Query 038838
Match_columns 284
No_of_seqs 132 out of 214
Neff 6.6
Searched_HMMs 46136
Date Fri Mar 29 03:49:55 2013
Command hhsearch -i /work/01045/syshi/csienesis_hhblits_a3m/038838.a3m -d /work/01045/syshi/HHdatabase/Cdd.hhm -o /work/01045/syshi/hhsearch_cdd/038838hhsearch_cdd -cpu 12 -v 0
No Hit Prob E-value P-value Score SS Cols Query HMM Template HMM
1 PF04005 Hus1: Hus1-like prote 100.0 2.5E-72 5.4E-77 521.1 28.7 271 1-284 1-291 (292)
2 KOG3999 Checkpoint 9-1-1 compl 100.0 6E-65 1.3E-69 452.7 20.3 267 1-284 1-282 (284)
3 cd00577 PCNA Proliferating Cel 99.3 7E-10 1.5E-14 99.0 20.2 216 14-274 8-229 (248)
4 PLN00057 proliferating cell nu 99.2 1.7E-08 3.6E-13 92.8 23.2 231 2-274 1-237 (263)
5 TIGR00590 pcna proliferating c 99.1 5.8E-08 1.3E-12 89.0 23.0 238 2-281 1-251 (259)
6 PTZ00113 proliferating cell nu 99.0 2.4E-07 5.3E-12 85.7 22.8 216 2-257 1-223 (275)
7 PHA03383 PCNA-like protein; Pr 99.0 2.3E-07 5.1E-12 85.3 21.7 234 2-281 7-257 (262)
8 PTZ00483 proliferating cell nu 98.6 3.9E-06 8.5E-11 77.3 17.6 177 2-205 1-189 (264)
9 PRK01115 DNA polymerase slidin 98.2 0.00059 1.3E-08 61.5 21.4 223 3-274 2-228 (247)
10 PF02144 Rad1: Repair protein 98.1 0.0011 2.3E-08 61.5 22.2 235 3-281 2-275 (275)
11 KOG1636 DNA polymerase delta p 97.7 0.0016 3.4E-08 58.4 14.3 239 3-281 2-251 (260)
12 PF00705 PCNA_N: Proliferating 97.7 0.0011 2.4E-08 54.5 12.3 99 3-118 2-104 (127)
13 PF04139 Rad9: Rad9; InterPro 96.6 0.1 2.2E-06 47.4 14.9 155 16-192 1-166 (252)
14 PF02747 PCNA_C: Proliferating 95.4 0.5 1.1E-05 38.5 12.4 112 154-282 8-126 (128)
15 PF02747 PCNA_C: Proliferating 88.3 7.3 0.00016 31.6 10.2 106 2-120 6-118 (128)
16 TIGR00590 pcna proliferating c 71.3 82 0.0018 28.7 11.8 103 3-118 133-242 (259)
17 PTZ00483 proliferating cell nu 69.5 67 0.0015 29.6 10.9 90 3-117 139-241 (264)
18 PRK01115 DNA polymerase slidin 67.7 51 0.0011 29.3 9.6 79 16-101 141-223 (247)
19 PHA03383 PCNA-like protein; Pr 63.5 83 0.0018 28.9 10.2 91 14-118 149-248 (262)
20 PTZ00113 proliferating cell nu 59.6 1.5E+02 0.0032 27.5 11.3 103 3-118 135-244 (275)
21 PF02144 Rad1: Repair protein 54.6 1.8E+02 0.0038 26.8 11.0 144 29-193 120-273 (275)
22 PLN00057 proliferating cell nu 51.7 1.9E+02 0.0042 26.4 11.4 94 14-118 142-242 (263)
23 PF02768 DNA_pol3_beta_3: DNA 45.8 1.5E+02 0.0031 23.3 9.0 64 28-103 35-101 (121)
24 KOG1636 DNA polymerase delta p 29.4 4.5E+02 0.0097 24.1 9.9 89 3-102 133-233 (260)
25 PF04446 Thg1: tRNAHis guanyly 25.2 51 0.0011 27.4 2.0 23 235-257 18-40 (135)
26 PF14699 hGDE_N: N-terminal do 24.5 1.9E+02 0.0041 21.9 4.9 45 39-83 2-53 (86)
27 KOG2810 Checkpoint 9-1-1 compl 21.1 90 0.002 30.6 3.0 59 7-69 5-64 (394)
No 1
>PF04005 Hus1: Hus1-like protein; InterPro: IPR007150 Hus1, Rad1, and Rad9 are three evolutionarily conserved proteins required for checkpoint control in fission yeast. These proteins are known to form a stable complex in vivo []. Hus1-Rad1-Rad9 complex may form a PCNA-like ring structure, and could function as a sliding clamp during checkpoint control.; PDB: 3A1J_B 3G65_C 3GGR_B.
Probab=100.00 E-value=2.5e-72 Score=521.10 Aligned_cols=271 Identities=30% Similarity=0.444 Sum_probs=195.8
Q ss_pred CeeeEEecccchhhHHHhHHHHHHhcCCeEEEEEeCCEEEEEeccCCCCceEEEEEEccCCCcCceEeeecCCCeEEEEE
Q 038838 1 MKFKAFLTENGVNLLEKRFLPVLDKMGKVCHLFLTREKAYFLPNLLSGEGIQCVAQFHKETLFGDYRISSQIEDCIAFAI 80 (284)
Q Consensus 1 MkFrA~i~d~~~~~lf~~~~~~i~kl~K~cvlrlt~~~l~~i~~~~~~~g~qvW~~l~~~~~F~~y~i~S~~~N~I~le~ 80 (284)
|||||++.| +.+|++++++++||+|.|||||||++++||+++++++|+|+||+++++.+|++|+|||.++|+|+||+
T Consensus 1 MKFka~i~~---~~~~~~~~~~~~kl~k~~vlrlt~~~l~~i~~~~~~~g~qvw~~l~~~~~F~~y~i~s~~~N~I~le~ 77 (292)
T PF04005_consen 1 MKFKATISD---IKLFKKFVSTISKLGKRCVLRLTPERLHFISTSDDSDGIQVWCELPQDSLFSEYRIQSASENEIYLEV 77 (292)
T ss_dssp -EEEEEEE----HHHHHHHHHHHHHH-SEEEEEE-SSEEEEEEE-SSTT--EEEEEEEGGGT-SEEEEE-SSSS-EEEEE
T ss_pred CcceEEecC---HHHHHHHHHHHHHhhCEEEEEEeCCEEEEEEecCCCCeEEEEEEEChhhcCcccEEEeCCCCEEEEEE
Confidence 999999999 45559999999999999999999999999998888899999999999999999999999999999999
Q ss_pred eccccc----CcCCCceeEEEEeecCCCCCCCCcceEEEEEec-----ceeEEEEeccCCcccCHHHHhhhhhhhhccCC
Q 038838 81 DISLLQ----PGSAANCLQIKLVKKLPPNCTQAMPFLTFETKG-----YKSAVIQDVPISKPLSRAQVLELQTALDMAQD 151 (284)
Q Consensus 81 ~~~~L~----sa~~a~~~~ikL~kk~~~~~~~~~P~Ls~~~~g-----~~~~v~hdIPV~kvl~~~~~~~~~eP~~~~~~ 151 (284)
++++|+ ++.+|++++|||+||+ ++|||+|++++ .++.|+|||||+ |+++++|++|+||.+ +
T Consensus 78 ~~~~L~raLrs~~~a~~~~ikL~kk~------~~p~L~~~~~~~~~~~~~~~v~hdiPV~-vl~~~~~~~~~eP~~---~ 147 (292)
T PF04005_consen 78 NIDSLLRALRSADNASSVKIKLTKKG------RMPCLSFEITGTSSSGRSRIVVHDIPVR-VLPRREWEELQEPMV---P 147 (292)
T ss_dssp EHHHHHHHHCTCSSCSEEEEEEE-S-------SSSEEEEEEEE--SSST-EEEEEEEEBE-E--GGGGGGGS--------
T ss_pred cHHHHHHHHHhhccCceeEEehhhcc------CCcEEEEEEEeeccCCCccEEEEECCeE-ecCHHHHHHhhhccc---C
Confidence 999999 5667889999999996 48999999974 457999999996 999999999999987 7
Q ss_pred CCCeEEecCChhhHhHHHHhhhhcCCEEEEEEEcCCceEEEEeeccEEEeEEEccCcccccccCCC----Cccccccccc
Q 038838 152 LPPTLVQVPDLNQLQNFVDWMKHVGDLVNVSICKYRDLHLQISTTLITLGAEFRKLLVIGEKAVAP----SEDRNLSAQT 227 (284)
Q Consensus 152 ~p~~~i~LP~l~~l~~ivdR~k~ls~~v~i~an~~G~L~L~v~t~~v~v~t~~~~L~~~~~~~~~~----~~~~~~~~~~ 227 (284)
.|+++|+||++++|++++||||++|++++|+||++|+|+|.|++|.++|+|+|+||.+++..+++. ..++.....+
T Consensus 148 ~~dv~i~LP~l~~l~~~veR~k~~s~~v~i~an~~G~L~L~v~t~~~~v~t~~~~L~~~~~~~~~~~~~~~~~~~~~~~~ 227 (292)
T PF04005_consen 148 DPDVSIYLPPLKQLRSIVERMKNLSDYVTISANMNGELRLSVETDSVSVETEFRGLENPPLDPAELNTVDQLPSEDDSDS 227 (292)
T ss_dssp --SEEEE-S-HHHHHHHHHHHHTT-SEEEEEE-SSS-EEEEEE-SSEEEEEEE-S------------------------S
T ss_pred CCCEEEECCCHHHHHHHHHHHhccCceEEEEEECCCcEEEEEEeCcEEEEEEECCCCCCccccccccccccccccccccc
Confidence 899999999999999999999999999999999999999999999999999999999987644311 1111111112
Q ss_pred hhhhhcCCCCeEEEEEechhhhhhcccccccccEEEEEeecCceEEE-------EEEEEEecCC
Q 038838 228 RSERAISRGDAQSVQVSVKHFSKSLQCHLAKLDCAFYGIAPQVACLT-------VIFQFFIPGK 284 (284)
Q Consensus 228 r~~~~~~~~~~~~V~Vd~k~l~~~L~~~~~~p~~~~c~I~~~~~~~~-------~~l~y~iP~~ 284 (284)
...++.+++++++|+||+|+|++||++++++|.+++|+|.|++++++ ++|+|||||.
T Consensus 228 ~~~~~~~~~~~~sV~Vd~K~~~~~l~~~~~~p~~vi~~I~~~~~~vl~~~~~~~~~l~yyip~~ 291 (292)
T PF04005_consen 228 DQQEERDPEEFASVRVDIKDLAKFLKSHQLSPSRVICCICHNKALVLHVYLDEDVSLTYYIPAV 291 (292)
T ss_dssp SSSS-------EEEEEEHHHHHHHHHH--S--SEEEEEEETTTEEEEEEEE-TTEEEEEEEE--
T ss_pred cccccCCCCcEEEEEEEHHHHHHhhCccccCCCEEEEEEccCCeEEEEEEEcCCEEEEEEEecc
Confidence 22233456689999999999999999999999999999999999988 5699999985
No 2
>KOG3999 consensus Checkpoint 9-1-1 complex, HUS1 component [Cell cycle control, cell division, chromosome partitioning; Replication, recombination and repair]
Probab=100.00 E-value=6e-65 Score=452.74 Aligned_cols=267 Identities=37% Similarity=0.518 Sum_probs=239.5
Q ss_pred CeeeEEecccchhhHHHhHHHHHHhcCCeEEEEEeCCEEEEEeccC-CCCceEEEEEEccCCCcCceEeeec--CCCeEE
Q 038838 1 MKFKAFLTENGVNLLEKRFLPVLDKMGKVCHLFLTREKAYFLPNLL-SGEGIQCVAQFHKETLFGDYRISSQ--IEDCIA 77 (284)
Q Consensus 1 MkFrA~i~d~~~~~lf~~~~~~i~kl~K~cvlrlt~~~l~~i~~~~-~~~g~qvW~~l~~~~~F~~y~i~S~--~~N~I~ 77 (284)
|||||.|+|.+++.+|++++++++||||.|+|||+|++++||+++. +++|.|+||++.++.+|++|+|+|. ++|+|+
T Consensus 1 MKFka~l~d~~~l~~f~ril~al~Kl~K~C~l~l~~e~lnFI~c~~~~~~~~~~ws~~~~e~iF~dy~m~s~~p~~e~I~ 80 (284)
T KOG3999|consen 1 MKFKALLQDNAVLLLFTRILPALDKLGKNCHLRLTKEHLNFIHCDLLDGGSVQVWSQLEKEVIFDDYRMESQNPNNEEIN 80 (284)
T ss_pred CchhhhhccchHHHHHHHHHHHHHHhhhceEEEecccceEEEEecccCCCceEEEEeeehhhcchhheeeccCCCcceEE
Confidence 9999999999999999999999999999999999999999999544 8899999999999999999999987 899999
Q ss_pred EEEeccccc----CcCC-CceeEEEEeecCCCCCCCCcceEEEEEecceeEEEEeccCCcccCHHHHhhhhhhhhccCCC
Q 038838 78 FAIDISLLQ----PGSA-ANCLQIKLVKKLPPNCTQAMPFLTFETKGYKSAVIQDVPISKPLSRAQVLELQTALDMAQDL 152 (284)
Q Consensus 78 le~~~~~L~----sa~~-a~~~~ikL~kk~~~~~~~~~P~Ls~~~~g~~~~v~hdIPV~kvl~~~~~~~~~eP~~~~~~~ 152 (284)
||++.++|. ++.| +.+++|||+||+........++|+++..| +++|+|||||+ +|++++|..|++|.. +.
T Consensus 81 L~v~~~nl~rAlrs~~~g~~~lklKLskk~~p~~t~~~~~lt~~a~~-s~iVtHdIPIt-ii~~s~w~~~~~P~v---p~ 155 (284)
T KOG3999|consen 81 LEVDSANLYRALRSLVGGANRLKLKLSKKQFPCLTVSVEVLTFEAKG-SRIVTHDIPIT-IISRSYWSEYQEPLV---PA 155 (284)
T ss_pred EEecHHHHHHHHHHhcCcccceEEEehhccCCCceeeeeeecccccc-CceeEecCCeE-EecHHHhhhhcCcCC---CC
Confidence 999999999 4445 89999999999861111222223333334 58999999997 999999999999987 88
Q ss_pred CCeEEecCChhhHhHHHHhhhhcCCEEEEEEEcCCceEEEEeeccEEEeEEEccCcccccccCCCCccccccccchhhhh
Q 038838 153 PPTLVQVPDLNQLQNFVDWMKHVGDLVNVSICKYRDLHLQISTTLITLGAEFRKLLVIGEKAVAPSEDRNLSAQTRSERA 232 (284)
Q Consensus 153 p~~~i~LP~l~~l~~ivdR~k~ls~~v~i~an~~G~L~L~v~t~~v~v~t~~~~L~~~~~~~~~~~~~~~~~~~~r~~~~ 232 (284)
||.+|+||+++.|+++||+|||+|+.+.++||++|+|++++++++++|+|+|++|.+++...+++.|| |.+|
T Consensus 156 ~dl~I~lP~l~~lk~~vdk~Knis~~l~~tan~~GeLqv~v~~e~~~vtt~Fq~L~~~~~~s~s~~ed-------r~~e- 227 (284)
T KOG3999|consen 156 PDLSIQLPDLNQLKSFVDKMKNISDVLNVTANKSGELQVSVSIELIRVTTEFQDLSNPPLKSSSPVED-------RSAE- 227 (284)
T ss_pred CCcceeCCCHHHHHHHHHHhhcccceEEEEEecCceEEEEEEEeeEEEEEEhhhccCCCCCCcccccc-------cChh-
Confidence 99999999999999999999999999999999999999999999999999999999988776665554 4444
Q ss_pred cCCCCeEEEEEechhhhhhcccccccccEEEEEeecCceEEE-------EEEEEEecCC
Q 038838 233 ISRGDAQSVQVSVKHFSKSLQCHLAKLDCAFYGIAPQVACLT-------VIFQFFIPGK 284 (284)
Q Consensus 233 ~~~~~~~~V~Vd~k~l~~~L~~~~~~p~~~~c~I~~~~~~~~-------~~l~y~iP~~ 284 (284)
++++|++|+|+++.||.+.+..+..+.|+|..++++++ ++||||+||+
T Consensus 228 ----~~a~~~ld~r~~~~~~~s~~~~~~~l~c~i~~~~~v~~~~~~~~dvvL~y~vp~~ 282 (284)
T KOG3999|consen 228 ----ARAEVALDSRDASSFFVSVQVFSTSLQCNITKNDSVHYGIAPQEDVVLQYIVPAV 282 (284)
T ss_pred ----hhhhheehhhhHHHHHHHhhcCcceeEEeeccCceEEEeeccCccEEEEEEeccc
Confidence 68999999999999999999999999999999999999 8999999985
No 3
>cd00577 PCNA Proliferating Cell Nuclear Antigen (PCNA) domain found in eukaryotes and archaea. These polymerase processivity factors play a role in DNA replication and repair. PCNA encircles duplex DNA in its central cavity, providing a DNA-bound platform for the attachment of the polymerase. The trimeric PCNA ring is structurally similar to the dimeric ring formed by the DNA polymerase processivity factors in bacteria (beta subunit DNA polymerase III holoenzyme) and in bacteriophages (catalytic subunits in T4 and RB69). This structural correspondence further substantiates the mechanistic connection between eukaryotic and prokaryotic DNA replication that has been suggested on biochemical grounds. PCNA is also involved with proteins involved in cell cycle processes such as DNA repair and apoptosis. Many of these proteins contain a highly conserved motif known as the PIP-box (PCNA interacting protein box) which contains the sequence Qxx[LIM]xxF[FY].
Probab=99.28 E-value=7e-10 Score=99.05 Aligned_cols=216 Identities=15% Similarity=0.157 Sum_probs=151.8
Q ss_pred hHHHhHHHHHHhcCCeEEEEEeCCEEEEEeccCCCCceEEEEEEccCCCcCceEeeecCCCeEEEEEeccccc----CcC
Q 038838 14 LLEKRFLPVLDKMGKVCHLFLTREKAYFLPNLLSGEGIQCVAQFHKETLFGDYRISSQIEDCIAFAIDISLLQ----PGS 89 (284)
Q Consensus 14 ~lf~~~~~~i~kl~K~cvlrlt~~~l~~i~~~~~~~g~qvW~~l~~~~~F~~y~i~S~~~N~I~le~~~~~L~----sa~ 89 (284)
.| ++++.+++++.+.|+++++++.+.|+.++. ..-.+.|+.++.+ +|++|+++ +.+.+.++...|. ...
T Consensus 8 ~l-~~~~~~l~~i~~~v~~~~~~~gl~~~a~d~-~r~~~~~~~l~~~-~F~~y~~~----~~~~~~i~~k~l~~~lk~~~ 80 (248)
T cd00577 8 LL-KKIVDALSKLVDEANFDITEDGISLQAMDS-SHVALVSLFLPKE-LFEEYRCD----EEISLGVNLKSLLKILKCAG 80 (248)
T ss_pred HH-HHHHHHHHHHhcEEeEEECCCceEEEEEcC-CcEEEEEEEechh-hCeEEecC----CceEEEEEHHHHHHHHhhCC
Confidence 44 899999999999999999999999999764 3557999999876 99999997 6799999999988 233
Q ss_pred CCceeEEEEeecCCCCCCCCcceEEEEEecceeEEEEeccCCcccCHHHHhhhhhhhhccCCCCCeEEecCChhhHhHHH
Q 038838 90 AANCLQIKLVKKLPPNCTQAMPFLTFETKGYKSAVIQDVPISKPLSRAQVLELQTALDMAQDLPPTLVQVPDLNQLQNFV 169 (284)
Q Consensus 90 ~a~~~~ikL~kk~~~~~~~~~P~Ls~~~~g~~~~v~hdIPV~kvl~~~~~~~~~eP~~~~~~~p~~~i~LP~l~~l~~iv 169 (284)
+...+.|++.+. +.|.+.+......+.+.+.++ ++....+ ++..|- ...+..+.+|+ +.|+.++
T Consensus 81 ~~~~v~i~~~~~---------~~l~i~~~~~~~~~~~~~~~~-li~~~~~-~~~~~~----~~~~~~i~i~~-~~L~~~i 144 (248)
T cd00577 81 NEDCVTLRADDE---------DPLKILFESSKGDVTSEFSLK-LMDIDSE-QLPIPE----LEYDATVTLPS-DELKDIV 144 (248)
T ss_pred CCCEEEEEecCC---------CeEEEEEEcCCCceEEEEEEE-ccccCcc-cCCCCC----CceeEEEEEEH-HHHHHHH
Confidence 456677776544 346666553322456677775 7776664 333331 34555888998 8999999
Q ss_pred HhhhhcCCEEEEEEEcCCceEEEEeec--cEEEeEEEccCcccccccCCCCccccccccchhhhhcCCCCeEEEEEechh
Q 038838 170 DWMKHVGDLVNVSICKYRDLHLQISTT--LITLGAEFRKLLVIGEKAVAPSEDRNLSAQTRSERAISRGDAQSVQVSVKH 247 (284)
Q Consensus 170 dR~k~ls~~v~i~an~~G~L~L~v~t~--~v~v~t~~~~L~~~~~~~~~~~~~~~~~~~~r~~~~~~~~~~~~V~Vd~k~ 247 (284)
+|+..+++.++++++.++ |.|...++ .......+.+.... +.-..|+..+...+.|-
T Consensus 145 ~~~~~~~~~i~i~~~~~~-l~lss~~~~~~~~~~~~~~~~~~~--------------------~~~~~~~~~~~~fn~~y 203 (248)
T cd00577 145 RDLESISDSVTISASKDG-FKFSAEGELGGASVTLLPKDSDLL--------------------VTIECSEPVSSTYSLKY 203 (248)
T ss_pred HHHHHcCCEEEEEEcCCE-EEEEEeecCCceEEEEecCCCCce--------------------EEEEeCCceEEEEhHHH
Confidence 999999999999998765 88877665 22333333332210 00011245888899999
Q ss_pred hhhhcccccccccEEEEEeecCceEEE
Q 038838 248 FSKSLQCHLAKLDCAFYGIAPQVACLT 274 (284)
Q Consensus 248 l~~~L~~~~~~p~~~~c~I~~~~~~~~ 274 (284)
|..+|..-.. .+.+...+..++.+.+
T Consensus 204 L~~~l~~~~~-s~~v~i~~~~~~p~~i 229 (248)
T cd00577 204 LKDFTKAAPL-SDKVTLSFGSDGPLSL 229 (248)
T ss_pred HHHHhhhccc-CCeEEEEEcCCCCEEE
Confidence 9999988654 3566666666644333
No 4
>PLN00057 proliferating cell nuclear antigen; Provisional
Probab=99.16 E-value=1.7e-08 Score=92.82 Aligned_cols=231 Identities=13% Similarity=0.157 Sum_probs=155.7
Q ss_pred eeeEEecccchhhHHHhHHHHHHhcCCeEEEEEeCCEEEEEeccCCCCceEEEEEEccCCCcCceEeeecCCCeEEEEEe
Q 038838 2 KFKAFLTENGVNLLEKRFLPVLDKMGKVCHLFLTREKAYFLPNLLSGEGIQCVAQFHKETLFGDYRISSQIEDCIAFAID 81 (284)
Q Consensus 2 kFrA~i~d~~~~~lf~~~~~~i~kl~K~cvlrlt~~~l~~i~~~~~~~g~qvW~~l~~~~~F~~y~i~S~~~N~I~le~~ 81 (284)
=|+|++.+.. .| ++++.+++++-..|.+.+|++-+.+..-+ .+.-.++-..++.+ .|++|+|+. .+.+-++
T Consensus 1 Mf~a~~~~a~--~~-k~i~~ai~~lvde~~~~~t~~Gi~~~amD-~s~Valv~l~l~~~-~F~eY~~d~----~~~~gv~ 71 (263)
T PLN00057 1 MLEARLVQGS--LL-KKVLEAIKDLVSDANFDCSETGLSLQAMD-SSHVALVALLLRAD-GFEHYRCDR----NLSMGIN 71 (263)
T ss_pred CeEEEEcchH--HH-HHHHHHHHHHhheeEEEEcCCeEEEEEEc-CCcEEEEEEEeChh-cCeEEecCC----ceEEEEE
Confidence 0999999876 55 89999999999999999999999998654 34667888888888 999999983 3677889
Q ss_pred ccccc----CcCCCceeEEEEeecCCCCCCCCcceEEEEEecc--eeEEEEeccCCcccCHHHHhhhhhhhhccCCCCCe
Q 038838 82 ISLLQ----PGSAANCLQIKLVKKLPPNCTQAMPFLTFETKGY--KSAVIQDVPISKPLSRAQVLELQTALDMAQDLPPT 155 (284)
Q Consensus 82 ~~~L~----sa~~a~~~~ikL~kk~~~~~~~~~P~Ls~~~~g~--~~~v~hdIPV~kvl~~~~~~~~~eP~~~~~~~p~~ 155 (284)
.+.|. .+.+.+.++|+..... -.|.+.+++. .+.-...+|. +.... +++..|- ...++
T Consensus 72 l~~l~kiLk~~~~~d~l~l~~~~~~--------~~l~i~~~~~~~~~~~~f~l~l---~d~~~-e~l~iP~----~e~~~ 135 (263)
T PLN00057 72 LANMSKILKCAGNDDIITIKADDGG--------DTVTFMFESPKQDRISDFELKL---MDIDS-EHLGIPE----TEYSA 135 (263)
T ss_pred HHHHHHHHhccCCCCEEEEEecCCC--------CEEEEEEEcCCCceEEEEEEEe---eecCc-ccCCCCC----CceeE
Confidence 98888 4555677888764433 4567766643 3444455555 33222 4455551 12223
Q ss_pred EEecCChhhHhHHHHhhhhcCCEEEEEEEcCCceEEEEeeccEEEeEEEccCcccccccCCCCccccccccchhhhhcCC
Q 038838 156 LVQVPDLNQLQNFVDWMKHVGDLVNVSICKYRDLHLQISTTLITLGAEFRKLLVIGEKAVAPSEDRNLSAQTRSERAISR 235 (284)
Q Consensus 156 ~i~LP~l~~l~~ivdR~k~ls~~v~i~an~~G~L~L~v~t~~v~v~t~~~~L~~~~~~~~~~~~~~~~~~~~r~~~~~~~ 235 (284)
.+.||+ ..|+.++.-+..+|+.|+|+++. +.+.|..+.|..+....++.=.. .+..+... + ...
T Consensus 136 ~v~m~s-~~f~~~~kdl~~vsd~v~i~~~~-~~~~f~~~Gd~g~~~~~l~~~~~--------~~~~~~~~-----~-i~~ 199 (263)
T PLN00057 136 IVRMPS-AEFQRICKDLSSIGDTVVISVTK-EGVKFSTSGDIGTANIVLRQNTT--------VDKPEEKT-----V-IEM 199 (263)
T ss_pred EEEEEH-HHHHHHHHHHHHcCCEEEEEEeC-CEEEEEEEecCcEEEEEEecCCC--------CCCccceE-----E-EEe
Confidence 666886 68999999999999999999975 56999999888888888863110 00000000 0 001
Q ss_pred CCeEEEEEechhhhhhcccccccccEEEEEeecCceEEE
Q 038838 236 GDAQSVQVSVKHFSKSLQCHLAKLDCAFYGIAPQVACLT 274 (284)
Q Consensus 236 ~~~~~V~Vd~k~l~~~L~~~~~~p~~~~c~I~~~~~~~~ 274 (284)
.+.++.....+-|..+...-.+ -+.|.+.+.++.-+.+
T Consensus 200 ~e~~~~~y~l~YL~~~~Ka~~l-s~~V~i~~~~~~Pl~l 237 (263)
T PLN00057 200 QEPVSLTFALRYLNSFTKATPL-SDTVTLSLSKELPVVV 237 (263)
T ss_pred cCceEEEEhHHHHHHhhccccC-CCeEEEEEcCCCCEEE
Confidence 1245666777777777765444 2356666666655433
No 5
>TIGR00590 pcna proliferating cell nuclear antigen (pcna). All proteins in this family for which functions are known form sliding DNA clamps that are used in DNA replication processes. This family is based on the phylogenomic analysis of JA Eisen (1999, Ph.D. Thesis, Stanford University).
Probab=99.08 E-value=5.8e-08 Score=89.01 Aligned_cols=238 Identities=13% Similarity=0.162 Sum_probs=157.7
Q ss_pred eeeEEecccchhhHHHhHHHHHHhcCCeEEEEEeCCEEEEEeccCCCCceEEEEEEccCCCcCceEeeecCCCeEEEEEe
Q 038838 2 KFKAFLTENGVNLLEKRFLPVLDKMGKVCHLFLTREKAYFLPNLLSGEGIQCVAQFHKETLFGDYRISSQIEDCIAFAID 81 (284)
Q Consensus 2 kFrA~i~d~~~~~lf~~~~~~i~kl~K~cvlrlt~~~l~~i~~~~~~~g~qvW~~l~~~~~F~~y~i~S~~~N~I~le~~ 81 (284)
=|+|++.+.. .| ++++.+++++-..|.+.+|++-+.+..-+ .+.-.++-..++.+ .|++|+|+.. ..+-++
T Consensus 1 Mfea~~~~a~--~~-k~i~eai~~lv~e~~~~~t~~Gi~~~amD-~s~Valv~l~l~~~-~F~~Y~~d~~----~~~gv~ 71 (259)
T TIGR00590 1 MFEARLEQAS--LL-KKILEAIKDLVNDANFDCSESGISLQAMD-SSHVSLVSLTLRSE-GFDTYRCDRN----LALGVN 71 (259)
T ss_pred CeEEEEccHH--HH-HHHHHHHHHHhceeeEEECCCeEEEEEEc-CCcEEEEEEEcCHH-hCceEecCCc----eEEEEE
Confidence 0999999866 54 89999999999999999999999999654 33677888888877 9999999732 567788
Q ss_pred ccccc----CcCCCceeEEEEeecCCCCCCCCcceEEEEEec--ceeEEEEeccCCcccCHHHHhhhhhhhhccCCCCCe
Q 038838 82 ISLLQ----PGSAANCLQIKLVKKLPPNCTQAMPFLTFETKG--YKSAVIQDVPISKPLSRAQVLELQTALDMAQDLPPT 155 (284)
Q Consensus 82 ~~~L~----sa~~a~~~~ikL~kk~~~~~~~~~P~Ls~~~~g--~~~~v~hdIPV~kvl~~~~~~~~~eP~~~~~~~p~~ 155 (284)
.+.|. .+.+.+.++|+....+ -.|.+.+++ ..+.-...+|. +.... +.+..|-. ..+.
T Consensus 72 l~~l~kiLk~~~~~d~l~l~~~~~~--------~~l~i~~~~~~~~~~~~f~l~l---~d~~~-e~l~iP~~----e~~~ 135 (259)
T TIGR00590 72 LTSLSKILKCANNEDIVTLKAEDNA--------DTLILVFESPKQDKISDYELKL---MDIDV-EHLGIPEQ----EYDC 135 (259)
T ss_pred HHHHHHHHhccCCCCEEEEEecCCC--------CEEEEEEEcCCCCeEEEEEEEe---eeccc-ccCCCCCC----ceeE
Confidence 88888 4455677888654332 357777664 33333444544 22211 44555521 1233
Q ss_pred EEecCChhhHhHHHHhhhhcCCEEEEEEEcCCceEEEEeeccEEEeEEEccCcccccccCCCCccccccccchhhhhcCC
Q 038838 156 LVQVPDLNQLQNFVDWMKHVGDLVNVSICKYRDLHLQISTTLITLGAEFRKLLVIGEKAVAPSEDRNLSAQTRSERAISR 235 (284)
Q Consensus 156 ~i~LP~l~~l~~ivdR~k~ls~~v~i~an~~G~L~L~v~t~~v~v~t~~~~L~~~~~~~~~~~~~~~~~~~~r~~~~~~~ 235 (284)
.+.||+ ..++.++.-+..+|+.|+|+++. +.+.|..+.|..+....++.-.... + +.+... ...
T Consensus 136 ~v~m~s-~~f~~~~kdl~~v~d~v~i~~~~-~~~~f~~~Gd~g~~~~~~~~~~~~~---~-~~~~~~----------i~~ 199 (259)
T TIGR00590 136 VVEMPS-SEFARICRDLSQFSDSVVISCTK-EGVKFSAKGDIGSGNVKLKQTSDTD---K-EEEAVT----------IEM 199 (259)
T ss_pred EEEEEH-HHHHHHHHHHHHcCCEEEEEEeC-CEEEEEEEecccEEEEEEecCCCCC---C-CcceEE----------EEe
Confidence 666886 57999999999999999999974 6799999998888888887432100 0 000000 001
Q ss_pred CCeEEEEEechhhhhhcccccccccEEEEEeecCceEEE-------EEEEEEe
Q 038838 236 GDAQSVQVSVKHFSKSLQCHLAKLDCAFYGIAPQVACLT-------VIFQFFI 281 (284)
Q Consensus 236 ~~~~~V~Vd~k~l~~~L~~~~~~p~~~~c~I~~~~~~~~-------~~l~y~i 281 (284)
.+-++.+...+-|..|...-.+. +.|...+.++.-+.+ ..++||+
T Consensus 200 ~~~~~~~y~l~YL~~~~Ka~~ls-~~V~l~~~~~~Pl~l~y~i~~~g~l~f~l 251 (259)
T TIGR00590 200 KEPVTLTFAIKYLNLFTKATPLS-DRVTLSMSNDVPLVVEYKIKDMGFLRFFL 251 (259)
T ss_pred cCceeeeeeHHHHHHhhhhccCC-CeEEEEEcCCCCEEEEEEeCCCeEEEEEE
Confidence 12455566777777776654442 355566655555433 4456665
No 6
>PTZ00113 proliferating cell nuclear antigen; Provisional
Probab=98.97 E-value=2.4e-07 Score=85.70 Aligned_cols=216 Identities=13% Similarity=0.117 Sum_probs=147.3
Q ss_pred eeeEEecccchhhHHHhHHHHHHhcCCeEEEEEeCCEEEEEeccCCCCceEEEEEEccCCCcCceEeeecCCCeEEEEEe
Q 038838 2 KFKAFLTENGVNLLEKRFLPVLDKMGKVCHLFLTREKAYFLPNLLSGEGIQCVAQFHKETLFGDYRISSQIEDCIAFAID 81 (284)
Q Consensus 2 kFrA~i~d~~~~~lf~~~~~~i~kl~K~cvlrlt~~~l~~i~~~~~~~g~qvW~~l~~~~~F~~y~i~S~~~N~I~le~~ 81 (284)
=|+|++.+.. .| ++++.++.+|-..+.+.++++-+.+..-+. +.-.-|--.++.+ .|++|+|+.. +.+=++
T Consensus 1 Mfea~~~~a~--~~-K~i~eal~~lv~e~~f~~t~~Gi~lqamD~-shVaLv~l~l~~~-~FeeY~cd~~----~~lGvn 71 (275)
T PTZ00113 1 MLEAKLNNAS--VL-RRLFECIKDLVSDGNIDFDETGLKLQALDG-NHVALVHLKLHDS-GFSHYRCDRE----RALGIN 71 (275)
T ss_pred CeEEEeccHH--HH-HHHHHHHHHHhceEEEEECCCeEEEEEECC-CcEEEEEEEeCHH-hCeEEecCCC----cEEEEE
Confidence 0999999866 54 899999999999999999999999997653 3455666777777 9999999842 356688
Q ss_pred ccccc----CcCCCceeEEEEeecCCCCCCCCcceEEEEEecce--eEEEEeccCCcccCHHHHhhhhhhhhccCC-CCC
Q 038838 82 ISLLQ----PGSAANCLQIKLVKKLPPNCTQAMPFLTFETKGYK--SAVIQDVPISKPLSRAQVLELQTALDMAQD-LPP 154 (284)
Q Consensus 82 ~~~L~----sa~~a~~~~ikL~kk~~~~~~~~~P~Ls~~~~g~~--~~v~hdIPV~kvl~~~~~~~~~eP~~~~~~-~p~ 154 (284)
.+.|. .+.+.+.+.|+.... + ..|.|.+.+.. +.-...+|.- .-.. +++.-|-. . ..+
T Consensus 72 ~~~l~KILk~~~~~D~l~l~~~~~-~-------~~l~i~~~~~~~~~~~~f~l~L~---di~~-e~~~iPe~---~~e~~ 136 (275)
T PTZ00113 72 IASVTKVFKLCSNNDSVLIQSEED-K-------DNINFVFENNVEDKVSSFSLKLM---SIEQ-DALSIPEN---EEGFD 136 (275)
T ss_pred HHHHHHHHHhCCCCCEEEEEEcCC-C-------CEEEEEEEcCCCceEEEEEEEcc---ccCc-cccCCCCC---CCCcc
Confidence 88888 566678888885222 2 57888877553 3444555553 2222 22333300 1 234
Q ss_pred eEEecCChhhHhHHHHhhhhcCCEEEEEEEcCCceEEEEeeccEEEeEEEccCcccccccCCCCccccccccchhhhhcC
Q 038838 155 TLVQVPDLNQLQNFVDWMKHVGDLVNVSICKYRDLHLQISTTLITLGAEFRKLLVIGEKAVAPSEDRNLSAQTRSERAIS 234 (284)
Q Consensus 155 ~~i~LP~l~~l~~ivdR~k~ls~~v~i~an~~G~L~L~v~t~~v~v~t~~~~L~~~~~~~~~~~~~~~~~~~~r~~~~~~ 234 (284)
+.+.||+ ..|+.++.=+..+|+.|+|+++. +.+.|..+.|..+..+.++.-. +..+++..- + ..
T Consensus 137 ~~v~m~s-~~f~~i~rdl~~vgd~V~i~~~~-~~v~f~a~Gd~g~~~i~l~~~~--------~~~~~~~~~-~-----~~ 200 (275)
T PTZ00113 137 AEVTLSS-KELTNICRQMNEFSDTVKIEIDS-NSIKFTTQGDLGDGEVVLKPRP--------PTSEDDCGV-T-----IK 200 (275)
T ss_pred EEEEEEH-HHHHHHHHHHHHcCCEEEEEEeC-CEEEEEEeccCcEEEEEEecCC--------CCCCccceE-E-----EE
Confidence 4677886 58999999999999999999974 4599999999888888776421 111100000 0 00
Q ss_pred CCCeEEEEEechhhhhhcccccc
Q 038838 235 RGDAQSVQVSVKHFSKSLQCHLA 257 (284)
Q Consensus 235 ~~~~~~V~Vd~k~l~~~L~~~~~ 257 (284)
..+-++....+|-|..|.....+
T Consensus 201 v~~~~~~~ysl~YL~~f~Ka~~l 223 (275)
T PTZ00113 201 VRKPIKQSYATKYLNMFAKSGCL 223 (275)
T ss_pred ecCceeeEEhHHHHHHhhccccC
Confidence 11346777888888888876544
No 7
>PHA03383 PCNA-like protein; Provisional
Probab=98.95 E-value=2.3e-07 Score=85.27 Aligned_cols=234 Identities=11% Similarity=0.123 Sum_probs=157.0
Q ss_pred eeeEEecccchhhHHHhHHHHHHhcCCeEEEEEeCCEEEEEeccCCCCceEEEEEEccCCCcCceEeeecCCCeEEEEEe
Q 038838 2 KFKAFLTENGVNLLEKRFLPVLDKMGKVCHLFLTREKAYFLPNLLSGEGIQCVAQFHKETLFGDYRISSQIEDCIAFAID 81 (284)
Q Consensus 2 kFrA~i~d~~~~~lf~~~~~~i~kl~K~cvlrlt~~~l~~i~~~~~~~g~qvW~~l~~~~~F~~y~i~S~~~N~I~le~~ 81 (284)
=|+|++.+.+ . |++++.++++|-..|.+.++++-+.+..-+. +.-.-+--.++.+ .|++|+|+.. +.+=++
T Consensus 7 mfe~~~~~a~--~-~K~iieai~~lv~e~~f~~t~~Gi~lqamD~-shVaLv~l~L~~~-~F~~Y~~d~~----~~iGv~ 77 (262)
T PHA03383 7 LFHIRTIQGS--V-IKSLFDVLKEILHDVNIFFRPTGVYISALDG-AKVSLVHMKLDAE-SFEEYHCDQT----YEIGVN 77 (262)
T ss_pred EEEEEecchH--H-HHHHHHHHHHHhceEEEEECCCcEEEEEECC-CcEEEEEEEeCHH-hCceEecCCc----eEEEEE
Confidence 4999999865 4 4999999999999999999999999997653 2455666677777 9999999832 234577
Q ss_pred ccccc----CcCCCceeEEEEeecCCCCCCCCcceEEEEEecce--eEEEEeccCCcccCHHHHhhhhhhhhccCCCCCe
Q 038838 82 ISLLQ----PGSAANCLQIKLVKKLPPNCTQAMPFLTFETKGYK--SAVIQDVPISKPLSRAQVLELQTALDMAQDLPPT 155 (284)
Q Consensus 82 ~~~L~----sa~~a~~~~ikL~kk~~~~~~~~~P~Ls~~~~g~~--~~v~hdIPV~kvl~~~~~~~~~eP~~~~~~~p~~ 155 (284)
.+.|. .+.+.+.+.+++...++ -.|.|.++|.. +.-...+|. +.... +++..|- ...++
T Consensus 78 ~~~l~KILk~a~~~D~l~l~~~~~~~-------~~l~i~~~~~~~~~~~~f~l~L---idi~~-e~l~iP~----~e~~~ 142 (262)
T PHA03383 78 VSNMFKLLRTAGSHDSILFRYLKNSP-------HFLEITIQNFEKNSLTKFQLKL---IEIDS-SRIEVPD----VEFDT 142 (262)
T ss_pred HHHHHHHHhccCCCCEEEEEecCCCC-------CEEEEEEEeCCCCcEEEEEEEc---cccCc-ccCCCCC----CCccE
Confidence 78887 55567888887644442 37777777533 344455555 33222 4566662 12334
Q ss_pred EEecCChhhHhHHHHhhhhcCCEEEEEEEcCCceEEE----EeeccEEEeEEEccCcccccccCCCCccccccccchhhh
Q 038838 156 LVQVPDLNQLQNFVDWMKHVGDLVNVSICKYRDLHLQ----ISTTLITLGAEFRKLLVIGEKAVAPSEDRNLSAQTRSER 231 (284)
Q Consensus 156 ~i~LP~l~~l~~ivdR~k~ls~~v~i~an~~G~L~L~----v~t~~v~v~t~~~~L~~~~~~~~~~~~~~~~~~~~r~~~ 231 (284)
.+.||+ ..++.++.-+..+||.|+|+++.++ +.|. .+.|.....+.+...... ... + ..
T Consensus 143 ~v~m~s-~~f~~i~kdl~~igD~v~i~~~~~~-v~f~~~~~~~Gd~~~~~~~~~~~~~~-----~v~-~-------~~-- 205 (262)
T PHA03383 143 IIILPS-NYFQRLCRDMSNITDDLEITKKGKE-VSFRSDYTCVTDFASQETIIGDSDNG-----QIT-C-------NE-- 205 (262)
T ss_pred EEEEEH-HHHHHHHHHHHHcCCeEEEEEeCCE-EEEEEcccccccccceEEEecCCCCC-----ceE-E-------ec--
Confidence 777886 6899999999999999999997544 9998 777777776666543210 000 0 00
Q ss_pred hcCCCCeEEEEEechhhhhhcccccccccEEEEEeecCceEEE-------EEEEEEe
Q 038838 232 AISRGDAQSVQVSVKHFSKSLQCHLAKLDCAFYGIAPQVACLT-------VIFQFFI 281 (284)
Q Consensus 232 ~~~~~~~~~V~Vd~k~l~~~L~~~~~~p~~~~c~I~~~~~~~~-------~~l~y~i 281 (284)
.+.++.....|-|..|.....+. +.+.+.+.++.=+.+ ..+.||+
T Consensus 206 ----~~~~~~~ysl~YL~~~~Ka~~ls-~~V~i~l~~d~Pl~ley~i~~~G~l~fyL 257 (262)
T PHA03383 206 ----SPDYTGKFSLKYLTSFTKASGMS-SSVEIYLKESNPLILKYNVGSLGNLKFVI 257 (262)
T ss_pred ----CCceEEEEeHHHHHHhhccccCC-CeEEEEEcCCCCEEEEEEeCCCcEEEEEE
Confidence 12367778889888888765543 344444444444333 3456665
No 8
>PTZ00483 proliferating cell nuclear antigen; Provisional
Probab=98.59 E-value=3.9e-06 Score=77.27 Aligned_cols=177 Identities=14% Similarity=0.205 Sum_probs=125.6
Q ss_pred eeeEEecccchhhHHHhHHHHHHhcCCeEEEEEeCCEEEEEeccCCCCceEEEEEEccCCCcCceEeeecCCCeEEEEEe
Q 038838 2 KFKAFLTENGVNLLEKRFLPVLDKMGKVCHLFLTREKAYFLPNLLSGEGIQCVAQFHKETLFGDYRISSQIEDCIAFAID 81 (284)
Q Consensus 2 kFrA~i~d~~~~~lf~~~~~~i~kl~K~cvlrlt~~~l~~i~~~~~~~g~qvW~~l~~~~~F~~y~i~S~~~N~I~le~~ 81 (284)
=|+|++. + .+|++++.++++|-..|.+.++++-+.+..-+. +.-.-|--.++.+ .|++|+|+... .+=++
T Consensus 1 Mfea~~~--a--~~lK~i~eai~~lv~e~~f~~~e~Gi~lqAmD~-shVaLV~l~L~~~-~Fe~Y~cd~~~----~lGin 70 (264)
T PTZ00483 1 MFECRLD--G--MFLRRLFETLKDICTDVSIDCSENGLKMQAMDN-SHISLIHLNLAPD-FFQLYRCDKPC----VLGLN 70 (264)
T ss_pred CeEEEEe--H--HHHHHHHHHHHHHhheeEEEECCCcEEEEEECC-CcEEEEEEEcCHH-hCeEEecCCCe----EEEEE
Confidence 0999995 4 556999999999999999999999999987553 3455666777777 99999998432 34578
Q ss_pred ccccc----CcCCCceeEEEEeecCCCCCCCCcceEEEEEecce-------eEEEEeccCCcccCHHHHhhhhhhhhccC
Q 038838 82 ISLLQ----PGSAANCLQIKLVKKLPPNCTQAMPFLTFETKGYK-------SAVIQDVPISKPLSRAQVLELQTALDMAQ 150 (284)
Q Consensus 82 ~~~L~----sa~~a~~~~ikL~kk~~~~~~~~~P~Ls~~~~g~~-------~~v~hdIPV~kvl~~~~~~~~~eP~~~~~ 150 (284)
.+.|. .+.+.+.+.|+-.... ....+.+.+.+.. +.-...+|. +.... +++..|
T Consensus 71 l~~l~KiLk~a~~~D~l~l~~~~~~------~~~~~~i~~~~~~~~~~~~~~~~~f~l~L---idi~~-e~l~iP----- 135 (264)
T PTZ00483 71 ISFMLKILSVVKEKSTIYLFRGDNT------EDPVLNIRIIEEEGQNSLESDSLEAQVKL---INVQR-EHLEIP----- 135 (264)
T ss_pred HHHHHHHHhhcCCCCEEEEEeccCC------CCceEEEEEeccccccccccceEEEEEEc---cccCc-ccCCCC-----
Confidence 88887 5566777887632222 1245665553221 333455554 33222 456666
Q ss_pred CC-CCeEEecCChhhHhHHHHhhhhcCCEEEEEEEcCCceEEEEeeccEEEeEEEc
Q 038838 151 DL-PPTLVQVPDLNQLQNFVDWMKHVGDLVNVSICKYRDLHLQISTTLITLGAEFR 205 (284)
Q Consensus 151 ~~-p~~~i~LP~l~~l~~ivdR~k~ls~~v~i~an~~G~L~L~v~t~~v~v~t~~~ 205 (284)
.. .++.+-||+ ..|+.++.=+..+|+.|+|+++. +.++|..+.|..+..+.++
T Consensus 136 ~~e~~~~v~m~s-~~f~~i~kdl~~vsD~v~i~~~~-~~v~f~a~Gd~~~~~~~l~ 189 (264)
T PTZ00483 136 QCEYHCKCVMNS-KKFQEFAKYLHSIGDTVSISMKK-DEMRLETEGEGIKASKQFH 189 (264)
T ss_pred CCCccEEEEEEH-HHHHHHHHHHHHcCCEEEEEEEC-CEEEEEEeecCcEEEEEEc
Confidence 32 333777886 68999999999999999999974 5599999988888877775
No 9
>PRK01115 DNA polymerase sliding clamp; Validated
Probab=98.19 E-value=0.00059 Score=61.46 Aligned_cols=223 Identities=11% Similarity=0.067 Sum_probs=138.9
Q ss_pred eeEEecccchhhHHHhHHHHHHhcCCeEEEEEeCCEEEEEeccCCCCceEEEEEEccCCCcCceEeeecCCCeEEEEEec
Q 038838 3 FKAFLTENGVNLLEKRFLPVLDKMGKVCHLFLTREKAYFLPNLLSGEGIQCVAQFHKETLFGDYRISSQIEDCIAFAIDI 82 (284)
Q Consensus 3 FrA~i~d~~~~~lf~~~~~~i~kl~K~cvlrlt~~~l~~i~~~~~~~g~qvW~~l~~~~~F~~y~i~S~~~N~I~le~~~ 82 (284)
|+|++.+.+ .| ++++.+++.+-..+.+.++++.+.++.++. ..=.++...++.+ .|++|++.... .+-++.
T Consensus 2 ~~~~~~~~~--~l-k~i~~~i~~l~~~v~~~~~~~~l~~~atD~-~Rla~~~~~~~~~-~f~~~~~~~~~----~~~v~l 72 (247)
T PRK01115 2 MKAVYPDAK--DF-KYIIDAISKLVDEAKFKFTEDGIRLRALDP-AKVAMVDLELPKE-AFEEYEVDEEE----KIGVDL 72 (247)
T ss_pred eEEEecchH--HH-HHHHHHHHHHhceEEEEECCCcEEEEEECC-ccEEEEEEEeCHH-hCccEecCCCe----EEEEEH
Confidence 789999877 55 899999999999999999999999998763 2445667777654 89889986321 255777
Q ss_pred cccc---Cc-CCCceeEEEEeecCCCCCCCCcceEEEEEecceeEEEEeccCCcccCHHHHhhhhhhhhccCCCCCeEEe
Q 038838 83 SLLQ---PG-SAANCLQIKLVKKLPPNCTQAMPFLTFETKGYKSAVIQDVPISKPLSRAQVLELQTALDMAQDLPPTLVQ 158 (284)
Q Consensus 83 ~~L~---sa-~~a~~~~ikL~kk~~~~~~~~~P~Ls~~~~g~~~~v~hdIPV~kvl~~~~~~~~~eP~~~~~~~p~~~i~ 158 (284)
..|. +. .+.+.++|++.+.+ ..+.|.+.+ +...+.. .+ ++....-+ .+.| +...+..+.
T Consensus 73 ~~l~~il~~~~~~~~v~i~~~~~~--------~~l~~~~~~-~~~~~~~--~~-Lieg~~p~-~~v~----p~~~~~~i~ 135 (247)
T PRK01115 73 EDLKKILKRAKKGDKLELELDEEE--------NKLKITFGG-EKTREFS--LP-LLDVSSEE-PPEP----NLELPVKAV 135 (247)
T ss_pred HHHHHHHhhCCCCCEEEEEEcCCC--------CEEEEEEec-CcEEEEE--EE-eeccCCCC-CCCC----CCcccEEEE
Confidence 7666 22 24456777775443 467777765 1222222 22 34333322 2222 012233666
Q ss_pred cCChhhHhHHHHhhhhcCCEEEEEEEcCCceEEEEeeccEEEeEEEccCcccccccCCCCccccccccchhhhhcCCCCe
Q 038838 159 VPDLNQLQNFVDWMKHVGDLVNVSICKYRDLHLQISTTLITLGAEFRKLLVIGEKAVAPSEDRNLSAQTRSERAISRGDA 238 (284)
Q Consensus 159 LP~l~~l~~ivdR~k~ls~~v~i~an~~G~L~L~v~t~~v~v~t~~~~L~~~~~~~~~~~~~~~~~~~~r~~~~~~~~~~ 238 (284)
++. ..|+.+++|+..+++.+.++.+ ++.++|...++ .+....+..-. ++. .+- .+ .+.
T Consensus 136 ~~~-~~l~~~~~r~~~~~~~v~i~~~-~~~l~lsa~~~-g~a~~~i~~~~------~~~-~~~-----------~g-~e~ 193 (247)
T PRK01115 136 ILG-DDLKDAIKDAELVSDHIELEAD-EDKFYIEAEGE-GEDEVELSLDS------GPL-IEL-----------SV-EEP 193 (247)
T ss_pred EEH-HHHHHHHHHHHhcCCeEEEEEe-CCEEEEEEEeC-CceEEEEecCC------Cce-EEE-----------Ee-cCc
Confidence 886 7899999999999999999997 55788876554 33322222100 000 000 00 024
Q ss_pred EEEEEechhhhhhcccccccccEEEEEeecCceEEE
Q 038838 239 QSVQVSVKHFSKSLQCHLAKLDCAFYGIAPQVACLT 274 (284)
Q Consensus 239 ~~V~Vd~k~l~~~L~~~~~~p~~~~c~I~~~~~~~~ 274 (284)
.++..+.|-|..+|..-... +.+...+.++.-+.+
T Consensus 194 ~~i~fn~~YL~d~lk~~~~~-~~V~l~~~~~~P~~l 228 (247)
T PRK01115 194 AKSSYSLDYLKDMVKATSAS-DEVTIEFGSDMPLKL 228 (247)
T ss_pred eeEEEhHHHHHHhhccccCC-CeEEEEECCCCCEEE
Confidence 67889999999999754432 355556655544433
No 10
>PF02144 Rad1: Repair protein Rad1/Rec1/Rad17; InterPro: IPR003021 REC1 of Ustilago maydis plays a key role in regulating the genetic system of the fungus. REC1 mutants are very sensitive to UV light. Mutation leads to a complex phenotype with alterations in DNA repair, recombination, mutagenesis, meiosis and cell division []. The predicted product of the REC1 gene is a polypeptide of 522 amino acid residues with molecular mass 57kDa. The protein shows 3'--5' exonuclease activity, but only in cells over-expressing REC1 []. While it is distinguishable from the major bacterial nucleases, the protein has certain enzymatic features in common with epsilon, the proof-reading exonuclease subunit of Escherichia coli DNA polymerase III holoenzyme []. The rad1 gene of Schizosaccharomyces pombe comprises three exons and encodes a 37kDa protein that exhibits partial similarity to the REC1 gene of U. maydis []. The two genes share putative functional similarities in their respective organisms.; GO: 0003684 damaged DNA binding, 0008853 exodeoxyribonuclease III activity, 0006281 DNA repair, 0005634 nucleus; PDB: 3G65_B 3GGR_C 3A1J_C.
Probab=98.14 E-value=0.0011 Score=61.48 Aligned_cols=235 Identities=16% Similarity=0.191 Sum_probs=141.7
Q ss_pred eeEEecccchhhHHHhHHHHHHhcCCeEEEEEeCCEEEEEeccCCCCceEEEEEEccCCCcCceEe---------eecCC
Q 038838 3 FKAFLTENGVNLLEKRFLPVLDKMGKVCHLFLTREKAYFLPNLLSGEGIQCVAQFHKETLFGDYRI---------SSQIE 73 (284)
Q Consensus 3 FrA~i~d~~~~~lf~~~~~~i~kl~K~cvlrlt~~~l~~i~~~~~~~g~qvW~~l~~~~~F~~y~i---------~S~~~ 73 (284)
|.|++.+.. .| .+++.+|.-.. .|.+.++++-+.|.+. .+..+|.-+.++.+ +|++|.+ +..++
T Consensus 2 f~A~~~~~~--~l-~~lL~~I~~~~-~a~v~is~~Gi~~~vE--~~~~~qa~a~l~k~-LF~~Y~~~~~~~~~~~~~~~~ 74 (275)
T PF02144_consen 2 FSASTSNVR--HL-YQLLKCIAFKN-KATVEISEDGIKFTVE--DSKSIQASAFLDKS-LFSEYTFNPPPDADDDDEEEE 74 (275)
T ss_dssp EEEEES-TH--HH-HHHHHTT-SSS-EEEEEEETTEEEEEEE--ETTTEEEEEEEEGG-GSSEEEE------------SS
T ss_pred eEEEECCHH--HH-HHHHHhcccCC-eEEEEEcCCEEEEEEE--CCcEEEEEEEEChh-hceEEEEeccccccccccCCC
Confidence 899999877 55 47787777777 5999999999999985 44889999999988 9999999 24568
Q ss_pred CeEEEEEeccccc---C----cCCC-----------------ceeEEEEeecCCCCCCCCcce-EEEEEecceeEEEEec
Q 038838 74 DCIAFAIDISLLQ---P----GSAA-----------------NCLQIKLVKKLPPNCTQAMPF-LTFETKGYKSAVIQDV 128 (284)
Q Consensus 74 N~I~le~~~~~L~---s----a~~a-----------------~~~~ikL~kk~~~~~~~~~P~-Ls~~~~g~~~~v~hdI 128 (284)
..+.|++++..|. + +..+ ....++|.=.+. ..|+ |.++=.|. +-++
T Consensus 75 ~~~~F~I~L~~LlecL~ifg~~~~~~~~~~~~~~~~~~~~~~~~~~~~lsY~g~-----G~pL~l~led~gv----~t~c 145 (275)
T PF02144_consen 75 DEVSFGINLSALLECLNIFGSSDSSSSSSSSGGDPSRNNASGEPTSCRLSYPGE-----GSPLVLILEDSGV----TTTC 145 (275)
T ss_dssp S-EEEEEEHHHHHHHHTTT-SS--TT-----------------EEEEEEEESSS-----CCEEEEEEEETTE----EEEE
T ss_pred CceEEEEEhHHHHHHHHHhCCCCCccccccccccccccccccCCceEEEEEcCC-----CCeEEEEEEeCCE----EEEE
Confidence 9999999999998 1 1111 124677775543 2354 33443232 2222
Q ss_pred cCCcccCHHHHhhhhhhhhccCCCCCe--EEecCChhhHhHHHHhhhhc-CCEEEEEEEcC--CceEEEEeeccEEEeEE
Q 038838 129 PISKPLSRAQVLELQTALDMAQDLPPT--LVQVPDLNQLQNFVDWMKHV-GDLVNVSICKY--RDLHLQISTTLITLGAE 203 (284)
Q Consensus 129 PV~kvl~~~~~~~~~eP~~~~~~~p~~--~i~LP~l~~l~~ivdR~k~l-s~~v~i~an~~--G~L~L~v~t~~v~v~t~ 203 (284)
-++ -..+++..++ |. +..++ .+.|.+ ..|+..+.-+... ++.++|.++.. ..|+|.......+.++.
T Consensus 146 ~i~-T~~~~~~~d~--~f----~~~~~~~kiimks-~~L~~al~eL~~~~~~~l~i~~s~~~~p~f~l~s~G~~G~s~v~ 217 (275)
T PF02144_consen 146 EIR-TYEPDDPLDF--PF----DRSDVVNKIIMKS-DWLRDALSELDWSNSEELTIYISPPDKPHFRLSSKGPLGSSKVD 217 (275)
T ss_dssp EEE-EE-----------------TTTEEEEEEEEH-HHHHHHHHTT-TS-CSEEEEEE-S-SSSSEEEEEEETTEEEEEE
T ss_pred EEE-EecCCcccCc--cc----ccccceeEEEEEh-HHHHHHHHHHhhccCCeEEEEEEeCCCCEEEEEEEcCCCeEEEE
Confidence 222 2222222222 21 11122 444553 4688889999998 78999999995 78999888888888888
Q ss_pred EccCcccccccCCCCccccccccchhhhhcCCCCeEEEEEechhhhhhcccccccccEEEEEeecCceEEEEEEEEEe
Q 038838 204 FRKLLVIGEKAVAPSEDRNLSAQTRSERAISRGDAQSVQVSVKHFSKSLQCHLAKLDCAFYGIAPQVACLTVIFQFFI 281 (284)
Q Consensus 204 ~~~L~~~~~~~~~~~~~~~~~~~~r~~~~~~~~~~~~V~Vd~k~l~~~L~~~~~~p~~~~c~I~~~~~~~~~~l~y~i 281 (284)
|.+=.-. .+.= . -. .......-+-..+.|.+.+.+-.+ -+++..-+..+++ +++||.|
T Consensus 218 fp~~~~~-------le~f---~-~~-----~~~~~~~~~Y~f~~i~~~~kAl~~-ssKv~ir~d~~Gl---Ls~Q~mi 275 (275)
T PF02144_consen 218 FPNDSDV-------LETF---E-CY-----DGEEPVISRYKFSLIKKAMKALKI-SSKVSIRIDENGL---LSLQFMI 275 (275)
T ss_dssp E-TTSTS-------EEEE---E-E---------S-EEEEEEHHHHCCHHHHHTT-SSEEEEEEESSS----EEEEEEE
T ss_pred ECCCCCc-------eeEE---E-Ee-----ccCceEEEEEeHHHHHHHHHHhhh-ccEEEEEeCCCcE---EEEEEeC
Confidence 8742100 0000 0 00 001244444677777777766444 3788888988887 7788865
No 11
>KOG1636 consensus DNA polymerase delta processivity factor (proliferating cell nuclear antigen) [Replication, recombination and repair]
Probab=97.69 E-value=0.0016 Score=58.35 Aligned_cols=239 Identities=12% Similarity=0.147 Sum_probs=156.8
Q ss_pred eeEEecccchhhHHHhHHHHHHhcCCeEEEEEeCCEEEEEeccCCCCceEEEEEEccCCCcCceEeeecCCCeEEEEEec
Q 038838 3 FKAFLTENGVNLLEKRFLPVLDKMGKVCHLFLTREKAYFLPNLLSGEGIQCVAQFHKETLFGDYRISSQIEDCIAFAIDI 82 (284)
Q Consensus 3 FrA~i~d~~~~~lf~~~~~~i~kl~K~cvlrlt~~~l~~i~~~~~~~g~qvW~~l~~~~~F~~y~i~S~~~N~I~le~~~ 82 (284)
|-|++... .|+++++.++.-+=..+.+.-+.+-+.+...+. +.-.-|--.+..+ .|+.|||+ -.+.|=+++
T Consensus 2 ~Earl~q~---sLlKkIlealkdlV~~a~fdcse~GislQaMD~-SHValvsl~l~s~-~F~~yRCD----Rnl~lG~~L 72 (260)
T KOG1636|consen 2 LEARLVQA---SLLKKILEALKDLVNDANFDCSETGISLQAMDS-SHVALVSLLLRSE-GFEKYRCD----RNLSLGMNL 72 (260)
T ss_pred chhHHHHH---HHHHHHHHHHHHHHhccCcccccCceEEEEecc-cceEEEEEEeecc-ccceeccC----CccccccCH
Confidence 44556544 345999999999999988998998888887653 2333444444555 99999997 346777777
Q ss_pred cccc----CcCCCceeEEEEeecCCCCCCCCcceEEEEEecceeEEEEeccCCcccCHHHHhhhhhhhhccCCCCCeEEe
Q 038838 83 SLLQ----PGSAANCLQIKLVKKLPPNCTQAMPFLTFETKGYKSAVIQDVPISKPLSRAQVLELQTALDMAQDLPPTLVQ 158 (284)
Q Consensus 83 ~~L~----sa~~a~~~~ikL~kk~~~~~~~~~P~Ls~~~~g~~~~v~hdIPV~kvl~~~~~~~~~eP~~~~~~~p~~~i~ 158 (284)
.+|. =++|.+.+++|-.... -.+++.+++....=+.|.-+ |++.-.. +.|.-|- ..-+..+.
T Consensus 73 ~slsKiLkcanned~~Tlkaed~~--------dti~l~fe~~~~dki~dy~l-KLmdiD~-ehl~IPe----~dy~~~~~ 138 (260)
T KOG1636|consen 73 KSLSKILKCANNEDTVTLKAEDNP--------DTITLMFESPKQDKIADYEL-KLMDIDS-EHLGIPE----QDYDAVVT 138 (260)
T ss_pred HHHHHHHccccCCCceEEEeecCC--------ceEEEEEECCCCCcceeeEE-EeeeccH-HHcCCCc----ccceEEEE
Confidence 7777 3556778888887765 45666666555566788888 5665544 6665551 11223666
Q ss_pred cCChhhHhHHHHhhhhcCCEEEEEEEcCCceEEEEeeccEEEeEEEccCcccccccCCCCccccccccchhhhhcCCCCe
Q 038838 159 VPDLNQLQNFVDWMKHVGDLVNVSICKYRDLHLQISTTLITLGAEFRKLLVIGEKAVAPSEDRNLSAQTRSERAISRGDA 238 (284)
Q Consensus 159 LP~l~~l~~ivdR~k~ls~~v~i~an~~G~L~L~v~t~~v~v~t~~~~L~~~~~~~~~~~~~~~~~~~~r~~~~~~~~~~ 238 (284)
||+ .++..+.--+..+||.|.|+|++.| ++|....|..+-.+.++-..... . ++++..- -.. +-
T Consensus 139 mPa-~EF~ricrdls~f~Dsv~I~~tkeg-v~F~~~Gdig~asi~l~~~~~~d----~--~e~av~i--E~~------~p 202 (260)
T KOG1636|consen 139 MPA-GEFSRICRDLSTFSDSVVISATKEG-VKFSAKGDIGTASITLSQCTAVD----K--PEEAVKI--EMN------EP 202 (260)
T ss_pred ccH-HHHHHHHHHHhhhcCeEEEEEecce-eEEEecccccceeEEEccCCCCC----C--ccceEEE--Eec------Cc
Confidence 997 5788888889999999999999887 66777777777666776544211 0 0111000 011 24
Q ss_pred EEEEEechhhhhhcccccccccEEEEEeecCceEEE-------EEEEEEe
Q 038838 239 QSVQVSVKHFSKSLQCHLAKLDCAFYGIAPQVACLT-------VIFQFFI 281 (284)
Q Consensus 239 ~~V~Vd~k~l~~~L~~~~~~p~~~~c~I~~~~~~~~-------~~l~y~i 281 (284)
++.+...|-+..|-.+--+. ++|-..+..+.-+++ ..++||+
T Consensus 203 Vtltfa~kYln~ftKatpLs-~rV~lsls~~~P~~vey~i~~~g~lr~YL 251 (260)
T KOG1636|consen 203 VTLTFALKYLNQFTKATPLS-DRVTLSLSSEVPVVVEYKIEDMGHLRYYL 251 (260)
T ss_pred chhhhHHHHHHHhhcccccc-ceEEEEecCCCcEEEEEecccCceEEEEE
Confidence 66667777777766554332 456666666665555 5688886
No 12
>PF00705 PCNA_N: Proliferating cell nuclear antigen, N-terminal domain; InterPro: IPR022648 Proliferating cell nuclear antigen (PCNA), or cyclin, is a non-histone acidic nuclear protein [] that plays a key role in the control of eukaryotic DNA replication []. It acts as a co-factor for DNA polymerase delta, which is responsible for leading strand DNA replication []. The sequence of PCNA is well conserved between plants and animals, indicating a strong selective pressure for structure conservation, and suggesting that this type of DNA replication mechanism is conserved throughout eukaryotes []. In Saccharomyces cerevisiae (Baker's yeast), POL30, is associated with polymerase III, the yeast analog of polymerase delta. Homologues of PCNA have also been identified in the archaea (Euryarchaeota and Crenarchaeota) and in Paramecium bursaria Chlorella virus 1 (PBCV-1) and in nuclear polyhedrosis viruses. ; GO: 0003677 DNA binding, 0030337 DNA polymerase processivity factor activity, 0006275 regulation of DNA replication, 0043626 PCNA complex; PDB: 1U76_E 2ZVK_B 1VYJ_A 1UL1_B 3P87_D 2ZVM_C 2ZVL_A 1AXC_C 3VKX_A 3TBL_B ....
Probab=97.67 E-value=0.0011 Score=54.49 Aligned_cols=99 Identities=14% Similarity=0.215 Sum_probs=78.5
Q ss_pred eeEEecccchhhHHHhHHHHHHhcCCeEEEEEeCCEEEEEeccCCCCceEEEEEEccCCCcCceEeeecCCCeEEEEEec
Q 038838 3 FKAFLTENGVNLLEKRFLPVLDKMGKVCHLFLTREKAYFLPNLLSGEGIQCVAQFHKETLFGDYRISSQIEDCIAFAIDI 82 (284)
Q Consensus 3 FrA~i~d~~~~~lf~~~~~~i~kl~K~cvlrlt~~~l~~i~~~~~~~g~qvW~~l~~~~~F~~y~i~S~~~N~I~le~~~ 82 (284)
|+|++.+.+ .+ ++++.+++++-..+.+.++++-+.+..-+. +.-.-+-..++.+ .|++|+|+ ..+.+-++.
T Consensus 2 fea~~~~a~--~~-K~i~eal~~lv~e~~f~~~~~Gi~~~amD~-s~Valv~l~l~~~-~F~~Y~~d----~~~~igvnl 72 (127)
T PF00705_consen 2 FEAKFSDAS--LF-KKIFEALKDLVDEANFEFTEDGISLQAMDP-SHVALVDLELPSE-AFEEYRCD----KELSIGVNL 72 (127)
T ss_dssp EEEEESSHH--HH-HHHHHHHTTTCSEEEEEEESSEEEEEEE-T-TSSEEEEEEEEGG-GSSEEEES----SSEEEEEEH
T ss_pred eEEEEcchH--HH-HHHHHHHHHHhhEEEEEEccCCEEEEEECC-CcEEEEEEEechh-cceEEEcC----CCEEEEEEH
Confidence 899999876 54 999999999999999999999999998653 3556777788877 99999997 457899999
Q ss_pred cccc----CcCCCceeEEEEeecCCCCCCCCcceEEEEEe
Q 038838 83 SLLQ----PGSAANCLQIKLVKKLPPNCTQAMPFLTFETK 118 (284)
Q Consensus 83 ~~L~----sa~~a~~~~ikL~kk~~~~~~~~~P~Ls~~~~ 118 (284)
+.|. .+.+.+.+.|+..... ..|.+.++
T Consensus 73 ~~l~kiLk~~~~~D~l~l~~~~~~--------~~l~i~~~ 104 (127)
T PF00705_consen 73 SDLKKILKRAKKDDSLELESDEEP--------DKLNIVFE 104 (127)
T ss_dssp HHHHHHHTTSSTTSEEEEEEESSS--------SEEEEEEE
T ss_pred HHHHHHHhhccCCCEEEEEEeCCC--------CEEEEEEE
Confidence 9998 4556678888864332 56666655
No 13
>PF04139 Rad9: Rad9; InterPro: IPR007268 Rad9 is required for transient cell-cycle arrests and transcriptional induction of DNA repair in response to DNA damage.; GO: 0006281 DNA repair; PDB: 3GGR_A 3G65_A 3A1J_A.
Probab=96.59 E-value=0.1 Score=47.36 Aligned_cols=155 Identities=16% Similarity=0.229 Sum_probs=90.7
Q ss_pred HHhHHHHHHhcCCeEEEEEeCCEEEEEe-ccCCCCceEEEEEEcc-CCCcCceEeeecCCCeEEEEEeccccc---C-cC
Q 038838 16 EKRFLPVLDKMGKVCHLFLTREKAYFLP-NLLSGEGIQCVAQFHK-ETLFGDYRISSQIEDCIAFAIDISLLQ---P-GS 89 (284)
Q Consensus 16 f~~~~~~i~kl~K~cvlrlt~~~l~~i~-~~~~~~g~qvW~~l~~-~~~F~~y~i~S~~~N~I~le~~~~~L~---s-a~ 89 (284)
|.+.+++++|+|+...+-.+++.|.+-. ++. .. .||.+.= ..+|++|.-....+..+.+.+..-+++ . ..
T Consensus 1 f~ral~~Lskigeel~ie~~~~~L~l~avNss--~S--a~~~~~F~~~FF~~y~~~~~~~~~~~~~i~~K~~l~vfr~~~ 76 (252)
T PF04139_consen 1 FARALQCLSKIGEELYIEITEDGLSLRAVNSS--RS--AYAQFRFSKSFFDKYQADSDSQDSFSCKISMKSLLSVFRSLS 76 (252)
T ss_dssp HHHHHHHHHTT-SEEEEEEETTEEEEEEE-TT--SS--EEEEEEETGGGSSEEE--SSSS----EEEEHHHHHHHHSSCT
T ss_pred CHHHHHHHHhhCCeEEEEEcCCeEEEEEECcc--cc--EEEEEEEChHHhhhhcccCCCCCcEEEEEEchhhhhhhcccc
Confidence 4789999999999999999999999986 433 33 5555542 359999944456678888999988877 2 22
Q ss_pred ----CCceeEEEEeecCCCCCCCCcceEEEEEe-cceeEEEEeccCCcccCHHHHhhhhhhhhccCCCCCeEEecCChhh
Q 038838 90 ----AANCLQIKLVKKLPPNCTQAMPFLTFETK-GYKSAVIQDVPISKPLSRAQVLELQTALDMAQDLPPTLVQVPDLNQ 164 (284)
Q Consensus 90 ----~a~~~~ikL~kk~~~~~~~~~P~Ls~~~~-g~~~~v~hdIPV~kvl~~~~~~~~~eP~~~~~~~p~~~i~LP~l~~ 164 (284)
+-+.+.|++... ..-|.+++. .....-+|.+|.. --..-+ ..+... ..|. .+..++ +.
T Consensus 77 ~~~~~Ve~c~i~i~~~--------~~~L~~~l~c~~gI~Kt~~l~~~-~~~~~~-a~~d~~-----~~~n-~l~~~~-~~ 139 (252)
T PF04139_consen 77 TLEKNVESCEISIDND--------ESRLIFQLFCKNGIIKTYNLPYE-ECESLQ-AVFDKE-----SCPN-YLVISP-RL 139 (252)
T ss_dssp CCHHCEEEEEEEE-TT--------SSEEEEEEEEGGGEEEEEEEE-C-E----------GG-----GSSE-EEEEEH-HH
T ss_pred ccccceeEEEEEEcCC--------CcEEEEEEEeccceEEEEEEEEE-eccccc-cccchh-----cCCc-eEEECh-HH
Confidence 356788888222 356888866 2235667888885 222111 111111 2233 333443 57
Q ss_pred HhHHHHhhhhcCCEEEEEEEcCCceEEE
Q 038838 165 LQNFVDWMKHVGDLVNVSICKYRDLHLQ 192 (284)
Q Consensus 165 l~~ivdR~k~ls~~v~i~an~~G~L~L~ 192 (284)
|+.+++-|..=-+.+++..+. +.+.+.
T Consensus 140 l~~~l~~f~~~~eeitl~~~~-~~v~~~ 166 (252)
T PF04139_consen 140 LKDLLDHFPSSTEEITLEVTD-DKVSFK 166 (252)
T ss_dssp HHHHHTTS-TT--EEEEEEEC-TCEEEE
T ss_pred HHHHHhhcCCChhhEEEEecC-CEEEEE
Confidence 889999887744688887776 445444
No 14
>PF02747 PCNA_C: Proliferating cell nuclear antigen, C-terminal domain; InterPro: IPR022649 Proliferating cell nuclear antigen (PCNA), or cyclin, is a non-histone acidic nuclear protein [] that plays a key role in the control of eukaryotic DNA replication []. It acts as a co-factor for DNA polymerase delta, which is responsible for leading strand DNA replication []. The sequence of PCNA is well conserved between plants and animals, indicating a strong selective pressure for structure conservation, and suggesting that this type of DNA replication mechanism is conserved throughout eukaryotes []. In Saccharomyces cerevisiae (Baker's yeast), POL30, is associated with polymerase III, the yeast analog of polymerase delta. Homologues of PCNA have also been identified in the archaea (Euryarchaeota and Crenarchaeota) and in Paramecium bursaria Chlorella virus 1 (PBCV-1) and in nuclear polyhedrosis viruses. ; GO: 0003677 DNA binding, 0030337 DNA polymerase processivity factor activity, 0006275 regulation of DNA replication, 0043626 PCNA complex; PDB: 1IZ5_A 1IZ4_A 1GE8_A 1ISQ_A 3A2F_B 1RWZ_A 3P83_A 1RXM_A 1RXZ_A 1SXJ_F ....
Probab=95.41 E-value=0.5 Score=38.54 Aligned_cols=112 Identities=14% Similarity=0.154 Sum_probs=77.6
Q ss_pred CeEEecCChhhHhHHHHhhhhcCCEEEEEEEcCCceEEEEeeccEEEeEEEccCcccccccCCCCccccccccchhhhhc
Q 038838 154 PTLVQVPDLNQLQNFVDWMKHVGDLVNVSICKYRDLHLQISTTLITLGAEFRKLLVIGEKAVAPSEDRNLSAQTRSERAI 233 (284)
Q Consensus 154 ~~~i~LP~l~~l~~ivdR~k~ls~~v~i~an~~G~L~L~v~t~~v~v~t~~~~L~~~~~~~~~~~~~~~~~~~~r~~~~~ 233 (284)
+..+.||+ ..++.++.-+..+||.|+|+++.++ +.|..+.|..+..+.++..... +.+.+... .
T Consensus 8 ~~~v~m~S-~~f~~~~kdl~~v~d~v~i~~~~~~-~~f~~~Gd~~~~~v~~~~~~~~----~~~~~~~~----------i 71 (128)
T PF02747_consen 8 DATVTMPS-SEFKKICKDLSSVGDTVTISADKDS-VIFSAEGDIGSAEVEFKETESS----EDDEELIE----------I 71 (128)
T ss_dssp SEEEEEEH-HHHHHHHHHHHTTCSEEEEEEETTE-EEEEEEESSEEEEEEEEEEEEE----TTCTCESE----------E
T ss_pred eEEEEEEH-HHHHHHHHHHHhcCCEEEEEEeCCE-EEEEEEeccCcEEEEEeecccc----ccccccce----------e
Confidence 34666886 5899999999999999999999754 9999999988888877643311 00000000 0
Q ss_pred CCCCeEEEEEechhhhhhcccccccccEEEEEeecCceEEE-------EEEEEEec
Q 038838 234 SRGDAQSVQVSVKHFSKSLQCHLAKLDCAFYGIAPQVACLT-------VIFQFFIP 282 (284)
Q Consensus 234 ~~~~~~~V~Vd~k~l~~~L~~~~~~p~~~~c~I~~~~~~~~-------~~l~y~iP 282 (284)
...+.++....+|-|..|...-.+ -+.|-+.+.++.-+.+ ..++||+.
T Consensus 72 ~~~~~~~~~fsl~YL~~~~Ka~~l-s~~V~l~l~~~~Pl~l~f~~~~~g~l~f~LA 126 (128)
T PF02747_consen 72 EVKEPVSSSFSLDYLNDFSKAAPL-SDEVTLELGEDMPLKLEFELADGGSLKFYLA 126 (128)
T ss_dssp EESSEEEEEEEHHHHHHHGGGGGT-TSEEEEEEETTSEEEEEEEETTTEEEEEEE-
T ss_pred eeccceeeEEeHHHHHhhhccccC-CceEEEEEcCCCCEEEEEEeCCCeEEEEEEc
Confidence 111357778999999999866544 3577778888776665 56788774
No 15
>PF02747 PCNA_C: Proliferating cell nuclear antigen, C-terminal domain; InterPro: IPR022649 Proliferating cell nuclear antigen (PCNA), or cyclin, is a non-histone acidic nuclear protein [] that plays a key role in the control of eukaryotic DNA replication []. It acts as a co-factor for DNA polymerase delta, which is responsible for leading strand DNA replication []. The sequence of PCNA is well conserved between plants and animals, indicating a strong selective pressure for structure conservation, and suggesting that this type of DNA replication mechanism is conserved throughout eukaryotes []. In Saccharomyces cerevisiae (Baker's yeast), POL30, is associated with polymerase III, the yeast analog of polymerase delta. Homologues of PCNA have also been identified in the archaea (Euryarchaeota and Crenarchaeota) and in Paramecium bursaria Chlorella virus 1 (PBCV-1) and in nuclear polyhedrosis viruses. ; GO: 0003677 DNA binding, 0030337 DNA polymerase processivity factor activity, 0006275 regulation of DNA replication, 0043626 PCNA complex; PDB: 1IZ5_A 1IZ4_A 1GE8_A 1ISQ_A 3A2F_B 1RWZ_A 3P83_A 1RXM_A 1RXZ_A 1SXJ_F ....
Probab=88.29 E-value=7.3 Score=31.63 Aligned_cols=106 Identities=13% Similarity=0.198 Sum_probs=67.4
Q ss_pred eeeEEecccchhhHHHhHHHHHHhcCCeEEEEEeCCEEEEEeccCCCCceEEEEEEccC-CCcC-ceEeeecCCCeEEEE
Q 038838 2 KFKAFLTENGVNLLEKRFLPVLDKMGKVCHLFLTREKAYFLPNLLSGEGIQCVAQFHKE-TLFG-DYRISSQIEDCIAFA 79 (284)
Q Consensus 2 kFrA~i~d~~~~~lf~~~~~~i~kl~K~cvlrlt~~~l~~i~~~~~~~g~qvW~~l~~~-~~F~-~y~i~S~~~N~I~le 79 (284)
.|-|++.=.. ..|++++.-++.++..+.+..+++.+.|...++. ...=..+... ...+ +-.++-..++.+..+
T Consensus 6 e~~~~v~m~S--~~f~~~~kdl~~v~d~v~i~~~~~~~~f~~~Gd~---~~~~v~~~~~~~~~~~~~~~~i~~~~~~~~~ 80 (128)
T PF02747_consen 6 EYDATVTMPS--SEFKKICKDLSSVGDTVTISADKDSVIFSAEGDI---GSAEVEFKETESSEDDEELIEIEVKEPVSSS 80 (128)
T ss_dssp S-SEEEEEEH--HHHHHHHHHHHTTCSEEEEEEETTEEEEEEEESS---EEEEEEEEEEEEETTCTCESEEEESSEEEEE
T ss_pred cceEEEEEEH--HHHHHHHHHHHhcCCEEEEEEeCCEEEEEEEecc---CcEEEEEeeccccccccccceeeeccceeeE
Confidence 3555555333 4569999999999999999999999999886642 1221122111 0111 111111223557778
Q ss_pred Eeccccc---CcC-CCceeEEEEeecCCCCCCCCcce-EEEEEecc
Q 038838 80 IDISLLQ---PGS-AANCLQIKLVKKLPPNCTQAMPF-LTFETKGY 120 (284)
Q Consensus 80 ~~~~~L~---sa~-~a~~~~ikL~kk~~~~~~~~~P~-Ls~~~~g~ 120 (284)
.+.+.|. .+. -++.++|+|.... |+ |.|.+.+.
T Consensus 81 fsl~YL~~~~Ka~~ls~~V~l~l~~~~--------Pl~l~f~~~~~ 118 (128)
T PF02747_consen 81 FSLDYLNDFSKAAPLSDEVTLELGEDM--------PLKLEFELADG 118 (128)
T ss_dssp EEHHHHHHHGGGGGTTSEEEEEEETTS--------EEEEEEEETTT
T ss_pred EeHHHHHhhhccccCCceEEEEEcCCC--------CEEEEEEeCCC
Confidence 8888888 333 4889999999875 75 78887643
No 16
>TIGR00590 pcna proliferating cell nuclear antigen (pcna). All proteins in this family for which functions are known form sliding DNA clamps that are used in DNA replication processes. This family is based on the phylogenomic analysis of JA Eisen (1999, Ph.D. Thesis, Stanford University).
Probab=71.29 E-value=82 Score=28.74 Aligned_cols=103 Identities=10% Similarity=0.153 Sum_probs=63.9
Q ss_pred eeEEecccchhhHHHhHHHHHHhcCCeEEEEEeCCEEEEEeccCCCCceEEEEEEccC--CCcCceEeeecCCCeEEEEE
Q 038838 3 FKAFLTENGVNLLEKRFLPVLDKMGKVCHLFLTREKAYFLPNLLSGEGIQCVAQFHKE--TLFGDYRISSQIEDCIAFAI 80 (284)
Q Consensus 3 FrA~i~d~~~~~lf~~~~~~i~kl~K~cvlrlt~~~l~~i~~~~~~~g~qvW~~l~~~--~~F~~y~i~S~~~N~I~le~ 80 (284)
|.|++.=.. ..|++++.-++.++..+.+..+++.+.|...++. ...-..++.+ ..-++=.++-...+.+.-..
T Consensus 133 ~~~~v~m~s--~~f~~~~kdl~~v~d~v~i~~~~~~~~f~~~Gd~---g~~~~~~~~~~~~~~~~~~~~i~~~~~~~~~y 207 (259)
T TIGR00590 133 YDCVVEMPS--SEFARICRDLSQFSDSVVISCTKEGVKFSAKGDI---GSGNVKLKQTSDTDKEEEAVTIEMKEPVTLTF 207 (259)
T ss_pred eeEEEEEEH--HHHHHHHHHHHHcCCEEEEEEeCCEEEEEEEecc---cEEEEEEecCCCCCCCcceEEEEecCceeeee
Confidence 444444333 4458999999999999999999999999986642 2333344332 11111111111234455556
Q ss_pred eccccc---Cc-CCCceeEEEEeecCCCCCCCCcce-EEEEEe
Q 038838 81 DISLLQ---PG-SAANCLQIKLVKKLPPNCTQAMPF-LTFETK 118 (284)
Q Consensus 81 ~~~~L~---sa-~~a~~~~ikL~kk~~~~~~~~~P~-Ls~~~~ 118 (284)
..+.|. .+ .-|+.++|+|.... |+ |.|.+.
T Consensus 208 ~l~YL~~~~Ka~~ls~~V~l~~~~~~--------Pl~l~y~i~ 242 (259)
T TIGR00590 208 AIKYLNLFTKATPLSDRVTLSMSNDV--------PLVVEYKIK 242 (259)
T ss_pred eHHHHHHhhhhccCCCeEEEEEcCCC--------CEEEEEEeC
Confidence 666666 33 34788999999886 65 777775
No 17
>PTZ00483 proliferating cell nuclear antigen; Provisional
Probab=69.50 E-value=67 Score=29.61 Aligned_cols=90 Identities=14% Similarity=0.196 Sum_probs=58.0
Q ss_pred eeEEecccchhhHHHhHHHHHHhcCCeEEEEEeCCEEEEEeccCCCCceEEEEEEccCCCcCceEeeecCCCeEEEEE--
Q 038838 3 FKAFLTENGVNLLEKRFLPVLDKMGKVCHLFLTREKAYFLPNLLSGEGIQCVAQFHKETLFGDYRISSQIEDCIAFAI-- 80 (284)
Q Consensus 3 FrA~i~d~~~~~lf~~~~~~i~kl~K~cvlrlt~~~l~~i~~~~~~~g~qvW~~l~~~~~F~~y~i~S~~~N~I~le~-- 80 (284)
|.|+++=.. ..|++++.-++.++-.+.+..+++.+.|-..++. | ..-..++ .++..|.+++
T Consensus 139 ~~~~v~m~s--~~f~~i~kdl~~vsD~v~i~~~~~~v~f~a~Gd~--~-~~~~~l~------------~~~~~v~~~~~~ 201 (264)
T PTZ00483 139 YHCKCVMNS--KKFQEFAKYLHSIGDTVSISMKKDEMRLETEGEG--I-KASKQFH------------NDVGDVRVTSTE 201 (264)
T ss_pred ccEEEEEEH--HHHHHHHHHHHHcCCEEEEEEECCEEEEEEeecC--c-EEEEEEc------------cCCCceEEEecC
Confidence 344444333 4569999999999999999999999999987652 1 1112222 2222244443
Q ss_pred ------eccccc---CcC-CCceeEEEEeecCCCCCCCCcce-EEEEE
Q 038838 81 ------DISLLQ---PGS-AANCLQIKLVKKLPPNCTQAMPF-LTFET 117 (284)
Q Consensus 81 ------~~~~L~---sa~-~a~~~~ikL~kk~~~~~~~~~P~-Ls~~~ 117 (284)
.+..|. .+. -|+.++|+|.... |+ |.|.+
T Consensus 202 ~v~~~fsl~YL~~f~Ka~~lsd~V~i~l~~~~--------Pl~ley~i 241 (264)
T PTZ00483 202 SLSQEFATRYLVLFSKATSLADEVSINLSAGI--------PLSVKFNF 241 (264)
T ss_pred cchheehHHHHHHhhccccCCCeEEEEEcCCC--------CEEEEEEe
Confidence 333333 333 3789999998875 65 67776
No 18
>PRK01115 DNA polymerase sliding clamp; Validated
Probab=67.70 E-value=51 Score=29.30 Aligned_cols=79 Identities=8% Similarity=0.043 Sum_probs=56.4
Q ss_pred HHhHHHHHHhcCCeEEEEEeCCEEEEEeccCCCCceEEEEEEccCCCcCceEeeecCCCeEEEEEeccccc---CcCC-C
Q 038838 16 EKRFLPVLDKMGKVCHLFLTREKAYFLPNLLSGEGIQCVAQFHKETLFGDYRISSQIEDCIAFAIDISLLQ---PGSA-A 91 (284)
Q Consensus 16 f~~~~~~i~kl~K~cvlrlt~~~l~~i~~~~~~~g~qvW~~l~~~~~F~~y~i~S~~~N~I~le~~~~~L~---sa~~-a 91 (284)
|.+.+.-++-++..+.+.++++.+.|...+. +..........+ .|.+|..+ ..+...++...|. .+.. +
T Consensus 141 l~~~~~r~~~~~~~v~i~~~~~~l~lsa~~~--g~a~~~i~~~~~-~~~~~~g~----e~~~i~fn~~YL~d~lk~~~~~ 213 (247)
T PRK01115 141 LKDAIKDAELVSDHIELEADEDKFYIEAEGE--GEDEVELSLDSG-PLIELSVE----EPAKSSYSLDYLKDMVKATSAS 213 (247)
T ss_pred HHHHHHHHHhcCCeEEEEEeCCEEEEEEEeC--CceEEEEecCCC-ceEEEEec----CceeEEEhHHHHHHhhccccCC
Confidence 3688888888999999999999999987653 555665555544 44445553 2466788888888 4444 4
Q ss_pred ceeEEEEeec
Q 038838 92 NCLQIKLVKK 101 (284)
Q Consensus 92 ~~~~ikL~kk 101 (284)
+.++|++...
T Consensus 214 ~~V~l~~~~~ 223 (247)
T PRK01115 214 DEVTIEFGSD 223 (247)
T ss_pred CeEEEEECCC
Confidence 6899988664
No 19
>PHA03383 PCNA-like protein; Provisional
Probab=63.54 E-value=83 Score=28.94 Aligned_cols=91 Identities=10% Similarity=0.047 Sum_probs=59.3
Q ss_pred hHHHhHHHHHHhcCCeEEEEEeCCEEEEE----eccCCCCceEEEEEEccCCCcCceEeeecCCCeEEEEEeccccc---
Q 038838 14 LLEKRFLPVLDKMGKVCHLFLTREKAYFL----PNLLSGEGIQCVAQFHKETLFGDYRISSQIEDCIAFAIDISLLQ--- 86 (284)
Q Consensus 14 ~lf~~~~~~i~kl~K~cvlrlt~~~l~~i----~~~~~~~g~qvW~~l~~~~~F~~y~i~S~~~N~I~le~~~~~L~--- 86 (284)
..|++++.-++.++..+.+.-+++.+.|- ..++. ...=..+... ++=.+.....+.+...++++.|.
T Consensus 149 ~~f~~i~kdl~~igD~v~i~~~~~~v~f~~~~~~~Gd~---~~~~~~~~~~---~~~~v~~~~~~~~~~~ysl~YL~~~~ 222 (262)
T PHA03383 149 NYFQRLCRDMSNITDDLEITKKGKEVSFRSDYTCVTDF---ASQETIIGDS---DNGQITCNESPDYTGKFSLKYLTSFT 222 (262)
T ss_pred HHHHHHHHHHHHcCCeEEEEEeCCEEEEEEcccccccc---cceEEEecCC---CCCceEEecCCceEEEEeHHHHHHhh
Confidence 45699999999999999999999999998 43321 1111111111 00001212245577778888887
Q ss_pred CcC-CCceeEEEEeecCCCCCCCCcce-EEEEEe
Q 038838 87 PGS-AANCLQIKLVKKLPPNCTQAMPF-LTFETK 118 (284)
Q Consensus 87 sa~-~a~~~~ikL~kk~~~~~~~~~P~-Ls~~~~ 118 (284)
.+. -|+.++|+|.... |+ |.|.+.
T Consensus 223 Ka~~ls~~V~i~l~~d~--------Pl~ley~i~ 248 (262)
T PHA03383 223 KASGMSSSVEIYLKESN--------PLILKYNVG 248 (262)
T ss_pred ccccCCCeEEEEEcCCC--------CEEEEEEeC
Confidence 333 3889999999775 76 778874
No 20
>PTZ00113 proliferating cell nuclear antigen; Provisional
Probab=59.56 E-value=1.5e+02 Score=27.52 Aligned_cols=103 Identities=11% Similarity=0.114 Sum_probs=64.0
Q ss_pred eeEEecccchhhHHHhHHHHHHhcCCeEEEEEeCCEEEEEeccCCCCceEEEEEEccCC--CcCceEeeecCCCeEEEEE
Q 038838 3 FKAFLTENGVNLLEKRFLPVLDKMGKVCHLFLTREKAYFLPNLLSGEGIQCVAQFHKET--LFGDYRISSQIEDCIAFAI 80 (284)
Q Consensus 3 FrA~i~d~~~~~lf~~~~~~i~kl~K~cvlrlt~~~l~~i~~~~~~~g~qvW~~l~~~~--~F~~y~i~S~~~N~I~le~ 80 (284)
|.|+++=.. ..|++++.-++.++-.+.+..+++.+.|...++. ...=..++... -=++-.++-.-++.+...+
T Consensus 135 ~~~~v~m~s--~~f~~i~rdl~~vgd~V~i~~~~~~v~f~a~Gd~---g~~~i~l~~~~~~~~~~~~~~~~v~~~~~~~y 209 (275)
T PTZ00113 135 FDAEVTLSS--KELTNICRQMNEFSDTVKIEIDSNSIKFTTQGDL---GDGEVVLKPRPPTSEDDCGVTIKVRKPIKQSY 209 (275)
T ss_pred ccEEEEEEH--HHHHHHHHHHHHcCCEEEEEEeCCEEEEEEeccC---cEEEEEEecCCCCCCccceEEEEecCceeeEE
Confidence 445554333 4569999999999999999999999999986642 22233333220 0011112222234455555
Q ss_pred eccccc---CcC-CCceeEEEEeecCCCCCCCCcce-EEEEEe
Q 038838 81 DISLLQ---PGS-AANCLQIKLVKKLPPNCTQAMPF-LTFETK 118 (284)
Q Consensus 81 ~~~~L~---sa~-~a~~~~ikL~kk~~~~~~~~~P~-Ls~~~~ 118 (284)
+++.|. .+. -|+.++|.|.... |+ |.|.+.
T Consensus 210 sl~YL~~f~Ka~~ls~~V~l~l~~d~--------Pl~ley~i~ 244 (275)
T PTZ00113 210 ATKYLNMFAKSGCLSDVVTLGLSDNR--------PIEVKYEIK 244 (275)
T ss_pred hHHHHHHhhccccCCCeEEEEEcCCC--------CEEEEEEec
Confidence 666666 333 3788999998876 65 777774
No 21
>PF02144 Rad1: Repair protein Rad1/Rec1/Rad17; InterPro: IPR003021 REC1 of Ustilago maydis plays a key role in regulating the genetic system of the fungus. REC1 mutants are very sensitive to UV light. Mutation leads to a complex phenotype with alterations in DNA repair, recombination, mutagenesis, meiosis and cell division []. The predicted product of the REC1 gene is a polypeptide of 522 amino acid residues with molecular mass 57kDa. The protein shows 3'--5' exonuclease activity, but only in cells over-expressing REC1 []. While it is distinguishable from the major bacterial nucleases, the protein has certain enzymatic features in common with epsilon, the proof-reading exonuclease subunit of Escherichia coli DNA polymerase III holoenzyme []. The rad1 gene of Schizosaccharomyces pombe comprises three exons and encodes a 37kDa protein that exhibits partial similarity to the REC1 gene of U. maydis []. The two genes share putative functional similarities in their respective organisms.; GO: 0003684 damaged DNA binding, 0008853 exodeoxyribonuclease III activity, 0006281 DNA repair, 0005634 nucleus; PDB: 3G65_B 3GGR_C 3A1J_C.
Probab=54.57 E-value=1.8e+02 Score=26.80 Aligned_cols=144 Identities=15% Similarity=0.140 Sum_probs=76.0
Q ss_pred eEEEEEeCCE--EEEEeccCCCCceEEEEEEccCCCcCceEeeecCCCeEEEEE--eccccc------CcCCCceeEEEE
Q 038838 29 VCHLFLTREK--AYFLPNLLSGEGIQCVAQFHKETLFGDYRISSQIEDCIAFAI--DISLLQ------PGSAANCLQIKL 98 (284)
Q Consensus 29 ~cvlrlt~~~--l~~i~~~~~~~g~qvW~~l~~~~~F~~y~i~S~~~N~I~le~--~~~~L~------sa~~a~~~~ikL 98 (284)
.|.|.-..+- +.++..+ +|+-.-|++..-.--+...+.-. .+.+.+++ ..+.|. ...+++.+.|.+
T Consensus 120 ~~~lsY~g~G~pL~l~led---~gv~t~c~i~T~~~~~~~d~~f~-~~~~~~kiimks~~L~~al~eL~~~~~~~l~i~~ 195 (275)
T PF02144_consen 120 SCRLSYPGEGSPLVLILED---SGVTTTCEIRTYEPDDPLDFPFD-RSDVVNKIIMKSDWLRDALSELDWSNSEELTIYI 195 (275)
T ss_dssp EEEEEESSSCCEEEEEEEE---TTEEEEEEEEEE------------TTTEEEEEEEEHHHHHHHHHTT-TS-CSEEEEEE
T ss_pred eEEEEEcCCCCeEEEEEEe---CCEEEEEEEEEecCCcccCcccc-cccceeEEEEEhHHHHHHHHHHhhccCCeEEEEE
Confidence 5777666554 4444444 78888899987433344444422 34455555 345555 344688999999
Q ss_pred eecCCCCCCCCcceEEEEEecceeEEEEeccCCcccCHHHHhhhhhhhhccCCCCCeEEecCChhhHhHHHHhhhhcCCE
Q 038838 99 VKKLPPNCTQAMPFLTFETKGYKSAVIQDVPISKPLSRAQVLELQTALDMAQDLPPTLVQVPDLNQLQNFVDWMKHVGDL 178 (284)
Q Consensus 99 ~kk~~~~~~~~~P~Ls~~~~g~~~~v~hdIPV~kvl~~~~~~~~~eP~~~~~~~p~~~i~LP~l~~l~~ivdR~k~ls~~ 178 (284)
...+ .|.|+|..+|.--...-|+|-.+ .-++.++--.. ..+...-| .+..++.+..=|+ +|..
T Consensus 196 s~~~-------~p~f~l~s~G~~G~s~v~fp~~~----~~le~f~~~~~---~~~~~~~Y--~f~~i~~~~kAl~-~ssK 258 (275)
T PF02144_consen 196 SPPD-------KPHFRLSSKGPLGSSKVDFPNDS----DVLETFECYDG---EEPVISRY--KFSLIKKAMKALK-ISSK 258 (275)
T ss_dssp -S-S-------SSSEEEEEEETTEEEEEEE-TTS----TSEEEEEE-------S-EEEEE--EHHHHCCHHHHHT-TSSE
T ss_pred EeCC-------CCEEEEEEEcCCCeEEEEECCCC----CceeEEEEecc---CceEEEEE--eHHHHHHHHHHhh-hccE
Confidence 9853 39999999976545777888752 11122210000 11122212 2334444443343 5899
Q ss_pred EEEEEEcCCceEEEE
Q 038838 179 VNVSICKYRDLHLQI 193 (284)
Q Consensus 179 v~i~an~~G~L~L~v 193 (284)
+.|+.+.+|-|.++.
T Consensus 259 v~ir~d~~GlLs~Q~ 273 (275)
T PF02144_consen 259 VSIRIDENGLLSLQF 273 (275)
T ss_dssp EEEEEESSS-EEEEE
T ss_pred EEEEeCCCcEEEEEE
Confidence 999999999998864
No 22
>PLN00057 proliferating cell nuclear antigen; Provisional
Probab=51.68 E-value=1.9e+02 Score=26.38 Aligned_cols=94 Identities=13% Similarity=0.200 Sum_probs=61.0
Q ss_pred hHHHhHHHHHHhcCCeEEEEEeCCEEEEEeccCCCCceEEEEEEccCCC--cCceEeeecCCCeEEEEEeccccc---Cc
Q 038838 14 LLEKRFLPVLDKMGKVCHLFLTREKAYFLPNLLSGEGIQCVAQFHKETL--FGDYRISSQIEDCIAFAIDISLLQ---PG 88 (284)
Q Consensus 14 ~lf~~~~~~i~kl~K~cvlrlt~~~l~~i~~~~~~~g~qvW~~l~~~~~--F~~y~i~S~~~N~I~le~~~~~L~---sa 88 (284)
..|++++.-++.++-.+.+..+++.+.|...++. ...-..++.+.- -.+=.++....+.+.-..+.+.|. .+
T Consensus 142 ~~f~~~~kdl~~vsd~v~i~~~~~~~~f~~~Gd~---g~~~~~l~~~~~~~~~~~~~~i~~~e~~~~~y~l~YL~~~~Ka 218 (263)
T PLN00057 142 AEFQRICKDLSSIGDTVVISVTKEGVKFSTSGDI---GTANIVLRQNTTVDKPEEKTVIEMQEPVSLTFALRYLNSFTKA 218 (263)
T ss_pred HHHHHHHHHHHHcCCEEEEEEeCCEEEEEEEecC---cEEEEEEecCCCCCCccceEEEEecCceEEEEhHHHHHHhhcc
Confidence 3458999999999999999999999999986642 223444443210 010012212334556666777666 33
Q ss_pred C-CCceeEEEEeecCCCCCCCCcce-EEEEEe
Q 038838 89 S-AANCLQIKLVKKLPPNCTQAMPF-LTFETK 118 (284)
Q Consensus 89 ~-~a~~~~ikL~kk~~~~~~~~~P~-Ls~~~~ 118 (284)
. -|+.++|++.... |+ |.|.+.
T Consensus 219 ~~ls~~V~i~~~~~~--------Pl~l~y~l~ 242 (263)
T PLN00057 219 TPLSDTVTLSLSKEL--------PVVVEYKIA 242 (263)
T ss_pred ccCCCeEEEEEcCCC--------CEEEEEEeC
Confidence 3 4788999999886 65 777774
No 23
>PF02768 DNA_pol3_beta_3: DNA polymerase III beta subunit, C-terminal domain; InterPro: IPR022635 This entry describes the C-terminal domain of the beta chain of DNA polymerase III. This is a complex, multichain enzyme responsible for most of the replicative synthesis in bacteria. The beta chain is required for initiation of replication from an RNA primer, nucleotide triphosphate (dNTP) residues being added to the 5'-end of the growing DNA chain.; GO: 0003677 DNA binding, 0003887 DNA-directed DNA polymerase activity, 0008408 3'-5' exonuclease activity, 0006260 DNA replication, 0009360 DNA polymerase III complex; PDB: 3P16_A 3RB9_B 2AVT_B 2XUR_B 3Q4K_A 3BEP_A 3D1G_A 1UNN_B 3Q4J_D 2POL_A ....
Probab=45.79 E-value=1.5e+02 Score=23.29 Aligned_cols=64 Identities=9% Similarity=0.083 Sum_probs=43.4
Q ss_pred CeEEEEEeCCEEEEEeccCCCCceEEEEEEccCCCcCceEeeecCCCeEEEEEeccccc---CcCCCceeEEEEeecCC
Q 038838 28 KVCHLFLTREKAYFLPNLLSGEGIQCVAQFHKETLFGDYRISSQIEDCIAFAIDISLLQ---PGSAANCLQIKLVKKLP 103 (284)
Q Consensus 28 K~cvlrlt~~~l~~i~~~~~~~g~qvW~~l~~~~~F~~y~i~S~~~N~I~le~~~~~L~---sa~~a~~~~ikL~kk~~ 103 (284)
+.+.|.|+++++.+-.... +..+..-+++.+ |. ++.+.+-++...|. .+..+..+.|+++....
T Consensus 35 ~~v~l~~~~~~l~l~~~~~--~~g~~~e~i~~~-----~~-----g~~~~i~fN~~yL~d~L~~~~~~~V~l~~~~~~~ 101 (121)
T PF02768_consen 35 NPVKLSFSDNQLTLSSQSS--EIGEAEEEIPIE-----YE-----GEPLEIAFNPKYLLDALKAIDGEEVTLEFSDPSS 101 (121)
T ss_dssp GEEEEEEETTEEEEEEEET--TTEEEEEEEE-E-----EE-----ES-EEEEEEHHHHHHHHHCC-SSEEEEEESSTTS
T ss_pred ceEEEEEECCEEEEEEcCC--CCceEEEEEeee-----ec-----CCceEEEECHHHHHHHHhhcCCCEEEEEEcCCCC
Confidence 5788999999999987543 233444444433 22 56788889999998 55567788888877753
No 24
>KOG1636 consensus DNA polymerase delta processivity factor (proliferating cell nuclear antigen) [Replication, recombination and repair]
Probab=29.43 E-value=4.5e+02 Score=24.12 Aligned_cols=89 Identities=13% Similarity=0.159 Sum_probs=57.8
Q ss_pred eeEEecccchhhHHHhHHHHHHhcCCeEEEEEeCCEEEEEeccCCCCceEEEEEEccCCCcCceEeeecCCCeEEEEEe-
Q 038838 3 FKAFLTENGVNLLEKRFLPVLDKMGKVCHLFLTREKAYFLPNLLSGEGIQCVAQFHKETLFGDYRISSQIEDCIAFAID- 81 (284)
Q Consensus 3 FrA~i~d~~~~~lf~~~~~~i~kl~K~cvlrlt~~~l~~i~~~~~~~g~qvW~~l~~~~~F~~y~i~S~~~N~I~le~~- 81 (284)
|-|.++=+. ..|.+++.-++.++-.+++--|.+.+.|...++.++|.-...+...- ..++..|.+|++
T Consensus 133 y~~~~~mPa--~EF~ricrdls~f~Dsv~I~~tkegv~F~~~Gdig~asi~l~~~~~~---------d~~e~av~iE~~~ 201 (260)
T KOG1636|consen 133 YDAVVTMPA--GEFSRICRDLSTFSDSVVISATKEGVKFSAKGDIGTASITLSQCTAV---------DKPEEAVKIEMNE 201 (260)
T ss_pred ceEEEEccH--HHHHHHHHHHhhhcCeEEEEEecceeEEEecccccceeEEEccCCCC---------CCccceEEEEecC
Confidence 334454443 45689999999999999999999999999988765554333333211 233445555553
Q ss_pred -------ccccc--CcC--CCceeEEEEeecC
Q 038838 82 -------ISLLQ--PGS--AANCLQIKLVKKL 102 (284)
Q Consensus 82 -------~~~L~--sa~--~a~~~~ikL~kk~ 102 (284)
+..|. ..+ -++.|+|.|....
T Consensus 202 pVtltfa~kYln~ftKatpLs~rV~lsls~~~ 233 (260)
T KOG1636|consen 202 PVTLTFALKYLNQFTKATPLSDRVTLSLSSEV 233 (260)
T ss_pred cchhhhHHHHHHHhhccccccceEEEEecCCC
Confidence 22222 122 2788999998876
No 25
>PF04446 Thg1: tRNAHis guanylyltransferase; InterPro: IPR007537 The Thg1 protein from Saccharomyces cerevisiae (Baker's yeast) is responsible for adding a GMP residue to the 5' end of tRNA His [].; PDB: 3OTE_A 3OTC_A 3OTD_A 3OTB_A.
Probab=25.23 E-value=51 Score=27.39 Aligned_cols=23 Identities=17% Similarity=0.117 Sum_probs=19.4
Q ss_pred CCCeEEEEEechhhhhhcccccc
Q 038838 235 RGDAQSVQVSVKHFSKSLQCHLA 257 (284)
Q Consensus 235 ~~~~~~V~Vd~k~l~~~L~~~~~ 257 (284)
+..+.-||+|+|.|.+|...+.+
T Consensus 18 p~~~ivvRiDG~~F~kft~~~~f 40 (135)
T PF04446_consen 18 PNTPIVVRIDGRGFHKFTKRHGF 40 (135)
T ss_dssp TTSEEEEEEEETTHHHHHHHTT-
T ss_pred CCCeEEEEEeCcchhhhcccCCC
Confidence 44799999999999999988654
No 26
>PF14699 hGDE_N: N-terminal domain from the human glycogen debranching enzyme
Probab=24.54 E-value=1.9e+02 Score=21.95 Aligned_cols=45 Identities=20% Similarity=0.231 Sum_probs=28.2
Q ss_pred EEEEecc-CCCCceEEEEEEccCC-CcC-----ceEeeecCCCeEEEEEecc
Q 038838 39 AYFLPNL-LSGEGIQCVAQFHKET-LFG-----DYRISSQIEDCIAFAIDIS 83 (284)
Q Consensus 39 l~~i~~~-~~~~g~qvW~~l~~~~-~F~-----~y~i~S~~~N~I~le~~~~ 83 (284)
|+|...+ ..+..+.+|+-+|.+. -|+ ++.+++..+..|++++++.
T Consensus 2 lrf~~g~S~~~r~g~l~tN~P~~g~~F~R~~f~~~~~~~~~~~d~~idi~i~ 53 (86)
T PF14699_consen 2 LRFVLGASLIGRNGSLWTNYPPEGEPFDRDKFRELKWESSFDKDIYIDIPIY 53 (86)
T ss_pred EEEEeCCcccCCceEEEEECCCCCCccccCceEEeeccCCCCcCeEEEEEcc
Confidence 4555322 2567789999998753 455 4555565566677776553
No 27
>KOG2810 consensus Checkpoint 9-1-1 complex, RAD9 component [Cell cycle control, cell division, chromosome partitioning; Replication, recombination and repair]
Probab=21.11 E-value=90 Score=30.59 Aligned_cols=59 Identities=17% Similarity=0.264 Sum_probs=42.0
Q ss_pred ecccchhhHHHhHHHHHHhcCCeEEEEEeCCEEEEEe-ccCCCCceEEEEEEccCCCcCceEee
Q 038838 7 LTENGVNLLEKRFLPVLDKMGKVCHLFLTREKAYFLP-NLLSGEGIQCVAQFHKETLFGDYRIS 69 (284)
Q Consensus 7 i~d~~~~~lf~~~~~~i~kl~K~cvlrlt~~~l~~i~-~~~~~~g~qvW~~l~~~~~F~~y~i~ 69 (284)
+...+...+ .+.+..++|+++...|-.+|..+.+-. +.. .. -.-|-.-.+.+|+.|.++
T Consensus 5 vs~~nlr~l-Arai~sLSri~~ev~iev~~~~l~l~t~N~s-rS--a~~~~~f~~~FF~~ydf~ 64 (394)
T KOG2810|consen 5 VSGSNLRVL-ARAIVSLSRIGEEVTIEVSPLGLCLKTVNES-RS--AFSCATFKEMFFGVYDFQ 64 (394)
T ss_pred eccchhHHH-HHHhhhHhhhcceeEEEEcCCeeEEEecccc-cc--hhhhhhhhHhhccchhcC
Confidence 444445566 799999999999999999999999985 332 11 122223345689999987
Done!