Citrus Sinensis ID: 033679

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Local Sequence Feature Prediction

Residue Number Marker
--------10--------20--------30--------40--------50--------60--------70--------80--------90-------100-------110---
Protein Sequence
MTSIGWVLIFFCTENGQREVLKGCKLVFSHAFPSKFPAHIHYLWKVVEQLGATCSIELDPSVTHVVSNKCSNEKVSLGSKGGQVFGGSTVDRGSQLFVARATRREVSCEANQT
Secondary Structure (PSIPRED)
ccEEcEEEEEEEEcccHHccccccEEEEcccccccccccccHHHHHHHHcccEEEEEccccccEEEEcccccHHHHHHHHccccEEcccHHHHHHHHHccccccccccccccc
Secondary Structure Prediction (SSPRO)
cccHHHHHHHHHHHHHHHHHHcccEEEEEEEEcccccccccHHHHHHHHHccEEccccccccEEEEEccccHHHHHHHHHcccEEccccHHHHHHHHHHccccccEEEEcccc
Coil and Loop (DISEMBL)
MTSIGWVLIFFCTengqrevlkgcklvfshafpskfpaHIHYLWKVVEQLGAtcsieldpsvthvvsnkcsnekvslgskggqvfggstvdrGSQLFVARATRREVSCEANQT
Flexible Loop (DISEMBL)
MTSIGWVLIFFCTENGQREVLKGCKLVFSHAFPSKFPAHIHYLWKVVEQLGATCSIELDPSVTHVVSNKCSNEkvslgskggqvfggstvdrgsqlfvaratrrevsceanqt
Low Complexity Region (SEG)
MTSIGWVLIFFCTENGQREVLKGCKLVFSHAFPSKFPAHIHYLWKVVEQLGATCSIELDPSVTHVVSNKCSNEKVSLGSKGGQVFGGSTVDRGSQLFVARATRREVSCEANQT
Disordered region (IsUnstruct)
***IGWVLIFFCTENGQREVLKGCKLVFSHAFPSKFPAHIHYLWKVVEQLGATCSIELDPSVTHVVSNKC**************F**********LFV***************
Disordered Region (DISOPRED)
**SIGWVLIFFCTENGQREVLKGCKLVFSHAFPSKFPAHIHYLWKVVEQLGATCSIELDPSVTHVVSNKCSNEKVSLGSKGGQVFGGSTVDRGSQLFVARATRRE*SC*****
Disordered Region (DISEMBL)
MTSIGWVLIFFCTENGQREVLKGCKLVFSHAFPSKFPAHIHYLWKVVEQLGATCSIELDPSVTHVVSNKCSNEKVSLGSKGGQVFGGSTVDRGSQLFVARATR**********
Disordered Region (DISPRO)
*TSIGWVLIFFCTENGQREVLKGCKLVFSHAFPSKFPAHIHYLWKVVEQLGATCSIELDPSVTHVVSNKCSNEKVSLGSKGGQVFGGSTVDRGSQLFVARATRREVSCEA***
Transmembrane Helix (TMHMM)
ooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooo
Transmembrane Helix (HMMTOP)
ooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooo
Transmembrane Helix (MEMSAT)
iiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiihhhhhhhhhhhhhhhhhhhoooooooooooooooooooooooooooooooooooooooooooo
TM Helix, Signal Peptide (MEMSAT_SVM)
iiiiiiiiiiiiiiiiiihhhhhhhhhhhhhhhhooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooo
TM Helix, Signal Peptide (Phobius)
ooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooo
Signal Peptide (SignalP HMM Mode)
xxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxx
Signal Peptide (SignalP NN Mode)
xxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxx
Coiled Coils (COILS)
MTSIGWVLIFFCTENGQREVLKGCKLVFSHAFPSKFPAHIHYLWKVVEQLGATCSIELDPSVTHVVSNKCSNEKVSLGSKGGQVFGGSTVDRGSQLFVARATRREVSCEANQT
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	113	2.2.26 [Sep-21-2011]
Q00IB6	440	RNA polymerase II C-termi	yes	no	0.513	0.131	0.551	2e-13
Q8LL04	1241	RNA polymerase II C-termi	no	no	0.530	0.048	0.442	1e-10

>sp|Q00IB6|CPL4_ARATH RNA polymerase II C-terminal domain phosphatase-like 4 OS=Arabidopsis thaliana GN=CPL4 PE=1 SV=1

 Score = 74.7 bits (182), Expect = 2e-13,   Method: Composition-based stats.
 Identities = 32/58 (55%), Positives = 42/58 (72%)

Query: 17  QREVLKGCKLVFSHAFPSKFPAHIHYLWKVVEQLGATCSIELDPSVTHVVSNKCSNEK 74
           ++E+LKGCK+VFS  FP+K     H LWK+ E+LGATC+ E+D SVTHVV+     EK
Sbjct: 338 RKEILKGCKIVFSRVFPTKAKPEDHPLWKMAEELGATCATEVDASVTHVVAMDVGTEK 395

Processively dephosphorylates 'Ser-2' and/or 'Ser-5' of the heptad repeats YSPTSPS in the C-terminal domain of the largest RNA polymerase II subunit (RPB1). This promotes the activity of RNA polymerase II (By similarity). Required for normal plant growth.
Arabidopsis thaliana (taxid: 3702)
EC: 3EC: .EC: 1EC: .EC: 3EC: .EC: 1EC: 6

>sp|Q8LL04|CPL3_ARATH RNA polymerase II C-terminal domain phosphatase-like 3 OS=Arabidopsis thaliana GN=CPL3 PE=1 SV=2

 Score = 65.1 bits (157), Expect = 1e-10,   Method: Composition-based stats.
 Identities = 27/61 (44%), Positives = 40/61 (65%), Gaps = 1/61 (1%)

Query: 17   QREVLKGCKLVFSHAFP-SKFPAHIHYLWKVVEQLGATCSIELDPSVTHVVSNKCSNEKV 75
            QR++L GC++VFS   P  +   H+H LW+  EQ GA C+ ++D  VTHVV+N    +KV
Sbjct: 1147 QRKILAGCRIVFSRIIPVGEAKPHLHPLWQTAEQFGAVCTTQVDEHVTHVVTNSLGTDKV 1206

Query: 76   S 76
            +
Sbjct: 1207 N 1207

Processively dephosphorylates 'Ser-2' and/or 'Ser-5' of the heptad repeats YSPTSPS in the C-terminal domain of the largest RNA polymerase II subunit (RPB1). This promotes the activity of RNA polymerase II (By similarity). Negative regulator of stress gene transcription involved in abscisic acid (ABA) mediated signaling pathway and cold resistance.

Arabidopsis thaliana (taxid: 3702)

EC: 3

EC: .

EC: 1

EC: .

EC: 3

EC: .

EC: 1

EC: 6

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	113
255570505	478	RNA polymerase II ctd phosphatase, putat	0.513	0.121	0.637	2e-15
296090640	264	unnamed protein product [Vitis vinifera]	0.513	0.219	0.637	4e-15
359494894	278	PREDICTED: RNA polymerase II C-terminal	0.513	0.208	0.637	5e-15
147774299	641	hypothetical protein VITISV_002430 [Viti	0.513	0.090	0.620	6e-15
296088193	638	unnamed protein product [Vitis vinifera]	0.513	0.090	0.620	6e-15
359497210	278	PREDICTED: RNA polymerase II C-terminal	0.513	0.208	0.620	1e-14
224142399	312	predicted protein [Populus trichocarpa]	0.592	0.214	0.567	1e-14
449532013	340	PREDICTED: LOW QUALITY PROTEIN: RNA poly	0.495	0.164	0.660	4e-14
224142401	266	predicted protein [Populus trichocarpa]	0.513	0.218	0.620	5e-14
449447765	452	PREDICTED: RNA polymerase II C-terminal	0.495	0.123	0.660	1e-13

>gi|255570505|ref|XP_002526210.1| RNA polymerase II ctd phosphatase, putative [Ricinus communis] gi|223534449|gb|EEF36151.1| RNA polymerase II ctd phosphatase, putative [Ricinus communis]

 Score = 86.3 bits (212), Expect = 2e-15,   Method: Composition-based stats.
 Identities = 37/58 (63%), Positives = 47/58 (81%)

Query: 17  QREVLKGCKLVFSHAFPSKFPAHIHYLWKVVEQLGATCSIELDPSVTHVVSNKCSNEK 74
           +++VLKGCK+VFS  FP++F A  H+LWK+ EQLGATCS E+DPSVTHVVS +   EK
Sbjct: 379 RKDVLKGCKIVFSRVFPTQFQADNHHLWKMAEQLGATCSREVDPSVTHVVSAEAGTEK 436

Source: Ricinus communis

Species: Ricinus communis

Genus: Ricinus

Family: Euphorbiaceae

Order: Malpighiales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|296090640|emb|CBI41034.3| unnamed protein product [Vitis vinifera]

 Score = 85.5 bits (210), Expect = 4e-15,   Method: Compositional matrix adjust.
 Identities = 37/58 (63%), Positives = 46/58 (79%)

Query: 17  QREVLKGCKLVFSHAFPSKFPAHIHYLWKVVEQLGATCSIELDPSVTHVVSNKCSNEK 74
           ++EVLKGCK+VFS  FP++F A  H+LW++ EQLGATC+ ELDPSVTHVVS     EK
Sbjct: 167 RKEVLKGCKIVFSRVFPTRFQAENHHLWRMAEQLGATCATELDPSVTHVVSTDAGTEK 224

Source: Vitis vinifera

Species: Vitis vinifera

Genus: Vitis

Family: Vitaceae

Order: Vitales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|359494894|ref|XP_003634864.1| PREDICTED: RNA polymerase II C-terminal domain phosphatase-like 4-like [Vitis vinifera]

 Score = 85.1 bits (209), Expect = 5e-15,   Method: Compositional matrix adjust.
 Identities = 37/58 (63%), Positives = 46/58 (79%)

Query: 17  QREVLKGCKLVFSHAFPSKFPAHIHYLWKVVEQLGATCSIELDPSVTHVVSNKCSNEK 74
           ++EVLKGCK+VFS  FP++F A  H+LW++ EQLGATC+ ELDPSVTHVVS     EK
Sbjct: 181 RKEVLKGCKIVFSRVFPTRFQAENHHLWRMAEQLGATCATELDPSVTHVVSTDAGTEK 238

Source: Vitis vinifera

Species: Vitis vinifera

Genus: Vitis

Family: Vitaceae

Order: Vitales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|147774299|emb|CAN76945.1| hypothetical protein VITISV_002430 [Vitis vinifera]

 Score = 84.7 bits (208), Expect = 6e-15,   Method: Compositional matrix adjust.
 Identities = 36/58 (62%), Positives = 46/58 (79%)

Query: 17  QREVLKGCKLVFSHAFPSKFPAHIHYLWKVVEQLGATCSIELDPSVTHVVSNKCSNEK 74
           +++VLKGCK+VFS  FP++F A  H+LW++ EQLGATC+ ELDPSVTHVVS     EK
Sbjct: 167 RKDVLKGCKIVFSRVFPTRFQAENHHLWRMAEQLGATCATELDPSVTHVVSTDAGTEK 224

Source: Vitis vinifera

Species: Vitis vinifera

Genus: Vitis

Family: Vitaceae

Order: Vitales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|296088193|emb|CBI35709.3| unnamed protein product [Vitis vinifera]

 Score = 84.7 bits (208), Expect = 6e-15,   Method: Compositional matrix adjust.
 Identities = 36/58 (62%), Positives = 46/58 (79%)

Query: 17  QREVLKGCKLVFSHAFPSKFPAHIHYLWKVVEQLGATCSIELDPSVTHVVSNKCSNEK 74
           +++VLKGCK+VFS  FP++F A  H+LW++ EQLGATC+ ELDPSVTHVVS     EK
Sbjct: 167 RKDVLKGCKIVFSRVFPTRFQAENHHLWRMAEQLGATCATELDPSVTHVVSTDAGTEK 224

Source: Vitis vinifera

Species: Vitis vinifera

Genus: Vitis

Family: Vitaceae

Order: Vitales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|359497210|ref|XP_003635453.1| PREDICTED: RNA polymerase II C-terminal domain phosphatase-like 4-like [Vitis vinifera]

 Score = 84.0 bits (206), Expect = 1e-14,   Method: Compositional matrix adjust.
 Identities = 36/58 (62%), Positives = 46/58 (79%)

Query: 17  QREVLKGCKLVFSHAFPSKFPAHIHYLWKVVEQLGATCSIELDPSVTHVVSNKCSNEK 74
           +++VLKGCK+VFS  FP++F A  H+LW++ EQLGATC+ ELDPSVTHVVS     EK
Sbjct: 181 RKDVLKGCKIVFSRVFPTRFQAENHHLWRMAEQLGATCATELDPSVTHVVSTDAGTEK 238

Source: Vitis vinifera

Species: Vitis vinifera

Genus: Vitis

Family: Vitaceae

Order: Vitales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|224142399|ref|XP_002324546.1| predicted protein [Populus trichocarpa] gi|222865980|gb|EEF03111.1| predicted protein [Populus trichocarpa]

 Score = 83.6 bits (205), Expect = 1e-14,   Method: Compositional matrix adjust.
 Identities = 38/67 (56%), Positives = 48/67 (71%)

Query: 17  QREVLKGCKLVFSHAFPSKFPAHIHYLWKVVEQLGATCSIELDPSVTHVVSNKCSNEKVS 76
           +++VLKGCK+VFS  FP++  A  H+LW++ EQLGATCS ELDPSVTHVVS     EK  
Sbjct: 221 RKDVLKGCKIVFSRVFPTQSQADNHHLWRMAEQLGATCSTELDPSVTHVVSKDSGTEKSH 280

Query: 77  LGSKGGQ 83
             SK  +
Sbjct: 281 WASKHNK 287

Source: Populus trichocarpa

Species: Populus trichocarpa

Genus: Populus

Family: Salicaceae

Order: Malpighiales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|449532013|ref|XP_004172979.1| PREDICTED: LOW QUALITY PROTEIN: RNA polymerase II C-terminal domain phosphatase-like 4-like, partial [Cucumis sativus]

 Score = 82.0 bits (201), Expect = 4e-14,   Method: Composition-based stats.
 Identities = 37/56 (66%), Positives = 42/56 (75%)

Query: 19  EVLKGCKLVFSHAFPSKFPAHIHYLWKVVEQLGATCSIELDPSVTHVVSNKCSNEK 74
           EVL+GCK+VFS  FP+KF A  H LWK+VEQLG TCS ELD SVTHVV+     EK
Sbjct: 240 EVLEGCKVVFSRVFPTKFQAENHQLWKMVEQLGGTCSTELDQSVTHVVATDAGTEK 295

Source: Cucumis sativus

Species: Cucumis sativus

Genus: Cucumis

Family: Cucurbitaceae

Order: Cucurbitales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|224142401|ref|XP_002324547.1| predicted protein [Populus trichocarpa] gi|222865981|gb|EEF03112.1| predicted protein [Populus trichocarpa]

 Score = 81.6 bits (200), Expect = 5e-14,   Method: Compositional matrix adjust.
 Identities = 36/58 (62%), Positives = 45/58 (77%)

Query: 17  QREVLKGCKLVFSHAFPSKFPAHIHYLWKVVEQLGATCSIELDPSVTHVVSNKCSNEK 74
           +++VLKGCK+VFS  FP++  A  H+LW++ EQLGATCS ELDPSVTHVVS     EK
Sbjct: 170 RKDVLKGCKIVFSRVFPTQSQADNHHLWRMAEQLGATCSTELDPSVTHVVSKDSGTEK 227

Source: Populus trichocarpa

Species: Populus trichocarpa

Genus: Populus

Family: Salicaceae

Order: Malpighiales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|449447765|ref|XP_004141638.1| PREDICTED: RNA polymerase II C-terminal domain phosphatase-like 4-like [Cucumis sativus]

 Score = 80.9 bits (198), Expect = 1e-13,   Method: Compositional matrix adjust.
 Identities = 37/56 (66%), Positives = 42/56 (75%)

Query: 19  EVLKGCKLVFSHAFPSKFPAHIHYLWKVVEQLGATCSIELDPSVTHVVSNKCSNEK 74
           EVL+GCK+VFS  FP+KF A  H LWK+VEQLG TCS ELD SVTHVV+     EK
Sbjct: 352 EVLEGCKVVFSRVFPTKFQAENHQLWKMVEQLGGTCSTELDQSVTHVVATDAGTEK 407

Source: Cucumis sativus

Species: Cucumis sativus

Genus: Cucumis

Family: Cucurbitaceae

Order: Cucurbitales

Phylum: Streptophyta

Superkingdom: Eukaryota

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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	113
TAIR|locus:4010714056	440	CPL4 "C-terminal domain phosph	0.513	0.131	0.551	9.9e-13
TAIR|locus:2051164	1241	CPL3 "C-terminal domain phosph	0.530	0.048	0.442	1.1e-09

TAIR|locus:4010714056 CPL4 "C-terminal domain phosphatase-like 4" [Arabidopsis thaliana (taxid:3702)]

 Score = 176 (67.0 bits), Expect = 9.9e-13, P = 9.9e-13
 Identities = 32/58 (55%), Positives = 42/58 (72%)

Query:    17 QREVLKGCKLVFSHAFPSKFPAHIHYLWKVVEQLGATCSIELDPSVTHVVSNKCSNEK 74
             ++E+LKGCK+VFS  FP+K     H LWK+ E+LGATC+ E+D SVTHVV+     EK
Sbjct:   338 RKEILKGCKIVFSRVFPTKAKPEDHPLWKMAEELGATCATEVDASVTHVVAMDVGTEK 395

GO:0004721 "phosphoprotein phosphatase activity" evidence=IEA

GO:0005622 "intracellular" evidence=IEA

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

GO:0008022 "protein C-terminus binding" evidence=IPI

GO:0009651 "response to salt stress" evidence=IEP

TAIR|locus:2051164 CPL3 "C-terminal domain phosphatase-like 3" [Arabidopsis thaliana (taxid:3702)]

 Score = 154 (59.3 bits), Expect = 1.1e-09, P = 1.1e-09
 Identities = 27/61 (44%), Positives = 40/61 (65%)

Query:    17 QREVLKGCKLVFSHAFP-SKFPAHIHYLWKVVEQLGATCSIELDPSVTHVVSNKCSNEKV 75
             QR++L GC++VFS   P  +   H+H LW+  EQ GA C+ ++D  VTHVV+N    +KV
Sbjct:  1147 QRKILAGCRIVFSRIIPVGEAKPHLHPLWQTAEQFGAVCTTQVDEHVTHVVTNSLGTDKV 1206

Query:    76 S 76
             +
Sbjct:  1207 N 1207


Parameters:
  V=100
  filter=SEG
  E=0.001

  ctxfactor=1.00

  Query                        -----  As Used  -----    -----  Computed  ----
  Frame  MatID Matrix name     Lambda    K       H      Lambda    K       H
   +0      0   BLOSUM62        0.321   0.133   0.413    same    same    same
               Q=9,R=2         0.244   0.0300  0.180     n/a     n/a     n/a

  Query
  Frame  MatID  Length  Eff.Length     E     S W   T  X   E2     S2
   +0      0      113       113   0.00091  102 3  11 22  0.44    30
                                                     29  0.44    32


Statistics:

  Database:  /share/blast/go-seqdb.fasta
   Title:  go_20130330-seqdb.fasta
   Posted:  5:47:42 AM PDT Apr 1, 2013
   Created:  5:47:42 AM PDT Apr 1, 2013
   Format:  XDF-1
   # of letters in database:  169,044,731
   # of sequences in database:  368,745
   # of database sequences satisfying E:  2
  No. of states in DFA:  575 (61 KB)
  Total size of DFA:  133 KB (2083 KB)
  Time to generate neighborhood:  0.00u 0.00s 0.00t   Elapsed:  00:00:00
  No. of threads or processors used:  24
  Search cpu time:  12.03u 0.11s 12.14t   Elapsed:  00:00:01
  Total cpu time:  12.03u 0.11s 12.14t   Elapsed:  00:00:01
  Start:  Thu May  9 23:08:40 2013   End:  Thu May  9 23:08:41 2013

GO:0004721 "phosphoprotein phosphatase activity" evidence=IEA

GO:0005622 "intracellular" evidence=IEA

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

GO:0008420 "CTD phosphatase activity" evidence=ISS

GO:0008022 "protein C-terminus binding" evidence=IPI

GO:0009651 "response to salt stress" evidence=IEP

GO:0009788 "negative regulation of abscisic acid mediated signaling pathway" evidence=IMP

GO:0000394 "RNA splicing, via endonucleolytic cleavage and ligation" evidence=RCA

GO:0006366 "transcription from RNA polymerase II promoter" evidence=RCA

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Prediction of Enzyme Commission (EC) Number

EC Number Prediction by Annotation Transfer from SWISS-PROT Entries

Original result of BLAST against SWISS-PROT

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

EC Number Prediction by Ezypred Server

Original result from Ezypred Server

Fail to connect to Ezypred Server

EC Number Prediction by EFICAz Software

No EC number assignment, probably not an enzyme!

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Prediction of Functionally Associated Proteins

Functionally Associated Proteins Detected by STRING

Original result from the STRING server

Fail to connect to STRING server

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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	113
smart00292	78	smart00292, BRCT, breast cancer carboxy-terminal d	7e-05
pfam12738	63	pfam12738, PTCB-BRCT, twin BRCT domain	0.002

>gnl|CDD|214602 smart00292, BRCT, breast cancer carboxy-terminal domain

 Score = 38.1 bits (89), Expect = 7e-05
 Identities = 13/61 (21%), Positives = 25/61 (40%), Gaps = 4/61 (6%)

Query: 18 REVLKGCKLVFSHAFPSKFPAHIHYLWKVVEQLGATCSIELD-PSVTHVVSNKCSNEKVS 76
           ++ KG     + +F  +       L +++E LG   +  L   + THV+       K+ 
Sbjct: 1  PKLFKGKTFYITGSFDKE---ERDELKELIEALGGKVTSSLSSKTTTHVIVGSPEGGKLE 57

Query: 77 L 77
          L
Sbjct: 58 L 58

Length = 78

>gnl|CDD|193214 pfam12738, PTCB-BRCT, twin BRCT domain

 Score = 33.7 bits (78), Expect = 0.002
 Identities = 14/36 (38%), Positives = 20/36 (55%)

Query: 41 HYLWKVVEQLGATCSIELDPSVTHVVSNKCSNEKVS 76
           YL K++E LGA  S +L   VTH++  +   EK  
Sbjct: 14 KYLQKLIEALGAEYSKDLTKKVTHLICKRGEGEKYE 49

This is a BRCT domain that appears in duplicate in most member sequences. BRCT domains are peptide- and phosphopeptide-binding modules. BRCT domains are present in a number of proteins involved in DNA checkpoint controls and DNA repair. Length = 63

Conserved Domains Detected by HHsearch

Original result of HHsearch against CDD database

ID	Length	Definition	Probability
Query	113
PF12738	63	PTCB-BRCT: twin BRCT domain; PDB: 3PA6_A 3KTF_C 2W	99.78
PF00533	78	BRCT: BRCA1 C Terminus (BRCT) domain; InterPro: IP	99.72
KOG0323	635	consensus TFIIF-interacting CTD phosphatases, incl	99.67
smart00292	80	BRCT breast cancer carboxy-terminal domain.	99.65
cd00027	72	BRCT Breast Cancer Suppressor Protein (BRCA1), car	99.63
KOG3226	508	consensus DNA repair protein [Replication, recombi	99.61
PLN03123	981	poly [ADP-ribose] polymerase; Provisional	99.23
PLN03122	815	Poly [ADP-ribose] polymerase; Provisional	99.2
KOG1929	811	consensus Nucleotide excision repair factor NEF2,	98.74
KOG1929	811	consensus Nucleotide excision repair factor NEF2,	98.72
PRK14350	669	ligA NAD-dependent DNA ligase LigA; Provisional	98.51
PRK06063	313	DNA polymerase III subunit epsilon; Provisional	98.48
PRK06195	309	DNA polymerase III subunit epsilon; Validated	98.39
COG5275	276	BRCT domain type II [General function prediction o	98.32
TIGR00575	652	dnlj DNA ligase, NAD-dependent. The member of this	98.3
PRK14351	689	ligA NAD-dependent DNA ligase LigA; Provisional	98.27
PRK07956	665	ligA NAD-dependent DNA ligase LigA; Validated	98.21
KOG3524	850	consensus Predicted guanine nucleotide exchange fa	98.18
COG0272	667	Lig NAD-dependent DNA ligase (contains BRCT domain	98.07
KOG0966	881	consensus ATP-dependent DNA ligase IV [Replication	97.96
KOG3548	1176	consensus DNA damage checkpoint protein RHP9/CRB2/	97.94
KOG4362	684	consensus Transcriptional regulator BRCA1 [Replica	97.75
KOG2043	896	consensus Signaling protein SWIFT and related BRCT	97.69
KOG2481	570	consensus Protein required for normal rRNA process	97.38
COG5163	591	NOP7 Protein required for biogenesis of the 60S ri	97.25
KOG3524	850	consensus Predicted guanine nucleotide exchange fa	96.76
PRK05601	377	DNA polymerase III subunit epsilon; Validated	92.57
KOG0966	881	consensus ATP-dependent DNA ligase IV [Replication	90.99
COG5190	390	FCP1 TFIIF-interacting CTD phosphatases, including	85.6
COG1105	310	FruK Fructose-1-phosphate kinase and related fruct	81.32

>PF12738 PTCB-BRCT: twin BRCT domain; PDB: 3PA6_A 3KTF_C 2WT8_C 3EF1_A 3EF0_A

Probab=99.78  E-value=4.2e-19  Score=109.22  Aligned_cols=63  Identities=21%  Similarity=0.203  Sum_probs=54.1

Q ss_pred             cEEEEccccCCCCCccchHHHHHHHhcCCEEEeeeCCCccEEEecCCCcHHHHHHHhCCCeecCcch
Q 033679           24 CKLVFSHAFPSKFPAHIHYLWKVVEQLGATCSIELDPSVTHVVSNKCSNEKVSLGSKGGQVFGGSTV   90 (113)
Q Consensus        24 c~I~fSg~~p~~~~~~~~~l~~~a~~lGA~~~~~l~~~vTHlV~~~~~t~K~~~A~k~gi~IV~p~W   90 (113)
                      |+|+|||+.|.    ++..++++++++||++..+++.++||||+.+..++||+.|.++||+||+|+|
T Consensus         1 ~~i~~sg~~~~----~~~~l~~~i~~~Gg~~~~~lt~~~THLI~~~~~~~K~~~A~~~gi~vV~~~W   63 (63)
T PF12738_consen    1 VVICFSGFSGK----ERSQLRKLIEALGGKYSKDLTKKTTHLICSSPEGKKYRKAKEWGIPVVSPDW   63 (63)
T ss_dssp             -EEEEEEB-TT----TCCHHHHHHHCTT-EEESSSSTT-SEEEEES--HHHHHHHHHCTSEEEEHHH
T ss_pred             CEEEECCCCHH----HHHHHHHHHHHCCCEEeccccCCceEEEEeCCCcHHHHHHHHCCCcEECCCC
Confidence            68999998764    4669999999999999999999999999999999999999999999999999

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

Probab=99.72  E-value=2.7e-17  Score=102.79  Aligned_cols=75  Identities=16%  Similarity=0.215  Sum_probs=68.1

Q ss_pred             hhcCCCCcEEEEccccCCCCCccchHHHHHHHhcCCEEEeeeCCCccEEEecCC--CcHHHHHHHhCCCeecCcchHHHH
Q 033679           17 QREVLKGCKLVFSHAFPSKFPAHIHYLWKVVEQLGATCSIELDPSVTHVVSNKC--SNEKVSLGSKGGQVFGGSTVDRGS   94 (113)
Q Consensus        17 k~~vL~Gc~I~fSg~~p~~~~~~~~~l~~~a~~lGA~~~~~l~~~vTHlV~~~~--~t~K~~~A~k~gi~IV~p~WL~~c   94 (113)
                      +.++|+||.+++++. +   ..++..+.++++.+||++...+++.+||+|+.++  .+.|+..|...+++||+|+||.+|
T Consensus         2 ~~~~F~g~~f~i~~~-~---~~~~~~l~~~i~~~GG~v~~~~~~~~thvI~~~~~~~~~k~~~~~~~~i~iV~~~Wi~~c   77 (78)
T PF00533_consen    2 KPKIFEGCTFCISGF-D---SDEREELEQLIKKHGGTVSNSFSKKTTHVIVGNPNKRTKKYKAAIANGIPIVSPDWIEDC   77 (78)
T ss_dssp             STTTTTTEEEEESST-S---SSHHHHHHHHHHHTTEEEESSSSTTSSEEEESSSHCCCHHHHHHHHTTSEEEETHHHHHH
T ss_pred             CCCCCCCEEEEEccC-C---CCCHHHHHHHHHHcCCEEEeecccCcEEEEeCCCCCccHHHHHHHHCCCeEecHHHHHHh
Confidence            568999999999554 2   3577899999999999999999999999999987  899999999999999999999999


Q ss_pred             H
Q 033679           95 Q   95 (113)
Q Consensus        95 ~   95 (113)
                      .
T Consensus        78 i   78 (78)
T PF00533_consen   78 I   78 (78)
T ss_dssp             H
T ss_pred             C
Confidence            5

The domain is an approximately 100 amino acid tandem repeat, which appears to act as a phospho-protein binding domain []. A chitin biosynthesis protein from yeast also seems to belong to this group. ; GO: 0005622 intracellular; PDB: 3L46_A 3AL3_A 3AL2_A 1WF6_A 3II6_X 2NTE_B 3FA2_A 2R1Z_A 2COK_A 2K7F_A ....

>KOG0323 consensus TFIIF-interacting CTD phosphatases, including NLI-interacting factor [Transcription]

Probab=99.67  E-value=2.2e-17  Score=139.70  Aligned_cols=104  Identities=19%  Similarity=0.217  Sum_probs=97.9

Q ss_pred             HHHHHHhhhhcCCCCcEEEEccccCCCCCccchHHHHHHHhcCCEEEeeeCCCccEEEecCCCcHHHHHHHhCC-CeecC
Q 033679            9 IFFCTENGQREVLKGCKLVFSHAFPSKFPAHIHYLWKVVEQLGATCSIELDPSVTHVVSNKCSNEKVSLGSKGG-QVFGG   87 (113)
Q Consensus         9 ~~~il~~~k~~vL~Gc~I~fSg~~p~~~~~~~~~l~~~a~~lGA~~~~~l~~~vTHlV~~~~~t~K~~~A~k~g-i~IV~   87 (113)
                      ++.++|++|.++|+||.++|||.+|.+.+.++..+-..+.++||....+++..+||+|+.+++|.|+.+|...+ ++||+
T Consensus       430 vr~~i~~~~~~v~~~~~~vfSg~~P~~~~~~~s~~~~~~~~~g~vs~~~~~~~~th~i~~~~gt~k~~~a~~~~~~~Vv~  509 (635)
T KOG0323|consen  430 VRLLIPELRTKVLKGSQIVFSGLHPTGSTDESADILGVAQQLGAVSAPDVSDKTTHLIAANAGTKKVYKAVVSGSAKVVN  509 (635)
T ss_pred             hhhhhhhhhhHHhhccceeecccccCcCCcchhhhhhhhhcccceecccccchhhhHHhhccCcceeeccccccceeEec
Confidence            68899999999999999999999999888788888888999999999999999999999999999999999986 99999


Q ss_pred             cchHHHHHHhhCCCCCCceeccCCC
Q 033679           88 STVDRGSQLFVARATRREVSCEANQ  112 (113)
Q Consensus        88 p~WL~~c~~~w~r~dE~~y~~~~~~  112 (113)
                      ++||+.|..+|.+++|..|.+...|
T Consensus       510 ~~wl~~~~e~w~~v~ek~~~l~~~~  534 (635)
T KOG0323|consen  510 AAWLWRSLEKWGKVEEKLEPLDDDQ  534 (635)
T ss_pred             hhHHHHHHHHhcchhcccccccccc
Confidence            9999999999999999999986554

>smart00292 BRCT breast cancer carboxy-terminal domain

Probab=99.65  E-value=7.7e-16  Score=94.55  Aligned_cols=77  Identities=19%  Similarity=0.154  Sum_probs=66.0

Q ss_pred             cCCCCcEEEEccccCCCCCccchHHHHHHHhcCCEEEeeeCC-CccEEEecCCCcHH--HHHHHhCCCeecCcchHHHHH
Q 033679           19 EVLKGCKLVFSHAFPSKFPAHIHYLWKVVEQLGATCSIELDP-SVTHVVSNKCSNEK--VSLGSKGGQVFGGSTVDRGSQ   95 (113)
Q Consensus        19 ~vL~Gc~I~fSg~~p~~~~~~~~~l~~~a~~lGA~~~~~l~~-~vTHlV~~~~~t~K--~~~A~k~gi~IV~p~WL~~c~   95 (113)
                      .+|+|++++|+|.+   ...++..+++++..+||++...+++ ++||+|+.+....+  +..|.+.+++||+|+|+.+|.
T Consensus         1 ~~f~g~~~~~~g~~---~~~~~~~l~~~i~~~Gg~~~~~~~~~~~thvi~~~~~~~~~~~~~~~~~~~~iV~~~Wi~~~~   77 (80)
T smart00292        1 KLFKGKVFVITGKF---DKNERDELKELIEALGGKVTSSLSSKTTTHVIVGSPEGGKLELLLAIALGIPIVTEDWLLDCL   77 (80)
T ss_pred             CccCCeEEEEeCCC---CCccHHHHHHHHHHcCCEEecccCccceeEEEEcCCCCccHHHHHHHHcCCCCccHHHHHHHH
Confidence            47999999999932   3456789999999999999999999 99999999886555  467777899999999999998


Q ss_pred             Hhh
Q 033679           96 LFV   98 (113)
Q Consensus        96 ~~w   98 (113)
                      ..+
T Consensus        78 ~~~   80 (80)
T smart00292       78 KAG   80 (80)
T ss_pred             HCc
Confidence            754

>cd00027 BRCT Breast Cancer Suppressor Protein (BRCA1), carboxy-terminal domain

Probab=99.63  E-value=1.2e-15  Score=91.76  Aligned_cols=70  Identities=19%  Similarity=0.201  Sum_probs=63.3

Q ss_pred             CcEEEEccccCCCCCccchHHHHHHHhcCCEEEeeeCCCccEEEecCCCcHH-HHHHHhCCCeecCcchHHHHH
Q 033679           23 GCKLVFSHAFPSKFPAHIHYLWKVVEQLGATCSIELDPSVTHVVSNKCSNEK-VSLGSKGGQVFGGSTVDRGSQ   95 (113)
Q Consensus        23 Gc~I~fSg~~p~~~~~~~~~l~~~a~~lGA~~~~~l~~~vTHlV~~~~~t~K-~~~A~k~gi~IV~p~WL~~c~   95 (113)
                      ||.++|+|..+   ..++..+.++++.+||++..++++.+||+|+.+....+ +..|...+++||+++||.+|.
T Consensus         1 ~~~~~i~g~~~---~~~~~~l~~~i~~~Gg~v~~~~~~~~thvI~~~~~~~~~~~~~~~~~~~iV~~~Wi~~~~   71 (72)
T cd00027           1 GLTFVITGDLP---SEERDELKELIEKLGGKVTSSVSKKTTHVIVGSDAGPKKLLKAIKLGIPIVTPEWLLDCL   71 (72)
T ss_pred             CCEEEEEecCC---CcCHHHHHHHHHHcCCEEeccccCCceEEEECCCCCchHHHHHHHcCCeEecHHHHHHHh
Confidence            78999999875   45778999999999999999999999999999887666 888888899999999999996

The BRCT domain is found within many DNA damage repair and cell cycle checkpoint proteins. The unique diversity of this domain superfamily allows BRCT modules to interact forming homo/hetero BRCT multimers, BRCT-non-BRCT interactions, and interactions within DNA strand breaks.

>KOG3226 consensus DNA repair protein [Replication, recombination and repair]

Probab=99.61  E-value=3.8e-16  Score=125.55  Aligned_cols=91  Identities=15%  Similarity=0.064  Sum_probs=86.4

Q ss_pred             hcCCCCcEEEEccccCCCCCccchHHHHHHHhcCCEEEeeeCCCccEEEecCCCcHHHHHHHhCCCeecCcchHHHHHHh
Q 033679           18 REVLKGCKLVFSHAFPSKFPAHIHYLWKVVEQLGATCSIELDPSVTHVVSNKCSNEKVSLGSKGGQVFGGSTVDRGSQLF   97 (113)
Q Consensus        18 ~~vL~Gc~I~fSg~~p~~~~~~~~~l~~~a~~lGA~~~~~l~~~vTHlV~~~~~t~K~~~A~k~gi~IV~p~WL~~c~~~   97 (113)
                      .++|+|+++|+||+    ++|+++.|...|-.|||++..+.+..+|||||+-++|.||++....|-.||+.+|+.+|..+
T Consensus       315 ~klL~GVV~VlSGf----qNP~Rs~LRskAl~LGAkY~pDW~~gsThLICAF~NTPKy~QV~g~Gg~IV~keWI~~Cy~~  390 (508)
T KOG3226|consen  315 SKLLEGVVFVLSGF----QNPERSTLRSKALTLGAKYQPDWNAGSTHLICAFPNTPKYRQVEGNGGTIVSKEWITECYAQ  390 (508)
T ss_pred             HHhhhceEEEEecc----cCchHHHHHHHHHhhcccccCCcCCCceeEEEecCCCcchhhcccCCceEeeHHHHHHHHHH
Confidence            57899999999998    56899999999999999999999999999999999999999999998899999999999999


Q ss_pred             hCCCCCCceeccCCC
Q 033679           98 VARATRREVSCEANQ  112 (113)
Q Consensus        98 w~r~dE~~y~~~~~~  112 (113)
                      .+++|=+.|++..|-
T Consensus       391 kk~lp~rrYlm~~~~  405 (508)
T KOG3226|consen  391 KKLLPIRRYLMHAGK  405 (508)
T ss_pred             HhhccHHHHHhcCCC
Confidence            999999999997663

>PLN03123 poly [ADP-ribose] polymerase; Provisional

Probab=99.23  E-value=1.7e-11  Score=108.52  Aligned_cols=90  Identities=9%  Similarity=-0.022  Sum_probs=79.7

Q ss_pred             hhhcCCCCcEEEEccccCCCCCccchHHHHHHHhcCCEEEeeeCCCccEEEecCC---CcHHHHHHHhCCCeecCcchHH
Q 033679           16 GQREVLKGCKLVFSHAFPSKFPAHIHYLWKVVEQLGATCSIELDPSVTHVVSNKC---SNEKVSLGSKGGQVFGGSTVDR   92 (113)
Q Consensus        16 ~k~~vL~Gc~I~fSg~~p~~~~~~~~~l~~~a~~lGA~~~~~l~~~vTHlV~~~~---~t~K~~~A~k~gi~IV~p~WL~   92 (113)
                      ...++|.|++|+++|.++.    .+..+.+.++.+||+++..+++.+||||+.+.   ...|+++|.+.||+||+.+||.
T Consensus       389 ~~~~~l~~~~i~i~G~~~~----~~~~~k~~Ie~~GG~~s~~v~~~~t~l~tt~e~~k~~~kv~qAk~~~ipIVsedwL~  464 (981)
T PLN03123        389 SESEFLGDLKVSIVGASKE----KVTEWKAKIEEAGGVFHATVKKDTNCLVVCGELDDEDAEMRKARRMKIPIVREDYLV  464 (981)
T ss_pred             ccCCCcCCeEEEEecCCCC----cHHHHHHHHHhcCCEEeeeccCCceEEEccHHhhhcchHHHHHHhcCCCcccHHHHH
Confidence            3468899999999999863    23577889999999999999999999999853   5788999999999999999999


Q ss_pred             HHHHhhCCCCCCceecc
Q 033679           93 GSQLFVARATRREVSCE  109 (113)
Q Consensus        93 ~c~~~w~r~dE~~y~~~  109 (113)
                      +|.....+.++..|.+.
T Consensus       465 ds~~~~~~~p~~~y~~~  481 (981)
T PLN03123        465 DCFKKKKKLPFDKYKLE  481 (981)
T ss_pred             HHHhccccCcchhhhhc
Confidence            99999999999999764

>PLN03122 Poly [ADP-ribose] polymerase; Provisional

Probab=99.20  E-value=3.5e-11  Score=104.90  Aligned_cols=88  Identities=14%  Similarity=0.080  Sum_probs=78.5

Q ss_pred             hhcCCCCcEEEEccccCCCCCccchHHHHHHHhcCCEEEeeeCCCccEEEecCC-----CcHHHHHHHhCCCeecCcchH
Q 033679           17 QREVLKGCKLVFSHAFPSKFPAHIHYLWKVVEQLGATCSIELDPSVTHVVSNKC-----SNEKVSLGSKGGQVFGGSTVD   91 (113)
Q Consensus        17 k~~vL~Gc~I~fSg~~p~~~~~~~~~l~~~a~~lGA~~~~~l~~~vTHlV~~~~-----~t~K~~~A~k~gi~IV~p~WL   91 (113)
                      ..++|.|++|+|||.++.    .+..+..+++.+||++.+.+ .+.||+|++..     ++.|++.|.+.||+||+.+||
T Consensus       186 ~~kpL~G~~fviTGtl~~----sr~elK~~Ie~~GGkvsssV-s~~T~lIvt~~ev~k~gsSKlkkAk~lgIpIVsEd~L  260 (815)
T PLN03122        186 PGKPFSGMMISLSGRLSR----THQYWKKDIEKHGGKVANSV-EGVTCLVVSPAERERGGSSKIAEAMERGIPVVREAWL  260 (815)
T ss_pred             cCCCcCCcEEEEeCCCCC----CHHHHHHHHHHcCCEEcccc-ccceEEEEcCccccccCccHHHHHHHcCCcCccHHHH
Confidence            456899999999999853    56799999999999999999 77889998873     358999999999999999999


Q ss_pred             HHHHHhhCCCCCCceecc
Q 033679           92 RGSQLFVARATRREVSCE  109 (113)
Q Consensus        92 ~~c~~~w~r~dE~~y~~~  109 (113)
                      .+|....+.++|..|.+.
T Consensus       261 ~d~i~~~k~~~~~~y~l~  278 (815)
T PLN03122        261 IDSIEKQEAQPLEAYDVV  278 (815)
T ss_pred             HHHHhcCCcccchhhhhc
Confidence            999999999999999884

>KOG1929 consensus Nucleotide excision repair factor NEF2, RAD4/CUT5 component [Replication, recombination and repair]

Probab=98.74  E-value=9.6e-09  Score=89.63  Aligned_cols=90  Identities=10%  Similarity=0.004  Sum_probs=82.1

Q ss_pred             hcCCCCcEEEEccccCCCCCccchHHHHHHHhcCCEEEeeeCCCccEEEecCCCcHHHHHHHhCCCeecCcchHHHHHHh
Q 033679           18 REVLKGCKLVFSHAFPSKFPAHIHYLWKVVEQLGATCSIELDPSVTHVVSNKCSNEKVSLGSKGGQVFGGSTVDRGSQLF   97 (113)
Q Consensus        18 ~~vL~Gc~I~fSg~~p~~~~~~~~~l~~~a~~lGA~~~~~l~~~vTHlV~~~~~t~K~~~A~k~gi~IV~p~WL~~c~~~   97 (113)
                      .++|.||.|++|+.    .-+++..+-..+..+||.....|....|||++.+.+..|+..|.++++++|+|+||..|..+
T Consensus       491 ~~~~e~~~~~~s~~----~~~~~e~ln~~~~~~gas~~~~f~r~~~~l~~~~~k~s~~~~~~kw~ip~vT~~wL~e~~rq  566 (811)
T KOG1929|consen  491 SQPFENLTISNSQS----AEAEREKLNNLANDLGASNVKTFTRKSTTLLTTSAKGSKYEIAGKWSIPIVTPDWLYECVRQ  566 (811)
T ss_pred             cccccCceEEeeec----hHHHHHHHhHhhhhccccccceeeecccEEeccccccchhhhccccCCCccChhHHHhhccc
Confidence            67899999999986    23567788889999999999999999999999999999999999999999999999999999


Q ss_pred             hCCCCCCceeccCC
Q 033679           98 VARATRREVSCEAN  111 (113)
Q Consensus        98 w~r~dE~~y~~~~~  111 (113)
                      .+..+++.|..+..
T Consensus       567 ~~~~~~e~~l~~~s  580 (811)
T KOG1929|consen  567 NKGERNEGFLNGNS  580 (811)
T ss_pred             cCcccceeeccccc
Confidence            99999999988654

>KOG1929 consensus Nucleotide excision repair factor NEF2, RAD4/CUT5 component [Replication, recombination and repair]

Probab=98.72  E-value=2e-08  Score=87.72  Aligned_cols=94  Identities=13%  Similarity=-0.056  Sum_probs=85.0

Q ss_pred             HHhhhhcCCCCcEEEEccccCCCCCccchHHHHHHHhcCCEEEeeeCCCccEEEecCC-CcHHHHHHHhCCCeecCcchH
Q 033679           13 TENGQREVLKGCKLVFSHAFPSKFPAHIHYLWKVVEQLGATCSIELDPSVTHVVSNKC-SNEKVSLGSKGGQVFGGSTVD   91 (113)
Q Consensus        13 l~~~k~~vL~Gc~I~fSg~~p~~~~~~~~~l~~~a~~lGA~~~~~l~~~vTHlV~~~~-~t~K~~~A~k~gi~IV~p~WL   91 (113)
                      ....+...+.||.||.+|+-    .++++.+..++..+|++....++..|+|++.... .|+||++|+++++++|+.+|+
T Consensus        96 ~~~~~~p~~~~~~Vc~tgl~----~~eK~ei~~~v~k~gg~~~~~L~s~v~~~~~~~~~~~~kYe~al~wn~~v~~~~w~  171 (811)
T KOG1929|consen   96 RDTMKCPGFFGLKVCLTGLS----GDEKSEIKILVPKHGGTLHRSLSSDVNSLKILPEVKTEKYEQALKWNIPVVSDDWL  171 (811)
T ss_pred             hhhhcCCcccceEEEecccc----hHHHHHHHHHhhhcccEEehhhhhhhheeeeccccchHHHHHHHhhCCccccHHHH
Confidence            34566788999999999983    4688999999999999999999999999988876 569999999999999999999


Q ss_pred             HHHHHhhCCCCCCceeccC
Q 033679           92 RGSQLFVARATRREVSCEA  110 (113)
Q Consensus        92 ~~c~~~w~r~dE~~y~~~~  110 (113)
                      ++|..+-...++..|.+..
T Consensus       172 ~~s~~~~~~~~~~~~e~~~  190 (811)
T KOG1929|consen  172 FDSIEKTAVLETKPYEGAP  190 (811)
T ss_pred             hhhhccccccccccccccc
Confidence            9999999999999999875

>PRK14350 ligA NAD-dependent DNA ligase LigA; Provisional

Probab=98.51  E-value=3.3e-07  Score=78.97  Aligned_cols=72  Identities=13%  Similarity=0.069  Sum_probs=64.6

Q ss_pred             cCCCCcEEEEccccCCCCCccchHHHHHHHhcCCEEEeeeCCCccEEEecCCCcHHHHHHHhCCCeecCcchHHH
Q 033679           19 EVLKGCKLVFSHAFPSKFPAHIHYLWKVVEQLGATCSIELDPSVTHVVSNKCSNEKVSLGSKGGQVFGGSTVDRG   93 (113)
Q Consensus        19 ~vL~Gc~I~fSg~~p~~~~~~~~~l~~~a~~lGA~~~~~l~~~vTHlV~~~~~t~K~~~A~k~gi~IV~p~WL~~   93 (113)
                      .+|.|.++||+|.++.   ..+..+.++++++||++++.++.+++.||+.+..+.|.+.|.+.||+|++.+-+.+
T Consensus       592 ~~l~gktfV~TG~l~~---~~R~e~~~lie~~Ggkv~ssVSkktd~LV~G~~aGsKl~KA~~LGI~Ii~e~~f~~  663 (669)
T PRK14350        592 SFLFGKKFCITGSFNG---YSRSVLIDKLTKKGAIFNTCVTKYLDFLLVGEKAGLKLKKANNLGIKIMSLFDIKS  663 (669)
T ss_pred             CccCCcEEEEecccCC---CCHHHHHHHHHHcCCEEeccccCCCcEEEECCCCCchHHHHHHcCCEEecHHHHHH
Confidence            4699999999999864   46789999999999999999999999999998777899999999999999776654

>PRK06063 DNA polymerase III subunit epsilon; Provisional

Probab=98.48  E-value=3.8e-07  Score=72.08  Aligned_cols=65  Identities=17%  Similarity=0.124  Sum_probs=58.7

Q ss_pred             CCCcEEEEccccCCCCCccchHHHHHHHhcCCEEEeeeCCCccEEEecCCCc--HHHHHHHhCCCeecCcc
Q 033679           21 LKGCKLVFSHAFPSKFPAHIHYLWKVVEQLGATCSIELDPSVTHVVSNKCSN--EKVSLGSKGGQVFGGST   89 (113)
Q Consensus        21 L~Gc~I~fSg~~p~~~~~~~~~l~~~a~~lGA~~~~~l~~~vTHlV~~~~~t--~K~~~A~k~gi~IV~p~   89 (113)
                      |.|-+|||||.+.    .++.+++++++.+||.+.+.++++++.||+.+..+  .|.+.|.+.||+|++-+
T Consensus       233 ~~g~~~v~TG~l~----~~R~e~~~~~~~~G~~v~~sVs~~t~~lv~g~~~~~ssK~~kA~~~gi~ii~e~  299 (313)
T PRK06063        233 VQGMRVALSAEVS----RTHEELVERILHAGLAYSDSVDRDTSLVVCNDPAPEQGKGYHARQLGVPVLDEA  299 (313)
T ss_pred             cCCCEEEEecCCC----CCHHHHHHHHHHcCCEecCccccCccEEEECCCCCcccHHHHHHHcCCccccHH
Confidence            7899999999985    36789999999999999999999999999997644  89999999999999854

>PRK06195 DNA polymerase III subunit epsilon; Validated

Probab=98.39  E-value=8.8e-07  Score=69.66  Aligned_cols=67  Identities=19%  Similarity=0.172  Sum_probs=57.9

Q ss_pred             cCCCCcEEEEccccCCCCCccchHHHHHHHhcCCEEEeeeCCCccEEEecCC---------CcHHHHHHHhC-----CCe
Q 033679           19 EVLKGCKLVFSHAFPSKFPAHIHYLWKVVEQLGATCSIELDPSVTHVVSNKC---------SNEKVSLGSKG-----GQV   84 (113)
Q Consensus        19 ~vL~Gc~I~fSg~~p~~~~~~~~~l~~~a~~lGA~~~~~l~~~vTHlV~~~~---------~t~K~~~A~k~-----gi~   84 (113)
                      .+|.|-++||||.+..   .++..+..+++.+||.+.+.++.+++.||+.+.         .+.|.+.|.+.     ||+
T Consensus       219 ~~l~g~~~vfTG~l~~---~~R~~~~~~~~~~Gg~v~~sVs~~t~~lV~G~~~~~~~~~~~~~~K~~kA~~l~~~g~~i~  295 (309)
T PRK06195        219 TAFKEEVVVFTGGLAS---MTRDEAMILVRRLGGTVGSSVTKKTTYLVTNTKDIEDLNREEMSNKLKKAIDLKKKGQNIK  295 (309)
T ss_pred             ccccCCEEEEccccCC---CCHHHHHHHHHHhCCEecCCcccCceEEEECCCcchhhcccCcChHHHHHHHHHhCCCCcE
Confidence            3699999999999843   367899999999999999999999999999853         36899999765     799


Q ss_pred             ecCc
Q 033679           85 FGGS   88 (113)
Q Consensus        85 IV~p   88 (113)
                      |++-
T Consensus       296 ii~E  299 (309)
T PRK06195        296 FLNE  299 (309)
T ss_pred             EecH
Confidence            9974

>COG5275 BRCT domain type II [General function prediction only]

Probab=98.32  E-value=1.2e-06  Score=66.79  Aligned_cols=73  Identities=18%  Similarity=0.133  Sum_probs=64.3

Q ss_pred             HHhhhhcCCCCcEEEEccccCCCCCccchHHHHHHHhcCCEEEeeeCCCccEEEecCC-CcHHHHHHHhCCCeecCc
Q 033679           13 TENGQREVLKGCKLVFSHAFPSKFPAHIHYLWKVVEQLGATCSIELDPSVTHVVSNKC-SNEKVSLGSKGGQVFGGS   88 (113)
Q Consensus        13 l~~~k~~vL~Gc~I~fSg~~p~~~~~~~~~l~~~a~~lGA~~~~~l~~~vTHlV~~~~-~t~K~~~A~k~gi~IV~p   88 (113)
                      .|+.+++.|.|.+|+|+|+++.   -++.+...++..+||+|....+.++|-||+.+. |..|++.+++.+|+.++-
T Consensus       149 ~peg~~~cL~G~~fVfTG~l~T---lsR~~a~~lvk~yGgrvT~~pSskTtflvlGdnaGP~K~ekiKqlkIkaidE  222 (276)
T COG5275         149 VPEGERECLKGKVFVFTGDLKT---LSRDDAKTLVKVYGGRVTAVPSSKTTFLVLGDNAGPSKMEKIKQLKIKAIDE  222 (276)
T ss_pred             CCCCCcccccccEEEEeccccc---ccchhHHHHHHHhCCeeecccccceeEEEecCCCChHHHHHHHHhCCccccH
Confidence            5889999999999999999984   345577888999999999999999999999864 889999999999998773

>TIGR00575 dnlj DNA ligase, NAD-dependent

Probab=98.30  E-value=2.2e-06  Score=73.72  Aligned_cols=67  Identities=13%  Similarity=0.178  Sum_probs=60.3

Q ss_pred             cCCCCcEEEEccccCCCCCccchHHHHHHHhcCCEEEeeeCCCccEEEecCCCcHHHHHHHhCCCeecCc
Q 033679           19 EVLKGCKLVFSHAFPSKFPAHIHYLWKVVEQLGATCSIELDPSVTHVVSNKCSNEKVSLGSKGGQVFGGS   88 (113)
Q Consensus        19 ~vL~Gc~I~fSg~~p~~~~~~~~~l~~~a~~lGA~~~~~l~~~vTHlV~~~~~t~K~~~A~k~gi~IV~p   88 (113)
                      .+|.|-++||+|.++.   .++..+..+++.+||++.+.++.+++.||+.+..+.|.+.|.+.||+|++-
T Consensus       583 ~~l~gk~~v~TG~l~~---~~R~~~~~~i~~~G~~v~~sVs~kt~~lv~G~~~gsKl~kA~~lgi~ii~E  649 (652)
T TIGR00575       583 SPLAGKTFVLTGTLSQ---MSRDEAKELLENLGGKVASSVSKKTDYVIAGEKAGSKLAKAQELGIPIINE  649 (652)
T ss_pred             CCccCcEEEEeccCCC---CCHHHHHHHHHHcCCEEeCCcCCCccEEEECCCCChHHHHHHHcCCcEech
Confidence            4699999999999864   367799999999999999999999999999987667999999999999874

The member of this family from Treponema pallidum differs in having three rather than just one copy of the BRCT (BRCA1 C Terminus) domain (pfam00533) at the C-terminus. It is included in the seed.

>PRK14351 ligA NAD-dependent DNA ligase LigA; Provisional

Probab=98.27  E-value=3e-06  Score=73.35  Aligned_cols=73  Identities=12%  Similarity=0.071  Sum_probs=63.6

Q ss_pred             cCCCCcEEEEccccCCCCCccchHHHHHHHhcCCEEEeeeCCCccEEEecCC-CcHHHHHHHhCCCeecCcchHHHH
Q 033679           19 EVLKGCKLVFSHAFPSKFPAHIHYLWKVVEQLGATCSIELDPSVTHVVSNKC-SNEKVSLGSKGGQVFGGSTVDRGS   94 (113)
Q Consensus        19 ~vL~Gc~I~fSg~~p~~~~~~~~~l~~~a~~lGA~~~~~l~~~vTHlV~~~~-~t~K~~~A~k~gi~IV~p~WL~~c   94 (113)
                      .+|+|-++||+|.+..   .++..+..+++.+||++.+.++.+++.||+.+. |..|.+.|.+.||+|++-+-+.+=
T Consensus       608 ~~l~g~~~v~TG~l~~---~~R~~~~~~i~~~Gg~v~~sVs~kt~~Lv~G~~~g~sKl~kA~~lgi~ii~E~~f~~l  681 (689)
T PRK14351        608 DALDGLTFVFTGSLSG---YTRSEAQELVEAHGGNATGSVSGNTDYLVVGENPGQSKRDDAEANDVPTLDEEEFEEL  681 (689)
T ss_pred             CCCCCcEEEEccCCCC---CCHHHHHHHHHHcCCEEcCCcCCCccEEEEcCCCChhHHHHHHHCCCeEecHHHHHHH
Confidence            4699999999999854   367899999999999999999999999999875 448999999999999997766553

>PRK07956 ligA NAD-dependent DNA ligase LigA; Validated

Probab=98.21  E-value=5.4e-06  Score=71.51  Aligned_cols=72  Identities=17%  Similarity=0.091  Sum_probs=63.5

Q ss_pred             CCCCcEEEEccccCCCCCccchHHHHHHHhcCCEEEeeeCCCccEEEecCCCcHHHHHHHhCCCeecCcchHHHH
Q 033679           20 VLKGCKLVFSHAFPSKFPAHIHYLWKVVEQLGATCSIELDPSVTHVVSNKCSNEKVSLGSKGGQVFGGSTVDRGS   94 (113)
Q Consensus        20 vL~Gc~I~fSg~~p~~~~~~~~~l~~~a~~lGA~~~~~l~~~vTHlV~~~~~t~K~~~A~k~gi~IV~p~WL~~c   94 (113)
                      .|.|-++||+|.++.   ..+..+..+++.+||.+++.++.+++-||+.+..+.|.+.|.+.||+|++-+-+.+-
T Consensus       590 ~~~g~~~v~TG~l~~---~~R~e~~~~i~~~G~~v~~sVs~kt~~lv~G~~~gsK~~kA~~lgI~ii~E~~f~~~  661 (665)
T PRK07956        590 DLAGKTVVLTGTLEQ---LSRDEAKEKLEALGAKVSGSVSKKTDLVVAGEAAGSKLAKAQELGIEVLDEEEFLRL  661 (665)
T ss_pred             CccccEEEEeCCCCC---CCHHHHHHHHHHcCCEEeCcccCCCCEEEECCCCChHHHHHHHcCCeEEcHHHHHHH
Confidence            389999999999853   357799999999999999999999999999987779999999999999987665543

>KOG3524 consensus Predicted guanine nucleotide exchange factor (PEBBLE) [Signal transduction mechanisms]

Probab=98.18  E-value=6.7e-07  Score=77.02  Aligned_cols=83  Identities=18%  Similarity=0.189  Sum_probs=71.9

Q ss_pred             hcCCCCcEEEEccccCCCCCccchHHHHHHHhcCCEEEeeeCCCccEEEecCCCcHHHHHHHhCCCeecCcchHHHHHHh
Q 033679           18 REVLKGCKLVFSHAFPSKFPAHIHYLWKVVEQLGATCSIELDPSVTHVVSNKCSNEKVSLGSKGGQVFGGSTVDRGSQLF   97 (113)
Q Consensus        18 ~~vL~Gc~I~fSg~~p~~~~~~~~~l~~~a~~lGA~~~~~l~~~vTHlV~~~~~t~K~~~A~k~gi~IV~p~WL~~c~~~   97 (113)
                      ...++|++.+|+|..+..     ..+..+...||+.+..+.+.++||+|+...+.+|+..|+-. .+++.|+|+.+|   
T Consensus       116 ~~~m~~vvlcfTg~rkk~-----e~lv~lvh~mgg~irkd~nsktthli~n~s~gek~~~a~t~-~~~~rp~wv~~a---  186 (850)
T KOG3524|consen  116 CELMKDVVMCFTGERKKK-----EELVDLVHYMGGSIRKDTNSKTTHLIANKVEGEKQSIALVG-VPTMRPDWVTEA---  186 (850)
T ss_pred             chhhcCceeeeeccchhh-----HHHHHHHHHhcceeEeeeccCceEEEeecccceEEEEEeec-cceechHhhhhh---
Confidence            345899999999997642     28999999999999999999999999999999999888766 999999999998   


Q ss_pred             hCCCCCCceecc
Q 033679           98 VARATRREVSCE  109 (113)
Q Consensus        98 w~r~dE~~y~~~  109 (113)
                      |++.++..|-+.
T Consensus       187 w~~rn~~yfda~  198 (850)
T KOG3524|consen  187 WKHRNDSYFDAM  198 (850)
T ss_pred             hcCcchhhhhhh
Confidence            777777766553

>COG0272 Lig NAD-dependent DNA ligase (contains BRCT domain type II) [DNA replication, recombination, and repair]

Probab=98.07  E-value=1.4e-05  Score=68.70  Aligned_cols=72  Identities=17%  Similarity=0.121  Sum_probs=64.5

Q ss_pred             cCCCCcEEEEccccCCCCCccchHHHHHHHhcCCEEEeeeCCCccEEEecCCCcHHHHHHHhCCCeecCcchHHH
Q 033679           19 EVLKGCKLVFSHAFPSKFPAHIHYLWKVVEQLGATCSIELDPSVTHVVSNKCSNEKVSLGSKGGQVFGGSTVDRG   93 (113)
Q Consensus        19 ~vL~Gc~I~fSg~~p~~~~~~~~~l~~~a~~lGA~~~~~l~~~vTHlV~~~~~t~K~~~A~k~gi~IV~p~WL~~   93 (113)
                      .+|.|-++||+|.++.   -++.....+++++||++...++.++.-||+.+.-+.|+..|.+.||+|.+-+++.+
T Consensus       593 ~~l~gkt~V~TGtL~~---~sR~eak~~le~lGakv~~SVSkktD~vvaG~~aGSKl~kA~eLgv~i~~E~~~~~  664 (667)
T COG0272         593 SPLAGKTFVLTGTLEG---MSRDEAKALLEALGAKVSGSVSKKTDYVVAGENAGSKLAKAQELGVKIIDEEEFLA  664 (667)
T ss_pred             cccCCCEEEEeccCCC---CCHHHHHHHHHHcCCEEeceecccccEEEEcCCCChHHHHHHHcCCeEecHHHHHH
Confidence            6799999999999863   46678899999999999999999999999998877899999999999999776653

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

Probab=97.96  E-value=2.7e-05  Score=68.08  Aligned_cols=82  Identities=11%  Similarity=-0.014  Sum_probs=67.4

Q ss_pred             hcCCCCcEEE-EccccCCCCCccchHHHHHHHhcCCEEEeeeCCCccEEEe--cCCCcHHHHHHHhCCCeecCcchHHHH
Q 033679           18 REVLKGCKLV-FSHAFPSKFPAHIHYLWKVVEQLGATCSIELDPSVTHVVS--NKCSNEKVSLGSKGGQVFGGSTVDRGS   94 (113)
Q Consensus        18 ~~vL~Gc~I~-fSg~~p~~~~~~~~~l~~~a~~lGA~~~~~l~~~vTHlV~--~~~~t~K~~~A~k~gi~IV~p~WL~~c   94 (113)
                      ..+|+|.-++ +||.-   ..+.++.+.+++-.+||.++.++.++.||.|+  ....+.+-.+|+++++-||+|+||.+|
T Consensus       631 s~if~gl~f~Vlsgt~---~~~tk~~le~~ivenGG~iv~nv~p~~~~ci~~a~~et~~vk~~~~~~~cdVl~p~Wlldc  707 (881)
T KOG0966|consen  631 SNIFDGLEFCVLSGTS---ETHTKAKLEEIIVENGGKIVQNVGPSDTLCIATAGKETTRVKAQAIKRSCDVLKPAWLLDC  707 (881)
T ss_pred             hhhhcCeeEEEecCCc---ccccHHHHHHHHHHcCCEEEEcCCCCCcceEEeccccchHHHHHHHhccCceeeHHHHHHH
Confidence            4568888765 55542   33446799999999999999999999999996  566788888899999999999999999


Q ss_pred             HHhhCCCC
Q 033679           95 QLFVARAT  102 (113)
Q Consensus        95 ~~~w~r~d  102 (113)
                      +...+-++
T Consensus       708 c~~~~l~p  715 (881)
T KOG0966|consen  708 CKKQRLLP  715 (881)
T ss_pred             Hhhhhccc
Confidence            98877444

>KOG3548 consensus DNA damage checkpoint protein RHP9/CRB2/53BP1 [Replication, recombination and repair]

Probab=97.94  E-value=9.6e-06  Score=71.83  Aligned_cols=89  Identities=11%  Similarity=0.031  Sum_probs=65.3

Q ss_pred             hcCCCCcEEEEccccCCCCCccchHHHHHHHhcCCEEEeeeCCC-ccE-------------------------EEecC-C
Q 033679           18 REVLKGCKLVFSHAFPSKFPAHIHYLWKVVEQLGATCSIELDPS-VTH-------------------------VVSNK-C   70 (113)
Q Consensus        18 ~~vL~Gc~I~fSg~~p~~~~~~~~~l~~~a~~lGA~~~~~l~~~-vTH-------------------------lV~~~-~   70 (113)
                      +.+|.||+++|++.+-.     +..+..-.+.+|+.+....=.. -+|                         ||+.. .
T Consensus       923 kniFd~cvF~lTsa~~s-----d~~~r~s~e~~gg~vle~gl~~~Fn~p~~g~~~~lr~Ln~~q~~ks~~qalLIsdth~  997 (1176)
T KOG3548|consen  923 KNIFDGCVFMLTSANRS-----DSASRPSMEKHGGLVLEKGLMNLFNTPFKGGGIVLRQLNSFQERKSNYQALLISDTHY  997 (1176)
T ss_pred             cchhcceeEEEeccccc-----hhhhhhhhhccCChhhhccccccccccccCCcchHHhhhHHhhhccccceeEeehhhh
Confidence            48999999999998643     2344444455777665432111 111                         22221 1


Q ss_pred             CcHHHHHHHhCCCeecCcchHHHHHHhhCCCCCCceeccCC
Q 033679           71 SNEKVSLGSKGGQVFGGSTVDRGSQLFVARATRREVSCEAN  111 (113)
Q Consensus        71 ~t~K~~~A~k~gi~IV~p~WL~~c~~~w~r~dE~~y~~~~~  111 (113)
                      .|-||-.|++.||+.||+.||.+|.+.++.+|=.+|+++.|
T Consensus       998 Rt~KYLeaLA~giPcVh~~fI~aC~e~nr~Vdy~~YLLpsG 1038 (1176)
T KOG3548|consen  998 RTHKYLEALARGIPCVHNTFIQACGEQNRCVDYTDYLLPSG 1038 (1176)
T ss_pred             HHHHHHHHHHcCCCcccHHHHHHHHhccccccchhhcccCc
Confidence            58899999999999999999999999999999999999877

>KOG4362 consensus Transcriptional regulator BRCA1 [Replication, recombination and repair; Transcription]

Probab=97.75  E-value=4.2e-05  Score=66.05  Aligned_cols=80  Identities=20%  Similarity=0.076  Sum_probs=66.6

Q ss_pred             cEEEEccccCCCCCccchHHHHHHHhcCCEEEeeeCCCccEEEecCC------CcHHHHHHHhCCCeecCcchHHHHHHh
Q 033679           24 CKLVFSHAFPSKFPAHIHYLWKVVEQLGATCSIELDPSVTHVVSNKC------SNEKVSLGSKGGQVFGGSTVDRGSQLF   97 (113)
Q Consensus        24 c~I~fSg~~p~~~~~~~~~l~~~a~~lGA~~~~~l~~~vTHlV~~~~------~t~K~~~A~k~gi~IV~p~WL~~c~~~   97 (113)
                      .+.+-||.-|.    +...+...|..   +.....++.+||+|+.-.      +|-|+..++.+|.+|++.+|+.+|+..
T Consensus       479 ~~~~~s~l~p~----ek~~v~~~a~~---t~~k~~~~~~thvi~~~~~~g~c~rTlk~~~gil~gkwi~~~~w~~~s~k~  551 (684)
T KOG4362|consen  479 LVLLVSGLTPS----EKQLVEKFAVD---TISKFWIEPVTHVIASTDLEGACLRTLKVLMGILRGKWILSYDWVLASLKL  551 (684)
T ss_pred             eeeeeccCCcc----hHHHHHHHHHH---HHhhccCCCceeeeeecccccchhhhHHHHHHhhcCceeeeHHHHHHHHHh
Confidence            45566777664    34466777766   777788999999999843      699999999999999999999999999


Q ss_pred             hCCCCCCceeccC
Q 033679           98 VARATRREVSCEA  110 (113)
Q Consensus        98 w~r~dE~~y~~~~  110 (113)
                      -+.++|++|++..
T Consensus       552 ~~~~~eepfEl~~  564 (684)
T KOG4362|consen  552 RKWVSEEPFELQI  564 (684)
T ss_pred             cCCCCCCCeeEee
Confidence            9999999999853

>KOG2043 consensus Signaling protein SWIFT and related BRCT domain proteins [Transcription; Signal transduction mechanisms; Cell cycle control, cell division, chromosome partitioning; Replication, recombination and repair]

Probab=97.69  E-value=6.6e-05  Score=66.75  Aligned_cols=79  Identities=11%  Similarity=0.041  Sum_probs=65.4

Q ss_pred             cEEEEccccCCCCCccchHHHHHHHhcCCEEEeeeCCCccEEEecCC-CcHHHHHHHhCCCeecCcchHHHHHHhhCCCC
Q 033679           24 CKLVFSHAFPSKFPAHIHYLWKVVEQLGATCSIELDPSVTHVVSNKC-SNEKVSLGSKGGQVFGGSTVDRGSQLFVARAT  102 (113)
Q Consensus        24 c~I~fSg~~p~~~~~~~~~l~~~a~~lGA~~~~~l~~~vTHlV~~~~-~t~K~~~A~k~gi~IV~p~WL~~c~~~w~r~d  102 (113)
                      ..+.|++....      ..+-..+..+|+.+.... ...||+|+.+- .|-|.-.|+..|++||+++||.+|......+|
T Consensus       660 ~~~lfs~~~~~------~~~k~~~k~lg~s~~ss~-~e~Th~i~~rirRT~k~Leai~~G~~ivT~~wL~s~~k~g~~~d  732 (896)
T KOG2043|consen  660 IEVLFSDKNDG------KNYKLAKKFLGGSVASSD-SEATHFIADRIRRTLKFLEAISSGKPLVTPQWLVSSLKSGEKLD  732 (896)
T ss_pred             eeeeeeeccCc------hhhhhHHhhccceeeccc-ccceeeeehhhhccHHHHhhhccCCcccchHHHHHHhhcccccc
Confidence            45778887422      246667888887777665 56799999975 69999999999999999999999999999999


Q ss_pred             CCceecc
Q 033679          103 RREVSCE  109 (113)
Q Consensus       103 E~~y~~~  109 (113)
                      |..|.+.
T Consensus       733 ek~yil~  739 (896)
T KOG2043|consen  733 EKPYILH  739 (896)
T ss_pred             Ccccccc
Confidence            9999873

>KOG2481 consensus Protein required for normal rRNA processing [RNA processing and modification]

Probab=97.38  E-value=0.00013  Score=61.27  Aligned_cols=82  Identities=15%  Similarity=0.168  Sum_probs=67.4

Q ss_pred             hcCCCCcEEEEccccCCCCCccchHHHHHHHhcCCEEEee----------eCCCccEEEecCCC-cHHHHHHHhCCCeec
Q 033679           18 REVLKGCKLVFSHAFPSKFPAHIHYLWKVVEQLGATCSIE----------LDPSVTHVVSNKCS-NEKVSLGSKGGQVFG   86 (113)
Q Consensus        18 ~~vL~Gc~I~fSg~~p~~~~~~~~~l~~~a~~lGA~~~~~----------l~~~vTHlV~~~~~-t~K~~~A~k~gi~IV   86 (113)
                      +..|+||++.+|.-+|.      ..|.-++.++||.|+-+          -|.++||=|+..|+ ..+|     .|..-|
T Consensus       325 kslF~glkFfl~reVPr------esL~fiI~s~GG~V~wd~~~~g~~~~~~d~~ITH~IvDrP~~~~~v-----~gR~Yv  393 (570)
T KOG2481|consen  325 KSLFSGLKFFLNREVPR------ESLEFIIRSFGGKVSWDPLGIGATYDESDERITHQIVDRPGQQTSV-----IGRTYV  393 (570)
T ss_pred             HHHhhcceeeeeccCch------HHHHHHHHHcCCceecCccCCCCcccccccceeeeeecccCcccee-----eeeeee
Confidence            56799999999998886      48899999999999877          24568999999986 1111     266789


Q ss_pred             CcchHHHHHHhhCCCCCCceeccC
Q 033679           87 GSTVDRGSQLFVARATRREVSCEA  110 (113)
Q Consensus        87 ~p~WL~~c~~~w~r~dE~~y~~~~  110 (113)
                      -|.|++||.....+++-+.|....
T Consensus       394 QPQWvfDsvNar~llpt~~Y~~G~  417 (570)
T KOG2481|consen  394 QPQWVFDSVNARLLLPTEKYFPGK  417 (570)
T ss_pred             cchhhhhhccchhhccHhhhCCCc
Confidence            999999999999999999998754

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

Probab=97.25  E-value=0.0003  Score=58.08  Aligned_cols=83  Identities=16%  Similarity=0.127  Sum_probs=67.0

Q ss_pred             hcCCCCcEEEEccccCCCCCccchHHHHHHHhcCCEEE-----------eeeCCCccEEEecCCCcHHHHHHHhCCCeec
Q 033679           18 REVLKGCKLVFSHAFPSKFPAHIHYLWKVVEQLGATCS-----------IELDPSVTHVVSNKCSNEKVSLGSKGGQVFG   86 (113)
Q Consensus        18 ~~vL~Gc~I~fSg~~p~~~~~~~~~l~~~a~~lGA~~~-----------~~l~~~vTHlV~~~~~t~K~~~A~k~gi~IV   86 (113)
                      ..+|+|.++.+|.-+|.+      .|.-++.++||.|.           .++|+.+||-|+.+|.    ...+=.|.--+
T Consensus       348 ~slFS~f~FyisreVp~d------sLefiilscGG~V~~~p~~~~i~~~~~vD~~vth~i~drp~----~~~kvegrtYi  417 (591)
T COG5163         348 KSLFSGFKFYISREVPGD------SLEFIILSCGGSVVGSPCEADIHVSEKVDEKVTHQIVDRPV----MKNKVEGRTYI  417 (591)
T ss_pred             hhhhhceEEEEeccccch------HHHHHHHHcCCcccCchhhccCCchhhccchhhhhhccchh----hhhhhcceeee
Confidence            346899999999998864      78888999999876           3457889999999873    11122377888


Q ss_pred             CcchHHHHHHhhCCCCCCceeccC
Q 033679           87 GSTVDRGSQLFVARATRREVSCEA  110 (113)
Q Consensus        87 ~p~WL~~c~~~w~r~dE~~y~~~~  110 (113)
                      -|.||++|.....++.-+.|.+..
T Consensus       418 QPQw~fDsiNkG~l~~~~~Y~~G~  441 (591)
T COG5163         418 QPQWLFDSINKGKLACVENYCVGK  441 (591)
T ss_pred             chHHHHhhhccccchhhhhccccc
Confidence            999999999999999999998754

>KOG3524 consensus Predicted guanine nucleotide exchange factor (PEBBLE) [Signal transduction mechanisms]

Probab=96.76  E-value=0.00082  Score=58.48  Aligned_cols=96  Identities=20%  Similarity=0.115  Sum_probs=79.5

Q ss_pred             HHHHhhhhcCCCCcEEEEccccCCCCCccchHHHHHHHhcCCEEEeeeCCCccEEEecCCCcHHHHHHHhCCCeecCcch
Q 033679           11 FCTENGQREVLKGCKLVFSHAFPSKFPAHIHYLWKVVEQLGATCSIELDPSVTHVVSNKCSNEKVSLGSKGGQVFGGSTV   90 (113)
Q Consensus        11 ~il~~~k~~vL~Gc~I~fSg~~p~~~~~~~~~l~~~a~~lGA~~~~~l~~~vTHlV~~~~~t~K~~~A~k~gi~IV~p~W   90 (113)
                      .....-|-.+|.||.++|=|.    .+-+.+.+-...+.-|+.+.. =+..+||||..+..+.---.+......+|.-+|
T Consensus       201 ~f~d~hrl~~feg~~~~f~gF----~~ee~~~m~~sle~~gg~~a~-~d~~cthvvv~e~~~~~~p~~~s~~~~~vk~ew  275 (850)
T KOG3524|consen  201 CFVDKHRLGVFEGLSLFFHGF----KQEEIDDMLRSLENTGGKLAP-SDTLCTHVVVNEDNDEVEPLAVSSNQVHVKKEW  275 (850)
T ss_pred             chhhhhccccccCCeEeecCC----cHHHHHHHHHHHHhcCCcccC-CCCCceeEeecCCccccccccccccceeecccc
Confidence            344556778899999999776    234667888999999999999 678999999998765554556666789999999


Q ss_pred             HHHHHHhhCCCCCCceeccCC
Q 033679           91 DRGSQLFVARATRREVSCEAN  111 (113)
Q Consensus        91 L~~c~~~w~r~dE~~y~~~~~  111 (113)
                      .+-+..+..+.-|..|+.+.+
T Consensus       276 fw~siq~g~~a~e~~yl~~~~  296 (850)
T KOG3524|consen  276 FWVSIQRGCCAIEDNYLLPTG  296 (850)
T ss_pred             eEEEEecchhccccceecccc
Confidence            999999999999999998875

>PRK05601 DNA polymerase III subunit epsilon; Validated

Probab=92.57  E-value=0.23  Score=40.76  Aligned_cols=74  Identities=14%  Similarity=0.131  Sum_probs=60.7

Q ss_pred             CCCCcEEEEccccCCCCCccchHHHHHHHhcCCEEEeeeCCCccEEEecCC--CcHHHHHHHhCCCeecCcchHHHHHHh
Q 033679           20 VLKGCKLVFSHAFPSKFPAHIHYLWKVVEQLGATCSIELDPSVTHVVSNKC--SNEKVSLGSKGGQVFGGSTVDRGSQLF   97 (113)
Q Consensus        20 vL~Gc~I~fSg~~p~~~~~~~~~l~~~a~~lGA~~~~~l~~~vTHlV~~~~--~t~K~~~A~k~gi~IV~p~WL~~c~~~   97 (113)
                      .-+|-.|+||+-+-    .++..|...+-..|=.++..++..+.=|||+++  .+.|.+.|.+.||++++-.=+.+.+..
T Consensus       294 lv~Gm~v~~~~e~~----~~~d~li~~~~~agL~y~~~~~r~tslvv~n~~~~~~gk~~~a~~~gipl~~d~~fl~~~~~  369 (377)
T PRK05601        294 LVAGMEVVVAPEIT----MDPDIIIQAIVRAGLAYSEKLTRQTSVVVCNQTRDLDGKAMHAQRKGIPLLSDVAFLAAVER  369 (377)
T ss_pred             cccCcEEEEeCCcc----CCHHHHHHHHHHccchhhhccccceeEEEeCCCCCccchhhhhhhcCCCccCHHHHHHHHHH
Confidence            56899999999764    344688888999999999999999999999876  489999999999999986555554443

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

Probab=90.99  E-value=0.32  Score=43.38  Aligned_cols=66  Identities=11%  Similarity=-0.030  Sum_probs=47.7

Q ss_pred             HHHHHHHhcCCEEEeeeC------CCccEEEecC--CCcHHHHHH--HhC--CCeecCcchHHHHHHhhCCCCCCcee
Q 033679           42 YLWKVVEQLGATCSIELD------PSVTHVVSNK--CSNEKVSLG--SKG--GQVFGGSTVDRGSQLFVARATRREVS  107 (113)
Q Consensus        42 ~l~~~a~~lGA~~~~~l~------~~vTHlV~~~--~~t~K~~~A--~k~--gi~IV~p~WL~~c~~~w~r~dE~~y~  107 (113)
                      .+-..++.+|+.+...=.      ...||+|+..  ....+...-  .+.  .-+||.|.|+.+|..+...++|+.|+
T Consensus       804 ~~~l~~k~~g~~i~~~~~~~~~~~~~~t~~v~~~i~~~h~~~~~~~~~~lt~~rkv~~~~wv~~s~~~~~~~~e~~~~  881 (881)
T KOG0966|consen  804 IIELKLKNFGGRITDAQSECNNIGAKYTHCVLRCIDEDHEKIKEQKKASLTIKRKVVAPSWVDHSINENCLLPEEDFP  881 (881)
T ss_pred             HHHHHHHHhcceeeeccchhhhcccceeeeeeeecchHHHHHHHHHHHHhcccccccCHHHHHHhhcccccCccccCC
Confidence            444457788988876543      4689999983  334444322  222  34999999999999999999999985

>COG5190 FCP1 TFIIF-interacting CTD phosphatases, including NLI-interacting factor [Transcription]

Probab=85.60  E-value=0.52  Score=38.83  Aligned_cols=77  Identities=5%  Similarity=-0.177  Sum_probs=55.4

Q ss_pred             HHHHHHhhhhcCCCCcEEEEccccCCCCCccchHHHHHHHhcCCEEEeeeCCCccEEEecCCCcHHHHHHHhCCCeecCc
Q 033679            9 IFFCTENGQREVLKGCKLVFSHAFPSKFPAHIHYLWKVVEQLGATCSIELDPSVTHVVSNKCSNEKVSLGSKGGQVFGGS   88 (113)
Q Consensus         9 ~~~il~~~k~~vL~Gc~I~fSg~~p~~~~~~~~~l~~~a~~lGA~~~~~l~~~vTHlV~~~~~t~K~~~A~k~gi~IV~p   88 (113)
                      |.++|+..|  ++++|-.-++++++.+.-. . ++..+.          .+=.-||+|..++.+.    +......|+.+
T Consensus       284 v~d~l~~~k--~~~~~lfr~sc~~~~G~~i-k-Dis~i~----------r~l~~viiId~~p~SY----~~~p~~~i~i~  345 (390)
T COG5190         284 VLDILDSDK--VFSHRLFRESCVSYLGVYI-K-DISKIG----------RSLDKVIIIDNSPASY----EFHPENAIPIE  345 (390)
T ss_pred             HHHhccccc--eeehhhhcccceeccCchh-h-hHHhhc----------cCCCceEEeeCChhhh----hhCccceeccC
Confidence            678899888  9999999999999887511 1 333322          3446699999998766    33335899999


Q ss_pred             chHHHHHHhhCCCCCCceec
Q 033679           89 TVDRGSQLFVARATRREVSC  108 (113)
Q Consensus        89 ~WL~~c~~~w~r~dE~~y~~  108 (113)
                      .|+.+     ++.+|..|++
T Consensus       346 ~W~~d-----~~d~el~~ll  360 (390)
T COG5190         346 KWISD-----EHDDELLNLL  360 (390)
T ss_pred             ccccc-----ccchhhhhhc
Confidence            99998     5556655544

>COG1105 FruK Fructose-1-phosphate kinase and related fructose-6-phosphate kinase (PfkB) [Carbohydrate transport and metabolism]

Probab=81.32  E-value=8.6  Score=30.81  Aligned_cols=52  Identities=17%  Similarity=0.194  Sum_probs=41.8

Q ss_pred             HHHHHHhhhhcCCCCcEEEEccccCCCCCccc-hHHHHHHHhcCCEEEeeeCC
Q 033679            9 IFFCTENGQREVLKGCKLVFSHAFPSKFPAHI-HYLWKVVEQLGATCSIELDP   60 (113)
Q Consensus         9 ~~~il~~~k~~vL~Gc~I~fSg~~p~~~~~~~-~~l~~~a~~lGA~~~~~l~~   60 (113)
                      ++.++..+++..-++-.+++||-+|.+..++- .++-+.+++.|+.+.-|.+.
T Consensus       116 ~~~~l~~~~~~l~~~d~VvlsGSlP~g~~~d~y~~li~~~~~~g~~vilD~Sg  168 (310)
T COG1105         116 LEQFLEQLKALLESDDIVVLSGSLPPGVPPDAYAELIRILRQQGAKVILDTSG  168 (310)
T ss_pred             HHHHHHHHHHhcccCCEEEEeCCCCCCCCHHHHHHHHHHHHhcCCeEEEECCh
Confidence            45677788887888888999999999876543 57778889999999888764

---

Homologous Structure Templates

Structure Templates Detected by BLAST

Original result of BLAST against Protein Data Bank

No homologous structure with e-value below 0.005

Structure Templates Detected by RPS-BLAST

Original result of RPS-BLAST against PDB70 database

ID	Length	Definition	E-value
Query	113
3ef0_A	372	RNA polymerase II subunit A C-terminal domain phos	3e-16
3ef1_A	442	RNA polymerase II subunit A C-terminal domain phos	3e-15
3l3e_A	107	DNA topoisomerase 2-binding protein 1; BRCT domain	6e-08
2d8m_A	129	DNA-repair protein XRCC1; parallel beta-sheet, DNA	5e-07
3olc_X	298	DNA topoisomerase 2-binding protein 1; BRCT domain	6e-06
3l46_A	112	Protein ECT2; alternative splicing, guanine-nucleo	8e-06
3pa6_A	107	Microcephalin; BRCT domain, cell cycle; HET: MSE;	1e-05
1wf6_A	132	Similar to S.pombe -RAD4+/CUT5+product (A40727); B	4e-05
2cou_A	109	ECT2 protein; BRCT domain, RHO GTPase, structural	1e-04
1l0b_A	229	BRCA1; TANDEM-BRCT, three-helix bundle, unknown fu	4e-04

>3ef0_A RNA polymerase II subunit A C-terminal domain phosphatase; CTD, FCPH, BRCT, hydrolase, ALF4, transition state analog, cobalt, magnesium; 2.10A {Schizosaccharomyces pombe} Length = 372

 Score = 71.8 bits (175), Expect = 3e-16
 Identities = 19/68 (27%), Positives = 31/68 (45%)

Query: 17  QREVLKGCKLVFSHAFPSKFPAHIHYLWKVVEQLGATCSIELDPSVTHVVSNKCSNEKVS 76
           +++VLKGC+L+FS   P         + K     GA   ++     TH+++ K   EKV 
Sbjct: 279 KQKVLKGCRLLFSGVIPLGVDVLSSDIAKWAMSFGAEVVLDFSVPPTHLIAAKIRTEKVK 338

Query: 77  LGSKGGQV 84
                G +
Sbjct: 339 KAVSMGNI 346

>3ef1_A RNA polymerase II subunit A C-terminal domain phosphatase; CTD, FCPH, BRCT, hydrolase, BEF3, acylphosphate analog, cobalt, magnesium; HET: BFD; 2.15A {Schizosaccharomyces pombe} Length = 442

 Score = 69.3 bits (168), Expect = 3e-15
 Identities = 19/68 (27%), Positives = 31/68 (45%)

Query: 17  QREVLKGCKLVFSHAFPSKFPAHIHYLWKVVEQLGATCSIELDPSVTHVVSNKCSNEKVS 76
           +++VLKGC+L+FS   P         + K     GA   ++     TH+++ K   EKV 
Sbjct: 349 KQKVLKGCRLLFSGVIPLGVDVLSSDIAKWAMSFGAEVVLDFSVPPTHLIAAKIRTEKVK 408

Query: 77  LGSKGGQV 84
                G +
Sbjct: 409 KAVSMGNI 416

>2d8m_A DNA-repair protein XRCC1; parallel beta-sheet, DNA ligase III, poly(ADP-ribose) polymerase-1, DNA polymerase beta, structural genomics, NPPSFA; NMR {Homo sapiens} Length = 129

 Score = 44.1 bits (104), Expect = 5e-07
 Identities = 11/58 (18%), Positives = 20/58 (34%), Gaps = 4/58 (6%)

Query: 18 REVLKGCKLVFSHAFPSKFPAHIHYLWKVVEQLGATCSIELDPSVTHVVSNKCSNEKV 75
           ++L+G  +V S             L     +LGA    +     TH++    +  K 
Sbjct: 20 GKILQGVVVVLS----GFQNPFRSELRDKALELGAKYRPDWTRDSTHLICAFANTPKY 73

>3olc_X DNA topoisomerase 2-binding protein 1; BRCT domain, DNA repair, RAD9, DNA binding protein; HET: DNA; 2.40A {Homo sapiens} PDB: 2xnk_A* 2xnh_A* Length = 298

 Score = 42.4 bits (99), Expect = 6e-06
 Identities = 14/82 (17%), Positives = 33/82 (40%), Gaps = 14/82 (17%)

Query: 4   IGWVLIFFCTENGQ----------REVLKGCKLVFSHAFPSKFPAHIHYLWKVVEQLGAT 53
           +G  ++ FC  + +            V+    +  +    S        + K V+ +G  
Sbjct: 79  VGPQVVIFCMHHQRCVPRAEHPVYNMVMSDVTISCT----SLEKEKREEVHKYVQMMGGR 134

Query: 54  CSIELDPSVTHVVSNKCSNEKV 75
              +L+ SVTH+++ +  ++K 
Sbjct: 135 VYRDLNVSVTHLIAGEVGSKKY 156

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

 Score = 40.6 bits (95), Expect = 8e-06
 Identities = 10/63 (15%), Positives = 18/63 (28%), Gaps = 4/63 (6%)

Query: 20 VLKGCKLVFSHAFPSKFPAHIHYLWKVVEQLGATCSIELDPSVTHVVSNKCSNEKVSLGS 79
            + C L F   F          + ++ E  G       D   TH+V  +   + +    
Sbjct: 21 PFQDCILSFLG-FS---DEEKTNMEEMTEMQGGKYLPLGDERCTHLVVEENIVKDLPFEP 76

Query: 80 KGG 82
             
Sbjct: 77 SKK 79

>3pa6_A Microcephalin; BRCT domain, cell cycle; HET: MSE; 1.50A {Homo sapiens} PDB: 3ktf_A* 2wt8_A* Length = 107

 Score = 39.9 bits (93), Expect = 1e-05
 Identities = 9/57 (15%), Positives = 16/57 (28%)

Query: 19 EVLKGCKLVFSHAFPSKFPAHIHYLWKVVEQLGATCSIELDPSVTHVVSNKCSNEKV 75
           +LK           +    +       +  +GA  S   +  VTHV+         
Sbjct: 6  PILKDVVAYVEVWSSNGTENYSKTFTTQLVDMGAKVSKTFNKQVTHVIFKDGYQSTW 62

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

 Score = 39.1 bits (91), Expect = 4e-05
 Identities = 12/55 (21%), Positives = 23/55 (41%), Gaps = 4/55 (7%)

Query: 20 VLKGCKLVFSHAFPSKFPAHIHYLWKVVEQLGATCSIELDPSVTHVVSNKCSNEK 74
          +L GC++     F       +  L +++   G     +L+  VTHV+     +E 
Sbjct: 40 LLDGCRIYLC-GFS---GRKLDKLRRLINSGGGVRFNQLNEDVTHVIVGDYDDEL 90

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

 Score = 37.2 bits (86), Expect = 1e-04
 Identities = 10/55 (18%), Positives = 20/55 (36%), Gaps = 4/55 (7%)

Query: 20 VLKGCKLVFSHAFPSKFPAHIHYLWKVVEQLGATCSIELDPSVTHVVSNKCSNEK 74
            + C L F   F        H + ++ E  G +     D   TH++  + + + 
Sbjct: 12 PFQDCILSFLG-FS---DEEKHSMEEMTEMQGGSYLPVGDERCTHLIVEENTVKD 62

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

 Score = 37.1 bits (85), Expect = 4e-04
 Identities = 9/64 (14%), Positives = 19/64 (29%), Gaps = 4/64 (6%)

Query: 17 QREVLKGCKLVFSHAFPSKFPAHIHYLWKVVEQLGATCSIELDPSVTHVVSNKCSNEKVS 76
          +    +   +V S       P  +  + K  E+     +  +    THV+    +     
Sbjct: 1  KERAERDISMVVS----GLTPKEVMIVQKFAEKYRLALTDVITEETTHVIIKTDAEFVCE 56

Query: 77 LGSK 80
             K
Sbjct: 57 RTLK 60

Structure Templates Detected by HHsearch

Original result of HHsearch against PDB70 database

ID	Length	Definition	Probability
Query	113
3ef1_A	442	RNA polymerase II subunit A C-terminal domain phos	99.96
3ef0_A	372	RNA polymerase II subunit A C-terminal domain phos	99.95
3l3e_A	107	DNA topoisomerase 2-binding protein 1; BRCT domain	99.94
3pa6_A	107	Microcephalin; BRCT domain, cell cycle; HET: MSE;	99.92
3l46_A	112	Protein ECT2; alternative splicing, guanine-nucleo	99.92
2cou_A	109	ECT2 protein; BRCT domain, RHO GTPase, structural	99.92
2d8m_A	129	DNA-repair protein XRCC1; parallel beta-sheet, DNA	99.91
4id3_A	92	DNA repair protein REV1; BRCT domain, protein bind	99.89
2ebw_A	97	DNA repair protein REV1; A/B/A 3 layers, parallel	99.86
3olc_X	298	DNA topoisomerase 2-binding protein 1; BRCT domain	99.85
1wf6_A	132	Similar to S.pombe -RAD4+/CUT5+product (A40727); B	99.83
3pc6_A	104	DNA repair protein XRCC1; BRCT domain, protein:pro	99.82
1l0b_A	229	BRCA1; TANDEM-BRCT, three-helix bundle, unknown fu	99.81
2nte_A	210	BARD-1, BRCA1-associated ring domain protein 1; BR	99.79
1t15_A	214	Breast cancer type 1 susceptibility protein; prote	99.78
3sqd_A	219	PAX-interacting protein 1; tandem BRCT domains, ce	99.77
2etx_A	209	Mediator of DNA damage checkpoint protein 1; tande	99.76
3al2_A	235	DNA topoisomerase 2-binding protein 1; BRCT domain	99.71
3olc_X	298	DNA topoisomerase 2-binding protein 1; BRCT domain	99.7
3u3z_A	199	Microcephalin; DNA repair, cell cycle regulation,	99.68
2jw5_A	106	DNA polymerase lambda; BRCT domain, family X polym	99.66
3l41_A	220	BRCT-containing protein 1; BRC1, BRCT domain, tand	99.64
1kzy_C	259	Tumor suppressor P53-binding protein 1; tandem-BRC	99.59
2vxb_A	241	DNA repair protein RHP9; BRCT, nucleus, cell cycle	99.56
3ii6_X	263	DNA ligase 4; XRCC4, NHEJ, DNA repair, BRCT, alter	99.54
3ii6_X	263	DNA ligase 4; XRCC4, NHEJ, DNA repair, BRCT, alter	99.52
1l7b_A	92	DNA ligase; BRCT, autostructure, structural genomi	99.48
2k6g_A	109	Replication factor C subunit 1; protein, BRCT, DNA	99.44
1z56_C	264	DNA ligase IV; DNA repair, BRCT, NHEJ, XRCC4, DNA	99.39
2ebu_A	112	Replication factor C subunit 1; A/B/A 3 layers, pa	99.39
2ep8_A	100	Pescadillo homolog 1; A/B/A 3 layers, nucleolus, r	99.36
2coe_A	120	Deoxynucleotidyltransferase, terminal variant; BRC	99.35
2cok_A	113	Poly [ADP-ribose] polymerase-1; BRCT domain, DNA r	99.32
1l0b_A	229	BRCA1; TANDEM-BRCT, three-helix bundle, unknown fu	99.28
1t15_A	214	Breast cancer type 1 susceptibility protein; prote	99.26
1z56_C	264	DNA ligase IV; DNA repair, BRCT, NHEJ, XRCC4, DNA	99.22
3pc7_A	88	DNA ligase 3; DNA repair, BRCT domain, protein:pro	99.13
3u3z_A	199	Microcephalin; DNA repair, cell cycle regulation,	99.03
2dun_A	133	POL MU, DNA polymerase MU; layers A/B/A, parallel	99.02
2etx_A	209	Mediator of DNA damage checkpoint protein 1; tande	99.01
1kzy_C	259	Tumor suppressor P53-binding protein 1; tandem-BRC	98.95
2nte_A	210	BARD-1, BRCA1-associated ring domain protein 1; BR	98.86
3sqd_A	219	PAX-interacting protein 1; tandem BRCT domains, ce	98.51
1dgs_A	667	DNA ligase; AMP complex, NAD+-dependent; HET: DNA	98.49
2owo_A	671	DNA ligase; protein-DNA complex, ligase-DNA comple	98.47
2vxb_A	241	DNA repair protein RHP9; BRCT, nucleus, cell cycle	98.42
3al2_A	235	DNA topoisomerase 2-binding protein 1; BRCT domain	98.12
3t7k_A	256	RTT107, regulator of TY1 transposition protein 107	97.99
3huf_A	325	DNA repair and telomere maintenance protein NBS1;	97.94
4gns_A	290	Chitin biosynthesis protein CHS5; FN3, BRCT, tetra	97.86
2l42_A	106	DNA-binding protein RAP1; BRCT domain, protein bin	97.32
3l41_A	220	BRCT-containing protein 1; BRC1, BRCT domain, tand	96.96
3qbz_A	160	DDK kinase regulatory subunit DBF4; FHA domain,RAD	96.95
3oq0_A	151	DBF4, protein DNA52; DDK, BRCT, RAD53, replication	96.88
3oq4_A	134	DBF4, protein DNA52; DDK, BRCT, RAD53, replication	96.64

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

Probab=99.96  E-value=1.7e-29  Score=205.42  Aligned_cols=102  Identities=20%  Similarity=0.161  Sum_probs=98.3

Q ss_pred             hHHHHHHhhhhcCCCCcEEEEccccCCCCCccchHHHHHHHhcCCEEEeeeCCCccEEEecCCCcHHHHHHHhC-CCeec
Q 033679            8 LIFFCTENGQREVLKGCKLVFSHAFPSKFPAHIHYLWKVVEQLGATCSIELDPSVTHVVSNKCSNEKVSLGSKG-GQVFG   86 (113)
Q Consensus         8 ~~~~il~~~k~~vL~Gc~I~fSg~~p~~~~~~~~~l~~~a~~lGA~~~~~l~~~vTHlV~~~~~t~K~~~A~k~-gi~IV   86 (113)
                      =|+.|||++|+++|+||+|||||++|.+.++++..++++++++||+++.+++++||||||.+.+|.|+++|+++ ||+||
T Consensus       340 Dv~~il~~~k~~~L~G~~IvfSG~~p~~~~~~r~~l~~~~~~lGa~~~~~vs~~vTHLVa~~~~t~K~~~A~~~g~IkIV  419 (442)
T 3ef1_A          340 NVGLIIPKMKQKVLKGCRLLFSGVIPLGVDVLSSDIAKWAMSFGAEVVLDFSVPPTHLIAAKIRTEKVKKAVSMGNIKVV  419 (442)
T ss_dssp             CHHHHHHHHHHTTSTTCEEEEESSSCTTSCSTTSHHHHHHHTTTCEECSSSSSCCSEEEECSCCCHHHHHHHHHSSSEEE
T ss_pred             cHHHHHHHHhhcccCCcEEEEecccCCCCCccHHHHHHHHHHcCCEEeCCCCCCceEEEeCCCCCHHHHHHHhcCCCEEE
Confidence            48899999999999999999999999988889999999999999999999999999999999999999999998 59999


Q ss_pred             CcchHHHHHHhhCCCCCCceecc
Q 033679           87 GSTVDRGSQLFVARATRREVSCE  109 (113)
Q Consensus        87 ~p~WL~~c~~~w~r~dE~~y~~~  109 (113)
                      +|+||++|..+|+|+||++|++.
T Consensus       420 s~~WL~dcl~~~krldE~~YlLy  442 (442)
T 3ef1_A          420 KLNWLTESLSQWKRLPESDYLLY  442 (442)
T ss_dssp             EHHHHHHHHHHTSCCCGGGTBCC
T ss_pred             eHHHHHHHHHcCCcCChhccccC
Confidence            99999999999999999999974

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

Probab=99.95  E-value=1.4e-28  Score=196.37  Aligned_cols=101  Identities=20%  Similarity=0.172  Sum_probs=97.5

Q ss_pred             HHHHHHhhhhcCCCCcEEEEccccCCCCCccchHHHHHHHhcCCEEEeeeCCCccEEEecCCCcHHHHHHHhC-CCeecC
Q 033679            9 IFFCTENGQREVLKGCKLVFSHAFPSKFPAHIHYLWKVVEQLGATCSIELDPSVTHVVSNKCSNEKVSLGSKG-GQVFGG   87 (113)
Q Consensus         9 ~~~il~~~k~~vL~Gc~I~fSg~~p~~~~~~~~~l~~~a~~lGA~~~~~l~~~vTHlV~~~~~t~K~~~A~k~-gi~IV~   87 (113)
                      ++.||+++|+++|+||+|+|||.+|.+.++++..++++++++||+|+.+++++||||||.+.+|.|+++|++. ||+||+
T Consensus       271 v~~ii~~lk~~~L~G~~ivfSG~~~~~~~~~~~~l~~l~~~lGa~v~~~vs~~vTHLVa~~~~t~K~~~A~~~~~I~IV~  350 (372)
T 3ef0_A          271 VGLIIPKMKQKVLKGCRLLFSGVIPLGVDVLSSDIAKWAMSFGAEVVLDFSVPPTHLIAAKIRTEKVKKAVSMGNIKVVK  350 (372)
T ss_dssp             HHHHHHHHHTTTSTTCEEEEESSSCTTSCTTTSHHHHHHHHTTCEEESSSSSCCSEEEECSCCCHHHHHHHHSSSCCEEE
T ss_pred             HHHHHHHHHhhhcCCcEEEEecccCCCcchhHHHHHHHHHHcCCEEeCcCCCCceEEEEcCCCchHHHHHHhcCCCEEEc
Confidence            7899999999999999999999999887888999999999999999999999999999999999999999998 799999


Q ss_pred             cchHHHHHHhhCCCCCCceecc
Q 033679           88 STVDRGSQLFVARATRREVSCE  109 (113)
Q Consensus        88 p~WL~~c~~~w~r~dE~~y~~~  109 (113)
                      |+||++|..+|+|+||++|++.
T Consensus       351 ~~Wl~~c~~~~~~vdE~~Y~l~  372 (372)
T 3ef0_A          351 LNWLTESLSQWKRLPESDYLLY  372 (372)
T ss_dssp             HHHHHHHHHTTSCCCGGGGBCC
T ss_pred             HHHHHHHHHhCCcCChhhceeC
Confidence            9999999999999999999873

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

Probab=99.92  E-value=4.8e-25  Score=149.13  Aligned_cols=97  Identities=12%  Similarity=0.002  Sum_probs=85.1

Q ss_pred             hhhhcCCCCcEEEEccccCCCCCccchHHHHHHHhcCCEEEeeeCCCccEEEecCCCcHHHHHHHhCCCeecCcchHHHH
Q 033679           15 NGQREVLKGCKLVFSHAFPSKFPAHIHYLWKVVEQLGATCSIELDPSVTHVVSNKCSNEKVSLGSKGGQVFGGSTVDRGS   94 (113)
Q Consensus        15 ~~k~~vL~Gc~I~fSg~~p~~~~~~~~~l~~~a~~lGA~~~~~l~~~vTHlV~~~~~t~K~~~A~k~gi~IV~p~WL~~c   94 (113)
                      .+..++|+||+++|++.-+.+.......++.+++++||+++.+++++|||||+.+.++.|++.|++++++||+|+||++|
T Consensus         2 ~~~~p~f~g~vvyvd~~~~~g~~~~s~~l~~~l~~~GA~v~~~l~~~vTHvV~~~~~~~~~~~A~~~~i~iV~~~Wv~~C   81 (107)
T 3pa6_A            2 HMAAPILKDVVAYVEVWSSNGTENYSKTFTTQLVDMGAKVSKTFNKQVTHVIFKDGYQSTWDKAQKRGVKLVSVLWVEKC   81 (107)
T ss_dssp             --CCCTTTTCEEEEEEBCTTSCCBCHHHHHHHHHHTTCEECSSCCTTCCEEEEESCCHHHHHHHHHHTCEEECHHHHHHH
T ss_pred             CccccccCCEEEEEeccCCCChhhHHHHHHHHHHHcCCEEecccCCCccEEEEeCCCChHHHHHhcCCCEEECHHHHHHH
Confidence            35678999999999887533332344689999999999999999999999999999999999999999999999999999


Q ss_pred             HHhhCCCCCCceeccCC
Q 033679           95 QLFVARATRREVSCEAN  111 (113)
Q Consensus        95 ~~~w~r~dE~~y~~~~~  111 (113)
                      ..+|+|+||++|++...
T Consensus        82 ~~~~~~vdE~~Y~i~~~   98 (107)
T 3pa6_A           82 RTAGAHIDESLFPAANM   98 (107)
T ss_dssp             HHHTSCCCGGGSBCCCT
T ss_pred             HHhCccCChhcccCCCC
Confidence            99999999999998654

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

Probab=99.92  E-value=2.6e-26  Score=156.65  Aligned_cols=97  Identities=16%  Similarity=0.040  Sum_probs=84.8

Q ss_pred             HHhhhhcCCCCcEEEEccccCCCCCccchHHHHHHHhcCCEEEeeeCCCccEEEecCCCcHHHHHHHhCCCeecCcchHH
Q 033679           13 TENGQREVLKGCKLVFSHAFPSKFPAHIHYLWKVVEQLGATCSIELDPSVTHVVSNKCSNEKVSLGSKGGQVFGGSTVDR   92 (113)
Q Consensus        13 l~~~k~~vL~Gc~I~fSg~~p~~~~~~~~~l~~~a~~lGA~~~~~l~~~vTHlV~~~~~t~K~~~A~k~gi~IV~p~WL~   92 (113)
                      +..-|-++|.||+|+|||. +   +.++..|+++++++||+++.++++++||||+.++.+.|++.|.+++|+||+++||+
T Consensus        14 ~~~~~~p~F~g~~Ic~sGf-~---~~er~~l~~~i~~~GG~~~~~l~~~cTHLV~~~~~~~K~~~A~~~~i~IVs~eWl~   89 (112)
T 3l46_A           14 LYFQGVPPFQDCILSFLGF-S---DEEKTNMEEMTEMQGGKYLPLGDERCTHLVVEENIVKDLPFEPSKKLYVVKQEWFW   89 (112)
T ss_dssp             ----CCCTTTTCEECEESC-C---HHHHHHHHHHHHHTTCEECCTTCTTCSEEEECTTTBSSCSSCCCSSCEEEEHHHHH
T ss_pred             ccccCCCccCCeEEEEeCC-C---HHHHHHHHHHHHHcCCEECcccCCCceEEEecCCchhhHHHHHHCCeeEecHHHHH
Confidence            4556778999999999995 4   25788999999999999999999999999999999999999999999999999999


Q ss_pred             HHHHhhCCCCCCceeccCCCC
Q 033679           93 GSQLFVARATRREVSCEANQT  113 (113)
Q Consensus        93 ~c~~~w~r~dE~~y~~~~~~~  113 (113)
                      +|.+++.++||+.|.++..+|
T Consensus        90 dsi~~g~~ldE~~Y~~~~~~~  110 (112)
T 3l46_A           90 GSIQMDARAGETMYLYEKANT  110 (112)
T ss_dssp             HHHHHTSCCCGGGSBCCC---
T ss_pred             HHHHcCCccChhhceeccCCC
Confidence            999999999999999976543

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

Probab=99.92  E-value=2.4e-26  Score=155.12  Aligned_cols=94  Identities=16%  Similarity=0.097  Sum_probs=86.0

Q ss_pred             hhhhcCCCCcEEEEccccCCCCCccchHHHHHHHhcCCEEEeeeCCCccEEEecCCCcHHHHHHHhCCCeecCcchHHHH
Q 033679           15 NGQREVLKGCKLVFSHAFPSKFPAHIHYLWKVVEQLGATCSIELDPSVTHVVSNKCSNEKVSLGSKGGQVFGGSTVDRGS   94 (113)
Q Consensus        15 ~~k~~vL~Gc~I~fSg~~p~~~~~~~~~l~~~a~~lGA~~~~~l~~~vTHlV~~~~~t~K~~~A~k~gi~IV~p~WL~~c   94 (113)
                      +.|-++|+||+|+|||. +   ..++..++++++++||++...+++++||||+.++.+.|++.|.+++++||+++||++|
T Consensus         7 ~~~~~~F~g~~i~~sg~-~---~~~r~~l~~~i~~~GG~~~~~~~~~~THLV~~~~~~~K~~~a~~~~i~IV~~~Wl~ds   82 (109)
T 2cou_A            7 GFKVPPFQDCILSFLGF-S---DEEKHSMEEMTEMQGGSYLPVGDERCTHLIVEENTVKDLPFEPSKKLFVVKQEWFWGS   82 (109)
T ss_dssp             SSCCCTTTTCBEEEESS-C---HHHHHHHHHHHHHHTCBCCCTTCTTCSEEEECTTTCSSCSSCCCTTSEEECHHHHHHH
T ss_pred             cccCCcCCCeEEEecCC-C---HHHHHHHHHHHHHcCCEEecccCCCccEEEEeCCccHHHHHHHHCCCeEecHHHHHHH
Confidence            34678999999999995 3   2478899999999999999999999999999999999999999999999999999999


Q ss_pred             HHhhCCCCCCceeccCCC
Q 033679           95 QLFVARATRREVSCEANQ  112 (113)
Q Consensus        95 ~~~w~r~dE~~y~~~~~~  112 (113)
                      ..+++++||++|.+...+
T Consensus        83 i~~g~~ldE~~Y~~~~~~  100 (109)
T 2cou_A           83 IQMDARAGETMYLYEKAN  100 (109)
T ss_dssp             HHTTSCCCGGGTBCCCCC
T ss_pred             HHcCCcCChhccCCCCCC
Confidence            999999999999997644

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

Probab=99.91  E-value=1.2e-24  Score=150.44  Aligned_cols=91  Identities=15%  Similarity=0.056  Sum_probs=85.2

Q ss_pred             hhcCCCCcEEEEccccCCCCCccchHHHHHHHhcCCEEEeeeCCCccEEEecCCCcHHHHHHHhCCCeecCcchHHHHHH
Q 033679           17 QREVLKGCKLVFSHAFPSKFPAHIHYLWKVVEQLGATCSIELDPSVTHVVSNKCSNEKVSLGSKGGQVFGGSTVDRGSQL   96 (113)
Q Consensus        17 k~~vL~Gc~I~fSg~~p~~~~~~~~~l~~~a~~lGA~~~~~l~~~vTHlV~~~~~t~K~~~A~k~gi~IV~p~WL~~c~~   96 (113)
                      ..++|+||+|+|||.++    +++..|.++++.+||++..+++++|||||+.+..+.|++.|++.||+||+++||++|..
T Consensus        19 ~~~~f~g~~i~itG~~~----~~r~~l~~~i~~~Gg~v~~~~s~~~ThLI~~~~~~~K~~~A~~~gi~IV~~~Wl~d~~~   94 (129)
T 2d8m_A           19 LGKILQGVVVVLSGFQN----PFRSELRDKALELGAKYRPDWTRDSTHLICAFANTPKYSQVLGLGGRIVRKEWVLDCHR   94 (129)
T ss_dssp             HTTTSTTEEEEEESCCT----THHHHHHHHHHHTTEEEESSCCTTCCEEEESSSSCHHHHHHHHHTCEEEETHHHHHHHH
T ss_pred             ccccCCCeEEEEeCCCc----HHHHHHHHHHHHcCCEEeCCcCCCCeEEEecCCCChHHHHHHHCCCcEecHHHHHHHHH
Confidence            45689999999999863    57889999999999999999999999999999999999999999999999999999999


Q ss_pred             hhCCCCCCceeccCC
Q 033679           97 FVARATRREVSCEAN  111 (113)
Q Consensus        97 ~w~r~dE~~y~~~~~  111 (113)
                      +|+++||++|++...
T Consensus        95 ~~~~l~e~~Y~l~~~  109 (129)
T 2d8m_A           95 MRRRLPSQRYLMAGP  109 (129)
T ss_dssp             TTSCCCGGGGBCSSS
T ss_pred             hCCcCChHhcccCCC
Confidence            999999999998654

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

Probab=99.89  E-value=4.1e-23  Score=133.32  Aligned_cols=87  Identities=14%  Similarity=0.025  Sum_probs=75.9

Q ss_pred             hhcCCCCcEEEEccccCCCCCccchHHHHHHHhcCCEEEeeeC--CCccEEEecCCCcHHHHHHHhCCCeecCcchHHHH
Q 033679           17 QREVLKGCKLVFSHAFPSKFPAHIHYLWKVVEQLGATCSIELD--PSVTHVVSNKCSNEKVSLGSKGGQVFGGSTVDRGS   94 (113)
Q Consensus        17 k~~vL~Gc~I~fSg~~p~~~~~~~~~l~~~a~~lGA~~~~~l~--~~vTHlV~~~~~t~K~~~A~k~gi~IV~p~WL~~c   94 (113)
                      +.++|+||+|+|||..    .+++..+.++++++||++...++  +++||||+.++.+.|+..+  .|++||+|+||++|
T Consensus         4 ~~~~f~g~~~~i~g~~----~~~~~~l~~~i~~~GG~~~~~~~~~~~~THlI~~~~~~~K~~~~--~~~~iV~~~Wi~dc   77 (92)
T 4id3_A            4 SSKIFKNCVIYINGYT----KPGRLQLHEMIVLHGGKFLHYLSSKKTVTHIVASNLPLKKRIEF--ANYKVVSPDWIVDS   77 (92)
T ss_dssp             --CTTTTCEEEECSCC----SSCHHHHHHHHHHTTCEEESSCCCTTTCCEEECSCCCHHHHHHT--TTSCEECTHHHHHH
T ss_pred             cccccCCEEEEEeCCC----CcCHHHHHHHHHHCCCEEEEEecCCCceEEEEecCCCHHHHHHc--CCCCEEcccHHHHH
Confidence            4689999999999953    24578999999999999999999  8999999999888885433  58999999999999


Q ss_pred             HHhhCCCCCCceecc
Q 033679           95 QLFVARATRREVSCE  109 (113)
Q Consensus        95 ~~~w~r~dE~~y~~~  109 (113)
                      ..+++++||++|.+.
T Consensus        78 i~~~~~l~e~~Y~l~   92 (92)
T 4id3_A           78 VKEARLLPWQNYSLT   92 (92)
T ss_dssp             HHHTSCCCGGGGBCC
T ss_pred             HHcCCcCChhhcccC
Confidence            999999999999873

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

Probab=99.86  E-value=6.7e-22  Score=129.53  Aligned_cols=87  Identities=11%  Similarity=0.031  Sum_probs=78.6

Q ss_pred             hhcCCCCcEEEEccccCCCCCccchHHHHHHHhcCCEEEeeeC-CCccEEEecCCCcHHHHHHHhCCCeecCcchHHHHH
Q 033679           17 QREVLKGCKLVFSHAFPSKFPAHIHYLWKVVEQLGATCSIELD-PSVTHVVSNKCSNEKVSLGSKGGQVFGGSTVDRGSQ   95 (113)
Q Consensus        17 k~~vL~Gc~I~fSg~~p~~~~~~~~~l~~~a~~lGA~~~~~l~-~~vTHlV~~~~~t~K~~~A~k~gi~IV~p~WL~~c~   95 (113)
                      ..++|+||+|++||.-    .+++..|.++++++||++..+++ +.+||+|+.+..+.|++.+.  +++||+|+||.||.
T Consensus         9 ~~~lF~g~~~~isg~~----~~~~~~L~~~i~~~GG~~~~~~~~~~~THlI~~~~~~~k~~~~~--~~~iV~p~Wl~dci   82 (97)
T 2ebw_A            9 SSTIFSGVAIYVNGYT----DPSAEELRKLMMLHGGQYHVYYSRSKTTHIIATNLPNAKIKELK--GEKVIRPEWIVESI   82 (97)
T ss_dssp             CCCTTTTCEEEECSSC----SSCHHHHHHHHHHTTCEECSSCCSSSCCEEECSCCCTTHHHHTS--SSCCBCTHHHHHHH
T ss_pred             CCCCCCCeEEEEeCCC----cccHHHHHHHHHHcCCEEeeecCCCCCEEEEecCCChHHHHHhc--CCCEeChHHHHHHH
Confidence            4678999999999973    34678999999999999998887 68999999999899998775  89999999999999


Q ss_pred             HhhCCCCCCceecc
Q 033679           96 LFVARATRREVSCE  109 (113)
Q Consensus        96 ~~w~r~dE~~y~~~  109 (113)
                      .+++++||++|.+.
T Consensus        83 ~~~~~l~~~~Y~l~   96 (97)
T 2ebw_A           83 KAGRLLSYIPYQLY   96 (97)
T ss_dssp             HHTSCCCSGGGBSC
T ss_pred             HcCCccCchHcEec
Confidence            99999999999875

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

Probab=99.85  E-value=9e-22  Score=152.54  Aligned_cols=95  Identities=11%  Similarity=0.008  Sum_probs=86.6

Q ss_pred             HhhhhcCCCCcEEEEccccCCCCCccchHHHHHHHhcCCEEEeeeC-CCccEEEecCCCcHHHHHHHhCCCeecCcchHH
Q 033679           14 ENGQREVLKGCKLVFSHAFPSKFPAHIHYLWKVVEQLGATCSIELD-PSVTHVVSNKCSNEKVSLGSKGGQVFGGSTVDR   92 (113)
Q Consensus        14 ~~~k~~vL~Gc~I~fSg~~p~~~~~~~~~l~~~a~~lGA~~~~~l~-~~vTHlV~~~~~t~K~~~A~k~gi~IV~p~WL~   92 (113)
                      +.-+.++|+||+|+|||..+    +++..+..+++.+||++..+++ +++||||+.++.+.|++.|+++||+||+|+||.
T Consensus       193 ~~~~~~~f~g~~i~~tG~~~----~~r~~l~~li~~~GG~~~~~ls~~~~THLI~~~~~g~K~~~A~~~gi~IV~~~Wl~  268 (298)
T 3olc_X          193 EDFKCPIFLGCIICVTGLCG----LDRKEVQQLTVKHGGQYMGQLKMNECTHLIVQEPKGQKYECAKRWNVHCVTTQWFF  268 (298)
T ss_dssp             GGGBCCTTTTCEEEECSCCH----HHHHHHHHHHHHTTCEECSSCCTTTCCEEECSSSCSHHHHHHHHTTCEEECHHHHH
T ss_pred             ccccccccCCeEEEEeCCCC----ccHHHHHHHHHHcCCEEeceecCCCceEEEEeCCCchHHHHHHHCCCeEEeHHHHH
Confidence            34567889999999999754    4788999999999999999999 899999999999999999999999999999999


Q ss_pred             HHHHhhCCCCCCceeccCCC
Q 033679           93 GSQLFVARATRREVSCEANQ  112 (113)
Q Consensus        93 ~c~~~w~r~dE~~y~~~~~~  112 (113)
                      +|..+|+++||++|.+....
T Consensus       269 dsi~~g~~lde~~Y~l~~~~  288 (298)
T 3olc_X          269 DSIEKGFCQDESIYKTEPRP  288 (298)
T ss_dssp             HHHHHTSCCCGGGSBSCC--
T ss_pred             HHHHCCCCCCchhcCCCCCc
Confidence            99999999999999997653

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

Probab=99.83  E-value=9.9e-21  Score=131.13  Aligned_cols=94  Identities=12%  Similarity=0.100  Sum_probs=80.7

Q ss_pred             HHHhhhhcCCCCcEEEEccccCCCCCccchHHHHHHHhcCCEEEeeeCCCccEEEecCCCcHHHHHHHh---CCCeecCc
Q 033679           12 CTENGQREVLKGCKLVFSHAFPSKFPAHIHYLWKVVEQLGATCSIELDPSVTHVVSNKCSNEKVSLGSK---GGQVFGGS   88 (113)
Q Consensus        12 il~~~k~~vL~Gc~I~fSg~~p~~~~~~~~~l~~~a~~lGA~~~~~l~~~vTHlV~~~~~t~K~~~A~k---~gi~IV~p   88 (113)
                      .+++.+..+|+||+|+|+|.-    ..++..|.++++.+||++...+++.+||+|+.++ +.+++.+.+   .+++||+|
T Consensus        32 ~~~~~~~~lF~g~~i~i~G~~----~~~~~~L~~~i~~~Gg~v~~~l~~~vTHvI~~~~-~~~~~~~~~~~~~~~~iV~~  106 (132)
T 1wf6_A           32 SAFQAPEDLLDGCRIYLCGFS----GRKLDKLRRLINSGGGVRFNQLNEDVTHVIVGDY-DDELKQFWNKSAHRPHVVGA  106 (132)
T ss_dssp             GGCCCCTTTTTTCEEEEESCC----SHHHHHHHHHHHHTTCEEESSCCSSCCEEEESSC-CSHHHHHHHHSCCCCCEEEH
T ss_pred             ccccccccccCCEEEEEECCC----hHHHHHHHHHHHHCCCEEeCcCCCCCeEEEECCc-hHHHHHHHHhhCCCCeEech
Confidence            457788999999999999972    3567899999999999999999999999999875 445555543   36999999


Q ss_pred             chHHHHHHhhCCCCCCceeccC
Q 033679           89 TVDRGSQLFVARATRREVSCEA  110 (113)
Q Consensus        89 ~WL~~c~~~w~r~dE~~y~~~~  110 (113)
                      +||++|...++++||++|++..
T Consensus       107 ~Wv~dsi~~~~ll~e~~Y~~~~  128 (132)
T 1wf6_A          107 KWLLECFSKGYMLSEEPYIHSG  128 (132)
T ss_dssp             HHHHHHHHHSSCCCSGGGBCCC
T ss_pred             HHHHHHHHcCCcCCHhhccCCC
Confidence            9999999999999999998764

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

Probab=99.82  E-value=2.9e-20  Score=125.24  Aligned_cols=89  Identities=9%  Similarity=0.039  Sum_probs=82.2

Q ss_pred             cCCCCcEEEEccccCCCCCccchHHHHHHHhcCCEEEeeeCCCccEEEecCCCcHHHHHHHhC--CCeecCcchHHHHHH
Q 033679           19 EVLKGCKLVFSHAFPSKFPAHIHYLWKVVEQLGATCSIELDPSVTHVVSNKCSNEKVSLGSKG--GQVFGGSTVDRGSQL   96 (113)
Q Consensus        19 ~vL~Gc~I~fSg~~p~~~~~~~~~l~~~a~~lGA~~~~~l~~~vTHlV~~~~~t~K~~~A~k~--gi~IV~p~WL~~c~~   96 (113)
                      .+|+||++.|||.+|   +.++..++++..++||+++..++++|||+|+.++.+.|++.|++.  ++.+|+|+||++|..
T Consensus         6 d~F~g~~f~l~~~~p---~~~r~~l~ryiia~GG~v~~~~~~~vTHvIt~~~~d~~~~~a~~~~p~~~~V~P~WI~~Ci~   82 (104)
T 3pc6_A            6 DFFEGKHFFLYGEFP---GDERRRLIRYVTAFNGELEDYMNERVQFVITAQEWDPNFEEALMENPSLAFVRPRWIYSCNE   82 (104)
T ss_dssp             CTTTTCEEEEESCCS---TTHHHHHHHHHHHTTCEECSSCCTTCCEEEESSCCCHHHHHHHTTCTTCEEECHHHHHHHHH
T ss_pred             hhhCCeEEEEcCCCc---HHHHHHHHHHHHHcCCEEEcccCCCceEEEeCCCCChhHHHHhhhCCCCeEEccHHHHHHHh
Confidence            579999999999987   357789999999999999999999999999999999999999864  699999999999999


Q ss_pred             hhCCCCCCceeccC
Q 033679           97 FVARATRREVSCEA  110 (113)
Q Consensus        97 ~w~r~dE~~y~~~~  110 (113)
                      +++++++++|.+..
T Consensus        83 ~~klvp~~~y~~~~   96 (104)
T 3pc6_A           83 KQKLLPHQLYGVVP   96 (104)
T ss_dssp             HTSCCCGGGGBCCC
T ss_pred             cCccCCcccceecc
Confidence            99999999998753

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

Probab=99.81  E-value=3.3e-20  Score=136.71  Aligned_cols=90  Identities=17%  Similarity=0.107  Sum_probs=81.3

Q ss_pred             hhcCCCCcEEEEccccCCCCCccchHHHHHHHhcCCEEEeeeCCCccEEEecCC------CcHHHHHHHhCCCeecCcch
Q 033679           17 QREVLKGCKLVFSHAFPSKFPAHIHYLWKVVEQLGATCSIELDPSVTHVVSNKC------SNEKVSLGSKGGQVFGGSTV   90 (113)
Q Consensus        17 k~~vL~Gc~I~fSg~~p~~~~~~~~~l~~~a~~lGA~~~~~l~~~vTHlV~~~~------~t~K~~~A~k~gi~IV~p~W   90 (113)
                      |+..+++++|+|||+.+    .++..+.++++.+||++..++++.|||||+...      .|.|+..|+..|++||+|+|
T Consensus         1 ~~~~~~~~~i~~sg~~~----~~~~~l~~~~~~~G~~~~~~~~~~~THlI~~~~~~~~~~rt~K~~~a~~~g~~IV~~~W   76 (229)
T 1l0b_A            1 KERAERDISMVVSGLTP----KEVMIVQKFAEKYRLALTDVITEETTHVIIKTDAEFVCERTLKYFLGIAGGKWIVSYSW   76 (229)
T ss_dssp             --CCCCCCEEEEESCCH----HHHHHHHHHHHHTTCEECSSCCSSCCEEEECBCTTSEECCCHHHHHHHHTTCEEEETHH
T ss_pred             CCCCCCCeEEEEcCCCH----HHHHHHHHHHHHcCCEEeCCcCCCCCEEEEcCCccccccccHHHHHHHHCCCcEecHHH
Confidence            56789999999999854    356789999999999999999999999999975      69999999999999999999


Q ss_pred             HHHHHHhhCCCCCCceeccC
Q 033679           91 DRGSQLFVARATRREVSCEA  110 (113)
Q Consensus        91 L~~c~~~w~r~dE~~y~~~~  110 (113)
                      |.+|...++++||++|.+..
T Consensus        77 l~~~~~~~~~~~e~~y~~~~   96 (229)
T 1l0b_A           77 VIKSIQERKLLSVHEFEVKG   96 (229)
T ss_dssp             HHHHHTTTSCCCSGGGBCCE
T ss_pred             HHHHHHCCCcCChHHeEecc
Confidence            99999999999999998863

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

Probab=99.79  E-value=2.6e-19  Score=131.08  Aligned_cols=85  Identities=20%  Similarity=0.034  Sum_probs=78.2

Q ss_pred             CCcEEEEccccCCCCCccchHHHHHHHhcCCEEEeeeCCCccEEEecC---CCcHHHHHHHhCCCeecCcchHHHHHHhh
Q 033679           22 KGCKLVFSHAFPSKFPAHIHYLWKVVEQLGATCSIELDPSVTHVVSNK---CSNEKVSLGSKGGQVFGGSTVDRGSQLFV   98 (113)
Q Consensus        22 ~Gc~I~fSg~~p~~~~~~~~~l~~~a~~lGA~~~~~l~~~vTHlV~~~---~~t~K~~~A~k~gi~IV~p~WL~~c~~~w   98 (113)
                      .|++|++||+.+    .++..+.++++.|||++..+++++|||||+.+   ..|.|+..|+..|++||+|+||.+|...+
T Consensus         1 ~~~vi~~sg~~~----~~~~~l~~~~~~~G~~~~~~~~~~~THlV~~~~~~~rt~K~l~a~~~g~~IV~~~Wl~~c~~~~   76 (210)
T 2nte_A            1 GPLVLIGSGLSS----EQQKMLSELAVILKAKKYTEFDSTVTHVVVPGDAVQSTLKCMLGILNGCWILKFEWVKACLRRK   76 (210)
T ss_dssp             CCCEEEESSCCH----HHHHHHHHHHHHTTCEEESSCCTTCCEEEESSSSCCCSHHHHHHHHTTCEEEETHHHHHHHHHT
T ss_pred             CCEEEEECCCCH----HHHHHHHHHHHHcCCEEeCCCCCCCeEEEEcCCCcchHHHHHHHHhcCCEEecHHHHHHHHHcC
Confidence            378999999853    46678999999999999999999999999987   57999999999999999999999999999


Q ss_pred             CCCCCCceeccC
Q 033679           99 ARATRREVSCEA  110 (113)
Q Consensus        99 ~r~dE~~y~~~~  110 (113)
                      +++||++|++..
T Consensus        77 ~~~~e~~y~~~~   88 (210)
T 2nte_A           77 VCEQEEKYEIPE   88 (210)
T ss_dssp             SCCCGGGTBCTT
T ss_pred             CcCChhhccCCC
Confidence            999999999863

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

Probab=99.78  E-value=3.1e-19  Score=129.74  Aligned_cols=84  Identities=19%  Similarity=0.115  Sum_probs=76.9

Q ss_pred             CCcEEEEccccCCCCCccchHHHHHHHhcCCEEEeeeCCCccEEEecCC------CcHHHHHHHhCCCeecCcchHHHHH
Q 033679           22 KGCKLVFSHAFPSKFPAHIHYLWKVVEQLGATCSIELDPSVTHVVSNKC------SNEKVSLGSKGGQVFGGSTVDRGSQ   95 (113)
Q Consensus        22 ~Gc~I~fSg~~p~~~~~~~~~l~~~a~~lGA~~~~~l~~~vTHlV~~~~------~t~K~~~A~k~gi~IV~p~WL~~c~   95 (113)
                      +|++|++||+.+    .++..+.++++.+||++..+++++|||||+.+.      .|.|+..|+..|++||+|+||.+|.
T Consensus         3 ~~~~~~~sg~~~----~~~~~l~~~~~~~G~~~~~~~~~~~THli~~~~~~~~~~rt~k~~~a~~~g~~IV~~~Wl~~~~   78 (214)
T 1t15_A            3 KRMSMVVSGLTP----EEFMLVYKFARKHHITLTNLITEETTHVVMKTDAEFVCERTLKYFLGIAGGKWVVSYFWVTQSI   78 (214)
T ss_dssp             -CCEEEEESCCH----HHHHHHHHHHHHHTCEECSSCCTTCCEEEECBCTTSEECCBHHHHHHHHTTCEEEETHHHHHHH
T ss_pred             CcEEEEECCCCH----HHHHHHHHHHHHhCCEEeCccCCCCcEEEEeCCcccchhhhHHHHHHHhcCCEEeCHHHHHHHH
Confidence            589999999843    366789999999999999999999999999975      4999999999999999999999999


Q ss_pred             HhhCCCCCCceecc
Q 033679           96 LFVARATRREVSCE  109 (113)
Q Consensus        96 ~~w~r~dE~~y~~~  109 (113)
                      ..++++||++|.+.
T Consensus        79 ~~~~~~~e~~y~~~   92 (214)
T 1t15_A           79 KERKMLNEHDFEVR   92 (214)
T ss_dssp             HTTSCCCGGGGBCC
T ss_pred             HCCCcCChHHeEee
Confidence            99999999999886

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

Probab=99.77  E-value=3.5e-19  Score=132.62  Aligned_cols=91  Identities=10%  Similarity=-0.036  Sum_probs=81.3

Q ss_pred             hhhhcCCCCcEEEEccccCCCCCccchHHHHHHHhcCCEEEeeeCCCccEEEecCC-CcHHHHHHHhCCCeecCcchHHH
Q 033679           15 NGQREVLKGCKLVFSHAFPSKFPAHIHYLWKVVEQLGATCSIELDPSVTHVVSNKC-SNEKVSLGSKGGQVFGGSTVDRG   93 (113)
Q Consensus        15 ~~k~~vL~Gc~I~fSg~~p~~~~~~~~~l~~~a~~lGA~~~~~l~~~vTHlV~~~~-~t~K~~~A~k~gi~IV~p~WL~~   93 (113)
                      -+|-.++.|++|+|||.-+    .++..+.++++.|||.+.++. +++||||+.+. +|.|+..|+..|++||+|+||.+
T Consensus         8 ~~~~~~~~~~~i~~SG~~~----~~~~~l~~~i~~lGg~v~~~~-~~~THLI~~~~~rT~K~l~A~~~g~~IVs~~Wl~~   82 (219)
T 3sqd_A            8 HMKLTPELTPFVLFTGFEP----VQVQQYIKKLYILGGEVAESA-QKCTHLIASKVTRTVKFLTAISVVKHIVTPEWLEE   82 (219)
T ss_dssp             -CCCCGGGCCEEEECSCCH----HHHHHHHHHHHHTTCEECSSG-GGCSEEECSSCCCCHHHHHHTTTCSEEECHHHHHH
T ss_pred             ccccCCCCCeEEEEeCCCh----HHHHHHHHHHHHCCCEEeCCC-CCceEEEECCCCCCHHHHHHHHcCCCEecHHHHHH
Confidence            3567889999999999744    355688999999999999986 89999999876 68999999999999999999999


Q ss_pred             HHHhhCCCCCCceeccC
Q 033679           94 SQLFVARATRREVSCEA  110 (113)
Q Consensus        94 c~~~w~r~dE~~y~~~~  110 (113)
                      |...++.+||++|.+..
T Consensus        83 c~~~~~~l~e~~y~l~d   99 (219)
T 3sqd_A           83 CFRCQKFIDEQNYILRD   99 (219)
T ss_dssp             HHHHTSCCCSGGGBCCC
T ss_pred             HHHcCCCCChHhccCCC
Confidence            99999999999999863

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

Probab=99.76  E-value=9.7e-19  Score=128.64  Aligned_cols=86  Identities=13%  Similarity=-0.009  Sum_probs=72.6

Q ss_pred             hhhcCCCCcEEEEccccCCCCCccchHHHHHHHhcCCEEEeeeCCCccEEEecCC-CcHHHHHHHhCCCeecCcchHHHH
Q 033679           16 GQREVLKGCKLVFSHAFPSKFPAHIHYLWKVVEQLGATCSIELDPSVTHVVSNKC-SNEKVSLGSKGGQVFGGSTVDRGS   94 (113)
Q Consensus        16 ~k~~vL~Gc~I~fSg~~p~~~~~~~~~l~~~a~~lGA~~~~~l~~~vTHlV~~~~-~t~K~~~A~k~gi~IV~p~WL~~c   94 (113)
                      -+++.++|++|+|||..+       ..+.++++.|||.+..++++ +||||+.+. .|.|+..|+..|++||+|+||.+|
T Consensus         5 ~~~~~~~~~~v~~sG~~~-------~~~~~~i~~lGg~~~~~~~~-~THlI~~~~~rt~K~l~a~~~g~~IV~~~Wl~~~   76 (209)
T 2etx_A            5 KLNQESTAPKVLFTGVVD-------ARGERAVLALGGSLAGSAAE-ASHLVTDRIRRTVKFLCALGRGIPILSLDWLHQS   76 (209)
T ss_dssp             -------CCEEEECSSCC-------HHHHHHHHHTTCEECSSTTT-CSEEECSSCCCSHHHHHHHHHTCCEECTHHHHHH
T ss_pred             cccccCCCcEEEEeCCCc-------HHHHHHHHHCCCEEeCCCCC-ceEEEECCCCCCHHHHHHHhcCCccccHHHHHHH
Confidence            467899999999999853       24578999999999999985 999999876 699999999999999999999999


Q ss_pred             HHhhCCCCCCceecc
Q 033679           95 QLFVARATRREVSCE  109 (113)
Q Consensus        95 ~~~w~r~dE~~y~~~  109 (113)
                      ...++.+||++|.+.
T Consensus        77 ~~~~~~l~e~~y~~~   91 (209)
T 2etx_A           77 RKAGFFLPPDEYVVT   91 (209)
T ss_dssp             HHHTSCCCSGGGBCC
T ss_pred             HHcCCCCChhhcccc
Confidence            999999999999985

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

Probab=99.71  E-value=2.1e-17  Score=124.24  Aligned_cols=88  Identities=17%  Similarity=0.134  Sum_probs=77.6

Q ss_pred             cCCCCcEEEEccccCCCCCccchHHHHHHHhcCCEEEe--eeCCCccEEEecCC-CcHHHHHHHhCCCeecCcchHHHHH
Q 033679           19 EVLKGCKLVFSHAFPSKFPAHIHYLWKVVEQLGATCSI--ELDPSVTHVVSNKC-SNEKVSLGSKGGQVFGGSTVDRGSQ   95 (113)
Q Consensus        19 ~vL~Gc~I~fSg~~p~~~~~~~~~l~~~a~~lGA~~~~--~l~~~vTHlV~~~~-~t~K~~~A~k~gi~IV~p~WL~~c~   95 (113)
                      ++.++.+|+|||+.+    .++..+.++++.|||.+..  +++++|||||+.++ .|.|+..|+..|++||+|+||.+|.
T Consensus         5 ~~~~~~~~~~Sg~~~----~~~~~l~~~i~~LGg~~~~~~~~~~~~THlV~~~~~RT~K~l~aia~G~wIvs~~wl~~s~   80 (235)
T 3al2_A            5 SLKKQYIFQLSSLNP----QERIDYCHLIEKLGGLVIEKQCFDPTCTHIVVGHPLRNEKYLASVAAGKWVLHRSYLEACR   80 (235)
T ss_dssp             ---CCCEEEEESCCH----HHHHHHHHHHHHTTCEECCSSSCCTTCCEEEESSCCCSHHHHHHHHTTCEEECTHHHHHHH
T ss_pred             cCCCCEEEEEcCCCH----HHHHHHHHHHHHcCCEEeccCCCCCCCcEEEECCCCCCHHHHHHHHcCCcCccHHHHHHHH
Confidence            456899999999743    4667899999999999976  58999999999997 4999999999999999999999999


Q ss_pred             HhhCCCCCCceeccC
Q 033679           96 LFVARATRREVSCEA  110 (113)
Q Consensus        96 ~~w~r~dE~~y~~~~  110 (113)
                      +..+.+||++|++..
T Consensus        81 ~~g~~l~E~~ye~~~   95 (235)
T 3al2_A           81 TAGHFVQEEDYEWGS   95 (235)
T ss_dssp             HHTSCCCSGGGBTTS
T ss_pred             HcCCCCChhceeecC
Confidence            999999999999864

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

Probab=99.70  E-value=2.8e-17  Score=127.26  Aligned_cols=85  Identities=12%  Similarity=0.056  Sum_probs=77.5

Q ss_pred             hcCCCCcEEEEccccCCCCCccchHHHHHHHhcCCEEEeeeCCCccEEEecCCCcHHHHHHHhCCCeecCcchHHHHHHh
Q 033679           18 REVLKGCKLVFSHAFPSKFPAHIHYLWKVVEQLGATCSIELDPSVTHVVSNKCSNEKVSLGSKGGQVFGGSTVDRGSQLF   97 (113)
Q Consensus        18 ~~vL~Gc~I~fSg~~p~~~~~~~~~l~~~a~~lGA~~~~~l~~~vTHlV~~~~~t~K~~~A~k~gi~IV~p~WL~~c~~~   97 (113)
                      +.+|+|++|+|||+.|    .++..+..+++.+||++..+++++|||||+.+.+|.||+.|.+.|++||+|+||.+|...
T Consensus       103 ~~~l~g~~~~~tG~~~----~~r~~l~~~i~~~GG~v~~~~t~~tTHLI~~~~~t~Ky~~A~~~gi~IV~~~Wl~~c~~~  178 (298)
T 3olc_X          103 NMVMSDVTISCTSLEK----EKREEVHKYVQMMGGRVYRDLNVSVTHLIAGEVGSKKYLVAANLKKPILLPSWIKTLWEK  178 (298)
T ss_dssp             CCTTTTCEEEEESCCH----HHHHHHHHHHHHTTCEECSSCCTTCCEEEESSSCSHHHHHHHHTTCCEECHHHHHHHHHH
T ss_pred             ccccCCeEEEeCCCcH----HhHHHHHHHHHHCCCEEecCcCCCeeEEEEeCCCChHHHHHHHCCCeEeeHHHHHHHHHc
Confidence            4579999999999965    377899999999999999999999999999999999999999999999999999999999


Q ss_pred             hCCCCCCce
Q 033679           98 VARATRREV  106 (113)
Q Consensus        98 w~r~dE~~y  106 (113)
                      .+..+...|
T Consensus       179 ~~~~~~~~~  187 (298)
T 3olc_X          179 SQEKKITRY  187 (298)
T ss_dssp             HHTTCCSSG
T ss_pred             CCcCCcccc
Confidence            887766443

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

Probab=99.68  E-value=9.3e-17  Score=117.79  Aligned_cols=86  Identities=17%  Similarity=0.081  Sum_probs=76.3

Q ss_pred             CCcEEEEccccCCCCCccchHHHHHHHhcCC-EEEeeeCCCccEEEecCC-CcHHHHHHHhCCCeecCcchHHHHHHhhC
Q 033679           22 KGCKLVFSHAFPSKFPAHIHYLWKVVEQLGA-TCSIELDPSVTHVVSNKC-SNEKVSLGSKGGQVFGGSTVDRGSQLFVA   99 (113)
Q Consensus        22 ~Gc~I~fSg~~p~~~~~~~~~l~~~a~~lGA-~~~~~l~~~vTHlV~~~~-~t~K~~~A~k~gi~IV~p~WL~~c~~~w~   99 (113)
                      ..-+|++||+-+    .++..+.++++.||| .+..++++.+||||+.++ .|.|+..|+..|++||+|+||.+|.+..+
T Consensus        10 ~~~~~~~sgl~~----~~~~~l~~~i~~lgG~~~~~~~~~~~THlv~~~~~rT~K~l~ai~~g~~Iv~~~Wv~~~~~~g~   85 (199)
T 3u3z_A           10 PTRTLVMTSMPS----EKQNVVIQVVDKLKGFSIAPDVCETTTHVLSGKPLRTLNVLLGIARGCWVLSYDWVLWSLELGH   85 (199)
T ss_dssp             CCCEEEEESCCH----HHHHHHHHHHHHHCSCEEESSCCTTEEEEEESSCCCBHHHHHHHHTTCEEEETHHHHHHHHHTS
T ss_pred             CCeEEEEcCCCH----HHHHHHHHHHHHcCCcEEecCCCCCCeEEEECCCCCCHHHHHHHHCCCcEEeHHHHHHHhhCCC
Confidence            366899999832    356678999999976 788999999999999985 79999999999999999999999999999


Q ss_pred             CCCCCceeccCC
Q 033679          100 RATRREVSCEAN  111 (113)
Q Consensus       100 r~dE~~y~~~~~  111 (113)
                      ++||++|++...
T Consensus        86 ~l~e~~y~~~~~   97 (199)
T 3u3z_A           86 WISEEPFELSHH   97 (199)
T ss_dssp             CCCSGGGBCTTT
T ss_pred             CCChhhccccCC
Confidence            999999998754

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

Probab=99.66  E-value=2.4e-17  Score=110.88  Aligned_cols=92  Identities=15%  Similarity=0.039  Sum_probs=73.5

Q ss_pred             hhhhcCCCCcEEEEccccCCCCCccchHHHH-HHHhcCCEEEeeeCCCccEEEecCCCcHHHHHH-Hh-----CCCeecC
Q 033679           15 NGQREVLKGCKLVFSHAFPSKFPAHIHYLWK-VVEQLGATCSIELDPSVTHVVSNKCSNEKVSLG-SK-----GGQVFGG   87 (113)
Q Consensus        15 ~~k~~vL~Gc~I~fSg~~p~~~~~~~~~l~~-~a~~lGA~~~~~l~~~vTHlV~~~~~t~K~~~A-~k-----~gi~IV~   87 (113)
                      +.+..+|+||++.|   +|.+....+..++. .|..+||++++++++.|||+|+.+..+.+.... ++     .+++||+
T Consensus         6 ~~~~~~F~g~~v~~---~p~~~~~~r~~i~~~~a~~~Ga~v~~~~~~~vTHVVvd~~~s~~~~l~~l~~~~l~~~~~iV~   82 (106)
T 2jw5_A            6 EEAEEWLSSLRAHV---VRTGIGRARAELFEKQIVQHGGQLCPAQGPGVTHIVVDEGMDYERALRLLRLPQLPPGAQLVK   82 (106)
T ss_dssp             CCGGGCGGGSCCCB---CTTTCCSSSTTHHHHHHHHTTCCCCSTTCTTCCEEEECSSSCHHHHHHHTTCSSCCSSCEEEE
T ss_pred             ccCcCEeCCeEEEE---EecCCchHHHHHHHHHHHHcCCEEeeccCCCccEEEEcCCCCHHHHHHHHhhcccCCCcEEec
Confidence            46788999999997   56665445545554 899999999999999999999986555544322 22     2479999


Q ss_pred             cchHHHHHHhhCCCCCCceecc
Q 033679           88 STVDRGSQLFVARATRREVSCE  109 (113)
Q Consensus        88 p~WL~~c~~~w~r~dE~~y~~~  109 (113)
                      ++|+.+|...|+.+||+.|.+.
T Consensus        83 ~~Wv~dci~~~~llde~~y~~~  104 (106)
T 2jw5_A           83 SAWLSLCLQERRLVDVAGFSIF  104 (106)
T ss_dssp             HHHHHHHHHTCSCCCGGGTBCS
T ss_pred             CchHHHHHhcCcccCccccccc
Confidence            9999999999999999999875

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

Probab=99.64  E-value=1.8e-16  Score=118.32  Aligned_cols=83  Identities=8%  Similarity=-0.022  Sum_probs=72.2

Q ss_pred             cCCCCcEEEEccccCCCCCccchHHHHHHHhcCCEEEeeeCCCccEEEecCC-CcHHHHHHHhCCCeecCcchHHHHHHh
Q 033679           19 EVLKGCKLVFSHAFPSKFPAHIHYLWKVVEQLGATCSIELDPSVTHVVSNKC-SNEKVSLGSKGGQVFGGSTVDRGSQLF   97 (113)
Q Consensus        19 ~vL~Gc~I~fSg~~p~~~~~~~~~l~~~a~~lGA~~~~~l~~~vTHlV~~~~-~t~K~~~A~k~gi~IV~p~WL~~c~~~   97 (113)
                      +.-++.+|+|||.-|..       ..++++.|||.+.++++ .+||||+.+. .|.|+..|+..|++||+|+||.+|...
T Consensus         4 ~~~~~~~v~fSG~~~~~-------~~~~i~~lGg~v~~~~~-~~THlV~~~~~RT~K~l~Aia~g~~IVs~~Wl~~~~~~   75 (220)
T 3l41_A            4 KASKRVYITFTGYDKKP-------SIDNLKKLDMSITSNPS-KCTHLIAPRILRTSKFLCSIPYGPCVVTMDWINSCLKT   75 (220)
T ss_dssp             ---CCEEEEECSCSSCC-------CCGGGGGGTEEECSCTT-TCSEEECSSCCCBHHHHHHGGGCCEEECHHHHHHHHHH
T ss_pred             cccceEEEEEeccCCCC-------CcchHhhcceeeccCch-hhhhhhhhhHhhhcceeecCCCCCeEEEhHHHHhhhhh
Confidence            34578999999996642       16778999999999986 5999999977 699999999999999999999999999


Q ss_pred             hCCCCCCceecc
Q 033679           98 VARATRREVSCE  109 (113)
Q Consensus        98 w~r~dE~~y~~~  109 (113)
                      ++.+||++|++.
T Consensus        76 ~~~l~e~~y~l~   87 (220)
T 3l41_A           76 HEIVDEEPYLLN   87 (220)
T ss_dssp             TSCCCSGGGBCC
T ss_pred             hhccccCccccC
Confidence            999999999985

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

Probab=99.59  E-value=2.6e-15  Score=114.04  Aligned_cols=94  Identities=13%  Similarity=0.089  Sum_probs=81.5

Q ss_pred             hcCCCCcEEEEccccCCCC-------------------------CccchHHHHHHHhcCCEEEeeeCCC------ccEEE
Q 033679           18 REVLKGCKLVFSHAFPSKF-------------------------PAHIHYLWKVVEQLGATCSIELDPS------VTHVV   66 (113)
Q Consensus        18 ~~vL~Gc~I~fSg~~p~~~-------------------------~~~~~~l~~~a~~lGA~~~~~l~~~------vTHlV   66 (113)
                      +.+|.||.+++|+..+.+.                         ..++..|.++++.+||++..++++.      +||||
T Consensus        13 ~~iF~g~~F~~t~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~k~~l~~~I~~~GG~v~~~~~~~~~~~~~~t~LI   92 (259)
T 1kzy_C           13 KTLFLGYAFLLTMATTSDKLASRSKLPDGPTGSSEEEEEFLEIPPFNKQYTESQLRAGAGYILEDFNEAQCNTAYQCLLI   92 (259)
T ss_dssp             TTTTTTEEEEECCCC---------------------------CCCCCHHHHHHHHHTTTCEECSSCCTTTTTTTCEEEEE
T ss_pred             CcCcCCcEEEEEcccccccccccccccccccccccccccccccCcccHHHHHHHHHHCCCEEecCccccccccCCCeEEE
Confidence            6789999999999976421                         1355799999999999999999876      79999


Q ss_pred             ecC-CCcHHHHHHHhCCCeecCcchHHHHHHhhCCCCCCceeccCC
Q 033679           67 SNK-CSNEKVSLGSKGGQVFGGSTVDRGSQLFVARATRREVSCEAN  111 (113)
Q Consensus        67 ~~~-~~t~K~~~A~k~gi~IV~p~WL~~c~~~w~r~dE~~y~~~~~  111 (113)
                      +.. ..|.|+.+|+..|++||+++||.+|....+.+|+++|+++.+
T Consensus        93 a~~~~rt~K~l~ala~g~~iVs~~Wl~dc~~~~~~l~~~~Y~l~~g  138 (259)
T 1kzy_C           93 ADQHCRTRKYFLCLASGIPCVSHVWVHDSCHANQLQNYRNYLLPAG  138 (259)
T ss_dssp             ESSCCCSHHHHHHHHHTCCEEETHHHHHHHHHTSCCCGGGSBCCCE
T ss_pred             cCCCCCcHHHHHHHhcCCCCccHHHHHHHHHcCCcCCHHHccCCCC
Confidence            987 479999999999999999999999999999999999999753

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

Probab=99.56  E-value=7.6e-15  Score=110.51  Aligned_cols=92  Identities=12%  Similarity=-0.013  Sum_probs=77.6

Q ss_pred             cCCCCcEEEEccccCCCCCccchHHHHHHHhcCCEEEee-----eC--C-------------------CccEEEecCC-C
Q 033679           19 EVLKGCKLVFSHAFPSKFPAHIHYLWKVVEQLGATCSIE-----LD--P-------------------SVTHVVSNKC-S   71 (113)
Q Consensus        19 ~vL~Gc~I~fSg~~p~~~~~~~~~l~~~a~~lGA~~~~~-----l~--~-------------------~vTHlV~~~~-~   71 (113)
                      .+|+||.+++||.- .....++..|.++++++||++..+     ++  .                   ..||||+... .
T Consensus         1 ~lF~g~~F~ls~~~-~~~~~~k~~L~~~I~~~GG~v~~~g~~~lf~~~~~~~~~~~~~~k~~~~~~~~~~t~lia~~~~r   79 (241)
T 2vxb_A            1 LIFDDCVFAFSGPV-HEDAYDRSALETVVQDHGGLVLDTGLRPLFNDPFKSKQKKLRHLKPQKRSKSWNQAFVVSDTFSR   79 (241)
T ss_dssp             CTTTTEEEEECCCS-STTSSCHHHHHHHHHHTTCEECTTCSGGGBCCSCC----CCCSCCBCGGGGGCSEEEEECSSCCC
T ss_pred             CCCCCcEEEEecCC-CCchhhHHHHHHHHHHCCCEEecCcchhhccCccccccccccccccccccccccceEEEcCCCCC
Confidence            47999999999982 112346689999999999999887     32  1                   2499999976 4


Q ss_pred             cHHHHHHHhCCCeecCcchHHHHHHhhCCCCCCceeccCC
Q 033679           72 NEKVSLGSKGGQVFGGSTVDRGSQLFVARATRREVSCEAN  111 (113)
Q Consensus        72 t~K~~~A~k~gi~IV~p~WL~~c~~~w~r~dE~~y~~~~~  111 (113)
                      |.||.+|+..|++||+|+||.+|....+.+|+++|+++.+
T Consensus        80 t~K~~~ala~gipiV~~~Wi~dc~~~~~~~~~~~ylL~~~  119 (241)
T 2vxb_A           80 KVKYLEALAFNIPCVHPQFIKQCLKMNRVVDFSPYLLASG  119 (241)
T ss_dssp             CHHHHHHHHHTCCEECTHHHHHHHHHTSCCCSGGGBBEEE
T ss_pred             cHHHHHHHHcCCCEecHHHHHHHHHcCCcCChhhccCCCC
Confidence            9999999999999999999999999999999999998643

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

Probab=99.54  E-value=1.9e-14  Score=109.35  Aligned_cols=91  Identities=8%  Similarity=-0.080  Sum_probs=76.5

Q ss_pred             HHhhhhcCCCCcEEEE-ccccCCCCCccchHHHHHHHhcCCEEEeeeCCCccEEEecCCCcHHHHHHHhCC-CeecCcch
Q 033679           13 TENGQREVLKGCKLVF-SHAFPSKFPAHIHYLWKVVEQLGATCSIELDPSVTHVVSNKCSNEKVSLGSKGG-QVFGGSTV   90 (113)
Q Consensus        13 l~~~k~~vL~Gc~I~f-Sg~~p~~~~~~~~~l~~~a~~lGA~~~~~l~~~vTHlV~~~~~t~K~~~A~k~g-i~IV~p~W   90 (113)
                      |++.+.++|+|+.|++ ||.    ..+++..|.+++.++||++..+.++.+||+|+.+. |.|++.+.+.| ++||+|+|
T Consensus         3 ~~~~~s~lF~G~~f~V~sg~----~~~~k~~L~~lI~~~GG~v~~n~~~~t~~iIa~~~-~~k~~~~~~~g~~~IV~p~W   77 (263)
T 3ii6_X            3 MGSKISNIFEDVEFCVMSGT----DSQPKPDLENRIAEFGGYIVQNPGPDTYCVIAGSE-NIRVKNIILSNKHDVVKPAW   77 (263)
T ss_dssp             ---CCCCTTTTCEEEECCCC------CCHHHHHHHHHHTTCEECSSCCTTEEEEECSSC-CHHHHHHHHSCSCCEECHHH
T ss_pred             CCCcCcccCCCeEEEEEcCC----CCCCHHHHHHHHHHcCCEEEecCCCCEEEEEeCCC-CHHHHHHHhcCCCCEeehHH
Confidence            6788899999999986 663    34678899999999999999999988888787764 59999999987 99999999


Q ss_pred             HHHHHHhhCCCCCCceec
Q 033679           91 DRGSQLFVARATRREVSC  108 (113)
Q Consensus        91 L~~c~~~w~r~dE~~y~~  108 (113)
                      |.+|..+.+.+|-++|.+
T Consensus        78 v~Dci~~~~llp~~p~~~   95 (263)
T 3ii6_X           78 LLECFKTKSFVPWQPRFM   95 (263)
T ss_dssp             HHHHHHHTSCCCCCGGGE
T ss_pred             HHHHHhcCCcCCCCHHHH
Confidence            999999999999888754

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

Probab=99.52  E-value=2.5e-14  Score=108.69  Aligned_cols=93  Identities=8%  Similarity=-0.106  Sum_probs=69.1

Q ss_pred             hhhcCCCCcEEEEccccCCCC-----Cccc-hHHHHHHHhcCCEEEeeeCCCccEEEecCCCc--HHHHHHHh---CCCe
Q 033679           16 GQREVLKGCKLVFSHAFPSKF-----PAHI-HYLWKVVEQLGATCSIELDPSVTHVVSNKCSN--EKVSLGSK---GGQV   84 (113)
Q Consensus        16 ~k~~vL~Gc~I~fSg~~p~~~-----~~~~-~~l~~~a~~lGA~~~~~l~~~vTHlV~~~~~t--~K~~~A~k---~gi~   84 (113)
                      .+..+|+||++.|.+.-..+.     ...+ ..+..++.++||+++..+++.|||+|+.++.+  +..+...+   .+++
T Consensus       160 ~~~~lF~~~~vy~~~~~~~~~~~~~i~~~~l~~~~~~i~~~GG~v~~~l~~~vTHVVv~~~~~r~~~~~~~~~~~~~~~~  239 (263)
T 3ii6_X          160 SPLSMFRRHTVYLDSYAVINDLSTKNEGTRLAIKALELRFHGAKVVSCLAEGVSHVIIGEDHSRVADFKAFRRTFKRKFK  239 (263)
T ss_dssp             CGGGTTTTCEEEECCBSSTTCGGGBCCSSHHHHHHHHHHHTTCEEESSCCTTCCEEEECSCCTTHHHHHHHHHTCSSCCE
T ss_pred             CcchhhCCeEEEEecccccCCcccccchhHHHHHHHHHHccCCEEecCCCCCceEEEECCCCccHHHHHHHHhhcCCCCE
Confidence            456789999999976422111     1111 23467899999999999999999999987543  12222222   2589


Q ss_pred             ecCcchHHHHHHhhCCCCCCceec
Q 033679           85 FGGSTVDRGSQLFVARATRREVSC  108 (113)
Q Consensus        85 IV~p~WL~~c~~~w~r~dE~~y~~  108 (113)
                      ||+|+|+.+|...++++||++|.+
T Consensus       240 iV~~~Wv~dci~~~~~l~E~~Y~i  263 (263)
T 3ii6_X          240 ILKESWVTDSIDKCELQEENQYLI  263 (263)
T ss_dssp             EEETHHHHHHHHTTSCCCGGGTBC
T ss_pred             EeChHHHHHHHHcCCcCCHhhCCC
Confidence            999999999999999999999975

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

Probab=99.48  E-value=5.2e-14  Score=92.56  Aligned_cols=77  Identities=14%  Similarity=0.059  Sum_probs=70.5

Q ss_pred             hcCCCCcEEEEccccCCCCCccchHHHHHHHhcCCEEEeeeCCCccEEEecCCCcHHHHHHHhCCCeecCcchHHHHHHh
Q 033679           18 REVLKGCKLVFSHAFPSKFPAHIHYLWKVVEQLGATCSIELDPSVTHVVSNKCSNEKVSLGSKGGQVFGGSTVDRGSQLF   97 (113)
Q Consensus        18 ~~vL~Gc~I~fSg~~p~~~~~~~~~l~~~a~~lGA~~~~~l~~~vTHlV~~~~~t~K~~~A~k~gi~IV~p~WL~~c~~~   97 (113)
                      .++|.|.+|||+|.++.    ++.++..+++.+||.+...++.+++|||+.+..+.|++.|.+.||+|++.+|+.++...
T Consensus         5 ~~~l~G~~~v~TG~l~~----~R~e~~~~i~~~Gg~v~~sVskkt~~LV~g~~~gsK~~kA~~lgI~Ii~E~~f~~~l~~   80 (92)
T 1l7b_A            5 GEALKGLTFVITGELSR----PREEVKALLRRLGAKVTDSVSRKTSYLVVGENPGSKLEKARALGVPTLTEEELYRLLEA   80 (92)
T ss_dssp             CCSSTTCEEECSTTTTS----CHHHHHHHHHHTTCEEESCCSSSCCCBEECSSSSTTHHHHHCSSSCCEEHHHHHHHHHH
T ss_pred             CCCcCCcEEEEecCCCC----CHHHHHHHHHHcCCEEeCcccCCeeEEEeCCCCChHHHHHHHcCCcEEeHHHHHHHHHh
Confidence            56899999999999863    67899999999999999999999999999998889999999999999999999988764


Q ss_pred             h
Q 033679           98 V   98 (113)
Q Consensus        98 w   98 (113)
                      -
T Consensus        81 ~   81 (92)
T 1l7b_A           81 R   81 (92)
T ss_dssp             H
T ss_pred             c
Confidence            3

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

Probab=99.44  E-value=3.4e-13  Score=91.18  Aligned_cols=81  Identities=14%  Similarity=0.081  Sum_probs=71.6

Q ss_pred             HhhhhcCCCCcEEEEccccCCCCCccchHHHHHHHhcCCEEEeeeCCCccEEEecCCCc-HHHHHHHhCCCeecCcchHH
Q 033679           14 ENGQREVLKGCKLVFSHAFPSKFPAHIHYLWKVVEQLGATCSIELDPSVTHVVSNKCSN-EKVSLGSKGGQVFGGSTVDR   92 (113)
Q Consensus        14 ~~~k~~vL~Gc~I~fSg~~p~~~~~~~~~l~~~a~~lGA~~~~~l~~~vTHlV~~~~~t-~K~~~A~k~gi~IV~p~WL~   92 (113)
                      |+-...+|.|.+|||+|.++.   ..+.++..+++.+||.+...++.+++|||+.+..+ .|++.|.+.||+|++-+|+.
T Consensus        26 p~~~~~~l~G~~~v~TG~l~~---~~R~e~~~~i~~~Gg~v~~sVSkkTd~LV~G~~~g~sK~~kA~~lgI~Ii~E~~f~  102 (109)
T 2k6g_A           26 PKGAENCLEGLIFVITGVLES---IERDEAKSLIERYGGKVTGNVSKKTNYLVMGRDSGQSKSDKAAALGTKIIDEDGLL  102 (109)
T ss_dssp             CCCCTTTTTTCEEEEESBCSS---CCHHHHHHHHHHTTCEEESSCCTTCCEEEECBCCCHHHHHHHHHHTCEEECHHHHH
T ss_pred             CCCCCCCCCCCEEEEeeeCCC---CCHHHHHHHHHHcCCEeeCcccCCceEEEECCCCChHHHHHHHHcCCeEEeHHHHH
Confidence            444567899999999999853   35779999999999999999999999999997644 99999999999999999999


Q ss_pred             HHHHh
Q 033679           93 GSQLF   97 (113)
Q Consensus        93 ~c~~~   97 (113)
                      +....
T Consensus       103 ~ll~~  107 (109)
T 2k6g_A          103 NLIRN  107 (109)
T ss_dssp             HHHHH
T ss_pred             HHHHh
Confidence            98754

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

Probab=99.39  E-value=8.8e-14  Score=104.65  Aligned_cols=91  Identities=5%  Similarity=-0.151  Sum_probs=52.6

Q ss_pred             hhhcCCCCcEEEEccccCCCCCccchHHHHHHHhcCCEEEeeeCCCccEEEecCCCc--HH----HHHHHh-C-------
Q 033679           16 GQREVLKGCKLVFSHAFPSKFPAHIHYLWKVVEQLGATCSIELDPSVTHVVSNKCSN--EK----VSLGSK-G-------   81 (113)
Q Consensus        16 ~k~~vL~Gc~I~fSg~~p~~~~~~~~~l~~~a~~lGA~~~~~l~~~vTHlV~~~~~t--~K----~~~A~k-~-------   81 (113)
                      .+..+|+||+++|+|..+..   ....+..+++++||+++.++++.+||+|+...++  .+    .+..+. +       
T Consensus       156 ~~~~lF~g~~~yl~~~~~~~---~~~~l~~~i~~~GG~v~~~l~~~t~hVV~~~~~~~~~~~~~~~~~~~~~~~~~~~~~  232 (264)
T 1z56_C          156 FPLFLFSNRIAYVPRRKIST---EDDIIEMKIKLFGGKITDQQSLCNLIIIPYTDPILRKDCMNEVHEKIKEQIKASDTI  232 (264)
T ss_dssp             CCCC-----------------------CHHHHHHHTTSCCCCSSSCSEEECCCSSTTTHHHHSSHHHHTTTTTTTSSSSC
T ss_pred             CchhhhCCeEEEEecCCCch---hHHHHHHHHHHcCCEEecccCCCEEEEEeCCCccchHHHHHHHHHHHHhhccccccc
Confidence            34668999999999975431   2235677899999999999998888888865332  22    332222 1       


Q ss_pred             -CC-eecCcchHHHHHHhhCCCCCCceecc
Q 033679           82 -GQ-VFGGSTVDRGSQLFVARATRREVSCE  109 (113)
Q Consensus        82 -gi-~IV~p~WL~~c~~~w~r~dE~~y~~~  109 (113)
                       ++ +||+|+||++|...++++||++|...
T Consensus       233 ~~~~~iV~~~Wv~dci~~~~ll~e~~Y~~~  262 (264)
T 1z56_C          233 PKIARVVAPEWVDHSINENCQVPEEDFPVV  262 (264)
T ss_dssp             CCCCEEECTHHHHHHHTTSCCCSSCCC---
T ss_pred             CCCCEEecHHHHHHHHHcCCcCCHHHcCCC
Confidence             33 99999999999999999999999764

>2ebu_A Replication factor C subunit 1; A/B/A 3 layers, parallel beta-sheet, DNA replication, clamp loader, RFC1, structural genomics, NPPSFA; NMR {Homo sapiens}

Probab=99.39  E-value=6.1e-13  Score=90.43  Aligned_cols=90  Identities=11%  Similarity=0.075  Sum_probs=76.1

Q ss_pred             HHhhhhcCCCCcEEEEccccCCCCCccchHHHHHHHhcCCEEEeeeCCCccEEEecCC-CcHHHHHHHhCCCeecCcchH
Q 033679           13 TENGQREVLKGCKLVFSHAFPSKFPAHIHYLWKVVEQLGATCSIELDPSVTHVVSNKC-SNEKVSLGSKGGQVFGGSTVD   91 (113)
Q Consensus        13 l~~~k~~vL~Gc~I~fSg~~p~~~~~~~~~l~~~a~~lGA~~~~~l~~~vTHlV~~~~-~t~K~~~A~k~gi~IV~p~WL   91 (113)
                      +|.-...+|.|.+|||+|.++.   ..+.++..+++.+||.+...++.+++|||+.+. ++.|++.|.+.||+|++-+|+
T Consensus        15 ~P~~~~~~l~G~~~v~TG~l~~---~~R~e~~~~i~~~Ggkv~~sVSkkTd~LV~G~~~g~sKl~KA~~lgI~IisE~~f   91 (112)
T 2ebu_A           15 IPKGAENCLEGLIFVITGVLES---IERDEAKSLIERYGGKVTGNVSKKTNYLVMGRDSGQSKSDKAAALGTKIIDEDGL   91 (112)
T ss_dssp             CCCCCSSSSTTCEEEECSCCSS---SCHHHHHHHHHHTTCEECSSCCSSCCEEEECSSCCSHHHHHHHHHTCEEEEHHHH
T ss_pred             CCCCCCCCcCCCEEEEeeeCCC---CCHHHHHHHHHHcCCEEeccccCCeeEEEecCCCChHHHHHHHHcCCeEEeHHHH
Confidence            4555667899999999999853   467899999999999999999999999999976 459999999999999999999


Q ss_pred             HHHHHhhCCCCCCce
Q 033679           92 RGSQLFVARATRREV  106 (113)
Q Consensus        92 ~~c~~~w~r~dE~~y  106 (113)
                      .+.+.. ...+...|
T Consensus        92 ~~ll~~-~~~~~~~~  105 (112)
T 2ebu_A           92 LNLIRT-MPGKKSKY  105 (112)
T ss_dssp             HHHHHH-SCCCCCSS
T ss_pred             HHHHhh-CCCccccc
Confidence            999874 33344444

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

Probab=99.36  E-value=1e-12  Score=87.50  Aligned_cols=81  Identities=16%  Similarity=0.194  Sum_probs=66.9

Q ss_pred             hhcCCCCcEEEEccccCCCCCccchHHHHHHHhcCCEEEee-----------eCCCccEEEecCCCcHHHHHHHhCCCee
Q 033679           17 QREVLKGCKLVFSHAFPSKFPAHIHYLWKVVEQLGATCSIE-----------LDPSVTHVVSNKCSNEKVSLGSKGGQVF   85 (113)
Q Consensus        17 k~~vL~Gc~I~fSg~~p~~~~~~~~~l~~~a~~lGA~~~~~-----------l~~~vTHlV~~~~~t~K~~~A~k~gi~I   85 (113)
                      ...+|+||++++++-.|      +..|..++.++||.+..+           .++++||+|+.++...+    ...+..+
T Consensus         9 ~~~LF~g~~F~i~~e~p------~~~le~~I~~~GG~v~~~~~~~~g~~~~~~~~~iTh~I~drp~~~~----~~~~r~~   78 (100)
T 2ep8_A            9 HKKLFEGLKFFLNREVP------REALAFIIRSFGGEVSWDKSLCIGATYDVTDSRITHQIVDRPGQQT----SVIGRCY   78 (100)
T ss_dssp             SCCTTSSCEEECCSSSC------HHHHHHHHHHTTCEEECCTTTSSCCCSCTTCTTCCEEECSCTTTSC----CBTTBEE
T ss_pred             hHHHcCCcEEEEecCCC------HHHHHHHHHHcCCEEEeccccccCcccccCCCceEEEEecccchhh----hcCCCeE
Confidence            35789999999987654      468899999999999876           36799999999874322    1235799


Q ss_pred             cCcchHHHHHHhhCCCCCCcee
Q 033679           86 GGSTVDRGSQLFVARATRREVS  107 (113)
Q Consensus        86 V~p~WL~~c~~~w~r~dE~~y~  107 (113)
                      |.|.|++||....+.+|+++|.
T Consensus        79 VqPqWV~Dcin~~~lLp~~~Y~  100 (100)
T 2ep8_A           79 VQPQWVFDSVNARLLLPVAEYF  100 (100)
T ss_dssp             ECTHHHHHHHHHTSCCCTTTCC
T ss_pred             EcchHHHHHHhcCCcCChhhcC
Confidence            9999999999999999999994

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

Probab=99.35  E-value=3.4e-12  Score=87.69  Aligned_cols=87  Identities=14%  Similarity=-0.012  Sum_probs=68.0

Q ss_pred             cCCCCcEEEEccccCCCCCcc-chHHHHHHHhcCCEEEeeeCCCccEEEecCCCcHHHHHHHh-----C--CCeecCcch
Q 033679           19 EVLKGCKLVFSHAFPSKFPAH-IHYLWKVVEQLGATCSIELDPSVTHVVSNKCSNEKVSLGSK-----G--GQVFGGSTV   90 (113)
Q Consensus        19 ~vL~Gc~I~fSg~~p~~~~~~-~~~l~~~a~~lGA~~~~~l~~~vTHlV~~~~~t~K~~~A~k-----~--gi~IV~p~W   90 (113)
                      ..|+||+|.|   .|...... +.-+.+++.+.||++.+++++.|||+|+.+...+.+..-++     .  +.+||+..|
T Consensus        19 ~~F~g~~iy~---v~~~~g~~R~~~l~~l~r~~G~~V~~~ls~~VTHVVve~~~~~e~~~~l~~~~l~~~~~~~lv~i~W   95 (120)
T 2coe_A           19 IKFQDLVVFI---LEKKMGTTRRALLMELARRKGFRVENELSDSVTHIVAENNSGSDVLEWLQAQKVQVSSQPELLDVSW   95 (120)
T ss_dssp             CSCTTCEEEE---ECTTTCHHHHHHHHHHHHHHTCEECSSCCTTCCEEEESSCCHHHHHHHHHHCCCCCSSCCEEEEHHH
T ss_pred             cccCCeEEEE---eecccchHHHHHHHHHHHHcCCEEeeccCCCcCEEEecCCCHHHHHHHHhccccccccccEEeecHH
Confidence            4699999999   34443333 35567799999999999999999999997655544544433     2  579999999


Q ss_pred             HHHHHHhhCCCCCCceec
Q 033679           91 DRGSQLFVARATRREVSC  108 (113)
Q Consensus        91 L~~c~~~w~r~dE~~y~~  108 (113)
                      +.+|....+.+||+.|..
T Consensus        96 l~esmk~g~lv~ee~~~~  113 (120)
T 2coe_A           96 LIECIGAGKPVEMTGKHQ  113 (120)
T ss_dssp             HHHHHHTTSCCCCSSSSB
T ss_pred             HHHHHHcCCccCcccceE
Confidence            999999999999966643

>2cok_A Poly [ADP-ribose] polymerase-1; BRCT domain, DNA repair, structural genomics, NPPSFA; NMR {Homo sapiens} PDB: 2le0_A

Probab=99.32  E-value=2.6e-12  Score=87.40  Aligned_cols=76  Identities=11%  Similarity=0.052  Sum_probs=66.5

Q ss_pred             hcCCCCcEEEEccccCCCCCccchHHHHHHHhcCCEEEeeeCCCccEEEecCC---CcHHHHHHHhCCCeecCcchHHHH
Q 033679           18 REVLKGCKLVFSHAFPSKFPAHIHYLWKVVEQLGATCSIELDPSVTHVVSNKC---SNEKVSLGSKGGQVFGGSTVDRGS   94 (113)
Q Consensus        18 ~~vL~Gc~I~fSg~~p~~~~~~~~~l~~~a~~lGA~~~~~l~~~vTHlV~~~~---~t~K~~~A~k~gi~IV~p~WL~~c   94 (113)
                      .++|.|.+|+|+|.++.    .+.++..+++.+||.+...++.+++|||+.+.   .+.|++.|.+.||+||+-+||.++
T Consensus         8 ~~~l~G~~~ViTG~l~~----~R~e~k~~ie~~Ggkv~~sVskkT~~lV~g~~~e~~gsKl~kA~~lgI~IvsE~~l~~~   83 (113)
T 2cok_A            8 DKPLSNMKILTLGKLSR----NKDEVKAMIEKLGGKLTGTANKASLCISTKKEVEKMNKKMEEVKEANIRVVSEDFLQDV   83 (113)
T ss_dssp             CCSSSSCEEEECSCCSS----CHHHHHHHHHHTTCEEESCSTTCSEEECCHHHHHHCCHHHHHHHHTTCCEECTHHHHHH
T ss_pred             CCCcCCCEEEEEecCCC----CHHHHHHHHHHCCCEEcCccccCccEEEECCCCCCCChHHHHHHHCCCcEEeHHHHHHH
Confidence            56899999999999842    56799999999999999999999999999943   678999999999999999996655


Q ss_pred             HHh
Q 033679           95 QLF   97 (113)
Q Consensus        95 ~~~   97 (113)
                      ...
T Consensus        84 ~~~   86 (113)
T 2cok_A           84 SAS   86 (113)
T ss_dssp             HSC
T ss_pred             Hhh
Confidence            443

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

Probab=99.28  E-value=5.3e-12  Score=92.62  Aligned_cols=92  Identities=12%  Similarity=-0.027  Sum_probs=64.4

Q ss_pred             hhcCCCCcEEEEccccCCCCCccchHHHHHHHhcCCEEEeeeCCC-----ccEEEecCCC----cHHHHHH-HhCCCeec
Q 033679           17 QREVLKGCKLVFSHAFPSKFPAHIHYLWKVVEQLGATCSIELDPS-----VTHVVSNKCS----NEKVSLG-SKGGQVFG   86 (113)
Q Consensus        17 k~~vL~Gc~I~fSg~~p~~~~~~~~~l~~~a~~lGA~~~~~l~~~-----vTHlV~~~~~----t~K~~~A-~k~gi~IV   86 (113)
                      +..+|+||.|+|+|-+.   .+.+..|..+++..||++...+++.     +||+|...+.    ..+++.+ .+.+++||
T Consensus       114 ~~~lF~g~~~~~~~~~~---~~~~~~l~~li~~~GG~v~~~~~~~~~~~~~~~~vvv~~~~~~~~~~~~~l~~~~~i~iV  190 (229)
T 1l0b_A          114 QEKLFEGLQIYCCEPFT---NMPKDELERMLQLCGASVVKELPLLTRDTGAHPIVLVQPSAWTEDNDCPDIGQLCKGRLV  190 (229)
T ss_dssp             C--CCTTCEEEECSCCS---SSCHHHHHHHHHHTTCEEECSSSCGGGCCSSCCEEEEC-------------------CEE
T ss_pred             hhhhhcCceEEEEecCC---CCCHHHHHHHHHHCCCEEeCCcccccccCCCceEEEEcCCccchhhhHHHHHHHcCCeEe
Confidence            46799999999988653   3467799999999999999999763     6886665432    3455533 44689999


Q ss_pred             CcchHHHHHHhhCCCCCCceeccCC
Q 033679           87 GSTVDRGSQLFVARATRREVSCEAN  111 (113)
Q Consensus        87 ~p~WL~~c~~~w~r~dE~~y~~~~~  111 (113)
                      +++||.+|..+.+.++|++|+++..
T Consensus       191 s~~WlldsI~~~~~~~~~~Y~l~~~  215 (229)
T 1l0b_A          191 MWDWVLDSISVYRCRDLDAYLVQNI  215 (229)
T ss_dssp             ETHHHHHHHHTTSCCCGGGGBCC--
T ss_pred             ehhHHHHHHhcCCcCCccceEcccc
Confidence            9999999999999999999998753

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

Probab=99.26  E-value=4.3e-12  Score=91.83  Aligned_cols=91  Identities=14%  Similarity=0.076  Sum_probs=71.3

Q ss_pred             hhcCCCCcEEEEccccCCCCCccchHHHHHHHhcCCEEEeeeCCC-----ccEEEecCCCc----HHHH-HHHhCCCeec
Q 033679           17 QREVLKGCKLVFSHAFPSKFPAHIHYLWKVVEQLGATCSIELDPS-----VTHVVSNKCSN----EKVS-LGSKGGQVFG   86 (113)
Q Consensus        17 k~~vL~Gc~I~fSg~~p~~~~~~~~~l~~~a~~lGA~~~~~l~~~-----vTHlV~~~~~t----~K~~-~A~k~gi~IV   86 (113)
                      +.++|+|+.|+|+|.++   .+.+..+..+++..||++..++++.     +.|+|..++..    .|++ .|.+.|+++|
T Consensus       112 ~~~lF~g~~~~~~~~~~---~~~~~~l~~li~~~GG~v~~~~~~~~~~~~~~~ivi~~~~~~~~~~~~~~~a~~~~~~iV  188 (214)
T 1t15_A          112 DRKIFRGLEICCYGPFT---NMPTDQLEWMVQLCGASVVKELSSFTLGTGVHPIVVVQPDAWTEDNGFHAIGQMCEAPVV  188 (214)
T ss_dssp             TSCTTTTCEEEECSCCS---SSCHHHHHHHHHHTTCEECCSGGGCCCSTTCCEEEEECGGGCSSCGGGGSSTTTCSSCEE
T ss_pred             CCcccCCCEEEEEecCC---CCCHHHHHHHHHHCCCEEecCccccccCCCCccEEEECCCcccchhhHHHHHHhcCCcEE
Confidence            45789999999988654   3567799999999999999988652     23455554321    2443 3556689999


Q ss_pred             CcchHHHHHHhhCCCCCCceeccC
Q 033679           87 GSTVDRGSQLFVARATRREVSCEA  110 (113)
Q Consensus        87 ~p~WL~~c~~~w~r~dE~~y~~~~  110 (113)
                      +|+||.+|..+.+.+||++|+++.
T Consensus       189 ~~~Wi~dsi~~~~~l~~~~Y~l~~  212 (214)
T 1t15_A          189 TREWVLDSVALYQCQELDTYLIPQ  212 (214)
T ss_dssp             EHHHHHHHHHHTSCCCSGGGBCCC
T ss_pred             eccHHHHhHhhcCcCCCcceeecc
Confidence            999999999999999999998863

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

Probab=99.22  E-value=1.5e-12  Score=97.90  Aligned_cols=91  Identities=10%  Similarity=-0.010  Sum_probs=71.5

Q ss_pred             hhcCCCCcEEEE-ccccCC--CCCccchHHHHHHHhcCCEEEeeeCCC-----ccEEEecCCCcHHHHHHHhCCCeecCc
Q 033679           17 QREVLKGCKLVF-SHAFPS--KFPAHIHYLWKVVEQLGATCSIELDPS-----VTHVVSNKCSNEKVSLGSKGGQVFGGS   88 (113)
Q Consensus        17 k~~vL~Gc~I~f-Sg~~p~--~~~~~~~~l~~~a~~lGA~~~~~l~~~-----vTHlV~~~~~t~K~~~A~k~gi~IV~p   88 (113)
                      ..++|+||++++ ||.+..  +...++..|.+++.++||+++.+..+.     .||+|+.+ .|.|++.+.+.|+.||+|
T Consensus         2 ~s~lF~g~~f~v~~~~~~p~~~~~~~~~~L~~li~~~GG~~~~~~~~~t~~~~~~~iI~~~-~t~k~~~~~~~~~~vV~p   80 (264)
T 1z56_C            2 ISNIFAGLLFYVLSDYVTEDTGIRITRAELEKTIVEHGGKLIYNVILKRHSIGDVRLISCK-TTTECKALIDRGYDILHP   80 (264)
T ss_dssp             -CCCCCTTCCCCSEEEECCCCCSSSSCCCTHHHHHHHHTTSCCCSSCCCCCSSCCEEEECS-CCGGGGGGTTTTCCCBCS
T ss_pred             ccccCCCcEEEEEcCCCCccccccCCHHHHHHHHHHcCCEEeecCCCCccCccceEEEecC-CcHHHHHHHhCCCCEEec
Confidence            357899999965 776421  122356799999999999887654433     46777765 688999888888999999


Q ss_pred             chHHHHHHhhCCCCCCceec
Q 033679           89 TVDRGSQLFVARATRREVSC  108 (113)
Q Consensus        89 ~WL~~c~~~w~r~dE~~y~~  108 (113)
                      +||.+|...++.++.++|.+
T Consensus        81 ~Wv~dci~~~~llp~~~y~~  100 (264)
T 1z56_C           81 NWVLDCIAYKRLILIEPNYC  100 (264)
T ss_dssp             STTHHHHSSCSCCCCCSCBS
T ss_pred             hHHHHHhhcCCCCCCChHHh
Confidence            99999999999999999854

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

Probab=99.13  E-value=6.3e-11  Score=77.39  Aligned_cols=73  Identities=14%  Similarity=0.117  Sum_probs=61.1

Q ss_pred             cCCCCcEEEEccccCCCCCccchHHHHHHHhcCCEEEeeeCC-CccEEEecCCCcHHHHHHHhCCCeecCcchHHHHHHh
Q 033679           19 EVLKGCKLVFSHAFPSKFPAHIHYLWKVVEQLGATCSIELDP-SVTHVVSNKCSNEKVSLGSKGGQVFGGSTVDRGSQLF   97 (113)
Q Consensus        19 ~vL~Gc~I~fSg~~p~~~~~~~~~l~~~a~~lGA~~~~~l~~-~vTHlV~~~~~t~K~~~A~k~gi~IV~p~WL~~c~~~   97 (113)
                      .+|+||++.+++-+|     ....|.++..++||.+..+.+. ++||+|+.++        ...+..+|+|+||++|..+
T Consensus        15 diFsg~~~~l~~~v~-----~~~~l~RyiiAfgG~v~~~~~~~~vTHvI~~~~--------~~~~~~~V~p~WI~dcI~k   81 (88)
T 3pc7_A           15 DIFTGVRLYLPPSTP-----DFSRLRRYFVAFDGDLVQEFDMTSATHVLGSRD--------KNPAAQQVSPEWIWACIRK   81 (88)
T ss_dssp             CCSTTCEECCCTTST-----THHHHHHHHHHTTCEECCGGGGGGCSEEESCCT--------TCTTSEEECHHHHHHHHHH
T ss_pred             hhhcCeEEEccCCcC-----chhhheeeeeecCCEEecccCCCcCeEEecCCC--------cCCCCcEEchHHHHHHHhC
Confidence            569999999987765     2358889999999999888874 9999998774        2347999999999999999


Q ss_pred             hCCCCCC
Q 033679           98 VARATRR  104 (113)
Q Consensus        98 w~r~dE~  104 (113)
                      .+.++++
T Consensus        82 ~~Ll~~~   88 (88)
T 3pc7_A           82 RRLVAPS   88 (88)
T ss_dssp             TSCCSCC
T ss_pred             CcccCCC
Confidence            9988763

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

Probab=99.03  E-value=1.6e-10  Score=84.38  Aligned_cols=82  Identities=11%  Similarity=-0.001  Sum_probs=64.9

Q ss_pred             hhcCCCCcE-EEEccccCCCCCccchHHHHHHHhcCCEEEeeeCCCccEEEecCCCcHHHHHHHhCCCeecCcchHHHHH
Q 033679           17 QREVLKGCK-LVFSHAFPSKFPAHIHYLWKVVEQLGATCSIELDPSVTHVVSNKCSNEKVSLGSKGGQVFGGSTVDRGSQ   95 (113)
Q Consensus        17 k~~vL~Gc~-I~fSg~~p~~~~~~~~~l~~~a~~lGA~~~~~l~~~vTHlV~~~~~t~K~~~A~k~gi~IV~p~WL~~c~   95 (113)
                      +.++|+|+. ++.++.    ..+.+..|..+++..||++..++. .++++|+....      ++..++++|+|+||.||.
T Consensus       116 ~~~LF~g~~~~~v~~~----~~~~~~~L~~lI~~~GG~v~~~~~-~~~iiI~~~~~------~~~~~~~~V~p~Wi~DsI  184 (199)
T 3u3z_A          116 RGTLFADQPVMFVSPA----SSPPVAKLCELVHLCGGRVSQVPR-QASIVIGPYSG------KKKATVKYLSEKWVLDSI  184 (199)
T ss_dssp             CCCTTTTSCCEEECTT----CSSCHHHHHHHHHHTTCCBCSSGG-GCSEEESCCCS------CCCTTCEEECHHHHHHHH
T ss_pred             cchhhCCCeEEEECCC----CCCCHHHHHHHHHHcCCEEeccCC-CCEEEEeCCch------hccCCCcEEChhHHHHHH
Confidence            468899996 544553    345678999999999999999985 45666654322      334589999999999999


Q ss_pred             HhhCCCCCCceecc
Q 033679           96 LFVARATRREVSCE  109 (113)
Q Consensus        96 ~~w~r~dE~~y~~~  109 (113)
                      .+.+.+|+++|.+.
T Consensus       185 ~~~~llp~~~Y~~~  198 (199)
T 3u3z_A          185 TQHKVCAPENYLLS  198 (199)
T ss_dssp             HHTSCCCGGGGBCC
T ss_pred             HcCCcCChHhccCC
Confidence            99999999999874

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

Probab=99.02  E-value=2.8e-10  Score=79.29  Aligned_cols=85  Identities=12%  Similarity=-0.006  Sum_probs=65.4

Q ss_pred             CCCCcEEEEccccCCCC-CccchHHHHHHHhcCCEEEeeeCCCccEEEecCCCcHHHHHHH---------h-CCCeecCc
Q 033679           20 VLKGCKLVFSHAFPSKF-PAHIHYLWKVVEQLGATCSIELDPSVTHVVSNKCSNEKVSLGS---------K-GGQVFGGS   88 (113)
Q Consensus        20 vL~Gc~I~fSg~~p~~~-~~~~~~l~~~a~~lGA~~~~~l~~~vTHlV~~~~~t~K~~~A~---------k-~gi~IV~p   88 (113)
                      -|.||+|.+=..   .. ...+.-|.++|.+.|+++.++++++|||+|+.+.+.+.+..=+         + .+..+|+.
T Consensus        10 ~F~~v~iyive~---kmG~sRr~fL~~la~~kGf~v~~~~S~~VTHVV~E~~s~~~~~~~L~~~~~~l~~~~~~~~lLdi   86 (133)
T 2dun_A           10 RFPGVAIYLVEP---RMGRSRRAFLTGLARSKGFRVLDACSSEATHVVMEETSAEEAVSWQERRMAAAPPGCTPPALLDI   86 (133)
T ss_dssp             SEEEEEEEECHH---HHCSHHHHHHHHHHHHHTEEECSSCCTTCCEEEESSCCHHHHHHHHHHHHHHSCTTCCCCEEEEH
T ss_pred             ccCccEEEEecC---CcCHHHHHHHHHHHHhcCCEeccccCCCceEEEecCCCHHHHHHHHHHhhcccCcCCCCcEEecc
Confidence            478888888443   22 3345788999999999999999999999999665543333112         1 35899999


Q ss_pred             chHHHHHHhhCCCCCCcee
Q 033679           89 TVDRGSQLFVARATRREVS  107 (113)
Q Consensus        89 ~WL~~c~~~w~r~dE~~y~  107 (113)
                      .||.+|+...+.+||+.|.
T Consensus        87 sWltecm~~g~pV~~e~~~  105 (133)
T 2dun_A           87 SWLTESLGAGQPVPVECRH  105 (133)
T ss_dssp             HHHHHHHHHTSCCCCCTTT
T ss_pred             HHHHHHHhcCCcCCcccce
Confidence            9999999999999996553

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

Probab=99.01  E-value=1.3e-09  Score=79.74  Aligned_cols=90  Identities=13%  Similarity=0.071  Sum_probs=72.4

Q ss_pred             hhhcCCCCcEEEEccccCCCCCccchHHHHHHHhcCCEEEeeeCCCc--cEEEecCC-CcHHHHHHHhCCCeecCcchHH
Q 033679           16 GQREVLKGCKLVFSHAFPSKFPAHIHYLWKVVEQLGATCSIELDPSV--THVVSNKC-SNEKVSLGSKGGQVFGGSTVDR   92 (113)
Q Consensus        16 ~k~~vL~Gc~I~fSg~~p~~~~~~~~~l~~~a~~lGA~~~~~l~~~v--THlV~~~~-~t~K~~~A~k~gi~IV~p~WL~   92 (113)
                      -+..+|+|++|++++.+    .+....+..+++..||++...+++..  +|+|...+ ...+++.+.+.|+++|+++||.
T Consensus       111 ~~~~lF~g~~~~~~~~~----~~~~~~l~~li~~~GG~v~~~~~~~~~~~~ivI~~~~d~~~~~~~~~~~i~vvs~eWi~  186 (209)
T 2etx_A          111 RERRLLEGYEIYVTPGV----QPPPPQMGEIISCCGGTYLPSMPRSYKPQRVVITCPQDFPHCSIPLRVGLPLLSPEFLL  186 (209)
T ss_dssp             HHSCTTTTCEEEECTTC----SSCHHHHHHHHHHTTCEECSSCCCSCCTTEEEECCGGGGGGCHHHHHHTCCEECTHHHH
T ss_pred             hhCCCcCCcEEEEeCCC----CCCHHHHHHHHHHCCCEEECCCCCCCCCceEEEECcccHHHHHHHHHCCCeEEcHHHHH
Confidence            34588999999998764    34567899999999999999887643  67777543 4456677778899999999999


Q ss_pred             HHHHhhCCCCCCceeccC
Q 033679           93 GSQLFVARATRREVSCEA  110 (113)
Q Consensus        93 ~c~~~w~r~dE~~y~~~~  110 (113)
                      +|..+ .++|++.|.+..
T Consensus       187 ~sI~~-q~ld~e~y~l~~  203 (209)
T 2etx_A          187 TGVLK-QEAKPEAFVLSP  203 (209)
T ss_dssp             HHHHH-TCCCGGGGBCCT
T ss_pred             HHHHh-cccChHHheecC
Confidence            99998 557999999854

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

Probab=98.95  E-value=1.2e-09  Score=82.64  Aligned_cols=89  Identities=8%  Similarity=-0.018  Sum_probs=69.1

Q ss_pred             hhcCCCCcEEEEccccCCCCCccchHHHHHHHhcCCEEEeeeC---------CCccEEEecCC--CcHHHHHHHhCCCee
Q 033679           17 QREVLKGCKLVFSHAFPSKFPAHIHYLWKVVEQLGATCSIELD---------PSVTHVVSNKC--SNEKVSLGSKGGQVF   85 (113)
Q Consensus        17 k~~vL~Gc~I~fSg~~p~~~~~~~~~l~~~a~~lGA~~~~~l~---------~~vTHlV~~~~--~t~K~~~A~k~gi~I   85 (113)
                      +.++|+|+.|++++.+..+   ....+..+++.+||++...+.         ...+|+|..+.  ..++.+.|.+.+++|
T Consensus       152 ~~~LF~G~~I~i~~~~~~~---~~~~~~~Il~~~Ga~vv~~~~s~~~~~d~~~~~~~viv~d~~~~~~~~~~a~~~~i~i  228 (259)
T 1kzy_C          152 RENPFQNLKVLLVSDQQQN---FLELWSEILMTGGAASVKQHHSSAHNKDIALGVFDVVVTDPSCPASVLKCAEALQLPV  228 (259)
T ss_dssp             CCCTTTTCEEEEEESCTTT---THHHHHHHHHHTTCSEEEEEESSSSCCCSCGGGCSEEEECTTCCHHHHHHHHHHTCCE
T ss_pred             cCCCCCCeEEEEecCCCCC---HHHHHHHHHHhcCCEEEeccccchhhhhccCCCCeEEEECCCChHHHHHHHHhcCCCE
Confidence            3578999999998875211   223455589999999988874         25677777653  246677888889999


Q ss_pred             cCcchHHHHHHhhCCCCCCceec
Q 033679           86 GGSTVDRGSQLFVARATRREVSC  108 (113)
Q Consensus        86 V~p~WL~~c~~~w~r~dE~~y~~  108 (113)
                      |+.+||.+|..+.+.+|+..++=
T Consensus       229 Vs~EWv~~sI~~~~ll~~~~hp~  251 (259)
T 1kzy_C          229 VSQEWVIQCLIVGERIGFKQHPK  251 (259)
T ss_dssp             ECHHHHHHHHHHTSCCCTTSSGG
T ss_pred             ecHHHHHHHHHhCCcCCCCcCcc
Confidence            99999999999999999998763

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

Probab=98.86  E-value=1.5e-09  Score=78.94  Aligned_cols=84  Identities=12%  Similarity=-0.016  Sum_probs=65.0

Q ss_pred             hcCCCCcEEEEccccCCCCCccchHHHHHHHhcCCEEEeeeC-----------------------CCccEEEecCCCcHH
Q 033679           18 REVLKGCKLVFSHAFPSKFPAHIHYLWKVVEQLGATCSIELD-----------------------PSVTHVVSNKCSNEK   74 (113)
Q Consensus        18 ~~vL~Gc~I~fSg~~p~~~~~~~~~l~~~a~~lGA~~~~~l~-----------------------~~vTHlV~~~~~t~K   74 (113)
                      .++|+||.++|+|-+.   .+.+..|..+++..||++.....                       +.+||.|..+++...
T Consensus       102 ~~lF~g~~~~l~~~~~---~~~~~~l~~lI~~~GG~v~~~~p~~~~~~~~~~~~v~~~~~~~~~~~~~t~~iv~~~~~~~  178 (210)
T 2nte_A          102 PKLFDGCYFYLWGTFK---HHPKDNLIKLVTAGGGQILSRKPKPDSDVTQTINTVAYHARPDSDQRFCTQYIIYEDLCNY  178 (210)
T ss_dssp             CCTTTTCEEEECSCCS---SSCHHHHHHHHHHTTCEEESSCCCGGGCGGGSSCCCCTTSCTTCGGGTCCEEEEECSCSSC
T ss_pred             ccccCceEEEEeccCC---CCCHHHHHHHHHHCCCEEEecCCCCccccccccceeeeccCCCcccccceEEEEecccccc
Confidence            5789999999998643   35678999999999999986221                       457999998875221


Q ss_pred             -HHHHHhCCCeecCcchHHHHHHhhCCCCCC
Q 033679           75 -VSLGSKGGQVFGGSTVDRGSQLFVARATRR  104 (113)
Q Consensus        75 -~~~A~k~gi~IV~p~WL~~c~~~w~r~dE~  104 (113)
                       ...|...++++|+++||++|..+.+.+|.+
T Consensus       179 ~~~~~~~~~v~~V~~~Wl~dcI~~~~llp~~  209 (210)
T 2nte_A          179 HPERVRQGKVWKAPSSWFIDCVMSFELLPLD  209 (210)
T ss_dssp             CCSCSEETTEEEEEHHHHHHHHHHTSCCCSC
T ss_pred             CHHHHhccCcccccHHHHHHHHHhCeeccCC
Confidence             123444578999999999999999998865

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

Probab=98.51  E-value=5.9e-07  Score=66.37  Aligned_cols=89  Identities=9%  Similarity=-0.052  Sum_probs=69.9

Q ss_pred             hhhhcCCCCcEEEEccccCCCCCccchHHHHHHHhcCCEEEeeeCC-------------CccEEEecCCCcHHHHHHHhC
Q 033679           15 NGQREVLKGCKLVFSHAFPSKFPAHIHYLWKVVEQLGATCSIELDP-------------SVTHVVSNKCSNEKVSLGSKG   81 (113)
Q Consensus        15 ~~k~~vL~Gc~I~fSg~~p~~~~~~~~~l~~~a~~lGA~~~~~l~~-------------~vTHlV~~~~~t~K~~~A~k~   81 (113)
                      .-+.++|+|+.|++++.+.    +....+..+++..||++...+.+             .-..+|+.+.....++.+.+.
T Consensus       117 a~~~~LF~G~~f~it~~~~----~~~~~l~~lI~~~GG~v~~~~p~~~~~~~~~~~~~~~~~ivis~~~d~~~~~~~~~~  192 (219)
T 3sqd_A          117 AHVSPLFKAKYFYITPGIC----PSLSTMKAIVECAGGKVLSKQPSFRKLMEHKQNSSLSEIILISCENDLHLCREYFAR  192 (219)
T ss_dssp             HHHSCTTTTEEEEECTTCS----SCHHHHHHHHHHTTCEEESSCCCHHHHHHHHHCTTSCEEEEEECGGGGGGGHHHHHT
T ss_pred             hccccccCCcEEEEeCCCC----CCHHHHHHHHHHCCCEEECCCCchHHhhhhhcccCCCCEEEEecccHHHHHHHHHHC
Confidence            3467899999999998653    45679999999999999998753             234566666677788888889


Q ss_pred             CCeecCcchHHHHHHhhCCCCCCceec
Q 033679           82 GQVFGGSTVDRGSQLFVARATRREVSC  108 (113)
Q Consensus        82 gi~IV~p~WL~~c~~~w~r~dE~~y~~  108 (113)
                      |++|++++|+.+|..+-+- |=+.|.+
T Consensus       193 ~~~v~s~E~il~~Il~q~l-d~~~~~~  218 (219)
T 3sqd_A          193 GIDVHNAEFVLTGVLTQTL-DYESYKF  218 (219)
T ss_dssp             TCCCEETHHHHHHHHHTCC-CTTTSBC
T ss_pred             CCcEEeHHHHHHHHHheee-cchhccc
Confidence            9999999999999996544 5555543

>1dgs_A DNA ligase; AMP complex, NAD+-dependent; HET: DNA AMP; 2.90A {Thermus filiformis} SCOP: a.60.2.2 b.40.4.6 d.142.2.2 PDB: 1v9p_A*

Probab=98.49  E-value=1.5e-08  Score=85.97  Aligned_cols=75  Identities=12%  Similarity=0.089  Sum_probs=0.0

Q ss_pred             hcCCCCcEEEEccccCCCCCccchHHHHHHHhcCCEEEeeeCCCccEEEecCCCcHHHHHHHhCCCeecCcchHHHHHH
Q 033679           18 REVLKGCKLVFSHAFPSKFPAHIHYLWKVVEQLGATCSIELDPSVTHVVSNKCSNEKVSLGSKGGQVFGGSTVDRGSQL   96 (113)
Q Consensus        18 ~~vL~Gc~I~fSg~~p~~~~~~~~~l~~~a~~lGA~~~~~l~~~vTHlV~~~~~t~K~~~A~k~gi~IV~p~WL~~c~~   96 (113)
                      ..+|.|.++||+|.++.    ++..+..+++.+||++...++.++++||+.+..+.|.+.|.+.||+|++-+|+.+...
T Consensus       585 ~~~l~G~~~v~TG~l~~----~R~e~~~~i~~~Ggkv~~sVSkkTd~lV~G~~~gsKl~KA~~lgI~Ii~E~~f~~~l~  659 (667)
T 1dgs_A          585 SDLLSGLTFVLTGELSR----PREEVKALLGRLGAKVTDSVSRKTSYLVVGENPGSKLEKARALGVAVLTEEEFWRFLK  659 (667)
T ss_dssp             -------------------------------------------------------------------------------
T ss_pred             ccccCCCEEEEeCCCCC----CHHHHHHHHHHcCCEEcCcccCCeeEEEECCCCChHHHHHHHCCCeEEeHHHHHHHHh
Confidence            45799999999999864    5568899999999999999999999999998878999999999999999999888765

>2owo_A DNA ligase; protein-DNA complex, ligase-DNA complex; HET: DNA OMC AMP; 2.30A {Escherichia coli}

Probab=98.47  E-value=1.8e-08  Score=85.52  Aligned_cols=75  Identities=11%  Similarity=0.063  Sum_probs=0.0

Q ss_pred             hcCCCCcEEEEccccCCCCCccchHHHHHHHhcCCEEEeeeCCCccEEEecCCCcHHHHHHHhCCCeecCcchHHHHH
Q 033679           18 REVLKGCKLVFSHAFPSKFPAHIHYLWKVVEQLGATCSIELDPSVTHVVSNKCSNEKVSLGSKGGQVFGGSTVDRGSQ   95 (113)
Q Consensus        18 ~~vL~Gc~I~fSg~~p~~~~~~~~~l~~~a~~lGA~~~~~l~~~vTHlV~~~~~t~K~~~A~k~gi~IV~p~WL~~c~   95 (113)
                      ..+|.|.++||+|.++.   .++..+..+++.+||++...++.++++||+.+..+.|.+.|.+.||+|++-+|+.+..
T Consensus       595 ~~~l~G~~~v~TG~l~~---~~R~e~~~~i~~~Ggkv~~sVSkkTd~lV~G~~~gsKl~KA~~lgI~Ii~E~~f~~~l  669 (671)
T 2owo_A          595 DSPFAGKTVVLTGSLSQ---MSRDDAKARLVELGAKVAGSVSKKTDLVIAGEAAGSKLAKAQELGIEVIDEAEMLRLL  669 (671)
T ss_dssp             ------------------------------------------------------------------------------
T ss_pred             CCcccCcEEEEcCCCCC---CCHHHHHHHHHHcCCEEeCcccCceeEEEECCCCChHHHHHHHCCCcEEcHHHHHHHh
Confidence            35799999999999864   2456889999999999999999999999999887899999999999999999887764

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

Probab=98.42  E-value=2.9e-07  Score=68.95  Aligned_cols=81  Identities=10%  Similarity=-0.059  Sum_probs=60.6

Q ss_pred             hhhcCCCCcEEEEccccCCCCCc-----------cchHHHHHHHhcCCEE--EeeeCCCccEEEecCCCcHHHHHHHhCC
Q 033679           16 GQREVLKGCKLVFSHAFPSKFPA-----------HIHYLWKVVEQLGATC--SIELDPSVTHVVSNKCSNEKVSLGSKGG   82 (113)
Q Consensus        16 ~k~~vL~Gc~I~fSg~~p~~~~~-----------~~~~l~~~a~~lGA~~--~~~l~~~vTHlV~~~~~t~K~~~A~k~g   82 (113)
                      -|.++|.|++|.|..-..  ..+           .......+++.+||++  ..++++..+|+|..+.+.    .|.+.+
T Consensus       147 ~~~~Lf~g~~i~~~~~~~--~~~~~~~~~~~~g~~~~~~~~i~~~~Ga~~~~v~~~~~~~~d~v~~~~~~----~~~~~~  220 (241)
T 2vxb_A          147 ARKGPLFGKKILFIIPEA--KSWQKKIENTEQGQKALAHVYHALALGADVEIRPNVAHLECDLILTMDGN----IVDETN  220 (241)
T ss_dssp             HCCCTTTTCEEEECCCC--------------CHHHHHHHHHHHHHTTCEEECCSCCSSCCCSEEECSSSC----CCSSCS
T ss_pred             hcCcCCCCcEEEEEeCCC--cccccccccccccchHHHHHHHHHHcCCceecccccccCCccEEEECCcc----ccccCC
Confidence            356889999999964311  001           1245667899999999  666666789999986543    255678


Q ss_pred             CeecCcchHHHHHHhhCCCC
Q 033679           83 QVFGGSTVDRGSQLFVARAT  102 (113)
Q Consensus        83 i~IV~p~WL~~c~~~w~r~d  102 (113)
                      ++||+++|+.+|....+++|
T Consensus       221 ~~iV~~eWv~~~i~~g~~l~  240 (241)
T 2vxb_A          221 CPVVDPEWIVECLISQSDIS  240 (241)
T ss_dssp             SCEECHHHHHHHHHHTSCTT
T ss_pred             CCEecHHHHHHHHHhceecC
Confidence            99999999999999999886

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

Probab=98.12  E-value=2.7e-06  Score=63.51  Aligned_cols=88  Identities=8%  Similarity=0.013  Sum_probs=69.0

Q ss_pred             hcCCCCcEEEEccccCCCCCccchHHHHHHHhcCCEEEeeeCC----CccEEEecCCC------cHHHHHHHhCCCeecC
Q 033679           18 REVLKGCKLVFSHAFPSKFPAHIHYLWKVVEQLGATCSIELDP----SVTHVVSNKCS------NEKVSLGSKGGQVFGG   87 (113)
Q Consensus        18 ~~vL~Gc~I~fSg~~p~~~~~~~~~l~~~a~~lGA~~~~~l~~----~vTHlV~~~~~------t~K~~~A~k~gi~IV~   87 (113)
                      .++|+|+.++|.+.     .+....+.++++.-||++....++    ..||.+....+      ..+++.+.+.|+++|+
T Consensus       133 ~~lF~g~~v~l~~~-----~~~~~~l~~ii~agGg~vl~~~~~~~~~~~t~~~vd~~~~~~~~~~~~~~~~~~~~i~~v~  207 (235)
T 3al2_A          133 EGAFSGWKVILHVD-----QSREAGFKRLLQSGGAKVLPGHSVPLFKEATHLFSDLNKLKPDDSGVNIAEAAAQNVYCLR  207 (235)
T ss_dssp             SSTTTTCEEEEECC-----HHHHHHHHHHHHHTTCEECSSCCGGGGGGCSEEEECC--------CCCHHHHHHTTCEEEE
T ss_pred             CCCCCCcEEEEecC-----CCcHHHHHHHHHcCCcEEecCCCCCccccCceEEEecccCCccchhHHHHHHHHcCCcEEc
Confidence            47999999999764     134568899999999999876543    46898775321      1346667778999999


Q ss_pred             cchHHHHHHhhCCCCCCceeccC
Q 033679           88 STVDRGSQLFVARATRREVSCEA  110 (113)
Q Consensus        88 p~WL~~c~~~w~r~dE~~y~~~~  110 (113)
                      ++||.++..+-...+-++|.++.
T Consensus       208 ~ewlld~i~~~~~~~~~~y~l~~  230 (235)
T 3al2_A          208 TEYIADYLMQESPPHVENYCLPE  230 (235)
T ss_dssp             THHHHHHHHCSSCCCHHHHBCGG
T ss_pred             HHHHHHHHhcCCCCChhheEccc
Confidence            99999999999999999998864

>3t7k_A RTT107, regulator of TY1 transposition protein 107; BRCT, DNA repair, phospho-peptide, protein binding; HET: SEP; 2.03A {Saccharomyces cerevisiae} PDB: 3t7j_A* 3t7i_A

Probab=97.99  E-value=3.3e-05  Score=58.76  Aligned_cols=98  Identities=9%  Similarity=-0.094  Sum_probs=73.0

Q ss_pred             HHHHHhhhhcCCCCcEEEEccccCCCCCccchHHHHHHHhcCCEEEeeeCC--CccEEEecCC-CcHHHHHHHhCC--Ce
Q 033679           10 FFCTENGQREVLKGCKLVFSHAFPSKFPAHIHYLWKVVEQLGATCSIELDP--SVTHVVSNKC-SNEKVSLGSKGG--QV   84 (113)
Q Consensus        10 ~~il~~~k~~vL~Gc~I~fSg~~p~~~~~~~~~l~~~a~~lGA~~~~~l~~--~vTHlV~~~~-~t~K~~~A~k~g--i~   84 (113)
                      +.||..+-...--..+++.+|.--.  .-+..++ +..+.+|-.+..+++.  .++|++|++. .|+|+-.|+..+  -+
T Consensus         9 ~~il~~~~~~~~~~i~ai~TGc~~~--~~~~~D~-~~Lr~LGI~Iv~d~~~~~~~n~LiAPkilRT~KFL~sLa~~P~~~   85 (256)
T 3t7k_A            9 EKILARFNELPNYDLKAVCTGCFHD--GFNEVDI-EILNQLGIKIFDNIKETDKLNCIFAPKILRTEKFLKSLSFEPLKF   85 (256)
T ss_dssp             HHHHHTCSCCCCCCEEEEESSSCSS--CCCHHHH-HHHHHTTEEECSSCCGGGCCCEEECSSCCCBHHHHHHTTSTTCCE
T ss_pred             HHHHHhcccCCCeeEEEEecCCccc--ccCHHHH-HHHHHcCeEEEecCcccCCCCEEEcCchhhHHHHHHHhccCccce
Confidence            3444433333336778888888412  2333343 5689999999999974  8999999987 899999999986  37


Q ss_pred             ecCcchHHHHHHh---hC------CCCCCceeccC
Q 033679           85 FGGSTVDRGSQLF---VA------RATRREVSCEA  110 (113)
Q Consensus        85 IV~p~WL~~c~~~---w~------r~dE~~y~~~~  110 (113)
                      |++|+||.+|+..   .+      ..|.++|.+..
T Consensus        86 il~p~FI~~~Lk~ih~~~~~~~~~~l~~~dY~L~d  120 (256)
T 3t7k_A           86 ALKPEFIIDLLKQIHSKKDKLSQININLFDYEING  120 (256)
T ss_dssp             EECTHHHHHHHHHHC-------CCCCCSSTTBCTT
T ss_pred             EeCHHHHHHHHHHhhcCCcccccccCChhhccCCC
Confidence            9999999999998   56      77888888754

>3huf_A DNA repair and telomere maintenance protein NBS1; NBS1, FHA domain, BRCT domain, phosphoprotein binding, phosp binding, DNA repair; HET: DNA TPO; 2.15A {Schizosaccharomyces pombe} PDB: 3hue_A* 3i0m_A* 3i0n_A*

Probab=97.94  E-value=8.4e-06  Score=63.94  Aligned_cols=57  Identities=12%  Similarity=-0.010  Sum_probs=48.3

Q ss_pred             chHHHHHHHhcCCEEEeee-CCCccEEEecCCCc----HHHHHHHhCCCeecCcchHHHHHHh
Q 033679           40 IHYLWKVVEQLGATCSIEL-DPSVTHVVSNKCSN----EKVSLGSKGGQVFGGSTVDRGSQLF   97 (113)
Q Consensus        40 ~~~l~~~a~~lGA~~~~~l-~~~vTHlV~~~~~t----~K~~~A~k~gi~IV~p~WL~~c~~~   97 (113)
                      +..+...+++||+.+. +. ++.|||||..+.+|    .|.-+|+=.|++||+|+|+.+....
T Consensus       126 ~~~L~~~L~~LGik~v-~~~~detTHlVm~krnT~KvTvK~L~ALI~gkPIV~~~Fl~al~~~  187 (325)
T 3huf_A          126 LSQWASNLNLLGIPTG-LRDSDATTHFVMNRQAGSSITVGTMYAFLKKTVIIDDSYLQYLSTV  187 (325)
T ss_dssp             HHHHHHHHHTTTCCEE-SSCCTTCCEEECCCCCSSCCCHHHHHHHHTTCEEECHHHHHHHTTC
T ss_pred             HHHHHHHHHHcCCEEE-EccCCCEEEEEEeccccccchHHHHHHHHCCCcEecHHHHHHHHHh
Confidence            3458889999999999 77 78899999986554    5599999999999999999997543

>4gns_A Chitin biosynthesis protein CHS5; FN3, BRCT, tetratricopeptide repeat, cargo adaptor, transpor; HET: EPE; 2.75A {Saccharomyces cerevisiae}

Probab=97.86  E-value=4.8e-05  Score=56.08  Aligned_cols=96  Identities=17%  Similarity=0.107  Sum_probs=72.6

Q ss_pred             hhhcCCCCcEEEEccccCCCCCccchHHHHHHHhcCCEEE-eeeCCCccEEEecCC----CcHHHHHHHhCCCeecCcch
Q 033679           16 GQREVLKGCKLVFSHAFPSKFPAHIHYLWKVVEQLGATCS-IELDPSVTHVVSNKC----SNEKVSLGSKGGQVFGGSTV   90 (113)
Q Consensus        16 ~k~~vL~Gc~I~fSg~~p~~~~~~~~~l~~~a~~lGA~~~-~~l~~~vTHlV~~~~----~t~K~~~A~k~gi~IV~p~W   90 (113)
                      -|-.-++|.++|+.-.-|.. ..+.-.+.+.....||+-. ..+.-++||.||.+.    +.+..-.|+-.+|+||.|+|
T Consensus       157 hkmtdmsgitvclgpldplk-eisdlqisqclshigarplqrhvaidtthfvcndldneesneelirakhnnipivrpew  235 (290)
T 4gns_A          157 HKMTDMSGITVCLGPLDPLK-EISDLQISQCLSHIGARPLQRHVAIDTTHFVCNDLDNEESNEELIRAKHNNIPIVRPEW  235 (290)
T ss_dssp             CCTTCCTTCCEEECCCCGGG-TCCHHHHHHHHHHTTCCCCBSSCCTTCCEEECSCCTTCTTCHHHHHHHHTTCCEECTHH
T ss_pred             cccccccCceEEecCCChhh-hhhhccHHHHHHHhCCchhhheeeeecceeeecCCCcccchHHHHhhhccCCCccCHHH
Confidence            33445789999996555543 2234567788888999854 445568999999865    46667778778999999999


Q ss_pred             HHHHHHhhCCCCCCceeccCCC
Q 033679           91 DRGSQLFVARATRREVSCEANQ  112 (113)
Q Consensus        91 L~~c~~~w~r~dE~~y~~~~~~  112 (113)
                      +.+|.-..+-+.-+.|-+...|
T Consensus       236 vracevekrivgvrgfyldadq  257 (290)
T 4gns_A          236 VRACEVEKRIVGVRGFYLDADQ  257 (290)
T ss_dssp             HHHHHHTTSCCCSGGGBTTSCG
T ss_pred             HHHHhhhheeeeeeeEEEcccH
Confidence            9999999998888888776654

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

Probab=97.32  E-value=0.00032  Score=46.56  Aligned_cols=87  Identities=7%  Similarity=-0.051  Sum_probs=66.7

Q ss_pred             hcCCCCcEEEEccccCC-CCCccchHHHHHHHhcCCEEEeeeCCCc--cEEEecCCCcHHHHHHHhCCCeecCcchHHHH
Q 033679           18 REVLKGCKLVFSHAFPS-KFPAHIHYLWKVVEQLGATCSIELDPSV--THVVSNKCSNEKVSLGSKGGQVFGGSTVDRGS   94 (113)
Q Consensus        18 ~~vL~Gc~I~fSg~~p~-~~~~~~~~l~~~a~~lGA~~~~~l~~~v--THlV~~~~~t~K~~~A~k~gi~IV~p~WL~~c   94 (113)
                      ..||+|..+.+..--.. +.--+...|.++++..||++...+..+.  -+.|++..++.        +++.|+|..|.+|
T Consensus         9 ~~vF~g~~Fyin~d~~a~ds~~d~d~L~~lI~~nGG~Vl~~lP~~s~~~~yVVSpyN~t--------~LpTVtpTYI~aC   80 (106)
T 2l42_A            9 GPPLSNMKFYLNRDADAHDSLNDIDQLARLIRANGGEVLDSKPRESKENVFIVSPYNHT--------NLPTVTPTYIKAC   80 (106)
T ss_dssp             SCSSCCCCBEECCSSSCSSCSSTHHHHHHHHHTTTSCCCEECCCCCSSCCCCBCTTCCC--------SSSBCCTTHHHHH
T ss_pred             CccccCcEEEEcCCCccchhhhHHHHHHHHHHhcCcEEhhhCcccccCCeEEEeCCCCC--------CCccccHHHHHHH
Confidence            35689988888654221 1222347999999999999999997654  35566555533        7899999999999


Q ss_pred             HHhhCCCCCCceeccCCC
Q 033679           95 QLFVARATRREVSCEANQ  112 (113)
Q Consensus        95 ~~~w~r~dE~~y~~~~~~  112 (113)
                      +.+.+.++=.+|+++-.+
T Consensus        81 ~~~nTLLnv~~YLvp~d~   98 (106)
T 2l42_A           81 CQSNSLLNMENYLVPYDN   98 (106)
T ss_dssp             HHSTTSCGGGGCCBCSCC
T ss_pred             HhcCceecccccccCchh
Confidence            999999999999997543

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

Probab=96.96  E-value=0.0011  Score=48.95  Aligned_cols=88  Identities=9%  Similarity=0.088  Sum_probs=59.7

Q ss_pred             hhcCCCCcEEEEccccCCCCCccchHHHHHHHhcCCEEEeeeC-----------CCccEEEecCCCc---HHHHHHHh--
Q 033679           17 QREVLKGCKLVFSHAFPSKFPAHIHYLWKVVEQLGATCSIELD-----------PSVTHVVSNKCSN---EKVSLGSK--   80 (113)
Q Consensus        17 k~~vL~Gc~I~fSg~~p~~~~~~~~~l~~~a~~lGA~~~~~l~-----------~~vTHlV~~~~~t---~K~~~A~k--   80 (113)
                      +.++|+|+.|++++.+-  .+|....+..+++..||++.. ..           +.-..||+.+...   .+++...+  
T Consensus       110 ~~~LF~G~~f~it~~~~--~~p~~~~l~~iI~~~GG~v~~-~p~~~~~~~~~~~~~~~~vis~~~d~~~~~~f~~~~~~~  186 (220)
T 3l41_A          110 GPSLLEDYVVYLTSKTV--APENVPAVISIVKSNGGVCST-LNVYNKRLARHLEDGNVVLITCNEDSHIWTNFLDNASQN  186 (220)
T ss_dssp             CSCTTTTSEEEEETTSS--CGGGHHHHHHHHHHTTCEEEE-ECSCCHHHHHHHHHCCEEEEECGGGHHHHTTTHHHHTTC
T ss_pred             CchhhhheeEEEecccc--CCCCCceEEEEEecCCcEech-hhHHHHHHHHhcccCCEEEEEeCCcchHHHHhhcccccc
Confidence            37899999999987650  035677999999999999988 21           1125677664322   12222222  


Q ss_pred             CCCeecCcchHHHHHHhhCCCCCCcee
Q 033679           81 GGQVFGGSTVDRGSQLFVARATRREVS  107 (113)
Q Consensus        81 ~gi~IV~p~WL~~c~~~w~r~dE~~y~  107 (113)
                      .++.||+++||.++..+-+---|+.+.
T Consensus       187 ~~~~i~~~e~ll~~il~q~l~~~~~~~  213 (220)
T 3l41_A          187 KTIFLQNYDWLIKTVLRQEIDVNDRIA  213 (220)
T ss_dssp             TTEEEEEHHHHHHHHHHTCCCTTCCBC
T ss_pred             ceEEEechhHHHHHHHHHHcCcchHHH
Confidence            247799999999999877665555543

>3qbz_A DDK kinase regulatory subunit DBF4; FHA domain,RAD53, replication checkpoint, cell cycle; 2.69A {Saccharomyces cerevisiae}

Probab=96.95  E-value=0.0011  Score=47.19  Aligned_cols=70  Identities=17%  Similarity=0.207  Sum_probs=48.5

Q ss_pred             hcCCC-CcEEEEccccCCCCCc-cc-------hHHHHHHHhcCCEEEeeeCCCccEEEecCCC--------cHHHHHHHh
Q 033679           18 REVLK-GCKLVFSHAFPSKFPA-HI-------HYLWKVVEQLGATCSIELDPSVTHVVSNKCS--------NEKVSLGSK   80 (113)
Q Consensus        18 ~~vL~-Gc~I~fSg~~p~~~~~-~~-------~~l~~~a~~lGA~~~~~l~~~vTHlV~~~~~--------t~K~~~A~k   80 (113)
                      +++|. +++|.|=..-+...+. .+       ..+.+....|||++..-++..|||||..++-        ++-+..|.+
T Consensus        56 Rkifk~~~vfYFDt~~~~~~~~~~k~kl~K~~~llkr~f~~LGA~I~~FFd~~VTiVIT~R~i~~~~~~~~~Dil~~A~~  135 (160)
T 3qbz_A           56 KKIMKRDSRIYFDITDDVEMNTYNKSKMDKRRDLLKRGFLTLGAQITQFFDTTVTIVITRRSVENIYLLKDTDILSRAKK  135 (160)
T ss_dssp             HHHHHHHCEEEECCCCSSCCCHHHHHHHHHHHHHHHHHHHTTTCEEESSCCTTCCEEEESSCSSCGGGSCTTSHHHHHHH
T ss_pred             HHhCccCcEEEecCCChhhhhHHHHHHHHHHHHHHHHHHHHcCCEeeeeccCCeEEEEecCcCcccccCCchhHHHHHHH
Confidence            56677 8999997653221110 01       1233456799999999999999999999872        334677877


Q ss_pred             CCCeecC
Q 033679           81 GGQVFGG   87 (113)
Q Consensus        81 ~gi~IV~   87 (113)
                      .+++|=+
T Consensus       136 ~~mKVW~  142 (160)
T 3qbz_A          136 NYMKVWS  142 (160)
T ss_dssp             TTCEEEE
T ss_pred             cCceecc
Confidence            7888744

>3oq0_A DBF4, protein DNA52; DDK, BRCT, RAD53, replication checkpoint, FHA domain, regula subunit of DDK, CDC7, phosphorylation, nuclear; 2.70A {Saccharomyces cerevisiae}

Probab=96.88  E-value=0.004  Score=43.91  Aligned_cols=76  Identities=14%  Similarity=0.124  Sum_probs=51.5

Q ss_pred             hcCC-CCcEEEEccccCCCCCc--------cchHHHHHHHhcCCEEEeeeCCCccEEEecCC--------CcHHHHHHHh
Q 033679           18 REVL-KGCKLVFSHAFPSKFPA--------HIHYLWKVVEQLGATCSIELDPSVTHVVSNKC--------SNEKVSLGSK   80 (113)
Q Consensus        18 ~~vL-~Gc~I~fSg~~p~~~~~--------~~~~l~~~a~~lGA~~~~~l~~~vTHlV~~~~--------~t~K~~~A~k   80 (113)
                      ++++ ++-+|.|=..-+.+...        .+..|.+....+||++..-++..|||+|..++        .++-...|.+
T Consensus        18 rkIM~r~s~iYFdt~~~~~~~~~~~~~l~k~~~llkk~f~~LGa~I~~FFd~~VTiIITrR~~~~~~~yp~~DIL~rAr~   97 (151)
T 3oq0_A           18 GSHMKRDSRIYFDITDDVEMNTYNKSKMDKRRDLLKRGFLTLGAQITQFFDTTVTIVITRRSVENIYLLKDTDILSRAKK   97 (151)
T ss_dssp             ---CCCCCEEEECCCCSSCCCHHHHHHHHHHHHHHHHHHHHHTCEEESSCCTTCCEEEESSCGGGGGGSCTTSHHHHHHH
T ss_pred             HHHhccCCEEEEeCCCcchhhHHHHHHHHHHHHHHHHHHHHcCCEEeeecCCceEEEEeCCcCcccccCCcchHHHHHHH
Confidence            5566 88899996542221110        11334455689999999999999999999986        3445678888


Q ss_pred             CCCeecCcchHHH
Q 033679           81 GGQVFGGSTVDRG   93 (113)
Q Consensus        81 ~gi~IV~p~WL~~   93 (113)
                      .|++|=+.+=|..
T Consensus        98 ~~mKIWs~EKl~R  110 (151)
T 3oq0_A           98 NYMKVWSYEKAAR  110 (151)
T ss_dssp             TTCEEEEHHHHHH
T ss_pred             cCCeeecHHHHHH
Confidence            9999977665553

>3oq4_A DBF4, protein DNA52; DDK, BRCT, RAD53, replication checkpoint, FHA domain, regula subunit of DDK, CDC7, phosphorylation, nuclear; 2.40A {Saccharomyces cerevisiae}

Probab=96.64  E-value=0.0038  Score=43.25  Aligned_cols=71  Identities=15%  Similarity=0.108  Sum_probs=49.3

Q ss_pred             CcEEEEccccCCCCC--------ccchHHHHHHHhcCCEEEeeeCCCccEEEecCCC--------cHHHHHHHhCCCeec
Q 033679           23 GCKLVFSHAFPSKFP--------AHIHYLWKVVEQLGATCSIELDPSVTHVVSNKCS--------NEKVSLGSKGGQVFG   86 (113)
Q Consensus        23 Gc~I~fSg~~p~~~~--------~~~~~l~~~a~~lGA~~~~~l~~~vTHlV~~~~~--------t~K~~~A~k~gi~IV   86 (113)
                      ..+|.|-+.-+.+..        ..+..|.+-...+||++..-++..|||+|..++-        ++-...|.+.|++|=
T Consensus         7 ~s~iyfd~~~~~~~~~~~~~k~~k~~~llk~~f~~LGa~I~~FFd~~VTiiITrR~~~~~~~~p~~DIL~rAr~~~mKIW   86 (134)
T 3oq4_A            7 DSRIYFDITDDVEMNTYNKSKMDKRRDLLKRGFLTLGAQITQFFDTTVTIVITRRSVENIYLLKDTDILSRAKKNYMKVW   86 (134)
T ss_dssp             TCEEEECCCCSSCCCHHHHHHHHHHHHHHHHHHHHTTCEEESSCCTTCCEEEESSCGGGGGGSCTTSHHHHHHHTTCEEE
T ss_pred             cceEEecCCchHHHHHHHHHhhHHHHHHHHHHHHHcCCEEeeecCCceEEEEeCCcCcccccCCcchHHHHHHHcCCeee
Confidence            457888655332211        0113455556799999999999999999999863        444678888999997


Q ss_pred             CcchHHH
Q 033679           87 GSTVDRG   93 (113)
Q Consensus        87 ~p~WL~~   93 (113)
                      +.+=|..
T Consensus        87 s~EKl~R   93 (134)
T 3oq4_A           87 SYEKAAR   93 (134)
T ss_dssp             EHHHHHH
T ss_pred             eHHHHHH
Confidence            7665543

---

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	113
d1t15a1	109	c.15.1.3 (A:1649-1757) Breast cancer associated pr	0.002

>d1t15a1 c.15.1.3 (A:1649-1757) Breast cancer associated protein, BRCA1 {Human (Homo sapiens) [TaxId: 9606]} Length = 109

class: Alpha and beta proteins (a/b)
fold: BRCT domain
superfamily: BRCT domain
family: BRCT domain
domain: Breast cancer associated protein, BRCA1
species: Human (Homo sapiens) [TaxId: 9606]

 Score = 33.1 bits (75), Expect = 0.002
 Identities = 8/44 (18%), Positives = 14/44 (31%)

Query: 37 PAHIHYLWKVVEQLGATCSIELDPSVTHVVSNKCSNEKVSLGSK 80
          P     ++K   +   T +  +    THVV    +        K
Sbjct: 11 PEEFMLVYKFARKHHITLTNLITEETTHVVMKTDAEFVCERTLK 54

Homologous Domains Detected by HHsearch

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

ID	Length	Definition	Probability
Query	113
d1wf6a_	132	DNA topoisomerase II binding protein 1, TopBP1 {Hu	99.86
d1cdza_	96	DNA-repair protein XRCC1 {Human (Homo sapiens) [Ta	99.86
d1t15a1	109	Breast cancer associated protein, BRCA1 {Human (Ho	99.84
d1t15a2	102	Breast cancer associated protein, BRCA1 {Human (Ho	99.84
d1l7ba_	92	NAD+-dependent DNA ligase, domain 4 {Thermus therm	99.55
d1in1a_	88	DNA ligase III alpha {Human (Homo sapiens) [TaxId:	99.49
d1kzyc1	153	53BP1 {Human (Homo sapiens) [TaxId: 9606]}	99.48
d1l0ba2	97	Breast cancer associated protein, BRCA1 {Rat (Ratt	98.22
d1kzyc2	106	53BP1 {Human (Homo sapiens) [TaxId: 9606]}	97.55
d1li4a2	267	S-adenosylhomocystein hydrolase {Human (Homo sapie	80.13

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

class: Alpha and beta proteins (a/b)
fold: BRCT domain
superfamily: BRCT domain
family: DNA topoisomerase II binding protein 1, TopBP1
domain: DNA topoisomerase II binding protein 1, TopBP1
species: Human (Homo sapiens) [TaxId: 9606]

Probab=99.86  E-value=4.2e-22  Score=136.03  Aligned_cols=90  Identities=14%  Similarity=0.146  Sum_probs=79.8

Q ss_pred             hhcCCCCcEEEEccccCCCCCccchHHHHHHHhcCCEEEeeeCCCccEEEecCCCcHHHHHHHh--CCCeecCcchHHHH
Q 033679           17 QREVLKGCKLVFSHAFPSKFPAHIHYLWKVVEQLGATCSIELDPSVTHVVSNKCSNEKVSLGSK--GGQVFGGSTVDRGS   94 (113)
Q Consensus        17 k~~vL~Gc~I~fSg~~p~~~~~~~~~l~~~a~~lGA~~~~~l~~~vTHlV~~~~~t~K~~~A~k--~gi~IV~p~WL~~c   94 (113)
                      ...+|+||+|+|||. +   ..++..|.+++..+||++...++++|||||+.+..+.+++.+.+  .+++||+|+||++|
T Consensus        37 ~~~~f~G~~i~isGf-~---~~~~~~l~~~i~~~GG~~~~~~~~~vTHvIv~~~~~~~~~~~~~~~~~i~iV~~~Wl~~c  112 (132)
T d1wf6a_          37 PEDLLDGCRIYLCGF-S---GRKLDKLRRLINSGGGVRFNQLNEDVTHVIVGDYDDELKQFWNKSAHRPHVVGAKWLLEC  112 (132)
T ss_dssp             CTTTTTTCEEEEESC-C---SHHHHHHHHHHHHTTCEEESSCCSSCCEEEESSCCSHHHHHHHHSCCCCCEEEHHHHHHH
T ss_pred             chhhhCCeEEEEeeC-C---CHHHHHHHHHHHHcCCEEecccCCCceEEEecCCCccHHHHHHHhcCCCCcCCHHHHHHH
Confidence            356799999999995 3   25788999999999999999999999999999998888776544  47999999999999


Q ss_pred             HHhhCCCCCCceeccC
Q 033679           95 QLFVARATRREVSCEA  110 (113)
Q Consensus        95 ~~~w~r~dE~~y~~~~  110 (113)
                      ..+++++||++|.+..
T Consensus       113 ~~~~~~l~~~~Y~~~~  128 (132)
T d1wf6a_         113 FSKGYMLSEEPYIHSG  128 (132)
T ss_dssp             HHHSSCCCSGGGBCCC
T ss_pred             HHcCCcCCHHhCcCCC
Confidence            9999999999999854

>d1cdza_ c.15.1.1 (A:) DNA-repair protein XRCC1 {Human (Homo sapiens) [TaxId: 9606]}

class: Alpha and beta proteins (a/b)
fold: BRCT domain
superfamily: BRCT domain
family: DNA-repair protein XRCC1
domain: DNA-repair protein XRCC1
species: Human (Homo sapiens) [TaxId: 9606]

Probab=99.86  E-value=5.4e-22  Score=127.53  Aligned_cols=89  Identities=9%  Similarity=0.040  Sum_probs=81.0

Q ss_pred             cCCCCcEEEEccccCCCCCccchHHHHHHHhcCCEEEeeeCCCccEEEecCCCcHHHHHHHhC--CCeecCcchHHHHHH
Q 033679           19 EVLKGCKLVFSHAFPSKFPAHIHYLWKVVEQLGATCSIELDPSVTHVVSNKCSNEKVSLGSKG--GQVFGGSTVDRGSQL   96 (113)
Q Consensus        19 ~vL~Gc~I~fSg~~p~~~~~~~~~l~~~a~~lGA~~~~~l~~~vTHlV~~~~~t~K~~~A~k~--gi~IV~p~WL~~c~~   96 (113)
                      ..|+||+++++|.+|.   .++..+.+++.++||++...+++++||+|+.+..+.+++.+++.  +++||+|+||++|..
T Consensus         4 d~F~g~~f~v~g~~~~---~~~~~l~~~i~~~GG~v~~~~~~~~THvI~~~~~~~~~~~~~~~~~~i~iV~~~Wl~dc~~   80 (96)
T d1cdza_           4 DFFQGKHFFLYGEFPG---DERRKLIRYVTAFNGELEDYMSDRVQFVITAQEWDPSFEEALMDNPSLAFVRPRWIYSCNE   80 (96)
T ss_dssp             CTTTTCEEEECSCCCT---HHHHHHHHHHHHTTCEECSSCSTTCSEEECSSCCCHHHHHHHTTCTTCEEECTHHHHHHHT
T ss_pred             cccCCcEEEEeCCCCH---HHHHHHHHHHHHhCCEEeccCCCCceEEEEccCCcceeeehhhhCCCCeEEEEhHHHHHHH
Confidence            5799999999998764   46679999999999999999999999999999999999988765  699999999999999


Q ss_pred             hhCCCCCCceeccC
Q 033679           97 FVARATRREVSCEA  110 (113)
Q Consensus        97 ~w~r~dE~~y~~~~  110 (113)
                      +++++||++|.+..
T Consensus        81 ~~~~lp~~~Y~i~p   94 (96)
T d1cdza_          81 KQKLLPHQLYGVVP   94 (96)
T ss_dssp             TTSCCCGGGGBCCC
T ss_pred             cCCcCCchhcEecC
Confidence            99999999999843

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

class: Alpha and beta proteins (a/b)
fold: BRCT domain
superfamily: BRCT domain
family: BRCT domain
domain: Breast cancer associated protein, BRCA1
species: Human (Homo sapiens) [TaxId: 9606]

Probab=99.84  E-value=1.3e-21  Score=129.87  Aligned_cols=83  Identities=18%  Similarity=0.110  Sum_probs=75.8

Q ss_pred             cEEEEccccCCCCCccchHHHHHHHhcCCEEEeeeCCCccEEEecCC------CcHHHHHHHhCCCeecCcchHHHHHHh
Q 033679           24 CKLVFSHAFPSKFPAHIHYLWKVVEQLGATCSIELDPSVTHVVSNKC------SNEKVSLGSKGGQVFGGSTVDRGSQLF   97 (113)
Q Consensus        24 c~I~fSg~~p~~~~~~~~~l~~~a~~lGA~~~~~l~~~vTHlV~~~~------~t~K~~~A~k~gi~IV~p~WL~~c~~~   97 (113)
                      .+|++||+-|    .++..+.++++.+||++..+++++|||||+...      .|.|+..|+..|++||+|+||.+|...
T Consensus         2 ~~i~~SGl~~----~e~~~l~~~i~~~Gg~~~~~~~~~~THlI~~~~~~~~~~rt~K~l~a~~~g~~IV~~~Wl~~c~~~   77 (109)
T d1t15a1           2 MSMVVSGLTP----EEFMLVYKFARKHHITLTNLITEETTHVVMKTDAEFVCERTLKYFLGIAGGKWVVSYFWVTQSIKE   77 (109)
T ss_dssp             CEEEEESCCH----HHHHHHHHHHHHHTCEECSSCCTTCCEEEECBCTTSEECCBHHHHHHHHTTCEEEETHHHHHHHHT
T ss_pred             EEEEECCCCH----HHHHHHHHHHHHcCCEEEeEecCCccEEEEecCcchhhHhhHHHHHHHHCCCccccHHHHHHHHHh
Confidence            4799999854    577899999999999999999999999999753      489999999999999999999999999


Q ss_pred             hCCCCCCceeccC
Q 033679           98 VARATRREVSCEA  110 (113)
Q Consensus        98 w~r~dE~~y~~~~  110 (113)
                      ++.+||++|++..
T Consensus        78 ~~~l~e~~y~v~~   90 (109)
T d1t15a1          78 RKMLNEHDFEVRG   90 (109)
T ss_dssp             TSCCCGGGGBCCE
T ss_pred             CCcCCchheEEec
Confidence            9999999999863

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

class: Alpha and beta proteins (a/b)
fold: BRCT domain
superfamily: BRCT domain
family: BRCT domain
domain: Breast cancer associated protein, BRCA1
species: Human (Homo sapiens) [TaxId: 9606]

Probab=99.84  E-value=7.7e-22  Score=127.11  Aligned_cols=90  Identities=16%  Similarity=0.089  Sum_probs=76.2

Q ss_pred             hcCCCCcEEEEccccCCCCCccchHHHHHHHhcCCEEEeeeC-----CCccEEEecCCC-----cHHHHHHHhCCCeecC
Q 033679           18 REVLKGCKLVFSHAFPSKFPAHIHYLWKVVEQLGATCSIELD-----PSVTHVVSNKCS-----NEKVSLGSKGGQVFGG   87 (113)
Q Consensus        18 ~~vL~Gc~I~fSg~~p~~~~~~~~~l~~~a~~lGA~~~~~l~-----~~vTHlV~~~~~-----t~K~~~A~k~gi~IV~   87 (113)
                      +++|+||+|+|||.++.   +++..|.++++++||++..++.     ..+||+++....     ..+...|+..|++||+
T Consensus         1 kkiF~g~~i~~~g~~~~---~~~~~L~~li~~~GG~v~~~~~~~~~~~~~t~~~i~~~~~~~~~~~~~~~~~~~~i~iV~   77 (102)
T d1t15a2           1 RKIFRGLEICCYGPFTN---MPTDQLEWMVQLCGASVVKELSSFTLGTGVHPIVVVQPDAWTEDNGFHAIGQMCEAPVVT   77 (102)
T ss_dssp             SCTTTTCEEEECSCCSS---SCHHHHHHHHHHTTCEECCSGGGCCCSTTCCEEEEECGGGCSSCGGGGSSTTTCSSCEEE
T ss_pred             CCCCCCcEEEEeCCCCC---cCHHHHHHHHHHhCCEEeeccccccccccccchheecccccchhhHHHHHHHhCCCcEEe
Confidence            57999999999998753   5678999999999999987663     478999987542     3455566677999999


Q ss_pred             cchHHHHHHhhCCCCCCceeccC
Q 033679           88 STVDRGSQLFVARATRREVSCEA  110 (113)
Q Consensus        88 p~WL~~c~~~w~r~dE~~y~~~~  110 (113)
                      |+||++|..+++++||++|+++.
T Consensus        78 ~~Wl~dsi~~~~~lp~~~Yll~~  100 (102)
T d1t15a2          78 REWVLDSVALYQCQELDTYLIPQ  100 (102)
T ss_dssp             HHHHHHHHHHTSCCCSGGGBCCC
T ss_pred             eHHHHHHHHhCCcCCchhccCCC
Confidence            99999999999999999999875

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

class: Alpha and beta proteins (a/b)
fold: BRCT domain
superfamily: BRCT domain
family: DNA ligase
domain: NAD+-dependent DNA ligase, domain 4
species: Thermus thermophilus [TaxId: 274]

Probab=99.55  E-value=3.9e-15  Score=96.48  Aligned_cols=86  Identities=14%  Similarity=0.065  Sum_probs=76.9

Q ss_pred             hcCCCCcEEEEccccCCCCCccchHHHHHHHhcCCEEEeeeCCCccEEEecCCCcHHHHHHHhCCCeecCcchHHHHHHh
Q 033679           18 REVLKGCKLVFSHAFPSKFPAHIHYLWKVVEQLGATCSIELDPSVTHVVSNKCSNEKVSLGSKGGQVFGGSTVDRGSQLF   97 (113)
Q Consensus        18 ~~vL~Gc~I~fSg~~p~~~~~~~~~l~~~a~~lGA~~~~~l~~~vTHlV~~~~~t~K~~~A~k~gi~IV~p~WL~~c~~~   97 (113)
                      ..+|+|.+|||||.+.    .++..+..+++.+||++...++.+++|||+.+..+.|++.|.+.||+|++-+|+.+....
T Consensus         5 ~~~l~G~~iv~TG~~~----~~R~e~~~~i~~~Gg~v~~sVs~~t~~LV~g~~~g~K~~kA~~~gI~IisE~~f~~~l~~   80 (92)
T d1l7ba_           5 GEALKGLTFVITGELS----RPREEVKALLRRLGAKVTDSVSRKTSYLVVGENPGSKLEKARALGVPTLTEEELYRLLEA   80 (92)
T ss_dssp             CCSSTTCEEECSTTTT----SCHHHHHHHHHHTTCEEESCCSSSCCCBEECSSSSTTHHHHHCSSSCCEEHHHHHHHHHH
T ss_pred             CCCcCCCEEEEeCCcc----CCHHHHHHHHHHhCCEEcCccccceeEEEECCCCCcHHHHHHHcCCcEecHHHHHHHHHh
Confidence            5789999999999974    257899999999999999999999999999988789999999999999999999999988


Q ss_pred             hCCCCCCcee
Q 033679           98 VARATRREVS  107 (113)
Q Consensus        98 w~r~dE~~y~  107 (113)
                      ..-.+.++++
T Consensus        81 ~~~~~~~e~~   90 (92)
T d1l7ba_          81 RTGKKAEELV   90 (92)
T ss_dssp             HHCSCSSSCS
T ss_pred             CCCCCHHHHh
Confidence            7666665554

>d1in1a_ c.15.1.2 (A:) DNA ligase III alpha {Human (Homo sapiens) [TaxId: 9606]}

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

Probab=99.49  E-value=4.5e-15  Score=95.42  Aligned_cols=72  Identities=15%  Similarity=0.132  Sum_probs=62.1

Q ss_pred             hcCCCCcEEEEccccCCCCCccchHHHHHHHhcCCEEEeeeCC-CccEEEecCCCcHHHHHHHhCCCeecCcchHHHHHH
Q 033679           18 REVLKGCKLVFSHAFPSKFPAHIHYLWKVVEQLGATCSIELDP-SVTHVVSNKCSNEKVSLGSKGGQVFGGSTVDRGSQL   96 (113)
Q Consensus        18 ~~vL~Gc~I~fSg~~p~~~~~~~~~l~~~a~~lGA~~~~~l~~-~vTHlV~~~~~t~K~~~A~k~gi~IV~p~WL~~c~~   96 (113)
                      .++|+||+|+++|..|     ++..|.++..++||++..+.+. ++||+|+.+....        +.++|+|+||++|..
T Consensus        14 ~diF~G~~~~i~~~~p-----~~~~L~r~i~a~GG~~~~~~~~~~vTHvI~~~~~~~--------~~~iV~p~Wi~dci~   80 (88)
T d1in1a_          14 LDIFTGVRLYLPPSTP-----DFSRLRRYFVAFDGDLVQEFDMTSATHVLGSRDKNP--------AAQQVSPEWIWACIR   80 (88)
T ss_dssp             CSSSTTCBCCCCTTST-----THHHHHHHHHHHTCBCCCTTCCTTCCCEESCCTTCT--------TSCEECHHHHHHHHH
T ss_pred             hhHhCCeEEEECCCCC-----CHHHHHHHHHHhCCEEeeeccCCCceEEEEcCCCCC--------CcEEEehHHHHHHHH
Confidence            6789999999988764     5679999999999999998885 6999999976443        358999999999999


Q ss_pred             hhCCCC
Q 033679           97 FVARAT  102 (113)
Q Consensus        97 ~w~r~d  102 (113)
                      +.+.++
T Consensus        81 ~~~lLP   86 (88)
T d1in1a_          81 KRRLVA   86 (88)
T ss_dssp             HTSCCC
T ss_pred             cCCcCC
Confidence            998875

>d1kzyc1 c.15.1.4 (C:1714-1866) 53BP1 {Human (Homo sapiens) [TaxId: 9606]}

class: Alpha and beta proteins (a/b)
fold: BRCT domain
superfamily: BRCT domain
family: 53BP1
domain: 53BP1
species: Human (Homo sapiens) [TaxId: 9606]

Probab=99.48  E-value=3.2e-14  Score=99.50  Aligned_cols=94  Identities=12%  Similarity=0.033  Sum_probs=76.5

Q ss_pred             hcCCCCcEEEEccccCCCC-------------------------CccchHHHHHHHhcCCEEEeeeCC------CccEEE
Q 033679           18 REVLKGCKLVFSHAFPSKF-------------------------PAHIHYLWKVVEQLGATCSIELDP------SVTHVV   66 (113)
Q Consensus        18 ~~vL~Gc~I~fSg~~p~~~-------------------------~~~~~~l~~~a~~lGA~~~~~l~~------~vTHlV   66 (113)
                      +.+|.||++++|..-+.+.                         ..++.....+.+.+|+.+..++++      ..+|||
T Consensus        13 ~~lF~g~~F~lT~~~~~~~~~~~~~~~~~~~gg~~~~~~~~~l~p~~~~~~~~~i~~~gg~v~~~~~~~~~~~~~~~~LI   92 (153)
T d1kzyc1          13 KTLFLGYAFLLTMATTSDKLASRSKLPDGPTGSSEEEEEFLEIPPFNKQYTESQLRAGAGYILEDFNEAQCNTAYQCLLI   92 (153)
T ss_dssp             TTTTTTEEEEECCCC---------------------------CCCCCHHHHHHHHHTTTCEECSSCCTTTTTTTCEEEEE
T ss_pred             hhhhCCCEEEEecCCCchhhhhhhhcccccCCCccccccccccCccchhhhhhhhhhcCCeEeeccccccccccceEEEe
Confidence            5789999999997532211                         112345566889999999998864      367999


Q ss_pred             ecCC-CcHHHHHHHhCCCeecCcchHHHHHHhhCCCCCCceeccCC
Q 033679           67 SNKC-SNEKVSLGSKGGQVFGGSTVDRGSQLFVARATRREVSCEAN  111 (113)
Q Consensus        67 ~~~~-~t~K~~~A~k~gi~IV~p~WL~~c~~~w~r~dE~~y~~~~~  111 (113)
                      +.+. .|.||.+|++.|++||+++||++|...++.+||.+|+++.|
T Consensus        93 a~~~~RT~Kyl~Ala~g~piv~~~Wi~~c~~~~~~ld~~~YlLpag  138 (153)
T d1kzyc1          93 ADQHCRTRKYFLCLASGIPCVSHVWVHDSCHANQLQNYRNYLLPAG  138 (153)
T ss_dssp             ESSCCCSHHHHHHHHHTCCEEETHHHHHHHHHTSCCCGGGSBCCCE
T ss_pred             cCCCCchHHHHHHHccCCcEEcHHHHHHHHHcCCcCChHHccCCCC
Confidence            9987 59999999999999999999999999999999999999865

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

class: Alpha and beta proteins (a/b)
fold: BRCT domain
superfamily: BRCT domain
family: BRCT domain
domain: Breast cancer associated protein, BRCA1
species: Rat (Rattus norvegicus) [TaxId: 10116]

Probab=98.22  E-value=1.8e-06  Score=55.36  Aligned_cols=87  Identities=13%  Similarity=0.039  Sum_probs=61.8

Q ss_pred             CCCCcEEEEccccCCCCCccchHHHHHHHhcCCEEEeeeC-----CCccEEEecCCC--c--HHH-HHHHhCCCeecCcc
Q 033679           20 VLKGCKLVFSHAFPSKFPAHIHYLWKVVEQLGATCSIELD-----PSVTHVVSNKCS--N--EKV-SLGSKGGQVFGGST   89 (113)
Q Consensus        20 vL~Gc~I~fSg~~p~~~~~~~~~l~~~a~~lGA~~~~~l~-----~~vTHlV~~~~~--t--~K~-~~A~k~gi~IV~p~   89 (113)
                      +|+|.-|++-|-|   .+-...+|..|++..||+++.+..     ...+-+|.-+|+  |  +-+ ..|.+.++.+|+.+
T Consensus         1 lf~~~~icc~gpF---t~mt~d~Le~mv~lCGAsVvk~~~~l~~~~~~~~viVvqpda~t~~~~~~~i~~~~~~~vVtre   77 (97)
T d1l0ba2           1 LFEGLQIYCCEPF---TNMPKDELERMLQLCGASVVKELPLLTRDTGAHPIVLVQPSAWTEDNDCPDIGQLCKGRLVMWD   77 (97)
T ss_dssp             CCTTCEEEECSCC---SSSCHHHHHHHHHHTTCEEECSSSCGGGCCSSCCEEEEC-------------------CEEETH
T ss_pred             CCCCceEEEEccc---cCCCHHHHHHHHHHcCceeecChhhcCCCCCCeeEEEEcCCccccccccHHHHHhccccEEehh
Confidence            4899999999988   335567999999999999998873     344567777653  2  222 23344578999999


Q ss_pred             hHHHHHHhhCCCCCCceecc
Q 033679           90 VDRGSQLFVARATRREVSCE  109 (113)
Q Consensus        90 WL~~c~~~w~r~dE~~y~~~  109 (113)
                      |+.||...-+..+=+.|+++
T Consensus        78 WvLDSIA~Y~~Q~l~~YL~~   97 (97)
T d1l0ba2          78 WVLDSISVYRCRDLDAYLVQ   97 (97)
T ss_dssp             HHHHHHHTTSCCCGGGGBCC
T ss_pred             HhhhhhhheeeeehHhhhcC
Confidence            99999999999999999874

>d1kzyc2 c.15.1.4 (C:1867-1972) 53BP1 {Human (Homo sapiens) [TaxId: 9606]}

class: Alpha and beta proteins (a/b)
fold: BRCT domain
superfamily: BRCT domain
family: 53BP1
domain: 53BP1
species: Human (Homo sapiens) [TaxId: 9606]

Probab=97.55  E-value=0.00015  Score=46.86  Aligned_cols=82  Identities=11%  Similarity=0.042  Sum_probs=55.7

Q ss_pred             cCCCCcEEEEccccCCCCCccchHHHH-HHHhcCCEEEeeeC---------CCccEEEecCC--CcHHHHHHHhCCCeec
Q 033679           19 EVLKGCKLVFSHAFPSKFPAHIHYLWK-VVEQLGATCSIELD---------PSVTHVVSNKC--SNEKVSLGSKGGQVFG   86 (113)
Q Consensus        19 ~vL~Gc~I~fSg~~p~~~~~~~~~l~~-~a~~lGA~~~~~l~---------~~vTHlV~~~~--~t~K~~~A~k~gi~IV   86 (113)
                      +||+|.++.+-.-    .+..-.++|. ++...||+++..+.         ....=+|..++  ..+-.+.|...|+++|
T Consensus         1 npF~~l~vl~vs~----~~~~F~e~Ws~IL~~~Ga~vV~~~~~~~~~sd~~~~~~DVvvTD~scp~~vl~~a~~~~ipvV   76 (106)
T d1kzyc2           1 NPFQNLKVLLVSD----QQQNFLELWSEILMTGGAASVKQHHSSAHNKDIALGVFDVVVTDPSCPASVLKCAEALQLPVV   76 (106)
T ss_dssp             CTTTTCEEEEEES----CTTTTHHHHHHHHHHTTCSEEEEEESSSSCCCSCGGGCSEEEECTTCCHHHHHHHHHHTCCEE
T ss_pred             CCCcceEEEEEec----ccccHHHHHHHHHHhCCceEeeccccchhhccCccccccEEEeCCCCCHHHHHHHHHcCCcEe
Confidence            4799987766222    1112246675 77888998876532         22334666665  3455677777899999


Q ss_pred             CcchHHHHHHhhCCCCCC
Q 033679           87 GSTVDRGSQLFVARATRR  104 (113)
Q Consensus        87 ~p~WL~~c~~~w~r~dE~  104 (113)
                      +++|+-+|.-..+|++=.
T Consensus        77 S~EWVIQsLI~G~~~~~d   94 (106)
T d1kzyc2          77 SQEWVIQCLIVGERIGFK   94 (106)
T ss_dssp             CHHHHHHHHHHTSCCCTT
T ss_pred             eHHHHHHHHHccCcCCCC
Confidence            999999999999887654

>d1li4a2 c.23.12.3 (A:3-189,A:353-432) S-adenosylhomocystein hydrolase {Human (Homo sapiens) [TaxId: 9606]}

class: Alpha and beta proteins (a/b)
fold: Flavodoxin-like
superfamily: Formate/glycerate dehydrogenase catalytic domain-like
family: S-adenosylhomocystein hydrolase
domain: S-adenosylhomocystein hydrolase
species: Human (Homo sapiens) [TaxId: 9606]

Probab=80.13  E-value=1.7  Score=31.25  Aligned_cols=58  Identities=16%  Similarity=0.148  Sum_probs=40.5

Q ss_pred             hcCCCCcEEEEccccCCCCCccchHHHHHHHhcCCEEEee-eCCCccEEEecCCCcHHHHHHHh-CCCeecC
Q 033679           18 REVLKGCKLVFSHAFPSKFPAHIHYLWKVVEQLGATCSIE-LDPSVTHVVSNKCSNEKVSLGSK-GGQVFGG   87 (113)
Q Consensus        18 ~~vL~Gc~I~fSg~~p~~~~~~~~~l~~~a~~lGA~~~~~-l~~~vTHlV~~~~~t~K~~~A~k-~gi~IV~   87 (113)
                      .+||+|.+|..+=.    ..++...|......+||.|.-. -++..|+        +.+-.|+. .|+.|--
T Consensus        40 ~kPl~G~rI~~clH----lt~kTA~L~~tL~~~GA~V~~~~~Np~STQ--------DdvaAaL~~~Gi~VfA   99 (267)
T d1li4a2          40 SKPLKGARIAGCLH----MTVETAVLIETLVTLGAEVQWSSCNIFSTQ--------DHAAAAIAKAGIPVYA   99 (267)
T ss_dssp             TCTTTTCEEEEESC----CSHHHHHHHHHHHHTTCEEEEECSSTTCCC--------HHHHHHHHHTTCCEEE
T ss_pred             cCCCCCCEEEEEEe----ehHHHHHHHHHHHHccCcEEEeccCccccc--------ccceeeeccCCceEEE
Confidence            78999999998654    3467789999999999998633 3444443        33555554 4777753