLTFALRYMNSFTRATPLSNTVTISLSSELPVVVEYKIAE 243
                        IE ++  S  + + Y+N     T LS+ V ++ + + P+ +E+ +  
Sbjct: 179 DT------GSLADIEFNKESSSAYDVEYLNDIISLTKLSDYVKVAFADQKPMQLEFNMEG 232

Query: 244 MGYIRFYLAPKI 255
            G + + LAPK+
Sbjct: 233 GGKVTYLLAPKL 244

>1rwz_A DNA polymerase sliding clamp; torus, processivity factor, replication; HET: DNA; 1.80A {Archaeoglobus fulgidus} SCOP: d.131.1.2 d.131.1.2 PDB: 1rxm_A* 1rxz_A* 3p83_A* Length = 245

 Score =  183 bits (464), Expect = 2e-57
 Identities = 57/259 (22%), Positives = 113/259 (43%), Gaps = 15/259 (5%)

Query: 1   MLELRLVQGSLLKKVLEAIKELVNDANFDCSATGFSLQAMDSSHVALVALLLRSEGFEHY 60
           M+++ ++ G LLK V  AI  LV++A       G   +A+D ++VA+V + +  + FE Y
Sbjct: 1   MIDV-IMTGELLKTVTRAIVALVSEARIHFLEKGLHSRAVDPANVAMVIVDIPKDSFEVY 59

Query: 61  RCDRNISMGMNLNNVSKMLKCAGNDDIITLKADDGSDTVTFMFESPTQDKIADFEMKLMD 120
             D   ++G++++ +  + K     D++ L  +D S           +  + D       
Sbjct: 60  NIDEEKTIGVDMDRIFDISKSISTKDLVELIVEDESTLKVKFGSVEYKVALID-----PS 114

Query: 121 IDSEHLGIPEAEYHAIVRMPSAEFARICKDLASIGDTVVISVTKEGVKFSTRGDIGTANI 180
              +   IPE E  A + M + EF +       I D V+    KEG +   +GD+ +   
Sbjct: 115 AIRKEPRIPELELPAKIVMDAGEFKKAIAAADKISDQVIFRSDKEGFRIEAKGDVDSIVF 174

Query: 181 VLRQNTTVDKPEEATIIEMHEPVSLTFALRYMNSFTRATPLSNTVTISLSSELPVVVEYK 240
            + +   ++                 F++ Y+  F +     + +TI L +  PV + ++
Sbjct: 175 HMTETELIE--------FNGGEARSMFSVDYLKEFCKVAGSGDLLTIHLGTNYPVRLVFE 226

Query: 241 I-AEMGYIRFYLAPKIEED 258
           +      + + LAP+IE +
Sbjct: 227 LVGGRAKVEYILAPRIESE 245

>3l0w_B Monoubiquitinated proliferating cell nuclear antigen, proliferating cell nuclear antigen; replication, DNA damage, DNA repair; 2.80A {Saccharomyces cerevisiae} PDB: 3l10_B Length = 169

 Score =  156 bits (395), Expect = 5e-48
 Identities = 49/175 (28%), Positives = 85/175 (48%), Gaps = 14/175 (8%)

Query: 88  ITLKADDGSDTVTFMFESPTQDKIADFEMKLMDIDSEHLGIPEAEYHAIVRMPSAEFARI 147
           I +K   G    T   E  + D I + + K+ D      GIP  +   I      E  R 
Sbjct: 3   IFVKTLTGK---TITLEVESSDTIDNVKSKIQD----KEGIPPDQQRLIFAGKQLEDGRT 55

Query: 148 CKDLASIGDTVVISVTK------EGVKFSTRGDIGTANIVLRQNTTVDKPEEATIIEMHE 201
             D     ++ +  V +      E +KF   GDIG+ +++++    ++ PE +  +EM +
Sbjct: 56  LSDYNIQKESTLHLVLRLRGGGGETIKFVADGDIGSGSVIIKPFVDMEHPETSIKLEMDQ 115

Query: 202 PVSLTFALRYMNSFTRATPLSNTVTISLSSELPVVVEYKIAEMGYIRFYLAPKIE 256
           PV LTF  +Y+    + + LS+ V I LSSE P + ++ + + G+++F+LAPK  
Sbjct: 116 PVDLTFGAKYLLDIIKGSSLSDRVGIRLSSEAPALFQFDL-KSGFLQFFLAPKFN 169

>3pge_A SUMO-modified proliferating cell nuclear antigen; DNA replication, DNA binding protein; 2.80A {Saccharomyces cerevisiae} Length = 200

 Score =  142 bits (358), Expect = 3e-42
 Identities = 48/204 (23%), Positives = 92/204 (45%), Gaps = 29/204 (14%)

Query: 70  MNLNNVSKMLKCAGNDDIITLKADDGSDTVTFMFESPTQDKIADFEMKLMDIDSEHLG-- 127
           +N     ++      +  I LK  DGS  + F  +  T  +      +LM+  ++  G  
Sbjct: 12  VNQEAKPEVKPEVKPETHINLKVSDGSSEIFFKIKKTTPLR------RLMEAFAKRQGKE 65

Query: 128 ------------IPEAEYHAIVRMPSAEFARICKDLASIGDTVVISVTKEGVKFSTRGDI 175
                       I   +    + M   +     ++         I    E +KF   GDI
Sbjct: 66  MDSLRFLYDGIRIQADQTPEDLDMEDNDIIEAHRE--------QIGGGGETIKFVADGDI 117

Query: 176 GTANIVLRQNTTVDKPEEATIIEMHEPVSLTFALRYMNSFTRATPLSNTVTISLSSELPV 235
           G+ +++++    ++ PE +  +EM +PV LTF  +Y+    + + LS+ V I LSSE P 
Sbjct: 118 GSGSVIIKPFVDMEHPETSIKLEMDQPVDLTFGAKYLLDIIKGSSLSDRVGIRLSSEAPA 177

Query: 236 VVEYKIAEMGYIRFYLAPKIEEDE 259
           + ++ + + G+++F+LAPK  ++E
Sbjct: 178 LFQFDL-KSGFLQFFLAPKFNDEE 200

>3a1j_C Cell cycle checkpoint protein RAD1; DNA damage, DNA repair, exonuclease, hydrolase, nuclease, nucleus, phosphoprotein, polymorphism, cytoplasm; HET: SUC; 2.50A {Homo sapiens} PDB: 3g65_B 3ggr_C Length = 263

 Score =  137 bits (347), Expect = 1e-39
 Identities = 31/266 (11%), Positives = 95/266 (35%), Gaps = 23/266 (8%)

Query: 2   LELRLVQGSLLKKVLEAIKELVNDANFDCSATGFSLQAMDSSHVALVALLLRSEGFEHYR 61
           L   L     L  +L+AI      A    +  G  +   ++         +++  F+ ++
Sbjct: 5   LVASLDNVRNLSTILKAIH-FREHATCFATKNGIKVTVENA-KCVQANAFIQAGIFQEFK 62

Query: 62  C-DRNISMGMNLNNVSKMLKCAGNDDI------ITLKADDGSDTVTFMFESPTQDKIADF 114
             + +++  +NL  +   L   G+  +      + +        +    E      +   
Sbjct: 63  VQEESVTFRINLTVLLDCLSIFGSSPMPGTLTALRMCYQGYGYPLMLFLEEG--GVVTVC 120

Query: 115 EMKLMDI-DSEHLGIPEAEYHAIVRMPSAEFARICKDLASIGDTVVISVTKE--GVKFST 171
           ++   +  ++             + + S        +L    + + I+++ +    + ST
Sbjct: 121 KINTQEPEETLDFDFCSTNVINKIILQSEGLREAFSELDMTSEVLQITMSPDKPYFRLST 180

Query: 172 RGDIGTANIVLRQNTTVDKPEEATIIEMHEPVSLTFALRYMNSFTRATPLSNTVTISLSS 231
            G+ G++++   +++ +           ++     + +  +   T+A  LS  V+I   +
Sbjct: 181 FGNAGSSHLDYPKDSDLM-----EAFHCNQTQVNRYKISLLKPSTKALVLSCKVSIRTDN 235

Query: 232 ELPVVVEYKI----AEMGYIRFYLAP 253
              + ++Y I     ++ ++ +Y  P
Sbjct: 236 RGFLSLQYMIRNEDGQICFVEYYCCP 261

>3g65_A Cell cycle checkpoint control protein RAD9A; PCNA, DNA binding clamp, DNA damage, DNA repair, exonuclease, hydrolase, nuclease, nucleus, phosphoprotein; 2.90A {Homo sapiens} Length = 296

 Score =  104 bits (261), Expect = 7e-27
 Identities = 35/266 (13%), Positives = 85/266 (31%), Gaps = 14/266 (5%)

Query: 12  LKKVLEAIKELVNDANFDCSATGFSLQAMDSSHVALVALLLRSEGFEHYRC----DRNIS 67
           L K + ++  + ++   +    G SL+ ++SS  A    L     F+ Y+        + 
Sbjct: 13  LGKAVHSLSRIGDELYLEPLEDGLSLRTVNSSRSAYACFLFAPLFFQQYQAATPGQDLLR 72

Query: 68  MGMNLNNVSKMLKCAGNDD----IITLKADDGSDTVTFMFESPTQDKIADFEMKLMDIDS 123
             + + +   + +     +       +  +  S  +                +   D +S
Sbjct: 73  CKILMKSFLSVFRSLAMLEKTVEKCCISLNGRSSRLVVQLHC-KFGVRKTHNLSFQDCES 131

Query: 124 EHLGIPEAEYHAIVRMPSAEFARICKDLASIGDTVVISVTK-EGVKFSTRGDIGTANIVL 182
                  A    ++R P+          +     V + + +   V   +  +    +   
Sbjct: 132 LQAVFDPASCPHMLRAPARVLGEAVLPFSPALAEVTLGIGRGRRVILRSYHEEEADSTAK 191

Query: 183 RQNTTVD-KPEEATIIEMHEPVSLTFALRYMNSF-TRATPLSNTVTISLSSE-LPVVVEY 239
              T +    E+   ++  E V++TF L+      + A   +  ++I   +   P +   
Sbjct: 192 AMVTEMCLGEEDFQQLQAQEGVAITFCLKEFRGLLSFAESANLNLSIHFDAPGRPAIFTI 251

Query: 240 KIAEMGYIRFYLAPKIEEDEDETKPQ 265
           K + +    F LA   + D   T   
Sbjct: 252 KDSLL-DGHFVLATLSDTDSGTTSTS 276

>3a1j_A Cell cycle checkpoint control protein RAD9A; DNA damage, DNA repair, exonuclease, hydrolase, nuclease, nucleus, phosphoprotein, polymorphism, cytoplasm; HET: SUC; 2.50A {Homo sapiens} PDB: 3ggr_A Length = 266

 Score =  101 bits (252), Expect = 1e-25
 Identities = 33/253 (13%), Positives = 82/253 (32%), Gaps = 14/253 (5%)

Query: 12  LKKVLEAIKELVNDANFDCSATGFSLQAMDSSHVALVALLLRSEGFEHYRC----DRNIS 67
           L K + ++  + ++   +    G SL+ ++SS  A    L     F+ Y+        + 
Sbjct: 13  LGKAVHSLSRIGDELYLEPLEDGLSLRTVNSSRSAYACFLFAPLFFQQYQAATPGQDLLR 72

Query: 68  MGMNLNNVSKMLKCAGNDD----IITLKADDGSDTVTFMFESPTQDKIADFEMKLMDIDS 123
             + + +   + +     +       +  +  S  +                +   D +S
Sbjct: 73  CKILMKSFLSVFRSLAMLEKTVEKCCISLNGRSSRLVVQLHC-KFGVRKTHNLSFQDCES 131

Query: 124 EHLGIPEAEYHAIVRMPSAEFARICKDLASIGDTVVISVTK-EGVKFSTRGDIGTANIVL 182
                  A    ++R P+          +     V + + +   V   +  +    +   
Sbjct: 132 LQAVFDPASCPHMLRAPARVLGEAVLPFSPALAEVTLGIGRGRRVILRSYHEEEADSTAK 191

Query: 183 RQNTTVD-KPEEATIIEMHEPVSLTFALRYMNSF-TRATPLSNTVTISLSSE-LPVVVEY 239
              T +    E+   ++  E V++TF L+      + A   +  ++I   +   P +   
Sbjct: 192 AMVTEMCLGEEDFQQLQAQEGVAITFCLKEFRGLLSFAESANLNLSIHFDAPGRPAIFTI 251

Query: 240 KIAEMGYIRFYLA 252
           K + +    F LA
Sbjct: 252 KDSLL-DGHFVLA 263

Structure Templates Detected by HHsearch

Original result of HHsearch against PDB70 database

ID	Length	Definition	Probability
Query	266
3p91_A	265	Proliferating cell nuclear antigen; DNA binding pr	100.0
3fds_C	249	DNA polymerase sliding clamp B; protein-protein co	100.0
3lx2_A	259	DNA polymerase sliding clamp 2; PCNA, DNA processi	100.0
3fds_D	245	DNA polymerase sliding clamp C; protein-protein co	100.0
1plq_A	258	Proliferating cell nuclear antigen (PCNA); DNA-bin	100.0
3k4x_A	798	PCNA, proliferating cell nuclear antigen; DNA repl	100.0
1u7b_A	261	PCNA, cyclin, proliferating cell nuclear antigen;	100.0
3ifv_A	247	PCNA; processivity factor, sliding clamp, halophil	100.0
3k4x_A	798	PCNA, proliferating cell nuclear antigen; DNA repl	100.0
2zvv_A	276	PCNA 1, proliferating cellular nuclear antigen 1;	100.0
3aiz_A	248	DNA polymerase sliding clamp B; protein-protein co	100.0
1iz5_A	249	Proliferating cell nuclear antigen; DNA, replicati	100.0
3a1j_C	263	Cell cycle checkpoint protein RAD1; DNA damage, DN	100.0
2ijx_A	244	DNA polymerase sliding clamp A; PCNA3 subunit, pro	100.0
1ud9_A	245	DNA polymerase sliding clamp A; DNA-binding, DNA r	100.0
1rwz_A	245	DNA polymerase sliding clamp; torus, processivity	100.0
3aiz_C	246	DNA polymerase sliding clamp C; protein-protein co	100.0
3a1j_B	281	HHUS1, checkpoint protein HUS1; DNA damage, DNA re	100.0
3a1j_A	266	Cell cycle checkpoint control protein RAD9A; DNA d	100.0
3g65_A	296	Cell cycle checkpoint control protein RAD9A; PCNA,	99.97
3d1g_A	366	DNA polymerase III subunit beta; chemical probe, D	99.95
2avt_A	378	DNA polymerase III beta subunit; beta clamp, slidi	99.94
3t0p_A	371	DNA polymerase III, beta subunit; DNA clamp, struc	99.94
1vpk_A	378	DNA polymerase III, beta subunit; TM0262, structur	99.93
3p16_A	408	DNA polymerase III subunit beta; DNA polymerase II	99.93
3pge_A	200	SUMO-modified proliferating cell nuclear antigen;	99.86
3l0w_B	169	Monoubiquitinated proliferating cell nuclear antig	99.82
1vpk_A	378	DNA polymerase III, beta subunit; TM0262, structur	99.41
3p16_A	408	DNA polymerase III subunit beta; DNA polymerase II	98.79
3t0p_A	371	DNA polymerase III, beta subunit; DNA clamp, struc	98.74
3d1g_A	366	DNA polymerase III subunit beta; chemical probe, D	98.72
2avt_A	378	DNA polymerase III beta subunit; beta clamp, slidi	98.69
1iz5_A	249	Proliferating cell nuclear antigen; DNA, replicati	97.92
3lx2_A	259	DNA polymerase sliding clamp 2; PCNA, DNA processi	97.91
1u7b_A	261	PCNA, cyclin, proliferating cell nuclear antigen;	97.77
1plq_A	258	Proliferating cell nuclear antigen (PCNA); DNA-bin	97.77
3fds_C	249	DNA polymerase sliding clamp B; protein-protein co	97.75
3p91_A	265	Proliferating cell nuclear antigen; DNA binding pr	97.73
3aiz_C	246	DNA polymerase sliding clamp C; protein-protein co	97.72
2zvv_A	276	PCNA 1, proliferating cellular nuclear antigen 1;	97.72
3a1j_A	266	Cell cycle checkpoint control protein RAD9A; DNA d	97.68
3fds_D	245	DNA polymerase sliding clamp C; protein-protein co	97.68
1ud9_A	245	DNA polymerase sliding clamp A; DNA-binding, DNA r	97.63
1rwz_A	245	DNA polymerase sliding clamp; torus, processivity	97.58
2ijx_A	244	DNA polymerase sliding clamp A; PCNA3 subunit, pro	97.56
3a1j_C	263	Cell cycle checkpoint protein RAD1; DNA damage, DN	97.55
3ifv_A	247	PCNA; processivity factor, sliding clamp, halophil	97.47
3aiz_A	248	DNA polymerase sliding clamp B; protein-protein co	97.45
3g65_A	296	Cell cycle checkpoint control protein RAD9A; PCNA,	97.4
1dml_A	319	DNA polymerase processivity factor; herpes simplex	95.29
3a1j_B	281	HHUS1, checkpoint protein HUS1; DNA damage, DNA re	94.51
3pge_A	200	SUMO-modified proliferating cell nuclear antigen;	86.4
1b77_A	228	GP45, protein (sliding clamp); replisome; 2.10A {E	85.68

>3p91_A Proliferating cell nuclear antigen; DNA binding protein, DNA replication, processivity, sliding; 2.40A {Entamoeba histolytica}

Probab=100.00  E-value=3.5e-58  Score=398.20  Aligned_cols=258  Identities=34%  Similarity=0.661  Sum_probs=232.8

Q ss_pred             CeeEEEcChhhHHHHHHHHHhhhceeeEEEeCCceEEEEECCCCeEEEEEEecCCCcceeeeCCcEEEEEEhhhHHHHhc
Q 024527            1 MLELRLVQGSLLKKVLEAIKELVNDANFDCSATGFSLQAMDSSHVALVALLLRSEGFEHYRCDRNISMGMNLNNVSKMLK   80 (266)
Q Consensus         1 mf~a~~~~~~~~k~i~~~l~~l~~~~~~~~~~~gl~~~a~D~~r~a~v~~~l~~~~F~~y~~~~~~~~gi~l~~L~~ilk   80 (266)
                      ||+|++.+|+.||++++++++++++|+|+++++||+++|+|++|+|++.+.+++++|++|+|++++++|++++.|.|+||
T Consensus         6 mf~a~~~~a~~lk~ii~ai~~i~~~v~~~~~~~gl~~~A~D~~rvalv~~~l~~~~F~~y~~d~~~~igi~l~~L~kiLk   85 (265)
T 3p91_A            6 AFHAKFKEAALFKRVVESLKSTIDKTNFDCSDAGIAVQCMDNSHVSLVSLLIETDAFDEFQCLKPITLGINLTHLSKILK   85 (265)
T ss_dssp             SEEEEESCHHHHHHHHHHHHTTCSEEEEEEETTEEEEEEECTTSSSEEEEEECGGGEEEEECSSCEEEEEEHHHHHHHHT
T ss_pred             EEEEEECchHHHHHHHHHHHHHhceEEEEEeCCeEEEEEECCCcEEEEEEEEChhhceEEEeCCCeEEEEEHHHHHHHHh
Confidence            99999999999999999999999999999999999999999999999999999999999999999999999999999999


Q ss_pred             ccCCCceEEEEEcCCCCeEEEEEeCCCCCeEEEEEEeeeecCCCCCCCCcceeeEEEEEehHHHHHHHHHhhccC-CEEE
Q 024527           81 CAGNDDIITLKADDGSDTVTFMFESPTQDKIADFEMKLMDIDSEHLGIPEAEYHAIVRMPSAEFARICKDLASIG-DTVV  159 (266)
Q Consensus        81 ~~~~~d~l~l~~~~~~~~l~i~~~~~~~~~~~~~~l~li~~~~~~~~ip~~~~~~~i~~~s~~~~~~i~~~~~~~-d~v~  159 (266)
                      +++++|.++|.+++++++|.|.+++.+.+++ .|.+++++++++++.+|+.+|+++++|++++|+++|++++.+| +.|+
T Consensus        86 ~~~~~d~v~i~~~~~~~~l~~~~e~~~~~~i-~~~lrLid~~~~~~~iP~~e~~~~v~~~s~~f~~~i~~~~~~s~d~V~  164 (265)
T 3p91_A           86 ALDNDCGLILDVKKVDDAVLSITSEGTNKTM-KFGLNLVDIEAESVEIPELQSDAIITLSSAEFLKITKDFSALGDDSIT  164 (265)
T ss_dssp             TSCTTSEEEEEECSSSSEEEEEEEC--CCEE-EEEEECCCCCCCCCCCCCCCCSEEEEEEHHHHHHHHHHHHHHCCSEEE
T ss_pred             hcCCCCEEEEEEcCCCCeEEEEEEeCCCceE-EEEEEecccCcccCCCCCCCccEEEEEEHHHHHHHHHHHHhCCCCEEE
Confidence            9999999999999888899999998765555 9999999999999999988999999999999999999999999 9999


Q ss_pred             EEEeCCeEEEEEEecceeEEEEEeecccCCCCCCceEEEecCcEEEEEehHHHHhccccCCCCceEEEEecCCCcEEEEE
Q 024527          160 ISVTKEGVKFSTRGDIGTANIVLRQNTTVDKPEEATIIEMHEPVSLTFALRYMNSFTRATPLSNTVTISLSSELPVVVEY  239 (266)
Q Consensus       160 i~~~~~~l~~s~~gd~g~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~f~~~yL~~~~k~~~ls~~v~l~~~~~~Pl~l~~  239 (266)
                      |.+++++++|+++||.|++++.++.+.+.+  +..+.++++++++++|+++||++++|+++++++|+|+|+++.||+++|
T Consensus       165 i~~~~~~v~~ss~gd~G~~~~~l~~~~~~~--~~~~~~~~~e~~~~~F~~~YL~~~~Ka~~ls~~V~i~~~~~~Pl~l~~  242 (265)
T 3p91_A          165 IGCTKNEVTLTTKGAMCETCMTLSALENVD--SNGLQIEHNKDVTASFALKQISEFAKSAPLADNVKLSLSGQAPLIMEF  242 (265)
T ss_dssp             EEECSSEEEEEEECSSCEEEEEEEC---------CCEEEESSCEEEEEEHHHHHHHGGGGGGCSEEEEEECSSSCEEEEE
T ss_pred             EEEECCEEEEEEEecCceEEEEEecCCCCC--CceEEEEcCCcEEEEEEHHHHHHhhcccccCCEEEEEeCCCccEEEEE
Confidence            999999999999999999999996432111  233458889999999999999999999999999999999999999999


Q ss_pred             EeCCcEEEEEEEcccCCCCcccC
Q 024527          240 KIAEMGYIRFYLAPKIEEDEDET  262 (266)
Q Consensus       240 ~i~~~g~~~~~iaPr~~~~~~~~  262 (266)
                      .+ ++|+++||||||+++||+.+
T Consensus       243 ~i-~~g~~~f~lAPri~~~~~~~  264 (265)
T 3p91_A          243 KG-EACVLKFYLAPKFDEEDEPQ  264 (265)
T ss_dssp             EE-TTEEEEEEECCBC-------
T ss_pred             EE-CCEEEEEEEcCCCCCccCCC
Confidence            99 77999999999999887554

>3fds_C DNA polymerase sliding clamp B; protein-protein complex, DNA damage, DNA repair, DNA replica DNA-binding, DNA-directed DNA polymerase; HET: DNA 1PE PGE; 2.05A {Sulfolobus solfataricus} PDB: 2io4_A* 2nti_D* 2hii_A 2hik_A 2ix2_A* 2izo_C*

Probab=100.00  E-value=6e-58  Score=392.84  Aligned_cols=247  Identities=13%  Similarity=0.260  Sum_probs=233.7

Q ss_pred             CeeEEEcChhhHHHHHHHHHhhhceeeEEEeCCceEEEEECCCCeEEEEEEecCCCcceeeeCCcEEEEEEhhhHHHHhc
Q 024527            1 MLELRLVQGSLLKKVLEAIKELVNDANFDCSATGFSLQAMDSSHVALVALLLRSEGFEHYRCDRNISMGMNLNNVSKMLK   80 (266)
Q Consensus         1 mf~a~~~~~~~~k~i~~~l~~l~~~~~~~~~~~gl~~~a~D~~r~a~v~~~l~~~~F~~y~~~~~~~~gi~l~~L~~ilk   80 (266)
                      ||+|++++|+.||+++++++.++++++|+++++||+++|||++|+||+++.|++++|++|+|++++++|||++.|.||||
T Consensus         1 Mf~a~~~~a~~lk~ii~ai~~lv~e~~~~~~~~Gi~l~amD~s~valv~l~l~~~~F~~Y~~d~~~~~gvnl~~l~kiLk   80 (249)
T 3fds_C            1 MVKIVYPNAKDFFSFINSITNVTDSIILNFTEDGIFSRHLTEDKVLMAIMRIPKDVLSEYSIDSPTSVKLDVSSVKKILS   80 (249)
T ss_dssp             CCEEEESCHHHHHHHHHHHTTTCSSEEEEECSSEEEEEEECTTSSEEEEEEEEGGGSSEEECSSCEEEEECHHHHHHHHT
T ss_pred             CEEEEeCchHHHHHHHHHHHHHhCeEEEEEcCCeEEEEEECCCcEEEEEEEECHHhCeEEECCCCeEEEEEHHHHHHHHH
Confidence            99999999999999999999999999999999999999999999999999999999999999999999999999999999


Q ss_pred             ccC-CCceEEEEEcCCCCeEEEEEeCCCCCeEEEEEEeeeecCCCCCCCCcceeeEEEEEehHHHHHHHHHhhccCCEEE
Q 024527           81 CAG-NDDIITLKADDGSDTVTFMFESPTQDKIADFEMKLMDIDSEHLGIPEAEYHAIVRMPSAEFARICKDLASIGDTVV  159 (266)
Q Consensus        81 ~~~-~~d~l~l~~~~~~~~l~i~~~~~~~~~~~~~~l~li~~~~~~~~ip~~~~~~~i~~~s~~~~~~i~~~~~~~d~v~  159 (266)
                      +++ ++|  +|++++++++|.|.+++.+.|++++|.+++++.+.+++++|+.+|+++++|++++|+++|++++.+||.|+
T Consensus        81 ~~~~~~d--~l~~~~~~~~l~i~~e~~~~~~~~~~~l~l~d~~~e~~~~p~~e~~~~v~m~s~~f~~~~~dl~~~sd~v~  158 (249)
T 3fds_C           81 KASSKKA--TIELTETDSGLKIIIRDEKSGAKSTIYIKAEKGQVEQLTEPKVNLAVNFTTDESVLNVIAADVTLVGEEMR  158 (249)
T ss_dssp             TCCCSCE--EEEEEECSSEEEEEEEETTTCCEEEEEEECEECCCCCCCCCCCCCCEEEEECHHHHHHHHHHHHHHCSEEE
T ss_pred             hhCCCCC--EEEEecCCCEEEEEEEeCCCCEEEEEEEECCCCccccCCCCCCcceEEEEEEHHHHHHHHHHHHHhCCEEE
Confidence            999 888  55666667799999998877899999999999999999999999999999999999999999999999999


Q ss_pred             EEEeCCeEEEEEEecceeEEEEEeecccCCCCCCceEEEecCcEEEEEehHHHHhccc-cCCCCceEEEEecCCCcEEEE
Q 024527          160 ISVTKEGVKFSTRGDIGTANIVLRQNTTVDKPEEATIIEMHEPVSLTFALRYMNSFTR-ATPLSNTVTISLSSELPVVVE  238 (266)
Q Consensus       160 i~~~~~~l~~s~~gd~g~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~f~~~yL~~~~k-~~~ls~~v~l~~~~~~Pl~l~  238 (266)
                      |.+++++++|++.||.|+.+..++..      ++.+.++++++++.+|+++||++++| +++++++|+|++++++||+++
T Consensus       159 i~~~~~~~~f~~~gd~~~~~~~~~~~------~~l~~~~~~~~~~~~fsl~yL~~~~K~a~~ls~~V~i~~~~~~Pl~l~  232 (249)
T 3fds_C          159 ISTEEDKIKIEAGEEGKRYVAFLMKD------KPLKELSIDTSASSSYSAEMFKDAVKGLRGFSAPTMVSFGENLPMKID  232 (249)
T ss_dssp             EEEETTEEEEEEEETTEEEEEEEEET------BEESEEEESSCCEEEEEHHHHHHHHHTTTTCCSCEEEEECTTCCEEEE
T ss_pred             EEEECCEEEEEEEecCcEEEEEEcCC------CCcEEEEcCCceEEEEEHHHHHHHHhhhcccCCEEEEEecCCcCEEEE
Confidence            99999999999999999999988542      23446788999999999999999999 999999999999999999999


Q ss_pred             EEeCCcEEEEEEEcccC
Q 024527          239 YKIAEMGYIRFYLAPKI  255 (266)
Q Consensus       239 ~~i~~~g~~~~~iaPr~  255 (266)
                      |.++++|+++||||||+
T Consensus       233 y~i~~~G~l~f~lAPri  249 (249)
T 3fds_C          233 VEAVSGGHMIFWIAPRL  249 (249)
T ss_dssp             EECTTSCEEEEEECCBC
T ss_pred             EEeCCCcEEEEEEeccC
Confidence            99998899999999996

>3lx2_A DNA polymerase sliding clamp 2; PCNA, DNA processivity factor, trimer, toroidal, DNA replica DNA-binding, DNA binding protein; HET: DNA; 2.40A {Thermococcus kodakarensis}

Probab=100.00  E-value=5.5e-55  Score=377.15  Aligned_cols=250  Identities=20%  Similarity=0.388  Sum_probs=231.7

Q ss_pred             CeeEEEcChhhHHHHHHHHHhhhceeeEEEeCCceEEEEECCCCeEEEEEEecCCCcceeeeCCcEEEEEEhhhHHHHhc
Q 024527            1 MLELRLVQGSLLKKVLEAIKELVNDANFDCSATGFSLQAMDSSHVALVALLLRSEGFEHYRCDRNISMGMNLNNVSKMLK   80 (266)
Q Consensus         1 mf~a~~~~~~~~k~i~~~l~~l~~~~~~~~~~~gl~~~a~D~~r~a~v~~~l~~~~F~~y~~~~~~~~gi~l~~L~~ilk   80 (266)
                      ||+|++.+|+.||++++++++++++|+|+++++||+++|+|++|+|++.+.+++++|++|+|++++++|++++.|.|+||
T Consensus         2 ~f~a~~~~a~~lk~ii~ai~~i~~~v~~~~~~~gl~~~A~D~~rvalv~~~l~~~~F~~y~~~~~~~igi~l~~L~kiLk   81 (259)
T 3lx2_A            2 TFEIVFDSAREFESLIATLEKFFDEAVFQVNMEGIQMRAIDPSRVVLVDLNLPEMLFSKYSVESEEAIAFDLKRFLKVLK   81 (259)
T ss_dssp             CEEEEESCHHHHHHHHHHHHTTCSEEEEEECSSEEEEEEECTTSCEEEEEEEEGGGSSEEEESSCEEEEEEHHHHHHHHT
T ss_pred             eEEEEECcHHHHHHHHHHHHHHhceEEEEEecCeEEEEEECCCCEEEEEEEEChHhcEEEEcCCCEEEEEEHHHHHHHHH
Confidence            89999999999999999999999999999999999999999999999999999999999999999999999999999999


Q ss_pred             ccCCCceEEEEEcCCCCeEEEEEeCCCCCeEEEEEEeeeecCCCCCCCCcceeeEEEEEehHHHHHHHHHhhccCCEEEE
Q 024527           81 CAGNDDIITLKADDGSDTVTFMFESPTQDKIADFEMKLMDIDSEHLGIPEAEYHAIVRMPSAEFARICKDLASIGDTVVI  160 (266)
Q Consensus        81 ~~~~~d~l~l~~~~~~~~l~i~~~~~~~~~~~~~~l~li~~~~~~~~ip~~~~~~~i~~~s~~~~~~i~~~~~~~d~v~i  160 (266)
                      +++++|.++|+ .+++++|.|.+++.+   ++.|.++++|++++++++|+.+|+++++|++++|+++|+|++.+|+.|+|
T Consensus        82 ~~~~~d~v~i~-~~~~~~l~~~~e~~~---~~~~~~rLid~~~~~~~iP~~e~~~~v~~~s~~f~~~i~~~~~~sd~V~i  157 (259)
T 3lx2_A           82 LARSRDTLVLR-KGGENFLEVGLLGDE---NTWFKLPLIDANTPEIEIPSLPWTVKAVVLAGALKRAVKAAKLVSDSIYF  157 (259)
T ss_dssp             TCCTTCEEEEE-ECSSSEEEEEEESSS---EEEEEEECCCCCCCCCCCCCCCCCEEEEEEHHHHHHHHHHHHHHCSEEEE
T ss_pred             hcCCCCEEEEE-ECCCCEEEEEEecCc---eEEEEEEeeccCcccCCCCCCceeEEEEEEHHHHHHHHHHHHhcCCEEEE
Confidence            99999999999 555679999999863   67999999999999999998899999999999999999999999999999


Q ss_pred             EEeCCeEEEEEEecceeEEEEEeecccCCCCCCceEEEec-CcEEEEEehHHHHhccccCCCCceEEEEecCCCcEEEEE
Q 024527          161 SVTKEGVKFSTRGDIGTANIVLRQNTTVDKPEEATIIEMH-EPVSLTFALRYMNSFTRATPLSNTVTISLSSELPVVVEY  239 (266)
Q Consensus       161 ~~~~~~l~~s~~gd~g~~~~~~~~~~~~~~~~~~~~~~~~-~~~~~~f~~~yL~~~~k~~~ls~~v~l~~~~~~Pl~l~~  239 (266)
                      .+++++++|+++||.|+++++++..     ++..+.++++ ++++++|+++||++++|+++++++|+|+|++++||+++|
T Consensus       158 ~~~~~~v~~ss~gd~G~~~~~l~~~-----~~~~~~~~~~~e~~~~~F~~~YL~~~~Ka~~~s~~V~l~~~~~~Pl~l~~  232 (259)
T 3lx2_A          158 MATPEKLTFKAEGNDSEVRTVLTME-----DPGLLDLEHKMTKAKSAYGVAYLEDILRSLADADEVIIRFGFDIPLLLKY  232 (259)
T ss_dssp             EECSSCEEEEEECSSCEEEEEECTT-----STTEEEEEESSSCEEEEEEHHHHHHHHSSSCTTSEEEEEECTTSCEEEEE
T ss_pred             EEECCEEEEEEEecCcEEEEEEcCC-----CCceEEEEecCceEEEEEEHHHHHhhhccccCCCeEEEEeCCCCCEEEEE
Confidence            9999999999999999999999521     2233458888 999999999999999999998999999999999999999


Q ss_pred             EeCCcEEEEEEEcccCCCCc
Q 024527          240 KIAEMGYIRFYLAPKIEEDE  259 (266)
Q Consensus       240 ~i~~~g~~~~~iaPr~~~~~  259 (266)
                      +++++|++.||||||+++.-
T Consensus       233 ~i~~~g~~~y~laP~~~~~~  252 (259)
T 3lx2_A          233 MVRDAGEVSFLIAPRVEEGR  252 (259)
T ss_dssp             EETTTEEEEEEECCCC----
T ss_pred             EeCCCeEEEEEEccccCCCc
Confidence            99878999999999998653

>3fds_D DNA polymerase sliding clamp C; protein-protein complex, DNA damage, DNA repair, DNA replica DNA-binding, DNA-directed DNA polymerase; HET: DNA 1PE PGE; 2.05A {Sulfolobus solfataricus} PDB: 2nti_E* 2io4_B* 2ix2_B* 2hik_B 2hii_B* 2izo_B*

Probab=100.00  E-value=3.7e-54  Score=369.17  Aligned_cols=244  Identities=22%  Similarity=0.464  Sum_probs=225.1

Q ss_pred             CeeEEEcChhhHHHHHHHHHhhhceeeEEEeCCceEEEEECCCCeEEEEEEecCCCcceeeeCCcEE-EEEEhhhHHHHh
Q 024527            1 MLELRLVQGSLLKKVLEAIKELVNDANFDCSATGFSLQAMDSSHVALVALLLRSEGFEHYRCDRNIS-MGMNLNNVSKML   79 (266)
Q Consensus         1 mf~a~~~~~~~~k~i~~~l~~l~~~~~~~~~~~gl~~~a~D~~r~a~v~~~l~~~~F~~y~~~~~~~-~gi~l~~L~~il   79 (266)
                      ||+|++.+|+.||+++++++.++++|+|+++++||+++|+|++|+|++.+.++++.|++|+|+.+.. +|++++.|.|+|
T Consensus         1 m~~a~~~~a~~~k~i~~ai~~i~~~~~~~~~~~gl~~~A~D~~rval~~~~l~~~~F~~y~~~~~~~i~gi~l~~l~kiL   80 (245)
T 3fds_D            1 MMKAKVIDAVSFSYILRTVGDFLSEANFIVTKEGIRVSGIDPSRVVFLDIFLPSSYFEGFEVSQEKEIIGFKLEDVNDIL   80 (245)
T ss_dssp             CEEEEESCHHHHHHHHHHHHTTCSEEEEEEETTEEEEEEECTTSSEEEEEEEEGGGEEEEEESSSCEEEEEEHHHHHHHH
T ss_pred             CEEEEeCcHHHHHHHHHHHHHHhceEEEEEcCCeEEEEEECCCCEEEEEEEEChHhCEEEEeCCccEEEEEEHHHHHHHH
Confidence            9999999999999999999999999999999999999999999999999999999999999999888 999999999999


Q ss_pred             cccCCCceEEEEEcCCCCeEEEEEeCCCCCeEEEEEEeeeecCCCCCCCCcceeeEEEEEehHHHHHHHHHhhccCCEEE
Q 024527           80 KCAGNDDIITLKADDGSDTVTFMFESPTQDKIADFEMKLMDIDSEHLGIPEAEYHAIVRMPSAEFARICKDLASIGDTVV  159 (266)
Q Consensus        80 k~~~~~d~l~l~~~~~~~~l~i~~~~~~~~~~~~~~l~li~~~~~~~~ip~~~~~~~i~~~s~~~~~~i~~~~~~~d~v~  159 (266)
                      |+++++|.++|+++  ++++.|.+++..   +|.|.++++|+++|++++|+.+|+++++|++++|+++|+|++.+|+.|+
T Consensus        81 ~~~~~~d~v~i~~~--~~~l~~~~~~~~---~~~~~~rLid~~~~~~~iP~~~~~~~v~~~s~~f~~~i~~~~~~s~~V~  155 (245)
T 3fds_D           81 KRVLKDDTLILSSN--ESKLTLTFDGEF---TRSFELPLIQVESTQPPSVNLEFPFKAQLLTITFADIIDELSDLGEVLN  155 (245)
T ss_dssp             TTCCTTCEEEEEEC--SSEEEEEEESSS---EEEEEEECCCCCCCCC----CCCSEEEEEEHHHHHHHHHHHTTTCSEEE
T ss_pred             HhcCCCCEEEEEEe--CCEEEEEEecCc---eEEEEEEeecCCcccCCCCCcceEEEEEEEHHHHHHHHHHHHhcCCEEE
Confidence            99998999999994  459999999874   6899999999999999999889999999999999999999999999999


Q ss_pred             EEEeCCeEEEEEEecceeEEEEEeecccCCCCCCceEEEecCcEEEEEehHHHHhccccCCCCceEEEEecCCCcEEEEE
Q 024527          160 ISVTKEGVKFSTRGDIGTANIVLRQNTTVDKPEEATIIEMHEPVSLTFALRYMNSFTRATPLSNTVTISLSSELPVVVEY  239 (266)
Q Consensus       160 i~~~~~~l~~s~~gd~g~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~f~~~yL~~~~k~~~ls~~v~l~~~~~~Pl~l~~  239 (266)
                      |.+++++++|+++||.|+++++++..     .+..+.++ +++++++|+++||++++|+++++++|+|+|+++.|+.++|
T Consensus       156 i~~~~~~l~~s~~gd~g~~~~~l~~~-----~~~~~~~~-~e~~~~~F~~~YL~~~~ka~~~s~~V~i~~~~~~Pl~l~~  229 (245)
T 3fds_D          156 IHSKENKLYFEVIGDLSTAKVELSTD-----NGTLLEAS-GADVSSSYGMEYVANTTKMRRASDSMELYFGSQIPLKLRF  229 (245)
T ss_dssp             EEEETTEEEEEEECSSCEEEEEECTT-----SSSCSEEE-ECCCEEEEEHHHHHHGGGGGGTCSEEEEEECTTSCEEEEE
T ss_pred             EEEeCCEEEEEEEecCcEEEEEEcCC-----CCceEEEe-cceEEEEEEHHHHHHHhhhcccCCEEEEEecCCccEEEEE
Confidence            99999999999999999999999531     12223466 8999999999999999999999999999999999999999


Q ss_pred             EeCCcEEEEEEEcccC
Q 024527          240 KIAEMGYIRFYLAPKI  255 (266)
Q Consensus       240 ~i~~~g~~~~~iaPr~  255 (266)
                      .++++|+++||||||+
T Consensus       230 ~i~~~g~~~y~laPr~  245 (245)
T 3fds_D          230 KLPQEGYGDFYIAPRA  245 (245)
T ss_dssp             ECSTTCEEEEEECCCC
T ss_pred             EeCCCeEEEEEEeecC
Confidence            9988899999999996

>1plq_A Proliferating cell nuclear antigen (PCNA); DNA-binding, nuclear protein, DNA replication, processivity; 2.30A {Saccharomyces cerevisiae} SCOP: d.131.1.2 d.131.1.2 PDB: 1plr_A 2od8_A* 1sxj_F* 3f1w_A 3v60_B 3v61_B 3v62_B* 3gpn_A 3gpm_A 3l0w_A 3l0x_A 3l10_A 3pge_B 3l0x_B

Probab=100.00  E-value=1.9e-53  Score=367.46  Aligned_cols=258  Identities=38%  Similarity=0.778  Sum_probs=242.3

Q ss_pred             CeeEEEcChhhHHHHHHHHHhhhceeeEEEeCCceEEEEECCCCeEEEEEEecCCCcceeeeCCcEEEEEEhhhHHHHhc
Q 024527            1 MLELRLVQGSLLKKVLEAIKELVNDANFDCSATGFSLQAMDSSHVALVALLLRSEGFEHYRCDRNISMGMNLNNVSKMLK   80 (266)
Q Consensus         1 mf~a~~~~~~~~k~i~~~l~~l~~~~~~~~~~~gl~~~a~D~~r~a~v~~~l~~~~F~~y~~~~~~~~gi~l~~L~~ilk   80 (266)
                      ||+|++.+++.||++++++++++++|+|+++++||+++|+|++|+|++.+.++++.|++|+|++++.+|++++.|.++||
T Consensus         1 mf~a~~~~~~~~~~i~~~i~~i~~~v~~~~~~~gl~~~a~D~~rla~~~~~l~~~~F~~y~~~~~~~~~i~l~~l~kil~   80 (258)
T 1plq_A            1 MLEAKFEEASLFKRIIDGFKDCVQLVNFQCKEDGIIAQAVDDSRVLLVSLEIGVEAFQEYRCDHPVTLGMDLTSLSKILR   80 (258)
T ss_dssp             CEEEEESSHHHHHHHHHHHTTTCSEEEEEEETTEEEEEEECTTSSEEEEEEEEGGGSSEECCSSCEEEEEEHHHHHHHTT
T ss_pred             CeEEEecchHHHHHHHHHHHHHhceEEEEEcCCceEEEEECCCcEEEEEEEECHHhCcEEEeCCCeEEEEEHHHHHHHHh
Confidence            99999999999999999999999999999999999999999999999999999999999999999999999999999999


Q ss_pred             ccCCCceEEEEEcCCCCeEEEEEeCCCCCeEEEEEEeeeecCCCCCCCCcceeeEEEEEehHHHHHHHHHhhccCCEEEE
Q 024527           81 CAGNDDIITLKADDGSDTVTFMFESPTQDKIADFEMKLMDIDSEHLGIPEAEYHAIVRMPSAEFARICKDLASIGDTVVI  160 (266)
Q Consensus        81 ~~~~~d~l~l~~~~~~~~l~i~~~~~~~~~~~~~~l~li~~~~~~~~ip~~~~~~~i~~~s~~~~~~i~~~~~~~d~v~i  160 (266)
                      ++++++.++|.++++++++.|.+++.+.++++.|.++++++++|++.+|+.+|+++++|+++.|+++|+|++.+|+.|+|
T Consensus        81 ~~~~~d~v~i~~~~~~~~l~~~~~~~~~~~~~~~~~rlie~~~~~~~ip~~~~~~~i~~~~~~l~~av~r~~~~s~~v~i  160 (258)
T 1plq_A           81 CGNNTDTLTLIADNTPDSIILLFEDTKKDRIAEYSLKLMDIDADFLKIEELQYDSTLSLPSSEFSKIVRDLSQLSDSINI  160 (258)
T ss_dssp             CSTTTSEEEEEECSSCSEEEEEEECSSSSCEEEEEEECBCCCCCCCCCCCSCCSEEEEEEHHHHHHHHHHHHTTCSEEEE
T ss_pred             cCCCCCEEEEEecCCCCeEEEEEEcCCCCeEEEEEEEcccCCcccCCCCCCCccEEEEEeHHHHHHHHHHHHhcCCEEEE
Confidence            99888899999988778999999998788899999999999999999998899999999999999999999999999999


Q ss_pred             EEeCCeEEEEEEecceeEEEEEeecccCCCCCCceEEEecCcEEEEEehHHHHhccccCCCCceEEEEecCCCcEEEEEE
Q 024527          161 SVTKEGVKFSTRGDIGTANIVLRQNTTVDKPEEATIIEMHEPVSLTFALRYMNSFTRATPLSNTVTISLSSELPVVVEYK  240 (266)
Q Consensus       161 ~~~~~~l~~s~~gd~g~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~f~~~yL~~~~k~~~ls~~v~l~~~~~~Pl~l~~~  240 (266)
                      .++++.+.|+++||.|+++++++...+.+++++.+.++++++++++|+.+||.+++|+++++++|+|+|+++.|+.++|.
T Consensus       161 ~~~~~~l~ls~~~d~g~~~~~l~~~~~~~~~~~~~~~~~ge~~~i~f~~~yL~~~lka~~~s~~V~i~~~~~~Pl~l~~~  240 (258)
T 1plq_A          161 MITKETIKFVADGDIGSGSVIIKPFVDMEHPETSIKLEMDQPVDLTFGAKYLLDIIKGSSLSDRVGIRLSSEAPALFQFD  240 (258)
T ss_dssp             EEETTEEEEEEECSSCEEEEEECCBCCTTCGGGCBEEEESSCEEEEEEHHHHHHHGGGGGTCSEEEEEECSSSCEEEEEE
T ss_pred             EEECCEEEEEEEccCceEEEEEecCCCCCCCccceEEecCCcEEEEEEHHHHHHHhccccCCceEEEEECCCCCEEEEEE
Confidence            99999999999999999999997554444444555688899999999999999999999999999999999999999998


Q ss_pred             eCCcEEEEEEEcccCCCCc
Q 024527          241 IAEMGYIRFYLAPKIEEDE  259 (266)
Q Consensus       241 i~~~g~~~~~iaPr~~~~~  259 (266)
                      ++ +|++.||||||+++||
T Consensus       241 ~~-~~~~~y~l~P~~~~e~  258 (258)
T 1plq_A          241 LK-SGFLQFFLAPKFNDEE  258 (258)
T ss_dssp             ET-TEEEEEEECCCSSSCC
T ss_pred             EC-CeEEEEEECCcCCCCC
Confidence            87 6899999999999664

>3k4x_A PCNA, proliferating cell nuclear antigen; DNA replication, DNA-binding; HET: DNA; 2.98A {Saccharomyces cerevisiae}

Probab=100.00  E-value=3.1e-54  Score=422.27  Aligned_cols=260  Identities=38%  Similarity=0.770  Sum_probs=243.2

Q ss_pred             CeeEEEcChhhHHHHHHHHHhhhceeeEEEeCCceEEEEECCCCeEEEEEEecCCCcceeeeCCcEEEEEEhhhHHHHhc
Q 024527            1 MLELRLVQGSLLKKVLEAIKELVNDANFDCSATGFSLQAMDSSHVALVALLLRSEGFEHYRCDRNISMGMNLNNVSKMLK   80 (266)
Q Consensus         1 mf~a~~~~~~~~k~i~~~l~~l~~~~~~~~~~~gl~~~a~D~~r~a~v~~~l~~~~F~~y~~~~~~~~gi~l~~L~~ilk   80 (266)
                      ||+|++.+|+.||+++++++.++++++|+++++||+++|||++|++|+++.+++++|++|+|++++++|||++.|.||||
T Consensus         7 Mf~a~~~~a~~~k~ii~ai~~lv~e~~~~~t~~Gi~l~amD~s~v~lv~l~l~~~~F~~Y~~d~~~~~Gvnl~~l~kiLk   86 (798)
T 3k4x_A            7 MLEAKFEEASLFKRIIDGFKDCVQLVNFQCKEDGIIAQAVDDSRVLLVSLEIGVEAFQEYRCDHPVTLGMDLTSLSKILR   86 (798)
T ss_dssp             -CEEEESCHHHHHHHHHHHTTTCSEEEEEEETTEEEEEEECSSSCCEEEEEEEGGGSSEEECSSCEEEEEEHHHHHHHHS
T ss_pred             EEEEEecchHHHHHHHHHHHHHhceEEEEEeCCeEEEEEECCCcEEEEEEEEChhhCeEEecCCCeEEEEEHHHHHHHHh
Confidence            99999999999999999999999999999999999999999999999999999999999999999999999999999999


Q ss_pred             ccCCCceEEEEEcCCCCeEEEEEeCCCCCeEEEEEEeeeecCCCCCCCCcceeeEEEEEehHHHHHHHHHhhccCCEEEE
Q 024527           81 CAGNDDIITLKADDGSDTVTFMFESPTQDKIADFEMKLMDIDSEHLGIPEAEYHAIVRMPSAEFARICKDLASIGDTVVI  160 (266)
Q Consensus        81 ~~~~~d~l~l~~~~~~~~l~i~~~~~~~~~~~~~~l~li~~~~~~~~ip~~~~~~~i~~~s~~~~~~i~~~~~~~d~v~i  160 (266)
                      +++++|.++|++++++++|.|.+++.+.+++++|.+++++++.+++++|+.+|++++.|+|++|+++|++++.+||.|+|
T Consensus        87 ~~~~~d~l~l~~~~~~~~l~i~~e~~~~~~~~~~~l~l~d~~~e~l~ip~~e~~~~v~m~s~~f~~~~~dl~~~sd~v~i  166 (798)
T 3k4x_A           87 CGNNTDTLTLIADNTPDSIILLFEDTKKDRIAEYSLKLMDIDADFLKIEELQYDSTLSLPSSEFSKIVRDLSQLSDSINI  166 (798)
T ss_dssp             SSCTTSCEEEECCSSCSEEEEEEECSSSSEEEEEEEECBCCCCCCCCCCCSCCSEEEEEEHHHHHHHHHHHTTTCSEEEE
T ss_pred             hcCCCCEEEEEEcCCCCeEEEEEEeCCCceEEEEEEEeeccCcccCCCCCCceeEEEEEEHHHHHHHHHHHHhhCCEEEE
Confidence            99999999999988888999999998888899999999999999999999999999999999999999999999999999


Q ss_pred             EEeCCeEEEEEEecceeEEEEEeecccCCCCCCceEEEecCcEEEEEehHHHHhccccCCCCceEEEEecCCCcEEEEEE
Q 024527          161 SVTKEGVKFSTRGDIGTANIVLRQNTTVDKPEEATIIEMHEPVSLTFALRYMNSFTRATPLSNTVTISLSSELPVVVEYK  240 (266)
Q Consensus       161 ~~~~~~l~~s~~gd~g~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~f~~~yL~~~~k~~~ls~~v~l~~~~~~Pl~l~~~  240 (266)
                      .+++++++|+++||.|++++.++.+.+.++++..+.++++++++.+|+++||+.++|++++|++|+|++++++||+++|.
T Consensus       167 ~~~~~~~~~s~~Gd~g~~~v~~~~~~~~~~~~~~~~i~~~e~~~~~ysl~yL~~~~Ka~~ls~~V~l~~~~~~PL~l~y~  246 (798)
T 3k4x_A          167 MITKETIKFVADGDIGSGSVIIKPFVDMEHPETSIKLEMDQPVDLTFGAKYLLDIIKGSSLSDRVGIRLSSEAPALFQFD  246 (798)
T ss_dssp             EEETTEEEEEEECSSEEEEEEECCBCCSSCGGGCBEEEESSCEEEEEEHHHHHHHGGGGGTCSEEEEEECSSSCEEEEEE
T ss_pred             EEECCEEEEEEEecCcEEEEEEcCCCCCCCccceEEEEeCCceeEEEEHHHHHHhhcccccCCEEEEEeCCCCcEEEEEE
Confidence            99999999999999999999998765556656667799999999999999999999999999999999999999999999


Q ss_pred             eCCcEEEEEEEcccCCCCccc
Q 024527          241 IAEMGYIRFYLAPKIEEDEDE  261 (266)
Q Consensus       241 i~~~g~~~~~iaPr~~~~~~~  261 (266)
                      + ++|+++||||||+++|++.
T Consensus       247 i-~~G~l~f~lAPri~~~~~~  266 (798)
T 3k4x_A          247 L-KSGFLQFFLAPKFNDEGSN  266 (798)
T ss_dssp             E-TTEEEEEEECCC-------
T ss_pred             E-CCeEEEEEEccCCCCccch
Confidence            9 7899999999999988765

>1u7b_A PCNA, cyclin, proliferating cell nuclear antigen; sliding clamp, DNA processing, FEN1, PIP- BOX, replication; 1.88A {Homo sapiens} SCOP: d.131.1.2 d.131.1.2 PDB: 1u76_A 1axc_A 1ul1_A 1vyj_A 1vym_A 1w60_A 2zvk_A* 2zvl_A* 2zvm_A* 3p87_A 3vkx_A*

Probab=100.00  E-value=4.7e-53  Score=365.49  Aligned_cols=259  Identities=65%  Similarity=1.085  Sum_probs=238.2

Q ss_pred             CeeEEEcChhhHHHHHHHHHhhhceeeEEEeCCceEEEEECCCCeEEEEEEecCCCcceeeeCCcEEEEEEhhhHHHHhc
Q 024527            1 MLELRLVQGSLLKKVLEAIKELVNDANFDCSATGFSLQAMDSSHVALVALLLRSEGFEHYRCDRNISMGMNLNNVSKMLK   80 (266)
Q Consensus         1 mf~a~~~~~~~~k~i~~~l~~l~~~~~~~~~~~gl~~~a~D~~r~a~v~~~l~~~~F~~y~~~~~~~~gi~l~~L~~ilk   80 (266)
                      ||+|++.+++.||++++++++++++|+|+++++||+++|+|++|+|++.+.++++.|++|+|++++.+|++++.|.++||
T Consensus         1 mf~a~~~~~~~~k~i~~~i~~il~~v~~~~~~~gl~~~a~D~~rla~~~~~l~~~~f~~y~~~~~i~~~i~l~~l~kil~   80 (261)
T 1u7b_A            1 MFEARLVQGSILKKVLEALKDLINEACWDISSSGVNLQSMDSSHVSLVQLTLRSEGFDTYRCDRNLAMGVNLTSMSKILK   80 (261)
T ss_dssp             CEEEEESCTHHHHHHHHHHHTTCSEEEEEEETTEEEEEEECTTSSEEEEEEEEGGGSSEEEESSCEEEEEEHHHHHHHHT
T ss_pred             CeEEEecchHHHHHHHHHHHHHhcEEEEEEeCCceEEEEECCCCEEEEEEEECHHhCeEEEeCCCeEEEEEHHHHHHHHh
Confidence            99999999999999999999999999999999999999999999999999999999999999999999999999999999


Q ss_pred             ccCCCceEEEEEcCCCCeEEEEEeCCCCCeEEEEEEeeeecCCCCCCCCcceeeEEEEEehHHHHHHHHHhhccCCEEEE
Q 024527           81 CAGNDDIITLKADDGSDTVTFMFESPTQDKIADFEMKLMDIDSEHLGIPEAEYHAIVRMPSAEFARICKDLASIGDTVVI  160 (266)
Q Consensus        81 ~~~~~d~l~l~~~~~~~~l~i~~~~~~~~~~~~~~l~li~~~~~~~~ip~~~~~~~i~~~s~~~~~~i~~~~~~~d~v~i  160 (266)
                      ++++++.++|.++++++++.|.+++.+.++++.|.+++++++++++.+|+.+|+++++|+++.|+++|+|++.+|+.|+|
T Consensus        81 ~~~~~d~v~i~~~~~~~~l~~~~~~~~~~~~~~~~~rlie~~~~~~~iP~~~~~~~i~~~~~~l~~ai~r~~~~s~~v~i  160 (261)
T 1u7b_A           81 CAGNEDIITLRAEDNADTLALVFEAPNQEKVSDYEMKLMDLDVEQLGIPEQEYSCVVKMPSGEFARICRDLSHIGDAVVI  160 (261)
T ss_dssp             TSCTTCEEEEEECTTCSEEEEEEECTTSSCEEEEEEECCCCCCCCCBCCCCCCSEEEEEEHHHHHHHHHHHHTTCSEEEE
T ss_pred             cCCCCCEEEEEecCCCCEEEEEEEcCCCCeEEEEEEECccCCcccCCCCCCcccEEEEEEHHHHHHHHHHHHhcCCEEEE
Confidence            99888899999987778999999998888899999999999999999998899999999999999999999999999999


Q ss_pred             EEeCCeEEEEEEecceeEEEEEeecccCCCCCCceEEEecCcEEEEEehHHHHhccccCCCCceEEEEecCCCcEEEEEE
Q 024527          161 SVTKEGVKFSTRGDIGTANIVLRQNTTVDKPEEATIIEMHEPVSLTFALRYMNSFTRATPLSNTVTISLSSELPVVVEYK  240 (266)
Q Consensus       161 ~~~~~~l~~s~~gd~g~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~f~~~yL~~~~k~~~ls~~v~l~~~~~~Pl~l~~~  240 (266)
                      .++++.+.|++.||.|++++++....+.+++++.+.++++++++++|+.+||.+++|+++++++|+|+|+++.|+.++|.
T Consensus       161 ~~~~~~l~ls~~~d~g~~~~~~~~~~~~~~~~~~~~~~~~e~~~i~f~~~yL~~~lka~~~s~~V~i~~~~~~P~~l~~~  240 (261)
T 1u7b_A          161 SCAKDGVKFSASGELGNGNIKLSQTSNVDKEEEAVTIEMNEPVQLTFALRYLNFFTKATPLSSTVTLSMSADVPLVVEYK  240 (261)
T ss_dssp             EEETTEEEEEEEETTEEEEEEECCCC----CCSCCEEEESSCEEEEEEHHHHHHHGGGGGGCSEEEEEECTTSCEEEEEE
T ss_pred             EEECCEEEEEEEecCceEEEEEecCCCCCCCccceEEecCCcEEEEEeHHHHHHHhCcccCCCeEEEEECCCCCEEEEEE
Confidence            99999999999999999999996544444455556688899999999999999999999999999999999999999999


Q ss_pred             eCCcEEEEEEEcccCCCCc
Q 024527          241 IAEMGYIRFYLAPKIEEDE  259 (266)
Q Consensus       241 i~~~g~~~~~iaPr~~~~~  259 (266)
                      ++++|++.||||||+++||
T Consensus       241 ~~~~~~~~y~l~P~i~~e~  259 (261)
T 1u7b_A          241 IADMGHLKYYLAPKIEDEE  259 (261)
T ss_dssp             ETTTEEEEEEECCBC----
T ss_pred             eCCCcEEEEEECCcCcccC
Confidence            8756899999999999665

>3ifv_A PCNA; processivity factor, sliding clamp, halophilic, replication; 2.00A {Haloferax volcanii} PDB: 3hi8_A

Probab=100.00  E-value=7.1e-55  Score=373.99  Aligned_cols=242  Identities=26%  Similarity=0.498  Sum_probs=201.6

Q ss_pred             CeeEEEcChhhHHHHHHHHHhhhceeeEEEeCCceEEEEECCCCeEEEEEEecCCCcceeeeCCcEEEEEEhhhHHHHhc
Q 024527            1 MLELRLVQGSLLKKVLEAIKELVNDANFDCSATGFSLQAMDSSHVALVALLLRSEGFEHYRCDRNISMGMNLNNVSKMLK   80 (266)
Q Consensus         1 mf~a~~~~~~~~k~i~~~l~~l~~~~~~~~~~~gl~~~a~D~~r~a~v~~~l~~~~F~~y~~~~~~~~gi~l~~L~~ilk   80 (266)
                      ||+|++ +|+.||++++++++++++|+|+++++||+++|+|++|+|++.+.+++++|++|+|++++ +|++++.|.|+|+
T Consensus         1 Mf~a~~-~a~~~k~i~~ai~~i~~~v~~~~~~~gl~~~A~D~~rvalv~~~l~~~~F~~y~~~~~v-~g~~l~~l~kiL~   78 (247)
T 3ifv_A            1 MFKAIV-SAATLRDALDSVSVLVDECKIRLNEESLSIRAVDPANVGMVDLTLDAAAFESYEAHGGV-IGVNLSRLEEVAG   78 (247)
T ss_dssp             -CCEEE-CHHHHHHHHHHHHTTCSSEEEC---CEEEEEEECTTSSEEEEEEEEGGGSSBC-----C-EEECHHHHHHHHT
T ss_pred             CeEEEE-cHHHHHHHHHHHHHHhcEEEEEEeCCeEEEEEECCccEEEEEEEEchhcCeEEEccCcE-EEEEHHHHHHHHh
Confidence            999999 99999999999999999999999999999999999999999999999999999999888 9999999999999


Q ss_pred             ccCCCceEEEEEcCCCCeEEEEEeCCCCCeEEEEEEeeeecCCCC--CCCCcceeeEEEEEehHHHHHHHHHhhccCCEE
Q 024527           81 CAGNDDIITLKADDGSDTVTFMFESPTQDKIADFEMKLMDIDSEH--LGIPEAEYHAIVRMPSAEFARICKDLASIGDTV  158 (266)
Q Consensus        81 ~~~~~d~l~l~~~~~~~~l~i~~~~~~~~~~~~~~l~li~~~~~~--~~ip~~~~~~~i~~~s~~~~~~i~~~~~~~d~v  158 (266)
                      +++++|.++|.+++++++|.|++++.      .|.++|+|+++++  ..+|+.+|+++++|++++|+++|+|++.+|+.|
T Consensus        79 ~~~~~d~v~i~~~~~~~~l~~~~~~~------~~~~rLid~~~~~~~~~iP~~e~~~~v~~~s~~f~~~i~~~~~~sd~V  152 (247)
T 3ifv_A           79 MAGAGDLIHLTLDEETRKLNIRIDGL------SYTLALIDPDSIRQEPDIPDLDLAANIVLEGTHLDRGIKAADMVSDHI  152 (247)
T ss_dssp             TC----CEEECC-------EEEETTE------EEEC---CTTC----CCCCCCCCSEEEEEEHHHHHHHHHHHHHHCSEE
T ss_pred             cCCCCCEEEEEEcCCCCEEEEEEeCc------EEEEEeecccccccCCCCCCCCceEEEEEEHHHHHHHHHHHHhhCCEE
Confidence            99988999999988778999999875      8999999999986  689988999999999999999999999999999


Q ss_pred             EEEEe--CCeEEEEEEecceeEEEEEeecccCCCCCCceEEEecCcEEEEEehHHHHhccccCCCCceEEEEecCCCcEE
Q 024527          159 VISVT--KEGVKFSTRGDIGTANIVLRQNTTVDKPEEATIIEMHEPVSLTFALRYMNSFTRATPLSNTVTISLSSELPVV  236 (266)
Q Consensus       159 ~i~~~--~~~l~~s~~gd~g~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~f~~~yL~~~~k~~~ls~~v~l~~~~~~Pl~  236 (266)
                      +|.++  ++.++++++||.|++++.++.       ++.+.++ +++++++|+++||++++|+++++++|+|+|++++||+
T Consensus       153 ~i~~~~~~~~~~~s~~gd~g~~~~~l~~-------~~~~~~~-~e~~~~~F~~~YL~~~~Ka~~~s~~V~i~~~~~~Pl~  224 (247)
T 3ifv_A          153 RLRVDGAEETFHIEAEGDTDDVDLSLPP-------ADLISIE-AGAADSLFSLDYLKDMNKAIPTDAEVTVELGEEFPVK  224 (247)
T ss_dssp             EEEEETTTTEEEEEEECSSCEEEEEECG-------GGCSEEE-ECCCEEEEEHHHHHHHHHHSCTTCEEEEEECBSSCEE
T ss_pred             EEEEECCCCEEEEEEEecceEEEEEECC-------CceEEEe-cCeEEEEEeHHHHHHhhhhccCCCEEEEEecCCccEE
Confidence            99999  889999999999999999942       2233466 8999999999999999999999999999999999999


Q ss_pred             EEEEeC-CcEEEEEEEcccCCCC
Q 024527          237 VEYKIA-EMGYIRFYLAPKIEED  258 (266)
Q Consensus       237 l~~~i~-~~g~~~~~iaPr~~~~  258 (266)
                      ++|.++ ++|+++||||||+++|
T Consensus       225 l~~~i~~~~g~~~~~lAPri~~~  247 (247)
T 3ifv_A          225 LHYQIAEGMGTITYMLAPRIQSD  247 (247)
T ss_dssp             EEEEEGGGTEEEEEEECCC----
T ss_pred             EEEEEcCCcEEEEEEEeecccCC
Confidence            999998 4699999999999975

>3k4x_A PCNA, proliferating cell nuclear antigen; DNA replication, DNA-binding; HET: DNA; 2.98A {Saccharomyces cerevisiae}

Probab=100.00  E-value=4.3e-53  Score=414.20  Aligned_cols=258  Identities=38%  Similarity=0.773  Sum_probs=243.9

Q ss_pred             CeeEEEcChhhHHHHHHHHHhhhceeeEEEeCCceEEEEECCCCeEEEEEEecCCCcceeeeCCcEEEEEEhhhHHHHhc
Q 024527            1 MLELRLVQGSLLKKVLEAIKELVNDANFDCSATGFSLQAMDSSHVALVALLLRSEGFEHYRCDRNISMGMNLNNVSKMLK   80 (266)
Q Consensus         1 mf~a~~~~~~~~k~i~~~l~~l~~~~~~~~~~~gl~~~a~D~~r~a~v~~~l~~~~F~~y~~~~~~~~gi~l~~L~~ilk   80 (266)
                      ||+|++++++.||++++++++++++|+|+++++||+++|||++|++++.+.|+++.|++|+|++++++|+|++.|.|+||
T Consensus       541 mfea~l~~~~~lk~ii~ai~~iv~~~~~~~~~~Gi~~~a~D~s~valv~~~L~~~~F~~y~cd~~i~iG~nL~~L~kiLk  620 (798)
T 3k4x_A          541 ALEAKFEEASLFKRIIDGFKDCVQLVNFQCKEDGIIAQAVDDSRVLLVSLEIGVEAFQEYRCDHPVTLGMDLTSLSKILR  620 (798)
T ss_dssp             -CEEEESSHHHHHHHHHTTTTTCSEEEEEEETTEEEEEEECTTSSEEEEEEEEGGGEEEEECSSCEEEEEEHHHHHHHHH
T ss_pred             eEEEEcCchHHHHHHHHHHHHHhCcEEEEEECCeEEEEEECCCcEEEEEEEeccccCceEEcCCCeEEEEEHHHHHHHHh
Confidence            89999999999999999999999999999999999999999999999999999999999999999999999999999999


Q ss_pred             ccCCCceEEEEEcCCCCeEEEEEeCCCCCeEEEEEEeeeecCCCCCCCCcceeeEEEEEehHHHHHHHHHhhccCCEEEE
Q 024527           81 CAGNDDIITLKADDGSDTVTFMFESPTQDKIADFEMKLMDIDSEHLGIPEAEYHAIVRMPSAEFARICKDLASIGDTVVI  160 (266)
Q Consensus        81 ~~~~~d~l~l~~~~~~~~l~i~~~~~~~~~~~~~~l~li~~~~~~~~ip~~~~~~~i~~~s~~~~~~i~~~~~~~d~v~i  160 (266)
                      +++++|.|+|++++++++|.|++++.+.++++.|+++|+|++++++.+|+.+|+++++|++.+|+++|++++.+||.|+|
T Consensus       621 ~~~~~d~v~l~~~d~~~~l~~~~e~~~~~~~~~f~lkL~d~~~~~~~iP~~e~~~~i~m~s~~f~~~~~~l~~~sd~v~i  700 (798)
T 3k4x_A          621 CGNNTDTLTLIADNTPDSIILLFEDTKKDRIAEYSLKLMDIDADFLKIEELQYDSTLSLPSSEFSKIVRDLSQLSDSINI  700 (798)
T ss_dssp             HSCSSSEEEEECCSSCSEEEEEEECSSCCCEEEEEEECCCCCCCCCCCCCCCCSEEEEEEHHHHHHHHHHHHTTCSEEEE
T ss_pred             ccCCCCEEEEEEcCCCCeEEEEEecCCCceEEEEEEEeecCCCCCCCCCCccceEEEEEEHHHHHHHHHHHHhcCCEEEE
Confidence            99999999999998888999999999888999999999999999999999899999999999999999999999999999


Q ss_pred             EEeCCeEEEEEEecceeEEEEEeecccCCCCCCceEEEecCcEEEEEehHHHHhccccCCCCceEEEEecCCCcEEEEEE
Q 024527          161 SVTKEGVKFSTRGDIGTANIVLRQNTTVDKPEEATIIEMHEPVSLTFALRYMNSFTRATPLSNTVTISLSSELPVVVEYK  240 (266)
Q Consensus       161 ~~~~~~l~~s~~gd~g~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~f~~~yL~~~~k~~~ls~~v~l~~~~~~Pl~l~~~  240 (266)
                      +++++.++|+++||.|++++.++++.+.++++..+.++++++++++|+++||++++|+.+++++|+|+|++++||.++|.
T Consensus       701 ~~~~~~v~~s~~gd~G~~~~~l~~~~~~~~~~~~~~i~~~e~~~~~f~l~YL~~~~Ka~~ls~~V~i~~~~~~Pl~~~y~  780 (798)
T 3k4x_A          701 MITKETIKFVADGDIGSGSVIIKPFVDMEHPETSIKLEMDQPVDLTFGAKYLLDIIKGSSLSDRVGIRLSSEAPALFQFD  780 (798)
T ss_dssp             EEETTEEEEEEECSSCEEEEEECCBCCSSCGGGCBEEEESSCEEEEEEHHHHHHHGGGGGTCSEEEEEECSSSCEEEEEE
T ss_pred             EEeCCEEEEEEEcccceEEEEecCCCCCCCccccEEEEcCCceEEEEEHHHHHHHhhhccCCCeEEEEeCCCccEEEEEE
Confidence            99999999999999999999998766666667777899999999999999999999999999999999999999999999


Q ss_pred             eCCcEEEEEEEcccCCCCc
Q 024527          241 IAEMGYIRFYLAPKIEEDE  259 (266)
Q Consensus       241 i~~~g~~~~~iaPr~~~~~  259 (266)
                      + ++|+++||||||+++|+
T Consensus       781 i-~~G~i~fylAPki~~~~  798 (798)
T 3k4x_A          781 L-KSGFLQFFLAPKFNDEE  798 (798)
T ss_dssp             E-TTEEEEEEECCC-----
T ss_pred             E-cceEEEEEECcCCCCCC
Confidence            9 78999999999999874

>2zvv_A PCNA 1, proliferating cellular nuclear antigen 1; protein-peptide complex, DNA replication, DNA-binding, nucleus, DNA binding protein; 2.00A {Arabidopsis thaliana} PDB: 2zvw_A

Probab=100.00  E-value=9e-52  Score=360.25  Aligned_cols=256  Identities=91%  Similarity=1.333  Sum_probs=239.3

Q ss_pred             CeeEEEcChhhHHHHHHHHHhhhceeeEEEeCCceEEEEECCCCeEEEEEEecCCCcceeeeCCcEEEEEEhhhHHHHhc
Q 024527            1 MLELRLVQGSLLKKVLEAIKELVNDANFDCSATGFSLQAMDSSHVALVALLLRSEGFEHYRCDRNISMGMNLNNVSKMLK   80 (266)
Q Consensus         1 mf~a~~~~~~~~k~i~~~l~~l~~~~~~~~~~~gl~~~a~D~~r~a~v~~~l~~~~F~~y~~~~~~~~gi~l~~L~~ilk   80 (266)
                      ||+|++.+++.||++++++++++++|+|+++++||+++|+|++|+|++.+.++++.|++|+|++++.+|++++.|.++||
T Consensus        21 mf~a~~~~~~~lk~ii~~~~~il~~v~~~~~~~gl~~vAtD~~rla~~~~~l~~~~f~~y~~~~~i~~~i~l~~l~kilk  100 (276)
T 2zvv_A           21 MLELRLVQGSLLKKVLESIKDLVNDANFDCSSTGFSLQAMDSSHVALVSLLLRSEGFEHYRCDRNLSMGMNLGNMSKMLK  100 (276)
T ss_dssp             CEEEEESCTHHHHHHHHHHTTTCSEEEEEEETTEEEEEEECTTSSEEEEEEEEGGGSSEEEESSCEEEEEEHHHHHHHHH
T ss_pred             eEEEEeCChHHHHHHHHHHHHHhceEEEEEECCeEEEEEECCCCEEEEEEEEChhhCcEEEcCCCEEEEEEHHHHHHHHh
Confidence            89999999999999999999999999999999999999999999999999999999999999999999999999999999


Q ss_pred             ccCCCceEEEEEcCCCCeEEEEEeCCCCCeEEEEEEeeeecCCCCCCCCcceeeEEEEEehHHHHHHHHHhhccCCEEEE
Q 024527           81 CAGNDDIITLKADDGSDTVTFMFESPTQDKIADFEMKLMDIDSEHLGIPEAEYHAIVRMPSAEFARICKDLASIGDTVVI  160 (266)
Q Consensus        81 ~~~~~d~l~l~~~~~~~~l~i~~~~~~~~~~~~~~l~li~~~~~~~~ip~~~~~~~i~~~s~~~~~~i~~~~~~~d~v~i  160 (266)
                      ++++++.++|.++++++++.|.+++.+.++++.|.+|++++++|+|.+|+.+|+++++|+++.|+++|+|++.+|+.|+|
T Consensus       101 ~~~~~d~v~i~~~~~~~~l~~~~~~~~~~~~~~~~~rLid~~~p~~~iP~~~~~~~i~~~~~~l~~av~r~~~~sd~V~i  180 (276)
T 2zvv_A          101 CAGNDDIITIKADDGGDTVTFMFESPTQDKIADFEMKLMDIDSEHLGIPDAEYHSIVRMPSNEFSRICKDLSSIGDTVVI  180 (276)
T ss_dssp             TSCTTCEEEEEECTTCSEEEEEEECTTSSCEEEEEEECCCEECCCCCCCCCCCSEEEEEEHHHHHHHHHHHHTTCSEEEE
T ss_pred             hCCCCCeEEEEEcCCCCeEEEEEEeCCCceEEEEEEEcccCCcccCCCCCCcccEEEEEEHHHHHHHHHHHHhhCCEEEE
Confidence            99888899999987678999999998788899999999999999999998899999999999999999999999999999


Q ss_pred             EEeCCeEEEEEEecceeEEEEEeecccCCCCCCceEEEecCcEEEEEehHHHHhccccCCCCceEEEEecCCCcEEEEEE
Q 024527          161 SVTKEGVKFSTRGDIGTANIVLRQNTTVDKPEEATIIEMHEPVSLTFALRYMNSFTRATPLSNTVTISLSSELPVVVEYK  240 (266)
Q Consensus       161 ~~~~~~l~~s~~gd~g~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~f~~~yL~~~~k~~~ls~~v~l~~~~~~Pl~l~~~  240 (266)
                      .++++.+.|++.||.|++++++....+.++++..+.++++++++++|+.+||.+++|+++++++|+|+|+++.|+.|+|.
T Consensus       181 ~~~~~~l~lsa~gd~g~~~~~l~~~~~~~~~~~~~~~~~ge~~~i~fn~~YL~d~lka~~ls~~V~i~l~~~~Pl~l~~~  260 (276)
T 2zvv_A          181 SVTKEGVKFSTAGDIGTANIVLRQNTTVDKPEDAIVIEMKEPVSLSFALRYMNSFTKATPLSDTVTISLSSELPVVVEYK  260 (276)
T ss_dssp             EEETTEEEEEEEETTEEEEEEECCCSSCCSGGGCCEEEESSCEEEEEEHHHHHHHGGGGGGCSEEEEEECTTSCEEEEEE
T ss_pred             EEeCCEEEEEEEeeccEEEEEEccCCCCCCccccEEEecCCcEEEEEEHHHHHHHhccccCCCEEEEEEcCCceEEEEEE
Confidence            99999999999999999999996544444444445688899999999999999999999999999999999999999999


Q ss_pred             eCCcEEEEEEEcccCC
Q 024527          241 IAEMGYIRFYLAPKIE  256 (266)
Q Consensus       241 i~~~g~~~~~iaPr~~  256 (266)
                      ++++|+++||||||++
T Consensus       261 ~~~~g~~~y~laP~i~  276 (276)
T 2zvv_A          261 VAEMGYIRYYLAPKIE  276 (276)
T ss_dssp             ETTTEEEEEEECCBC-
T ss_pred             eCCCcEEEEEEccccC
Confidence            8656899999999985

>3aiz_A DNA polymerase sliding clamp B; protein-protein complex, replication; HET: DNA; 2.80A {Sulfolobus tokodaii} PDB: 3aix_B*

Probab=100.00  E-value=1.7e-49  Score=340.82  Aligned_cols=248  Identities=17%  Similarity=0.320  Sum_probs=231.3

Q ss_pred             CeeEEEcChhhHHHHHHHHHhhhceeeEEEeCCceEEEEECCCCeEEEEEEecCCCcceeeeCCcEEEEEEhhhHHHHhc
Q 024527            1 MLELRLVQGSLLKKVLEAIKELVNDANFDCSATGFSLQAMDSSHVALVALLLRSEGFEHYRCDRNISMGMNLNNVSKMLK   80 (266)
Q Consensus         1 mf~a~~~~~~~~k~i~~~l~~l~~~~~~~~~~~gl~~~a~D~~r~a~v~~~l~~~~F~~y~~~~~~~~gi~l~~L~~ilk   80 (266)
                      ||+|++.+++.||+++++++++++++.|+++++||+++|+|++|+|++++.++++.|++|+|++++.++++++.|.++|+
T Consensus         1 mf~a~~~~~~~~k~i~~~i~~~l~gv~~~~~~~~l~~vatD~~rla~~~~~l~~~~f~~y~~~~~i~~~~~l~~l~kil~   80 (248)
T 3aiz_A            1 MIKATYSSAKDFYSLLSGLLKVTDEIILNFTEDSIFSRYLTDDKVLMVIFKIPKEYLEDYTIDKPLGIKININDLKKILG   80 (248)
T ss_dssp             CCEEEESCHHHHHHHHTTCTTCCSEEEEEECSSEEEEEEECTTSSEEEEEEEEGGGCEEEECSSCEEEEEEHHHHHHHHH
T ss_pred             CeEEEecchHHHHHHHHHHHHHHheEEEEEccCcEEEEEECCCCEEEEEEEECHHhCceEEcCCCeEEEEEHHHHHHHHh
Confidence            99999999999999999999999999999999999999999999999999999889999999999999999999999999


Q ss_pred             ccCCCceEEEEEcCCCCeEEEEEeCCCCCeEEEEEEeeeecCCCCCCCCcceeeEEEEEehHHHHHHHHHhhccCCEEEE
Q 024527           81 CAGNDDIITLKADDGSDTVTFMFESPTQDKIADFEMKLMDIDSEHLGIPEAEYHAIVRMPSAEFARICKDLASIGDTVVI  160 (266)
Q Consensus        81 ~~~~~d~l~l~~~~~~~~l~i~~~~~~~~~~~~~~l~li~~~~~~~~ip~~~~~~~i~~~s~~~~~~i~~~~~~~d~v~i  160 (266)
                      ++ +++.++|.++++++++.|.+++.++++++.|.++++|+++|+|.+|+.+|+++++|+++.|+++++|++.+++.|+|
T Consensus        81 ~~-~~~~v~i~~~~~~~~l~~~~~~~~~~~~~~~~~rlidg~~p~~~iP~~~~~~~v~~~~~~l~~av~r~~~~s~~V~i  159 (248)
T 3aiz_A           81 KA-KSKSATVTLEETEAGLKVTVRDEKTGTRSNIYIKGEKTSIDQLTEPKVNLSVTFTTDGDVLKDIARDLSLVGEEVEI  159 (248)
T ss_dssp             TC-SSTTCEEEEEECSSEEEEEEEETTTTEEEEEEEECEEECCCCCCCCCCCCSEEEEECHHHHHHHHHHHTTSCSEEEE
T ss_pred             hc-CCCEEEEEEeCCCCeEEEEEEeCCCCEEEEEEEEccccCcccCCCCCCCccEEEEEeHHHHHHHHHHHHhcCCEEEE
Confidence            88 67789999987677999999987788999999999999999999997799999999999999999999999999999


Q ss_pred             EEeCCeEEEEEEecceeEEEEEeecccCCCCCCceEEEecCcEEEEEehHHHHhccccCCCCceEEEEecCCCcEEEEEE
Q 024527          161 SVTKEGVKFSTRGDIGTANIVLRQNTTVDKPEEATIIEMHEPVSLTFALRYMNSFTRATPLSNTVTISLSSELPVVVEYK  240 (266)
Q Consensus       161 ~~~~~~l~~s~~gd~g~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~f~~~yL~~~~k~~~ls~~v~l~~~~~~Pl~l~~~  240 (266)
                      .+++++++++++||.|++++++...      ++.+.+++++++++.||.+||.+++|+++++++|+++|+++.|+.+++.
T Consensus       160 ~~~~~~l~ls~~~d~g~~~~~~~~~------~~~~~~~~ge~~~i~fn~~yL~d~lk~~~~s~~V~l~~~~~~p~~i~~~  233 (248)
T 3aiz_A          160 SADENTVTLSTEEAGRTYKSLLKQD------KPLKSLNVESPSKAVYSIEVLKDVFKVTSISQNVTVGFGNNIPMKIEVP  233 (248)
T ss_dssp             EECSSEEEEEEEETTEEEEEEEEET------BEESEEEESSCEEEEEEHHHHHHHHHHGGGCSSEEEEEETTEEEEEEEE
T ss_pred             EEeCCEEEEEEEccCceEEEEEcCC------CcceEEecCCceEEEEEHHHHHHHhhhccCCCeEEEEEcCCCCEEEEEE
Confidence            9999999999999999999999531      1223466788999999999999999999989999999999899999998


Q ss_pred             eCCcEEEEEEEcccC
Q 024527          241 IAEMGYIRFYLAPKI  255 (266)
Q Consensus       241 i~~~g~~~~~iaPr~  255 (266)
                      ++++|++.||||||+
T Consensus       234 ~~~~~~~~y~i~P~i  248 (248)
T 3aiz_A          234 TDSGGQLIFWIAPRL  248 (248)
T ss_dssp             CTTSCEEEEEECCCC
T ss_pred             eCCCcEEEEEECCcC
Confidence            866689999999996

>1iz5_A Proliferating cell nuclear antigen; DNA, replication, processivity, sliding clamp, DNA binding protein; 1.80A {Pyrococcus furiosus} SCOP: d.131.1.2 d.131.1.2 PDB: 3a2f_B* 1iz4_A 1ge8_A 1isq_A 3lx1_A*

Probab=100.00  E-value=6.8e-48  Score=330.99  Aligned_cols=248  Identities=23%  Similarity=0.437  Sum_probs=222.6

Q ss_pred             CeeEEEcChhhHHHHHHHHHhhhceeeEEEeCCceEEEEECCCCeEEEEEEecCCCcceeeeCCcEEEEEEhhhHHHHhc
Q 024527            1 MLELRLVQGSLLKKVLEAIKELVNDANFDCSATGFSLQAMDSSHVALVALLLRSEGFEHYRCDRNISMGMNLNNVSKMLK   80 (266)
Q Consensus         1 mf~a~~~~~~~~k~i~~~l~~l~~~~~~~~~~~gl~~~a~D~~r~a~v~~~l~~~~F~~y~~~~~~~~gi~l~~L~~ilk   80 (266)
                      ||+|++.+++.|++++++++++++++.|+++++||+++|+|++|+|++++.++++.|++|+|++++.++++++.|.|+|+
T Consensus         2 ~f~a~~~~~~~~~~i~~~i~~~l~gv~~~~~~~~l~~vatD~~rla~~~~~l~~~~f~~y~~~~~~~~~~~l~~l~kil~   81 (249)
T 1iz5_A            2 PFEIVFEGAKEFAQLIDTASKLIDEAAFKVTEDGISMRAMDPSRVVLIDLNLPSSIFSKYEVVEPETIGVNLDHLKKILK   81 (249)
T ss_dssp             CEEEEEECHHHHHHHHHHHTSSCSEEEEEECSSEEEEEEECTTSSEEEEEEEEGGGSSEEEESSCEEEEEEHHHHHHHHT
T ss_pred             cEEEEeCchHHHHHHHHHHHHHhcEEEEEEeCCeEEEEEECCCcEEEEEEEECHHhCcEEEcCCCeEEEEEHHHHHHHHH
Confidence            69999999999999999999999999999999999999999999999999999889999999999999999999999999


Q ss_pred             ccCCCceEEEEEcCCCCeEEEEEeCCCCCeEEEEEEeeeecCCCCCCCCcceeeEEEEEehHHHHHHHHHhhccCCEEEE
Q 024527           81 CAGNDDIITLKADDGSDTVTFMFESPTQDKIADFEMKLMDIDSEHLGIPEAEYHAIVRMPSAEFARICKDLASIGDTVVI  160 (266)
Q Consensus        81 ~~~~~d~l~l~~~~~~~~l~i~~~~~~~~~~~~~~l~li~~~~~~~~ip~~~~~~~i~~~s~~~~~~i~~~~~~~d~v~i  160 (266)
                      ++++++.++|.+++++ ++.|.+++..   ++.|.++++|+++|+|.+|+.+|+++++|+++.|+++++|++.+++.|+|
T Consensus        82 ~~~~~~~v~i~~~~~~-~l~f~~~~~~---~~~~~~rlidg~~p~~~iP~~~~~~~v~i~~~~l~~a~~r~~~ls~~V~l  157 (249)
T 1iz5_A           82 RGKAKDTLILKKGEEN-FLEITIQGTA---TRTFRVPLIDVEEMEVDLPELPFTAKVVVLGEVLKAAVKAASLVSDSIKF  157 (249)
T ss_dssp             TCCTTCEEEEEECSSS-EEEEEEESSS---EEEEEEECBCCCC-----CCCCCCEEEEEEHHHHHHHHHHHTTTCSEEEE
T ss_pred             hCCCCCEEEEEECCCC-eEEEEEecCC---EEEEEEEcccCCccCCCCCCCcceEEEEEEHHHHHHHHHHHHhcCCEEEE
Confidence            9887889999997766 8999998742   56999999999999999997799999999999999999999999999999


Q ss_pred             EEeCCeEEEEEEecceeEEEEEeecccCCCCCCceEEEecCcEEEEEehHHHHhccccCCCCceEEEEecCCCcEEEEEE
Q 024527          161 SVTKEGVKFSTRGDIGTANIVLRQNTTVDKPEEATIIEMHEPVSLTFALRYMNSFTRATPLSNTVTISLSSELPVVVEYK  240 (266)
Q Consensus       161 ~~~~~~l~~s~~gd~g~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~f~~~yL~~~~k~~~ls~~v~l~~~~~~Pl~l~~~  240 (266)
                      .+++++++++++||.|++++++...     .+..+.++++++++++||.+||.+++|+++++++|.++|+++.|+.+++.
T Consensus       158 ~~~~~~l~ls~~~d~g~~~~~l~~~-----~~~~~~~~~ge~~~i~Fn~~yL~d~lk~~~~s~~V~l~~~~~~p~~i~~~  232 (249)
T 1iz5_A          158 IARENEFIMKAEGETQEVEIKLTLE-----DEGLLDIEVQEETKSAYGVSYLSDMVKGLGKADEVTIKFGNEMPMQMEYY  232 (249)
T ss_dssp             EEETTEEEEEEECSSCEEEEEEETT-----TTSSSEEEESSCEEEEEEHHHHHHHHTTSCTTCEEEEEECTTCCEEEEEE
T ss_pred             EEECCEEEEEEEecCceEEEEEccC-----CCccEEEEcCCceEEEEeHHHHHHHhhhccCCCeEEEEEcCCCCEEEEEE
Confidence            9999999999999999999999531     12334577789999999999999999999999999999999899999998


Q ss_pred             eCCcEEEEEEEcccCCC
Q 024527          241 IAEMGYIRFYLAPKIEE  257 (266)
Q Consensus       241 i~~~g~~~~~iaPr~~~  257 (266)
                      ++++|++.||||||+++
T Consensus       233 ~~~~~~~~y~i~P~~~~  249 (249)
T 1iz5_A          233 IRDEGRLTFLLAPRVEE  249 (249)
T ss_dssp             ETTTEEEEEEECCC---
T ss_pred             eCCCcEEEEEEccccCC
Confidence            86568999999999973

>3a1j_C Cell cycle checkpoint protein RAD1; DNA damage, DNA repair, exonuclease, hydrolase, nuclease, nucleus, phosphoprotein, polymorphism, cytoplasm; HET: SUC; 2.50A {Homo sapiens} PDB: 3g65_B 3ggr_C

Probab=100.00  E-value=8.1e-49  Score=339.20  Aligned_cols=241  Identities=13%  Similarity=0.250  Sum_probs=220.9

Q ss_pred             CeeEEEcChhhHHHHHHHHHhhhceeeEEEeCCceEEEEECCCCeEEEEEEecCCCcceeeeCCc-EEEEEEhhhHHHHh
Q 024527            1 MLELRLVQGSLLKKVLEAIKELVNDANFDCSATGFSLQAMDSSHVALVALLLRSEGFEHYRCDRN-ISMGMNLNNVSKML   79 (266)
Q Consensus         1 mf~a~~~~~~~~k~i~~~l~~l~~~~~~~~~~~gl~~~a~D~~r~a~v~~~l~~~~F~~y~~~~~-~~~gi~l~~L~~il   79 (266)
                      ||+|++.+++.|+++++++ .++++++|+++++||+++|+| +|++++.+.|++++|++|+|+++ ..||||++.|.+||
T Consensus         4 ~f~a~~~~a~~l~~il~ai-~l~~ea~~~~s~~Gi~l~a~D-s~v~~v~l~l~~~~F~~Y~~~~~~~~~gi~l~~l~k~L   81 (263)
T 3a1j_C            4 SLVASLDNVRNLSTILKAI-HFREHATCFATKNGIKVTVEN-AKCVQANAFIQAGIFQEFKVQEESVTFRINLTVLLDCL   81 (263)
T ss_dssp             SEEEEESCTHHHHHHHHTT-CSSSEEEEEEETTEEEEEEEE-TTTEEEEEEEEGGGSSEEEESSSCEEEEEEHHHHHHHH
T ss_pred             EEEEEeCCHHHHHHHHhhe-ecCcEEEEEEcCCeEEEEEEe-CCEEEEEEEECHHHCceEEEcCCCcEEEEEhHHHHHHH
Confidence            8999999999999999999 999999999999999999999 99999999999999999999988 99999999999999


Q ss_pred             cccCCC----c--eEEEEEcCCCCeEEEEEeCCCCCeEEEEEEeeeecCCCCCCCCcceeeE-----EEEEehHHHHHHH
Q 024527           80 KCAGND----D--IITLKADDGSDTVTFMFESPTQDKIADFEMKLMDIDSEHLGIPEAEYHA-----IVRMPSAEFARIC  148 (266)
Q Consensus        80 k~~~~~----d--~l~l~~~~~~~~l~i~~~~~~~~~~~~~~l~li~~~~~~~~ip~~~~~~-----~i~~~s~~~~~~i  148 (266)
                      ++++++    |  .++|.+.++++++.+.+++  .|+++.|.+++++++.+    |+.+|++     ++.|+|+.|+++|
T Consensus        82 ~~~~~~~~~~d~~~l~i~~~~~~~~l~l~~e~--~~~~~~~~l~~~~~~~~----~d~~f~~~~~~~~v~m~s~~l~~~~  155 (263)
T 3a1j_C           82 SIFGSSPMPGTLTALRMCYQGYGYPLMLFLEE--GGVVTVCKINTQEPEET----LDFDFCSTNVINKIILQSEGLREAF  155 (263)
T ss_dssp             TTTCSCCCTTCCCEEEEEECSTTCCEEEEEEE--TTEEEEEEECCBCCCCC----CCCCCCTTTEEEEEEEEGGGGHHHH
T ss_pred             HHhcCCcCCCCceEEEEEECCCCCcEEEEEEe--CCeEEEEEEEEEcCCcc----cCcccCcccceEEEEEehHHHHHHH
Confidence            999987    7  4666688878899999986  47889999999999873    5556666     9999999999999


Q ss_pred             HHhhccCCEEEEEEeCC--eEEEEEEecceeEEEEEeecccCCCCCCceEEEecCcEEEEEehHHHHhccccCCCCceEE
Q 024527          149 KDLASIGDTVVISVTKE--GVKFSTRGDIGTANIVLRQNTTVDKPEEATIIEMHEPVSLTFALRYMNSFTRATPLSNTVT  226 (266)
Q Consensus       149 ~~~~~~~d~v~i~~~~~--~l~~s~~gd~g~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~f~~~yL~~~~k~~~ls~~v~  226 (266)
                      ++++.+||.|+|.++++  .+.|+++||.|++++.++..     .+..+.++++++++.+|+++||+.++|+++++++|+
T Consensus       156 ~dl~~~~d~v~i~~~~~~p~~~~~~~Gd~g~~~i~~~~~-----~~~~~~~~~~~~~~~~y~l~yL~~~~ka~~~s~~v~  230 (263)
T 3a1j_C          156 SELDMTSEVLQITMSPDKPYFRLSTFGNAGSSHLDYPKD-----SDLMEAFHCNQTQVNRYKISLLKPSTKALVLSCKVS  230 (263)
T ss_dssp             HTSCTTSSEEEEEECSSSSSEEEEEEETTEEEEEEECTT-----CSSEEEEEECSCEEEEEEHHHHTTHHHHHHHCSEEE
T ss_pred             HHHhccCCeEEEEEEcCCCEEEEEEEcCCccEEEEEcCC-----CCeEEEEEeCChhhcEEeHHHHHHHHhhhhhcCEEE
Confidence            99999999999999988  99999999999999999531     122335888999999999999999999999999999


Q ss_pred             EEecCCCcEEEEEEeCC-cEE---EEEEEccc
Q 024527          227 ISLSSELPVVVEYKIAE-MGY---IRFYLAPK  254 (266)
Q Consensus       227 l~~~~~~Pl~l~~~i~~-~g~---~~~~iaPr  254 (266)
                      |++++++||+++|.+++ +|+   ++||||||
T Consensus       231 i~~~~~~pL~l~~~i~~~~g~~~~v~f~laP~  262 (263)
T 3a1j_C          231 IRTDNRGFLSLQYMIRNEDGQICFVEYYCCPD  262 (263)
T ss_dssp             EEEETTCCEEEEEEEECTTSCEEEEEEEECCC
T ss_pred             EEECCCeeEEEEEEEecCCCCEEEEEEEEEEC
Confidence            99999999999999976 677   99999998

>2ijx_A DNA polymerase sliding clamp A; PCNA3 subunit, protein-protein interaction, PCNA123 heterotr binding protein; HET: DNA; 1.90A {Sulfolobus solfataricus} PDB: 2nti_F* 2hii_C 2hik_C 2ix2_C*

Probab=100.00  E-value=9.2e-47  Score=323.02  Aligned_cols=244  Identities=18%  Similarity=0.383  Sum_probs=224.8

Q ss_pred             eeEEEcChhhHHHHHHHHHhhhceeeEEEeCCceEEEEECCCCeEEEEEEecCCCcceeeeCCcEEEEEEhhhHHHHhcc
Q 024527            2 LELRLVQGSLLKKVLEAIKELVNDANFDCSATGFSLQAMDSSHVALVALLLRSEGFEHYRCDRNISMGMNLNNVSKMLKC   81 (266)
Q Consensus         2 f~a~~~~~~~~k~i~~~l~~l~~~~~~~~~~~gl~~~a~D~~r~a~v~~~l~~~~F~~y~~~~~~~~gi~l~~L~~ilk~   81 (266)
                      |+|++.+++.|++++++++++++++.|+++++||+++|+|++|+|++++.++++.|++|+|++++.+|+++..|.|+|++
T Consensus         1 ~~a~~~~a~~~~~i~~~i~~~l~gv~~~~~~~~l~~vatD~~rla~~~~~l~~~~f~~y~~~~~i~~~~~l~~l~kiL~~   80 (244)
T 2ijx_A            1 MKVVYDDVRVLKDIIQALARLVDEAVLKFKQDSVELVALDRAHISLISVNLPREMFKEYDVNDEFKFGFNTQYLMKILKV   80 (244)
T ss_dssp             CEEEESCHHHHHHHHHHHHHHCSEEEEEECSSEEEEEEECTTSSEEEEEEEEGGGCSEEECSSCEEEEEEHHHHHHHHTT
T ss_pred             CEEEECchHHHHHHHHHHHHHhceEEEEEecCeEEEEEECCCcEEEEEEEECHHhCceEEcCCCEEEEEEHHHHHHHHhh
Confidence            78999999999999999999999999999999999999999999999999998899999999889999999999999999


Q ss_pred             cCCCceEEEEEcCCCCeEEEEEeCCCCCeEEEEEEeeeecCCCCCCCCcceeeEEEEEehHHHHHHHHHhhccCCEEEEE
Q 024527           82 AGNDDIITLKADDGSDTVTFMFESPTQDKIADFEMKLMDIDSEHLGIPEAEYHAIVRMPSAEFARICKDLASIGDTVVIS  161 (266)
Q Consensus        82 ~~~~d~l~l~~~~~~~~l~i~~~~~~~~~~~~~~l~li~~~~~~~~ip~~~~~~~i~~~s~~~~~~i~~~~~~~d~v~i~  161 (266)
                      +++++.++|.++++++++.|.+++    +++.|.++++|+++|+|.+|+.+|+++++|+++.|+++++|++.+++.|+|.
T Consensus        81 ~~~~~~v~i~~~~~~~~l~~~~~~----~~~~~~~rlidg~~p~~~iP~~~~~~~i~i~~~~l~~a~~r~~~~s~~V~l~  156 (244)
T 2ijx_A           81 AKRKEAIEIASESPDSVIINIIGS----TNREFNVRNLEVSEQEIPEINLQFDISATISSDGFKSAISEVSTVTDNVVVE  156 (244)
T ss_dssp             CCSSCEEEEEEEETTEEEEEEESS----SEEEEEEECCCCCCCCCCCCCCCCSEEEEEEHHHHHHHHHHHTTTCSEEEEE
T ss_pred             CCCCCEEEEEecCCCCEEEEEECC----EEEEEEEECCccCcccCCCCCCcccEEEEEEHHHHHHHHHHHHhcCCEEEEE
Confidence            887889999998777799999843    4679999999999999999977999999999999999999999999999999


Q ss_pred             EeCCeEEEEEEecceeEEEEEeecccCCCCCCceEEEecCcEEEEEehHHHHhccccCCCCceEEEEecCCCcEEEEEEe
Q 024527          162 VTKEGVKFSTRGDIGTANIVLRQNTTVDKPEEATIIEMHEPVSLTFALRYMNSFTRATPLSNTVTISLSSELPVVVEYKI  241 (266)
Q Consensus       162 ~~~~~l~~s~~gd~g~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~f~~~yL~~~~k~~~ls~~v~l~~~~~~Pl~l~~~i  241 (266)
                      +++++++++++||.|+ ++++..     ..+..+.++++++++++||.+||.+++|+++++++|+++|+++.|+.+++.+
T Consensus       157 ~~~~~l~ls~~~d~g~-~~~l~~-----~~~~~~~~~~ge~~~i~Fn~~yL~d~lk~~~~s~~V~l~~~~~~p~~i~~~~  230 (244)
T 2ijx_A          157 GHEDRILIKAEGESEV-EVEFSK-----DTGGLQDLEFSKESKNSYSAEYLDDVLSLTKLSDYVKISFGNQKPLQLFFNM  230 (244)
T ss_dssp             EETTEEEEEETTCTTS-EEEEET-----TTTCEEEEEESSCEEEEEEHHHHHHTGGGGGGCSEEEEEEETTEEEEEEEEC
T ss_pred             EECCEEEEEEEecCce-EEEEeC-----CCCccEEEEcCCceEEEEEHHHHHHHhhhccCCCEEEEEEcCCCCEEEEEEe
Confidence            9999999999999999 999852     1122345777889999999999999999999899999999998999999988


Q ss_pred             CCcEEEEEEEcccC
Q 024527          242 AEMGYIRFYLAPKI  255 (266)
Q Consensus       242 ~~~g~~~~~iaPr~  255 (266)
                      +++|++.||||||+
T Consensus       231 ~~~~~~~y~i~P~~  244 (244)
T 2ijx_A          231 EGGGKVTYLLAPKV  244 (244)
T ss_dssp             GGGCEEEEEECCCC
T ss_pred             CCCcEEEEEECccC
Confidence            65589999999996

>1ud9_A DNA polymerase sliding clamp A; DNA-binding, DNA replication, DNA binding protein; HET: DNA; 1.68A {Sulfolobus tokodaii} SCOP: d.131.1.2 d.131.1.2

Probab=100.00  E-value=5.8e-47  Score=324.47  Aligned_cols=245  Identities=22%  Similarity=0.374  Sum_probs=222.3

Q ss_pred             eeEEEcChhhHHHHHHHHHhhhceeeEEEeCCceEEEEECCCCeEEEEEEecCCCcceeeeCCcEEEEEEhhhHHHHhcc
Q 024527            2 LELRLVQGSLLKKVLEAIKELVNDANFDCSATGFSLQAMDSSHVALVALLLRSEGFEHYRCDRNISMGMNLNNVSKMLKC   81 (266)
Q Consensus         2 f~a~~~~~~~~k~i~~~l~~l~~~~~~~~~~~gl~~~a~D~~r~a~v~~~l~~~~F~~y~~~~~~~~gi~l~~L~~ilk~   81 (266)
                      |+|++.+++.||+++++++++++++.|+++++||+++|+|++|+|++++.++++.|++|+|++++.+|++++.|.|+|++
T Consensus         1 f~a~~~~~~~~k~i~~~i~~~l~gv~~~~~~~~l~~vatD~~rla~~~~~l~~~~f~~y~~~~~i~~~~~l~~l~kiL~~   80 (245)
T 1ud9_A            1 AHIVYDDVRDLKAIIQALLKLVDEALFDIKPEGIQLVAIDKAHISLIKIELPKEMFKEYDVPEEFKFGFNTQYMSKLLKA   80 (245)
T ss_dssp             CEEEESCHHHHHHHHHHHHHHCSEEEEEEETTEEEEEEECTTSSEEEEEEEEGGGSSEEECSSCEEEEEEHHHHHHHHTT
T ss_pred             CEEEeCchHHHHHHHHHHHHHhceEEEEEcCCeEEEEEECCCcEEEEEEEEChHhCeEEEcCCCeEEEEEHHHHHHHHhc
Confidence            79999999999999999999999999999999999999999999999999998899999999889999999999999999


Q ss_pred             cCCCceEEEEEcCCCCeEEEEEeCCCCCeEEEEEEeeeecCCCCCCCCcceeeEEEEEehHHHHHHHHHhhccCCEEEEE
Q 024527           82 AGNDDIITLKADDGSDTVTFMFESPTQDKIADFEMKLMDIDSEHLGIPEAEYHAIVRMPSAEFARICKDLASIGDTVVIS  161 (266)
Q Consensus        82 ~~~~d~l~l~~~~~~~~l~i~~~~~~~~~~~~~~l~li~~~~~~~~ip~~~~~~~i~~~s~~~~~~i~~~~~~~d~v~i~  161 (266)
                      +++++.++|.++++++++.|.+++    +++.|.++++|+++|+|.+|+.+|+++++|+++.|+++++|++.+++.|+|.
T Consensus        81 ~~~~~~v~i~~~~~~~~l~~~~~~----~~~~~~~rlidg~~p~~~ip~~~~~~~i~i~~~~l~~a~~r~~~~s~~V~l~  156 (245)
T 1ud9_A           81 AKRKEEIIIDADSPEVVKLTLSGA----LNRVFNVNNIEVLPPEVPEVNLEFDIKATINASGLKNAIGEIAEVADTLLIS  156 (245)
T ss_dssp             CCSCCCEEEEEEETTEEEEEECSS----SCEEEEEECCCCCCCCCC---CCCSEEEEEEHHHHHHHHHHHHHHCSEEEEE
T ss_pred             CCCCCEEEEEEcCCCCEEEEEECC----EEEEEEEECcccCcccCCCCCCCccEEEEEeHHHHHHHHHHHHhcCCEEEEE
Confidence            877788999998777789998843    3569999999999999999977999999999999999999999999999999


Q ss_pred             EeCCeEEEEEEecceeEEEEEeecccCCCCCCceEEEecCcEEEEEehHHHHhccccCCCCceEEEEecCCCcEEEEEEe
Q 024527          162 VTKEGVKFSTRGDIGTANIVLRQNTTVDKPEEATIIEMHEPVSLTFALRYMNSFTRATPLSNTVTISLSSELPVVVEYKI  241 (266)
Q Consensus       162 ~~~~~l~~s~~gd~g~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~f~~~yL~~~~k~~~ls~~v~l~~~~~~Pl~l~~~i  241 (266)
                      +++++++++++||.|+ ++++...     .+..+.++++++++++||.+||.+++|+++++++|.++|+++.|+.+++.+
T Consensus       157 ~~~~~l~ls~~~d~g~-~~~l~~~-----~~~~~~~~~ge~~~i~Fn~~yL~d~lk~~~~s~~V~l~~~~~~p~~i~~~~  230 (245)
T 1ud9_A          157 GNEEKVVVKGEGENKV-EVEFSKD-----TGSLADIEFNKESSSAYDVEYLNDIISLTKLSDYVKVAFADQKPMQLEFNM  230 (245)
T ss_dssp             ECSSEEEEEESSSSCC-CEEEEGG-----GTCEEEEEESSCEEEEEEHHHHHHTGGGGGGCSEEEEEECTTSCEEEEEEC
T ss_pred             EECCEEEEEEEccCce-EEEEecC-----CCccEEEEeCCceeEEEEHHHHHHHhhhcccCCEEEEEEcCCCCEEEEEEe
Confidence            9999999999999999 9998531     122334677889999999999999999999899999999998999999987


Q ss_pred             CCcEEEEEEEcccCC
Q 024527          242 AEMGYIRFYLAPKIE  256 (266)
Q Consensus       242 ~~~g~~~~~iaPr~~  256 (266)
                      +++|++.||||||++
T Consensus       231 ~~~~~~~y~i~P~~~  245 (245)
T 1ud9_A          231 EGGGKVTYLLAPKLS  245 (245)
T ss_dssp             GGGCEEEEEECCBCC
T ss_pred             CCCcEEEEEEcccCC
Confidence            555899999999985

>1rwz_A DNA polymerase sliding clamp; torus, processivity factor, replication; HET: DNA; 1.80A {Archaeoglobus fulgidus} SCOP: d.131.1.2 d.131.1.2 PDB: 1rxm_A* 1rxz_A* 3p83_A*

Probab=100.00  E-value=1e-45  Score=316.77  Aligned_cols=243  Identities=24%  Similarity=0.408  Sum_probs=219.7

Q ss_pred             eEEEcChhhHHHHHHHHHhhhceeeEEEeCCceEEEEECCCCeEEEEEEecCCCcceeeeCCcEEEEEEhhhHHHHhccc
Q 024527            3 ELRLVQGSLLKKVLEAIKELVNDANFDCSATGFSLQAMDSSHVALVALLLRSEGFEHYRCDRNISMGMNLNNVSKMLKCA   82 (266)
Q Consensus         3 ~a~~~~~~~~k~i~~~l~~l~~~~~~~~~~~gl~~~a~D~~r~a~v~~~l~~~~F~~y~~~~~~~~gi~l~~L~~ilk~~   82 (266)
                      +|++.+++.|+++++++++++++++|+++++||+++|+|++|+|++++.++++.|++|+|++++.+|+++..|.|+|+++
T Consensus         2 ~~~~~~~~~~~~i~~~i~~~l~gv~~~~~~~~l~~vatD~~rla~~~~~l~~~~f~~y~~~~~i~~~~~l~el~kiL~~~   81 (245)
T 1rwz_A            2 IDVIMTGELLKTVTRAIVALVSEARIHFLEKGLHSRAVDPANVAMVIVDIPKDSFEVYNIDEEKTIGVDMDRIFDISKSI   81 (245)
T ss_dssp             EEEEEEHHHHHHHHHHHHTTCSEEEEEEETTEEEEEEECTTSSEEEEEEEEGGGSSEEEESSCEEEEEEHHHHHHHHTTS
T ss_pred             eEEecchHHHHHHHHHHHHHhceEEEEEcCCeEEEEEECCCcEEEEEEEEChHhCceEEcCCCeEEEEEHHHHHHHHhhC
Confidence            78999999999999999999999999999999999999999999999999988999999999999999999999999998


Q ss_pred             CCCceEEEEEcCCCCeEEEEEeCCCCCeEEEEEEeeeecCCCCCCCCcceeeEEEEEehHHHHHHHHHhhccCCEEEEEE
Q 024527           83 GNDDIITLKADDGSDTVTFMFESPTQDKIADFEMKLMDIDSEHLGIPEAEYHAIVRMPSAEFARICKDLASIGDTVVISV  162 (266)
Q Consensus        83 ~~~d~l~l~~~~~~~~l~i~~~~~~~~~~~~~~l~li~~~~~~~~ip~~~~~~~i~~~s~~~~~~i~~~~~~~d~v~i~~  162 (266)
                      ++++.++|.+++++ ++.|.+++    .++.|.++++|+++|+|.+|+.+|+++++|+++.|+++++|++.+++.|+|.+
T Consensus        82 ~~~~~v~i~~~~~~-~l~~~~~~----~~~~~~~rlidg~~p~~~iP~~~~~~~v~~~~~~l~~av~r~~~ls~~V~l~~  156 (245)
T 1rwz_A           82 STKDLVELIVEDES-TLKVKFGS----VEYKVALIDPSAIRKEPRIPELELPAKIVMDAGEFKKAIAAADKISDQVIFRS  156 (245)
T ss_dssp             CTTSEEEEEESSSS-EEEEEETT----EEEEEECBCGGGSCCCCCCCCCCCSEEEEEEHHHHHHHHHHHHTTCSEEEEEE
T ss_pred             CCCCEEEEEECCCC-eEEEEEee----eEEEEEEEccccCccCCCCCCCcccEEEEEEHHHHHHHHHHHHhcCCEEEEEE
Confidence            87889999997766 89998875    25699999999999999999779999999999999999999999999999999


Q ss_pred             eCCeEEEEEEecceeEEEEEeecccCCCCCCceEEEecCcEEEEEehHHHHhccccCCCCceEEEEecCCCcEEEEEEeC
Q 024527          163 TKEGVKFSTRGDIGTANIVLRQNTTVDKPEEATIIEMHEPVSLTFALRYMNSFTRATPLSNTVTISLSSELPVVVEYKIA  242 (266)
Q Consensus       163 ~~~~l~~s~~gd~g~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~f~~~yL~~~~k~~~ls~~v~l~~~~~~Pl~l~~~i~  242 (266)
                      ++++++++++||.|++......       +..+.++ +++++++||.+||.+++|+++++++|+++|+++.|+.+++.++
T Consensus       157 ~~~~l~ls~~~d~g~~~~~~~~-------e~~~~~~-g~~~~i~Fn~~yL~d~lk~~~~s~~V~l~~~~~~p~~i~~~~~  228 (245)
T 1rwz_A          157 DKEGFRIEAKGDVDSIVFHMTE-------TELIEFN-GGEARSMFSVDYLKEFCKVAGSGDLLTIHLGTNYPVRLVFELV  228 (245)
T ss_dssp             ETTEEEEEEECSSCEEEEEECG-------GGSSEEC-CCCEEEEEEHHHHHHHGGGCCTTCEEEEEECSSSCEEEEEEET
T ss_pred             ECCEEEEEEEccCcEEEEecCC-------CccEEEE-EeeEEEEEeHHHHHHHhhhccCCCeEEEEECCCCCEEEEEEEC
Confidence            9999999999999997665421       1122333 3459999999999999999999999999999989999999886


Q ss_pred             Cc-EEEEEEEcccCCCC
Q 024527          243 EM-GYIRFYLAPKIEED  258 (266)
Q Consensus       243 ~~-g~~~~~iaPr~~~~  258 (266)
                      ++ |++.||||||+++|
T Consensus       229 ~~~~~~~y~i~P~~~~~  245 (245)
T 1rwz_A          229 GGRAKVEYILAPRIESE  245 (245)
T ss_dssp             TTTEEEEEEECCBCCC-
T ss_pred             CCcEEEEEEEccccCCC
Confidence            65 89999999999854

>3aiz_C DNA polymerase sliding clamp C; protein-protein complex, replication; HET: DNA; 2.80A {Sulfolobus tokodaii} PDB: 3aix_A*

Probab=100.00  E-value=1.5e-45  Score=315.80  Aligned_cols=244  Identities=19%  Similarity=0.408  Sum_probs=222.3

Q ss_pred             CeeEEEcChhhHHHHHHHHHhhhceeeEEEeCCceEEEEECCCCeEEEEEEecCCCcceeeeCCcEEEEEEhhhHHHHhc
Q 024527            1 MLELRLVQGSLLKKVLEAIKELVNDANFDCSATGFSLQAMDSSHVALVALLLRSEGFEHYRCDRNISMGMNLNNVSKMLK   80 (266)
Q Consensus         1 mf~a~~~~~~~~k~i~~~l~~l~~~~~~~~~~~gl~~~a~D~~r~a~v~~~l~~~~F~~y~~~~~~~~gi~l~~L~~ilk   80 (266)
                      ||+|+  +++.||+++++++++++++.|+++++||+++|+|++|+|++++.++++.|++|+|++++.+|+++..|.|+|+
T Consensus         2 ~fr~~--~~~~lk~~i~~~~~~l~gv~~~~~~~~l~~vatD~~rla~~~~~l~~~~f~~y~~~~~i~~~~~l~~l~kiL~   79 (246)
T 3aiz_C            2 RVKVI--DADAFSYIFRTLEEFIDEITLDFTSDGLKIRGIDPSRVTFIDILIPAGYFEEYNVEKEEKVGVKLEDFTDVLK   79 (246)
T ss_dssp             EEEES--CHHHHHHHHHHHTTTCSEEEEEECSSEEEEEEECTTSCEEEEEEEEGGGSSEEECSSCEEEEEEHHHHHHHHT
T ss_pred             ceEEe--cHHHHHHHHHHHHHHhcEEEEEEcCCeEEEEEECCCcEEEEEEEEChHhCcEEEcCCCeEEEEEHHHHHHHHh
Confidence            38887  8999999999999999999999999999999999999999999999889999999999999999999999999


Q ss_pred             ccCCCceEEEEEcCCCCeEEEEEeCCCCCeEEEEEEeeeecCCCCCCCCcceeeEEEEEehHHHHHHHHHhhcc-CCEEE
Q 024527           81 CAGNDDIITLKADDGSDTVTFMFESPTQDKIADFEMKLMDIDSEHLGIPEAEYHAIVRMPSAEFARICKDLASI-GDTVV  159 (266)
Q Consensus        81 ~~~~~d~l~l~~~~~~~~l~i~~~~~~~~~~~~~~l~li~~~~~~~~ip~~~~~~~i~~~s~~~~~~i~~~~~~-~d~v~  159 (266)
                      ++++++.++|.++ +++++.|.+++..   ++.|.++++|+++|+|.+|+.+|+++++|+++.|+++++|++.+ ++.|+
T Consensus        80 ~~~~~~~v~i~~~-~~~~l~~~~~~~~---~~~~~~rlidg~~p~~~iP~~~~~~~i~i~~~~l~~a~~r~~~l~s~~V~  155 (246)
T 3aiz_C           80 TVTKNDSLYLETD-ENQNIKVTLDGVY---ERTFTFPSIVASEIETPNLNLEFPFKAKALTVTFTDIIDEIEDIGGDSIT  155 (246)
T ss_dssp             TCCTTCEEEEEEC-SSSCEEEEEESSS---EEEEEECCCCCCCCCCSCSCCCCSEEEEEEHHHHHHHHHHHHHHCCSEEE
T ss_pred             hCCCCCEEEEEEC-CCCeEEEEEecCc---EEEEEEEcccCCcccCCCCCCcccEEEEEEHHHHHHHHHHHhhCCCCEEE
Confidence            9887888999993 4358999998742   56999999999999999997799999999999999999999999 99999


Q ss_pred             EEEeCCeEEEEEEecceeEEEEEeecccCCCCCCceEEEecCcEEEEEehHHHHhccccCCCCceEEEEecCCCcEEEEE
Q 024527          160 ISVTKEGVKFSTRGDIGTANIVLRQNTTVDKPEEATIIEMHEPVSLTFALRYMNSFTRATPLSNTVTISLSSELPVVVEY  239 (266)
Q Consensus       160 i~~~~~~l~~s~~gd~g~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~f~~~yL~~~~k~~~ls~~v~l~~~~~~Pl~l~~  239 (266)
                      |.++++.++++++||.|++++++...     ++..+.++. ++++++||.+||.+++|+++++++|+++|+++.|+.+++
T Consensus       156 l~~~~~~l~ls~~~d~g~~~~~l~~~-----~~~~~~~~g-e~~~i~Fn~~yL~d~lk~~~~s~~V~l~~~~~~p~~i~~  229 (246)
T 3aiz_C          156 FKAEGGKLYLSANSDMGSSTIELSTE-----NGGLLESEG-GDAESVYGLEYVVNTSKMRKPSDTVEIAFGSQIPLKLRY  229 (246)
T ss_dssp             EEEETTEEEEEEECSSCEEEEEECTT-----TTSCSEEEE-CCEEEEEEHHHHHTTGGGTTTCSEEEEEEETTEEEEEEE
T ss_pred             EEEECCEEEEEEEcCCceEEEEEecC-----CCccEEEEE-eeEEEEEEHHHHHHHhhhccCCCeEEEEecCCCcEEEEE
Confidence            99999999999999999999999421     122234554 889999999999999999999999999999989999999


Q ss_pred             EeCCcEEEEEEEcccCC
Q 024527          240 KIAEMGYIRFYLAPKIE  256 (266)
Q Consensus       240 ~i~~~g~~~~~iaPr~~  256 (266)
                      .++++|++.||||||++
T Consensus       230 ~~~~~~~~~y~i~P~~~  246 (246)
T 3aiz_C          230 NLPQGGYADFYIAPRAE  246 (246)
T ss_dssp             EETTTEEEEEEECBCCC
T ss_pred             EeCCCCEEEEEEcccCC
Confidence            88666899999999985

>3a1j_B HHUS1, checkpoint protein HUS1; DNA damage, DNA repair, exonuclease, hydrolase, nuclease, nucleus, phosphoprotein, polymorphism, cytoplasm; HET: SUC; 2.50A {Homo sapiens} PDB: 3g65_C 3ggr_B

Probab=100.00  E-value=1.1e-38  Score=277.76  Aligned_cols=250  Identities=13%  Similarity=0.211  Sum_probs=213.6

Q ss_pred             eeEEEcChh---hHHHHHHHHHhhhceeeEEEeCCceEEEEECC---CCeEEEEEEecCCCcceeeeC------CcEEEE
Q 024527            2 LELRLVQGS---LLKKVLEAIKELVNDANFDCSATGFSLQAMDS---SHVALVALLLRSEGFEHYRCD------RNISMG   69 (266)
Q Consensus         2 f~a~~~~~~---~~k~i~~~l~~l~~~~~~~~~~~gl~~~a~D~---~r~a~v~~~l~~~~F~~y~~~------~~~~~g   69 (266)
                      |+|++.++.   .||+++++++++.++|+|+++++||+++++|.   ++++++...+..++|++|+|+      +++.+|
T Consensus         4 F~a~l~~~~~~~~lkki~~ai~~L~k~~~l~~t~~~l~~~~~d~~~~~~v~l~~~~~~~~~F~~Y~~~s~~~~~n~I~l~   83 (281)
T 3a1j_B            4 FRAKIVDGACLNHFTRISNMIAKLAKTCTLRISPDKLNFILCDKLANGGVSMWCELEQENFFNEFQMEGVSAENNEIYLE   83 (281)
T ss_dssp             EEEEECCHHHHHHHHHHHHHHHHHCSEEEEEECSSEEEEEECCCC--CCCEEEEEEEGGGTCSEEEEECSSSTTCCEEEE
T ss_pred             EEEEecCcchHHHHHHHHHHHHHHhCEEEEEEcCCEEEEEECCCCCCCeEEEEEEeehhcCCCCeEEeeccCCCCEEEEE
Confidence            999999987   99999999999999999999999999999998   888887777778999999999      479999


Q ss_pred             EEhhhHHHHhcccCCCceEEEEEc-CCCCeEEEEEeCC-----CCCeEEEEEEeeeec-CCCCCCCCcc-eeeEEEEEeh
Q 024527           70 MNLNNVSKMLKCAGNDDIITLKAD-DGSDTVTFMFESP-----TQDKIADFEMKLMDI-DSEHLGIPEA-EYHAIVRMPS  141 (266)
Q Consensus        70 i~l~~L~~ilk~~~~~d~l~l~~~-~~~~~l~i~~~~~-----~~~~~~~~~l~li~~-~~~~~~ip~~-~~~~~i~~~s  141 (266)
                      ++++.|.|+||++++++.++|++. ++...|.|.+...     ....+..+.+++++. +.+++.+|+. +|++.+.||+
T Consensus        84 v~~~~L~k~Lk~a~n~~~~~ikL~k~~~p~L~fe~~~~~~~~~~~~v~~dipvkll~~~~~e~l~~P~~~~~dv~i~lPs  163 (281)
T 3a1j_B           84 LTSENLSRALKTAQNARALKIKLTNKHFPCLTVSVELLSMSSSSRIVTHDIPIKVIPRKLWKDLQEPVVPDPDVSIYLPV  163 (281)
T ss_dssp             EEHHHHHHHGGGGGGEEEEEEEEECSSSCEEEEEEEECCSSSCCCEEEEEEECEECCGGGGGGGSCCCCCCCSEEEECCC
T ss_pred             EeHHHHHHHHHhcCCCCeEEEEeccCCCCEEEEEEEcccCCCCceEEEEEeeeEEcCHHHHhhcCCCCCCCCCeEEECCC
Confidence            999999999999998899999974 3346788877732     222334688899997 5578999998 8999999999


Q ss_pred             -HHHHHHHHHhhccCCEEEEEEeCC-eEEEEEEecceeEEEEEeecccCCC--CCCceEEEecCcEEEEEehHHHHhccc
Q 024527          142 -AEFARICKDLASIGDTVVISVTKE-GVKFSTRGDIGTANIVLRQNTTVDK--PEEATIIEMHEPVSLTFALRYMNSFTR  217 (266)
Q Consensus       142 -~~~~~~i~~~~~~~d~v~i~~~~~-~l~~s~~gd~g~~~~~~~~~~~~~~--~~~~~~~~~~~~~~~~f~~~yL~~~~k  217 (266)
                       .+|+++|+|++.+|+.|+|+++.+ .+.|+++||.|++.+.|++..+...  +++....+.+++++.+|++|||..|+|
T Consensus       164 l~~~~~iv~~lk~i~d~v~i~a~~~G~l~f~~~~d~~~~~~~~~~l~~~~~~~~~~~~~~~~~~~~sv~~~~k~l~~f~k  243 (281)
T 3a1j_B          164 LKTMKSVVEKMKNISNHLVIEANLDGELNLKIETELVCVTTHFKDLGNPPLASESTHEDRNVEHMAEVHIDIRKLLQFLA  243 (281)
T ss_dssp             HHHHHHHHHHHHTTCSEEEEEECTTSCEEEEEECSSEEEEEEECCCCCCCC----------CCCCEEEEEEHHHHHHHHH
T ss_pred             HHHHHHHHHHHhccCCeEEEEEECCCeEEEEEEeeeEEEEEEEcCCCCCCCCccccccccCCCccEEEEEEHHHHHHhhC
Confidence             899999999999999999999855 5999999999999999987544321  222333556788999999999999999


Q ss_pred             cCCCCceEEEE-ecCCCcEEEEEEeCCcEEEEEEEc
Q 024527          218 ATPLSNTVTIS-LSSELPVVVEYKIAEMGYIRFYLA  252 (266)
Q Consensus       218 ~~~ls~~v~l~-~~~~~Pl~l~~~i~~~g~~~~~ia  252 (266)
                      +.++++.+.+. ++++.||.+ |.++++|+++|||+
T Consensus       244 ~~~ls~~v~~~~i~~~~~l~~-y~~~~~g~l~yylp  278 (281)
T 3a1j_B          244 GQQVNPTKALCNIVNNKMVHF-DLLHEDVSLQYFIP  278 (281)
T ss_dssp             HCCSCCSEEEEEEETTTEEEE-EEESSSCEEEEEEE
T ss_pred             cccCCCcEEEEEEeCCceEEE-EEeCCcEEEEEEee
Confidence            99999888888 999999999 77988999999996

>3a1j_A Cell cycle checkpoint control protein RAD9A; DNA damage, DNA repair, exonuclease, hydrolase, nuclease, nucleus, phosphoprotein, polymorphism, cytoplasm; HET: SUC; 2.50A {Homo sapiens} PDB: 3ggr_A

Probab=100.00  E-value=3e-39  Score=279.65  Aligned_cols=243  Identities=13%  Similarity=0.184  Sum_probs=211.1

Q ss_pred             eeEEEcChhhHHHHHHHHHhhhceeeEEEeCCceEEEEECCCCeEEEEEEecCCCcceeeeCC----cEEEEEEhhhHHH
Q 024527            2 LELRLVQGSLLKKVLEAIKELVNDANFDCSATGFSLQAMDSSHVALVALLLRSEGFEHYRCDR----NISMGMNLNNVSK   77 (266)
Q Consensus         2 f~a~~~~~~~~k~i~~~l~~l~~~~~~~~~~~gl~~~a~D~~r~a~v~~~l~~~~F~~y~~~~----~~~~gi~l~~L~~   77 (266)
                      |.+...+++.|+++++++++++++++|+++++||+++|||++|+|++.+.+++++|++|+|+.    +..+||+++.|.+
T Consensus         3 ~~i~~~~~~~~~k~i~als~l~~e~~~~~~~~gl~l~a~d~S~va~v~l~~~~~fF~~Y~~~~~~~~~~~~gv~~k~l~k   82 (266)
T 3a1j_A            3 CLVTGGNVKVLGKAVHSLSRIGDELYLEPLEDGLSLRTVNSSRSAYACFLFAPLFFQQYQAATPGQDLLRCKILMKSFLS   82 (266)
T ss_dssp             EEEETHHHHHHHHHHHHHHTTCSEEEEEEETTEEEEEEECTTSCEEEEEEECGGGSSEEECCCSSSCCCCEEEEHHHHHH
T ss_pred             eEEcchhHHHHHHHHHHHHhhCCcEEEEEccCcEEEEEEcCcccEEEEEEEchHhhhheecCCCCCCcEEEEEEhhHHHH
Confidence            445555899999999999999999999999999999999999999999999999999999984    5889999999999


Q ss_pred             HhcccCCC----ceEEEEEcCCCCeEEEEEeCCCCCeEEEEEEeeeecCCCCCCCCcceeeEEEEEehHHHHHHHHHhhc
Q 024527           78 MLKCAGND----DIITLKADDGSDTVTFMFESPTQDKIADFEMKLMDIDSEHLGIPEAEYHAIVRMPSAEFARICKDLAS  153 (266)
Q Consensus        78 ilk~~~~~----d~l~l~~~~~~~~l~i~~~~~~~~~~~~~~l~li~~~~~~~~ip~~~~~~~i~~~s~~~~~~i~~~~~  153 (266)
                      +||+++++    |.+.|+++++.+.+.|++++.+ |++++|.+++++.+.++..+|+.+|+++++|+++.|+++|+++..
T Consensus        83 ilk~~~~~d~~vd~~~i~~~~~~~~l~~~~~~~~-~~~k~~~l~l~d~~~~~~~~~~~~~~~~i~~~s~~~~~~~~~~~~  161 (266)
T 3a1j_A           83 VFRSLAMLEKTVEKCCISLNGRSSRLVVQLHCKF-GVRKTHNLSFQDCESLQAVFDPASCPHMLRAPARVLGEAVLPFSP  161 (266)
T ss_dssp             HHCCHHHHHHHEEEEEEECCTTCSEEEEEEEEGG-GCEEEEEEECEECCCCCCCCCGGGCSEEEEEEHHHHHHHHTTSCT
T ss_pred             HhCCcccccccceEEEEEEcCCCceEEEEEEccC-CceEEEEEEEEccccccceechhhCCceEEEChHHHHHHHHhCCC
Confidence            99999865    6899999888889999999875 889999999999999999999999999999999999999999999


Q ss_pred             cCCEEEEEEe-CCeEEEEEEecce------eEEEEEeecccCCCCCCceEEEecCcEEEEEehHHHHh---ccccCCCCc
Q 024527          154 IGDTVVISVT-KEGVKFSTRGDIG------TANIVLRQNTTVDKPEEATIIEMHEPVSLTFALRYMNS---FTRATPLSN  223 (266)
Q Consensus       154 ~~d~v~i~~~-~~~l~~s~~gd~g------~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~f~~~yL~~---~~k~~~ls~  223 (266)
                      ++|.|+|.++ ++++.|++.||.|      ..+.++..     .+++.+.++++++++++|+++||+.   +.++.+  .
T Consensus       162 ~~d~v~i~~~~~~~v~~~s~~~~~~~~~~~~~~t~~~~-----~~~e~~~~~~~~~~~~tFslkyl~~~l~f~~~~~--~  234 (266)
T 3a1j_A          162 ALAEVTLGIGRGRRVILRSYHEEEADSTAKAMVTEMCL-----GEEDFQQLQAQEGVAITFCLKEFRGLLSFAESAN--L  234 (266)
T ss_dssp             TCCEEEEEECGGGCEEEEEECCC-CCCSCCCCEEEEEE-----CGGGCSEEECCTTCEEEEEHHHHHHHHHHHHHTT--C
T ss_pred             ChhhEEEEeCCCCEEEEEEcccCccccccccceEEEEE-----CHHHhhheecCCCCEEEEEHHHHHHHHHHHHhcC--C
Confidence            9999999999 9999999976542      22344421     2345556888899999999999999   555554  4


Q ss_pred             eEEEEecC-CCcEEEEEEeCCcEEEEEEEcc
Q 024527          224 TVTISLSS-ELPVVVEYKIAEMGYIRFYLAP  253 (266)
Q Consensus       224 ~v~l~~~~-~~Pl~l~~~i~~~g~~~~~iaP  253 (266)
                      .|+++|+. +.|+.++|. +++++++||||-
T Consensus       235 ~v~i~~~~~g~Pl~~~~~-~~~~~~~f~LAT  264 (266)
T 3a1j_A          235 NLSIHFDAPGRPAIFTIK-DSLLDGHFVLAT  264 (266)
T ss_dssp             EEEEEECSTTSCEEEEEE-CSSEEEEEEECC
T ss_pred             cEEEEECCCCccEEEEEe-CCcEEEEEEEee
Confidence            59999964 679999993 333599999984

>3g65_A Cell cycle checkpoint control protein RAD9A; PCNA, DNA binding clamp, DNA damage, DNA repair, exonuclease, hydrolase, nuclease, nucleus, phosphoprotein; 2.90A {Homo sapiens}

Probab=99.97  E-value=8e-30  Score=222.80  Aligned_cols=256  Identities=13%  Similarity=0.173  Sum_probs=214.6

Q ss_pred             eEEEcChhhHHHHHHHHHhhhceeeEEEeCCceEEEEECCCCeEEEEEEecCCCcceeeeCC----cEEEEEEhhhHHHH
Q 024527            3 ELRLVQGSLLKKVLEAIKELVNDANFDCSATGFSLQAMDSSHVALVALLLRSEGFEHYRCDR----NISMGMNLNNVSKM   78 (266)
Q Consensus         3 ~a~~~~~~~~k~i~~~l~~l~~~~~~~~~~~gl~~~a~D~~r~a~v~~~l~~~~F~~y~~~~----~~~~gi~l~~L~~i   78 (266)
                      .+...+++.|.+++.+++++.+++.|+++++||+++|+|++|+|++.+.+++.+|++|+++.    .+.++|+++.|.++
T Consensus         4 ~i~g~~~K~f~kai~~LskigdEl~~e~~~dgL~LravNsSrSA~~~~~f~~~FF~~Y~~~~~~~~~~~c~i~~K~ll~v   83 (296)
T 3g65_A            4 LVTGGNVKVLGKAVHSLSRIGDELYLEPLEDGLSLRTVNSSRSAYACFLFAPLFFQQYQAATPGQDLLRCKILMKSFLSV   83 (296)
T ss_dssp             EEETHHHHHHHHHHHHHHTTCSEEEEEEETTEEEEEEECTTSCEEEEEEETTSSCCCCCC-------CCEEEEHHHHHTT
T ss_pred             EEecccHHHHHHHHHHHHhhCceEEEEEcCCeEEEEEECCcceEEEEEEeChHHhhheecCCCCCccEEEEEEhHHHHHH
Confidence            45556788999999999999999999999999999999999999999999999999999874    47789999999999


Q ss_pred             hcccCC----CceEEEEEcCCCCeEEEEEeCCCCCeEEEEEEeeeecCCCCCCCCcceeeEEEEEehHHHHHHHHHhhcc
Q 024527           79 LKCAGN----DDIITLKADDGSDTVTFMFESPTQDKIADFEMKLMDIDSEHLGIPEAEYHAIVRMPSAEFARICKDLASI  154 (266)
Q Consensus        79 lk~~~~----~d~l~l~~~~~~~~l~i~~~~~~~~~~~~~~l~li~~~~~~~~ip~~~~~~~i~~~s~~~~~~i~~~~~~  154 (266)
                      +|+...    -+.+.|+++.+.++|.|++.+. .|.+++|.++.++.+..+...|+..+++.+.++++.|+++++.+...
T Consensus        84 fr~~~~~d~~ve~c~i~l~~~~~rl~i~l~ck-~gi~Kt~~l~~~~~~~l~a~~~~~~~~n~~~i~~~~l~e~l~~f~~~  162 (296)
T 3g65_A           84 FRSLAMLEKTVEKCCISLNGRSSRLVVQLHCK-FGVRKTHNLSFQDCESLQAVFDPASCPHMLRAPARVLGEAVLPFSPA  162 (296)
T ss_dssp             TSSTTC----CCEEEEEECCC---EEEEEECG-GGCEEEEEECCCCCCCCCCCCCGGGCSCEEEEEHHHHHHHSTTSCTT
T ss_pred             hccccccccceeEEEEEEeCCCCEEEEEEEeC-CCeEEEEEEEeEeccccccccCchhCcEEEEEchHHHHHHHHhCcCC
Confidence            999853    4679999988788999999765 48899999999999888777887789999999999999999999999


Q ss_pred             CCEEEEEEe-CCeEEEEEEecc------eeEEEEEeecccCCCCCCceEEEecCcEEEEEehHHHHhccccC-CCCceEE
Q 024527          155 GDTVVISVT-KEGVKFSTRGDI------GTANIVLRQNTTVDKPEEATIIEMHEPVSLTFALRYMNSFTRAT-PLSNTVT  226 (266)
Q Consensus       155 ~d~v~i~~~-~~~l~~s~~gd~------g~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~f~~~yL~~~~k~~-~ls~~v~  226 (266)
                      .+.|+|.++ ++++.|++.+|.      +..++++..     ++++...++++++++++|++|||+.++..+ .++..|.
T Consensus       163 ~eevtl~~~~~~~v~~~s~~e~~~d~~~~~~~Tel~i-----~~~ef~~~~v~~~~~itf~lKefrail~~ae~~~~~i~  237 (296)
T 3g65_A          163 LAEVTLGIGRGRRVILRSYHEEEADSTAKAMVTEMCL-----GEEDFQQLQAQEGVAITFCLKEFRGLLSFAESANLNLS  237 (296)
T ss_dssp             CCEEEEEEETTTEEEEEECCC-----CCCCCEEEEEE-----CGGGCSEEECCTTCEEEEEHHHHHHHHHHHHHTTCEEE
T ss_pred             cceEEEEECCCCeEEEEEeccccccccCceEEEEEEE-----ChhHheeEecCCCcEEEEEHHHHHHHHHHHHhcCCeEE
Confidence            999999999 799999998652      345555532     223444577889999999999999999866 4467999


Q ss_pred             EEecC-CCcEEEEEEeCCcEEEEEEEcccCCCCcccCCCC
Q 024527          227 ISLSS-ELPVVVEYKIAEMGYIRFYLAPKIEEDEDETKPQ  265 (266)
Q Consensus       227 l~~~~-~~Pl~l~~~i~~~g~~~~~iaPr~~~~~~~~~~~  265 (266)
                      ++|+. +.|+.++|. .++..++|++|++.+.|...+-|+
T Consensus       238 i~f~~pG~Pl~~~~~-~~~~~~~fvLaT~~~~~~~~~~~~  276 (296)
T 3g65_A          238 IHFDAPGRPAIFTIK-DSLLDGHFVLATLSDTDSGTTSTS  276 (296)
T ss_dssp             EECCSTTSCEEEEEE-CSSCEEEEEECCCCSSSCSCC---
T ss_pred             EEECCCCCcEEEEEe-CCcEEEEEEEEECCCCCCcccCCc
Confidence            99997 469999997 456899999999999887776654

>3d1g_A DNA polymerase III subunit beta; chemical probe, DNA sliding clamp, DNA replication, rational drug design, antibiotic target, transferase; HET: DNA 322; 1.64A {Escherichia coli} SCOP: d.131.1.1 d.131.1.1 d.131.1.1 PDB: 1mmi_A* 1unn_A* 2pol_A* 3bep_A* 3d1e_A* 3d1f_A* 1ok7_A* 3q4j_A* 3q4k_A* 3qsb_A* 3q4l_A* 2xur_A* 1jql_A* 1jqj_A* 3f1v_A* 3pwe_A*

Probab=99.95  E-value=5.8e-26  Score=204.62  Aligned_cols=214  Identities=14%  Similarity=0.206  Sum_probs=186.8

Q ss_pred             ChhhHHHHHHHHH---------hhhceeeEEEeCCceEEEEECCCCeEEEEEEecCCCcceeeeCCcEEEEEEhhhHHHH
Q 024527            8 QGSLLKKVLEAIK---------ELVNDANFDCSATGFSLQAMDSSHVALVALLLRSEGFEHYRCDRNISMGMNLNNVSKM   78 (266)
Q Consensus         8 ~~~~~k~i~~~l~---------~l~~~~~~~~~~~gl~~~a~D~~r~a~v~~~l~~~~F~~y~~~~~~~~gi~l~~L~~i   78 (266)
                      ++..|+++++.+.         ++++|+.|++.+++++++|+|+||+|+..+.++.+. .      +..+.|+.+.|.++
T Consensus       131 ~~~~l~~~i~~t~fA~s~de~r~~L~Gv~~~~~~~~l~~vATDg~RLa~~~~~~~~~~-~------~~~~iiP~k~l~el  203 (366)
T 3d1g_A          131 PQATMKRLIEATQFSMAHQDVRYYLNGMLFETEGEELRTVATDGHRLAVCSMPIGQSL-P------SHSVIVPRKGVIEL  203 (366)
T ss_dssp             CHHHHHHHHHHHGGGSCSSCSSGGGSEEEEEEEEEEEEEEEECSSEEEEEEEEEEEEE-E------EEEEEEEHHHHHHH
T ss_pred             CHHHHHHHHhheeEEeccCCCccceEEEEEEEeCCEEEEEEeCCccEEEEEeccCCCC-c------ccEEEEEHHHHHHH
Confidence            4789999999865         899999999999999999999999999999887532 1      14578999999998


Q ss_pred             hcccCC-CceEEEEEcCCCCeEEEEEeCCCCCeEEEEEEeeeecCCCCC--CCCcceeeEEEEEehHHHHHHHHHhhccC
Q 024527           79 LKCAGN-DDIITLKADDGSDTVTFMFESPTQDKIADFEMKLMDIDSEHL--GIPEAEYHAIVRMPSAEFARICKDLASIG  155 (266)
Q Consensus        79 lk~~~~-~d~l~l~~~~~~~~l~i~~~~~~~~~~~~~~l~li~~~~~~~--~ip~~~~~~~i~~~s~~~~~~i~~~~~~~  155 (266)
                      .|.+.. ++.+.|.++++  ++.|.+++.      .|.++++|+.+|+|  .+|+ +++.+++++++.|.++++|++.++
T Consensus       204 ~kll~~~~~~v~i~~~~~--~i~f~~~~~------~~~srLidg~fPdy~~viP~-~~~~~~~v~~~~l~~al~Rvsils  274 (366)
T 3d1g_A          204 MRMLDGGDNPLRVQIGSN--NIRAHVGDF------IFTSKLVDGRFPDYRRVLPK-NPDKHLEAGCDLLKQAFARAAILS  274 (366)
T ss_dssp             HHTCCSSSCCEEEEECSS--EEEEEETTE------EEEEECCSSCCCCHHHHSCS-CCCEEEEEEHHHHHHHHHHHHHTS
T ss_pred             HHhcccCCccEEEEEcCC--EEEEEECCE------EEEEEEecccCCChhhcCCC-CCCeEEEEEHHHHHHHHHHHHHHh
Confidence            888865 56799999754  899988765      89999999999988  6786 999999999999999999999998


Q ss_pred             C----EEEEEEeCCeEEEEEEe-cceeEEEEEeecccCCCCCCceEEEe-cCcEEEEEehHHHHhccccCCCCceEEEEe
Q 024527          156 D----TVVISVTKEGVKFSTRG-DIGTANIVLRQNTTVDKPEEATIIEM-HEPVSLTFALRYMNSFTRATPLSNTVTISL  229 (266)
Q Consensus       156 d----~v~i~~~~~~l~~s~~g-d~g~~~~~~~~~~~~~~~~~~~~~~~-~~~~~~~f~~~yL~~~~k~~~ls~~v~l~~  229 (266)
                      +    .|++.++++.+.+++.+ |.|++++++.             ++. ++++++.||.+||.+++++++ +++|.++|
T Consensus       275 ~~~~~~v~l~~~~~~l~i~a~~~e~g~a~e~l~-------------~~~~Ge~~~I~fN~~YL~d~L~~~~-~~~v~l~~  340 (366)
T 3d1g_A          275 NEKFRGVRLYVSENQLKITANNPEQEEAEEILD-------------VTYSGAEMEIGFNVSYVLDVLNALK-CENVRMML  340 (366)
T ss_dssp             CTTTCEEEEEEETTEEEEEEECTTCCEEEEEEE-------------CBCCSCCEEEEEEHHHHHHHHHHCC-SSEEEEEE
T ss_pred             cCCCceEEEEEeCCEEEEEEcCCCCceEEEEEE-------------EEecCCcEEEEEcHHHHHHHHhcCC-CCEEEEEE
Confidence            5    59999999999999987 8999888872             334 678999999999999999998 99999999


Q ss_pred             cCC-CcEEEEEEeCCcEEEEEEEcc
Q 024527          230 SSE-LPVVVEYKIAEMGYIRFYLAP  253 (266)
Q Consensus       230 ~~~-~Pl~l~~~i~~~g~~~~~iaP  253 (266)
                      +++ .|+.+++.  +++.+.|+|+|
T Consensus       341 ~~~~~p~~i~~~--~~~~~~ylvmP  363 (366)
T 3d1g_A          341 TDSVSSVQIEDA--ASQSAAYVVMP  363 (366)
T ss_dssp             CCTTSCEEEEET--TEEEEEEEECC
T ss_pred             CCCCCCEEEEcC--CCCceEEEEEE
Confidence            998 69999874  45789999999

>2avt_A DNA polymerase III beta subunit; beta clamp, sliding clamp, replication, transferase; HET: DNA; 2.00A {Streptococcus pyogenes} PDB: 2awa_A*

Probab=99.94  E-value=2.5e-25  Score=201.31  Aligned_cols=216  Identities=15%  Similarity=0.215  Sum_probs=184.6

Q ss_pred             hhhHHHHHHHH---------HhhhceeeEEEeCC-ceEEEEECCCCeEEEEEEecCCCcceeeeCCcEEEEEEhhhHHHH
Q 024527            9 GSLLKKVLEAI---------KELVNDANFDCSAT-GFSLQAMDSSHVALVALLLRSEGFEHYRCDRNISMGMNLNNVSKM   78 (266)
Q Consensus         9 ~~~~k~i~~~l---------~~l~~~~~~~~~~~-gl~~~a~D~~r~a~v~~~l~~~~F~~y~~~~~~~~gi~l~~L~~i   78 (266)
                      +..|+++++.+         +++++|+.|++.++ +++++|+|+||+|++.+.++.+.       .+..+.|+.+.|.++
T Consensus       139 ~~~l~~~i~~t~fA~s~de~r~~L~Gv~~~~~~~~~l~~vATDg~RLa~~~~~~~~~~-------~~~~~iiP~k~l~el  211 (378)
T 2avt_A          139 TKLLKSIIAETAFAASLQESRPILTGVHIVLSNHKDFKAVATDSHRMSQRLITLDNTS-------ADFMVVLPSKSLREF  211 (378)
T ss_dssp             HHHHHHHHHHHGGGSCCCTTSGGGGEEEEEEETTTEEEEEEECSSEEEEEEEECSSCC-------CCEEEEEEHHHHHHH
T ss_pred             HHHHHHHHhheEEEEECCCCcceeEEEEEEECCCCeEEEEEecCeeEEEEEeccCCCC-------CccEEEEEhHHHHHH
Confidence            77899999875         45899999999999 99999999999999999887642       234678999998888


Q ss_pred             hcccCC-CceEEEEEcCCCCeEEEEEeCCCCCeEEEEEEeeeecCCCCC--CCCcceeeEEEEEehHHHHHHHHHhhccC
Q 024527           79 LKCAGN-DDIITLKADDGSDTVTFMFESPTQDKIADFEMKLMDIDSEHL--GIPEAEYHAIVRMPSAEFARICKDLASIG  155 (266)
Q Consensus        79 lk~~~~-~d~l~l~~~~~~~~l~i~~~~~~~~~~~~~~l~li~~~~~~~--~ip~~~~~~~i~~~s~~~~~~i~~~~~~~  155 (266)
                      .|.+.+ ++.+.|.++++  ++.|.+++.      .|.++++|+.+|+|  .+|. +++.++++++..|.++++|++.++
T Consensus       212 ~kll~~~~~~v~i~~~~~--~i~f~~~~~------~~~srLidg~fPdy~~viP~-~~~~~~~v~~~~l~~al~Rvs~ls  282 (378)
T 2avt_A          212 SAVFTDDIETVEVFFSPS--QILFRSEHI------SFYTRLLEGNYPDTDRLLMT-EFETEVVFNTQSLRHAMERAFLIS  282 (378)
T ss_dssp             HHHSCTTCCEEEEEECSS--EEEEECSSE------EEEEECCCSCCCCCGGGSCC-CCSEEEEEEHHHHHHHHHHHHHHH
T ss_pred             HHhcccCCceEEEEEcCC--EEEEEECCE------EEEEEEecccCCChhhcCCC-CCCEEEEEEHHHHHHHHHHHHHHh
Confidence            888763 56799999754  888887665      89999999999998  5785 899999999999999999999987


Q ss_pred             CE-----EEEEEeCCeEEEEEEe-cceeEEEEEeecccCCCCCCceEE-Ee-cCcEEEEEehHHHHhccccCCCCceEEE
Q 024527          156 DT-----VVISVTKEGVKFSTRG-DIGTANIVLRQNTTVDKPEEATII-EM-HEPVSLTFALRYMNSFTRATPLSNTVTI  227 (266)
Q Consensus       156 d~-----v~i~~~~~~l~~s~~g-d~g~~~~~~~~~~~~~~~~~~~~~-~~-~~~~~~~f~~~yL~~~~k~~~ls~~v~l  227 (266)
                      +.     |++.++++.+++++.+ |.|++++++.             + +. ++++++.||.+||.+++++++ +++|.+
T Consensus       283 ~~~~~~~v~l~~~~~~l~l~a~~~e~g~a~e~l~-------------~~~~~Ge~~~I~FN~~YL~d~L~~~~-~~~v~l  348 (378)
T 2avt_A          283 NATQNGTVKLEITQNHISAHVNSPEVGKVNEDLD-------------IVSQSGSDLTISFNPTYLIESLKAIK-SETVKI  348 (378)
T ss_dssp             TTSTTCCEEEEEETTEEEEEEEETTTEEEEEECC-------------CSEEEECCEEEEECHHHHHHHHHTCC-SSEEEE
T ss_pred             ccCCCceEEEEEeCCEEEEEEeCCCCceeEEEEe-------------eeeecCCeEEEEEcHHHHHHHHhcCC-CCEEEE
Confidence            54     9999999999999987 9999888772             2 23 678999999999999999998 999999


Q ss_pred             EecCC-CcEEEEEEeCCcEEEEEEEcc-cC
Q 024527          228 SLSSE-LPVVVEYKIAEMGYIRFYLAP-KI  255 (266)
Q Consensus       228 ~~~~~-~Pl~l~~~i~~~g~~~~~iaP-r~  255 (266)
                      +|+++ .|+.++.. ++++.+.|+|+| |+
T Consensus       349 ~~~~~~~p~~i~~~-~~~~~~~ylvmPvr~  377 (378)
T 2avt_A          349 HFLSPVRPFTLTPG-DEEESFIQLITPVRT  377 (378)
T ss_dssp             EECCTTSCEEEEET-TCCSEEEEEECCCCC
T ss_pred             EECCCCCCEEEEcC-CCCCceEEEEEeeec
Confidence            99998 69999874 332378999999 54

>3t0p_A DNA polymerase III, beta subunit; DNA clamp, structural genomics, joint center for structural JCSG, protein structure initiative; HET: DNA MSE; 2.26A {Eubacterium rectale}

Probab=99.94  E-value=2.2e-25  Score=201.07  Aligned_cols=216  Identities=13%  Similarity=0.259  Sum_probs=185.8

Q ss_pred             hhhHHHHHHH---------HHhhhceeeEEEeCCceEEEEECCCCeEEEEEEecCCCcceeeeCCcEEEEEEhhhHHHHh
Q 024527            9 GSLLKKVLEA---------IKELVNDANFDCSATGFSLQAMDSSHVALVALLLRSEGFEHYRCDRNISMGMNLNNVSKML   79 (266)
Q Consensus         9 ~~~~k~i~~~---------l~~l~~~~~~~~~~~gl~~~a~D~~r~a~v~~~l~~~~F~~y~~~~~~~~gi~l~~L~~il   79 (266)
                      +..|+++++.         .+++++++.|++.+++++++|+|+||+|+..+.++...       .+..+.||.+.|.++.
T Consensus       132 ~~~L~~~I~~t~fA~s~de~r~~L~Gv~~~~~~~~l~~vATDg~RLa~~~~~~~~~~-------~~~~~iIP~k~l~el~  204 (371)
T 3t0p_A          132 QFTLKEVIRQTIFSIADNDNNKLMTGELFEIEENKLRVVSLDGHRISIRYIEMKNHY-------DSKKVVVPGKTLQEIS  204 (371)
T ss_dssp             HHHHHHHHHTTGGGSCSSSSSTGGGEEEEEEEEEEEEEEEECSSEEEEEEEEEEEEE-------EEEEEEEEHHHHHHHH
T ss_pred             HHHHHHHHhheeEEeeCCCCchhceEEEEEEECCEEEEEEecceEEEEEEeccCCCC-------CceEEEEEHHHHHHHH
Confidence            6788888886         45688999999999999999999999999988887431       2356899999999999


Q ss_pred             cccC--CCceEEEEEcCCCCeEEEEEeCCCCCeEEEEEEeeeecCCCCC--CCCcceeeEEEEEehHHHHHHHHHhhccC
Q 024527           80 KCAG--NDDIITLKADDGSDTVTFMFESPTQDKIADFEMKLMDIDSEHL--GIPEAEYHAIVRMPSAEFARICKDLASIG  155 (266)
Q Consensus        80 k~~~--~~d~l~l~~~~~~~~l~i~~~~~~~~~~~~~~l~li~~~~~~~--~ip~~~~~~~i~~~s~~~~~~i~~~~~~~  155 (266)
                      |.+.  .++.+.|.++++  ++.|.+++.      .+..+++|+.+|+|  .+|+ +++.++++++.+|.++++|++.++
T Consensus       205 kll~~~~~~~V~i~~~~~--~i~f~~~~~------~~~srLidG~fPdy~~viP~-~~~~~~~v~r~~l~~al~Rvs~ls  275 (371)
T 3t0p_A          205 KIIPGSADEDVVIYITNN--HIVFEFENT------TVVSRLIEGEYFKIDQMLSS-DYDTKVRINKRELLDCIDRATLLV  275 (371)
T ss_dssp             HHCCCCTTSEEEEEEETT--EEEEEETTE------EEEEECCCSCCCCCGGGCCC-CCSEEEEEEHHHHHHHHHHHHTTC
T ss_pred             HhcCcCCCceEEEEEcCC--EEEEEECCE------EEEEEEecccCCChhhhccc-cCCEEEEEEHHHHHHHHHHHHHhh
Confidence            9886  357899999765  888888766      89999999999999  5886 999999999999999999999997


Q ss_pred             C-----EEEEEEeCCeEEEEEEecceeEEEEEeecccCCCCCCceEEEe-cCcEEEEEehHHHHhccccCCCCceEEEEe
Q 024527          156 D-----TVVISVTKEGVKFSTRGDIGTANIVLRQNTTVDKPEEATIIEM-HEPVSLTFALRYMNSFTRATPLSNTVTISL  229 (266)
Q Consensus       156 d-----~v~i~~~~~~l~~s~~gd~g~~~~~~~~~~~~~~~~~~~~~~~-~~~~~~~f~~~yL~~~~k~~~ls~~v~l~~  229 (266)
                      +     .|++.++++.+++++.+|.|++++++.             ++. ++++++.||.+||.++++++. +++|.++|
T Consensus       276 ~e~~~~~V~l~~~~~~l~i~~~~~~g~a~E~i~-------------~~~~Ge~~~I~FN~~yLld~L~~~~-~~~v~l~~  341 (371)
T 3t0p_A          276 KEGDKKPIIMNITDGNMELRINSFIGSMNEDID-------------IDKDGKDIMIGFNPKFFIDALRVID-EEEVNLYM  341 (371)
T ss_dssp             CC-CCCCEEEEEETTEEEEEEECSSEEEEEEEE-------------CEEEECCEEEEECHHHHHHHHTTCC-CSEEEEEE
T ss_pred             ccCCCceEEEEEeCCEEEEEEeCCCCcEEEEEE-------------EEecCCcEEEEEchHHHHHHHhCCC-CCeEEEEE
Confidence            4     499999999999999988899888872             444 678999999999999999998 89999999


Q ss_pred             cCC-CcEEEEEEeCCcEEEEEEEcc-cCCC
Q 024527          230 SSE-LPVVVEYKIAEMGYIRFYLAP-KIEE  257 (266)
Q Consensus       230 ~~~-~Pl~l~~~i~~~g~~~~~iaP-r~~~  257 (266)
                      ++. .|+.++.  + ++.+.|+|+| |+.+
T Consensus       342 ~~~~~p~~i~~--~-~~~~~~lvMPvrl~~  368 (371)
T 3t0p_A          342 VNPKAPCFIKD--D-EGKFIYLILPVNFNT  368 (371)
T ss_dssp             SCTTSCEEEEC--T-TSCEEEEECCCCC--
T ss_pred             CCCCCcEEEEc--C-CCCeEEEEcceeccc
Confidence            987 5999985  3 4678899999 7764

>1vpk_A DNA polymerase III, beta subunit; TM0262, structural genomic center for structural genomics, JCSG, protein structure INI PSI, transferase; HET: DNA; 2.00A {Thermotoga maritima} SCOP: d.131.1.1 d.131.1.1 d.131.1.1

Probab=99.93  E-value=1.3e-24  Score=196.72  Aligned_cols=215  Identities=16%  Similarity=0.287  Sum_probs=184.5

Q ss_pred             ChhhHHHHHHHHHhh---------hceeeEEEeCCceEEEEECCCCeEEEEEEecCCCcceeeeCCcEEEEEEhhhHHHH
Q 024527            8 QGSLLKKVLEAIKEL---------VNDANFDCSATGFSLQAMDSSHVALVALLLRSEGFEHYRCDRNISMGMNLNNVSKM   78 (266)
Q Consensus         8 ~~~~~k~i~~~l~~l---------~~~~~~~~~~~gl~~~a~D~~r~a~v~~~l~~~~F~~y~~~~~~~~gi~l~~L~~i   78 (266)
                      ++..|+++++.+.-.         ++++.|++.+++++++|+|++|+|+..+.++.+    +    +..+.++.+.+.++
T Consensus       142 ~~~~L~~~I~r~~~a~s~~e~r~~l~GV~l~~~~~~l~~vAtDg~rla~~~~~~~~~----~----~~~~iip~k~l~el  213 (378)
T 1vpk_A          142 DTSLLEEMVEKVIFAAAKDEFMRNLNGVFWELHKNLLRLVASDGFRLALAEEQIENE----E----EASFLLSLKSMKEV  213 (378)
T ss_dssp             EHHHHHHHHHHHGGGSCCCTTCTTTSEEEEEEETTEEEEEEECSSEEEEEEEECCCC----S----CEEEEEEHHHHHHH
T ss_pred             CHHHHHHHHhheEEEEECCCCcceeeEEEEEEECCEEEEEEeCcccEEEEEEecCCC----C----cceEEEEchHHHHH
Confidence            377899999987644         457999999999999999999999998888653    1    25689999999988


Q ss_pred             hcccCC-Cc-eEEEEEcCCCCeEEEEEeCCCCCeEEEEEEeeeecCCCCC--CCCcceeeEEEEEehHHHHHHHHHhhcc
Q 024527           79 LKCAGN-DD-IITLKADDGSDTVTFMFESPTQDKIADFEMKLMDIDSEHL--GIPEAEYHAIVRMPSAEFARICKDLASI  154 (266)
Q Consensus        79 lk~~~~-~d-~l~l~~~~~~~~l~i~~~~~~~~~~~~~~l~li~~~~~~~--~ip~~~~~~~i~~~s~~~~~~i~~~~~~  154 (266)
                      +|.++. ++ .+.|.++++  ++.|.+++.      .|.++++|+.+|+|  .+|+ +++.+++++++.|.++++|++.+
T Consensus       214 ~k~L~~~~~~~V~i~~~~~--~i~f~~~~~------~~~srLidg~fPdy~~vip~-~~~~~~~v~~~~l~~al~Rv~~~  284 (378)
T 1vpk_A          214 QNVLDNTTEPTITVRYDGR--RVSLSTNDV------ETVMRVVDAEFPDYKRVIPE-TFKTKVVVSRKELRESLKRVMVI  284 (378)
T ss_dssp             HHHHHTCCCSEEEEEECSS--EEEEECSSE------EEEEECCSSCCCCGGGGSCS-CCSEEEEEEHHHHHHHHHHHHHH
T ss_pred             HHhhccCCCceEEEEEcCC--EEEEEECCE------EEEEEeccccCCCHHHhccc-CCCeEEEEEHHHHHHHHHHHHHH
Confidence            888764 45 799999755  888887664      89999999999988  5786 99999999999999999999999


Q ss_pred             CCE----EEEEEeCCeEEEEEEe-cceeEEEEEeecccCCCCCCceEEEe-cCcEEEEEehHHHHhccccCCCCceEEEE
Q 024527          155 GDT----VVISVTKEGVKFSTRG-DIGTANIVLRQNTTVDKPEEATIIEM-HEPVSLTFALRYMNSFTRATPLSNTVTIS  228 (266)
Q Consensus       155 ~d~----v~i~~~~~~l~~s~~g-d~g~~~~~~~~~~~~~~~~~~~~~~~-~~~~~~~f~~~yL~~~~k~~~ls~~v~l~  228 (266)
                      ++.    |++.++++.+++++.+ |.|++++++.             ++. ++++++.||.+||.+++++++ +++|.++
T Consensus       285 s~~~~~~v~l~~~~~~l~i~a~~~d~g~a~e~l~-------------~~~~G~~~~i~fN~~yL~d~L~~~~-~~~v~l~  350 (378)
T 1vpk_A          285 ASKGSESVKFEIEENVMRLVSKSPDYGEVVDEVE-------------VQKEGEDLVIAFNPKFIEDVLKHIE-TEEIEMN  350 (378)
T ss_dssp             HTTTTCCEEEEECSSEEEEEEEETTTEEEEEEEE-------------CEEEECCEEEEECHHHHHHHHHHCC-SSEEEEE
T ss_pred             hcCCCceEEEEEeCCEEEEEEcCCccceeEEEEE-------------EEecCCeEEEEEcHHHHHHHHhcCC-CCEEEEE
Confidence            865    9999999999999988 9999888872             333 678999999999999999998 9999999


Q ss_pred             ecCC-CcEEEEEEeCCcEEEEEEEcc-cC
Q 024527          229 LSSE-LPVVVEYKIAEMGYIRFYLAP-KI  255 (266)
Q Consensus       229 ~~~~-~Pl~l~~~i~~~g~~~~~iaP-r~  255 (266)
                      |+++ .|+.+++.  +++.+.|+|+| |+
T Consensus       351 ~~~~~~p~~i~~~--~~~~~~~limP~r~  377 (378)
T 1vpk_A          351 FVDSTSPCQINPL--DISGYLYIVMPIRL  377 (378)
T ss_dssp             ESCTTSCEEEEET--TCCSEEEEECCBCC
T ss_pred             ECCCCCCEEEEcC--CCCceEEEEEeecc
Confidence            9998 69999974  34678899999 65

>3p16_A DNA polymerase III subunit beta; DNA polymerase III sliding clamp, transferase; HET: DNA; 2.89A {Mycobacterium tuberculosis} PDB: 3rb9_A*

Probab=99.93  E-value=2e-24  Score=196.57  Aligned_cols=223  Identities=17%  Similarity=0.260  Sum_probs=188.0

Q ss_pred             ChhhHHHHHHHH---------HhhhceeeEEEeCCceEEEEECCCCeEEEEEEecCCCcceeeeCCcEEEEEEhhhHHHH
Q 024527            8 QGSLLKKVLEAI---------KELVNDANFDCSATGFSLQAMDSSHVALVALLLRSEGFEHYRCDRNISMGMNLNNVSKM   78 (266)
Q Consensus         8 ~~~~~k~i~~~l---------~~l~~~~~~~~~~~gl~~~a~D~~r~a~v~~~l~~~~F~~y~~~~~~~~gi~l~~L~~i   78 (266)
                      ++..|+++++.+         +++++++.|++.+++|+++|+|++|+|+..+.++....     +.+..+.|+.+.|.++
T Consensus       146 ~~~~L~~~I~~t~fA~s~de~rp~L~Gv~~~~~~~~l~~VATDghRLA~~~~~~~~~~~-----~~~~~~iIP~k~l~el  220 (408)
T 3p16_A          146 PAELFAEAISQVAIAAGRDDTLPMLTGIRVEILGETVVLAATDRFRLAVRELKWSASSP-----DIEAAVLVPAKTLAEA  220 (408)
T ss_dssp             CHHHHHHHHHHHTTSSCCSSSCCCSCEEEEEEETTEEEEEEECSSEEEEEEEECBCSSS-----SCEEEEEEEHHHHHHH
T ss_pred             cHHHHHHHHhhheecccCccchhhceEEEEEEECCEEEEEEcCcceEEEEeccccccCC-----CCceeEEEEHHHHHHH
Confidence            377899999884         45689999999999999999999999999998875431     1235789999999999


Q ss_pred             hcccCCCceEEEEEcCCC-----CeEEEEEeCCCCCeEEEEEEeeeecCCCCC--CCCcceeeEEEEEehHHHHHHHHHh
Q 024527           79 LKCAGNDDIITLKADDGS-----DTVTFMFESPTQDKIADFEMKLMDIDSEHL--GIPEAEYHAIVRMPSAEFARICKDL  151 (266)
Q Consensus        79 lk~~~~~d~l~l~~~~~~-----~~l~i~~~~~~~~~~~~~~l~li~~~~~~~--~ip~~~~~~~i~~~s~~~~~~i~~~  151 (266)
                      .|.+..++.+.|.+++++     .++.|.+++.      .+.++|+|+.+|+|  .+|+ +++.+++++..+|.++++|+
T Consensus       221 ~kll~~~~~V~i~~~~~~~~~~~~~i~f~~~~~------~~~srLIdG~fPdy~~vIP~-~~~~~v~v~r~~l~~al~Rv  293 (408)
T 3p16_A          221 AKAGIGGSDVRLSLGTGPGVGKDGLLGISGNGK------RSTTRLLDAEFPKFRQLLPT-EHTAVATMDVAELIEAIKLV  293 (408)
T ss_dssp             HHTCCSSSCEEEESCSSSSCCSSCCCEEECSSE------EEECCCCSSCCCCGGGTCCS-SCSEEEEEEHHHHHHHHHHH
T ss_pred             HHhcCCCCcEEEEEcCCcccccceEEEEEECCE------EEEEEecccCCCChhhhCCC-CCCEEEEEEHHHHHHHHHHH
Confidence            998876788999997653     4777877665      89999999999998  6885 89999999999999999999


Q ss_pred             hccCC---EEEEEEeCCeEEEEEE-ecceeEEEEEeecccCCCCCCceEEEe-cCcEEEEEehHHHHhccccCCCCceEE
Q 024527          152 ASIGD---TVVISVTKEGVKFSTR-GDIGTANIVLRQNTTVDKPEEATIIEM-HEPVSLTFALRYMNSFTRATPLSNTVT  226 (266)
Q Consensus       152 ~~~~d---~v~i~~~~~~l~~s~~-gd~g~~~~~~~~~~~~~~~~~~~~~~~-~~~~~~~f~~~yL~~~~k~~~ls~~v~  226 (266)
                      +.+++   .|++.++++.+++++. +|.|++++++.             ++. ++++++.||.+||.++++++. +++|.
T Consensus       294 slls~~~~~V~l~~~~~~l~i~a~~~e~g~a~E~i~-------------~~~~Ge~l~I~FN~~YLlD~L~~i~-~e~V~  359 (408)
T 3p16_A          294 ALVADRGAQVRMEFADGSVRLSAGADDVGRAEEDLV-------------VDYAGEPLTIAFNPTYLTDGLSSLR-SERVS  359 (408)
T ss_dssp             HTTCCSSCCEEEEEETTEEEEEEECSSSCEEEEEEE-------------CEEEESCCEEEECHHHHHHHHHHSC-SSEEE
T ss_pred             HhhhcCCceEEEEEeCCEEEEEEeCCCCceEEEEEE-------------EEEeCCcEEEEEeHHHHHHHHhccC-CCeEE
Confidence            99975   5999999999999998 58899988872             444 678999999999999999998 89999


Q ss_pred             EEecCC-CcEEEEEEeCCc---------E-------EEEEEEcc-cCC
Q 024527          227 ISLSSE-LPVVVEYKIAEM---------G-------YIRFYLAP-KIE  256 (266)
Q Consensus       227 l~~~~~-~Pl~l~~~i~~~---------g-------~~~~~iaP-r~~  256 (266)
                      ++|++. .|+.|+..-+++         |       .+.|+|+| |+.
T Consensus       360 l~~~~~~~P~~i~~~~~~~~~~~~~~~~~~~~~~~~~~~~limPvR~~  407 (408)
T 3p16_A          360 FGFTTAGKPALLRPVSGDDRPVAGLNGNGPFPAVSTDYVYLLMPVRLP  407 (408)
T ss_dssp             EEESCTTSCEEEEEECCC--------------CCSSSEEEEECCBCC-
T ss_pred             EEECCCCCcEEEEeCCCCccccccccccccccCCCCcEEEEEEEeccC
Confidence            999987 699998753321         1       58899999 653

>3pge_A SUMO-modified proliferating cell nuclear antigen; DNA replication, DNA binding protein; 2.80A {Saccharomyces cerevisiae}

Probab=99.86  E-value=6.5e-21  Score=155.72  Aligned_cols=95  Identities=35%  Similarity=0.752  Sum_probs=87.3

Q ss_pred             CCeEEEEEEecceeEEEEEeecccCCCCCCceEEEecCcEEEEEehHHHHhccccCCCCceEEEEecCCCcEEEEEEeCC
Q 024527          164 KEGVKFSTRGDIGTANIVLRQNTTVDKPEEATIIEMHEPVSLTFALRYMNSFTRATPLSNTVTISLSSELPVVVEYKIAE  243 (266)
Q Consensus       164 ~~~l~~s~~gd~g~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~f~~~yL~~~~k~~~ls~~v~l~~~~~~Pl~l~~~i~~  243 (266)
                      ++.+.|+++||+|++++.++.+.+.+++++.+.+++.++++.+|+++||.+|+|++++|++|+|+|+++.||+++|.++ 
T Consensus       106 kd~v~Fs~~GD~G~~~i~l~~~~~~dk~e~~v~ie~~e~v~~~fsl~YL~~f~Ka~~ls~~V~l~l~~~~Pl~l~y~i~-  184 (200)
T 3pge_A          106 GETIKFVADGDIGSGSVIIKPFVDMEHPETSIKLEMDQPVDLTFGAKYLLDIIKGSSLSDRVGIRLSSEAPALFQFDLK-  184 (200)
T ss_dssp             -CCEEEEEECSSCEEEEEECCBCCSSSCTTCBEEEESSCEEEEEEHHHHHHHGGGGGGCSEEEEEECSSSCEEEEEEET-
T ss_pred             CceEEEEeeccCCeEEEEEecCCCCCCcccceEEEeCCcceeeEhHHHHHHHhccccCCCeEEEEEcCCCCEEEEEEEC-
Confidence            5689999999999999999988888888888889999999999999999999999999999999999999999999997 


Q ss_pred             cEEEEEEEcccCCCCc
Q 024527          244 MGYIRFYLAPKIEEDE  259 (266)
Q Consensus       244 ~g~~~~~iaPr~~~~~  259 (266)
                      .|++.||||||+++|+
T Consensus       185 ~G~l~f~LAPrie~~~  200 (200)
T 3pge_A          185 SGFLQFFLAPKFNDEE  200 (200)
T ss_dssp             TEEEEEEECCCCC---
T ss_pred             CEEEEEEECCccCCCC
Confidence            6999999999999764

>3l0w_B Monoubiquitinated proliferating cell nuclear antigen, proliferating cell nuclear antigen; replication, DNA damage, DNA repair; 2.80A {Saccharomyces cerevisiae} PDB: 3l10_B

Probab=99.82  E-value=2e-19  Score=144.81  Aligned_cols=92  Identities=35%  Similarity=0.743  Sum_probs=86.8

Q ss_pred             CCeEEEEEEecceeEEEEEeecccCCCCCCceEEEecCcEEEEEehHHHHhccccCCCCceEEEEecCCCcEEEEEEeCC
Q 024527          164 KEGVKFSTRGDIGTANIVLRQNTTVDKPEEATIIEMHEPVSLTFALRYMNSFTRATPLSNTVTISLSSELPVVVEYKIAE  243 (266)
Q Consensus       164 ~~~l~~s~~gd~g~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~f~~~yL~~~~k~~~ls~~v~l~~~~~~Pl~l~~~i~~  243 (266)
                      .+.+.|+++||+|++++.++++.+.+++++.+.+++.++++..|+++||.+|+|+.++|++|+|+|+++.||+++|.++ 
T Consensus        78 k~~vkfs~~Gd~g~~~i~l~~~~~~~~~~~~~~i~~~~~~~~~fsl~yl~~~~ka~~~s~~v~l~~~~~~Pl~~~~~~~-  156 (169)
T 3l0w_B           78 GETIKFVADGDIGSGSVIIKPFVDMEHPETSIKLEMDQPVDLTFGAKYLLDIIKGSSLSDRVGIRLSSEAPALFQFDLK-  156 (169)
T ss_dssp             -CCEEEEEECSSCEEEEEECCBCCSSCGGGCBEEEESSCEEEEEEHHHHHHHGGGGGGCSEEEEEECSSSCEEEEEEET-
T ss_pred             cccccccccCcccceeEEEecCCCCCCcccceEEecCCcceEEEhHHHHHHHhccccCCCeEEEEEcCCCCEEEEEEEC-
Confidence            4689999999999999999998888888888899999999999999999999999999999999999999999999997 


Q ss_pred             cEEEEEEEcccCC
Q 024527          244 MGYIRFYLAPKIE  256 (266)
Q Consensus       244 ~g~~~~~iaPr~~  256 (266)
                      +|++.||||||++
T Consensus       157 ~g~~~~~lAPri~  169 (169)
T 3l0w_B          157 SGFLQFFLAPKFN  169 (169)
T ss_dssp             TEEEEEEECCCCC
T ss_pred             CEEEEEEEccccC
Confidence            6999999999986

>1vpk_A DNA polymerase III, beta subunit; TM0262, structural genomic center for structural genomics, JCSG, protein structure INI PSI, transferase; HET: DNA; 2.00A {Thermotoga maritima} SCOP: d.131.1.1 d.131.1.1 d.131.1.1

Probab=99.41  E-value=1.5e-10  Score=104.38  Aligned_cols=199  Identities=15%  Similarity=0.138  Sum_probs=146.7

Q ss_pred             hhhHHHHHHHH---------HhhhceeeEEEeCCceEEEEECCCCeEEEEEEecCCCcceeeeCCcEEEEEEhhhHHHHh
Q 024527            9 GSLLKKVLEAI---------KELVNDANFDCSATGFSLQAMDSSHVALVALLLRSEGFEHYRCDRNISMGMNLNNVSKML   79 (266)
Q Consensus         9 ~~~~k~i~~~l---------~~l~~~~~~~~~~~gl~~~a~D~~r~a~v~~~l~~~~F~~y~~~~~~~~gi~l~~L~~il   79 (266)
                      ...|++.++.+         .+++.++.|++.+++|+++|+|..+.+...+....       ..++-.+.|+.+.|.+++
T Consensus        19 ~~~L~~~l~~v~~av~~~~t~piL~gvll~~~~~~L~l~aTD~~~~~~~~i~~~~-------~~~~g~i~vpak~l~ei~   91 (378)
T 1vpk_A           19 TLELKDKITIASKALAKKSVKPILAGFLFEVKDGNFYICATDLETGVKATVNAAE-------ISGEARFVVPGDVIQKMV   91 (378)
T ss_dssp             HHHHHHHHHHHGGGCCCSSSCGGGGEEEEEEETTEEEEEEECSSEEEEEECCCSE-------EEECEEEEEEC-CHHHHH
T ss_pred             HHHHHHHHHHHHhhcCCCCChhHhCCEEEEEECCEEEEEEEcCceEEEEEEEEEE-------ccCceEEEEEhHHHHHHH
Confidence            55677777664         45789999999999999999999988877654421       012357899999999999


Q ss_pred             cccCCCceEEEEEcCCCCeEEEEEeCCCCCeEEEEEEeeeec-CCCCCCCCcceeeEEEEEehHHHHHHHHHhhccC-C-
Q 024527           80 KCAGNDDIITLKADDGSDTVTFMFESPTQDKIADFEMKLMDI-DSEHLGIPEAEYHAIVRMPSAEFARICKDLASIG-D-  156 (266)
Q Consensus        80 k~~~~~d~l~l~~~~~~~~l~i~~~~~~~~~~~~~~l~li~~-~~~~~~ip~~~~~~~i~~~s~~~~~~i~~~~~~~-d-  156 (266)
                      |.+.+ +.+.++.+++  ++.|+.++.      .|.+++++. ++|++  |..++...+.++++.|++++++..... + 
T Consensus        92 r~Lp~-~~V~i~~~~~--~l~i~~g~~------~f~l~~l~~~~fP~~--~~~~~~~~~~i~~~~L~~~I~r~~~a~s~~  160 (378)
T 1vpk_A           92 KVLPD-EITELSLEGD--ALVISSGST------VFRITTMPADEFPEI--TPAESGITFEVDTSLLEEMVEKVIFAAAKD  160 (378)
T ss_dssp             TTCCS-SEEEEEEETT--EEEEEETTE------EEEEECBCCTTSCCC--CCCCSSEEEEEEHHHHHHHHHHHGGGSCCC
T ss_pred             HhCCC-CcEEEEEeCC--EEEEEECCE------EEEEcccChHHCCCC--CCCCCceEEEECHHHHHHHHhheEEEEECC
Confidence            99975 5788888755  788877655      899999876 44544  445667799999999999999998875 2 


Q ss_pred             -------EEEEEEeCCeEEEEEEe-cceeEEEEEeecccCCCCCCceEEEecCcEEEEEehHHHHhccccCCC-Cc-eEE
Q 024527          157 -------TVVISVTKEGVKFSTRG-DIGTANIVLRQNTTVDKPEEATIIEMHEPVSLTFALRYMNSFTRATPL-SN-TVT  226 (266)
Q Consensus       157 -------~v~i~~~~~~l~~s~~g-d~g~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~f~~~yL~~~~k~~~l-s~-~v~  226 (266)
                             .|.+.++++.+++.|.. ... +...+.             +....+.++.++.+||..++|.++- .+ +|.
T Consensus       161 e~r~~l~GV~l~~~~~~l~~vAtDg~rl-a~~~~~-------------~~~~~~~~~iip~k~l~el~k~L~~~~~~~V~  226 (378)
T 1vpk_A          161 EFMRNLNGVFWELHKNLLRLVASDGFRL-ALAEEQ-------------IENEEEASFLLSLKSMKEVQNVLDNTTEPTIT  226 (378)
T ss_dssp             TTCTTTSEEEEEEETTEEEEEEECSSEE-EEEEEE-------------CCCCSCEEEEEEHHHHHHHHHHHHTCCCSEEE
T ss_pred             CCcceeeEEEEEEECCEEEEEEeCcccE-EEEEEe-------------cCCCCcceEEEEchHHHHHHHhhccCCCceEE
Confidence                   38999999999998763 322 222221             1111226889999999999998753 35 899


Q ss_pred             EEecCCCcEEEEEEeC
Q 024527          227 ISLSSELPVVVEYKIA  242 (266)
Q Consensus       227 l~~~~~~Pl~l~~~i~  242 (266)
                      +.++++   .+.+..+
T Consensus       227 i~~~~~---~i~f~~~  239 (378)
T 1vpk_A          227 VRYDGR---RVSLSTN  239 (378)
T ss_dssp             EEECSS---EEEEECS
T ss_pred             EEEcCC---EEEEEEC
Confidence            999875   3444444

>3p16_A DNA polymerase III subunit beta; DNA polymerase III sliding clamp, transferase; HET: DNA; 2.89A {Mycobacterium tuberculosis} PDB: 3rb9_A*

Probab=98.79  E-value=4.9e-06  Score=75.46  Aligned_cols=193  Identities=15%  Similarity=0.160  Sum_probs=136.5

Q ss_pred             hhhHHHHHHHHHhhh---------ceeeEEEeCCceEEEEECCCCeEEEEEEecCCCcceeeeCCcEEEEEEhhhHHHHh
Q 024527            9 GSLLKKVLEAIKELV---------NDANFDCSATGFSLQAMDSSHVALVALLLRSEGFEHYRCDRNISMGMNLNNVSKML   79 (266)
Q Consensus         9 ~~~~k~i~~~l~~l~---------~~~~~~~~~~gl~~~a~D~~r~a~v~~~l~~~~F~~y~~~~~~~~gi~l~~L~~il   79 (266)
                      ...|.+.++.+.+++         .++.|++.+++|+++|.|..-....  .++.+      ++++-.+.|+.+.|.+++
T Consensus        25 r~~L~~aL~~v~~~v~~r~t~PIL~~ili~a~~~~L~ltatDlei~i~~--~i~a~------v~e~G~i~v~ak~l~dIv   96 (408)
T 3p16_A           25 RESFADAVSWVAKNLPARPAVPVLSGVLLTGSDNGLTISGFDYEVSAEA--QVGAE------IVSPGSVLVSGRLLSDIT   96 (408)
T ss_dssp             HHHHHHHHHHHTTSSCSCCSSGGGSEEEEEECSSEEEEEECCSSCCEEE--EEECC------CSBCEEEEEEHHHHHHHH
T ss_pred             HHHHHHHHHHHHhhhCCCCChHHhCcEEEEEECCEEEEEEECCceEEEE--EEEEE------ecCCeEEEEEHHHHHHHH
Confidence            567777787776654         5999999999999999996443333  34432      244567899999999999


Q ss_pred             cccCCCceEEEEEcCCCCeEEEEEeCCCCCeEEEEEEeeeecC-CCCCCCCcceeeEEEEEehHHHHHHHHHhhcc-C-C
Q 024527           80 KCAGNDDIITLKADDGSDTVTFMFESPTQDKIADFEMKLMDID-SEHLGIPEAEYHAIVRMPSAEFARICKDLASI-G-D  156 (266)
Q Consensus        80 k~~~~~d~l~l~~~~~~~~l~i~~~~~~~~~~~~~~l~li~~~-~~~~~ip~~~~~~~i~~~s~~~~~~i~~~~~~-~-d  156 (266)
                      |.+.++ .+.|+.+++  ++.|+.+..      +|.++.++++ +|.+  |..+-. .+.+++..|+++++...-. + |
T Consensus        97 r~Lp~~-~I~l~~~~~--~l~I~~g~s------~f~L~~l~~~dfP~l--p~~~~~-~~~i~~~~L~~~I~~t~fA~s~d  164 (408)
T 3p16_A           97 RALPNK-PVDVHVEGN--RVALTCGNA------RFSLPTMPVEDYPTL--PTLPEE-TGLLPAELFAEAISQVAIAAGRD  164 (408)
T ss_dssp             HHSCSS-EEEEEEETT--EEEEEBTTE------EEEEEEECTTTSCCC--CCCCCE-EEEECHHHHHHHHHHHTTSSCCS
T ss_pred             HhCCCC-cEEEEEeCC--EEEEEECCE------EEEEecCCHHHCCCC--CCCCCc-EEEEcHHHHHHHHhhheecccCc
Confidence            999864 588888643  777765443      8999999874 4544  333333 7899999999999998653 2 1


Q ss_pred             -------EEEEEEeCCeEEEEEEeccee-EEEEEeecccCCCCCCceEEEecCcEEEEEehHHHHhccccCCCCceEEEE
Q 024527          157 -------TVVISVTKEGVKFSTRGDIGT-ANIVLRQNTTVDKPEEATIIEMHEPVSLTFALRYMNSFTRATPLSNTVTIS  228 (266)
Q Consensus       157 -------~v~i~~~~~~l~~s~~gd~g~-~~~~~~~~~~~~~~~~~~~~~~~~~~~~~f~~~yL~~~~k~~~ls~~v~l~  228 (266)
                             -|.+.++++.+++-|. |.-. +...+..    .. . .    .+.+.++....+.|..+.|.+.-.+.|.|.
T Consensus       165 e~rp~L~Gv~~~~~~~~l~~VAT-DghRLA~~~~~~----~~-~-~----~~~~~~~iIP~k~l~el~kll~~~~~V~i~  233 (408)
T 3p16_A          165 DTLPMLTGIRVEILGETVVLAAT-DRFRLAVRELKW----SA-S-S----PDIEAAVLVPAKTLAEAAKAGIGGSDVRLS  233 (408)
T ss_dssp             SSCCCSCEEEEEEETTEEEEEEE-CSSEEEEEEEEC----BC-S-S----SSCEEEEEEEHHHHHHHHHTCCSSSCEEEE
T ss_pred             cchhhceEEEEEEECCEEEEEEc-CcceEEEEeccc----cc-c-C----CCCceeEEEEHHHHHHHHHhcCCCCcEEEE
Confidence                   4888889999988775 3222 2222210    00 0 0    012357889999999999987646799999


Q ss_pred             ecCC
Q 024527          229 LSSE  232 (266)
Q Consensus       229 ~~~~  232 (266)
                      ++++
T Consensus       234 ~~~~  237 (408)
T 3p16_A          234 LGTG  237 (408)
T ss_dssp             SCSS
T ss_pred             EcCC
Confidence            9985

>3t0p_A DNA polymerase III, beta subunit; DNA clamp, structural genomics, joint center for structural JCSG, protein structure initiative; HET: DNA MSE; 2.26A {Eubacterium rectale}

Probab=98.74  E-value=7.1e-06  Score=73.53  Aligned_cols=192  Identities=10%  Similarity=0.164  Sum_probs=136.3

Q ss_pred             hhhHHHHHHHHH---------hhhceeeEEEeCCceEEEEECCCCeEEEEEEecCCCcceeeeCCcEEEEEEhhhHHHHh
Q 024527            9 GSLLKKVLEAIK---------ELVNDANFDCSATGFSLQAMDSSHVALVALLLRSEGFEHYRCDRNISMGMNLNNVSKML   79 (266)
Q Consensus         9 ~~~~k~i~~~l~---------~l~~~~~~~~~~~gl~~~a~D~~r~a~v~~~l~~~~F~~y~~~~~~~~gi~l~~L~~il   79 (266)
                      ...|.+.+..+.         +++.++.+++.+++|+++|.|.. +.+ ...++.+      +.++-.+.|+.+.|.+++
T Consensus         8 r~~L~~~l~~v~~~v~~r~t~pIL~~ili~a~~~~L~ltatD~e-i~i-~~~i~a~------v~~~G~~~v~ak~l~div   79 (371)
T 3t0p_A            8 KANLLKGVNIVSKAVPTRTTMAILECILIDASANEIKLMANDME-LGI-ETIIDGT------IEERGIIALDAKIFSEIV   79 (371)
T ss_dssp             HHHHHHHHHHHGGGSCSSCSSGGGGEEEEEESSSSEEEEEECSS-EEE-EEEECCE------EEECEEEEEEHHHHHHHH
T ss_pred             HHHHHHHHHHHHhhcCCCCChHHhCCEEEEEECCEEEEEEeCcE-EEE-EEEEEEE------EccCeEEEEEHHHHHHHH
Confidence            445566666654         46789999999999999999954 433 3345542      344567899999999999


Q ss_pred             cccCCCceEEEEEcCCCCeEEEEEeCCCCCeEEEEEEeeeec-CCCCCCCCcceeeEEEEEehHHHHHHHHHhhcc-C-C
Q 024527           80 KCAGNDDIITLKADDGSDTVTFMFESPTQDKIADFEMKLMDI-DSEHLGIPEAEYHAIVRMPSAEFARICKDLASI-G-D  156 (266)
Q Consensus        80 k~~~~~d~l~l~~~~~~~~l~i~~~~~~~~~~~~~~l~li~~-~~~~~~ip~~~~~~~i~~~s~~~~~~i~~~~~~-~-d  156 (266)
                      |.+.++ .+.++.+++ ..+.|+.+..      +|.++.+++ ++|.+  |..+....+.+++..|+++++...-. + |
T Consensus        80 r~Lp~~-~i~l~~~~~-~~l~I~~g~s------~f~l~~~~~~dfP~l--p~~~~~~~~~i~~~~L~~~I~~t~fA~s~d  149 (371)
T 3t0p_A           80 RKLPDN-DVTIETDAS-FKTVISCEKA------KFNIIGKSGDDFSYI--PYVERNESIVLSQFTLKEVIRQTIFSIADN  149 (371)
T ss_dssp             HHSCSS-EEEEEECTT-CEEEEEETTE------EEEEECBCGGGSCCC--CCCCCCSEEEEEHHHHHHHHHTTGGGSCSS
T ss_pred             HhCCCC-cEEEEECCC-CeEEEEECCE------EEEEccCCHHHCCCC--CCCCCCeEEEECHHHHHHHHhheeEEeeCC
Confidence            999755 588888643 4787776544      899999987 45554  44455568999999999999987643 3 2


Q ss_pred             -------EEEEEEeCCeEEEEEEeccee-EEEEEeecccCCCCCCceEEEe-cCcEEEEEehHHHHhccccCC--CCceE
Q 024527          157 -------TVVISVTKEGVKFSTRGDIGT-ANIVLRQNTTVDKPEEATIIEM-HEPVSLTFALRYMNSFTRATP--LSNTV  225 (266)
Q Consensus       157 -------~v~i~~~~~~l~~s~~gd~g~-~~~~~~~~~~~~~~~~~~~~~~-~~~~~~~f~~~yL~~~~k~~~--ls~~v  225 (266)
                             -|.+.++++.+++-|. |.-. +...+.             +.. .++.++....+.|..+.|.++  ..+.|
T Consensus       150 e~r~~L~Gv~~~~~~~~l~~vAT-Dg~RLa~~~~~-------------~~~~~~~~~~iIP~k~l~el~kll~~~~~~~V  215 (371)
T 3t0p_A          150 DNNKLMTGELFEIEENKLRVVSL-DGHRISIRYIE-------------MKNHYDSKKVVVPGKTLQEISKIIPGSADEDV  215 (371)
T ss_dssp             SSSTGGGEEEEEEEEEEEEEEEE-CSSEEEEEEEE-------------EEEEEEEEEEEEEHHHHHHHHHHCCCCTTSEE
T ss_pred             CCchhceEEEEEEECCEEEEEEe-cceEEEEEEec-------------cCCCCCceEEEEEHHHHHHHHHhcCcCCCceE
Confidence                   4788888888888765 3222 111110             111 134578899999999999875  35799


Q ss_pred             EEEecCC
Q 024527          226 TISLSSE  232 (266)
Q Consensus       226 ~l~~~~~  232 (266)
                      .|.++++
T Consensus       216 ~i~~~~~  222 (371)
T 3t0p_A          216 VIYITNN  222 (371)
T ss_dssp             EEEEETT
T ss_pred             EEEEcCC
Confidence            9999876

>3d1g_A DNA polymerase III subunit beta; chemical probe, DNA sliding clamp, DNA replication, rational drug design, antibiotic target, transferase; HET: DNA 322; 1.64A {Escherichia coli} SCOP: d.131.1.1 d.131.1.1 d.131.1.1 PDB: 1mmi_A* 1unn_A* 2pol_A* 3bep_A* 3d1e_A* 3d1f_A* 1ok7_A* 3q4j_A* 3q4k_A* 3qsb_A* 3q4l_A* 2xur_A* 1jql_A* 1jqj_A* 3f1v_A* 3pwe_A*

Probab=98.72  E-value=2.6e-05  Score=69.72  Aligned_cols=193  Identities=10%  Similarity=0.096  Sum_probs=133.3

Q ss_pred             hhhHHHHHHHH---------HhhhceeeEEEeCCceEEEEECCCCeEEEEEEecCCCcceeeeCCcEEEEEEhhhHHHHh
Q 024527            9 GSLLKKVLEAI---------KELVNDANFDCSATGFSLQAMDSSHVALVALLLRSEGFEHYRCDRNISMGMNLNNVSKML   79 (266)
Q Consensus         9 ~~~~k~i~~~l---------~~l~~~~~~~~~~~gl~~~a~D~~r~a~v~~~l~~~~F~~y~~~~~~~~gi~l~~L~~il   79 (266)
                      ...|.+.+..+         .+++.++.+++.+++|++.|.|.. +. +...++..     ++.++-.+.|+.+.|.+++
T Consensus         7 ~~~L~~~l~~v~~~v~~r~t~piL~~ili~a~~~~L~l~atD~e-i~-i~~~i~~~-----~v~~~G~~~v~ak~l~div   79 (366)
T 3d1g_A            7 REHLLKPLQQVSGPLGGRPTLPILGNLLLQVADGTLSLTGTDLE-ME-MVARVALV-----QPHEPGATTVPARKFFDIC   79 (366)
T ss_dssp             HHHHHHHHHHHSTTCSSCCCSGGGGEEEEEEETTEEEEEEECSS-EE-EEEEEECC-----SCCBCEEEEEEHHHHHHHH
T ss_pred             HHHHHHHHHHHHhhcCCCCChhHhcCeEEEEeCCcEEEEEecce-EE-EEEEEEcc-----eeccCeEEEEEhHHHHHHH
Confidence            44555555554         346889999999999999999965 33 34445441     1344567899999999999


Q ss_pred             cccCCCceEEEEEcCCCCeEEEEEeCCCCCeEEEEEEeeeecC-CCCCCCCcceeeEEEEEehHHHHHHHHHhhcc-C--
Q 024527           80 KCAGNDDIITLKADDGSDTVTFMFESPTQDKIADFEMKLMDID-SEHLGIPEAEYHAIVRMPSAEFARICKDLASI-G--  155 (266)
Q Consensus        80 k~~~~~d~l~l~~~~~~~~l~i~~~~~~~~~~~~~~l~li~~~-~~~~~ip~~~~~~~i~~~s~~~~~~i~~~~~~-~--  155 (266)
                      |.+.+++.+.++.+++  .+.|+-+..      +|.++.++.+ +|.+  |..+....+.++++.|+++++...-. +  
T Consensus        80 r~Lp~~~~i~~~~~~~--~l~I~~g~s------~f~l~~~~~~~fP~~--~~~~~~~~~~i~~~~l~~~i~~t~fA~s~d  149 (366)
T 3d1g_A           80 RGLPEGAEIAVQLEGE--RMLVRSGRS------RFSLSTLPAADFPNL--DDWQSEVEFTLPQATMKRLIEATQFSMAHQ  149 (366)
T ss_dssp             HHSCTTCEEEEEEETT--EEEEEETTE------EEEEECBCGGGSCCC--CCCCCSEEEEECHHHHHHHHHHHGGGSCSS
T ss_pred             HcCCCCCcEEEEEeCC--EEEEEECCE------EEEEcCCCHHHCCCC--CCCCCceEEEECHHHHHHHHhheeEEeccC
Confidence            9998666799988755  677766544      8999999874 4543  43344468999999999999987643 2  


Q ss_pred             ------CEEEEEEeCCeEEEEEEeccee-EEEEEeecccCCCCCCceEEEe-cCcEEEEEehHHHHhccccCCC-CceEE
Q 024527          156 ------DTVVISVTKEGVKFSTRGDIGT-ANIVLRQNTTVDKPEEATIIEM-HEPVSLTFALRYMNSFTRATPL-SNTVT  226 (266)
Q Consensus       156 ------d~v~i~~~~~~l~~s~~gd~g~-~~~~~~~~~~~~~~~~~~~~~~-~~~~~~~f~~~yL~~~~k~~~l-s~~v~  226 (266)
                            .-|.+.++++.+++-|. |.-. +...+.             +.. ....++....+.|..+.|.+.- .+.|.
T Consensus       150 e~r~~L~Gv~~~~~~~~l~~vAT-Dg~RLa~~~~~-------------~~~~~~~~~~iiP~k~l~el~kll~~~~~~v~  215 (366)
T 3d1g_A          150 DVRYYLNGMLFETEGEELRTVAT-DGHRLAVCSMP-------------IGQSLPSHSVIVPRKGVIELMRMLDGGDNPLR  215 (366)
T ss_dssp             CSSGGGSEEEEEEEEEEEEEEEE-CSSEEEEEEEE-------------EEEEEEEEEEEEEHHHHHHHHHTCCSSSCCEE
T ss_pred             CCccceEEEEEEEeCCEEEEEEe-CCccEEEEEec-------------cCCCCcccEEEEEHHHHHHHHHhcccCCccEE
Confidence                  15788888888888765 3222 111111             110 0125667788999888888753 45799


Q ss_pred             EEecCC
Q 024527          227 ISLSSE  232 (266)
Q Consensus       227 l~~~~~  232 (266)
                      +.++++
T Consensus       216 i~~~~~  221 (366)
T 3d1g_A          216 VQIGSN  221 (366)
T ss_dssp             EEECSS
T ss_pred             EEEcCC
Confidence            999765

>2avt_A DNA polymerase III beta subunit; beta clamp, sliding clamp, replication, transferase; HET: DNA; 2.00A {Streptococcus pyogenes} PDB: 2awa_A*

Probab=98.69  E-value=1.9e-05  Score=70.90  Aligned_cols=206  Identities=12%  Similarity=0.169  Sum_probs=137.5

Q ss_pred             CeeEEEcChhhHHHHHHHHH---------hhhceeeEEEeCCceEEEEECCCCeEEEEEEecCCC-cceeeeCCcEEEEE
Q 024527            1 MLELRLVQGSLLKKVLEAIK---------ELVNDANFDCSATGFSLQAMDSSHVALVALLLRSEG-FEHYRCDRNISMGM   70 (266)
Q Consensus         1 mf~a~~~~~~~~k~i~~~l~---------~l~~~~~~~~~~~gl~~~a~D~~r~a~v~~~l~~~~-F~~y~~~~~~~~gi   70 (266)
                      |++.++. ...|.+.+..+.         +++.++.+++.+++|+++|.|.. +.+ ...++.+. =..-.+.++-.+.|
T Consensus         1 mMkf~i~-~~~L~~~l~~v~~~v~~r~t~PiL~~ill~a~~~~L~ltatD~e-i~i-~~~i~~~~~~~~~~v~~~G~~~v   77 (378)
T 2avt_A            1 MIQFSIN-RTLFIHALNTTKRAISTKNAIPILSSIKIEVTSTGVTLTGSNGQ-ISI-ENTIPVSNENAGLLITSPGAILL   77 (378)
T ss_dssp             CCEEEEE-HHHHHHHHHHHGGGCCSSCSSGGGGEEEEEEETTEEEEEEECSS-EEE-EEEEEC-----CEEEEECEEEEE
T ss_pred             CEEEEEE-HHHHHHHHHHHHhhcCCCCChhHhcCeEEEEECCEEEEEEECCe-EEE-EEEEecccccccceeccCeEEEE
Confidence            7788776 555666666644         45788999999999999999965 332 34444310 00112334556899


Q ss_pred             EhhhHHHHhcccCCCceEEEEEcCCCCeEEEEEeCCCCCeEEEEEEeeeec-CCCCCCCCcceeeEEEEEehHHHHHHHH
Q 024527           71 NLNNVSKMLKCAGNDDIITLKADDGSDTVTFMFESPTQDKIADFEMKLMDI-DSEHLGIPEAEYHAIVRMPSAEFARICK  149 (266)
Q Consensus        71 ~l~~L~~ilk~~~~~d~l~l~~~~~~~~l~i~~~~~~~~~~~~~~l~li~~-~~~~~~ip~~~~~~~i~~~s~~~~~~i~  149 (266)
                      +.+.|.+++|.+.+ +.+.++.+++ ..+.|+-+..      +|.++.++. ++|.+  |..+....+.++++.|+++++
T Consensus        78 ~ak~l~divr~Lp~-~~v~~~~~~~-~~l~I~~g~s------~f~l~~~~~~~fP~l--~~~~~~~~~~i~~~~l~~~i~  147 (378)
T 2avt_A           78 EASFFINIISSLPD-ISINVKEIEQ-HQVVLTSGKS------EITLKGKDVDQYPRL--QEVSTENPLILKTKLLKSIIA  147 (378)
T ss_dssp             EHHHHHHHHHHCSS-SEEEEEEETT-TEEEEEETTE------EEEEECBCGGGSCCC--CCCCCSSCEEEEHHHHHHHHH
T ss_pred             EhHHHHHHHHhCCC-CcEEEEECCC-CEEEEEECCE------EEEEccCCHHHCCCC--CCCCCCeEEEECHHHHHHHHh
Confidence            99999999999975 4688887544 2677766544      899999986 44543  333334578999999999999


Q ss_pred             Hhhcc-C-C-------EEEEEEeCC-eEEEEEEeccee-EEEEEeecccCCCCCCceEEEecCcEEEEEehHHHHhcccc
Q 024527          150 DLASI-G-D-------TVVISVTKE-GVKFSTRGDIGT-ANIVLRQNTTVDKPEEATIIEMHEPVSLTFALRYMNSFTRA  218 (266)
Q Consensus       150 ~~~~~-~-d-------~v~i~~~~~-~l~~s~~gd~g~-~~~~~~~~~~~~~~~~~~~~~~~~~~~~~f~~~yL~~~~k~  218 (266)
                      ...-. + |       -|.+.++++ .+++-|. |.-. +...+..    +.+        .++.++....+.|..+.|.
T Consensus       148 ~t~fA~s~de~r~~L~Gv~~~~~~~~~l~~vAT-Dg~RLa~~~~~~----~~~--------~~~~~~iiP~k~l~el~kl  214 (378)
T 2avt_A          148 ETAFAASLQESRPILTGVHIVLSNHKDFKAVAT-DSHRMSQRLITL----DNT--------SADFMVVLPSKSLREFSAV  214 (378)
T ss_dssp             HHGGGSCCCTTSGGGGEEEEEEETTTEEEEEEE-CSSEEEEEEEEC----SSC--------CCCEEEEEEHHHHHHHHHH
T ss_pred             heEEEEECCCCcceeEEEEEEECCCCeEEEEEe-cCeeEEEEEecc----CCC--------CCccEEEEEhHHHHHHHHh
Confidence            87653 2 1       588888988 9988775 3222 2222210    000        1235667788888888887


Q ss_pred             CC-CCceEEEEecCC
Q 024527          219 TP-LSNTVTISLSSE  232 (266)
Q Consensus       219 ~~-ls~~v~l~~~~~  232 (266)
                      ++ ..+.|.+.++++
T Consensus       215 l~~~~~~v~i~~~~~  229 (378)
T 2avt_A          215 FTDDIETVEVFFSPS  229 (378)
T ss_dssp             SCTTCCEEEEEECSS
T ss_pred             cccCCceEEEEEcCC
Confidence            75 246799999765

>1iz5_A Proliferating cell nuclear antigen; DNA, replication, processivity, sliding clamp, DNA binding protein; 1.80A {Pyrococcus furiosus} SCOP: d.131.1.2 d.131.1.2 PDB: 3a2f_B* 1iz4_A 1ge8_A 1isq_A 3lx1_A*

Probab=97.92  E-value=0.0005  Score=57.79  Aligned_cols=96  Identities=19%  Similarity=0.294  Sum_probs=77.6

Q ss_pred             ChhhHHHHHHHHHhhhceeeEEEeCCceEEEEECCCCeEEEEEEecCCCcceeeeCCcEEEEEEhhhHHHHhcccCCCce
Q 024527            8 QGSLLKKVLEAIKELVNDANFDCSATGFSLQAMDSSHVALVALLLRSEGFEHYRCDRNISMGMNLNNVSKMLKCAGNDDI   87 (266)
Q Consensus         8 ~~~~~k~i~~~l~~l~~~~~~~~~~~gl~~~a~D~~r~a~v~~~l~~~~F~~y~~~~~~~~gi~l~~L~~ilk~~~~~d~   87 (266)
                      +.+.|+++++-++.+-+++.+.++++++++.+-.....+-..+.-..+.+.+|+|.+++.++.|++.|.++||.+.-.+.
T Consensus       137 ~~~~l~~a~~r~~~ls~~V~l~~~~~~l~ls~~~d~g~~~~~l~~~~~~~~~~~~ge~~~i~Fn~~yL~d~lk~~~~s~~  216 (249)
T 1iz5_A          137 LGEVLKAAVKAASLVSDSIKFIARENEFIMKAEGETQEVEIKLTLEDEGLLDIEVQEETKSAYGVSYLSDMVKGLGKADE  216 (249)
T ss_dssp             EHHHHHHHHHHHTTTCSEEEEEEETTEEEEEEECSSCEEEEEEETTTTSSSEEEESSCEEEEEEHHHHHHHHTTSCTTCE
T ss_pred             EHHHHHHHHHHHHhcCCEEEEEEECCEEEEEEEecCceEEEEEccCCCccEEEEcCCceEEEEeHHHHHHHhhhccCCCe
Confidence            36899999999999999999999999999998554444444443334556789988899999999999999999875788


Q ss_pred             EEEEEcCCCCeEEEEEe
Q 024527           88 ITLKADDGSDTVTFMFE  104 (266)
Q Consensus        88 l~l~~~~~~~~l~i~~~  104 (266)
                      +.|.+.++ .++.++..
T Consensus       217 V~l~~~~~-~p~~i~~~  232 (249)
T 1iz5_A          217 VTIKFGNE-MPMQMEYY  232 (249)
T ss_dssp             EEEEECTT-CCEEEEEE
T ss_pred             EEEEEcCC-CCEEEEEE
Confidence            99999854 68888764

>3lx2_A DNA polymerase sliding clamp 2; PCNA, DNA processivity factor, trimer, toroidal, DNA replica DNA-binding, DNA binding protein; HET: DNA; 2.40A {Thermococcus kodakarensis}

Probab=97.91  E-value=0.00042  Score=58.82  Aligned_cols=112  Identities=9%  Similarity=0.151  Sum_probs=85.5

Q ss_pred             hhhHHHHHHHHHhhhceeeEEEeCCceEEEEECCCCeEEEEEEecCCCcceeeeC-CcEEEEEEhhhHHHHhcccCCCce
Q 024527            9 GSLLKKVLEAIKELVNDANFDCSATGFSLQAMDSSHVALVALLLRSEGFEHYRCD-RNISMGMNLNNVSKMLKCAGNDDI   87 (266)
Q Consensus         9 ~~~~k~i~~~l~~l~~~~~~~~~~~gl~~~a~D~~r~a~v~~~l~~~~F~~y~~~-~~~~~gi~l~~L~~ilk~~~~~d~   87 (266)
                      ++.|+++++.++.+-+.+.+.++++++++.+-....-+-..+.-.++...+++|. +++++..+++.|..++|.++..+.
T Consensus       138 s~~f~~~i~~~~~~sd~V~i~~~~~~v~~ss~gd~G~~~~~l~~~~~~~~~~~~~~e~~~~~F~~~YL~~~~Ka~~~s~~  217 (259)
T 3lx2_A          138 AGALKRAVKAAKLVSDSIYFMATPEKLTFKAEGNDSEVRTVLTMEDPGLLDLEHKMTKAKSAYGVAYLEDILRSLADADE  217 (259)
T ss_dssp             HHHHHHHHHHHHHHCSEEEEEECSSCEEEEEECSSCEEEEEECTTSTTEEEEEESSSCEEEEEEHHHHHHHHSSSCTTSE
T ss_pred             HHHHHHHHHHHHhcCCEEEEEEECCEEEEEEEecCcEEEEEEcCCCCceEEEEecCceEEEEEEHHHHHhhhccccCCCe
Confidence            7899999999999999999999999999999643333434443345567789998 999999999999999999877789


Q ss_pred             EEEEEcCCCCeEEEEEeCCCCCeEEEEEEeeeec
Q 024527           88 ITLKADDGSDTVTFMFESPTQDKIADFEMKLMDI  121 (266)
Q Consensus        88 l~l~~~~~~~~l~i~~~~~~~~~~~~~~l~li~~  121 (266)
                      +.|.++.+ .++.+++.-...|..+.|-.|.++.
T Consensus       218 V~l~~~~~-~Pl~l~~~i~~~g~~~y~laP~~~~  250 (259)
T 3lx2_A          218 VIIRFGFD-IPLLLKYMVRDAGEVSFLIAPRVEE  250 (259)
T ss_dssp             EEEEECTT-SCEEEEEEETTTEEEEEEECCCC--
T ss_pred             EEEEeCCC-CCEEEEEEeCCCeEEEEEEccccCC
Confidence            99999754 4777765532335565666555543

>1u7b_A PCNA, cyclin, proliferating cell nuclear antigen; sliding clamp, DNA processing, FEN1, PIP- BOX, replication; 1.88A {Homo sapiens} SCOP: d.131.1.2 d.131.1.2 PDB: 1u76_A 1axc_A 1ul1_A 1vyj_A 1vym_A 1w60_A 2zvk_A* 2zvl_A* 2zvm_A* 3p87_A 3vkx_A*

Probab=97.77  E-value=0.00077  Score=57.01  Aligned_cols=113  Identities=8%  Similarity=0.177  Sum_probs=85.8

Q ss_pred             EEEcChhhHHHHHHHHHhhhceeeEEEeCCceEEEEECCCCeEEEEEEec-------CCCcceeeeCCcEEEEEEhhhHH
Q 024527            4 LRLVQGSLLKKVLEAIKELVNDANFDCSATGFSLQAMDSSHVALVALLLR-------SEGFEHYRCDRNISMGMNLNNVS   76 (266)
Q Consensus         4 a~~~~~~~~k~i~~~l~~l~~~~~~~~~~~gl~~~a~D~~r~a~v~~~l~-------~~~F~~y~~~~~~~~gi~l~~L~   76 (266)
                      ++++ .+.|+++++-++.+-+.+.+.++++++.+.+..  -.+-+...++       ++.+.+|+|.+++.++.+++.|.
T Consensus       137 i~~~-~~~l~~ai~r~~~~s~~v~i~~~~~~l~ls~~~--d~g~~~~~~~~~~~~~~~~~~~~~~~~e~~~i~f~~~yL~  213 (261)
T 1u7b_A          137 VKMP-SGEFARICRDLSHIGDAVVISCAKDGVKFSASG--ELGNGNIKLSQTSNVDKEEEAVTIEMNEPVQLTFALRYLN  213 (261)
T ss_dssp             EEEE-HHHHHHHHHHHHTTCSEEEEEEETTEEEEEEEE--TTEEEEEEECCCC----CCSCCEEEESSCEEEEEEHHHHH
T ss_pred             EEEE-HHHHHHHHHHHHhcCCEEEEEEECCEEEEEEEe--cCceEEEEEecCCCCCCCccceEEecCCcEEEEEeHHHHH
Confidence            4444 688999999999999999999999999999853  3444566665       45667899988999999999999


Q ss_pred             HHhcccCCCceEEEEEcCCCCeEEEEEeCCCCCeEEEEEEeeee
Q 024527           77 KMLKCAGNDDIITLKADDGSDTVTFMFESPTQDKIADFEMKLMD  120 (266)
Q Consensus        77 ~ilk~~~~~d~l~l~~~~~~~~l~i~~~~~~~~~~~~~~l~li~  120 (266)
                      .+||.+.-.+.+.|.+.+ ..++.+++.-...|..+.|-.|.++
T Consensus       214 ~~lka~~~s~~V~i~~~~-~~P~~l~~~~~~~~~~~y~l~P~i~  256 (261)
T 1u7b_A          214 FFTKATPLSSTVTLSMSA-DVPLVVEYKIADMGHLKYYLAPKIE  256 (261)
T ss_dssp             HHGGGGGGCSEEEEEECT-TSCEEEEEEETTTEEEEEEECCBC-
T ss_pred             HHhCcccCCCeEEEEECC-CCCEEEEEEeCCCcEEEEEECCcCc
Confidence            999988656889999986 4688887643222444444446655

>1plq_A Proliferating cell nuclear antigen (PCNA); DNA-binding, nuclear protein, DNA replication, processivity; 2.30A {Saccharomyces cerevisiae} SCOP: d.131.1.2 d.131.1.2 PDB: 1plr_A 2od8_A* 1sxj_F* 3f1w_A 3v60_B 3v61_B 3v62_B* 3gpn_A 3gpm_A 3l0w_A 3l0x_A 3l10_A 3pge_B 3l0x_B

Probab=97.77  E-value=0.00099  Score=56.26  Aligned_cols=108  Identities=11%  Similarity=0.203  Sum_probs=83.0

Q ss_pred             hhhHHHHHHHHHhhhceeeEEEeCCceEEEEECCCCeEEEEEEec-------CCCcceeeeCCcEEEEEEhhhHHHHhcc
Q 024527            9 GSLLKKVLEAIKELVNDANFDCSATGFSLQAMDSSHVALVALLLR-------SEGFEHYRCDRNISMGMNLNNVSKMLKC   81 (266)
Q Consensus         9 ~~~~k~i~~~l~~l~~~~~~~~~~~gl~~~a~D~~r~a~v~~~l~-------~~~F~~y~~~~~~~~gi~l~~L~~ilk~   81 (266)
                      .+.|+++++-++.+-+.+.+.++++++.+.+-.  -.+-+...++       ++.+.+|+|.+++.++.+++.|..++|.
T Consensus       141 ~~~l~~av~r~~~~s~~v~i~~~~~~l~ls~~~--d~g~~~~~l~~~~~~~~~~~~~~~~~ge~~~i~f~~~yL~~~lka  218 (258)
T 1plq_A          141 SSEFSKIVRDLSQLSDSINIMITKETIKFVADG--DIGSGSVIIKPFVDMEHPETSIKLEMDQPVDLTFGAKYLLDIIKG  218 (258)
T ss_dssp             HHHHHHHHHHHHTTCSEEEEEEETTEEEEEEEC--SSCEEEEEECCBCCTTCGGGCBEEEESSCEEEEEEHHHHHHHGGG
T ss_pred             HHHHHHHHHHHHhcCCEEEEEEECCEEEEEEEc--cCceEEEEEecCCCCCCCccceEEecCCcEEEEEEHHHHHHHhcc
Confidence            689999999999999999999999999999854  3333455554       3456679998899999999999999998


Q ss_pred             cCCCceEEEEEcCCCCeEEEEEeCCCCCeEEEEEEeeee
Q 024527           82 AGNDDIITLKADDGSDTVTFMFESPTQDKIADFEMKLMD  120 (266)
Q Consensus        82 ~~~~d~l~l~~~~~~~~l~i~~~~~~~~~~~~~~l~li~  120 (266)
                      +.-.+.+.|.+..+ .++.+++.-. .|..+.|-.|.++
T Consensus       219 ~~~s~~V~i~~~~~-~Pl~l~~~~~-~~~~~y~l~P~~~  255 (258)
T 1plq_A          219 SSLSDRVGIRLSSE-APALFQFDLK-SGFLQFFLAPKFN  255 (258)
T ss_dssp             GGTCSEEEEEECSS-SCEEEEEEET-TEEEEEEECCCSS
T ss_pred             ccCCceEEEEECCC-CCEEEEEEEC-CeEEEEEECCcCC
Confidence            87578899999854 6888877433 2444444445554

>3fds_C DNA polymerase sliding clamp B; protein-protein complex, DNA damage, DNA repair, DNA replica DNA-binding, DNA-directed DNA polymerase; HET: DNA 1PE PGE; 2.05A {Sulfolobus solfataricus} PDB: 2io4_A* 2nti_D* 2hii_A 2hik_A 2ix2_A* 2izo_C*

Probab=97.75  E-value=0.0012  Score=55.62  Aligned_cols=103  Identities=9%  Similarity=0.096  Sum_probs=85.9

Q ss_pred             hhhHHHHHHHHHhhhceeeEEEeCCceEEEEECCCCeEEEEEEecCCCcceeeeCCcEEEEEEhhhHHHHhc-ccCCCce
Q 024527            9 GSLLKKVLEAIKELVNDANFDCSATGFSLQAMDSSHVALVALLLRSEGFEHYRCDRNISMGMNLNNVSKMLK-CAGNDDI   87 (266)
Q Consensus         9 ~~~~k~i~~~l~~l~~~~~~~~~~~gl~~~a~D~~r~a~v~~~l~~~~F~~y~~~~~~~~gi~l~~L~~ilk-~~~~~d~   87 (266)
                      +..|+++++.+..+-+.+.+.++++++.+.+-.....+-+.+...++ ...++|.++.+....++.|..+.| .+.-.+.
T Consensus       140 s~~f~~~~~dl~~~sd~v~i~~~~~~~~f~~~gd~~~~~~~~~~~~~-l~~~~~~~~~~~~fsl~yL~~~~K~a~~ls~~  218 (249)
T 3fds_C          140 ESVLNVIAADVTLVGEEMRISTEEDKIKIEAGEEGKRYVAFLMKDKP-LKELSIDTSASSSYSAEMFKDAVKGLRGFSAP  218 (249)
T ss_dssp             HHHHHHHHHHHHHHCSEEEEEEETTEEEEEEEETTEEEEEEEEETBE-ESEEEESSCCEEEEEHHHHHHHHHTTTTCCSC
T ss_pred             HHHHHHHHHHHHHhCCEEEEEEECCEEEEEEEecCcEEEEEEcCCCC-cEEEEcCCceEEEEEHHHHHHHHhhhcccCCE
Confidence            78999999999999999999999999999987666667677777765 568899999999999999999999 8887889


Q ss_pred             EEEEEcCCCCeEEEEEeCCCCCeEEE
Q 024527           88 ITLKADDGSDTVTFMFESPTQDKIAD  113 (266)
Q Consensus        88 l~l~~~~~~~~l~i~~~~~~~~~~~~  113 (266)
                      ++|.+..+. +|.+++.-.+.|.++.
T Consensus       219 V~i~~~~~~-Pl~l~y~i~~~G~l~f  243 (249)
T 3fds_C          219 TMVSFGENL-PMKIDVEAVSGGHMIF  243 (249)
T ss_dssp             EEEEECTTC-CEEEEEECTTSCEEEE
T ss_pred             EEEEecCCc-CEEEEEEeCCCcEEEE
Confidence            999997554 7777776444455433

>3p91_A Proliferating cell nuclear antigen; DNA binding protein, DNA replication, processivity, sliding; 2.40A {Entamoeba histolytica}

Probab=97.73  E-value=0.0012  Score=56.12  Aligned_cols=111  Identities=12%  Similarity=0.196  Sum_probs=84.0

Q ss_pred             hhhHHHHHHHHHhhh-ceeeEEEeCCceEEEEECCCCeEEEEEEecC-----CCcceeeeCCcEEEEEEhhhHHHHhccc
Q 024527            9 GSLLKKVLEAIKELV-NDANFDCSATGFSLQAMDSSHVALVALLLRS-----EGFEHYRCDRNISMGMNLNNVSKMLKCA   82 (266)
Q Consensus         9 ~~~~k~i~~~l~~l~-~~~~~~~~~~gl~~~a~D~~r~a~v~~~l~~-----~~F~~y~~~~~~~~gi~l~~L~~ilk~~   82 (266)
                      ++.|+++++.++.+- +.+.+.++++++++.+....  .-+...++.     +....++|.+++++..+++.|..++|.+
T Consensus       145 s~~f~~~i~~~~~~s~d~V~i~~~~~~v~~ss~gd~--G~~~~~l~~~~~~~~~~~~~~~~e~~~~~F~~~YL~~~~Ka~  222 (265)
T 3p91_A          145 SAEFLKITKDFSALGDDSITIGCTKNEVTLTTKGAM--CETCMTLSALENVDSNGLQIEHNKDVTASFALKQISEFAKSA  222 (265)
T ss_dssp             HHHHHHHHHHHHHHCCSEEEEEECSSEEEEEEECSS--CEEEEEEEC-------CCEEEESSCEEEEEEHHHHHHHGGGG
T ss_pred             HHHHHHHHHHHHhCCCCEEEEEEECCEEEEEEEecC--ceEEEEEecCCCCCCceEEEEcCCcEEEEEEHHHHHHhhccc
Confidence            789999999999998 89999999999999986433  334455553     4567889999999999999999999988


Q ss_pred             CCCceEEEEEcCCCCeEEEEEeCCCCCeEEEEEEeeeecCC
Q 024527           83 GNDDIITLKADDGSDTVTFMFESPTQDKIADFEMKLMDIDS  123 (266)
Q Consensus        83 ~~~d~l~l~~~~~~~~l~i~~~~~~~~~~~~~~l~li~~~~  123 (266)
                      +-.+.+.|.++.+ .++.+++.- +.|..+.|--|.++.+.
T Consensus       223 ~ls~~V~i~~~~~-~Pl~l~~~i-~~g~~~f~lAPri~~~~  261 (265)
T 3p91_A          223 PLADNVKLSLSGQ-APLIMEFKG-EACVLKFYLAPKFDEED  261 (265)
T ss_dssp             GGCSEEEEEECSS-SCEEEEEEE-TTEEEEEEECCBC----
T ss_pred             ccCCEEEEEeCCC-ccEEEEEEE-CCEEEEEEEcCCCCCcc
Confidence            7678999999754 477776654 44666666666666543

>3aiz_C DNA polymerase sliding clamp C; protein-protein complex, replication; HET: DNA; 2.80A {Sulfolobus tokodaii} PDB: 3aix_A*

Probab=97.72  E-value=0.0011  Score=55.49  Aligned_cols=93  Identities=11%  Similarity=0.149  Sum_probs=74.7

Q ss_pred             ChhhHHHHHHHHHhh-hceeeEEEeCCceEEEEECCCCeEEEEEEec--CCCcceeeeCCcEEEEEEhhhHHHHhcccCC
Q 024527            8 QGSLLKKVLEAIKEL-VNDANFDCSATGFSLQAMDSSHVALVALLLR--SEGFEHYRCDRNISMGMNLNNVSKMLKCAGN   84 (266)
Q Consensus         8 ~~~~~k~i~~~l~~l-~~~~~~~~~~~gl~~~a~D~~r~a~v~~~l~--~~~F~~y~~~~~~~~gi~l~~L~~ilk~~~~   84 (266)
                      +.+.|+++++-++.+ -+++.+.++++++++.+-....  -+...++  .+.+.+|++ +++.++.|++.|..+||.+.-
T Consensus       135 ~~~~l~~a~~r~~~l~s~~V~l~~~~~~l~ls~~~d~g--~~~~~l~~~~~~~~~~~g-e~~~i~Fn~~yL~d~lk~~~~  211 (246)
T 3aiz_C          135 LTVTFTDIIDEIEDIGGDSITFKAEGGKLYLSANSDMG--SSTIELSTENGGLLESEG-GDAESVYGLEYVVNTSKMRKP  211 (246)
T ss_dssp             EHHHHHHHHHHHHHHCCSEEEEEEETTEEEEEEECSSC--EEEEEECTTTTSCSEEEE-CCEEEEEEHHHHHTTGGGTTT
T ss_pred             EHHHHHHHHHHHhhCCCCEEEEEEECCEEEEEEEcCCc--eEEEEEecCCCccEEEEE-eeEEEEEEHHHHHHHhhhccC
Confidence            368999999999988 8899999999999999854333  3445554  344567888 679999999999999999875


Q ss_pred             CceEEEEEcCCCCeEEEEEe
Q 024527           85 DDIITLKADDGSDTVTFMFE  104 (266)
Q Consensus        85 ~d~l~l~~~~~~~~l~i~~~  104 (266)
                      .+.+.|.+.++ .++.++..
T Consensus       212 s~~V~l~~~~~-~p~~i~~~  230 (246)
T 3aiz_C          212 SDTVEIAFGSQ-IPLKLRYN  230 (246)
T ss_dssp             CSEEEEEEETT-EEEEEEEE
T ss_pred             CCeEEEEecCC-CcEEEEEE
Confidence            78899999854 68888764

>2zvv_A PCNA 1, proliferating cellular nuclear antigen 1; protein-peptide complex, DNA replication, DNA-binding, nucleus, DNA binding protein; 2.00A {Arabidopsis thaliana} PDB: 2zvw_A

Probab=97.72  E-value=0.00091  Score=57.19  Aligned_cols=106  Identities=10%  Similarity=0.192  Sum_probs=81.6

Q ss_pred             hhhHHHHHHHHHhhhceeeEEEeCCceEEEEECCCCeEEEEEEecC-------CCcceeeeCCcEEEEEEhhhHHHHhcc
Q 024527            9 GSLLKKVLEAIKELVNDANFDCSATGFSLQAMDSSHVALVALLLRS-------EGFEHYRCDRNISMGMNLNNVSKMLKC   81 (266)
Q Consensus         9 ~~~~k~i~~~l~~l~~~~~~~~~~~gl~~~a~D~~r~a~v~~~l~~-------~~F~~y~~~~~~~~gi~l~~L~~ilk~   81 (266)
                      .+.|+++++.++.+-+.+.+.++++++++.+..  -.+-+...++.       +.+.+|+|.+++.++.+++.|..+||.
T Consensus       161 ~~~l~~av~r~~~~sd~V~i~~~~~~l~lsa~g--d~g~~~~~l~~~~~~~~~~~~~~~~~ge~~~i~fn~~YL~d~lka  238 (276)
T 2zvv_A          161 SNEFSRICKDLSSIGDTVVISVTKEGVKFSTAG--DIGTANIVLRQNTTVDKPEDAIVIEMKEPVSLSFALRYMNSFTKA  238 (276)
T ss_dssp             HHHHHHHHHHHHTTCSEEEEEEETTEEEEEEEE--TTEEEEEEECCCSSCCSGGGCCEEEESSCEEEEEEHHHHHHHGGG
T ss_pred             HHHHHHHHHHHHhhCCEEEEEEeCCEEEEEEEe--eccEEEEEEccCCCCCCccccEEEecCCcEEEEEEHHHHHHHhcc
Confidence            689999999999999999999999999999853  34445666663       445679988899999999999999998


Q ss_pred             cCCCceEEEEEcCCCCeEEEEEeCCCCCeEEEEEEe
Q 024527           82 AGNDDIITLKADDGSDTVTFMFESPTQDKIADFEMK  117 (266)
Q Consensus        82 ~~~~d~l~l~~~~~~~~l~i~~~~~~~~~~~~~~l~  117 (266)
                      +.-.+.+.|.+..+ .++.+++.-...|..+.|-.|
T Consensus       239 ~~ls~~V~i~l~~~-~Pl~l~~~~~~~g~~~y~laP  273 (276)
T 2zvv_A          239 TPLSDTVTISLSSE-LPVVVEYKVAEMGYIRYYLAP  273 (276)
T ss_dssp             GGGCSEEEEEECTT-SCEEEEEEETTTEEEEEEECC
T ss_pred             ccCCCEEEEEEcCC-ceEEEEEEeCCCcEEEEEEcc
Confidence            87568899999844 688887753212334444433

>3a1j_A Cell cycle checkpoint control protein RAD9A; DNA damage, DNA repair, exonuclease, hydrolase, nuclease, nucleus, phosphoprotein, polymorphism, cytoplasm; HET: SUC; 2.50A {Homo sapiens} PDB: 3ggr_A

Probab=97.68  E-value=0.00037  Score=59.39  Aligned_cols=110  Identities=12%  Similarity=0.235  Sum_probs=88.9

Q ss_pred             ChhhHHHHHHHHHhhhceeeEEEe-CCceEEEEE-----CCC-CeEEEEEEecCCCcceeeeCCcEEEEEEhhhHHHHhc
Q 024527            8 QGSLLKKVLEAIKELVNDANFDCS-ATGFSLQAM-----DSS-HVALVALLLRSEGFEHYRCDRNISMGMNLNNVSKMLK   80 (266)
Q Consensus         8 ~~~~~k~i~~~l~~l~~~~~~~~~-~~gl~~~a~-----D~~-r~a~v~~~l~~~~F~~y~~~~~~~~gi~l~~L~~ilk   80 (266)
                      +++.|+++++.+....+++.+.++ ++++.+.+.     |+. +.....+.+..+.|.+|+++++..+...++.|..+++
T Consensus       148 ~s~~~~~~~~~~~~~~d~v~i~~~~~~~v~~~s~~~~~~~~~~~~~~t~~~~~~~e~~~~~~~~~~~~tFslkyl~~~l~  227 (266)
T 3a1j_A          148 PARVLGEAVLPFSPALAEVTLGIGRGRRVILRSYHEEEADSTAKAMVTEMCLGEEDFQQLQAQEGVAITFCLKEFRGLLS  227 (266)
T ss_dssp             EHHHHHHHHTTSCTTCCEEEEEECGGGCEEEEEECCC-CCCSCCCCEEEEEECGGGCSEEECCTTCEEEEEHHHHHHHHH
T ss_pred             ChHHHHHHHHhCCCChhhEEEEeCCCCEEEEEEcccCccccccccceEEEEECHHHhhheecCCCCEEEEEHHHHHHHHH
Confidence            378999999999999999999999 999999983     222 4555788888899999999999999999999999888


Q ss_pred             ccC-CCceEEEEEcCCCCeEEEEEeCCCCCeEEEEEEeee
Q 024527           81 CAG-NDDIITLKADDGSDTVTFMFESPTQDKIADFEMKLM  119 (266)
Q Consensus        81 ~~~-~~d~l~l~~~~~~~~l~i~~~~~~~~~~~~~~l~li  119 (266)
                      -++ .+..+.+.++..+.|+.+.+++.  +...+|.+.++
T Consensus       228 f~~~~~~~v~i~~~~~g~Pl~~~~~~~--~~~~~f~LATl  265 (266)
T 3a1j_A          228 FAESANLNLSIHFDAPGRPAIFTIKDS--LLDGHFVLATL  265 (266)
T ss_dssp             HHHHTTCEEEEEECSTTSCEEEEEECS--SEEEEEEECCC
T ss_pred             HHHhcCCcEEEEECCCCccEEEEEeCC--cEEEEEEEeec
Confidence            763 35679999987677999998543  43456666543

>3fds_D DNA polymerase sliding clamp C; protein-protein complex, DNA damage, DNA repair, DNA replica DNA-binding, DNA-directed DNA polymerase; HET: DNA 1PE PGE; 2.05A {Sulfolobus solfataricus} PDB: 2nti_E* 2io4_B* 2ix2_B* 2hik_B 2hii_B* 2izo_B*

Probab=97.68  E-value=0.0013  Score=55.25  Aligned_cols=105  Identities=11%  Similarity=0.138  Sum_probs=79.7

Q ss_pred             ChhhHHHHHHHHHhhhceeeEEEeCCceEEEEECCCCeEEEEEEecCCCcceeeeCCcEEEEEEhhhHHHHhcccCCCce
Q 024527            8 QGSLLKKVLEAIKELVNDANFDCSATGFSLQAMDSSHVALVALLLRSEGFEHYRCDRNISMGMNLNNVSKMLKCAGNDDI   87 (266)
Q Consensus         8 ~~~~~k~i~~~l~~l~~~~~~~~~~~gl~~~a~D~~r~a~v~~~l~~~~F~~y~~~~~~~~gi~l~~L~~ilk~~~~~d~   87 (266)
                      ++..|+++++.++.+-+.+.+.++++++++.+.....-+-..+.-..+...+++ .+++.++.+++.|..++|.++..+.
T Consensus       136 ~s~~f~~~i~~~~~~s~~V~i~~~~~~l~~s~~gd~g~~~~~l~~~~~~~~~~~-~e~~~~~F~~~YL~~~~ka~~~s~~  214 (245)
T 3fds_D          136 LTITFADIIDELSDLGEVLNIHSKENKLYFEVIGDLSTAKVELSTDNGTLLEAS-GADVSSSYGMEYVANTTKMRRASDS  214 (245)
T ss_dssp             EHHHHHHHHHHHTTTCSEEEEEEETTEEEEEEECSSCEEEEEECTTSSSCSEEE-ECCCEEEEEHHHHHHGGGGGGTCSE
T ss_pred             EHHHHHHHHHHHHhcCCEEEEEEeCCEEEEEEEecCcEEEEEEcCCCCceEEEe-cceEEEEEEHHHHHHHhhhcccCCE
Confidence            378999999999999999999999999999996433334333333334455677 6789999999999999998887789


Q ss_pred             EEEEEcCCCCeEEEEEeCCCCCeEEEE
Q 024527           88 ITLKADDGSDTVTFMFESPTQDKIADF  114 (266)
Q Consensus        88 l~l~~~~~~~~l~i~~~~~~~~~~~~~  114 (266)
                      +.|.++++ .++.+++.-.+.|..+.|
T Consensus       215 V~i~~~~~-~Pl~l~~~i~~~g~~~y~  240 (245)
T 3fds_D          215 MELYFGSQ-IPLKLRFKLPQEGYGDFY  240 (245)
T ss_dssp             EEEEECTT-SCEEEEEECSTTCEEEEE
T ss_pred             EEEEecCC-ccEEEEEEeCCCeEEEEE
Confidence            99999755 578887654334544433

>1ud9_A DNA polymerase sliding clamp A; DNA-binding, DNA replication, DNA binding protein; HET: DNA; 1.68A {Sulfolobus tokodaii} SCOP: d.131.1.2 d.131.1.2

Probab=97.63  E-value=0.0011  Score=55.59  Aligned_cols=95  Identities=12%  Similarity=0.193  Sum_probs=74.7

Q ss_pred             ChhhHHHHHHHHHhhhceeeEEEeCCceEEEEECCCCeEEEEEEecCCCcceeeeCCcEEEEEEhhhHHHHhcccCCCce
Q 024527            8 QGSLLKKVLEAIKELVNDANFDCSATGFSLQAMDSSHVALVALLLRSEGFEHYRCDRNISMGMNLNNVSKMLKCAGNDDI   87 (266)
Q Consensus         8 ~~~~~k~i~~~l~~l~~~~~~~~~~~gl~~~a~D~~r~a~v~~~l~~~~F~~y~~~~~~~~gi~l~~L~~ilk~~~~~d~   87 (266)
                      +.+.|+++++-++.+.+++.+.++++++++.+-..... -..+.-..+.+.+|+|.+++.++.|++.|..+||.+.-.+.
T Consensus       135 ~~~~l~~a~~r~~~~s~~V~l~~~~~~l~ls~~~d~g~-~~~l~~~~~~~~~~~~ge~~~i~Fn~~yL~d~lk~~~~s~~  213 (245)
T 1ud9_A          135 NASGLKNAIGEIAEVADTLLISGNEEKVVVKGEGENKV-EVEFSKDTGSLADIEFNKESSSAYDVEYLNDIISLTKLSDY  213 (245)
T ss_dssp             EHHHHHHHHHHHHHHCSEEEEEECSSEEEEEESSSSCC-CEEEEGGGTCEEEEEESSCEEEEEEHHHHHHTGGGGGGCSE
T ss_pred             eHHHHHHHHHHHHhcCCEEEEEEECCEEEEEEEccCce-EEEEecCCCccEEEEeCCceeEEEEHHHHHHHhhhcccCCE
Confidence            36899999999999999999999999999997432222 23332234455678888889999999999999998864688


Q ss_pred             EEEEEcCCCCeEEEEEe
Q 024527           88 ITLKADDGSDTVTFMFE  104 (266)
Q Consensus        88 l~l~~~~~~~~l~i~~~  104 (266)
                      +.|.+.++ .++.++..
T Consensus       214 V~l~~~~~-~p~~i~~~  229 (245)
T 1ud9_A          214 VKVAFADQ-KPMQLEFN  229 (245)
T ss_dssp             EEEEECTT-SCEEEEEE
T ss_pred             EEEEEcCC-CCEEEEEE
Confidence            99999854 68888764

>1rwz_A DNA polymerase sliding clamp; torus, processivity factor, replication; HET: DNA; 1.80A {Archaeoglobus fulgidus} SCOP: d.131.1.2 d.131.1.2 PDB: 1rxm_A* 1rxz_A* 3p83_A*

Probab=97.58  E-value=0.0031  Score=52.78  Aligned_cols=109  Identities=16%  Similarity=0.291  Sum_probs=80.9

Q ss_pred             ChhhHHHHHHHHHhhhceeeEEEeCCceEEEEECCCCeEEEEEEecCCCcceeeeCCcEEEEEEhhhHHHHhcccCCCce
Q 024527            8 QGSLLKKVLEAIKELVNDANFDCSATGFSLQAMDSSHVALVALLLRSEGFEHYRCDRNISMGMNLNNVSKMLKCAGNDDI   87 (266)
Q Consensus         8 ~~~~~k~i~~~l~~l~~~~~~~~~~~gl~~~a~D~~r~a~v~~~l~~~~F~~y~~~~~~~~gi~l~~L~~ilk~~~~~d~   87 (266)
                      +.+.|+++++-++.+-+++.+.++++++++.+-.  -..-+....+.+...+|++++ +.++.|++.|..+||.+.-.+.
T Consensus       134 ~~~~l~~av~r~~~ls~~V~l~~~~~~l~ls~~~--d~g~~~~~~~~e~~~~~~g~~-~~i~Fn~~yL~d~lk~~~~s~~  210 (245)
T 1rwz_A          134 DAGEFKKAIAAADKISDQVIFRSDKEGFRIEAKG--DVDSIVFHMTETELIEFNGGE-ARSMFSVDYLKEFCKVAGSGDL  210 (245)
T ss_dssp             EHHHHHHHHHHHHTTCSEEEEEEETTEEEEEEEC--SSCEEEEEECGGGSSEECCCC-EEEEEEHHHHHHHGGGCCTTCE
T ss_pred             EHHHHHHHHHHHHhcCCEEEEEEECCEEEEEEEc--cCcEEEEecCCCccEEEEEee-EEEEEeHHHHHHHhhhccCCCe
Confidence            3689999999999999999999999999999744  223355555555556788776 9999999999999999875788


Q ss_pred             EEEEEcCCCCeEEEEEeCCCC-CeEEEEEEeeee
Q 024527           88 ITLKADDGSDTVTFMFESPTQ-DKIADFEMKLMD  120 (266)
Q Consensus        88 l~l~~~~~~~~l~i~~~~~~~-~~~~~~~l~li~  120 (266)
                      +.|.+.++ .++.++..-... +..+.+..|.++
T Consensus       211 V~l~~~~~-~p~~i~~~~~~~~~~~~y~i~P~~~  243 (245)
T 1rwz_A          211 LTIHLGTN-YPVRLVFELVGGRAKVEYILAPRIE  243 (245)
T ss_dssp             EEEEECSS-SCEEEEEEETTTTEEEEEEECCBCC
T ss_pred             EEEEECCC-CCEEEEEEECCCcEEEEEEEccccC
Confidence            99999854 688887642122 333344445443

>2ijx_A DNA polymerase sliding clamp A; PCNA3 subunit, protein-protein interaction, PCNA123 heterotr binding protein; HET: DNA; 1.90A {Sulfolobus solfataricus} PDB: 2nti_F* 2hii_C 2hik_C 2ix2_C*

Probab=97.56  E-value=0.0014  Score=54.78  Aligned_cols=95  Identities=9%  Similarity=0.208  Sum_probs=75.5

Q ss_pred             ChhhHHHHHHHHHhhhceeeEEEeCCceEEEEECCCCeEEEEEEecCCCcceeeeCCcEEEEEEhhhHHHHhcccCCCce
Q 024527            8 QGSLLKKVLEAIKELVNDANFDCSATGFSLQAMDSSHVALVALLLRSEGFEHYRCDRNISMGMNLNNVSKMLKCAGNDDI   87 (266)
Q Consensus         8 ~~~~~k~i~~~l~~l~~~~~~~~~~~gl~~~a~D~~r~a~v~~~l~~~~F~~y~~~~~~~~gi~l~~L~~ilk~~~~~d~   87 (266)
                      +.+.|+++++-++.+.+++.+.++++++++.+-..... -..+.-..+.+.+|++.+++.++.|++.|..+||.+.-.+.
T Consensus       135 ~~~~l~~a~~r~~~~s~~V~l~~~~~~l~ls~~~d~g~-~~~l~~~~~~~~~~~~ge~~~i~Fn~~yL~d~lk~~~~s~~  213 (244)
T 2ijx_A          135 SSDGFKSAISEVSTVTDNVVVEGHEDRILIKAEGESEV-EVEFSKDTGGLQDLEFSKESKNSYSAEYLDDVLSLTKLSDY  213 (244)
T ss_dssp             EHHHHHHHHHHHTTTCSEEEEEEETTEEEEEETTCTTS-EEEEETTTTCEEEEEESSCEEEEEEHHHHHHTGGGGGGCSE
T ss_pred             EHHHHHHHHHHHHhcCCEEEEEEECCEEEEEEEecCce-EEEEeCCCCccEEEEcCCceEEEEEHHHHHHHhhhccCCCE
Confidence            36899999999999999999999999999997433233 33333334456779888889999999999999999864688


Q ss_pred             EEEEEcCCCCeEEEEEe
Q 024527           88 ITLKADDGSDTVTFMFE  104 (266)
Q Consensus        88 l~l~~~~~~~~l~i~~~  104 (266)
                      +.|.+.+ ..++.++..
T Consensus       214 V~l~~~~-~~p~~i~~~  229 (244)
T 2ijx_A          214 VKISFGN-QKPLQLFFN  229 (244)
T ss_dssp             EEEEEET-TEEEEEEEE
T ss_pred             EEEEEcC-CCCEEEEEE
Confidence            9999975 468888764

>3a1j_C Cell cycle checkpoint protein RAD1; DNA damage, DNA repair, exonuclease, hydrolase, nuclease, nucleus, phosphoprotein, polymorphism, cytoplasm; HET: SUC; 2.50A {Homo sapiens} PDB: 3g65_B 3ggr_C

Probab=97.55  E-value=0.00045  Score=58.78  Aligned_cols=101  Identities=10%  Similarity=0.155  Sum_probs=82.8

Q ss_pred             eEEEcChhhHHHHHHHHHhhhceeeEEEeCC--ceEEEEECCCCeEEEEEEecCCCcceeeeCCcEEEEEEhhhHHHHhc
Q 024527            3 ELRLVQGSLLKKVLEAIKELVNDANFDCSAT--GFSLQAMDSSHVALVALLLRSEGFEHYRCDRNISMGMNLNNVSKMLK   80 (266)
Q Consensus         3 ~a~~~~~~~~k~i~~~l~~l~~~~~~~~~~~--gl~~~a~D~~r~a~v~~~l~~~~F~~y~~~~~~~~gi~l~~L~~ilk   80 (266)
                      +++++ +..|+++++.+..+-+.+.+.++++  ++++.+......+-+.+.-.++.+..|+|.++++..-.++.|..+.|
T Consensus       143 ~v~m~-s~~l~~~~~dl~~~~d~v~i~~~~~~p~~~~~~~Gd~g~~~i~~~~~~~~~~~~~~~~~~~~~y~l~yL~~~~k  221 (263)
T 3a1j_C          143 KIILQ-SEGLREAFSELDMTSEVLQITMSPDKPYFRLSTFGNAGSSHLDYPKDSDLMEAFHCNQTQVNRYKISLLKPSTK  221 (263)
T ss_dssp             EEEEE-GGGGHHHHHTSCTTSSEEEEEECSSSSSEEEEEEETTEEEEEEECTTCSSEEEEEECSCEEEEEEHHHHTTHHH
T ss_pred             EEEEe-hHHHHHHHHHHhccCCeEEEEEEcCCCEEEEEEEcCCccEEEEEcCCCCeEEEEEeCChhhcEEeHHHHHHHHh
Confidence            34444 8899999999999999999999999  99999986666665555555678999999999999999999999999


Q ss_pred             ccCCCceEEEEEcCCCCeEEEEEeC
Q 024527           81 CAGNDDIITLKADDGSDTVTFMFES  105 (266)
Q Consensus        81 ~~~~~d~l~l~~~~~~~~l~i~~~~  105 (266)
                      .++-.+.++|.++.++ +|.+++.-
T Consensus       222 a~~~s~~v~i~~~~~~-pL~l~~~i  245 (263)
T 3a1j_C          222 ALVLSCKVSIRTDNRG-FLSLQYMI  245 (263)
T ss_dssp             HHHHCSEEEEEEETTC-CEEEEEEE
T ss_pred             hhhhcCEEEEEECCCe-eEEEEEEE
Confidence            8777789999997654 66665543

>3ifv_A PCNA; processivity factor, sliding clamp, halophilic, replication; 2.00A {Haloferax volcanii} PDB: 3hi8_A

Probab=97.47  E-value=0.0022  Score=53.91  Aligned_cols=108  Identities=14%  Similarity=0.167  Sum_probs=83.1

Q ss_pred             hhhHHHHHHHHHhhhceeeEEEe--CCceEEEEECCCCeEEEEEEecCCCcceeeeCCcEEEEEEhhhHHHHhcccCCCc
Q 024527            9 GSLLKKVLEAIKELVNDANFDCS--ATGFSLQAMDSSHVALVALLLRSEGFEHYRCDRNISMGMNLNNVSKMLKCAGNDD   86 (266)
Q Consensus         9 ~~~~k~i~~~l~~l~~~~~~~~~--~~gl~~~a~D~~r~a~v~~~l~~~~F~~y~~~~~~~~gi~l~~L~~ilk~~~~~d   86 (266)
                      ++.|+++++.++.+-+.+.+.++  ++++++.+-.  -+.-+...++++...+++ .+++++..+++.|..++|.++..+
T Consensus       135 s~~f~~~i~~~~~~sd~V~i~~~~~~~~~~~s~~g--d~g~~~~~l~~~~~~~~~-~e~~~~~F~~~YL~~~~Ka~~~s~  211 (247)
T 3ifv_A          135 GTHLDRGIKAADMVSDHIRLRVDGAEETFHIEAEG--DTDDVDLSLPPADLISIE-AGAADSLFSLDYLKDMNKAIPTDA  211 (247)
T ss_dssp             HHHHHHHHHHHHHHCSEEEEEEETTTTEEEEEEEC--SSCEEEEEECGGGCSEEE-ECCCEEEEEHHHHHHHHHHSCTTC
T ss_pred             HHHHHHHHHHHHhhCCEEEEEEECCCCEEEEEEEe--cceEEEEEECCCceEEEe-cCeEEEEEeHHHHHHhhhhccCCC
Confidence            78999999999999999999999  8899999853  345567778866566777 667999999999999999988778


Q ss_pred             eEEEEEcCCCCeEEEEEeCC-CCCeEEEEEEeeee
Q 024527           87 IITLKADDGSDTVTFMFESP-TQDKIADFEMKLMD  120 (266)
Q Consensus        87 ~l~l~~~~~~~~l~i~~~~~-~~~~~~~~~l~li~  120 (266)
                      .+.|.+..+ .++.+++.-. +.|..+.|--|-++
T Consensus       212 ~V~i~~~~~-~Pl~l~~~i~~~~g~~~~~lAPri~  245 (247)
T 3ifv_A          212 EVTVELGEE-FPVKLHYQIAEGMGTITYMLAPRIQ  245 (247)
T ss_dssp             EEEEEECBS-SCEEEEEEEGGGTEEEEEEECCC--
T ss_pred             EEEEEecCC-ccEEEEEEEcCCcEEEEEEEeeccc
Confidence            999999754 4777765532 23555555544443

>3aiz_A DNA polymerase sliding clamp B; protein-protein complex, replication; HET: DNA; 2.80A {Sulfolobus tokodaii} PDB: 3aix_B*

Probab=97.45  E-value=0.0023  Score=53.64  Aligned_cols=94  Identities=9%  Similarity=0.163  Sum_probs=74.9

Q ss_pred             ChhhHHHHHHHHHhhhceeeEEEeCCceEEEEECCCCeEEEEEEec-CCCcceeeeCCcEEEEEEhhhHHHHhcccCCCc
Q 024527            8 QGSLLKKVLEAIKELVNDANFDCSATGFSLQAMDSSHVALVALLLR-SEGFEHYRCDRNISMGMNLNNVSKMLKCAGNDD   86 (266)
Q Consensus         8 ~~~~~k~i~~~l~~l~~~~~~~~~~~gl~~~a~D~~r~a~v~~~l~-~~~F~~y~~~~~~~~gi~l~~L~~ilk~~~~~d   86 (266)
                      +.+.|+++++-++.+-+++.+.++++++++.+...  ..-+...++ .+.+.+|+|.+++.++.|++.|..+||.+.-.+
T Consensus       139 ~~~~l~~av~r~~~~s~~V~i~~~~~~l~ls~~~d--~g~~~~~~~~~~~~~~~~~ge~~~i~fn~~yL~d~lk~~~~s~  216 (248)
T 3aiz_A          139 DGDVLKDIARDLSLVGEEVEISADENTVTLSTEEA--GRTYKSLLKQDKPLKSLNVESPSKAVYSIEVLKDVFKVTSISQ  216 (248)
T ss_dssp             CHHHHHHHHHHHTTSCSEEEEEECSSEEEEEEEET--TEEEEEEEEETBEESEEEESSCEEEEEEHHHHHHHHHHGGGCS
T ss_pred             eHHHHHHHHHHHHhcCCEEEEEEeCCEEEEEEEcc--CceEEEEEcCCCcceEEecCCceEEEEEHHHHHHHhhhccCCC
Confidence            36899999999999999999999999999998643  333444443 122457888888999999999999999886467


Q ss_pred             eEEEEEcCCCCeEEEEEe
Q 024527           87 IITLKADDGSDTVTFMFE  104 (266)
Q Consensus        87 ~l~l~~~~~~~~l~i~~~  104 (266)
                      .+.+.+.++ .++.++..
T Consensus       217 ~V~l~~~~~-~p~~i~~~  233 (248)
T 3aiz_A          217 NVTVGFGNN-IPMKIEVP  233 (248)
T ss_dssp             SEEEEEETT-EEEEEEEE
T ss_pred             eEEEEEcCC-CCEEEEEE
Confidence            899999754 68888874

>3g65_A Cell cycle checkpoint control protein RAD9A; PCNA, DNA binding clamp, DNA damage, DNA repair, exonuclease, hydrolase, nuclease, nucleus, phosphoprotein; 2.90A {Homo sapiens}

Probab=97.40  E-value=0.00063  Score=58.89  Aligned_cols=112  Identities=11%  Similarity=0.212  Sum_probs=94.6

Q ss_pred             ChhhHHHHHHHHHhhhceeeEEEe-CCceEEEEEC-----CC-CeEEEEEEecCCCcceeeeCCcEEEEEEhhhHHHHhc
Q 024527            8 QGSLLKKVLEAIKELVNDANFDCS-ATGFSLQAMD-----SS-HVALVALLLRSEGFEHYRCDRNISMGMNLNNVSKMLK   80 (266)
Q Consensus         8 ~~~~~k~i~~~l~~l~~~~~~~~~-~~gl~~~a~D-----~~-r~a~v~~~l~~~~F~~y~~~~~~~~gi~l~~L~~ilk   80 (266)
                      +++.|+.+++......+++.+.++ ++.+.+++-.     .. +-+...+.+..+.|++|.++++..+...++.|..++.
T Consensus       148 ~~~~l~e~l~~f~~~~eevtl~~~~~~~v~~~s~~e~~~d~~~~~~~Tel~i~~~ef~~~~v~~~~~itf~lKefrail~  227 (296)
T 3g65_A          148 PARVLGEAVLPFSPALAEVTLGIGRGRRVILRSYHEEEADSTAKAMVTEMCLGEEDFQQLQAQEGVAITFCLKEFRGLLS  227 (296)
T ss_dssp             EHHHHHHHSTTSCTTCCEEEEEEETTTEEEEEECCC-----CCCCCEEEEEECGGGCSEEECCTTCEEEEEHHHHHHHHH
T ss_pred             chHHHHHHHHhCcCCcceEEEEECCCCeEEEEEeccccccccCceEEEEEEEChhHheeEecCCCcEEEEEHHHHHHHHH
Confidence            378999999998888999999999 7889999852     23 7788999999999999999999999999999999999


Q ss_pred             ccCC-CceEEEEEcCCCCeEEEEEeCCCCCeEEEEEEeeeec
Q 024527           81 CAGN-DDIITLKADDGSDTVTFMFESPTQDKIADFEMKLMDI  121 (266)
Q Consensus        81 ~~~~-~d~l~l~~~~~~~~l~i~~~~~~~~~~~~~~l~li~~  121 (266)
                      -+.. +..+.+.++..+.|+.+.+++.  +....|.+.++..
T Consensus       228 ~ae~~~~~i~i~f~~pG~Pl~~~~~~~--~~~~~fvLaT~~~  267 (296)
T 3g65_A          228 FAESANLNLSIHFDAPGRPAIFTIKDS--LLDGHFVLATLSD  267 (296)
T ss_dssp             HHHHTTCEEEEECCSTTSCEEEEEECS--SCEEEEEECCCCS
T ss_pred             HHHhcCCeEEEEECCCCCcEEEEEeCC--cEEEEEEEEECCC
Confidence            8753 4589999998888999999864  5666777777653

>1dml_A DNA polymerase processivity factor; herpes simplex virus, DNA synthesis, sliding clamps, PCNA, processivity, DNA binding protein/transferase complex; HET: DNA; 2.70A {Human herpesvirus 1} SCOP: d.131.1.2 d.131.1.2

Probab=95.29  E-value=0.33  Score=41.32  Aligned_cols=159  Identities=13%  Similarity=0.178  Sum_probs=101.3

Q ss_pred             hhhHHHHHHHHHhh---hceeeEEEeCCceEEEEECCCCeEEEEEEecCCCcceeeeCCcE-EE--EEE-hhhHHHHhcc
Q 024527            9 GSLLKKVLEAIKEL---VNDANFDCSATGFSLQAMDSSHVALVALLLRSEGFEHYRCDRNI-SM--GMN-LNNVSKMLKC   81 (266)
Q Consensus         9 ~~~~k~i~~~l~~l---~~~~~~~~~~~gl~~~a~D~~r~a~v~~~l~~~~F~~y~~~~~~-~~--gi~-l~~L~~ilk~   81 (266)
                      ...|..++.++++|   +.+..+-|.++||-+++.  =.-=++-+-|+.+.|++|+-.++- .|  -++ -..|..++|.
T Consensus        37 g~~L~~~~~alaPl~~sLkds~LvFse~GllIh~s--v~gEQVyvPi~~~~FS~Y~W~GP~AvFLAlvD~RrsLLDaFr~  114 (319)
T 1dml_A           37 GAELNGILQAFAPLRTSLLDSLLVMGDRGILIHNT--IFGEQVFLPLEHSQFSRYRWRGPTAAFLSLVDQKRSLLSVFRA  114 (319)
T ss_dssp             HHHHHHHHHHHGGGTTTTSSCEEEEETTEEEEEEE--ETTEEEEEEEEGGGSSEEECCSSCEEEESEEETTEETTSTTST
T ss_pred             chhHHHHHHHHHhHHHhhcccEEEEcCCceEEEee--ecceEEEEEcChHhccccEecCCceEEeEecccchhHHHHhcc
Confidence            66889999999998   778999999999999973  233467888999999999988752 22  344 3478888987


Q ss_pred             cCCCc--eEEEEEcCCCC--eEEEEEeC--CCCCeEEEEEEeeeecCCCCC--CCCcceeeEEEEEehHHHHHHHHHhhc
Q 024527           82 AGNDD--IITLKADDGSD--TVTFMFES--PTQDKIADFEMKLMDIDSEHL--GIPEAEYHAIVRMPSAEFARICKDLAS  153 (266)
Q Consensus        82 ~~~~d--~l~l~~~~~~~--~l~i~~~~--~~~~~~~~~~l~li~~~~~~~--~ip~~~~~~~i~~~s~~~~~~i~~~~~  153 (266)
                      -+..+  .+.+++.+..+  .|.=++-.  .+.+-...+...++.-+.-.|  -.|...-+..+.+....|.+++.-...
T Consensus       115 ~k~~~~~rV~F~i~G~~P~R~LtQ~v~~~~~d~~~~~~~~~tlvK~El~~ysvmlPq~~PDvtl~LsK~QL~Kil~~~~k  194 (319)
T 1dml_A          115 NQYPDLRRVELAITGQAPFRTLVQRIWTTTSDGEAVELASETLMKRELTSFVVLVPQGTPDVQLRLTRPQLTKVLNATGA  194 (319)
T ss_dssp             TTCTTEEEEEEEEESCTTSCEEEEEEEETTSSTTCSSSSCCEEEEECCSSCEEEECCSCCSEEEEECHHHHHHHHHHSCC
T ss_pred             CCCCCcEEEEEEEecCCCcceEEEEEEEecCCCCccchhhHHHHHHhhhceEEEccCCCCCEEEEEcHHHHHHHHHHHhc
Confidence            54433  46666654332  22222211  111111112333333333333  457777889999999999999983332


Q ss_pred             -cCCEEEEEEeC-CeEEE
Q 024527          154 -IGDTVVISVTK-EGVKF  169 (266)
Q Consensus       154 -~~d~v~i~~~~-~~l~~  169 (266)
                       -++.++|.... +.+..
T Consensus       195 ~~~~~ttF~L~~~~~f~v  212 (319)
T 1dml_A          195 DSATPTTFELGVNGKFSV  212 (319)
T ss_dssp             STTSCEEEEECTTSEEEE
T ss_pred             CCCCceEEEEecCCcEEE
Confidence             23577777663 34433

>3a1j_B HHUS1, checkpoint protein HUS1; DNA damage, DNA repair, exonuclease, hydrolase, nuclease, nucleus, phosphoprotein, polymorphism, cytoplasm; HET: SUC; 2.50A {Homo sapiens} PDB: 3g65_C 3ggr_B

Probab=94.51  E-value=0.61  Score=39.64  Aligned_cols=110  Identities=14%  Similarity=0.177  Sum_probs=73.2

Q ss_pred             EEEcChhhHHHHHHHHHhhhceeeEEEeCCc-eEEEEECCCCeEEEEEEecCCC-c--------ceeeeCCcEEEEEEhh
Q 024527            4 LRLVQGSLLKKVLEAIKELVNDANFDCSATG-FSLQAMDSSHVALVALLLRSEG-F--------EHYRCDRNISMGMNLN   73 (266)
Q Consensus         4 a~~~~~~~~k~i~~~l~~l~~~~~~~~~~~g-l~~~a~D~~r~a~v~~~l~~~~-F--------~~y~~~~~~~~gi~l~   73 (266)
                      +.++..+.|+++++-++.+-+.+.+.++.+| +++.+-..  .+-+...+..-. -        ..-..+++.++.++++
T Consensus       159 i~lPsl~~~~~iv~~lk~i~d~v~i~a~~~G~l~f~~~~d--~~~~~~~~~~l~~~~~~~~~~~~~~~~~~~~sv~~~~k  236 (281)
T 3a1j_B          159 IYLPVLKTMKSVVEKMKNISNHLVIEANLDGELNLKIETE--LVCVTTHFKDLGNPPLASESTHEDRNVEHMAEVHIDIR  236 (281)
T ss_dssp             EECCCHHHHHHHHHHHHTTCSEEEEEECTTSCEEEEEECS--SEEEEEEECCCCCCCC----------CCCCEEEEEEHH
T ss_pred             EECCCHHHHHHHHHHHhccCCeEEEEEECCCeEEEEEEee--eEEEEEEEcCCCCCCCCccccccccCCCccEEEEEEHH
Confidence            4566668999999999999999999999999 99997432  334444444210 0        1122345689999999


Q ss_pred             hHHHHhcccCCCceEEEE-EcCCCCeEEEEEeCCCCCeEEEEEEee
Q 024527           74 NVSKMLKCAGNDDIITLK-ADDGSDTVTFMFESPTQDKIADFEMKL  118 (266)
Q Consensus        74 ~L~~ilk~~~~~d~l~l~-~~~~~~~l~i~~~~~~~~~~~~~~l~l  118 (266)
                      .|.+.++...-...+.+. +.++. +|++.. -...| ...|+++.
T Consensus       237 ~l~~f~k~~~ls~~v~~~~i~~~~-~l~~y~-~~~~g-~l~yylp~  279 (281)
T 3a1j_B          237 KLLQFLAGQQVNPTKALCNIVNNK-MVHFDL-LHEDV-SLQYFIPA  279 (281)
T ss_dssp             HHHHHHHHCCSCCSEEEEEEETTT-EEEEEE-ESSSC-EEEEEEEC
T ss_pred             HHHHhhCcccCCCcEEEEEEeCCc-eEEEEE-eCCcE-EEEEEeee
Confidence            999999976645556565 65543 677632 22223 33577664

>3pge_A SUMO-modified proliferating cell nuclear antigen; DNA replication, DNA binding protein; 2.80A {Saccharomyces cerevisiae}

Probab=86.40  E-value=10  Score=30.35  Aligned_cols=81  Identities=11%  Similarity=0.110  Sum_probs=57.3

Q ss_pred             CceEEEEECCCCeEEEEEEecC-----CCcceeeeCCcEEEEEEhhhHHHHhcccCCCceEEEEEcCCCCeEEEEEeCCC
Q 024527           33 TGFSLQAMDSSHVALVALLLRS-----EGFEHYRCDRNISMGMNLNNVSKMLKCAGNDDIITLKADDGSDTVTFMFESPT  107 (266)
Q Consensus        33 ~gl~~~a~D~~r~a~v~~~l~~-----~~F~~y~~~~~~~~gi~l~~L~~ilk~~~~~d~l~l~~~~~~~~l~i~~~~~~  107 (266)
                      +|++|.|-.....+-+.+.-..     +.--..++.++++....++.|..+.|.+.-.+.++|.+..+. +|.+.+.-. 
T Consensus       107 d~v~Fs~~GD~G~~~i~l~~~~~~dk~e~~v~ie~~e~v~~~fsl~YL~~f~Ka~~ls~~V~l~l~~~~-Pl~l~y~i~-  184 (200)
T 3pge_A          107 ETIKFVADGDIGSGSVIIKPFVDMEHPETSIKLEMDQPVDLTFGAKYLLDIIKGSSLSDRVGIRLSSEA-PALFQFDLK-  184 (200)
T ss_dssp             CCEEEEEECSSCEEEEEECCBCCSSSCTTCBEEEESSCEEEEEEHHHHHHHGGGGGGCSEEEEEECSSS-CEEEEEEET-
T ss_pred             ceEEEEeeccCCeEEEEEecCCCCCCcccceEEEeCCcceeeEhHHHHHHHhccccCCCeEEEEEcCCC-CEEEEEEEC-
Confidence            7899998665665555543221     234567788899999999999999998887889999997654 677766533 


Q ss_pred             CCeEEEEE
Q 024527          108 QDKIADFE  115 (266)
Q Consensus       108 ~~~~~~~~  115 (266)
                      .|..+.|-
T Consensus       185 ~G~l~f~L  192 (200)
T 3pge_A          185 SGFLQFFL  192 (200)
T ss_dssp             TEEEEEEE
T ss_pred             CEEEEEEE
Confidence            35554443

>1b77_A GP45, protein (sliding clamp); replisome; 2.10A {Enterobacteria phage RB69} SCOP: d.131.1.2 d.131.1.2 PDB: 1b8h_A* 1czd_A* 3u5z_G* 3u60_G* 3u61_G*

Probab=85.68  E-value=13  Score=30.27  Aligned_cols=120  Identities=11%  Similarity=0.166  Sum_probs=81.0

Q ss_pred             ceEEEEECCCCeEEEEEEecCCCcceeeeCCcEEEE-EEhhhHHHHhcccCCCceEEEEEcCCCCeEEEEEeCCCCCeEE
Q 024527           34 GFSLQAMDSSHVALVALLLRSEGFEHYRCDRNISMG-MNLNNVSKMLKCAGNDDIITLKADDGSDTVTFMFESPTQDKIA  112 (266)
Q Consensus        34 gl~~~a~D~~r~a~v~~~l~~~~F~~y~~~~~~~~g-i~l~~L~~ilk~~~~~d~l~l~~~~~~~~l~i~~~~~~~~~~~  112 (266)
                      |=.+...+..+..++.+.++.++      +.+  ++ -+|..+..+|+.++.+-.  +..++++ .+.|  .+.+    +
T Consensus        26 G~~i~T~s~~~~i~AeA~I~d~f------d~e--~~IYDL~~FL~iL~L~~~~ae--i~~~~~~-~I~I--~~~r----s   88 (228)
T 1b77_A           26 GKFIMTRAVNGTTYAEANISDEI------DFD--VALYDLNSFLSILSLVSDDAE--ISMHTDG-NIKI--ADTR----S   88 (228)
T ss_dssp             EEEEEEECTTSSEEEEEEEEEEE------CSC--EEESCHHHHHHHHTTSCTTCE--EEECTTS-SEEE--ECSS----E
T ss_pred             CCEEEEEeCCCcEEEEEEecccC------cce--eeeeeHHHHHHHHhccCCCCe--EEecCCc-eEEE--eCCC----e
Confidence            44555677889999999998443      222  33 478999999998874444  4454333 4444  3331    2


Q ss_pred             EEEEeeeecCCC-----CCCCCcceeeEEEEEehHHHHHHHHHhhccC-CEEEEEEeCCeEEEEEE
Q 024527          113 DFEMKLMDIDSE-----HLGIPEAEYHAIVRMPSAEFARICKDLASIG-DTVVISVTKEGVKFSTR  172 (266)
Q Consensus       113 ~~~l~li~~~~~-----~~~ip~~~~~~~i~~~s~~~~~~i~~~~~~~-d~v~i~~~~~~l~~s~~  172 (266)
                      ....+--|++..     .+.+|.  -++++.+.+.+|+++.|..+.++ +.+.|...++++.+.+.
T Consensus        89 ~~~~~~adp~~I~~P~k~i~~P~--~dv~F~L~~edl~ql~kas~~l~l~dl~~~~~~g~i~i~~~  152 (228)
T 1b77_A           89 TVYWPAADKSTIVFPNKPIQFPV--ASVITEIKAEDLQQLLRVSRGLQIDTIAITNKDGKIVINGY  152 (228)
T ss_dssp             EEEECCBCGGGSCCCSSCCCCCC--CSEEEEECHHHHHHHHHHHHHTTCCEEEEEEETTEEEEEEE
T ss_pred             EEEEEccCcccccCCccccCCCC--CCEEEEECHHHHHHHHHHHHhcCCCeEEEEecCCEEEEEEe
Confidence            444444444331     344553  35889999999999999999998 78999999999998864

---

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	266
d1u7ba2	129	d.131.1.2 (A:127-255) Proliferating cell nuclear a	4e-49
d1plqa1	126	d.131.1.2 (A:1-126) Proliferating cell nuclear ant	3e-48
d1u7ba1	126	d.131.1.2 (A:1-126) Proliferating cell nuclear ant	4e-47
d1plqa2	132	d.131.1.2 (A:127-258) Proliferating cell nuclear a	3e-46
d1rwza2	122	d.131.1.2 (A:123-244) Proliferating cell nuclear a	1e-38
d1rwza1	122	d.131.1.2 (A:1-122) Proliferating cell nuclear ant	2e-37
d1iz5a2	121	d.131.1.2 (A:126-246) Proliferating cell nuclear a	2e-37
d1ud9a2	119	d.131.1.2 (A:127-245) Proliferating cell nuclear a	1e-36
d1iz5a1	119	d.131.1.2 (A:2-120) Proliferating cell nuclear ant	4e-36
d1ud9a1	119	d.131.1.2 (A:1-119) Proliferating cell nuclear ant	4e-34

>d1u7ba2 d.131.1.2 (A:127-255) Proliferating cell nuclear antigen (PCNA) {Human (Homo sapiens) [TaxId: 9606]} Length = 129

class: Alpha and beta proteins (a+b)
fold: DNA clamp
superfamily: DNA clamp
family: DNA polymerase processivity factor
domain: Proliferating cell nuclear antigen (PCNA)
species: Human (Homo sapiens) [TaxId: 9606]

 Score =  156 bits (396), Expect = 4e-49
 Identities = 85/129 (65%), Positives = 108/129 (83%)

Query: 127 GIPEAEYHAIVRMPSAEFARICKDLASIGDTVVISVTKEGVKFSTRGDIGTANIVLRQNT 186
           GIPE EY  +V+MPS EFARIC+DL+ IGD VVIS  K+GVKFS  G++G  NI L Q +
Sbjct: 1   GIPEQEYSCVVKMPSGEFARICRDLSHIGDAVVISCAKDGVKFSASGELGNGNIKLSQTS 60

Query: 187 TVDKPEEATIIEMHEPVSLTFALRYMNSFTRATPLSNTVTISLSSELPVVVEYKIAEMGY 246
            VDK EEA  IEM+EPV LTFALRY+N FT+ATPLS+TVT+S+S+++P+VVEYKIA+MG+
Sbjct: 61  NVDKEEEAVTIEMNEPVQLTFALRYLNFFTKATPLSSTVTLSMSADVPLVVEYKIADMGH 120

Query: 247 IRFYLAPKI 255
           +++YLAPKI
Sbjct: 121 LKYYLAPKI 129

>d1plqa1 d.131.1.2 (A:1-126) Proliferating cell nuclear antigen (PCNA) {Baker's yeast (Saccharomyces cerevisiae) [TaxId: 4932]} Length = 126

class: Alpha and beta proteins (a+b)
fold: DNA clamp
superfamily: DNA clamp
family: DNA polymerase processivity factor
domain: Proliferating cell nuclear antigen (PCNA)
species: Baker's yeast (Saccharomyces cerevisiae) [TaxId: 4932]

 Score =  154 bits (390), Expect = 3e-48
 Identities = 52/126 (41%), Positives = 83/126 (65%)

Query: 1   MLELRLVQGSLLKKVLEAIKELVNDANFDCSATGFSLQAMDSSHVALVALLLRSEGFEHY 60
           MLE +  + SL K++++  K+ V   NF C   G   QA+D S V LV+L +  E F+ Y
Sbjct: 1   MLEAKFEEASLFKRIIDGFKDCVQLVNFQCKEDGIIAQAVDDSRVLLVSLEIGVEAFQEY 60

Query: 61  RCDRNISMGMNLNNVSKMLKCAGNDDIITLKADDGSDTVTFMFESPTQDKIADFEMKLMD 120
           RCD  +++GM+L ++SK+L+C  N D +TL AD+  D++  +FE   +D+IA++ +KLMD
Sbjct: 61  RCDHPVTLGMDLTSLSKILRCGNNTDTLTLIADNTPDSIILLFEDTKKDRIAEYSLKLMD 120

Query: 121 IDSEHL 126
           ID++ L
Sbjct: 121 IDADFL 126

>d1u7ba1 d.131.1.2 (A:1-126) Proliferating cell nuclear antigen (PCNA) {Human (Homo sapiens) [TaxId: 9606]} Length = 126

class: Alpha and beta proteins (a+b)
fold: DNA clamp
superfamily: DNA clamp
family: DNA polymerase processivity factor
domain: Proliferating cell nuclear antigen (PCNA)
species: Human (Homo sapiens) [TaxId: 9606]

 Score =  151 bits (383), Expect = 4e-47
 Identities = 81/126 (64%), Positives = 111/126 (88%)

Query: 1   MLELRLVQGSLLKKVLEAIKELVNDANFDCSATGFSLQAMDSSHVALVALLLRSEGFEHY 60
           M E RLVQGS+LKKVLEA+K+L+N+A +D S++G +LQ+MDSSHV+LV L LRSEGF+ Y
Sbjct: 1   MFEARLVQGSILKKVLEALKDLINEACWDISSSGVNLQSMDSSHVSLVQLTLRSEGFDTY 60

Query: 61  RCDRNISMGMNLNNVSKMLKCAGNDDIITLKADDGSDTVTFMFESPTQDKIADFEMKLMD 120
           RCDRN++MG+NL ++SK+LKCAGN+DIITL+A+D +DT+  +FE+P Q+K++D+EMKLMD
Sbjct: 61  RCDRNLAMGVNLTSMSKILKCAGNEDIITLRAEDNADTLALVFEAPNQEKVSDYEMKLMD 120

Query: 121 IDSEHL 126
           +D E L
Sbjct: 121 LDVEQL 126

>d1plqa2 d.131.1.2 (A:127-258) Proliferating cell nuclear antigen (PCNA) {Baker's yeast (Saccharomyces cerevisiae) [TaxId: 4932]} Length = 132

class: Alpha and beta proteins (a+b)
fold: DNA clamp
superfamily: DNA clamp
family: DNA polymerase processivity factor
domain: Proliferating cell nuclear antigen (PCNA)
species: Baker's yeast (Saccharomyces cerevisiae) [TaxId: 4932]

 Score =  149 bits (377), Expect = 3e-46
 Identities = 47/132 (35%), Positives = 87/132 (65%), Gaps = 1/132 (0%)

Query: 128 IPEAEYHAIVRMPSAEFARICKDLASIGDTVVISVTKEGVKFSTRGDIGTANIVLRQNTT 187
           I E +Y + + +PS+EF++I +DL+ + D++ I +TKE +KF   GDIG+ +++++    
Sbjct: 2   IEELQYDSTLSLPSSEFSKIVRDLSQLSDSINIMITKETIKFVADGDIGSGSVIIKPFVD 61

Query: 188 VDKPEEATIIEMHEPVSLTFALRYMNSFTRATPLSNTVTISLSSELPVVVEYKIAEMGYI 247
           ++ PE +  +EM +PV LTF  +Y+    + + LS+ V I LSSE P + ++ +   G++
Sbjct: 62  MEHPETSIKLEMDQPVDLTFGAKYLLDIIKGSSLSDRVGIRLSSEAPALFQFDLKS-GFL 120

Query: 248 RFYLAPKIEEDE 259
           +F+LAPK  ++E
Sbjct: 121 QFFLAPKFNDEE 132

>d1rwza2 d.131.1.2 (A:123-244) Proliferating cell nuclear antigen (PCNA) {Archaeon Archaeoglobus fulgidus [TaxId: 2234]} Length = 122

class: Alpha and beta proteins (a+b)
fold: DNA clamp
superfamily: DNA clamp
family: DNA polymerase processivity factor
domain: Proliferating cell nuclear antigen (PCNA)
species: Archaeon Archaeoglobus fulgidus [TaxId: 2234]

 Score =  129 bits (325), Expect = 1e-38
 Identities = 28/129 (21%), Positives = 54/129 (41%), Gaps = 9/129 (6%)

Query: 129 PEAEYHAIVRMPSAEFARICKDLASIGDTVVISVTKEGVKFSTRGDIGTANIVLRQNTTV 188
           PE E  A + M + EF +       I D V+    KEG +   +GD+ +    + +   +
Sbjct: 1   PELELPAKIVMDAGEFKKAIAAADKISDQVIFRSDKEGFRIEAKGDVDSIVFHMTETELI 60

Query: 189 DKPEEATIIEMHEPVSLTFALRYMNSFTRATPLSNTVTISLSSELPVVVEYKIAE-MGYI 247
           +                 F++ Y+  F +     + +TI L +  PV + +++      +
Sbjct: 61  EFNG--------GEARSMFSVDYLKEFCKVAGSGDLLTIHLGTNYPVRLVFELVGGRAKV 112

Query: 248 RFYLAPKIE 256
            + LAP+IE
Sbjct: 113 EYILAPRIE 121

>d1rwza1 d.131.1.2 (A:1-122) Proliferating cell nuclear antigen (PCNA) {Archaeon Archaeoglobus fulgidus [TaxId: 2234]} Length = 122

class: Alpha and beta proteins (a+b)
fold: DNA clamp
superfamily: DNA clamp
family: DNA polymerase processivity factor
domain: Proliferating cell nuclear antigen (PCNA)
species: Archaeon Archaeoglobus fulgidus [TaxId: 2234]

 Score =  126 bits (318), Expect = 2e-37
 Identities = 31/124 (25%), Positives = 64/124 (51%), Gaps = 8/124 (6%)

Query: 1   MLELRLVQGSLLKKVLEAIKELVNDANFDCSATGFSLQAMDSSHVALVALLLRSEGFEHY 60
           M+++ ++ G LLK V  AI  LV++A       G   +A+D ++VA+V + +  + FE Y
Sbjct: 1   MIDV-IMTGELLKTVTRAIVALVSEARIHFLEKGLHSRAVDPANVAMVIVDIPKDSFEVY 59

Query: 61  RCDRNISMGMNLNNVSKMLKCAGNDDIITLKADDGSDTVTFMFESPTQDKIADFEMKLMD 120
             D   ++G++++ +  + K     D++ L  +D   T+   F S       ++++ L+D
Sbjct: 60  NIDEEKTIGVDMDRIFDISKSISTKDLVELIVEDE-STLKVKFGS------VEYKVALID 112

Query: 121 IDSE 124
             + 
Sbjct: 113 PSAI 116

>d1iz5a2 d.131.1.2 (A:126-246) Proliferating cell nuclear antigen (PCNA) {Archaeon Pyrococcus furiosus [TaxId: 2261]} Length = 121

class: Alpha and beta proteins (a+b)
fold: DNA clamp
superfamily: DNA clamp
family: DNA polymerase processivity factor
domain: Proliferating cell nuclear antigen (PCNA)
species: Archaeon Pyrococcus furiosus [TaxId: 2261]

 Score =  126 bits (317), Expect = 2e-37
 Identities = 26/126 (20%), Positives = 49/126 (38%), Gaps = 5/126 (3%)

Query: 129 PEAEYHAIVRMPSAEFARICKDLASIGDTVVISVTKEGVKFSTRGDIGTANIVLRQNTTV 188
           PE  + A V +         K  + + D++     +        G+     I L      
Sbjct: 1   PELPFTAKVVVLGEVLKAAVKAASLVSDSIKFIARENEFIMKAEGETQEVEIKLTLEDE- 59

Query: 189 DKPEEATIIEMHEPVSLTFALRYMNSFTRATPLSNTVTISLSSELPVVVEYKIAEMGYIR 248
                   IE+ E     + + Y++   +    ++ VTI   +E+P+ +EY I + G + 
Sbjct: 60  ----GLLDIEVQEETKSAYGVSYLSDMVKGLGKADEVTIKFGNEMPMQMEYYIRDEGRLT 115

Query: 249 FYLAPK 254
           F LAP+
Sbjct: 116 FLLAPR 121

>d1ud9a2 d.131.1.2 (A:127-245) Proliferating cell nuclear antigen (PCNA) {Archaeon Sulfolobus tokodaii [TaxId: 111955]} Length = 119

class: Alpha and beta proteins (a+b)
fold: DNA clamp
superfamily: DNA clamp
family: DNA polymerase processivity factor
domain: Proliferating cell nuclear antigen (PCNA)
species: Archaeon Sulfolobus tokodaii [TaxId: 111955]

 Score =  123 bits (311), Expect = 1e-36
 Identities = 25/124 (20%), Positives = 54/124 (43%), Gaps = 6/124 (4%)

Query: 132 EYHAIVRMPSAEFARICKDLASIGDTVVISVTKEGVKFSTRGDIGTANIVLRQNTTVDKP 191
           E+     + ++       ++A + DT++IS  +E V     G+        +        
Sbjct: 1   EFDIKATINASGLKNAIGEIAEVADTLLISGNEEKVVVKGEGENKVEVEFSKDT------ 54

Query: 192 EEATIIEMHEPVSLTFALRYMNSFTRATPLSNTVTISLSSELPVVVEYKIAEMGYIRFYL 251
                IE ++  S  + + Y+N     T LS+ V ++ + + P+ +E+ +   G + + L
Sbjct: 55  GSLADIEFNKESSSAYDVEYLNDIISLTKLSDYVKVAFADQKPMQLEFNMEGGGKVTYLL 114

Query: 252 APKI 255
           APK+
Sbjct: 115 APKL 118

>d1iz5a1 d.131.1.2 (A:2-120) Proliferating cell nuclear antigen (PCNA) {Archaeon Pyrococcus furiosus [TaxId: 2261]} Length = 119

class: Alpha and beta proteins (a+b)
fold: DNA clamp
superfamily: DNA clamp
family: DNA polymerase processivity factor
domain: Proliferating cell nuclear antigen (PCNA)
species: Archaeon Pyrococcus furiosus [TaxId: 2261]

 Score =  122 bits (308), Expect = 4e-36
 Identities = 29/121 (23%), Positives = 58/121 (47%), Gaps = 4/121 (3%)

Query: 2   LELRLVQGSLLKKVLEAIKELVNDANFDCSATGFSLQAMDSSHVALVALLLRSEGFEHYR 61
            E+         ++++   +L+++A F  +  G S++AMD S V L+ L L S  F  Y 
Sbjct: 2   FEIVFEGAKEFAQLIDTASKLIDEAAFKVTEDGISMRAMDPSRVVLIDLNLPSSIFSKYE 61

Query: 62  CDRNISMGMNLNNVSKMLKCAGNDDIITLKADDGSDTVTFMFESPTQDKIADFEMKLMDI 121
                ++G+NL+++ K+LK     D + LK  +  + +    +         F + L+D+
Sbjct: 62  VVEPETIGVNLDHLKKILKRGKAKDTLILKKGEE-NFLEITIQG---TATRTFRVPLIDV 117

Query: 122 D 122
           +
Sbjct: 118 E 118

>d1ud9a1 d.131.1.2 (A:1-119) Proliferating cell nuclear antigen (PCNA) {Archaeon Sulfolobus tokodaii [TaxId: 111955]} Length = 119

class: Alpha and beta proteins (a+b)
fold: DNA clamp
superfamily: DNA clamp
family: DNA polymerase processivity factor
domain: Proliferating cell nuclear antigen (PCNA)
species: Archaeon Sulfolobus tokodaii [TaxId: 111955]

 Score =  117 bits (295), Expect = 4e-34
 Identities = 30/115 (26%), Positives = 53/115 (46%), Gaps = 4/115 (3%)

Query: 8   QGSLLKKVLEAIKELVNDANFDCSATGFSLQAMDSSHVALVALLLRSEGFEHYRCDRNIS 67
               LK +++A+ +LV++A FD    G  L A+D +H++L+ + L  E F+ Y       
Sbjct: 7   DVRDLKAIIQALLKLVDEALFDIKPEGIQLVAIDKAHISLIKIELPKEMFKEYDVPEEFK 66

Query: 68  MGMNLNNVSKMLKCAGNDDIITLKADDGSDTVTFMFESPTQDKIADFEMKLMDID 122
            G N   +SK+LK A   + I + AD   + V              F +  +++ 
Sbjct: 67  FGFNTQYMSKLLKAAKRKEEIIIDADSP-EVVKLTLSGALNRV---FNVNNIEVL 117

Homologous Domains Detected by HHsearch

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

ID	Length	Definition	Probability
Query	266
d1u7ba1	126	Proliferating cell nuclear antigen (PCNA) {Human (	99.97
d1plqa1	126	Proliferating cell nuclear antigen (PCNA) {Baker's	99.97
d1plqa2	132	Proliferating cell nuclear antigen (PCNA) {Baker's	99.96
d1u7ba2	129	Proliferating cell nuclear antigen (PCNA) {Human (	99.95
d1iz5a2	121	Proliferating cell nuclear antigen (PCNA) {Archaeo	99.95
d1rwza1	122	Proliferating cell nuclear antigen (PCNA) {Archaeo	99.95
d1rwza2	122	Proliferating cell nuclear antigen (PCNA) {Archaeo	99.94
d1iz5a1	119	Proliferating cell nuclear antigen (PCNA) {Archaeo	99.94
d1ud9a1	119	Proliferating cell nuclear antigen (PCNA) {Archaeo	99.93
d1ud9a2	119	Proliferating cell nuclear antigen (PCNA) {Archaeo	99.93
d1vpka3	123	DNA polymerase III, beta subunit {Thermotoga marit	99.55
d1ok7a3	122	DNA polymerase III, beta subunit {Escherichia coli	99.54
d1vpka2	123	DNA polymerase III, beta subunit {Thermotoga marit	99.15
d1ok7a2	122	DNA polymerase III, beta subunit {Escherichia coli	99.11
d1iz5a2	121	Proliferating cell nuclear antigen (PCNA) {Archaeo	98.38
d1ud9a2	119	Proliferating cell nuclear antigen (PCNA) {Archaeo	98.17
d1vpka1	120	DNA polymerase III, beta subunit {Thermotoga marit	98.11
d1rwza1	122	Proliferating cell nuclear antigen (PCNA) {Archaeo	98.09
d1ok7a1	122	DNA polymerase III, beta subunit {Escherichia coli	97.95
d1u7ba1	126	Proliferating cell nuclear antigen (PCNA) {Human (	97.85
d1rwza2	122	Proliferating cell nuclear antigen (PCNA) {Archaeo	97.67
d1u7ba2	129	Proliferating cell nuclear antigen (PCNA) {Human (	97.66
d1iz5a1	119	Proliferating cell nuclear antigen (PCNA) {Archaeo	97.65
d1plqa1	126	Proliferating cell nuclear antigen (PCNA) {Baker's	97.63
d1plqa2	132	Proliferating cell nuclear antigen (PCNA) {Baker's	97.52
d1ud9a1	119	Proliferating cell nuclear antigen (PCNA) {Archaeo	97.44
d1vpka1	120	DNA polymerase III, beta subunit {Thermotoga marit	96.71
d1ok7a1	122	DNA polymerase III, beta subunit {Escherichia coli	96.46
d1ok7a3	122	DNA polymerase III, beta subunit {Escherichia coli	96.38
d1vpka3	123	DNA polymerase III, beta subunit {Thermotoga marit	96.01
d1dmla1	141	UL42 {Human herpesvirus type 1 [TaxId: 10298]}	89.65
d1vpka2	123	DNA polymerase III, beta subunit {Thermotoga marit	89.42
d1ok7a2	122	DNA polymerase III, beta subunit {Escherichia coli	87.52

>d1u7ba1 d.131.1.2 (A:1-126) Proliferating cell nuclear antigen (PCNA) {Human (Homo sapiens) [TaxId: 9606]}

class: Alpha and beta proteins (a+b)
fold: DNA clamp
superfamily: DNA clamp
family: DNA polymerase processivity factor
domain: Proliferating cell nuclear antigen (PCNA)
species: Human (Homo sapiens) [TaxId: 9606]

Probab=99.97  E-value=2.4e-29  Score=191.63  Aligned_cols=125  Identities=64%  Similarity=1.077  Sum_probs=120.8

Q ss_pred             CeeEEEcChhhHHHHHHHHHhhhceeeEEEeCCceEEEEECCCCeEEEEEEecCCCcceeeeCCcEEEEEEhhhHHHHhc
Q 024527            1 MLELRLVQGSLLKKVLEAIKELVNDANFDCSATGFSLQAMDSSHVALVALLLRSEGFEHYRCDRNISMGMNLNNVSKMLK   80 (266)
Q Consensus         1 mf~a~~~~~~~~k~i~~~l~~l~~~~~~~~~~~gl~~~a~D~~r~a~v~~~l~~~~F~~y~~~~~~~~gi~l~~L~~ilk   80 (266)
                      ||+|++.+|+.||++++++++++++++|.++++||++++||++|++++++.|+++.|++|+|+++..+||+++.|.|+||
T Consensus         1 Mf~~~~~~a~~fk~i~~~lk~l~~e~~~~~~~~Gi~iq~mD~shv~Lv~l~L~~~~F~~Y~~~~~~~iGv~~~~l~kIlk   80 (126)
T d1u7ba1           1 MFEARLVQGSILKKVLEALKDLINEACWDISSSGVNLQSMDSSHVSLVQLTLRSEGFDTYRCDRNLAMGVNLTSMSKILK   80 (126)
T ss_dssp             CEEEEESCTHHHHHHHHHHHTTCSEEEEEEETTEEEEEEECTTSSEEEEEEEEGGGSSEEEESSCEEEEEEHHHHHHHHT
T ss_pred             CeEEEEccHHHHHHHHHHHHHHhceEEEEEcCCeEEEEEECCCcEEEEEEEECHHHCceeEEcCCEEEEEEHHHHHHHHh
Confidence            99999999999999999999999999999999999999999999999999999999999999999999999999999999


Q ss_pred             ccCCCceEEEEEcCCCCeEEEEEeCCCCCeEEEEEEeeeecCCCC
Q 024527           81 CAGNDDIITLKADDGSDTVTFMFESPTQDKIADFEMKLMDIDSEH  125 (266)
Q Consensus        81 ~~~~~d~l~l~~~~~~~~l~i~~~~~~~~~~~~~~l~li~~~~~~  125 (266)
                      ++++++.+.|+++++++.+.|.+++.+.++.+.|.++|+|.+.+.
T Consensus        81 ~~~~~d~l~l~~~~~~d~l~i~~~~~~~~~~~~f~l~Lidid~e~  125 (126)
T d1u7ba1          81 CAGNEDIITLRAEDNADTLALVFEAPNQEKVSDYEMKLMDLDVEQ  125 (126)
T ss_dssp             TSCTTCEEEEEECTTCSEEEEEEECTTSSCEEEEEEECCCCCCCC
T ss_pred             hcCCCCEEEEEEeCCCCEEEEEEEcCCCCEEEEEEEEccccCccc
Confidence            999999999999888889999999988788899999999998764

>d1plqa1 d.131.1.2 (A:1-126) Proliferating cell nuclear antigen (PCNA) {Baker's yeast (Saccharomyces cerevisiae) [TaxId: 4932]}

class: Alpha and beta proteins (a+b)
fold: DNA clamp
superfamily: DNA clamp
family: DNA polymerase processivity factor
domain: Proliferating cell nuclear antigen (PCNA)
species: Baker's yeast (Saccharomyces cerevisiae) [TaxId: 4932]

Probab=99.97  E-value=2.4e-29  Score=191.72  Aligned_cols=125  Identities=41%  Similarity=0.798  Sum_probs=120.4

Q ss_pred             CeeEEEcChhhHHHHHHHHHhhhceeeEEEeCCceEEEEECCCCeEEEEEEecCCCcceeeeCCcEEEEEEhhhHHHHhc
Q 024527            1 MLELRLVQGSLLKKVLEAIKELVNDANFDCSATGFSLQAMDSSHVALVALLLRSEGFEHYRCDRNISMGMNLNNVSKMLK   80 (266)
Q Consensus         1 mf~a~~~~~~~~k~i~~~l~~l~~~~~~~~~~~gl~~~a~D~~r~a~v~~~l~~~~F~~y~~~~~~~~gi~l~~L~~ilk   80 (266)
                      ||+|++.+|+.||++++++++++++++|+++++||++++||++|++++++.|+++.|++|+|+++..+||+++.|.|+||
T Consensus         1 Mfe~~~~~a~~fk~i~~~lk~l~~~~~~~~~~~Gi~iq~mD~shv~lv~l~L~~~~F~~Y~~~~~~~iGi~~~~l~kIlk   80 (126)
T d1plqa1           1 MLEAKFEEASLFKRIIDGFKDCVQLVNFQCKEDGIIAQAVDDSRVLLVSLEIGVEAFQEYRCDHPVTLGMDLTSLSKILR   80 (126)
T ss_dssp             CEEEEESSHHHHHHHHHHHTTTCSEEEEEEETTEEEEEEECTTSSEEEEEEEEGGGSSEECCSSCEEEEEEHHHHHHHTT
T ss_pred             CeEEEEcchHHHHHHHHHHHHHhceEEEEECCCeEEEEEeCCCcEEEEEEEECHHHCceeeeccCEEEEEEHHHHHHHHh
Confidence            99999999999999999999999999999999999999999999999999999999999999999999999999999999


Q ss_pred             ccCCCceEEEEEcCCCCeEEEEEeCCCCCeEEEEEEeeeecCCCC
Q 024527           81 CAGNDDIITLKADDGSDTVTFMFESPTQDKIADFEMKLMDIDSEH  125 (266)
Q Consensus        81 ~~~~~d~l~l~~~~~~~~l~i~~~~~~~~~~~~~~l~li~~~~~~  125 (266)
                      +++++|.+.|+++++++.+.+.+++...++.+.|.+||+|.+.+.
T Consensus        81 ~~~~~d~l~l~~~~~~~~l~i~~~~~~~~~~~~f~l~Lidid~e~  125 (126)
T d1plqa1          81 CGNNTDTLTLIADNTPDSIILLFEDTKKDRIAEYSLKLMDIDADF  125 (126)
T ss_dssp             CSTTTSEEEEEECSSCSEEEEEEECSSSSCEEEEEEECBCCCCCC
T ss_pred             hcCCCCEEEEEEeCCCCEEEEEEEcCCCCEEEEEEEeeeccCccc
Confidence            999999999999888889999999888788889999999998764

>d1plqa2 d.131.1.2 (A:127-258) Proliferating cell nuclear antigen (PCNA) {Baker's yeast (Saccharomyces cerevisiae) [TaxId: 4932]}

class: Alpha and beta proteins (a+b)
fold: DNA clamp
superfamily: DNA clamp
family: DNA polymerase processivity factor
domain: Proliferating cell nuclear antigen (PCNA)
species: Baker's yeast (Saccharomyces cerevisiae) [TaxId: 4932]

Probab=99.96  E-value=1.1e-28  Score=189.83  Aligned_cols=132  Identities=36%  Similarity=0.758  Sum_probs=119.3

Q ss_pred             CCCcceeeEEEEEehHHHHHHHHHhhccCCEEEEEEeCCeEEEEEEecceeEEEEEeecccCCCCCCceEEEecCcEEEE
Q 024527          127 GIPEAEYHAIVRMPSAEFARICKDLASIGDTVVISVTKEGVKFSTRGDIGTANIVLRQNTTVDKPEEATIIEMHEPVSLT  206 (266)
Q Consensus       127 ~ip~~~~~~~i~~~s~~~~~~i~~~~~~~d~v~i~~~~~~l~~s~~gd~g~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~  206 (266)
                      .+|+.+|++.++|+|+.|+++|++++.+||.|+|.++++++.|+++||.|++.+.++.....+.....+.++.+++++..
T Consensus         1 eIP~~ey~~~i~m~S~~f~~~~kdl~~~gd~i~i~~~~~~i~f~~~gd~g~~~i~i~~~~~~~~~~~~~~~~~~~~~~~~   80 (132)
T d1plqa2           1 KIEELQYDSTLSLPSSEFSKIVRDLSQLSDSINIMITKETIKFVADGDIGSGSVIIKPFVDMEHPETSIKLEMDQPVDLT   80 (132)
T ss_dssp             CCCCSCCSEEEEEEHHHHHHHHHHHHTTCSEEEEEEETTEEEEEEECSSCEEEEEECCBCCTTCGGGCBEEEESSCEEEE
T ss_pred             CCCCccccEEEEEEHHHHHHHHHHHHhcCCeEEEEEcCCeEEEEEEcccceEEEEEeccCCccccccceeeecccceeeE
Confidence            47999999999999999999999999999999999999999999999999999999654333333334457778999999


Q ss_pred             EehHHHHhccccCCCCceEEEEecCCCcEEEEEEeCCcEEEEEEEcccCCCCc
Q 024527          207 FALRYMNSFTRATPLSNTVTISLSSELPVVVEYKIAEMGYIRFYLAPKIEEDE  259 (266)
Q Consensus       207 f~~~yL~~~~k~~~ls~~v~l~~~~~~Pl~l~~~i~~~g~~~~~iaPr~~~~~  259 (266)
                      |+++||..++|+.+++++|.|+|++++||+++|.+++ |+++||||||+++||
T Consensus        81 ysl~yL~~~~K~~~ls~~V~i~~~~~~Pl~~~y~i~~-g~l~fyLAPkieddd  132 (132)
T d1plqa2          81 FGAKYLLDIIKGSSLSDRVGIRLSSEAPALFQFDLKS-GFLQFFLAPKFNDEE  132 (132)
T ss_dssp             EEHHHHHHHGGGGGTCSEEEEEECSSSCEEEEEEETT-EEEEEEECCCSSSCC
T ss_pred             EEHHHHHHHhCcccCCCEEEEEEeCCCCEEEEEEeCC-EEEEEEECccCCCCC
Confidence            9999999999999999999999999999999999976 999999999998875

>d1u7ba2 d.131.1.2 (A:127-255) Proliferating cell nuclear antigen (PCNA) {Human (Homo sapiens) [TaxId: 9606]}

class: Alpha and beta proteins (a+b)
fold: DNA clamp
superfamily: DNA clamp
family: DNA polymerase processivity factor
domain: Proliferating cell nuclear antigen (PCNA)
species: Human (Homo sapiens) [TaxId: 9606]

Probab=99.95  E-value=4.6e-27  Score=179.85  Aligned_cols=128  Identities=66%  Similarity=1.084  Sum_probs=115.7

Q ss_pred             CCcceeeEEEEEehHHHHHHHHHhhccCCEEEEEEeCCeEEEEEEecceeEEEEEeecccCCCCCCceEEEecCcEEEEE
Q 024527          128 IPEAEYHAIVRMPSAEFARICKDLASIGDTVVISVTKEGVKFSTRGDIGTANIVLRQNTTVDKPEEATIIEMHEPVSLTF  207 (266)
Q Consensus       128 ip~~~~~~~i~~~s~~~~~~i~~~~~~~d~v~i~~~~~~l~~s~~gd~g~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~f  207 (266)
                      +|+.+|++.+.|+|++|+++|+++..+||.|+|.++++.+.|+++||.|+.+..+......+...+...++.+++++..|
T Consensus         2 IP~~ey~~~i~~~s~~f~~~~kdl~~~gd~v~i~~~~~~i~~~~~gd~g~~~~~i~~~~~~~~~~~~~~i~~~~~~~~~f   81 (129)
T d1u7ba2           2 IPEQEYSCVVKMPSGEFARICRDLSHIGDAVVISCAKDGVKFSASGELGNGNIKLSQTSNVDKEEEAVTIEMNEPVQLTF   81 (129)
T ss_dssp             CCCCCCSEEEEEEHHHHHHHHHHHHTTCSEEEEEEETTEEEEEEEETTEEEEEEECCCC----CCSCCEEEESSCEEEEE
T ss_pred             CCCCCCcEEEEEEHHHHHHHHHHHHHhCchheEEecCCeEEEEEecccceEEEEEeccccccCccceeEeecCccceeEE
Confidence            78899999999999999999999999999999999999999999999999999996543333333445577789999999


Q ss_pred             ehHHHHhccccCCCCceEEEEecCCCcEEEEEEeCCcEEEEEEEcccC
Q 024527          208 ALRYMNSFTRATPLSNTVTISLSSELPVVVEYKIAEMGYIRFYLAPKI  255 (266)
Q Consensus       208 ~~~yL~~~~k~~~ls~~v~l~~~~~~Pl~l~~~i~~~g~~~~~iaPr~  255 (266)
                      +++||..++|+.+++++|.|++++++||+++|.+++.|+++||||||+
T Consensus        82 sl~YL~~~~K~~~ls~~v~i~~~~~~Pl~i~y~~~~~g~l~fyLAPki  129 (129)
T d1u7ba2          82 ALRYLNFFTKATPLSSTVTLSMSADVPLVVEYKIADMGHLKYYLAPKI  129 (129)
T ss_dssp             EHHHHHHHGGGGGGCSEEEEEECTTSCEEEEEEETTTEEEEEEECCBC
T ss_pred             EHHHHHHHhchhcCCCeEEEEEcCCCCEEEEEEeCCCcEEEEEEcccC
Confidence            999999999999999999999999999999999999999999999996

>d1iz5a2 d.131.1.2 (A:126-246) Proliferating cell nuclear antigen (PCNA) {Archaeon Pyrococcus furiosus [TaxId: 2261]}

class: Alpha and beta proteins (a+b)
fold: DNA clamp
superfamily: DNA clamp
family: DNA polymerase processivity factor
domain: Proliferating cell nuclear antigen (PCNA)
species: Archaeon Pyrococcus furiosus [TaxId: 2261]

Probab=99.95  E-value=4.9e-27  Score=177.74  Aligned_cols=121  Identities=22%  Similarity=0.400  Sum_probs=112.7

Q ss_pred             CcceeeEEEEEehHHHHHHHHHhhccCCEEEEEEeCCeEEEEEEecceeEEEEEeecccCCCCCCceEEEecCcEEEEEe
Q 024527          129 PEAEYHAIVRMPSAEFARICKDLASIGDTVVISVTKEGVKFSTRGDIGTANIVLRQNTTVDKPEEATIIEMHEPVSLTFA  208 (266)
Q Consensus       129 p~~~~~~~i~~~s~~~~~~i~~~~~~~d~v~i~~~~~~l~~s~~gd~g~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~f~  208 (266)
                      |+.+|++++.|+|+.|+++|++++.+||.|+|.++++++.|+++||.|++++.++.     .......++++++++.+|+
T Consensus         1 P~~~~~~~i~~~s~~f~~ii~~l~~~~d~i~i~~~~~~i~f~~~gd~g~~~v~~~~-----~~~~~~~~~~~~~~~~~ys   75 (121)
T d1iz5a2           1 PELPFTAKVVVLGEVLKAAVKAASLVSDSIKFIARENEFIMKAEGETQEVEIKLTL-----EDEGLLDIEVQEETKSAYG   75 (121)
T ss_dssp             CCCCCCEEEEEEHHHHHHHHHHHTTTCSEEEEEEETTEEEEEEECSSCEEEEEEET-----TTTSSSEEEESSCEEEEEE
T ss_pred             CCCCceEEEEEEHHHHHHHHHHHHhcCCeEEEEEcCCEEEEEEEccCcEEEEEEcC-----CCCccEEEEcCCceEEEEE
Confidence            78899999999999999999999999999999999999999999999999999953     2223345788999999999


Q ss_pred             hHHHHhccccCCCCceEEEEecCCCcEEEEEEeCCcEEEEEEEccc
Q 024527          209 LRYMNSFTRATPLSNTVTISLSSELPVVVEYKIAEMGYIRFYLAPK  254 (266)
Q Consensus       209 ~~yL~~~~k~~~ls~~v~l~~~~~~Pl~l~~~i~~~g~~~~~iaPr  254 (266)
                      ++||..++|+.+++++|+|++++++||+++|.++++|+++||||||
T Consensus        76 l~yL~~~~K~~~ls~~V~i~~~~~~Pl~l~y~~~~~g~i~f~LAPr  121 (121)
T d1iz5a2          76 VSYLSDMVKGLGKADEVTIKFGNEMPMQMEYYIRDEGRLTFLLAPR  121 (121)
T ss_dssp             HHHHHHHHTTSCTTCEEEEEECTTCCEEEEEEETTTEEEEEEECCC
T ss_pred             HHHHHHHhhhccCCCEEEEEEcCCCCEEEEEEeCCCcEEEEEEccC
Confidence            9999999999999999999999999999999999999999999998

>d1rwza1 d.131.1.2 (A:1-122) Proliferating cell nuclear antigen (PCNA) {Archaeon Archaeoglobus fulgidus [TaxId: 2234]}

class: Alpha and beta proteins (a+b)
fold: DNA clamp
superfamily: DNA clamp
family: DNA polymerase processivity factor
domain: Proliferating cell nuclear antigen (PCNA)
species: Archaeon Archaeoglobus fulgidus [TaxId: 2234]

Probab=99.95  E-value=1.1e-26  Score=175.69  Aligned_cols=121  Identities=26%  Similarity=0.494  Sum_probs=111.8

Q ss_pred             CeeEEEcChhhHHHHHHHHHhhhceeeEEEeCCceEEEEECCCCeEEEEEEecCCCcceeeeCCcEEEEEEhhhHHHHhc
Q 024527            1 MLELRLVQGSLLKKVLEAIKELVNDANFDCSATGFSLQAMDSSHVALVALLLRSEGFEHYRCDRNISMGMNLNNVSKMLK   80 (266)
Q Consensus         1 mf~a~~~~~~~~k~i~~~l~~l~~~~~~~~~~~gl~~~a~D~~r~a~v~~~l~~~~F~~y~~~~~~~~gi~l~~L~~ilk   80 (266)
                      ||++.+ +|+.||++++++++++++++|+++++||+++|||++|++++++.|+++.|++|+|+++..+||+++.|.++||
T Consensus         1 M~~~~~-~a~~~k~i~~~l~~l~~e~~~~~~~~Gi~iq~mD~s~v~Lv~l~L~~~~F~~Y~~~~~~~iGv~~~~l~kilk   79 (122)
T d1rwza1           1 MIDVIM-TGELLKTVTRAIVALVSEARIHFLEKGLHSRAVDPANVAMVIVDIPKDSFEVYNIDEEKTIGVDMDRIFDISK   79 (122)
T ss_dssp             CEEEEE-EHHHHHHHHHHHHTTCSEEEEEEETTEEEEEEECTTSSEEEEEEEEGGGSSEEEESSCEEEEEEHHHHHHHHT
T ss_pred             CeeEEe-cHHHHHHHHHHHHHHhceEEEEEccCeEEEEEeCCCcEEEEEEEECcccCeEEecCCCEEEEEEHHHHHHHHh
Confidence            899955 6999999999999999999999999999999999999999999999999999999999999999999999999


Q ss_pred             ccCCCceEEEEEcCCCCeEEEEEeCCCCCeEEEEEEeeeecCCCCCCCCc
Q 024527           81 CAGNDDIITLKADDGSDTVTFMFESPTQDKIADFEMKLMDIDSEHLGIPE  130 (266)
Q Consensus        81 ~~~~~d~l~l~~~~~~~~l~i~~~~~~~~~~~~~~l~li~~~~~~~~ip~  130 (266)
                      +++++|.+.|++++ ++.|.+.+++.      .|.++++|++.+.. .|+
T Consensus        80 ~~~~~d~l~l~~~~-~~~l~i~~~~~------~f~l~LlD~~s~~~-eP~  121 (122)
T d1rwza1          80 SISTKDLVELIVED-ESTLKVKFGSV------EYKVALIDPSAIRK-EPR  121 (122)
T ss_dssp             TSCTTSEEEEEESS-SSEEEEEETTE------EEEEECBCGGGSCC-CCC
T ss_pred             hCCCCCEEEEEEcC-CCEEEEEEecc------EEEEeCcccccccC-CCC
Confidence            99999999999975 46899999765      89999999987643 364

>d1rwza2 d.131.1.2 (A:123-244) Proliferating cell nuclear antigen (PCNA) {Archaeon Archaeoglobus fulgidus [TaxId: 2234]}

class: Alpha and beta proteins (a+b)
fold: DNA clamp
superfamily: DNA clamp
family: DNA polymerase processivity factor
domain: Proliferating cell nuclear antigen (PCNA)
species: Archaeon Archaeoglobus fulgidus [TaxId: 2234]

Probab=99.94  E-value=2.3e-26  Score=174.23  Aligned_cols=121  Identities=24%  Similarity=0.458  Sum_probs=108.7

Q ss_pred             CcceeeEEEEEehHHHHHHHHHhhccCCEEEEEEeCCeEEEEEEecceeEEEEEeecccCCCCCCceEEEecCcEEEEEe
Q 024527          129 PEAEYHAIVRMPSAEFARICKDLASIGDTVVISVTKEGVKFSTRGDIGTANIVLRQNTTVDKPEEATIIEMHEPVSLTFA  208 (266)
Q Consensus       129 p~~~~~~~i~~~s~~~~~~i~~~~~~~d~v~i~~~~~~l~~s~~gd~g~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~f~  208 (266)
                      |+.+|++++.|+|+.|+++|++++.+||.|+|.++++.+.|+++||.|++.+.+..       ++...+. .++++..|+
T Consensus         1 P~~e~~~~i~m~s~~f~~~~~dl~~~~d~v~i~~~~~~i~f~~~gd~g~~~~~~~~-------~~~~~~~-~~~~~~~fs   72 (122)
T d1rwza2           1 PELELPAKIVMDAGEFKKAIAAADKISDQVIFRSDKEGFRIEAKGDVDSIVFHMTE-------TELIEFN-GGEARSMFS   72 (122)
T ss_dssp             CCCCCSEEEEEEHHHHHHHHHHHHTTCSEEEEEEETTEEEEEEECSSCEEEEEECG-------GGSSEEC-CCCEEEEEE
T ss_pred             CCCCceEEEEEEHHHHHHHHHHHHhcCCEEEEEEcCCEEEEEEEccCcEEEEEEcC-------Ccccccc-ccceeEEEe
Confidence            78899999999999999999999999999999999999999999999999988842       1222232 367889999


Q ss_pred             hHHHHhccccCCCCceEEEEecCCCcEEEEEEeCC-cEEEEEEEcccCCC
Q 024527          209 LRYMNSFTRATPLSNTVTISLSSELPVVVEYKIAE-MGYIRFYLAPKIEE  257 (266)
Q Consensus       209 ~~yL~~~~k~~~ls~~v~l~~~~~~Pl~l~~~i~~-~g~~~~~iaPr~~~  257 (266)
                      ++||..++|+.+++++|.|+|++++||+++|.+++ .|+++||||||+|.
T Consensus        73 l~YL~~~~K~~~ls~~v~i~~~~~~Pl~l~y~i~~~~g~i~fylAPries  122 (122)
T d1rwza2          73 VDYLKEFCKVAGSGDLLTIHLGTNYPVRLVFELVGGRAKVEYILAPRIES  122 (122)
T ss_dssp             HHHHHHHGGGCCTTCEEEEEECSSSCEEEEEEETTTTEEEEEEECCBCCC
T ss_pred             HHHHHHHhhhccCCCEEEEEEcCCCCEEEEEEEcCCcEEEEEEEccccCC
Confidence            99999999999999999999999999999999965 59999999999984

>d1iz5a1 d.131.1.2 (A:2-120) Proliferating cell nuclear antigen (PCNA) {Archaeon Pyrococcus furiosus [TaxId: 2261]}

class: Alpha and beta proteins (a+b)
fold: DNA clamp
superfamily: DNA clamp
family: DNA polymerase processivity factor
domain: Proliferating cell nuclear antigen (PCNA)
species: Archaeon Pyrococcus furiosus [TaxId: 2261]

Probab=99.94  E-value=4e-26  Score=171.92  Aligned_cols=117  Identities=25%  Similarity=0.484  Sum_probs=110.4

Q ss_pred             eeEEEcChhhHHHHHHHHHhhhceeeEEEeCCceEEEEECCCCeEEEEEEecCCCcceeeeCCcEEEEEEhhhHHHHhcc
Q 024527            2 LELRLVQGSLLKKVLEAIKELVNDANFDCSATGFSLQAMDSSHVALVALLLRSEGFEHYRCDRNISMGMNLNNVSKMLKC   81 (266)
Q Consensus         2 f~a~~~~~~~~k~i~~~l~~l~~~~~~~~~~~gl~~~a~D~~r~a~v~~~l~~~~F~~y~~~~~~~~gi~l~~L~~ilk~   81 (266)
                      |+|++++|+.||+++++++.++++++|.++++||++++||++|++++++.|+++.|++|+|+++..+||++..|.|+||+
T Consensus         2 f~~~~~~a~~fk~i~~~l~~l~~e~~l~~~~~Gi~iq~mD~shv~lv~l~L~~~~F~~Y~~~~~~~iGi~~~~L~kilk~   81 (119)
T d1iz5a1           2 FEIVFEGAKEFAQLIDTASKLIDEAAFKVTEDGISMRAMDPSRVVLIDLNLPSSIFSKYEVVEPETIGVNLDHLKKILKR   81 (119)
T ss_dssp             EEEEEECHHHHHHHHHHHTSSCSEEEEEECSSEEEEEEECTTSSEEEEEEEEGGGSSEEEESSCEEEEEEHHHHHHHHTT
T ss_pred             cEEEeCCHHHHHHHHHHHHHHhceEEEEEecCeEEEEEeCCCcEEEEEEEECHHHCeEEccCCCEEEEEEHHHHHHHHhh
Confidence            89999999999999999999999999999999999999999999999999999999999999999999999999999999


Q ss_pred             cCCCceEEEEEcCCCCeEEEEEeCCCCCeEEEEEEeeeecC
Q 024527           82 AGNDDIITLKADDGSDTVTFMFESPTQDKIADFEMKLMDID  122 (266)
Q Consensus        82 ~~~~d~l~l~~~~~~~~l~i~~~~~~~~~~~~~~l~li~~~  122 (266)
                      ++++|.+.|++++ .+.+.+.+++.   ..|.|.++++|++
T Consensus        82 ~~~~d~l~l~~~~-~~~l~i~~~~~---~~~~f~l~Lidid  118 (119)
T d1iz5a1          82 GKAKDTLILKKGE-ENFLEITIQGT---ATRTFRVPLIDVE  118 (119)
T ss_dssp             CCTTCEEEEEECS-SSEEEEEEESS---SEEEEEEECBCCC
T ss_pred             CCCCCEEEEEEcC-CCEEEEEEeCC---ceEEEEEeeecCC
Confidence            9999999999865 45899998864   3678999999976

>d1ud9a1 d.131.1.2 (A:1-119) Proliferating cell nuclear antigen (PCNA) {Archaeon Sulfolobus tokodaii [TaxId: 111955]}

class: Alpha and beta proteins (a+b)
fold: DNA clamp
superfamily: DNA clamp
family: DNA polymerase processivity factor
domain: Proliferating cell nuclear antigen (PCNA)
species: Archaeon Sulfolobus tokodaii [TaxId: 111955]

Probab=99.93  E-value=2.9e-25  Score=167.00  Aligned_cols=118  Identities=25%  Similarity=0.429  Sum_probs=109.4

Q ss_pred             eEEEcChhhHHHHHHHHHhhhceeeEEEeCCceEEEEECCCCeEEEEEEecCCCcceeeeCCcEEEEEEhhhHHHHhccc
Q 024527            3 ELRLVQGSLLKKVLEAIKELVNDANFDCSATGFSLQAMDSSHVALVALLLRSEGFEHYRCDRNISMGMNLNNVSKMLKCA   82 (266)
Q Consensus         3 ~a~~~~~~~~k~i~~~l~~l~~~~~~~~~~~gl~~~a~D~~r~a~v~~~l~~~~F~~y~~~~~~~~gi~l~~L~~ilk~~   82 (266)
                      ++++++|+.||+++++++.++++++|+++++||++++||++|++|+++.++++.|++|+|++++.+||++..|.++||++
T Consensus         2 ~i~~~da~~fk~i~~~lk~l~~e~~~~~~~~Gi~iq~mD~s~v~lv~l~L~~~~F~~Y~~~~~~~igv~~~~l~kilk~~   81 (119)
T d1ud9a1           2 HIVYDDVRDLKAIIQALLKLVDEALFDIKPEGIQLVAIDKAHISLIKIELPKEMFKEYDVPEEFKFGFNTQYMSKLLKAA   81 (119)
T ss_dssp             EEEESCHHHHHHHHHHHHHHCSEEEEEEETTEEEEEEECTTSSEEEEEEEEGGGSSEEECSSCEEEEEEHHHHHHHHTTC
T ss_pred             cEEccCHHHHHHHHHHHHHHhceEEEEEccCeEEEEEeCCCCEEEEEEEeCHHHCcccccCCCEEEEEEHHHHHHHHhhC
Confidence            57899999999999999999999999999999999999999999999999999999999999999999999999999999


Q ss_pred             CCCceEEEEEcCCCCeEEEEEeCCCCCeEEEEEEeeeecCCC
Q 024527           83 GNDDIITLKADDGSDTVTFMFESPTQDKIADFEMKLMDIDSE  124 (266)
Q Consensus        83 ~~~d~l~l~~~~~~~~l~i~~~~~~~~~~~~~~l~li~~~~~  124 (266)
                      +++|.+.|++++ .+.|.+.+++.   ..|.|.++++|...|
T Consensus        82 ~~~d~l~l~~~~-~~~l~i~~~~~---~~r~f~l~lidi~~p  119 (119)
T d1ud9a1          82 KRKEEIIIDADS-PEVVKLTLSGA---LNRVFNVNNIEVLPP  119 (119)
T ss_dssp             CSCCCEEEEEEE-TTEEEEEECSS---SCEEEEEECCCCCCC
T ss_pred             CCCCEEEEEeCC-CCEEEEEEECC---ceEEEEEEeecccCC
Confidence            999999999964 46899988754   356899999987653

>d1ud9a2 d.131.1.2 (A:127-245) Proliferating cell nuclear antigen (PCNA) {Archaeon Sulfolobus tokodaii [TaxId: 111955]}

class: Alpha and beta proteins (a+b)
fold: DNA clamp
superfamily: DNA clamp
family: DNA polymerase processivity factor
domain: Proliferating cell nuclear antigen (PCNA)
species: Archaeon Sulfolobus tokodaii [TaxId: 111955]

Probab=99.93  E-value=1.7e-25  Score=168.64  Aligned_cols=119  Identities=21%  Similarity=0.423  Sum_probs=106.8

Q ss_pred             eeeEEEEEehHHHHHHHHHhhccCCEEEEEEeCCeEEEEEEecceeEEEEEeecccCCCCCCceEEEecCcEEEEEehHH
Q 024527          132 EYHAIVRMPSAEFARICKDLASIGDTVVISVTKEGVKFSTRGDIGTANIVLRQNTTVDKPEEATIIEMHEPVSLTFALRY  211 (266)
Q Consensus       132 ~~~~~i~~~s~~~~~~i~~~~~~~d~v~i~~~~~~l~~s~~gd~g~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~f~~~y  211 (266)
                      +|++.++|+|+.|+++|++++.+||.|+|.++++++.|++.|| |...+.+..     ..+....++++++++..|+++|
T Consensus         1 Ey~~~i~m~s~~f~~ii~dl~~~~d~v~i~~~~~~i~f~~~gd-~~~~~~~~~-----~~~~~~~~~~~~~~~~~ysl~y   74 (119)
T d1ud9a2           1 EFDIKATINASGLKNAIGEIAEVADTLLISGNEEKVVVKGEGE-NKVEVEFSK-----DTGSLADIEFNKESSSAYDVEY   74 (119)
T ss_dssp             CCSEEEEEEHHHHHHHHHHHHHHCSEEEEEECSSEEEEEESSS-SCCCEEEEG-----GGTCEEEEEESSCEEEEEEHHH
T ss_pred             CCCEEEEEEHHHHHHHHHHHHhcCCEEEEEEcCCEEEEEEEcC-CcEEEEEec-----CCCceEEEecCCceEEEEEHHH
Confidence            6899999999999999999999999999999999999999998 666666642     1122334778999999999999


Q ss_pred             HHhccccCCCCceEEEEecCCCcEEEEEEeCCcEEEEEEEcccCC
Q 024527          212 MNSFTRATPLSNTVTISLSSELPVVVEYKIAEMGYIRFYLAPKIE  256 (266)
Q Consensus       212 L~~~~k~~~ls~~v~l~~~~~~Pl~l~~~i~~~g~~~~~iaPr~~  256 (266)
                      |..++|+.+++++|.|++++++||+++|.++++|+++||||||+.
T Consensus        75 L~~~~K~~~ls~~v~i~~~~d~Pl~l~y~l~~~g~i~f~lAPri~  119 (119)
T d1ud9a2          75 LNDIISLTKLSDYVKVAFADQKPMQLEFNMEGGGKVTYLLAPKLS  119 (119)
T ss_dssp             HHHTGGGGGGCSEEEEEECTTSCEEEEEECGGGCEEEEEECCBCC
T ss_pred             HHHHHhhccCCCEEEEEECCCcCEEEEEEeCCCeEEEEEEeeccC
Confidence            999999999999999999999999999999999999999999984

>d1vpka3 d.131.1.1 (A:244-366) DNA polymerase III, beta subunit {Thermotoga maritima [TaxId: 2336]}

class: Alpha and beta proteins (a+b)
fold: DNA clamp
superfamily: DNA clamp
family: DNA polymerase III, beta subunit
domain: DNA polymerase III, beta subunit
species: Thermotoga maritima [TaxId: 2336]

Probab=99.55  E-value=3e-14  Score=106.80  Aligned_cols=111  Identities=13%  Similarity=0.342  Sum_probs=95.9

Q ss_pred             CCcceeeEEEEEehHHHHHHHHHhhccCC----EEEEEEeCCeEEEEEEe-cceeEEEEEeecccCCCCCCceEEEe-cC
Q 024527          128 IPEAEYHAIVRMPSAEFARICKDLASIGD----TVVISVTKEGVKFSTRG-DIGTANIVLRQNTTVDKPEEATIIEM-HE  201 (266)
Q Consensus       128 ip~~~~~~~i~~~s~~~~~~i~~~~~~~d----~v~i~~~~~~l~~s~~g-d~g~~~~~~~~~~~~~~~~~~~~~~~-~~  201 (266)
                      +|+ +++.+++++.++|.++++|++.+++    .|++.++++.+++++.+ |.|++..++.             ++. |+
T Consensus         4 iP~-~~~~~v~v~r~~l~~al~Rv~~~s~~~~~~V~l~~~~~~l~l~s~~~e~g~~~e~i~-------------~~~~Ge   69 (123)
T d1vpka3           4 IPE-TFKTKVVVSRKELRESLKRVMVIASKGSESVKFEIEENVMRLVSKSPDYGEVVDEVE-------------VQKEGE   69 (123)
T ss_dssp             SCS-CCSEEEEEEHHHHHHHHHHHHHHHTTTTCCEEEEECSSEEEEEEEETTTEEEEEEEE-------------CEEEEC
T ss_pred             cCC-CCCEEEEEEHHHHHHHHHHHHHHhcCCCcceEEEecCCceEEEeccccchhcccccc-------------ccccCC
Confidence            674 8999999999999999999999864    58999999999999987 8899888873             444 67


Q ss_pred             cEEEEEehHHHHhccccCCCCceEEEEecCC-CcEEEEEEeCCcEEEEEEEcc-cC
Q 024527          202 PVSLTFALRYMNSFTRATPLSNTVTISLSSE-LPVVVEYKIAEMGYIRFYLAP-KI  255 (266)
Q Consensus       202 ~~~~~f~~~yL~~~~k~~~ls~~v~l~~~~~-~Pl~l~~~i~~~g~~~~~iaP-r~  255 (266)
                      +.++.||.+||.+++++++ +++|.++|.+. .|+.++. - ++..+.|+|+| |+
T Consensus        70 ~~~i~fN~~yL~d~L~~~~-~~~V~l~~~~~~~p~~i~~-~-~~~~~~~liMP~ri  122 (123)
T d1vpka3          70 DLVIAFNPKFIEDVLKHIE-TEEIEMNFVDSTSPCQINP-L-DISGYLYIVMPIRL  122 (123)
T ss_dssp             CEEEEECHHHHHHHHHHCC-SSEEEEEESCTTSCEEEEE-T-TCCSEEEEECCBCC
T ss_pred             CeEEEECHHHHHHHHhhCC-CCEEEEEEcCCCCCEEEec-C-CCCceEEEEEeEEc
Confidence            8999999999999999998 89999999976 5999985 3 34567799999 65

>d1vpka2 d.131.1.1 (A:121-243) DNA polymerase III, beta subunit {Thermotoga maritima [TaxId: 2336]}

class: Alpha and beta proteins (a+b)
fold: DNA clamp
superfamily: DNA clamp
family: DNA polymerase III, beta subunit
domain: DNA polymerase III, beta subunit
species: Thermotoga maritima [TaxId: 2336]

Probab=99.15  E-value=2.6e-10  Score=84.83  Aligned_cols=103  Identities=19%  Similarity=0.273  Sum_probs=84.8

Q ss_pred             ChhhHHHHHHH---------HHhhhceeeEEEeCCceEEEEECCCCeEEEEEEecCCCcceeeeCCcEEEEEEhhhHHHH
Q 024527            8 QGSLLKKVLEA---------IKELVNDANFDCSATGFSLQAMDSSHVALVALLLRSEGFEHYRCDRNISMGMNLNNVSKM   78 (266)
Q Consensus         8 ~~~~~k~i~~~---------l~~l~~~~~~~~~~~gl~~~a~D~~r~a~v~~~l~~~~F~~y~~~~~~~~gi~l~~L~~i   78 (266)
                      ++..|+++++.         .++.+++++|++.+++++++|+|++|+|+....++..        .+..+.||.+.|.++
T Consensus        10 ~~~~L~~~I~~v~fA~s~d~~r~~L~Gv~~~~~~~~l~~vATDg~RLa~~~~~~~~~--------~~~~~iiP~k~l~el   81 (123)
T d1vpka2          10 DTSLLEEMVEKVIFAAAKDEFMRNLNGVFWELHKNLLRLVASDGFRLALAEEQIENE--------EEASFLLSLKSMKEV   81 (123)
T ss_dssp             EHHHHHHHHHHHGGGSCCCTTCTTTSEEEEEEETTEEEEEEECSSEEEEEEEECCCC--------SCEEEEEEHHHHHHH
T ss_pred             CHHHHHHHHhheeEEeccCCccceEEeEEEEEecCceEEEEEeeeeeeeeehhcccC--------CcccEEEeechhhHH
Confidence            37788888887         4567999999999999999999999999988877643        356789999999988


Q ss_pred             hcccCC--CceEEEEEcCCCCeEEEEEeCCCCCeEEEEEEeeeecCCCCC
Q 024527           79 LKCAGN--DDIITLKADDGSDTVTFMFESPTQDKIADFEMKLMDIDSEHL  126 (266)
Q Consensus        79 lk~~~~--~d~l~l~~~~~~~~l~i~~~~~~~~~~~~~~l~li~~~~~~~  126 (266)
                      .|.+.+  +..+.+.++++  ++.|..++.      .+..+++++.+|+|
T Consensus        82 ~k~l~~~~~~~v~i~~~~~--~i~~~~~~~------~~~srlieG~fPdY  123 (123)
T d1vpka2          82 QNVLDNTTEPTITVRYDGR--RVSLSTNDV------ETVMRVVDAEFPDY  123 (123)
T ss_dssp             HHHHHTCCCSEEEEEECSS--EEEEECSSE------EEEEECCSSCCCCG
T ss_pred             HhhhcccccceEEEEECCC--EEEEEECCE------EEEEEeeCccCCCC
Confidence            887754  34788888755  788877665      89999999999876

>d1iz5a2 d.131.1.2 (A:126-246) Proliferating cell nuclear antigen (PCNA) {Archaeon Pyrococcus furiosus [TaxId: 2261]}

class: Alpha and beta proteins (a+b)
fold: DNA clamp
superfamily: DNA clamp
family: DNA polymerase processivity factor
domain: Proliferating cell nuclear antigen (PCNA)
species: Archaeon Pyrococcus furiosus [TaxId: 2261]

Probab=98.38  E-value=1.4e-05  Score=58.15  Aligned_cols=102  Identities=18%  Similarity=0.302  Sum_probs=88.1

Q ss_pred             hhhHHHHHHHHHhhhceeeEEEeCCceEEEEECCCCeEEEEEEecCCCcceeeeCCcEEEEEEhhhHHHHhcccCCCceE
Q 024527            9 GSLLKKVLEAIKELVNDANFDCSATGFSLQAMDSSHVALVALLLRSEGFEHYRCDRNISMGMNLNNVSKMLKCAGNDDII   88 (266)
Q Consensus         9 ~~~~k~i~~~l~~l~~~~~~~~~~~gl~~~a~D~~r~a~v~~~l~~~~F~~y~~~~~~~~gi~l~~L~~ilk~~~~~d~l   88 (266)
                      .+.|+++++.+..+-+.+.++++++++.+.+.....-+-+.+..+.....+++++++++-...++.|.++.|..+-.+.+
T Consensus        13 s~~f~~ii~~l~~~~d~i~i~~~~~~i~f~~~gd~g~~~v~~~~~~~~~~~~~~~~~~~~~ysl~yL~~~~K~~~ls~~V   92 (121)
T d1iz5a2          13 GEVLKAAVKAASLVSDSIKFIARENEFIMKAEGETQEVEIKLTLEDEGLLDIEVQEETKSAYGVSYLSDMVKGLGKADEV   92 (121)
T ss_dssp             HHHHHHHHHHHTTTCSEEEEEEETTEEEEEEECSSCEEEEEEETTTTSSSEEEESSCEEEEEEHHHHHHHHTTSCTTCEE
T ss_pred             HHHHHHHHHHHHhcCCeEEEEEcCCEEEEEEEccCcEEEEEEcCCCCccEEEEcCCceEEEEEHHHHHHHhhhccCCCEE
Confidence            78999999999999999999999999999998777777788888888888899999999999999999999998888999


Q ss_pred             EEEEcCCCCeEEEEEeCCCCCeE
Q 024527           89 TLKADDGSDTVTFMFESPTQDKI  111 (266)
Q Consensus        89 ~l~~~~~~~~l~i~~~~~~~~~~  111 (266)
                      +|.++++. +|.+++.-...|.+
T Consensus        93 ~i~~~~~~-Pl~l~y~~~~~g~i  114 (121)
T d1iz5a2          93 TIKFGNEM-PMQMEYYIRDEGRL  114 (121)
T ss_dssp             EEEECTTC-CEEEEEEETTTEEE
T ss_pred             EEEEcCCC-CEEEEEEeCCCcEE
Confidence            99997554 77776654443444

>d1ud9a2 d.131.1.2 (A:127-245) Proliferating cell nuclear antigen (PCNA) {Archaeon Sulfolobus tokodaii [TaxId: 111955]}

class: Alpha and beta proteins (a+b)
fold: DNA clamp
superfamily: DNA clamp
family: DNA polymerase processivity factor
domain: Proliferating cell nuclear antigen (PCNA)
species: Archaeon Sulfolobus tokodaii [TaxId: 111955]

Probab=98.17  E-value=2.3e-05  Score=56.78  Aligned_cols=108  Identities=10%  Similarity=0.155  Sum_probs=89.1

Q ss_pred             EEEcChhhHHHHHHHHHhhhceeeEEEeCCceEEEEECCCCeEEEEEEecCCCcceeeeCCcEEEEEEhhhHHHHhcccC
Q 024527            4 LRLVQGSLLKKVLEAIKELVNDANFDCSATGFSLQAMDSSHVALVALLLRSEGFEHYRCDRNISMGMNLNNVSKMLKCAG   83 (266)
Q Consensus         4 a~~~~~~~~k~i~~~l~~l~~~~~~~~~~~gl~~~a~D~~r~a~v~~~l~~~~F~~y~~~~~~~~gi~l~~L~~ilk~~~   83 (266)
                      ++++ .+.|+++++.++.+-+.+.++++++++.+.+... .-+.+.+..+.....+++|+++++-...++.|.++.|.++
T Consensus         6 i~m~-s~~f~~ii~dl~~~~d~v~i~~~~~~i~f~~~gd-~~~~~~~~~~~~~~~~~~~~~~~~~~ysl~yL~~~~K~~~   83 (119)
T d1ud9a2           6 ATIN-ASGLKNAIGEIAEVADTLLISGNEEKVVVKGEGE-NKVEVEFSKDTGSLADIEFNKESSSAYDVEYLNDIISLTK   83 (119)
T ss_dssp             EEEE-HHHHHHHHHHHHHHCSEEEEEECSSEEEEEESSS-SCCCEEEEGGGTCEEEEEESSCEEEEEEHHHHHHTGGGGG
T ss_pred             EEEE-HHHHHHHHHHHHhcCCEEEEEEcCCEEEEEEEcC-CcEEEEEecCCCceEEEecCCceEEEEEHHHHHHHHhhcc
Confidence            3344 7899999999999999999999999999999654 3446788888888889999999999999999999999888


Q ss_pred             CCceEEEEEcCCCCeEEEEEeCCCCCeEEEE
Q 024527           84 NDDIITLKADDGSDTVTFMFESPTQDKIADF  114 (266)
Q Consensus        84 ~~d~l~l~~~~~~~~l~i~~~~~~~~~~~~~  114 (266)
                      -.+.+.|.+.++. +|.+++.-.+.|.++-|
T Consensus        84 ls~~v~i~~~~d~-Pl~l~y~l~~~g~i~f~  113 (119)
T d1ud9a2          84 LSDYVKVAFADQK-PMQLEFNMEGGGKVTYL  113 (119)
T ss_dssp             GCSEEEEEECTTS-CEEEEEECGGGCEEEEE
T ss_pred             CCCEEEEEECCCc-CEEEEEEeCCCeEEEEE
Confidence            8899999996554 77777765544555433

>d1vpka1 d.131.1.1 (A:1-120) DNA polymerase III, beta subunit {Thermotoga maritima [TaxId: 2336]}

class: Alpha and beta proteins (a+b)
fold: DNA clamp
superfamily: DNA clamp
family: DNA polymerase III, beta subunit
domain: DNA polymerase III, beta subunit
species: Thermotoga maritima [TaxId: 2336]

Probab=98.11  E-value=3.2e-05  Score=56.16  Aligned_cols=101  Identities=15%  Similarity=0.178  Sum_probs=75.1

Q ss_pred             hhhHHHHHHHHH---------hhhceeeEEEeCCceEEEEECCCCeEEEEEEecCCCcceeeeCCcEEEEEEhhhHHHHh
Q 024527            9 GSLLKKVLEAIK---------ELVNDANFDCSATGFSLQAMDSSHVALVALLLRSEGFEHYRCDRNISMGMNLNNVSKML   79 (266)
Q Consensus         9 ~~~~k~i~~~l~---------~l~~~~~~~~~~~gl~~~a~D~~r~a~v~~~l~~~~F~~y~~~~~~~~gi~l~~L~~il   79 (266)
                      .+.|.+.+..+.         +++.++.+++.+++++++|+|. .+++ ...++..     +++++-.+.++.+.|.+++
T Consensus         7 ~~~L~~al~~v~~~i~~~~~~piL~~ili~~~~~~l~l~aTD~-e~~i-~~~i~~~-----~i~~~G~~~vpak~l~~ii   79 (120)
T d1vpka1           7 TLELKDKITIASKALAKKSVKPILAGFLFEVKDGNFYICATDL-ETGV-KATVNAA-----EISGEARFVVPGDVIQKMV   79 (120)
T ss_dssp             HHHHHHHHHHHGGGCCCSSSCGGGGEEEEEEETTEEEEEEECS-SEEE-EEECCCS-----EEEECEEEEEEC-CHHHHH
T ss_pred             HHHHHHHHHHHHHHccCCCchhHhcCeEEEEECCEEEEEEeec-eeeE-EEEeccc-----ceeecccchhhhhHHHHHH
Confidence            567777777755         4689999999999999999994 5543 3444422     1344567899999999999


Q ss_pred             cccCCCceEEEEEcCCCCeEEEEEeCCCCCeEEEEEEeeeec-CCCC
Q 024527           80 KCAGNDDIITLKADDGSDTVTFMFESPTQDKIADFEMKLMDI-DSEH  125 (266)
Q Consensus        80 k~~~~~d~l~l~~~~~~~~l~i~~~~~~~~~~~~~~l~li~~-~~~~  125 (266)
                      |.+. ++.+.++.+++  .+.|..+..      +|.+++++. ++|+
T Consensus        80 r~lp-~~~v~l~~~~~--~l~I~~~~~------~~~l~~~~~~~fP~  117 (120)
T d1vpka1          80 KVLP-DEITELSLEGD--ALVISSGST------VFRITTMPADEFPE  117 (120)
T ss_dssp             TTCC-SSEEEEEEETT--EEEEEETTE------EEEEECBCCTTSCC
T ss_pred             hhCC-CCcEEEEEeCC--EEEEEECCe------EEEEcCCCHHHCCC
Confidence            9996 46788988754  788876554      899999987 4554

>d1rwza1 d.131.1.2 (A:1-122) Proliferating cell nuclear antigen (PCNA) {Archaeon Archaeoglobus fulgidus [TaxId: 2234]}

class: Alpha and beta proteins (a+b)
fold: DNA clamp
superfamily: DNA clamp
family: DNA polymerase processivity factor
domain: Proliferating cell nuclear antigen (PCNA)
species: Archaeon Archaeoglobus fulgidus [TaxId: 2234]

Probab=98.09  E-value=0.00014  Score=52.88  Aligned_cols=118  Identities=9%  Similarity=0.198  Sum_probs=89.8

Q ss_pred             EEEEehHHHHHHHHHhhccCCEEEEEEeCCeEEEEEEeccee--EEEEEeecccCCCCCCceEEEecCcEEEEEehHHHH
Q 024527          136 IVRMPSAEFARICKDLASIGDTVVISVTKEGVKFSTRGDIGT--ANIVLRQNTTVDKPEEATIIEMHEPVSLTFALRYMN  213 (266)
Q Consensus       136 ~i~~~s~~~~~~i~~~~~~~d~v~i~~~~~~l~~s~~gd~g~--~~~~~~~~~~~~~~~~~~~~~~~~~~~~~f~~~yL~  213 (266)
                      +++++++.|+++++.++.+.+.+.+.++++.+.+.+-....-  .+..+.       .+.....+|.++.++.+++..|.
T Consensus         3 ~~~~~a~~~k~i~~~l~~l~~e~~~~~~~~Gi~iq~mD~s~v~Lv~l~L~-------~~~F~~Y~~~~~~~iGv~~~~l~   75 (122)
T d1rwza1           3 DVIMTGELLKTVTRAIVALVSEARIHFLEKGLHSRAVDPANVAMVIVDIP-------KDSFEVYNIDEEKTIGVDMDRIF   75 (122)
T ss_dssp             EEEEEHHHHHHHHHHHHTTCSEEEEEEETTEEEEEEECTTSSEEEEEEEE-------GGGSSEEEESSCEEEEEEHHHHH
T ss_pred             eEEecHHHHHHHHHHHHHHhceEEEEEccCeEEEEEeCCCcEEEEEEEEC-------cccCeEEecCCCEEEEEEHHHHH
Confidence            578899999999999999999999999999999988743222  444442       13334588889999999999999


Q ss_pred             hccccCCCCceEEEEecCCCcEEEEEEeCCcEEEEEEEcccCCCCcccCCCCC
Q 024527          214 SFTRATPLSNTVTISLSSELPVVVEYKIAEMGYIRFYLAPKIEEDEDETKPQV  266 (266)
Q Consensus       214 ~~~k~~~ls~~v~l~~~~~~Pl~l~~~i~~~g~~~~~iaPr~~~~~~~~~~~~  266 (266)
                      +++|.++-++.+.++..++..|.+.+  ++ .  . |=-|.++.+..+..|++
T Consensus        76 kilk~~~~~d~l~l~~~~~~~l~i~~--~~-~--~-f~l~LlD~~s~~~eP~l  122 (122)
T d1rwza1          76 DISKSISTKDLVELIVEDESTLKVKF--GS-V--E-YKVALIDPSAIRKEPRI  122 (122)
T ss_dssp             HHHTTSCTTSEEEEEESSSSEEEEEE--TT-E--E-EEEECBCGGGSCCCCCC
T ss_pred             HHHhhCCCCCEEEEEEcCCCEEEEEE--ec-c--E-EEEeCcccccccCCCCC
Confidence            99999987899999987666666654  44 2  2 44556676655544653

>d1u7ba1 d.131.1.2 (A:1-126) Proliferating cell nuclear antigen (PCNA) {Human (Homo sapiens) [TaxId: 9606]}

class: Alpha and beta proteins (a+b)
fold: DNA clamp
superfamily: DNA clamp
family: DNA polymerase processivity factor
domain: Proliferating cell nuclear antigen (PCNA)
species: Human (Homo sapiens) [TaxId: 9606]

Probab=97.85  E-value=0.00037  Score=50.72  Aligned_cols=116  Identities=9%  Similarity=0.195  Sum_probs=87.7

Q ss_pred             EEehHHHHHHHHHhhccCCEEEEEEeCCeEEEEEEecc--eeEEEEEeecccCCCCCCceEEEecCcEEEEEehHHHHhc
Q 024527          138 RMPSAEFARICKDLASIGDTVVISVTKEGVKFSTRGDI--GTANIVLRQNTTVDKPEEATIIEMHEPVSLTFALRYMNSF  215 (266)
Q Consensus       138 ~~~s~~~~~~i~~~~~~~d~v~i~~~~~~l~~s~~gd~--g~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~f~~~yL~~~  215 (266)
                      +.+++.|+++++.++.+.+.+.|.++++++.+.+-...  .=.+..+.       .+.....+|.++..+.+++..|.++
T Consensus         6 ~~~a~~fk~i~~~lk~l~~e~~~~~~~~Gi~iq~mD~shv~Lv~l~L~-------~~~F~~Y~~~~~~~iGv~~~~l~kI   78 (126)
T d1u7ba1           6 LVQGSILKKVLEALKDLINEACWDISSSGVNLQSMDSSHVSLVQLTLR-------SEGFDTYRCDRNLAMGVNLTSMSKI   78 (126)
T ss_dssp             ESCTHHHHHHHHHHHTTCSEEEEEEETTEEEEEEECTTSSEEEEEEEE-------GGGSSEEEESSCEEEEEEHHHHHHH
T ss_pred             EccHHHHHHHHHHHHHHhceEEEEEcCCeEEEEEECCCcEEEEEEEEC-------HHHCceeEEcCCEEEEEEHHHHHHH
Confidence            35789999999999999999999999999999886432  22444442       2334468888899999999999999


Q ss_pred             cccCCCCceEEEEecCCC-cEEEEEEeCCcEEEEEEEcccCCCCcc
Q 024527          216 TRATPLSNTVTISLSSEL-PVVVEYKIAEMGYIRFYLAPKIEEDED  260 (266)
Q Consensus       216 ~k~~~ls~~v~l~~~~~~-Pl~l~~~i~~~g~~~~~iaPr~~~~~~  260 (266)
                      +|.++-.+.+.++..++. -|.+.+.-++......|=.|.++-|.+
T Consensus        79 lk~~~~~d~l~l~~~~~~d~l~i~~~~~~~~~~~~f~l~Lidid~e  124 (126)
T d1u7ba1          79 LKCAGNEDIITLRAEDNADTLALVFEAPNQEKVSDYEMKLMDLDVE  124 (126)
T ss_dssp             HTTSCTTCEEEEEECTTCSEEEEEEECTTSSCEEEEEEECCCCCCC
T ss_pred             HhhcCCCCEEEEEEeCCCCEEEEEEEcCCCCEEEEEEEEccccCcc
Confidence            999987889999987653 555555433344556666677776544

>d1rwza2 d.131.1.2 (A:123-244) Proliferating cell nuclear antigen (PCNA) {Archaeon Archaeoglobus fulgidus [TaxId: 2234]}

class: Alpha and beta proteins (a+b)
fold: DNA clamp
superfamily: DNA clamp
family: DNA polymerase processivity factor
domain: Proliferating cell nuclear antigen (PCNA)
species: Archaeon Archaeoglobus fulgidus [TaxId: 2234]

Probab=97.67  E-value=0.002  Score=46.23  Aligned_cols=105  Identities=15%  Similarity=0.279  Sum_probs=79.6

Q ss_pred             hhhHHHHHHHHHhhhceeeEEEeCCceEEEEECCCCeEEEEEEecCCCcceeeeCCcEEEEEEhhhHHHHhcccCCCceE
Q 024527            9 GSLLKKVLEAIKELVNDANFDCSATGFSLQAMDSSHVALVALLLRSEGFEHYRCDRNISMGMNLNNVSKMLKCAGNDDII   88 (266)
Q Consensus         9 ~~~~k~i~~~l~~l~~~~~~~~~~~gl~~~a~D~~r~a~v~~~l~~~~F~~y~~~~~~~~gi~l~~L~~ilk~~~~~d~l   88 (266)
                      .+.|+++++.++.+-+.+.++++++++.+.+.....-+  .+.+....-.++.++ +..-...++.|..+.|..+-.+.+
T Consensus        13 s~~f~~~~~dl~~~~d~v~i~~~~~~i~f~~~gd~g~~--~~~~~~~~~~~~~~~-~~~~~fsl~YL~~~~K~~~ls~~v   89 (122)
T d1rwza2          13 AGEFKKAIAAADKISDQVIFRSDKEGFRIEAKGDVDSI--VFHMTETELIEFNGG-EARSMFSVDYLKEFCKVAGSGDLL   89 (122)
T ss_dssp             HHHHHHHHHHHHTTCSEEEEEEETTEEEEEEECSSCEE--EEEECGGGSSEECCC-CEEEEEEHHHHHHHGGGCCTTCEE
T ss_pred             HHHHHHHHHHHHhcCCEEEEEEcCCEEEEEEEccCcEE--EEEEcCCcccccccc-ceeEEEeHHHHHHHhhhccCCCEE
Confidence            78999999999999999999999999999997665554  455555555666554 455678999999999988888999


Q ss_pred             EEEEcCCCCeEEEEEeCC-CCCeEEEEEEe
Q 024527           89 TLKADDGSDTVTFMFESP-TQDKIADFEMK  117 (266)
Q Consensus        89 ~l~~~~~~~~l~i~~~~~-~~~~~~~~~l~  117 (266)
                      .|.+.++ .+|.+.+.-. +.|.++-|--|
T Consensus        90 ~i~~~~~-~Pl~l~y~i~~~~g~i~fylAP  118 (122)
T d1rwza2          90 TIHLGTN-YPVRLVFELVGGRAKVEYILAP  118 (122)
T ss_dssp             EEEECSS-SCEEEEEEETTTTEEEEEEECC
T ss_pred             EEEEcCC-CCEEEEEEEcCCcEEEEEEEcc
Confidence            9999755 3777766532 23555444333

>d1u7ba2 d.131.1.2 (A:127-255) Proliferating cell nuclear antigen (PCNA) {Human (Homo sapiens) [TaxId: 9606]}

class: Alpha and beta proteins (a+b)
fold: DNA clamp
superfamily: DNA clamp
family: DNA polymerase processivity factor
domain: Proliferating cell nuclear antigen (PCNA)
species: Human (Homo sapiens) [TaxId: 9606]

Probab=97.66  E-value=0.0013  Score=47.80  Aligned_cols=102  Identities=9%  Similarity=0.153  Sum_probs=78.9

Q ss_pred             hhhHHHHHHHHHhhhceeeEEEeCCceEEEEECCCCeEEEEEEecCC-----CcceeeeCCcEEEEEEhhhHHHHhcccC
Q 024527            9 GSLLKKVLEAIKELVNDANFDCSATGFSLQAMDSSHVALVALLLRSE-----GFEHYRCDRNISMGMNLNNVSKMLKCAG   83 (266)
Q Consensus         9 ~~~~k~i~~~l~~l~~~~~~~~~~~gl~~~a~D~~r~a~v~~~l~~~-----~F~~y~~~~~~~~gi~l~~L~~ilk~~~   83 (266)
                      .+.|+++++.++.+-+.+.+.++++++.+.+.+....+-+.+.-...     ......+++++.....++.|.++.|.++
T Consensus        15 s~~f~~~~kdl~~~gd~v~i~~~~~~i~~~~~gd~g~~~~~i~~~~~~~~~~~~~~i~~~~~~~~~fsl~YL~~~~K~~~   94 (129)
T d1u7ba2          15 SGEFARICRDLSHIGDAVVISCAKDGVKFSASGELGNGNIKLSQTSNVDKEEEAVTIEMNEPVQLTFALRYLNFFTKATP   94 (129)
T ss_dssp             HHHHHHHHHHHHTTCSEEEEEEETTEEEEEEEETTEEEEEEECCCC----CCSCCEEEESSCEEEEEEHHHHHHHGGGGG
T ss_pred             HHHHHHHHHHHHHhCchheEEecCCeEEEEEecccceEEEEEeccccccCccceeEeecCccceeEEEHHHHHHHhchhc
Confidence            78999999999999999999999999999997766655555443221     1233456778888999999999999888


Q ss_pred             CCceEEEEEcCCCCeEEEEEeCCCCCeE
Q 024527           84 NDDIITLKADDGSDTVTFMFESPTQDKI  111 (266)
Q Consensus        84 ~~d~l~l~~~~~~~~l~i~~~~~~~~~~  111 (266)
                      -.+.+.|.+.++ .+|.+++.-.+.|.+
T Consensus        95 ls~~v~i~~~~~-~Pl~i~y~~~~~g~l  121 (129)
T d1u7ba2          95 LSSTVTLSMSAD-VPLVVEYKIADMGHL  121 (129)
T ss_dssp             GCSEEEEEECTT-SCEEEEEEETTTEEE
T ss_pred             CCCeEEEEEcCC-CCEEEEEEeCCCcEE
Confidence            889999999754 377777665544544

>d1iz5a1 d.131.1.2 (A:2-120) Proliferating cell nuclear antigen (PCNA) {Archaeon Pyrococcus furiosus [TaxId: 2261]}

class: Alpha and beta proteins (a+b)
fold: DNA clamp
superfamily: DNA clamp
family: DNA polymerase processivity factor
domain: Proliferating cell nuclear antigen (PCNA)
species: Archaeon Pyrococcus furiosus [TaxId: 2261]

Probab=97.65  E-value=0.0011  Score=47.64  Aligned_cols=109  Identities=16%  Similarity=0.244  Sum_probs=83.0

Q ss_pred             ehHHHHHHHHHhhccCCEEEEEEeCCeEEEEEEeccee--EEEEEeecccCCCCCCceEEEecCcEEEEEehHHHHhccc
Q 024527          140 PSAEFARICKDLASIGDTVVISVTKEGVKFSTRGDIGT--ANIVLRQNTTVDKPEEATIIEMHEPVSLTFALRYMNSFTR  217 (266)
Q Consensus       140 ~s~~~~~~i~~~~~~~d~v~i~~~~~~l~~s~~gd~g~--~~~~~~~~~~~~~~~~~~~~~~~~~~~~~f~~~yL~~~~k  217 (266)
                      +++.|+.+++.++.+.+.+.+.++++.+.+.+-....-  .+..+.       .++....+|.++..+..++.-|.+++|
T Consensus         8 ~a~~fk~i~~~l~~l~~e~~l~~~~~Gi~iq~mD~shv~lv~l~L~-------~~~F~~Y~~~~~~~iGi~~~~L~kilk   80 (119)
T d1iz5a1           8 GAKEFAQLIDTASKLIDEAAFKVTEDGISMRAMDPSRVVLIDLNLP-------SSIFSKYEVVEPETIGVNLDHLKKILK   80 (119)
T ss_dssp             CHHHHHHHHHHHTSSCSEEEEEECSSEEEEEEECTTSSEEEEEEEE-------GGGSSEEEESSCEEEEEEHHHHHHHHT
T ss_pred             CHHHHHHHHHHHHHHhceEEEEEecCeEEEEEeCCCcEEEEEEEEC-------HHHCeEEccCCCEEEEEEHHHHHHHHh
Confidence            45999999999999999999999999999988754333  344442       133336888899999999999999999


Q ss_pred             cCCCCceEEEEecCCCcEEEEEEeCCcEEEEEEEcccCCCC
Q 024527          218 ATPLSNTVTISLSSELPVVVEYKIAEMGYIRFYLAPKIEED  258 (266)
Q Consensus       218 ~~~ls~~v~l~~~~~~Pl~l~~~i~~~g~~~~~iaPr~~~~  258 (266)
                      .+.-.+.++++..++..+.+.+.  +.+. +-|=-|.++-|
T Consensus        81 ~~~~~d~l~l~~~~~~~l~i~~~--~~~~-~~f~l~Lidid  118 (119)
T d1iz5a1          81 RGKAKDTLILKKGEENFLEITIQ--GTAT-RTFRVPLIDVE  118 (119)
T ss_dssp             TCCTTCEEEEEECSSSEEEEEEE--SSSE-EEEEEECBCCC
T ss_pred             hCCCCCEEEEEEcCCCEEEEEEe--CCce-EEEEEeeecCC
Confidence            99878999999887777777653  4333 34445555543

>d1plqa1 d.131.1.2 (A:1-126) Proliferating cell nuclear antigen (PCNA) {Baker's yeast (Saccharomyces cerevisiae) [TaxId: 4932]}

class: Alpha and beta proteins (a+b)
fold: DNA clamp
superfamily: DNA clamp
family: DNA polymerase processivity factor
domain: Proliferating cell nuclear antigen (PCNA)
species: Baker's yeast (Saccharomyces cerevisiae) [TaxId: 4932]

Probab=97.63  E-value=0.0014  Score=47.45  Aligned_cols=115  Identities=16%  Similarity=0.200  Sum_probs=85.5

Q ss_pred             EehHHHHHHHHHhhccCCEEEEEEeCCeEEEEEEecc--eeEEEEEeecccCCCCCCceEEEecCcEEEEEehHHHHhcc
Q 024527          139 MPSAEFARICKDLASIGDTVVISVTKEGVKFSTRGDI--GTANIVLRQNTTVDKPEEATIIEMHEPVSLTFALRYMNSFT  216 (266)
Q Consensus       139 ~~s~~~~~~i~~~~~~~d~v~i~~~~~~l~~s~~gd~--g~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~f~~~yL~~~~  216 (266)
                      -+++.|+++++.++.+.+.+.|.++++++.+.+-...  .=.+..+.       .+..-..+|.++..+.+++..|.+++
T Consensus         7 ~~a~~fk~i~~~lk~l~~~~~~~~~~~Gi~iq~mD~shv~lv~l~L~-------~~~F~~Y~~~~~~~iGi~~~~l~kIl   79 (126)
T d1plqa1           7 EEASLFKRIIDGFKDCVQLVNFQCKEDGIIAQAVDDSRVLLVSLEIG-------VEAFQEYRCDHPVTLGMDLTSLSKIL   79 (126)
T ss_dssp             SSHHHHHHHHHHHTTTCSEEEEEEETTEEEEEEECTTSSEEEEEEEE-------GGGSSEECCSSCEEEEEEHHHHHHHT
T ss_pred             cchHHHHHHHHHHHHHhceEEEEECCCeEEEEEeCCCcEEEEEEEEC-------HHHCceeeeccCEEEEEEHHHHHHHH
Confidence            4679999999999999999999999999999886432  22444442       13333577888999999999999999


Q ss_pred             ccCCCCceEEEEecCCC-cEEEEEEeCCcEEEEEEEcccCCCCcc
Q 024527          217 RATPLSNTVTISLSSEL-PVVVEYKIAEMGYIRFYLAPKIEEDED  260 (266)
Q Consensus       217 k~~~ls~~v~l~~~~~~-Pl~l~~~i~~~g~~~~~iaPr~~~~~~  260 (266)
                      |..+-.+.+.++..++. -+.+.+.-+..+....|=.|.++-|.|
T Consensus        80 k~~~~~d~l~l~~~~~~~~l~i~~~~~~~~~~~~f~l~Lidid~e  124 (126)
T d1plqa1          80 RCGNNTDTLTLIADNTPDSIILLFEDTKKDRIAEYSLKLMDIDAD  124 (126)
T ss_dssp             TCSTTTSEEEEEECSSCSEEEEEEECSSSSCEEEEEEECBCCCCC
T ss_pred             hhcCCCCEEEEEEeCCCCEEEEEEEcCCCCEEEEEEEeeeccCcc
Confidence            99987889999987653 565655422334555555677776544

>d1plqa2 d.131.1.2 (A:127-258) Proliferating cell nuclear antigen (PCNA) {Baker's yeast (Saccharomyces cerevisiae) [TaxId: 4932]}

class: Alpha and beta proteins (a+b)
fold: DNA clamp
superfamily: DNA clamp
family: DNA polymerase processivity factor
domain: Proliferating cell nuclear antigen (PCNA)
species: Baker's yeast (Saccharomyces cerevisiae) [TaxId: 4932]

Probab=97.52  E-value=0.0038  Score=45.33  Aligned_cols=100  Identities=10%  Similarity=0.193  Sum_probs=77.9

Q ss_pred             hhhHHHHHHHHHhhhceeeEEEeCCceEEEEECCCCeEEEEEEecCC-------CcceeeeCCcEEEEEEhhhHHHHhcc
Q 024527            9 GSLLKKVLEAIKELVNDANFDCSATGFSLQAMDSSHVALVALLLRSE-------GFEHYRCDRNISMGMNLNNVSKMLKC   81 (266)
Q Consensus         9 ~~~~k~i~~~l~~l~~~~~~~~~~~gl~~~a~D~~r~a~v~~~l~~~-------~F~~y~~~~~~~~gi~l~~L~~ilk~   81 (266)
                      ++.|+++++.++.+-+.+.+.++++++.+.+-...-.+  .+.++..       ....++++.++.-...++.|..+.|.
T Consensus        15 S~~f~~~~kdl~~~gd~i~i~~~~~~i~f~~~gd~g~~--~i~i~~~~~~~~~~~~~~~~~~~~~~~~ysl~yL~~~~K~   92 (132)
T d1plqa2          15 SSEFSKIVRDLSQLSDSINIMITKETIKFVADGDIGSG--SVIIKPFVDMEHPETSIKLEMDQPVDLTFGAKYLLDIIKG   92 (132)
T ss_dssp             HHHHHHHHHHHHTTCSEEEEEEETTEEEEEEECSSCEE--EEEECCBCCTTCGGGCBEEEESSCEEEEEEHHHHHHHGGG
T ss_pred             HHHHHHHHHHHHhcCCeEEEEEcCCeEEEEEEcccceE--EEEEeccCCccccccceeeecccceeeEEEHHHHHHHhCc
Confidence            78999999999999999999999999999997654444  4444432       22456677788889999999999998


Q ss_pred             cCCCceEEEEEcCCCCeEEEEEeCCCCCeEE
Q 024527           82 AGNDDIITLKADDGSDTVTFMFESPTQDKIA  112 (266)
Q Consensus        82 ~~~~d~l~l~~~~~~~~l~i~~~~~~~~~~~  112 (266)
                      ++-.+.+.|.+.++. +|.+.+.-. .|..+
T Consensus        93 ~~ls~~V~i~~~~~~-Pl~~~y~i~-~g~l~  121 (132)
T d1plqa2          93 SSLSDRVGIRLSSEA-PALFQFDLK-SGFLQ  121 (132)
T ss_dssp             GGTCSEEEEEECSSS-CEEEEEEET-TEEEE
T ss_pred             ccCCCEEEEEEeCCC-CEEEEEEeC-CEEEE
Confidence            888899999997654 777766543 35544

>d1ud9a1 d.131.1.2 (A:1-119) Proliferating cell nuclear antigen (PCNA) {Archaeon Sulfolobus tokodaii [TaxId: 111955]}

class: Alpha and beta proteins (a+b)
fold: DNA clamp
superfamily: DNA clamp
family: DNA polymerase processivity factor
domain: Proliferating cell nuclear antigen (PCNA)
species: Archaeon Sulfolobus tokodaii [TaxId: 111955]

Probab=97.44  E-value=0.0011  Score=47.56  Aligned_cols=97  Identities=16%  Similarity=0.236  Sum_probs=76.2

Q ss_pred             EEEEe-hHHHHHHHHHhhccCCEEEEEEeCCeEEEEEEeccee--EEEEEeecccCCCCCCceEEEecCcEEEEEehHHH
Q 024527          136 IVRMP-SAEFARICKDLASIGDTVVISVTKEGVKFSTRGDIGT--ANIVLRQNTTVDKPEEATIIEMHEPVSLTFALRYM  212 (266)
Q Consensus       136 ~i~~~-s~~~~~~i~~~~~~~d~v~i~~~~~~l~~s~~gd~g~--~~~~~~~~~~~~~~~~~~~~~~~~~~~~~f~~~yL  212 (266)
                      +++.+ ++.|+.+++.++.+.+.+.|.++++.+.+.+-....-  .+..+.       .+..-..+|.++..+..++..|
T Consensus         2 ~i~~~da~~fk~i~~~lk~l~~e~~~~~~~~Gi~iq~mD~s~v~lv~l~L~-------~~~F~~Y~~~~~~~igv~~~~l   74 (119)
T d1ud9a1           2 HIVYDDVRDLKAIIQALLKLVDEALFDIKPEGIQLVAIDKAHISLIKIELP-------KEMFKEYDVPEEFKFGFNTQYM   74 (119)
T ss_dssp             EEEESCHHHHHHHHHHHHHHCSEEEEEEETTEEEEEEECTTSSEEEEEEEE-------GGGSSEEECSSCEEEEEEHHHH
T ss_pred             cEEccCHHHHHHHHHHHHHHhceEEEEEccCeEEEEEeCCCCEEEEEEEeC-------HHHCcccccCCCEEEEEEHHHH
Confidence            33444 4999999999999999999999999999988753333  344442       1333357888999999999999


Q ss_pred             HhccccCCCCceEEEEecCCCcEEEEE
Q 024527          213 NSFTRATPLSNTVTISLSSELPVVVEY  239 (266)
Q Consensus       213 ~~~~k~~~ls~~v~l~~~~~~Pl~l~~  239 (266)
                      .+++|.++-++.+.++..++--|.+.+
T Consensus        75 ~kilk~~~~~d~l~l~~~~~~~l~i~~  101 (119)
T d1ud9a1          75 SKLLKAAKRKEEIIIDADSPEVVKLTL  101 (119)
T ss_dssp             HHHHTTCCSCCCEEEEEEETTEEEEEE
T ss_pred             HHHHhhCCCCCEEEEEeCCCCEEEEEE
Confidence            999999988899999987666666664

>d1vpka1 d.131.1.1 (A:1-120) DNA polymerase III, beta subunit {Thermotoga maritima [TaxId: 2336]}

class: Alpha and beta proteins (a+b)
fold: DNA clamp
superfamily: DNA clamp
family: DNA polymerase III, beta subunit
domain: DNA polymerase III, beta subunit
species: Thermotoga maritima [TaxId: 2336]

Probab=96.71  E-value=0.024  Score=40.22  Aligned_cols=88  Identities=10%  Similarity=0.180  Sum_probs=65.6

Q ss_pred             EEEEehHHHHHHHHHhhccCC---------EEEEEEeCCeEEEEEEe-cceeEEEEEeecccCCCCCCceEEEecCcEEE
Q 024527          136 IVRMPSAEFARICKDLASIGD---------TVVISVTKEGVKFSTRG-DIGTANIVLRQNTTVDKPEEATIIEMHEPVSL  205 (266)
Q Consensus       136 ~i~~~s~~~~~~i~~~~~~~d---------~v~i~~~~~~l~~s~~g-d~g~~~~~~~~~~~~~~~~~~~~~~~~~~~~~  205 (266)
                      +++++...|.++++.+..+.+         .|.|.++++.+.+.+.. |.+ ....+.            ..++.++-+.
T Consensus         2 k~~i~~~~L~~al~~v~~~i~~~~~~piL~~ili~~~~~~l~l~aTD~e~~-i~~~i~------------~~~i~~~G~~   68 (120)
T d1vpka1           2 KVTVTTLELKDKITIASKALAKKSVKPILAGFLFEVKDGNFYICATDLETG-VKATVN------------AAEISGEARF   68 (120)
T ss_dssp             EEEEEHHHHHHHHHHHGGGCCCSSSCGGGGEEEEEEETTEEEEEEECSSEE-EEEECC------------CSEEEECEEE
T ss_pred             EEEEEHHHHHHHHHHHHHHccCCCchhHhcCeEEEEECCEEEEEEeeceee-EEEEec------------ccceeecccc
Confidence            678999999999999998753         68999999999998874 322 222221            0234566788


Q ss_pred             EEehHHHHhccccCCCCceEEEEecCCCcEEEE
Q 024527          206 TFALRYMNSFTRATPLSNTVTISLSSELPVVVE  238 (266)
Q Consensus       206 ~f~~~yL~~~~k~~~ls~~v~l~~~~~~Pl~l~  238 (266)
                      ..+.+.|.+++|.++ ++.|.+...++ -+.++
T Consensus        69 ~vpak~l~~iir~lp-~~~v~l~~~~~-~l~I~   99 (120)
T d1vpka1          69 VVPGDVIQKMVKVLP-DEITELSLEGD-ALVIS   99 (120)
T ss_dssp             EEEC-CHHHHHTTCC-SSEEEEEEETT-EEEEE
T ss_pred             hhhhhHHHHHHhhCC-CCcEEEEEeCC-EEEEE
Confidence            999999999999987 78899998765 34444

>d1vpka3 d.131.1.1 (A:244-366) DNA polymerase III, beta subunit {Thermotoga maritima [TaxId: 2336]}

class: Alpha and beta proteins (a+b)
fold: DNA clamp
superfamily: DNA clamp
family: DNA polymerase III, beta subunit
domain: DNA polymerase III, beta subunit
species: Thermotoga maritima [TaxId: 2336]

Probab=96.01  E-value=0.044  Score=38.92  Aligned_cols=89  Identities=11%  Similarity=0.154  Sum_probs=66.5

Q ss_pred             ChhhHHHHHHHHHhhhc----eeeEEEeCCceEEEEECCCCeEEEEEEecCCCcceeeeCCcEEEEEEhhhHHHHhcccC
Q 024527            8 QGSLLKKVLEAIKELVN----DANFDCSATGFSLQAMDSSHVALVALLLRSEGFEHYRCDRNISMGMNLNNVSKMLKCAG   83 (266)
Q Consensus         8 ~~~~~k~i~~~l~~l~~----~~~~~~~~~gl~~~a~D~~r~a~v~~~l~~~~F~~y~~~~~~~~gi~l~~L~~ilk~~~   83 (266)
                      +...|...++-++-+.+    .+.|.++++++.+.+.++. ..-..-.++.    +|. .+++++++|.+.|.++|+.+.
T Consensus        15 ~r~~l~~al~Rv~~~s~~~~~~V~l~~~~~~l~l~s~~~e-~g~~~e~i~~----~~~-Ge~~~i~fN~~yL~d~L~~~~   88 (123)
T d1vpka3          15 SRKELRESLKRVMVIASKGSESVKFEIEENVMRLVSKSPD-YGEVVDEVEV----QKE-GEDLVIAFNPKFIEDVLKHIE   88 (123)
T ss_dssp             EHHHHHHHHHHHHHHHTTTTCCEEEEECSSEEEEEEEETT-TEEEEEEEEC----EEE-ECCEEEEECHHHHHHHHHHCC
T ss_pred             EHHHHHHHHHHHHHHhcCCCcceEEEecCCceEEEecccc-chhccccccc----ccc-CCCeEEEECHHHHHHHHhhCC
Confidence            46677888887765543    5889999999999987754 4445555542    243 236899999999999999997


Q ss_pred             CCceEEEEEcCCCCeEEEEE
Q 024527           84 NDDIITLKADDGSDTVTFMF  103 (266)
Q Consensus        84 ~~d~l~l~~~~~~~~l~i~~  103 (266)
                       ++.+.|.+.+...++.|+-
T Consensus        89 -~~~V~l~~~~~~~p~~i~~  107 (123)
T d1vpka3          89 -TEEIEMNFVDSTSPCQINP  107 (123)
T ss_dssp             -SSEEEEEESCTTSCEEEEE
T ss_pred             -CCEEEEEEcCCCCCEEEec
Confidence             4689999977777777753

>d1dmla1 d.131.1.2 (A:29-169) UL42 {Human herpesvirus type 1 [TaxId: 10298]}

class: Alpha and beta proteins (a+b)
fold: DNA clamp
superfamily: DNA clamp
family: DNA polymerase processivity factor
domain: UL42
species: Human herpesvirus type 1 [TaxId: 10298]

Probab=89.65  E-value=0.58  Score=33.30  Aligned_cols=90  Identities=18%  Similarity=0.238  Sum_probs=65.0

Q ss_pred             eEEEcChhhHHHHHHHHHhh---hceeeEEEeCCceEEEEECCCCeEEEEEEecCCCcceeeeCCcE-EE--EEE-hhhH
Q 024527            3 ELRLVQGSLLKKVLEAIKEL---VNDANFDCSATGFSLQAMDSSHVALVALLLRSEGFEHYRCDRNI-SM--GMN-LNNV   75 (266)
Q Consensus         3 ~a~~~~~~~~k~i~~~l~~l---~~~~~~~~~~~gl~~~a~D~~r~a~v~~~l~~~~F~~y~~~~~~-~~--gi~-l~~L   75 (266)
                      +|++. ...|..++++++++   +.+..+-|.++|+-+++.  =.-=++-+-|+.+.|++|+-.++- .|  -++ -..|
T Consensus         4 r~vL~-g~~L~~~~~a~~Pl~~~Lkd~~LvF~e~GllIh~s--v~gEQVyvpi~~~~Fs~Y~W~GP~AvFLa~vD~rrsL   80 (141)
T d1dmla1           4 QVVLQ-GAELNGILQAFAPLRTSLLDSLLVMGDRGILIHNT--IFGEQVFLPLEHSQFSRYRWRGPTAAFLSLVDQKRSL   80 (141)
T ss_dssp             EEEEE-HHHHHHHHHHHGGGTTTTSSCEEEEETTEEEEEEE--ETTEEEEEEEEGGGSSEEECCSSCEEEESEEETTEET
T ss_pred             EEEEe-chhHHHHHHHHHHHHHhhcCcEEEecCCceEEEEe--ecceEEEEEcChHhcceeEecCCceeeeeecccchhH
Confidence            34444 67889999999998   678999999999999973  234467888999999999988752 22  333 3468


Q ss_pred             HHHhcccCCCc--eEEEEEcCC
Q 024527           76 SKMLKCAGNDD--IITLKADDG   95 (266)
Q Consensus        76 ~~ilk~~~~~d--~l~l~~~~~   95 (266)
                      ..++|.-+..+  .+.+++.+.
T Consensus        81 LdAFr~~k~~~v~~V~f~i~G~  102 (141)
T d1dmla1          81 LSVFRANQYPDLRRVELAITGQ  102 (141)
T ss_dssp             TSTTSTTTCTTEEEEEEEEESC
T ss_pred             HHHhcccCCCCcEEEEEEEecC
Confidence            88888655433  366666543

>d1vpka2 d.131.1.1 (A:121-243) DNA polymerase III, beta subunit {Thermotoga maritima [TaxId: 2336]}

class: Alpha and beta proteins (a+b)
fold: DNA clamp
superfamily: DNA clamp
family: DNA polymerase III, beta subunit
domain: DNA polymerase III, beta subunit
species: Thermotoga maritima [TaxId: 2336]

Probab=89.42  E-value=2.3  Score=29.38  Aligned_cols=94  Identities=14%  Similarity=0.217  Sum_probs=62.7

Q ss_pred             CcEEEEEEhhhHHHHhccc----CCCc------eEEEEEcCCCCeEEEEEeCCCCCeEEEEEEeeeecCCCCCCCCccee
Q 024527           64 RNISMGMNLNNVSKMLKCA----GNDD------IITLKADDGSDTVTFMFESPTQDKIADFEMKLMDIDSEHLGIPEAEY  133 (266)
Q Consensus        64 ~~~~~gi~l~~L~~ilk~~----~~~d------~l~l~~~~~~~~l~i~~~~~~~~~~~~~~l~li~~~~~~~~ip~~~~  133 (266)
                      ..++|.|+.+.|.++++..    ..++      .+.+..+++  .+.+.-.+.       |.+...+.+.+.      +-
T Consensus         3 ~~~~f~i~~~~L~~~I~~v~fA~s~d~~r~~L~Gv~~~~~~~--~l~~vATDg-------~RLa~~~~~~~~------~~   67 (123)
T d1vpka2           3 SGITFEVDTSLLEEMVEKVIFAAAKDEFMRNLNGVFWELHKN--LLRLVASDG-------FRLALAEEQIEN------EE   67 (123)
T ss_dssp             SSEEEEEEHHHHHHHHHHHGGGSCCCTTCTTTSEEEEEEETT--EEEEEEECS-------SEEEEEEEECCC------CS
T ss_pred             CceEEEECHHHHHHHHhheeEEeccCCccceEEeEEEEEecC--ceEEEEEee-------eeeeeeehhccc------CC
Confidence            4578999999999988753    2332      367777654  676654332       223333222111      12


Q ss_pred             eEEEEEehHHHHHHHHHhhccCC-EEEEEEeCCeEEEEEE
Q 024527          134 HAIVRMPSAEFARICKDLASIGD-TVVISVTKEGVKFSTR  172 (266)
Q Consensus       134 ~~~i~~~s~~~~~~i~~~~~~~d-~v~i~~~~~~l~~s~~  172 (266)
                      +..+.+|++.+.++.+-+....+ .|+|..+++++.|+..
T Consensus        68 ~~~~iiP~k~l~el~k~l~~~~~~~v~i~~~~~~i~~~~~  107 (123)
T d1vpka2          68 EASFLLSLKSMKEVQNVLDNTTEPTITVRYDGRRVSLSTN  107 (123)
T ss_dssp             CEEEEEEHHHHHHHHHHHHTCCCSEEEEEECSSEEEEECS
T ss_pred             cccEEEeechhhHHHhhhcccccceEEEEECCCEEEEEEC
Confidence            35689999999999888887654 8999999999988654