Query 035625
Match_columns 954
No_of_seqs 446 out of 1176
Neff 6.5
Searched_HMMs 46136
Date Fri Mar 29 04:42:21 2013
Command hhsearch -i /work/01045/syshi/csienesis_hhblits_a3m/035625.a3m -d /work/01045/syshi/HHdatabase/Cdd.hhm -o /work/01045/syshi/hhsearch_cdd/035625hhsearch_cdd -cpu 12 -v 0
No Hit Prob E-value P-value Score SS Cols Query HMM Template HMM
1 PLN03123 poly [ADP-ribose] pol 100.0 2E-236 3E-241 2127.9 84.5 945 1-954 1-981 (981)
2 PLN03122 Poly [ADP-ribose] pol 100.0 7E-185 2E-189 1643.7 63.5 708 220-954 58-808 (815)
3 PLN03124 poly [ADP-ribose] pol 100.0 7E-132 2E-136 1158.5 46.7 484 452-954 141-642 (643)
4 cd01437 parp_like Poly(ADP-rib 100.0 8.8E-93 1.9E-97 789.3 30.3 340 604-949 1-347 (347)
5 KOG1037 NAD+ ADP-ribosyltransf 100.0 4.4E-64 9.5E-69 585.1 12.1 455 477-953 61-524 (531)
6 PF00644 PARP: Poly(ADP-ribose 100.0 1.2E-44 2.5E-49 380.4 11.8 206 738-950 1-206 (206)
7 cd01438 tankyrase_like Tankyra 100.0 6E-37 1.3E-41 318.7 15.3 181 737-950 13-220 (223)
8 PF02877 PARP_reg: Poly(ADP-ri 100.0 1.7E-32 3.6E-37 268.3 13.6 128 604-736 1-133 (133)
9 cd08003 WGR_PARP2_like WGR dom 100.0 3.3E-31 7.2E-36 246.4 11.6 101 477-589 1-103 (103)
10 cd08001 WGR_PARP1_like WGR dom 99.9 9.7E-28 2.1E-32 225.2 11.9 100 476-579 1-101 (104)
11 cd08002 WGR_PARP3_like WGR dom 99.9 3.6E-27 7.9E-32 218.6 11.0 97 475-589 2-100 (100)
12 cd07997 WGR_PARP WGR domain of 99.9 3.5E-25 7.5E-30 207.1 11.0 97 478-579 2-99 (102)
13 cd01439 TCCD_inducible_PARP_li 99.9 4.3E-25 9.3E-30 212.6 9.1 112 801-948 1-121 (121)
14 cd01341 ADP_ribosyl ADP_ribosy 99.9 1.5E-24 3.3E-29 213.6 7.2 119 801-944 1-137 (137)
15 PF00645 zf-PARP: Poly(ADP-rib 99.9 2.3E-23 4.9E-28 187.4 5.6 78 11-88 1-82 (82)
16 PF08063 PADR1: PADR1 (NUC008) 99.9 1.9E-22 4.1E-27 166.0 2.7 53 260-312 1-54 (55)
17 smart00773 WGR Proposed nuclei 99.7 4.1E-17 8.9E-22 147.5 10.2 77 482-561 2-79 (84)
18 PF00645 zf-PARP: Poly(ADP-rib 99.7 3E-17 6.5E-22 147.7 2.6 74 109-182 1-81 (82)
19 PF05406 WGR: WGR domain; Int 99.7 2.5E-16 5.4E-21 141.4 8.5 78 483-568 2-80 (81)
20 PLN03123 poly [ADP-ribose] pol 99.6 2.6E-16 5.6E-21 194.9 7.8 86 4-92 103-188 (981)
21 cd07994 WGR WGR domain. The WG 99.6 4.1E-15 8.8E-20 130.7 8.8 69 488-559 2-71 (73)
22 cd07996 WGR_MMR_like WGR domai 99.1 1.1E-10 2.4E-15 103.0 8.2 69 488-559 2-71 (74)
23 KOG1037 NAD+ ADP-ribosyltransf 99.1 4.5E-11 9.7E-16 141.2 6.3 308 2-313 3-419 (531)
24 KOG4437 ATP-dependent DNA liga 99.1 4.3E-12 9.3E-17 135.9 -4.2 85 5-90 3-96 (482)
25 KOG4437 ATP-dependent DNA liga 98.5 9.9E-09 2.1E-13 110.5 -1.2 79 104-183 4-94 (482)
26 PF00533 BRCT: BRCA1 C Terminu 98.1 7.7E-06 1.7E-10 71.7 6.4 67 366-433 3-78 (78)
27 COG3831 Uncharacterized conser 98.1 1.2E-05 2.6E-10 71.8 7.3 66 486-559 1-67 (85)
28 smart00292 BRCT breast cancer 98.0 1.9E-05 4.2E-10 68.3 7.3 68 367-435 1-79 (80)
29 cd00027 BRCT Breast Cancer Sup 98.0 2.1E-05 4.6E-10 66.5 6.9 62 371-434 1-72 (72)
30 PF12738 PTCB-BRCT: twin BRCT 97.5 0.00014 3.1E-09 61.9 4.3 54 372-428 1-63 (63)
31 cd07998 WGR_DNA_ligase WGR dom 97.3 0.0015 3.2E-08 58.0 8.3 59 498-559 11-72 (77)
32 KOG3226 DNA repair protein [Re 96.4 0.0024 5.2E-08 70.7 3.7 83 362-447 311-402 (508)
33 PRK06063 DNA polymerase III su 96.1 0.016 3.5E-07 65.4 8.0 68 366-434 229-306 (313)
34 PRK06195 DNA polymerase III su 95.1 0.055 1.2E-06 61.0 7.7 68 366-433 218-306 (309)
35 PRK14350 ligA NAD-dependent DN 95.0 0.044 9.5E-07 67.6 7.1 66 366-434 591-666 (669)
36 PRK07956 ligA NAD-dependent DN 94.1 0.11 2.3E-06 64.4 7.5 65 367-434 589-663 (665)
37 COG0272 Lig NAD-dependent DNA 92.9 0.21 4.5E-06 60.8 7.1 67 367-433 593-666 (667)
38 PRK14351 ligA NAD-dependent DN 92.9 0.22 4.9E-06 61.8 7.6 68 366-435 607-684 (689)
39 TIGR00575 dnlj DNA ligase, NAD 92.1 0.24 5.3E-06 61.2 6.5 60 366-428 582-651 (652)
40 PF02037 SAP: SAP domain; Int 82.4 1.7 3.7E-05 32.8 3.4 32 236-267 3-34 (35)
41 smart00513 SAP Putative DNA-bi 81.2 2.6 5.7E-05 31.7 4.0 32 236-267 3-34 (35)
42 KOG1929 Nucleotide excision re 79.5 2.6 5.6E-05 53.0 5.5 82 365-448 100-190 (811)
43 PRK05601 DNA polymerase III su 78.4 5.3 0.00012 46.0 7.1 63 368-430 294-365 (377)
44 smart00778 Prim_Zn_Ribbon Zinc 78.2 1.5 3.3E-05 33.7 1.9 22 272-293 2-29 (37)
45 KOG2043 Signaling protein SWIF 77.9 3 6.4E-05 53.3 5.4 74 372-447 660-739 (896)
46 KOG1929 Nucleotide excision re 75.6 3.2 7E-05 52.2 4.8 79 366-447 491-578 (811)
47 PF13151 DUF3990: Protein of u 75.1 2.3 4.9E-05 43.2 2.8 61 800-869 1-61 (154)
48 PF15633 Tox-ART-HYD1: HYD1 si 74.9 1.3 2.8E-05 41.3 0.8 40 802-843 1-40 (96)
49 KOG0966 ATP-dependent DNA liga 74.7 4.8 0.0001 49.8 5.8 82 363-446 628-721 (881)
50 COG5275 BRCT domain type II [G 74.2 5.9 0.00013 41.8 5.5 70 366-435 154-231 (276)
51 PF08273 Prim_Zn_Ribbon: Zinc- 73.6 1.5 3.3E-05 34.3 0.8 22 272-293 2-30 (40)
52 COG2824 PhnA Uncharacterized Z 72.9 2.9 6.3E-05 39.3 2.6 30 272-301 2-32 (112)
53 PF01396 zf-C4_Topoisom: Topoi 70.6 4.8 0.0001 31.2 3.0 31 274-308 2-36 (39)
54 KOG4177 Ankyrin [Cell wall/mem 70.1 1.3 2.8E-05 57.4 -0.4 141 744-893 963-1131(1143)
55 PF03119 DNA_ligase_ZBD: NAD-d 68.0 4.9 0.00011 29.0 2.3 21 275-295 1-23 (28)
56 PRK10220 hypothetical protein; 66.3 4.8 0.0001 38.1 2.6 30 272-301 2-32 (111)
57 TIGR00686 phnA alkylphosphonat 62.1 6.4 0.00014 37.3 2.6 30 273-302 2-32 (109)
58 PRK08665 ribonucleotide-diphos 59.8 11 0.00024 47.7 5.0 28 274-303 725-752 (752)
59 KOG4362 Transcriptional regula 59.5 17 0.00037 44.9 6.3 77 371-447 478-563 (684)
60 PF11781 RRN7: RNA polymerase 57.4 10 0.00022 29.0 2.5 22 271-292 6-28 (36)
61 PRK00420 hypothetical protein; 53.2 9.1 0.0002 36.8 2.1 39 256-294 3-45 (112)
62 PF00412 LIM: LIM domain; Int 48.3 11 0.00023 31.0 1.6 28 118-153 1-28 (58)
63 COG1645 Uncharacterized Zn-fin 46.6 17 0.00038 35.8 2.9 44 251-294 3-49 (131)
64 PF08274 PhnA_Zn_Ribbon: PhnA 45.3 13 0.00028 27.4 1.3 27 273-299 2-29 (30)
65 PRK14724 DNA topoisomerase III 45.0 16 0.00035 47.7 3.1 33 273-305 755-791 (987)
66 PRK00819 RNA 2'-phosphotransfe 44.7 8.4 0.00018 40.2 0.5 22 800-821 95-116 (179)
67 PRK08173 DNA topoisomerase III 44.5 18 0.00039 46.7 3.4 35 272-306 725-759 (862)
68 smart00132 LIM Zinc-binding do 43.1 14 0.0003 27.3 1.4 29 117-153 1-29 (39)
69 TIGR03655 anti_R_Lar restricti 41.9 16 0.00034 30.2 1.6 10 273-282 1-10 (53)
70 COG1571 Predicted DNA-binding 40.0 14 0.00031 43.1 1.4 41 272-323 349-390 (421)
71 PRK08173 DNA topoisomerase III 36.7 18 0.0004 46.5 1.8 26 274-306 625-650 (862)
72 PF07295 DUF1451: Protein of u 35.8 18 0.0004 36.4 1.3 45 237-281 87-138 (146)
73 KOG3548 DNA damage checkpoint 33.0 27 0.00058 44.3 2.3 35 413-447 1002-1036(1176)
74 PRK09710 lar restriction allev 33.0 39 0.00085 29.3 2.6 16 268-283 1-16 (64)
75 PRK11032 hypothetical protein; 32.3 23 0.00049 36.3 1.3 43 239-281 101-150 (160)
76 cd04476 RPA1_DBD_C RPA1_DBD_C: 29.5 28 0.00061 35.4 1.4 32 273-311 34-66 (166)
77 PRK14724 DNA topoisomerase III 29.4 32 0.00069 45.1 2.2 33 274-306 644-676 (987)
78 PF01885 PTS_2-RNA: RNA 2'-pho 28.0 26 0.00056 36.8 0.9 34 799-842 105-138 (186)
79 COG2888 Predicted Zn-ribbon RN 27.0 43 0.00093 28.6 1.8 20 273-292 27-53 (61)
80 cd01436 Dipth_tox_like Mono-AD 26.9 28 0.0006 33.7 0.8 47 803-853 3-52 (147)
81 COG1656 Uncharacterized conser 25.6 45 0.00099 34.2 2.1 49 256-304 76-135 (165)
82 PRK00432 30S ribosomal protein 24.1 44 0.00096 27.5 1.4 21 273-293 20-41 (50)
83 PF13408 Zn_ribbon_recom: Reco 23.7 67 0.0015 26.3 2.5 35 270-304 2-41 (58)
84 PF12949 HeH: HeH/LEM domain; 23.3 69 0.0015 24.5 2.1 29 236-264 3-33 (35)
85 COG2835 Uncharacterized conser 23.3 64 0.0014 27.6 2.2 20 273-292 8-29 (60)
86 PF08271 TF_Zn_Ribbon: TFIIB z 22.9 79 0.0017 24.8 2.6 19 275-293 2-23 (43)
87 PRK08332 ribonucleotide-diphos 22.7 51 0.0011 45.3 2.3 28 275-304 1706-1739(1740)
88 COG1859 KptA RNA:NAD 2'-phosph 22.6 42 0.00091 35.8 1.2 24 798-821 119-142 (211)
89 PRK10445 endonuclease VIII; Pr 22.4 58 0.0013 36.0 2.3 27 267-293 228-259 (263)
90 PRK11827 hypothetical protein; 22.2 58 0.0013 27.9 1.7 20 274-293 9-30 (60)
91 PRK01103 formamidopyrimidine/5 21.6 62 0.0014 35.9 2.4 28 267-294 238-270 (274)
92 PF07191 zinc-ribbons_6: zinc- 21.1 83 0.0018 27.8 2.5 22 275-296 3-24 (70)
93 PF08792 A2L_zn_ribbon: A2L zi 21.0 78 0.0017 23.8 2.0 21 273-293 3-25 (33)
94 PF06906 DUF1272: Protein of u 20.9 55 0.0012 27.6 1.3 20 262-284 33-52 (57)
95 TIGR01057 topA_arch DNA topois 20.1 64 0.0014 40.2 2.3 23 273-295 589-615 (618)
No 1
>PLN03123 poly [ADP-ribose] polymerase; Provisional
Probab=100.00 E-value=1.6e-236 Score=2127.90 Aligned_cols=945 Identities=77% Similarity=1.239 Sum_probs=858.4
Q ss_pred CCCCCCCcEEEEcccCCcccccccccccCCCeEEEEEeeccccCCCCceeeecccccccccCCCCCCccCCccCCCHHHH
Q 035625 1 MANPPKPWKVEYAKSGRSSCRSCKSNIEKEALRLGKMVQSSQFDGFMPMWNHASCVLRKANQIKSLDDVEGIESLRWEDQ 80 (954)
Q Consensus 1 m~~~~~~~~vEYAkS~Ra~Ck~C~~~I~kg~LRig~~~~~~~~dg~~~~W~H~~Cf~~~~~~~~~~~~i~G~~~L~~eDq 80 (954)
||+++.+|.|||||||||+||+|+++|+||+||||++|++++|||.++.|||++||++....+.++++|+||++|+|+||
T Consensus 1 ~~~~~~~~~~EYAkS~Rs~Ck~C~~~I~K~~lRi~~~v~~~~~dg~~~~W~H~~Cf~~~~~~~~~~~~l~G~~~L~~eDq 80 (981)
T PLN03123 1 MAAPPKPWKAEYAKSSRSSCKTCKSPIDKDELRLGKMVQSTQFDGFMPMWNHASCILKKKNQIKSIDDVEGIDSLRWEDQ 80 (981)
T ss_pred CCCCCCCeeEEEecCCCccccccCCcccCCCeEEEEeecccccCCCCCeeeccccccccccCCCChhhcCChhhCCHHHH
Confidence 89999999999999999999999999999999999999999999999999999999998766678899999999999999
Q ss_pred HHHHHHHHhcCCCCCC-CCccccccccceeecccchhhhhhhcccccccceeecccCCCCCCCCccccccccccccCCCc
Q 035625 81 QKIRKYVEEGVGSGSS-SKSNVTAAEYGIEVSQTSRATCRHCSKKIMKGEVRISAKPDGQGTKGLAWHHANCFLDLSPST 159 (954)
Q Consensus 81 ~~i~~~i~~~~~~~~~-~~~~~~~~~~~vEyAks~Rs~Ck~C~~kI~Kge~Ri~~k~~~~~~~~~~w~H~~Cf~~~~~~~ 159 (954)
++|+++++.++..... +....++.+|.||||+||||+|++|+++|.||+|||++..+.++.....|||+.||++..++.
T Consensus 81 ~~i~~~i~~~~~~~~~~~~~~~~~~~~~vEyAkS~Ra~Ck~C~~kI~KgelRig~~v~~~~g~~~~W~H~~Cf~~~~~~~ 160 (981)
T PLN03123 81 QKIRKYVESGGTGTGTASDAAASSFEYGIEVAKTSRATCRRCSEKILKGEVRISSKPEGQGYKGLAWHHAKCFLEMSPST 160 (981)
T ss_pred HHHHHHHhccCCCCCcccccccCCcceEEEEecCCCCccccCCceecCCceEEEeeecCCCCCcccccccccccccCCCC
Confidence 9999999988865432 455667789999999999999999999999999999998766655567899999999988888
Q ss_pred cccccCCCCCCCHhhHHHHHHhcC----CCCCC---------CCCCCCcccccc---cccCC---C-------CCCCcch
Q 035625 160 QVEKLSGWGNLTVSDQGAVKALVN----VPSTT---------KNGDVSTSRAAS---VASSN---N-------LPDEHAS 213 (954)
Q Consensus 160 ~~e~l~G~~~L~~~dq~~v~~~~~----~~~~~---------~k~~k~~~k~~~---~~k~~---~-------~~~~~~~ 213 (954)
++++|+||+.|+++||+.|++++. +.++. .++.++. ++.+ ..+.+ . .+.++++
T Consensus 161 ~~e~l~Gf~~L~~eDqe~v~~li~~~~~~~k~~~~~~~~~~~~~g~~~~-~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 239 (981)
T PLN03123 161 PVEKLSGWDTLSDSDQEAVLPLVKKSPSEAKEEKAEERKQESKKGAKRK-KDASGDDKSKKAKTDRDVSTSTAASQKKSS 239 (981)
T ss_pred ChhhCCChhhCCHHHHHHHHHHHhhcCCccccccccccccccccccccc-ccccccccccccchhhhhhhhhhhccccch
Confidence 899999999999999999999994 21110 1111111 1111 00100 0 1122344
Q ss_pred hHHHHHHHHHHHHHHHHHHHHhcCCHHHHHHHHHHcCCCCCCChhHHHHHhhhhhhcCCCCCCCCCCCcEEEeCceEEEe
Q 035625 214 DLESKLEAQTKELWALKDDLKKHVTTAELREMLEANGQDSTGSELDLRDHCADGMMFGALGRCPICSGPLRYSGGIYRCR 293 (954)
Q Consensus 214 ~~~~~lk~Q~~~~w~~~d~l~~~~~~~~l~~lL~~N~q~~~~~~~~ll~~~aD~~~fG~l~~Cp~C~g~l~~~~~~Y~C~ 293 (954)
+++++|++|+++||++||+|+++|+.++|++||++|+|.++|+++.||+||||||+||||++||.|+|+|+|++++|+|+
T Consensus 240 ~~~~kLk~Qs~~lw~~~d~L~~~~s~~~L~~iL~~N~q~~~g~~~~ll~r~AD~m~FGal~~CP~C~g~l~~~~~~Y~C~ 319 (981)
T PLN03123 240 DLESKLEAQSKELWSLKDDLKKHVSTAELREMLEANGQDTSGSELDLRDRCADGMMFGALGPCPLCSGPLLYSGGMYRCQ 319 (981)
T ss_pred HHHHHHHHHHHHHHHHHHHHHhhCCHHHHHHHHHHcCCCCCCcHHHHHHHHHHHHHhCCCCCCCCCCCeeEEcCCceEEC
Confidence 67788999999999999999999999999999999999999999999999999999999999999999999999999999
Q ss_pred cCccCccccccccCCccccCCccccCcccchhhhHHHHhhcCCCCCCcccCCCCCCCCCCCCCCCCCCCCCCCCCCCCcE
Q 035625 294 GYQSAWSKCSYSTREPERLKGKWKIPEETNSQYLVKWFKSQRTKKPIRVLPPRTSNSPASSQASKSPCQSSKSENLGDLR 373 (954)
Q Consensus 294 G~~sewtkC~~~t~~p~R~~~~~kiP~~~~~~~~~~~~~~~~~~~~~r~~~~~~~~~~~~~~~~~~~~~~~~~~pl~~~~ 373 (954)
||||||++|+|+|++|+|++++|+||+++++.||.+|+|+|+.++++|+||++++...+..+..+. ...+..+||+||+
T Consensus 320 G~~sewtkC~~~t~~P~R~~~~~kip~~~~~~~l~~~~k~~k~~~~~r~~~~~~~~~~~~~~~~~~-~~~~~~~~l~~~~ 398 (981)
T PLN03123 320 GYLSEWSKCSYSTLEPERIKKKWKIPDETDNQYLRKWFKSQKSKKPERLLPPSSSNESSGKQAQSN-SSDSESEFLGDLK 398 (981)
T ss_pred cccCCcCccccccCCCCccCCCccCCHHHHHHHHHHHHHhccCCCcccccCCCCcccccccccccc-cccccCCCcCCeE
Confidence 999999999999999999656999999999999999999999999999999866555444333322 2257889999999
Q ss_pred EEEEeCCCcchhHHHHHhhh---------cCCeeEEecCCCCCCCChHHHHHHhcCCCeechhhHHHHhhcCCCCCCCcc
Q 035625 374 VSFSRLPKESKCVSCCLINE---------SAETNCLVLGGVPDDPDAEMRKARKMKVPIVREDYLVDCFKRQKKLPFDLY 444 (954)
Q Consensus 374 i~i~G~~~~~~~~~k~~I~~---------~~~~thlI~t~~e~~~~~~vk~a~~~~i~IVs~dwL~d~~~~~~~~~~~~y 444 (954)
|+++|+|+.++.+||+.|+. +.+|||||+|++..+++.+|++|++++||||++|||+||+.+++++|...|
T Consensus 399 i~i~G~~~~~~~~~k~~Ie~~GG~~s~~v~~~~t~l~tt~e~~k~~~kv~qAk~~~ipIVsedwL~ds~~~~~~~p~~~y 478 (981)
T PLN03123 399 VSIVGASKEKVTEWKAKIEEAGGVFHATVKKDTNCLVVCGELDDEDAEMRKARRMKIPIVREDYLVDCFKKKKKLPFDKY 478 (981)
T ss_pred EEEecCCCCcHHHHHHHHHhcCCEEeeeccCCceEEEccHHhhhcchHHHHHHhcCCCcccHHHHHHHHhccccCcchhh
Confidence 99999999999999999999 456899999973335678999999999999999999999999999999999
Q ss_pred cccccCCCCcceeeeecCCcccCCCCCCCCccEEeecCCeeEEEEEEeecCCCCCccEEEEEEEEcCCCCcEEEEEEeee
Q 035625 445 KVEVVGESSSMVTIKVKGRSAVHEASGMQDTGHILEDGKSVYNTTLNMSDLSTGVNSYYILQIIQDDKGSDCYVFRKWGR 524 (954)
Q Consensus 445 ~l~~~~~~~~~~~~~~kg~~~Vd~~s~l~~~~hV~~d~~~~Y~~~L~~tdi~~~~N~fY~lQll~~~~~~~y~v~~~WGR 524 (954)
.+......++.++++++|+++||+++++++.+|||+|+|.+|+|+||+||+++|+|+||+||||+++.++.|+||+||||
T Consensus 479 ~~~~~~~~~~~~~~~~kg~~~Vd~~~~~~~~~hVyed~g~iY~~~Ln~td~~~n~NkfY~iQLL~~~~~~~y~v~~rWGR 558 (981)
T PLN03123 479 KLEASGTSSSMVTVKVKGRSAVHEASGLQDTGHILEDGKSIYNTTLNMSDLSTGVNSYYILQIIEEDKGSDCYVFRKWGR 558 (981)
T ss_pred hhcccccccccccccccCCccCCcccccccCceEEecCCeEeeeeEecccccCCCcceEEEEEEEeCCCCeEEEEEEecc
Confidence 88655444566788999999999999999999999999999999999999999999999999999998899999999999
Q ss_pred cccccCCCccccCCCHHHHHHHHHHHHHHHhCCCccchhhcccCccCCCcceeccccCCCcccccccccccccccCCCCC
Q 035625 525 VGNDKIGGSKLEECSKEDAVCEFKRLFLEKTGNPWEAWEQKQNFQKKPGKILPTGYCTSYSLSDYGVNKQVSEKIGTDAD 604 (954)
Q Consensus 525 VG~~~~G~~kl~~~s~e~Ai~~F~k~F~eKTGn~W~~~~~r~~f~k~pgKy~~ve~~~~~s~~d~~~~~~~~~~~~~~~~ 604 (954)
||++.+|+++++++++++|+.+|+++|++||||+|+.|++|.+|+|+||||+||| +||+.++....+....++
T Consensus 559 VG~~~ig~~~l~~~~~~~A~~~F~kkF~eKTgn~W~~~~~r~~F~k~pgKy~~ie-------~dy~~~~~~~~~~~~~~~ 631 (981)
T PLN03123 559 VGNEKIGGNKLEEMSKSDAIHEFKRLFLEKTGNPWESWEQKTNFQKQPGKFYPLD-------IDYGVNEQPKKKAASGSK 631 (981)
T ss_pred cCCcccCccccCCCCHHHHHHHHHHHHHHHhcCcccchhhcccccccCCceeEEE-------eecCcccchhhhcccCCc
Confidence 9986569999999999999999999999999999999999999999999999999 999877654433346678
Q ss_pred CCCcHHHHHHHHHHcCHHHHHHHHHHhccCcCCCCccCCCHHHHHHHHHHHHHHHHHHhCCCCCCchhhhHHHHhhcccc
Q 035625 605 SQLAPALVELMKMLFNVETYRAAMMEFDINMSEMPLGKLSKNNIQKGFEALTEIQNLLNNGAYDPSVKESLIIDASNRFF 684 (954)
Q Consensus 605 s~L~~~Vq~l~~~Ifd~~~~~~~m~~~~~d~~kmPLGkLSk~qI~~a~~vL~ei~~~l~~~~~~~~~~~~~l~~lsn~fY 684 (954)
|+|+++||+||++|||+++|+++|++|+||+.+||||+||++||++||+||++|+++|++...+++..+..|.+||||||
T Consensus 632 skL~~~vq~L~klIfd~~~m~~~m~e~~~D~~kmPLGkLSk~qI~~g~~vL~ei~~~l~~~~~~~~~~~~~l~~lSn~fY 711 (981)
T PLN03123 632 SNLAPRLVELMKMLFDVETYRAAMMEFEINMSEMPLGKLSKANIQKGFEALTEIQNLLKENDQDPSIRESLLVDASNRFF 711 (981)
T ss_pred CCCCHHHHHHHHHHhCHHHHHHHHHHccCCcccCCCccccHHHHHHHHHHHHHHHHHHhcccccchhHHHHHHHHhhccE
Confidence 99999999999999999999999999999999999999999999999999999999998766554445678999999999
Q ss_pred ccccCCCCCCCCCHHHHHHHHHHHHHHHhHHHHHHhcCCCCCCCCchHHHHhhcCCEEEECCCCCHHHHHHHHHHHhcCC
Q 035625 685 TVIPSIHPHVIRDEDDFKSKVKMLEALQDIEIASRLVGFDVDSDDSLDEKYKKLCCDIAPLPHDSEDYQLIEKYLHATHA 764 (954)
Q Consensus 685 tlIPh~~p~~i~~~~~l~~k~~lle~L~die~A~~ll~~~~~~~~pld~~Y~~L~~~i~~L~~~s~Ey~~I~~y~~~t~~ 764 (954)
|+|||++||+|++.++|++|++|||+|.|||+|++|++.+.+..||||.+|++|+|+|+||+++|+||++|++|+.+||+
T Consensus 712 tlIPh~~pp~I~~~~~ik~k~~lLe~L~dieiA~~ll~~~~~~~~pld~~Y~~L~~~i~~L~~~s~ey~~I~~Yl~nT~~ 791 (981)
T PLN03123 712 TLIPSIHPHIIRDEDDLKSKVKMLEALQDIEIASRLVGFDVDEDDSLDDKYKKLHCDISPLPHDSEDYKLIEKYLLTTHA 791 (981)
T ss_pred ecCCCCCCCcCCCHHHHHHHHHHHHHHHHHHHHHHHHhccCcCCCchHHHHHhcCCeEEECCCCCHHHHHHHHHHHhcCC
Confidence 99999999999999999999999999999999999997655668999999999999999999999999999999999999
Q ss_pred CCCCCCccccCceeeeecccccchhhHHHhhcCCcceeEecCCCCChhhhhccCCCCCCCCCCCcceeeeeeeecccccc
Q 035625 765 PTHTDWSLELEEVFSLEREGEFDKFSSYQRKLKNRMLLWHGSRLTNFVGILSQGLRIAPPEAPATGYMFGKGIYFADLVS 844 (954)
Q Consensus 765 ~~h~~~~~~I~~If~V~r~~e~~rf~~~k~~~~N~~lLwHGSr~~N~~gILs~Glriap~~ap~tGymFGkGIYFAd~~s 844 (954)
+||..|+++|++||+|+|.+|.+||.+|+..++||+|||||||.+||+|||++|||||||+||++|||||+|||||||+|
T Consensus 792 ~th~~y~l~v~~IF~v~r~gE~~rf~~~~~~~~Nr~LLwHGSr~~N~~gILs~GLriaPpeap~tGymfGkGIYFAD~~S 871 (981)
T PLN03123 792 PTHTDWSLELEEVFSLEREGEFDKYAPYKEKLKNRMLLWHGSRLTNFVGILSQGLRIAPPEAPATGYMFGKGVYFADLVS 871 (981)
T ss_pred CccccccceeeEEEEecccccccchhhHhhcCCCceEEEcCCCcccHHHHhhccCccCCccccccCccccceeEecchhh
Confidence 99999999999999999999999999985579999999999999999999999999999999999999999999999999
Q ss_pred cccccccCCCCCCceEEEEEEEeeCceeeeccccCCCCCCCCCCCccccCCccCCCCCceeecCCeEecCCCcccCCCCC
Q 035625 845 KSAQYCFTDKKNPVGLMLLSEVGLGEVYELKKAKYMDKPPDGKHSTKGLGKTVPQESDFVKWRDDVTVPCGKPVPSNVRA 924 (954)
Q Consensus 845 KSa~Yc~~~~~~~~~~mlLceVaLG~~~~~~~~~~~~~~p~g~~Sv~g~G~~~P~p~~~~~~~dgv~vp~G~~~~~~~~~ 924 (954)
|||+||+++.++++|+|||||||||++++++.++++++||+|+|||+|+|++.|+|+++++|.|||+||+|+++++...+
T Consensus 872 KSanYc~~~~~~~~g~llLceVaLG~~~e~~~~~~~~~~p~g~~S~~g~G~~~Pd~~~~~~~~dgv~vP~Gk~~~~~~~~ 951 (981)
T PLN03123 872 KSAQYCYTDRKNPVGLMLLSEVALGEIYELKKAKYMDKPPRGKHSTKGLGKTVPQESEFVKWRDDVVVPCGKPVPSKVKA 951 (981)
T ss_pred hhhhhhcccCCCCceEEEEEEEecCChhhhccccccccCCCCceeeeecCCCCCCcccceecCCceEeeCCCCccCcccC
Confidence 99999999999999999999999999999999999999999999999999999999999999999999999999998888
Q ss_pred CCCCCCEEEEeeCCccceeeEEEEEeeecC
Q 035625 925 SELMYNEYIVYNTAQVKMQFLLKVRFHHKR 954 (954)
Q Consensus 925 ~~l~ynEyIVYd~~Qv~~~YLi~~~~~~~~ 954 (954)
++|.||||||||++||+|||||+|+|+|+|
T Consensus 952 ~~L~yNEYIVYd~~Qvr~rYLv~vkf~~~~ 981 (981)
T PLN03123 952 SELMYNEYIVYNTAQVKLQFLLKVRFKHKR 981 (981)
T ss_pred CccccCceEEechhHEEEEEEEEEEeeccC
Confidence 999999999999999999999999999987
No 2
>PLN03122 Poly [ADP-ribose] polymerase; Provisional
Probab=100.00 E-value=7.3e-185 Score=1643.66 Aligned_cols=708 Identities=34% Similarity=0.618 Sum_probs=642.8
Q ss_pred HHHHHHHHHHHHHHHhcCCHHHHHHHHHHcCCCCCCChhHHHHHhhhhhhcCCCCCCCCCCCcEEEeCceEEEecCccCc
Q 035625 220 EAQTKELWALKDDLKKHVTTAELREMLEANGQDSTGSELDLRDHCADGMMFGALGRCPICSGPLRYSGGIYRCRGYQSAW 299 (954)
Q Consensus 220 k~Q~~~~w~~~d~l~~~~~~~~l~~lL~~N~q~~~~~~~~ll~~~aD~~~fG~l~~Cp~C~g~l~~~~~~Y~C~G~~sew 299 (954)
..|+++||++||+|+++|+.++|++||++|+|.++++++.||+||||+|+||+|++||.|+|+|+|++++|+|+||||||
T Consensus 58 ~~q~~~~~~~~d~l~~~~s~~~l~~~L~~N~q~~~~~~~~~~~~~aD~m~fG~l~~Cp~C~g~l~~~g~~Y~C~G~iSeW 137 (815)
T PLN03122 58 EDAVKEFEEFCKAIEEHLSIEQMREILEENGQDSSGSDDAVLPRCQDQLFYGPLEKCPLCGGALECDGHRYTCTGFISEW 137 (815)
T ss_pred HHHHHHHHHHHHHHHhhCCHHHHHHHHHHcCCCCCCcHHHHHHHHhHHHhhcCCCCCCCCCCeEEEcCCeeEeccccCCC
Confidence 36999999999999999999999999999999999999999999999999999999999999999999999999999999
Q ss_pred cccccccCCccccCCccccCcccchhhhHHHHhhcCCCCCCcccCCCCCCCCCCCCCCCCCCCCCCCCCCCCcEEEEEeC
Q 035625 300 SKCSYSTREPERLKGKWKIPEETNSQYLVKWFKSQRTKKPIRVLPPRTSNSPASSQASKSPCQSSKSENLGDLRVSFSRL 379 (954)
Q Consensus 300 tkC~~~t~~p~R~~~~~kiP~~~~~~~~~~~~~~~~~~~~~r~~~~~~~~~~~~~~~~~~~~~~~~~~pl~~~~i~i~G~ 379 (954)
|||+|+|++|+|++++|+||+++++.||.+| +.++.+|+..|.. +..+..+||.|++|+++|+
T Consensus 138 tKC~y~T~~P~R~~~~~kiP~e~k~~fl~~~----k~~~~~~~~~p~~-------------~~~~~~kpL~G~~fviTGt 200 (815)
T PLN03122 138 SSCTFSTKNPPRKEEPLKIPDSVKNSFITKL----LKKHQDPSKRPKR-------------ELGAPGKPFSGMMISLSGR 200 (815)
T ss_pred cccccccCCCCcccCcccCcHHHHHHHHHHh----cccccccccCccc-------------cccccCCCcCCcEEEEeCC
Confidence 9999999999997669999999998777665 4445556543311 2345678999999999999
Q ss_pred CCcchhHHHHHhhhc--------CCeeEEecCCCCCCCC--hHHHHHHhcCCCeechhhHHHHhhcCCCCCCCccccccc
Q 035625 380 PKESKCVSCCLINES--------AETNCLVLGGVPDDPD--AEMRKARKMKVPIVREDYLVDCFKRQKKLPFDLYKVEVV 449 (954)
Q Consensus 380 ~~~~~~~~k~~I~~~--------~~~thlI~t~~e~~~~--~~vk~a~~~~i~IVs~dwL~d~~~~~~~~~~~~y~l~~~ 449 (954)
|+.++++|+++|+.. .++||+|+|.+++++. .++++|+++|||||+++||.+++.+++.+++.+|.+...
T Consensus 201 l~~sr~elK~~Ie~~GGkvsssVs~~T~lIvt~~ev~k~gsSKlkkAk~lgIpIVsEd~L~d~i~~~k~~~~~~y~l~~~ 280 (815)
T PLN03122 201 LSRTHQYWKKDIEKHGGKVANSVEGVTCLVVSPAERERGGSSKIAEAMERGIPVVREAWLIDSIEKQEAQPLEAYDVVSD 280 (815)
T ss_pred CCCCHHHHHHHHHHcCCEEccccccceEEEEcCccccccCccHHHHHHHcCCcCccHHHHHHHHhcCCcccchhhhhccc
Confidence 998999999999993 3478999999998653 789999999999999999999999998899999987411
Q ss_pred C----------C------C--CcceeeeecCCcccCCCCCCC-CccEEeecCCeeEEEEEEeecCCCCCccEEEEEEEEc
Q 035625 450 G----------E------S--SSMVTIKVKGRSAVHEASGMQ-DTGHILEDGKSVYNTTLNMSDLSTGVNSYYILQIIQD 510 (954)
Q Consensus 450 ~----------~------~--~~~~~~~~kg~~~Vd~~s~l~-~~~hV~~d~~~~Y~~~L~~tdi~~~~N~fY~lQll~~ 510 (954)
. . + +...+++.+|+++||++++++ +.+|||+++|.+|+|+||+||+++|+|+||+||||++
T Consensus 281 ~~~~~~~~~~~~~~~~~~~~~~~~~~~k~k~~~~V~~~~~l~~~~~~V~~~~~~iYd~~Lnqtd~~~n~NkfY~iQlL~~ 360 (815)
T PLN03122 281 LSVEGRGIPWDKQDPSEEAIESLSAELKLYGKRGVYKDSKLQEEGGKIFEKDGILYNCAFSICDLGRGLNEYCIMQLITV 360 (815)
T ss_pred cccccccCcccccCCcccccccccchhccccCcCCCcccccccCccEEEecCCeEeeeeeeeeeccCCCcceEEEEEEEc
Confidence 0 0 0 123456679999999999988 8999999999999999999999999999999999998
Q ss_pred CCCCcEEEEEEeeecccccCCCccccCC-CHHHHHHHHHHHHHHHhCCCccchhhcccCccCCCcceeccccCCCccccc
Q 035625 511 DKGSDCYVFRKWGRVGNDKIGGSKLEEC-SKEDAVCEFKRLFLEKTGNPWEAWEQKQNFQKKPGKILPTGYCTSYSLSDY 589 (954)
Q Consensus 511 ~~~~~y~v~~~WGRVG~~~~G~~kl~~~-s~e~Ai~~F~k~F~eKTGn~W~~~~~r~~f~k~pgKy~~ve~~~~~s~~d~ 589 (954)
+. ..|++|+||||||+.+.|+.+++++ ++++|+.+|+++|++||||+|++|++|.+|+|+||||+|+| +||
T Consensus 361 ~~-~~y~~~~rWGRVG~~gq~~~~~~~~~~~~~Ai~~F~kkF~eKTgn~~~~w~~r~~F~k~pgky~~id-------~d~ 432 (815)
T PLN03122 361 PD-SNLHLYYKKGRVGDDPNAEERLEEWEDVDAAIKEFVRLFEEITGNEFEPWEREKKFEKKRLKFYPID-------MDD 432 (815)
T ss_pred CC-CcEEEEeeecccCCcCCCccccCCCCCHHHHHHHHHHHHHHHhCCCccccccccCccccCCCCceee-------ccc
Confidence 76 6899999999999974345578887 69999999999999999999999999999999999999999 999
Q ss_pred ccccccc----c-ccCCCCCCCCcHHHHHHHHHHcCHHHHHHHHHHhccCcCCCCccCCCHHHHHHHHHHHHHHHHHHhC
Q 035625 590 GVNKQVS----E-KIGTDADSQLAPALVELMKMLFNVETYRAAMMEFDINMSEMPLGKLSKNNIQKGFEALTEIQNLLNN 664 (954)
Q Consensus 590 ~~~~~~~----~-~~~~~~~s~L~~~Vq~l~~~Ifd~~~~~~~m~~~~~d~~kmPLGkLSk~qI~~a~~vL~ei~~~l~~ 664 (954)
+.++... . ......+|+|+++||+||++|||+++|+++|++|+||+++|||||||+.||++||+||++|+++|++
T Consensus 433 ~~~~~~~~~~~~~~~~~~~~skL~~~Vq~L~~lIfd~~~m~~~m~e~~~D~~kmPLGKLSk~qI~~g~~vL~ei~~~l~~ 512 (815)
T PLN03122 433 GVDVRAGGLGLRQLGVAAAHCKLDPKVANFMKVLCSQEIYRYAMMEMGLDSPDLPMGMLSDFHLKRCEEVLLEFAEFVKS 512 (815)
T ss_pred cccccccccchhhcccccCCCCCCHHHHHHHHHHcCHHHHHHHHHHcCCCcccCCCCcCCHHHHHHHHHHHHHHHHHHhc
Confidence 8765421 1 1234568999999999999999999999999999999999999999999999999999999999987
Q ss_pred CCCCCchhhhHHHHhhccccccccCCCCCCCCCHHHHHHH-HHHHHHHHhHHHHHHhcCCC--CCCCCchHHHHhhcCCE
Q 035625 665 GAYDPSVKESLIIDASNRFFTVIPSIHPHVIRDEDDFKSK-VKMLEALQDIEIASRLVGFD--VDSDDSLDEKYKKLCCD 741 (954)
Q Consensus 665 ~~~~~~~~~~~l~~lsn~fYtlIPh~~p~~i~~~~~l~~k-~~lle~L~die~A~~ll~~~--~~~~~pld~~Y~~L~~~ 741 (954)
........+..+.+|||||||+|||.+||+|+|.++|++| ++|||+|.||++|++|++.. .+..||||.+|++|+|+
T Consensus 513 ~~~~~~~~~~~~~dlSnrfYTlIPh~~ppvi~~~~~lk~k~~~mLe~L~DIeiA~~ll~~~~~~~~~~pLd~~Y~~L~~~ 592 (815)
T PLN03122 513 EKETGQKAEAMWLDFSNKWFSLVHSTRPFVIRDIDELADHAASALETVRDINVASRLIGDMTGSTLDDPLSDRYKKLGCS 592 (815)
T ss_pred cccccchhHHHHHHHhccceeccCCCCCCCCCCHHHHHHHHHHHHHHHHHHHHHHHHHhhccccccCCchHHHHHhcCce
Confidence 6543333446799999999999999999999999999999 59999999999999999643 35589999999999999
Q ss_pred EEECCCCCHHHHHHHHHHHhcCCCCC---CCCccccCceeeeecccccchhhHHHhhcCCcceeEecCCCCChhhhhccC
Q 035625 742 IAPLPHDSEDYQLIEKYLHATHAPTH---TDWSLELEEVFSLEREGEFDKFSSYQRKLKNRMLLWHGSRLTNFVGILSQG 818 (954)
Q Consensus 742 i~~L~~~s~Ey~~I~~y~~~t~~~~h---~~~~~~I~~If~V~r~~e~~rf~~~k~~~~N~~lLwHGSr~~N~~gILs~G 818 (954)
|+||+++|+||++|++|+.+||++|| ..|+++|++||+|+|.++ +||.++ ++++||+|||||||.+||+|||+||
T Consensus 593 i~pLd~~S~eyk~I~~Yl~nT~~~th~~~~~y~l~v~~IF~veR~ge-~rf~~~-~~l~NR~LLWHGSR~tN~~gILsqG 670 (815)
T PLN03122 593 ISPVDKESDDYKMIVKYLEKTYEPVKVGDVSYSVSVENIFAVESSAG-PSLDEI-KKLPNKVLLWCGTRSSNLLRHLAKG 670 (815)
T ss_pred EEEcCCCCHHHHHHHHHHHhcCCCccccCcccceeEeEEEEeccCcc-ccchhh-cCCCCceEEeccchhhhHHHHhhCC
Confidence 99999999999999999999999999 578999999999999996 799988 6899999999999999999999999
Q ss_pred CCCCCCCCCCcceeeeeeeecccccccccccccCCCCCCceEEEEEEEeeCce-eeecccc-CCCCCCCCCCCccccCCc
Q 035625 819 LRIAPPEAPATGYMFGKGIYFADLVSKSAQYCFTDKKNPVGLMLLSEVGLGEV-YELKKAK-YMDKPPDGKHSTKGLGKT 896 (954)
Q Consensus 819 lriap~~ap~tGymFGkGIYFAd~~sKSa~Yc~~~~~~~~~~mlLceVaLG~~-~~~~~~~-~~~~~p~g~~Sv~g~G~~ 896 (954)
|||||||||+||||||||||||||+||||+||+++.++++|+|||||||||++ ++++.++ ++.++|+|+|||+|+|++
T Consensus 671 LRIAPPEAPvtGYMFGKGIYFAD~~SKSAnYC~t~~~~~~GlLlLcEVALG~~~~el~~~~~~~~~~~~g~~Stkg~G~~ 750 (815)
T PLN03122 671 FLPAVCSLPVPGYMFGKAIVCSDAAAEAARYGFTAVDRPEGFLVLAVASLGDEVLELTKPPEDVKSYEEKKVGVKGLGRK 750 (815)
T ss_pred CccCCcccCCCCCccCCeeEecchhhhhhhhhccccCCCcceEEEEHhhcCchHHHhhcCchhhhccCCCCceeeecCCC
Confidence 99999999999999999999999999999999999999999999999999997 7999887 478999999999999999
Q ss_pred cCCCCCceeecCCeEecCCCcccCCCCCCCCCCCEEEEeeCCccceeeEEEEEeeecC
Q 035625 897 VPQESDFVKWRDDVTVPCGKPVPSNVRASELMYNEYIVYNTAQVKMQFLLKVRFHHKR 954 (954)
Q Consensus 897 ~P~p~~~~~~~dgv~vp~G~~~~~~~~~~~l~ynEyIVYd~~Qv~~~YLi~~~~~~~~ 954 (954)
.|||+++++|.|||+||+|++++++..+++|.||||||||++||||||||+|+|+|++
T Consensus 751 ~Pdp~~~~~~~dgV~VP~Gk~~~~~~~~~~L~yNEYIVYDvaQvrirYL~~vkf~~~~ 808 (815)
T PLN03122 751 KTDESEHFKWRDDITVPCGRLIPSEHKDSPLEYNEYAVYDPKQVSIRFLVGVKYEEKG 808 (815)
T ss_pred cCCCccceecCCCeEEeCCCCccCCCCCcccccCceEEEchhHEEEEEEEEEEeecce
Confidence 9999999999999999999999988878899999999999999999999999999985
No 3
>PLN03124 poly [ADP-ribose] polymerase; Provisional
Probab=100.00 E-value=7e-132 Score=1158.51 Aligned_cols=484 Identities=44% Similarity=0.786 Sum_probs=451.0
Q ss_pred CCcceeeeecCCcccCCCCC--CCCccEEeecCCeeEEEEEEeecCCCCCccEEEEEEEEcCCCCcEEEEEEeeeccccc
Q 035625 452 SSSMVTIKVKGRSAVHEASG--MQDTGHILEDGKSVYNTTLNMSDLSTGVNSYYILQIIQDDKGSDCYVFRKWGRVGNDK 529 (954)
Q Consensus 452 ~~~~~~~~~kg~~~Vd~~s~--l~~~~hV~~d~~~~Y~~~L~~tdi~~~~N~fY~lQll~~~~~~~y~v~~~WGRVG~~~ 529 (954)
+++.+++.+||+++||+.+. +.+.+|||+++|.+|+|||++||+++|+|+||+||||+++.++.|+||++|||||+.
T Consensus 141 ~~~~~~~~~k~~~~vD~~~~~~~~~~~hVyed~g~iYda~Lnqtdi~~n~NkFY~iQlLe~d~~~~Y~v~~rWGRVG~~- 219 (643)
T PLN03124 141 EEKIVTATKKGRAVLDQWLPDHIKSNYHVLEEGDDVYDAMLNQTNVGDNNNKFYVLQVLESDDGSKYMVYTRWGRVGVK- 219 (643)
T ss_pred cccceeeeeecccccCCCCCccccCceEEEecCCeEEEEEEEccccCCCCcceEEEEEEEeCCCCeEEEEEEeCccCCc-
Confidence 35678899999999996433 668899999999999999999999999999999999999988999999999999986
Q ss_pred CCCccccC-C-CHHHHHHHHHHHHHHHhCCCccchhhcccCccCCCcceeccccCCCccccccccccccc------ccCC
Q 035625 530 IGGSKLEE-C-SKEDAVCEFKRLFLEKTGNPWEAWEQKQNFQKKPGKILPTGYCTSYSLSDYGVNKQVSE------KIGT 601 (954)
Q Consensus 530 ~G~~kl~~-~-s~e~Ai~~F~k~F~eKTGn~W~~~~~r~~f~k~pgKy~~ve~~~~~s~~d~~~~~~~~~------~~~~ 601 (954)
|+++++. + ++++|+.+|+++|++||||+|+ +|.+|+|+||||++|| +||+.+++... ....
T Consensus 220 -Gq~~l~~~~~sle~Ai~~F~kkF~eKTGN~W~---~R~~F~k~pgKY~~ie-------~dy~~~~~~~~~~~~~~~~~~ 288 (643)
T PLN03124 220 -GQDKLHGPYDSREPAIREFEKKFYDKTKNHWS---DRKNFISHPKKYTWLE-------MDYEDEEESKKDKPSVSSEDK 288 (643)
T ss_pred -CcccccCCCCCHHHHHHHHHHHHHHHhCCchh---hcccccccCCceeEEE-------eecccccchhhhccchhcccc
Confidence 8999875 6 6999999999999999999996 5899999999999999 99987654211 1224
Q ss_pred CCCCCCcHHHHHHHHHHcCHHHHHHHHHHhccCcCCCCccCCCHHHHHHHHHHHHHHHHHHhCCCCCCchhhhHHHHhhc
Q 035625 602 DADSQLAPALVELMKMLFNVETYRAAMMEFDINMSEMPLGKLSKNNIQKGFEALTEIQNLLNNGAYDPSVKESLIIDASN 681 (954)
Q Consensus 602 ~~~s~L~~~Vq~l~~~Ifd~~~~~~~m~~~~~d~~kmPLGkLSk~qI~~a~~vL~ei~~~l~~~~~~~~~~~~~l~~lsn 681 (954)
.++|+|+++||+||++|||+++|+++|++|+||+.+||||+||++||++||+||++|+++|+... ...|.+|||
T Consensus 289 ~~~skL~~~Vq~Li~lIfd~~~m~~~m~e~~~D~~KmPLGkLSk~qI~kgy~vL~ei~~~l~~~~------~~~l~~lSn 362 (643)
T PLN03124 289 NKQSKLDPRVAQFISLICDVSMMKQQMMEIGYNARKLPLGKLSKSTILKGYEVLKRIAEVISRSD------RETLEELSG 362 (643)
T ss_pred CCCCCCCHHHHHHHHHHhCHHHHHHHHHHcCCCcccCCCcccCHHHHHHHHHHHHHHHHHHcccc------hHHHHHHhc
Confidence 56799999999999999999999999999999999999999999999999999999999996542 257999999
Q ss_pred cccccccCC------CCCCCCCHHHHHHHHHHHHHHHhHHHHHHhcCCC-CCCCCchHHHHhhcCCEEEECCCCCHHHHH
Q 035625 682 RFFTVIPSI------HPHVIRDEDDFKSKVKMLEALQDIEIASRLVGFD-VDSDDSLDEKYKKLCCDIAPLPHDSEDYQL 754 (954)
Q Consensus 682 ~fYtlIPh~------~p~~i~~~~~l~~k~~lle~L~die~A~~ll~~~-~~~~~pld~~Y~~L~~~i~~L~~~s~Ey~~ 754 (954)
+|||+|||+ +||+|+|.++|++|++|||+|.|||+|++|++.. ....||||.+|++|+|+|+||+++|+||++
T Consensus 363 ~FYTlIPH~FG~~~~~~~vIdt~~~lk~k~elLe~L~DIevA~~ll~~~~~~~~~pld~~Y~~L~c~i~pLd~~S~efk~ 442 (643)
T PLN03124 363 EFYTVIPHDFGFKKMRQFTIDTPQKLKHKLEMVEALGEIEIATKLLKDDIGEQDDPLYAHYKRLNCELEPLDTDSEEFSM 442 (643)
T ss_pred CeEEecCcccccCCCCccccCCHHHHHHHHHHHHHHHHHHHHHHHHhhccCCCCCcHHHHHHHcCCeeEEcCCCCHHHHH
Confidence 999999998 4579999999999999999999999999999543 356799999999999999999999999999
Q ss_pred HHHHHHhcCCCCCCCCccccCceeeeecccccchhhHHHhhcCCcceeEecCCCCChhhhhccCCCCCCCCCCCcceeee
Q 035625 755 IEKYLHATHAPTHTDWSLELEEVFSLEREGEFDKFSSYQRKLKNRMLLWHGSRLTNFVGILSQGLRIAPPEAPATGYMFG 834 (954)
Q Consensus 755 I~~y~~~t~~~~h~~~~~~I~~If~V~r~~e~~rf~~~k~~~~N~~lLwHGSr~~N~~gILs~Glriap~~ap~tGymFG 834 (954)
|++|+.+||+++|..|+++|++||+|+|.+|.+||+++ .+++|++|||||||.+||+|||++||||+||+||++|||||
T Consensus 443 I~~Yl~nT~~~th~~y~l~V~~If~V~R~~E~~rF~~~-~~~~Nr~LLWHGSr~~N~~gILs~GLriaPpea~~~GymfG 521 (643)
T PLN03124 443 IAKYLENTHGQTHSGYTLEIVQIFKVSREGEDERFQKF-SSTKNRMLLWHGSRLTNWTGILSQGLRIAPPEAPSTGYMFG 521 (643)
T ss_pred HHHHHHhcCCCccCcCceeEEEEEEeccccchhhHHHh-hccCCeEEEEcCCCcccHHHHHhccCccCCccccccccccc
Confidence 99999999999999999999999999999999999988 67899999999999999999999999999999999999999
Q ss_pred eeeecccccccccccccCCCCCCceEEEEEEEeeCceeeeccccCC-CCCCCCCCCccccCCccCCCCCceeecCCeEec
Q 035625 835 KGIYFADLVSKSAQYCFTDKKNPVGLMLLSEVGLGEVYELKKAKYM-DKPPDGKHSTKGLGKTVPQESDFVKWRDDVTVP 913 (954)
Q Consensus 835 kGIYFAd~~sKSa~Yc~~~~~~~~~~mlLceVaLG~~~~~~~~~~~-~~~p~g~~Sv~g~G~~~P~p~~~~~~~dgv~vp 913 (954)
+||||||++|||++||+++.+++.|+|||||||||+++++++++|+ .++|+|+|||+|+|++.|+|+++++++|||+||
T Consensus 522 kGIYFAd~~skSa~Yc~~~~~~~~g~llLceVaLG~~~el~~~~y~a~~~p~G~~S~kG~G~~~Pdp~~~~~~~dGV~VP 601 (643)
T PLN03124 522 KGVYFADMFSKSANYCYASAANPDGVLLLCEVALGDMNELLQADYNANKLPPGKLSTKGVGRTVPDPSEAKTLEDGVVVP 601 (643)
T ss_pred ceeEecchhhhhhhhhhccCCCCeeEEEEEEEecCCcchhccCccccccCCCCceeEEeccCCCCCcccceecCCCeEee
Confidence 9999999999999999999889999999999999999999999986 789999999999999999999999999999999
Q ss_pred CCCcccCCCCCCCCCCCEEEEeeCCccceeeEEEEEeeecC
Q 035625 914 CGKPVPSNVRASELMYNEYIVYNTAQVKMQFLLKVRFHHKR 954 (954)
Q Consensus 914 ~G~~~~~~~~~~~l~ynEyIVYd~~Qv~~~YLi~~~~~~~~ 954 (954)
+|+++++...+++|.||||||||++||+|||||+|+|+|++
T Consensus 602 ~Gk~~~~~~~~~~L~yNEYIVYd~~Qvr~rYLv~vkf~~~~ 642 (643)
T PLN03124 602 LGKPVESPYSKGSLEYNEYIVYNVDQIRMRYVLQVKFNYKR 642 (643)
T ss_pred CCccccCCCCCCccccCceEEechhHeEEEEEEEEEEeecC
Confidence 99999888778999999999999999999999999999985
No 4
>cd01437 parp_like Poly(ADP-ribose) polymerase (parp) catalytic domain catalyses the covalent attachment of ADP-ribose units from NAD+ to itself and to a limited number of other DNA binding proteins, which decreases their affinity for DNA. Poly(ADP-ribose) polymerase is a regulatory component induced by DNA damage. The carboxyl-terminal region is the most highly conserved region of the protein. Experiments have shown that a carboxyl 40 kDa fragment is still catalytically active. Poly(ADP-ribose)-like polymerases (PARPS 1-3, VPARP, tankyrase) catalyze the addition of up to 100 ADP_ribose units from NAD+. PARPs 1 and 2 are localized in the nucleaus, bind DNA, and are activated by DNA damage. VPARP is part of the vault ribonucleoprotein complex. Tankyrases regulates telomere length through interactions with telomere repeat binding factor 1.
Probab=100.00 E-value=8.8e-93 Score=789.32 Aligned_cols=340 Identities=58% Similarity=0.971 Sum_probs=322.0
Q ss_pred CCCCcHHHHHHHHHHcCHHHHHHHHHHhccCcCCCCccCCCHHHHHHHHHHHHHHHHHHhCCCCCCchhhhHHHHhhccc
Q 035625 604 DSQLAPALVELMKMLFNVETYRAAMMEFDINMSEMPLGKLSKNNIQKGFEALTEIQNLLNNGAYDPSVKESLIIDASNRF 683 (954)
Q Consensus 604 ~s~L~~~Vq~l~~~Ifd~~~~~~~m~~~~~d~~kmPLGkLSk~qI~~a~~vL~ei~~~l~~~~~~~~~~~~~l~~lsn~f 683 (954)
+|+|+++||+||++|||+++|+++|++|++|+.+||||+||++||++||+||.+|+++|++... ....+.+|||+|
T Consensus 1 ~skL~~~vq~l~~~I~d~~~~~~~m~e~~~D~~kmPLGkLSk~qI~~g~~vL~~i~~~l~~~~~----~~~~l~~ls~~F 76 (347)
T cd01437 1 KSKLDKPVQELIKLIFDVEMMKKAMTELKIDASKMPLGKLSKNQIQKGYEVLKEIEEALKRGSS----QGSQLEELSNEF 76 (347)
T ss_pred CCCcCHHHHHHHHHHcCHHHHHHHHHHcCCCcccCCCcccCHHHHHHHHHHHHHHHHHHhcccc----chHHHHHHHHHH
Confidence 5899999999999999999999999999999999999999999999999999999999987653 146799999999
Q ss_pred cccccCC----CCCCCCCHHHHHHHHHHHHHHHhHHHHHHhcCCC-CCCCCchHHHHhhcCCEEEECCCCCHHHHHHHHH
Q 035625 684 FTVIPSI----HPHVIRDEDDFKSKVKMLEALQDIEIASRLVGFD-VDSDDSLDEKYKKLCCDIAPLPHDSEDYQLIEKY 758 (954)
Q Consensus 684 YtlIPh~----~p~~i~~~~~l~~k~~lle~L~die~A~~ll~~~-~~~~~pld~~Y~~L~~~i~~L~~~s~Ey~~I~~y 758 (954)
||+|||+ +||+|+|.+.|++|++|||+|.||++|++|++.. ....||||.+|++|+|+|+||+++|+||++|++|
T Consensus 77 YtlIPh~fg~~~p~~i~~~~~l~~k~~lle~L~die~a~~l~~~~~~~~~~pld~~Y~~L~~~i~~L~~~s~ey~~I~~y 156 (347)
T cd01437 77 YTLIPHDFGMSKPPVIDNEELLKAKRELLEALRDIEIASKLLKDDEDDSDDPLDANYEKLKCKIEPLDKDSEEYKIIEKY 156 (347)
T ss_pred HHhCCccccCCCCCccCCHHHHHHHHHHHHHHHHHHHHHHHHhhcccCCCCcchhHHHHcCeeEEECCCCChHHHHHHHH
Confidence 9999998 8999999999999999999999999999999543 4568999999999999999999999999999999
Q ss_pred HHhcCCCCCCCCccccCceeeeecccccchhhHHHhhcCCcceeEecCCCCChhhhhccCCCCCCCCCCCcceeeeeeee
Q 035625 759 LHATHAPTHTDWSLELEEVFSLEREGEFDKFSSYQRKLKNRMLLWHGSRLTNFVGILSQGLRIAPPEAPATGYMFGKGIY 838 (954)
Q Consensus 759 ~~~t~~~~h~~~~~~I~~If~V~r~~e~~rf~~~k~~~~N~~lLwHGSr~~N~~gILs~Glriap~~ap~tGymFGkGIY 838 (954)
|.+|++++|. ++++|.+||+|+|.+|+++|+++ ++.+|++|||||||.+||.+||++||+++|++++.+|||||+|||
T Consensus 157 ~~~t~~~~~~-~~~~V~~If~i~r~~e~~~F~~~-~~~~n~~lLwHGsr~~n~~~Il~~Gl~~~~~~~~~~g~mfGkGIY 234 (347)
T cd01437 157 LKNTHAPTTE-YTVEVQEIFRVEREGETDRFKPF-KKLGNRKLLWHGSRLTNFVGILSQGLRIAPPEAPVTGYMFGKGIY 234 (347)
T ss_pred HHhcCCCCCC-cceeEEEEEEecCCCchhhhHHh-hccCCeEEEEcCCChhhHHHHHhcCCCcCccccccCCccccceEe
Confidence 9999998875 89999999999999999999986 678999999999999999999999999999999999999999999
Q ss_pred cccccccccccccCCCCCCceEEEEEEEeeCceeeeccccCC-CCCCCCCCCccccCCccCCCCCceeecCCeEecCCCc
Q 035625 839 FADLVSKSAQYCFTDKKNPVGLMLLSEVGLGEVYELKKAKYM-DKPPDGKHSTKGLGKTVPQESDFVKWRDDVTVPCGKP 917 (954)
Q Consensus 839 FAd~~sKSa~Yc~~~~~~~~~~mlLceVaLG~~~~~~~~~~~-~~~p~g~~Sv~g~G~~~P~p~~~~~~~dgv~vp~G~~ 917 (954)
|||++|||++||+++.+++.++||||+||||+++++..++++ .+||+|+|||+|+|++.|+|++++++.|||+||+|++
T Consensus 235 FAd~~skS~~Y~~~~~~~~~~~mlLc~V~lG~~~~~~~~~~~~~~~p~g~~Sv~g~G~~~p~~~~~~~~~~gv~vP~G~~ 314 (347)
T cd01437 235 FADMFSKSANYCHASASDPTGLLLLCEVALGKMNELKKADYMAKELPKGKHSVKGLGKTAPDPSEFEIDLDGVVVPLGKP 314 (347)
T ss_pred ecCchHhhhhhcccCCCCCceEEEEEEEecCceehhccCChhhccCCCCceeeEeccCCCCCchhheeccCCeEeeCCcc
Confidence 999999999999998888999999999999999999999875 4499999999999999999999988999999999999
Q ss_pred ccCCCC-CCCCCCCEEEEeeCCccceeeEEEEE
Q 035625 918 VPSNVR-ASELMYNEYIVYNTAQVKMQFLLKVR 949 (954)
Q Consensus 918 ~~~~~~-~~~l~ynEyIVYd~~Qv~~~YLi~~~ 949 (954)
+++... +++|.||||||||++||||||||+|+
T Consensus 315 ~~~~~~~~~~l~~nEyiVYd~~Qir~rYLv~vk 347 (347)
T cd01437 315 VPSGHKTDTSLLYNEYIVYDVAQVRLKYLLEVK 347 (347)
T ss_pred ccCCcCCCcccccCCeEeechhHEEEEEEEEeC
Confidence 988776 78999999999999999999999985
No 5
>KOG1037 consensus NAD+ ADP-ribosyltransferase Parp, required for poly-ADP ribosylation of nuclear proteins [Transcription; Replication, recombination and repair; Posttranslational modification, protein turnover, chaperones]
Probab=100.00 E-value=4.4e-64 Score=585.15 Aligned_cols=455 Identities=36% Similarity=0.519 Sum_probs=388.9
Q ss_pred EEeecCCeeEEEEEEeecCCCCCccEEEEEEEEcCCCCcEEEEEEeeecccccCCCccccCC--CHHHHHHHHHHHHHHH
Q 035625 477 HILEDGKSVYNTTLNMSDLSTGVNSYYILQIIQDDKGSDCYVFRKWGRVGNDKIGGSKLEEC--SKEDAVCEFKRLFLEK 554 (954)
Q Consensus 477 hV~~d~~~~Y~~~L~~tdi~~~~N~fY~lQll~~~~~~~y~v~~~WGRVG~~~~G~~kl~~~--s~e~Ai~~F~k~F~eK 554 (954)
+....+..+|...|+++.+..++|++|..|+++.+....+..|.+||||+.. |++.+... +...|.+.|+..|..+
T Consensus 61 ~~~~~~~~v~~~~~~~~~~~~~~~~~~~~~~l~~d~~~~~~~~~~~~~v~~~--~~s~~~~~~~~~~~~~~~~~~~~~~~ 138 (531)
T KOG1037|consen 61 DHLIRGPEVKVPGLNQTNVENENNKEYTEEELEWDEQQKKRKTVEEGGVTGK--GQSGIVKKSKSLDKAKKPFEIKSYKL 138 (531)
T ss_pred ccccccccccccccccccccccccchhhhhhhhcccccceeeeeeecccccc--cccccchhhhhhhhccchhhhhcchh
Confidence 3344456778899998999999999999999998876678899999999975 78887765 4888999999999999
Q ss_pred hCCCccchhhcccCccCCCcceeccccCCCcccccccccccccccCCCCCCCCcHHHHHHHHHHcCHHHHHHHHHHhccC
Q 035625 555 TGNPWEAWEQKQNFQKKPGKILPTGYCTSYSLSDYGVNKQVSEKIGTDADSQLAPALVELMKMLFNVETYRAAMMEFDIN 634 (954)
Q Consensus 555 TGn~W~~~~~r~~f~k~pgKy~~ve~~~~~s~~d~~~~~~~~~~~~~~~~s~L~~~Vq~l~~~Ifd~~~~~~~m~~~~~d 634 (954)
|-+.|+. |..|...+++|..-+ .........-........+.|+..|++|+..||++++|..+|++|.+|
T Consensus 139 ~~~~~~~---~~~~~~~~~~~~~~~-------~~~~~~~~~~~~~~~~~~~~ld~~~~~~~~~i~~~~~m~~~~~~~~~~ 208 (531)
T KOG1037|consen 139 TKNGMET---RDEFIPLGHSYEEED-------KKNFSKCRSCFSPIKTDSGRLDMSVKELIKNIFDVEEMIKALMEMQLD 208 (531)
T ss_pred hhhhhhh---hhhhhcccchhHHHh-------hhhhcccccccChhhcccccccccccccccccccHHHHHHHHHhhccc
Confidence 9999964 667888887773322 111000000000011111238999999999999999999999999999
Q ss_pred cC-CCCccCCCHHHHHHHHHHHHHHHHHHhCCCCCCchhhhHHHHhhccccccccCCCCCCCCCHHHHHHHHHHHHHHHh
Q 035625 635 MS-EMPLGKLSKNNIQKGFEALTEIQNLLNNGAYDPSVKESLIIDASNRFFTVIPSIHPHVIRDEDDFKSKVKMLEALQD 713 (954)
Q Consensus 635 ~~-kmPLGkLSk~qI~~a~~vL~ei~~~l~~~~~~~~~~~~~l~~lsn~fYtlIPh~~p~~i~~~~~l~~k~~lle~L~d 713 (954)
.. +||+|+||+.||.++|++|..+.+.+..+... +.+.+++++||++|||+..-..... .+.+||++|++
T Consensus 209 ~~l~~p~g~~s~~~i~~~~~~~~~~k~~~~~~~~~-----~~l~~~~~~f~~~ip~~~~~~~~~~----~~~~~le~~~~ 279 (531)
T KOG1037|consen 209 HKLKKPLGKLSLNDINKAYELLLKVKEALKLGKIG-----EQLAKASTEFYTLIPHDFGMRKPPN----EKQEALEALLD 279 (531)
T ss_pred hhhhCCCCccchhhhhhhhhhhhhhhcccccCCcH-----HHHHHHhhhhhhhcCCCCCcCCCch----hhHHHHHHhhh
Confidence 99 99999999999999999999999999876532 3489999999999999921111111 78899999999
Q ss_pred HHHHHHhcCC-CC-CC-CCchHHHHhhcCCEEEECCCCCHHHHHHHHHHHhcCCCCCCCCccccCceeeeecccccchhh
Q 035625 714 IEIASRLVGF-DV-DS-DDSLDEKYKKLCCDIAPLPHDSEDYQLIEKYLHATHAPTHTDWSLELEEVFSLEREGEFDKFS 790 (954)
Q Consensus 714 ie~A~~ll~~-~~-~~-~~pld~~Y~~L~~~i~~L~~~s~Ey~~I~~y~~~t~~~~h~~~~~~I~~If~V~r~~e~~rf~ 790 (954)
|++|+.+... +. .. .+|+|.+|+.|+|.+.+++++++||++|.+|+.+|+..+|..+.+++.+|+++.+.+|..+|.
T Consensus 280 i~~a~~~~~~~~~~~~~~~Pl~~~y~~l~c~~~~~~~~~~e~kmi~~~~~~~~~~~~~~~~~~~~~l~k~~~~~e~~~~~ 359 (531)
T KOG1037|consen 280 IELAYGLRKGDDVDATCDDPLDKHYKDLKCKIEKLDKDSEEFKMIAQYVEKTHAKTSTVKVVQIADLKKVNEKNEADRKV 359 (531)
T ss_pred hhhhhhhhhccccccCCCChhhhHHHhhhhhhccccccchhHHHHHHHHHhhccccCccCceeehhHHHhhhcccccccc
Confidence 9999999843 32 34 789999999999999999999999999999999999999988888899999999999999998
Q ss_pred HHHhhcCCcceeEecCCCCChhhhhccCCCCCCCCCCCcceeeeeeeecccccccccccccCCCCCCceEEEEEEEeeCc
Q 035625 791 SYQRKLKNRMLLWHGSRLTNFVGILSQGLRIAPPEAPATGYMFGKGIYFADLVSKSAQYCFTDKKNPVGLMLLSEVGLGE 870 (954)
Q Consensus 791 ~~k~~~~N~~lLwHGSr~~N~~gILs~Glriap~~ap~tGymFGkGIYFAd~~sKSa~Yc~~~~~~~~~~mlLceVaLG~ 870 (954)
.. ..++|++||||||+.+|+++||+.|++++|+++|++|||||+||||||++++|++||++....+.++||+|+|+||+
T Consensus 360 ~~-~~~~~r~llw~gs~~~n~a~~l~~g~~~~~~~~~~~g~~~gkgiyfa~~~sks~~y~~~~~~k~~~~ll~~~~alg~ 438 (531)
T KOG1037|consen 360 DI-SELINRQLLWHGSRFGNLAGILSPGLRLAPSEAPVTGYMFGKGIYFADAASKSANYCVTMKGKPTGHLLLCDVALGK 438 (531)
T ss_pred cC-cccccccchhcccceeeeeccccCCceecCCCCCceeeccccceEeeeecccccccccccccCchhhhhhhhhhccc
Confidence 76 67899999999999999999999999999999999999999999999999999999999888899999999999999
Q ss_pred eeeeccccC-CCCCCCCCCCccccCCccCCCCCceeecCCeEecCCCcccCCC--CCCCCCCCEEEEeeCCccceeeEEE
Q 035625 871 VYELKKAKY-MDKPPDGKHSTKGLGKTVPQESDFVKWRDDVTVPCGKPVPSNV--RASELMYNEYIVYNTAQVKMQFLLK 947 (954)
Q Consensus 871 ~~~~~~~~~-~~~~p~g~~Sv~g~G~~~P~p~~~~~~~dgv~vp~G~~~~~~~--~~~~l~ynEyIVYd~~Qv~~~YLi~ 947 (954)
+..+..+.+ .+.+|.|+|||+|+|++.|+++....++|++.+|+|++..+.. .+..+.||||+||+++|++++||++
T Consensus 439 ~~~~~~~~~~~~~~~~~~~sv~~~g~~~p~~t~~~~~~~~~~~~~~~~~~~~~~~~~~~l~y~e~~v~~~~q~~~~~~~k 518 (531)
T KOG1037|consen 439 EQDLVESIPSLTELPAGKDSVKGVGKTAPDSTLSEDLEDDVDVPLGKIKLTEEPHKDSLLEYNEYIVYNVEQVQIRYLVK 518 (531)
T ss_pred hhhhhcCCcccccCCCCCcchhhhcccCCCchhhcccccccccccccccccccccchhhhhhhhhhhccHhhhceeeeeE
Confidence 988777654 5668999999999999999999999999999999998765543 5567789999999999999999999
Q ss_pred EEeeec
Q 035625 948 VRFHHK 953 (954)
Q Consensus 948 ~~~~~~ 953 (954)
++|+|.
T Consensus 519 v~~~~~ 524 (531)
T KOG1037|consen 519 VKMDYS 524 (531)
T ss_pred eehhhh
Confidence 999875
No 6
>PF00644 PARP: Poly(ADP-ribose) polymerase catalytic domain; InterPro: IPR012317 Poly(ADP-ribose) polymerases (PARP) are a family of enzymes present in eukaryotes, which catalyze the poly(ADP-ribosyl)ation of a limited number of proteins involved in chromatin architecture, DNA repair, or in DNA metabolism, including PARP itself. PARP, also known as poly(ADP-ribose) synthetase and poly(ADP-ribose) transferase, transfers the ADP-ribose moiety from its substrate, nicotinamide adenine dinucleotide (NAD), to carboxylate groups of aspartic and glutamic residues. Whereas some PARPs might function in genome protection, others appear to play different roles in the cell, including telomere replication and cellular transport. PARP-1 is a multifunctional enzyme. The polypeptide has a highly conserved modular organisation consisting of an N-terminal DNA-binding domain, a central regulating segment, and a C-terminal or F region accommodating the catalytic centre. The F region is composed of two parts: a purely alpha-helical N- terminal domain (alpha-hd), and the mixed alpha/beta C-terminal catalytic domain bearing the putative NAD binding site. Although proteins of the PARP family are related through their PARP catalytic domain, they do not resemble each other outside of that region, but rather, they contain unique domains that distinguish them from each other and hint at their discrete functions. Domains with which the PARP catalytic domain is found associated include zinc fingers, SAP, ankyrin, BRCT, Macro, SAM, WWE and UIM domains [, , ]. The alpha-hd domain is about 130 amino acids in length and consists of an up-up-down-up-down-down motif of helices. It is thought to relay the activation signal issued on binding to damaged DNA [, ]. The PARP catalytic domain is about 230 residues in length. Its core consists of a five-stranded antiparallel beta-sheet and four-stranded mixed beta-sheet. The two sheets are consecutive and are connected via a single pair of hydrogen bonds between two strands that run at an angle of 90 degrees. These central beta-sheets are surrounded by five alpha-helices, three 3(10)-helices, and by a three- and a two-stranded beta-sheet in a 37-residue excursion between two central beta-strands [, ]. The active site, known as the 'PARP signature' is formed by a block of 50 amino acids that is strictly conserved among the vertebrates and highly conserved among all species. The 'PARP signature' is characteristic of all PARP protein family members. It is formed by a segment of conserved amino acid residues formed by a beta-sheet, an alpha-helix, a 3(10)-helix, a beta-sheet, and an alpha-helix [].; GO: 0003950 NAD+ ADP-ribosyltransferase activity; PDB: 2PQF_F 4F0D_A 1PAX_A 1EFY_A 1A26_A 2PAW_A 4PAX_A 3PAX_A 2PAX_A 3P0N_A ....
Probab=100.00 E-value=1.2e-44 Score=380.41 Aligned_cols=206 Identities=40% Similarity=0.690 Sum_probs=186.5
Q ss_pred cCCEEEECCCCCHHHHHHHHHHHhcCCCCCCCCccccCceeeeecccccchhhHHHhhcCCcceeEecCCCCChhhhhcc
Q 035625 738 LCCDIAPLPHDSEDYQLIEKYLHATHAPTHTDWSLELEEVFSLEREGEFDKFSSYQRKLKNRMLLWHGSRLTNFVGILSQ 817 (954)
Q Consensus 738 L~~~i~~L~~~s~Ey~~I~~y~~~t~~~~h~~~~~~I~~If~V~r~~e~~rf~~~k~~~~N~~lLwHGSr~~N~~gILs~ 817 (954)
|+|+|++|+++|+||+.|+++|.+|+.+.|. +.+.|.+||+|++..++++|..+ +..+|+++|||||+..|+.+||++
T Consensus 1 L~~~l~~l~~~s~ey~~I~~~f~~~~~~~~~-~~~~I~~I~~i~~~~~~~~f~~~-~~~~n~~~L~HGt~~~~~~~I~~~ 78 (206)
T PF00644_consen 1 LNCELVPLEPDSEEYKEIEKYFKKTWKPVHK-YKPKIKKIFRIQNPSLWERFEEK-KKEGNERLLFHGTSAENICSILRN 78 (206)
T ss_dssp TTEEEEEEETTSHHHHHHHHHHHHTSTSTTT-EEEEEEEEEEEEEHHHHHHHHHH-HHSSSEEEEEEEETGGGHHHHHHH
T ss_pred CCCEEEEcCCCCHHHHHHHHHHHhHCCCCCC-CCCEEEEEEEEcChhHHHHHHHH-HhcCCceEEeCCCChhhccchhcC
Confidence 8999999999999999999999999987664 57899999999999999999987 457899999999999999999999
Q ss_pred CCCCCCCCCCCcceeeeeeeecccccccccccccCCCCCCceEEEEEEEeeCceeeeccccCCCCCCCCCCCccccCCcc
Q 035625 818 GLRIAPPEAPATGYMFGKGIYFADLVSKSAQYCFTDKKNPVGLMLLSEVGLGEVYELKKAKYMDKPPDGKHSTKGLGKTV 897 (954)
Q Consensus 818 Glriap~~ap~tGymFGkGIYFAd~~sKSa~Yc~~~~~~~~~~mlLceVaLG~~~~~~~~~~~~~~p~g~~Sv~g~G~~~ 897 (954)
||+++++.++.+|.|||+|||||+++++|++||.....++.++||||+|+||+++++...+.+..+|.|+|||+|.|+..
T Consensus 79 G~~~~~~~~~~~g~~fG~GiYfs~~~s~s~~Y~~~~~~~g~~~~llc~V~lG~~~~~~~~~~~~~~~~g~~sv~~~~~~~ 158 (206)
T PF00644_consen 79 GFKIDPRKASRNGGMFGKGIYFSDNSSKSAQYSKPSDSNGERFMLLCRVALGKPYELKNDNPMTSPPPGYDSVKGVGSKT 158 (206)
T ss_dssp SS---TTTSCGGCSTTSSSEEEBSSHHHHHTTSTSESSSSEEEEEEEEEEECSEEEESSCCTGSSGCTTESEEEECESEE
T ss_pred CCccCccccccCCceeeeEEEeCcchhhhcccCCCccCCcceeeeEEEEEeccceeeccCcccccccCCcceecCCCccC
Confidence 99998888999999999999999999999999998667889999999999999999988877899999999999999888
Q ss_pred CCCCCceeecCCeEecCCCcccCCCCCCCCCCCEEEEeeCCccceeeEEEEEe
Q 035625 898 PQESDFVKWRDDVTVPCGKPVPSNVRASELMYNEYIVYNTAQVKMQFLLKVRF 950 (954)
Q Consensus 898 P~p~~~~~~~dgv~vp~G~~~~~~~~~~~l~ynEyIVYd~~Qv~~~YLi~~~~ 950 (954)
| ....+.+| +|.|++.........+.+|||||||.+||+|+|||+|+|
T Consensus 159 ~---~~~~~~~g--~p~~~~~~~~~~~~~~~~~eyVVy~~~q~~p~YLi~y~~ 206 (206)
T PF00644_consen 159 P---EDTIDEDG--VPSGKGYVSEYDGSSLNPNEYVVYDNSQVYPEYLITYKF 206 (206)
T ss_dssp E---GGEEEETT--ETTSSEEESCEESSSSSCSEEEESSGGGEEEEEEEEEEE
T ss_pred C---ccccccCC--CCCCCCccCccCCCccCCCEEEEEcccceeeEEEEEEEC
Confidence 8 44566788 999988666666677999999999999999999999997
No 7
>cd01438 tankyrase_like Tankyrases interact with the telomere reverse transcriptase complex (TERT). Tankyrase 1 poly-ADP-ribosylates Telomere Repeat Binding Factor 1 (TRF1) while Tankyrase 2 can poly-ADP-ribosylate itself or TRF1. The tankyrases also contain multiple ankyrin repeats that mediate protein-protein interaction (binding TRF1 and insulin-responsive aminopeptidase) and may function as a complex. Overexpression of Tank1 promotes increased telomere length when overexpressed, while overexpressed Tank2 has been shown to promote PARP cleavage- independent cell death (necrosis).
Probab=100.00 E-value=6e-37 Score=318.71 Aligned_cols=181 Identities=27% Similarity=0.440 Sum_probs=151.1
Q ss_pred hcCCEEEECCCCCHHHHHHHHHHHhcCCCCCCC-------CccccCceeeeecccccchhhHHHh-------hcCCccee
Q 035625 737 KLCCDIAPLPHDSEDYQLIEKYLHATHAPTHTD-------WSLELEEVFSLEREGEFDKFSSYQR-------KLKNRMLL 802 (954)
Q Consensus 737 ~L~~~i~~L~~~s~Ey~~I~~y~~~t~~~~h~~-------~~~~I~~If~V~r~~e~~rf~~~k~-------~~~N~~lL 802 (954)
+.++.|+.|.+++.||+.|++.|+.|.+..|.. .+++|..|-||++...|++|...++ +..|+++|
T Consensus 13 ~~~~~~~~l~p~~~e~~~v~~~~~~t~~~~~~~~~~~~~~~~~~I~kI~RIQN~~Lw~~y~~kk~~~~~~~~~~~ne~~L 92 (223)
T cd01438 13 NQGTILLDLAPDDKEYQSVEEEMQSTIREHRDGGNAGGIFNRYNIIRIQKVVNKKLRERYCHRQKEIAEENHNHHNERML 92 (223)
T ss_pred CccceEEEecCCCchHHHHHHHHHhhccccccCcccccccccccEEEEEecCCHHHHHHHHHHHHHHHHhhCCCcceEEE
Confidence 567889999999999999999999997654321 2678999999999999999975422 25799999
Q ss_pred EecCCCCChhhhhccCCCCCCCCCCCcceeeeeeeecccccccccccccCCC------CCC-------ceEEEEEEEeeC
Q 035625 803 WHGSRLTNFVGILSQGLRIAPPEAPATGYMFGKGIYFADLVSKSAQYCFTDK------KNP-------VGLMLLSEVGLG 869 (954)
Q Consensus 803 wHGSr~~N~~gILs~Glriap~~ap~tGymFGkGIYFAd~~sKSa~Yc~~~~------~~~-------~~~mlLceVaLG 869 (954)
||||+..| +|+++||+..- +.+|+|||+|||||+++|||++||++.. .++ .++||||+|+||
T Consensus 93 fHGt~~~~--~I~~~GFd~r~---~~~g~~fGkGiYFA~~askS~~Y~~~~~~~~~~p~~~~~~~~~~~~~MfLcrVlLG 167 (223)
T cd01438 93 FHGSPFIN--AIIHKGFDERH---AYIGGMFGAGIYFAENSSKSNQYVYGIGGGTGCPTHKDRSCYVCHRQMLFCRVTLG 167 (223)
T ss_pred eecCcchh--HHHHhCCCccc---cccCceeeeeeeeccchhhhccccccccccccCcccccccccccceeEEEEEEEec
Confidence 99999877 89999997542 2479999999999999999999998631 111 479999999999
Q ss_pred ceeeeccccCCCCCCCCCCCccccCCccCCCCCceeecCCeEecCCCcccCCCCCCCCCCCEEEEeeCCccceeeEEEEE
Q 035625 870 EVYELKKAKYMDKPPDGKHSTKGLGKTVPQESDFVKWRDDVTVPCGKPVPSNVRASELMYNEYIVYNTAQVKMQFLLKVR 949 (954)
Q Consensus 870 ~~~~~~~~~~~~~~p~g~~Sv~g~G~~~P~p~~~~~~~dgv~vp~G~~~~~~~~~~~l~ynEyIVYd~~Qv~~~YLi~~~ 949 (954)
++.+...++++..+|+|+|||+|. |. .+.+.||||||||.+|++|+|||+|+
T Consensus 168 k~~~~~~~~~~~~~P~G~dSv~g~----Ps------------------------~~~~~~~EfVVyd~~Q~YPeYLI~y~ 219 (223)
T cd01438 168 KSFLQFSAMKMAHAPPGHHSVIGR----PS------------------------VNGLAYAEYVIYRGEQAYPEYLITYQ 219 (223)
T ss_pred ceeeccCCcccCCCCCCCcceEcC----CC------------------------CCCcccCEEEEECCCcEeeEEEEEEE
Confidence 999888888888999999999983 21 13467899999999999999999987
Q ss_pred e
Q 035625 950 F 950 (954)
Q Consensus 950 ~ 950 (954)
.
T Consensus 220 ~ 220 (223)
T cd01438 220 I 220 (223)
T ss_pred e
Confidence 4
No 8
>PF02877 PARP_reg: Poly(ADP-ribose) polymerase, regulatory domain; InterPro: IPR004102 Poly(ADP-ribose) polymerase catalyses the covalent attachment of ADP-ribose units from NAD+ to itself and to a limited number of other DNA binding proteins, which decreases their affinity for DNA. Poly(ADP-ribose) polymerase is a regulatory component induced by DNA damage. The regulatory domain of the polymerase is almost always associated with the C-terminal catalytic domain (see IPR001290 from INTERPRO). This domain consists of a duplication of two helix-loop-helix structural repeats [].; GO: 0003950 NAD+ ADP-ribosyltransferase activity, 0006471 protein ADP-ribosylation; PDB: 1GS0_B 3FHB_A 3C49_A 3CE0_A 3C4H_A 3KCZ_B 3KJD_B 3L3M_A 3GJW_A 1UK1_A ....
Probab=99.98 E-value=1.7e-32 Score=268.32 Aligned_cols=128 Identities=46% Similarity=0.730 Sum_probs=110.8
Q ss_pred CCCCcHHHHHHHHHHcCHHHHHHHHHHhccCcCCCCccCCCHHHHHHHHHHHHHHHHHHhCCCCCCchhhhHHHHhhccc
Q 035625 604 DSQLAPALVELMKMLFNVETYRAAMMEFDINMSEMPLGKLSKNNIQKGFEALTEIQNLLNNGAYDPSVKESLIIDASNRF 683 (954)
Q Consensus 604 ~s~L~~~Vq~l~~~Ifd~~~~~~~m~~~~~d~~kmPLGkLSk~qI~~a~~vL~ei~~~l~~~~~~~~~~~~~l~~lsn~f 683 (954)
+|+||++||+||++|||+++|+++|.+|+||..+||||+||++||.+||+||++|+++|+... ....+.++||+|
T Consensus 1 ~skL~~~Vq~Li~~If~~~~~~~~m~e~~~D~~kmPLGkLS~~qI~~g~~iL~~i~~~l~~~~-----~~~~i~~lsn~f 75 (133)
T PF02877_consen 1 KSKLPPEVQDLIKLIFDVEMMKQAMKEMGYDTKKMPLGKLSKEQIEKGYEILKEIEELLKEQE-----RRSKIEDLSNRF 75 (133)
T ss_dssp --SSTHHHHHHHHHHT-HHHHHHHHHHTTB-TTTSTGGGB-HHHHHHHHHHHHHHHHHHHTTS-----SSHHHHHHHHHH
T ss_pred CCCCCHHHHHHHHHHhCHHHHHHHHHHcCCCcccCCchhcCHHHHHHHHHHHHHHHHHHHccc-----cHHHHHHHHHHH
Confidence 589999999999999999999999999999999999999999999999999999999998322 457899999999
Q ss_pred cccccCC----CCCCCCCHHHHHHHHHHHHHHHhHHHHHHhcCCC-CCCCCchHHHHh
Q 035625 684 FTVIPSI----HPHVIRDEDDFKSKVKMLEALQDIEIASRLVGFD-VDSDDSLDEKYK 736 (954)
Q Consensus 684 YtlIPh~----~p~~i~~~~~l~~k~~lle~L~die~A~~ll~~~-~~~~~pld~~Y~ 736 (954)
||+|||+ +||+|+|.+.|++|++||++|.||++|+++++.. ....||||++|+
T Consensus 76 YtlIPh~fg~~~~~~I~~~~~l~~k~~lle~L~die~A~~l~~~~~~~~~~plD~~Y~ 133 (133)
T PF02877_consen 76 YTLIPHNFGRSRPPVIDTEEKLKEKLELLEALLDIEIASKLLKDAQDEKINPLDYQYK 133 (133)
T ss_dssp HHHSTB-STTS-S--STSHHHHHHHHHHHHHHHHHHHHHHHHTSSCCCSSTHHHHHHH
T ss_pred HHHCCCcccCCCCCCcCCHHHHHHHHHHHHHHHHHHHHHHHHHhhccCCCCchhhhcC
Confidence 9999998 8999999999999999999999999999999543 344899999996
No 9
>cd08003 WGR_PARP2_like WGR domain of poly(ADP-ribose) polymerases. The WGR domain is found in a variety of eukaryotic poly(ADP-ribose) polymerases (PARPs). It has been called WGR after the most conserved central motif of the domain. The domain typically occurs together with a catalytic PARP domain, and is between 70 and 80 residues in length. It has been proposed to function as a nucleic acid binding domain. PARPs catalyze the NAD(+)-dependent synthesis of ADP-ribose polymers and their addition to various nuclear proteins. Higher eukaryotes contain several PARPs and and there may be up to 17 human PARP-like proteins, with three of them (PARP-1, PARP-2, and PARP-3) containing a WGR domain. The synthesis of poly-ADP-ribose requires multiple enzymatic activities for initiation, trans-ADP-ribosylation, elongation, branching, and release of the polymer from the enzyme. This subfamily is composed of human PARP-2 and similar proteins. Similar to PARP-1, PARP-2 is ubiquitously expressed and it
Probab=99.97 E-value=3.3e-31 Score=246.42 Aligned_cols=101 Identities=42% Similarity=0.763 Sum_probs=95.8
Q ss_pred EEeecCCeeEEEEEEeecCCCCCccEEEEEEEEcCCCCcEEEEEEeeecccccCCCccccCC-C-HHHHHHHHHHHHHHH
Q 035625 477 HILEDGKSVYNTTLNMSDLSTGVNSYYILQIIQDDKGSDCYVFRKWGRVGNDKIGGSKLEEC-S-KEDAVCEFKRLFLEK 554 (954)
Q Consensus 477 hV~~d~~~~Y~~~L~~tdi~~~~N~fY~lQll~~~~~~~y~v~~~WGRVG~~~~G~~kl~~~-s-~e~Ai~~F~k~F~eK 554 (954)
|||+|++.+|+|||++||+++|+|+||+||||+++.++.|++|+||||||+. |+++++++ + +++|+++|+++|++|
T Consensus 1 hVy~~~~~vy~a~Ln~td~~~n~Nkfy~lQlle~~~~~~y~~~~rWGRVG~~--G~~~l~~~~~~l~~A~~~F~k~F~~K 78 (103)
T cd08003 1 HVYEEGDDVYDAMLNQTNIQQNNNKYYIIQLLEDDAEKIYSVWFRWGRVGKK--GQSSLVPCGSDLEQAKSLFEKKFLDK 78 (103)
T ss_pred CEEecCCeEEEEEEEecccCCCCcceEEEEEEEeCCCCeEEEEEeEcccccc--ccceeccCCCCHHHHHHHHHHHHHHH
Confidence 7999999999999999999999999999999999888899999999999994 99999988 4 999999999999999
Q ss_pred hCCCccchhhcccCccCCCcceeccccCCCccccc
Q 035625 555 TGNPWEAWEQKQNFQKKPGKILPTGYCTSYSLSDY 589 (954)
Q Consensus 555 TGn~W~~~~~r~~f~k~pgKy~~ve~~~~~s~~d~ 589 (954)
|||+|+ +|.+|+|+||||++|| +||
T Consensus 79 Tgn~W~---~R~~f~k~pgKY~~le-------~dy 103 (103)
T cd08003 79 TKNEWE---DRANFEKVAGKYDLLE-------MDY 103 (103)
T ss_pred hCCchh---hccCCCCCCCCceEEe-------ecC
Confidence 999996 5889999999999999 886
No 10
>cd08001 WGR_PARP1_like WGR domain of poly(ADP-ribose) polymerase 1 and similar proteins. The WGR domain is found in a variety of eukaryotic poly(ADP-ribose) polymerases (PARPs). It has been called WGR after the most conserved central motif of the domain. The domain typically occurs together with a catalytic PARP domain, and is between 70 and 80 residues in length. It has been proposed to function as a nucleic acid binding domain. PARPs catalyze the NAD(+)-dependent synthesis of ADP-ribose polymers and their addition to various nuclear proteins. Higher eukaryotes contain several PARPs and and there may be up to 17 human PARP-like proteins, with three of them (PARP-1, PARP-2, and PARP-3) containing a WGR domain. The synthesis of poly-ADP-ribose requires multiple enzymatic activities for initiation, trans-ADP-ribosylation, elongation, branching, and release of the polymer from the enzyme. This subfamily is composed of vertebrate PARP-1 and similar proteins, including Arabidopsis thaliana
Probab=99.95 E-value=9.7e-28 Score=225.20 Aligned_cols=100 Identities=52% Similarity=0.971 Sum_probs=94.6
Q ss_pred cEEeecCCeeEEEEEEeecCCCCCccEEEEEEEEcCCCCcEEEEEEeeecccccCCCccccCC-CHHHHHHHHHHHHHHH
Q 035625 476 GHILEDGKSVYNTTLNMSDLSTGVNSYYILQIIQDDKGSDCYVFRKWGRVGNDKIGGSKLEEC-SKEDAVCEFKRLFLEK 554 (954)
Q Consensus 476 ~hV~~d~~~~Y~~~L~~tdi~~~~N~fY~lQll~~~~~~~y~v~~~WGRVG~~~~G~~kl~~~-s~e~Ai~~F~k~F~eK 554 (954)
+|||++++.+|+++|+++|+..|+|+||+||||+++..+.|+||++|||||+. +|+++++++ ++++|+.+|+++|++|
T Consensus 1 ~~v~~~~~~~y~~~L~~~d~~~n~n~fY~lQll~~~~~~~y~~~~~WGRiG~~-~Gq~~~~~~~~~~~A~~~F~k~f~~K 79 (104)
T cd08001 1 AHVLEEGGNLYSAVLGLVDIQTGTNSYYKLQLLEHDKGNRYWVFRSWGRVGTT-IGGNKLEEFSSLEEAKMAFEELYEEK 79 (104)
T ss_pred CeEEeCCCcEEEEEEECcccCCCCcceEEEEEEEECCCCEEEEEEEECccCCc-cCceEccCCCCHHHHHHHHHHHHHHH
Confidence 58999999999999999999999999999999999888899999999999995 389999988 5999999999999999
Q ss_pred hCCCccchhhcccCccCCCcceecc
Q 035625 555 TGNPWEAWEQKQNFQKKPGKILPTG 579 (954)
Q Consensus 555 TGn~W~~~~~r~~f~k~pgKy~~ve 579 (954)
|||+|+ +|.+|+|+||||+|||
T Consensus 80 Tgn~w~---~r~~f~k~~~ky~~~~ 101 (104)
T cd08001 80 TGNDFE---NRKNFKKKPGKFYPLD 101 (104)
T ss_pred hCCCCc---cccCCcccCCcEeEEE
Confidence 999996 5899999999999999
No 11
>cd08002 WGR_PARP3_like WGR domain of poly(ADP-ribose) polymerase 3 and similar proteins. The WGR domain is found in a variety of eukaryotic poly(ADP-ribose) polymerases (PARPs). It has been called WGR after the most conserved central motif of the domain. The domain typically occurs together with a catalytic PARP domain, and is between 70 and 80 residues in length. It has been proposed to function as a nucleic acid binding domain. PARPs catalyze the NAD(+)-dependent synthesis of ADP-ribose polymers and their addition to various nuclear proteins. Higher eukaryotes contain several PARPs and and there may be up to 17 human PARP-like proteins, with three of them (PARP-1, PARP-2, and PARP-3) containing a WGR domain. The synthesis of poly-ADP-ribose requires multiple enzymatic activities for initiation, trans-ADP-ribosylation, elongation, branching, and release of the polymer from the enzyme. This subfamily is composed of human PARP-3 and similar proteins, including Arabidopsis thaliana PARP-
Probab=99.94 E-value=3.6e-27 Score=218.62 Aligned_cols=97 Identities=35% Similarity=0.741 Sum_probs=89.1
Q ss_pred ccEEeecCCeeEEEEEEeecCCCCCccEEEEEEEEcCCCCcEEEEEEeeecccccCCCccccCC-C-HHHHHHHHHHHHH
Q 035625 475 TGHILEDGKSVYNTTLNMSDLSTGVNSYYILQIIQDDKGSDCYVFRKWGRVGNDKIGGSKLEEC-S-KEDAVCEFKRLFL 552 (954)
Q Consensus 475 ~~hV~~d~~~~Y~~~L~~tdi~~~~N~fY~lQll~~~~~~~y~v~~~WGRVG~~~~G~~kl~~~-s-~e~Ai~~F~k~F~ 552 (954)
.+|||.+ |+|||++||++.|+|+||+||||+++ +.|+||++|||||+. |++++.++ + +++|+++|+++|+
T Consensus 2 ~~~~~~~----y~~~Ln~t~~~~n~NkfY~lQll~~~--~~y~v~~~WGRVG~~--Gq~~~~~~~~~l~~A~~~F~k~F~ 73 (100)
T cd08002 2 GAEVDED----YDCMLNQTNIGHNNNKFYVIQLLESG--KEYYVWNRWGRVGEK--GQNKLKGPWDSLEGAIKDFEKKFK 73 (100)
T ss_pred CcEEeEE----EEEEEEcccccCCCeeEEEEEEEecC--CEEEEEEEECccCCc--CcceeccCCCCHHHHHHHHHHHHH
Confidence 3677765 99999999999999999999999987 789999999999994 89998766 4 9999999999999
Q ss_pred HHhCCCccchhhcccCccCCCcceeccccCCCccccc
Q 035625 553 EKTGNPWEAWEQKQNFQKKPGKILPTGYCTSYSLSDY 589 (954)
Q Consensus 553 eKTGn~W~~~~~r~~f~k~pgKy~~ve~~~~~s~~d~ 589 (954)
+||||+|+ +|.+|+|+||||++|| +||
T Consensus 74 ~KTgn~W~---~R~~f~k~~gky~~ie-------~dy 100 (100)
T cd08002 74 DKTKNNWE---DRENFVPHPGKYTLIE-------MDY 100 (100)
T ss_pred HHhCCchh---hccCCCcCCCcceEEE-------ecC
Confidence 99999996 5889999999999999 886
No 12
>cd07997 WGR_PARP WGR domain of poly(ADP-ribose) polymerases. The WGR domain is found in a variety of eukaryotic poly(ADP-ribose) polymerases (PARPs). It has been called WGR after the most conserved central motif of the domain. The domain typically occurs together with a catalytic PARP domain, and is between 70 and 80 residues in length. It has been proposed to function as a nucleic acid binding domain. PARPs catalyze the NAD(+)-dependent synthesis of ADP-ribose polymers and their addition to various nuclear proteins and histones. Higher eukaryotes contain several PARPs and there may be up to 17 human PARP-like proteins, with three of them (PARP-1, PARP-2, and PARP-3) containing a WGR domain. The synthesis of poly-ADP-ribose requires multiple enzymatic activities for initiation, trans-ADP-ribosylation, elongation, branching, and release of the polymer from the enzyme. Poly-ADP-ribosylation was thought to be a reversible post-translational covalent modification that serves as a regulator
Probab=99.92 E-value=3.5e-25 Score=207.15 Aligned_cols=97 Identities=39% Similarity=0.713 Sum_probs=88.8
Q ss_pred EeecCCeeEEEEEEeecCCCCCccEEEEEEEEcCCCCcEEEEEEeeecccccCCCccccCC-CHHHHHHHHHHHHHHHhC
Q 035625 478 ILEDGKSVYNTTLNMSDLSTGVNSYYILQIIQDDKGSDCYVFRKWGRVGNDKIGGSKLEEC-SKEDAVCEFKRLFLEKTG 556 (954)
Q Consensus 478 V~~d~~~~Y~~~L~~tdi~~~~N~fY~lQll~~~~~~~y~v~~~WGRVG~~~~G~~kl~~~-s~e~Ai~~F~k~F~eKTG 556 (954)
|+.+...+|+|+|+++|++.|+|+||+|||++++..+.|+||++|||||+. |+++++++ ++++|+++|+++|++|||
T Consensus 2 ~~~~~~~~y~~~L~~~d~~~n~n~fy~lql~~~~~~~~y~v~~~WGRVG~~--Gq~~~~~~~~~~~A~~~F~k~f~~Kt~ 79 (102)
T cd07997 2 VYGDIATVYDATLNQTDISNNNNKFYKIQILESKGPNTYALFTRWGRVGER--GQSQLTPFGSLESAIKEFEKKFKDKTG 79 (102)
T ss_pred cccccCcEEEEEEEeeccCCCCcceEEEEEEEcCCCCeEEEEEEEccCCCc--CceeecCCCCHHHHHHHHHHHHHHHHC
Confidence 444434789999999999999999999999999877899999999999994 99999988 599999999999999999
Q ss_pred CCccchhhcccCccCCCcceecc
Q 035625 557 NPWEAWEQKQNFQKKPGKILPTG 579 (954)
Q Consensus 557 n~W~~~~~r~~f~k~pgKy~~ve 579 (954)
|.|+ +|.+|+|+||||++|+
T Consensus 80 ~~w~---~r~~f~k~~~ky~~i~ 99 (102)
T cd07997 80 NEWE---NRPLFKKQPGKYALVE 99 (102)
T ss_pred Cccc---cccccccCCCceeEEe
Confidence 9996 4889999999999999
No 13
>cd01439 TCCD_inducible_PARP_like Poly(ADP-ribose) polymerases catalyse the covalent attachment of ADP-ribose units from NAD+ to itself and to a limited number of other DNA binding proteins, which decreases their affinity for DNA. Poly(ADP-ribose) polymerase is a regulatory component induced by DNA damage. The carboxyl-terminal region is the most highly conserved region of the protein. 2,3,7,8-Tetrachlorodibenzo-p-dioxin (TCDD) causes pleotropic effects in mammalian species through modulating gene expression. TCCD indicible PARP (TiPARP) is a target of TCDD that may contribute to multiple responses to TCDD by modulating protein function through poly ADP-ribosylation
Probab=99.91 E-value=4.3e-25 Score=212.62 Aligned_cols=112 Identities=25% Similarity=0.370 Sum_probs=89.8
Q ss_pred eeEecCCCCChhhhhccCCCCCCCCCCCcceeeeeeeecccccccccccccCCC-CCCceEEEEEEEeeCceeeeccccC
Q 035625 801 LLWHGSRLTNFVGILSQGLRIAPPEAPATGYMFGKGIYFADLVSKSAQYCFTDK-KNPVGLMLLSEVGLGEVYELKKAKY 879 (954)
Q Consensus 801 lLwHGSr~~N~~gILs~Glriap~~ap~tGymFGkGIYFAd~~sKSa~Yc~~~~-~~~~~~mlLceVaLG~~~~~~~~~~ 879 (954)
||||||+..++..|+++||++++.. .+|.|||+|||||+.+++|++||.... .++.++||||+|+||++.... ..
T Consensus 1 ~LfHGt~~~~~~~I~~~GF~~~~~g--~~~~~~G~GiYFA~~~s~S~~Y~~~~~~~~g~~~mfL~rVl~G~~~~~~-~~- 76 (121)
T cd01439 1 LLFHGTSADAVEAICRHGFDRRFCG--KHGTMYGKGSYFAKNASYSHQYSKKSPKADGLKEMFLARVLTGDYTQGH-PG- 76 (121)
T ss_pred CcccccChhhHHHHHHccCCCccCC--CCCCccCCeeecccChhhhhcccccCcCCCCcEEEEEEEEEecceecCC-Cc-
Confidence 6999999999999999999998654 368999999999999999999998754 357899999999999964322 22
Q ss_pred CCCCC--------CCCCCccccCCccCCCCCceeecCCeEecCCCcccCCCCCCCCCCCEEEEeeCCccceeeEEEE
Q 035625 880 MDKPP--------DGKHSTKGLGKTVPQESDFVKWRDDVTVPCGKPVPSNVRASELMYNEYIVYNTAQVKMQFLLKV 948 (954)
Q Consensus 880 ~~~~p--------~g~~Sv~g~G~~~P~p~~~~~~~dgv~vp~G~~~~~~~~~~~l~ynEyIVYd~~Qv~~~YLi~~ 948 (954)
+..|| .+||||.+ .....++|||||.+|++|+|||++
T Consensus 77 ~~~pP~~~~~~~~~~yDS~vd--------------------------------~~~~p~~~Vvf~~~q~yPeYlI~y 121 (121)
T cd01439 77 YRRPPLKPSGVELDRYDSCVD--------------------------------NVSNPSIFVIFSDVQAYPEYLITY 121 (121)
T ss_pred ccCCCCccCCCCCCCccceeC--------------------------------CCCCCCEEEEEeCCccceeEEEEC
Confidence 33444 44555543 112358999999999999999985
No 14
>cd01341 ADP_ribosyl ADP_ribosylating enzymes catalyze the transfer of ADP_ribose from NAD+ to substrates. Bacterial toxins are cytoplasmic and catalyze the transfer of a single ADP_ribose unit to eukaryotic elongation factor 2, halting protein synthesis and killing the cell. Poly(ADP-ribose) polymerases (PARPS 1-3, VPARP, tankyrase) catalyze the addition of up to 100 ADP_ribose units from NAD+. PARPs 1 and 2 are localized in the nucleaus, bind DNA, and are activated by DNA damage. VPARP is part of the vault ribonucleoprotein complex. Tankyrases regulates telomere length in part through poy(ADP_ribosylation) of telomere repeat binding factor 1 (TRF1). Poly(ADP-ribose) polymerase catalyses the covalent attachment of ADP-ribose units from NAD+ to itself and to a limited number of other DNA binding proteins, which decreases their affinity for DNA. Poly(ADP-ribose) polymerase is a regulatory component induced by DNA damage. The carboxyl-terminal region is the most highly conserved region o
Probab=99.90 E-value=1.5e-24 Score=213.55 Aligned_cols=119 Identities=29% Similarity=0.356 Sum_probs=102.9
Q ss_pred eeEecCCCCChhhhhccCCCCCCCCCCCcceeeeeeeecccccccccccccCCCC----------------CCceEEEEE
Q 035625 801 LLWHGSRLTNFVGILSQGLRIAPPEAPATGYMFGKGIYFADLVSKSAQYCFTDKK----------------NPVGLMLLS 864 (954)
Q Consensus 801 lLwHGSr~~N~~gILs~Glriap~~ap~tGymFGkGIYFAd~~sKSa~Yc~~~~~----------------~~~~~mlLc 864 (954)
+|||||+..||.+||++||+++++.++.+|+|||+|||||+++++|++||..+.. ...++|++|
T Consensus 1 ~l~HGs~~~n~~~I~~~Gl~~~~~~~~~~g~~~G~GiYfa~~~s~S~~Y~~~~~~~~~~~~~~~~~~~~~~~~~~fl~~~ 80 (137)
T cd01341 1 FLFHGSPPGNVISILKLGLRPASYGVLLNGGMFGKGIYSAPNISKSNGYSVGCDGQHVFQNGKPKVCGRELCVFGFLTLG 80 (137)
T ss_pred CccccCCccchHHHhhCCCCCCCccccccccccCceeeecCChHHhhhhhcccCCcccccccccccccccccceeEEEEE
Confidence 5899999999999999999999988888999999999999999999999988642 345899999
Q ss_pred EEeeCceeeecccc-CCCCCCCCCCCccccCCccCCCCCceeecCCeEecCCCcccCCCCCCCCCCCEEEEeeC-Cccce
Q 035625 865 EVGLGEVYELKKAK-YMDKPPDGKHSTKGLGKTVPQESDFVKWRDDVTVPCGKPVPSNVRASELMYNEYIVYNT-AQVKM 942 (954)
Q Consensus 865 eVaLG~~~~~~~~~-~~~~~p~g~~Sv~g~G~~~P~p~~~~~~~dgv~vp~G~~~~~~~~~~~l~ynEyIVYd~-~Qv~~ 942 (954)
+|++|++.+..... .+.++|+|++|+.|++.+.+ +..++|+|||||+. +|++|
T Consensus 81 ~v~~~~~~~~~~~~~~~~~~~~~~~~v~~~~~~~~-------------------------~~~~~~~e~VV~~~~~Qv~~ 135 (137)
T cd01341 81 VMSGATEESSRVLFPRNFRGATGAEVVDLLVAMCR-------------------------DALLLPREYIIFEPYSQVSI 135 (137)
T ss_pred EeccccccccccccccccCCCCCCeEEEccccccc-------------------------chhhCCCeEEEecchhhcee
Confidence 99999987765553 46678999999999876552 24578899999999 99999
Q ss_pred ee
Q 035625 943 QF 944 (954)
Q Consensus 943 ~Y 944 (954)
||
T Consensus 136 ~Y 137 (137)
T cd01341 136 RY 137 (137)
T ss_pred cC
Confidence 98
No 15
>PF00645 zf-PARP: Poly(ADP-ribose) polymerase and DNA-Ligase Zn-finger region; InterPro: IPR001510 Zinc finger (Znf) domains are relatively small protein motifs which contain multiple finger-like protrusions that make tandem contacts with their target molecule. Some of these domains bind zinc, but many do not; instead binding other metals such as iron, or no metal at all. For example, some family members form salt bridges to stabilise the finger-like folds. They were first identified as a DNA-binding motif in transcription factor TFIIIA from Xenopus laevis (African clawed frog), however they are now recognised to bind DNA, RNA, protein and/or lipid substrates [, , , , ]. Their binding properties depend on the amino acid sequence of the finger domains and of the linker between fingers, as well as on the higher-order structures and the number of fingers. Znf domains are often found in clusters, where fingers can have different binding specificities. There are many superfamilies of Znf motifs, varying in both sequence and structure. They display considerable versatility in binding modes, even between members of the same class (e.g. some bind DNA, others protein), suggesting that Znf motifs are stable scaffolds that have evolved specialised functions. For example, Znf-containing proteins function in gene transcription, translation, mRNA trafficking, cytoskeleton organisation, epithelial development, cell adhesion, protein folding, chromatin remodelling and zinc sensing, to name but a few []. Zinc-binding motifs are stable structures, and they rarely undergo conformational changes upon binding their target. This entry represents PARP (Poly(ADP) polymerase) type zinc finger domains. NAD(+) ADP-ribosyltransferase(2.4.2.30 from EC) [, ] is a eukaryotic enzyme that catalyses the covalent attachment of ADP-ribose units from NAD(+) to various nuclear acceptor proteins. This post-translational modification of nuclear proteins is dependent on DNA. It appears to be involved in the regulation of various important cellular processes such as differentiation, proliferation and tumour transformation as well as in the regulation of the molecular events involved in the recovery of the cell from DNA damage. Structurally, NAD(+) ADP-ribosyltransferase consists of three distinct domains: an N-terminal zinc-dependent DNA-binding domain, a central automodification domain and a C-terminal NAD-binding domain. The DNA-binding region contains a pair of PARP-type zinc finger domains which have been shown to bind DNA in a zinc-dependent manner. The PARP-type zinc finger domains seem to bind specifically to single-stranded DNA and to act as a DNA nick sensor. DNA ligase III [] contains, in its N-terminal section, a single copy of a zinc finger highly similar to those of PARP. More information about these proteins can be found at Protein of the Month: Zinc Fingers [].; GO: 0003677 DNA binding, 0008270 zinc ion binding; PDB: 1UW0_A 3OD8_D 3ODA_A 4AV1_A 2DMJ_A 4DQY_D 2L30_A 2CS2_A 2L31_A 3ODE_B ....
Probab=99.88 E-value=2.3e-23 Score=187.44 Aligned_cols=78 Identities=45% Similarity=0.851 Sum_probs=69.7
Q ss_pred EEcccCCcccccccccccCCCeEEEEEeeccccCCCCceeeecccccccccCC----CCCCccCCccCCCHHHHHHHHHH
Q 035625 11 EYAKSGRSSCRSCKSNIEKEALRLGKMVQSSQFDGFMPMWNHASCVLRKANQI----KSLDDVEGIESLRWEDQQKIRKY 86 (954)
Q Consensus 11 EYAkS~Ra~Ck~C~~~I~kg~LRig~~~~~~~~dg~~~~W~H~~Cf~~~~~~~----~~~~~i~G~~~L~~eDq~~i~~~ 86 (954)
||||||||+|++|+++|+||+||||.+++++.++|.++.|||++||+...... .++++|+||++|+|+||++|+++
T Consensus 1 EyAks~Ra~Ck~C~~~I~kg~lRiG~~~~~~~~~~~~~~W~H~~C~~~~~~~~~~~~~~~~~i~G~~~L~~~Dq~~i~~~ 80 (82)
T PF00645_consen 1 EYAKSGRAKCKGCKKKIAKGELRIGKIVPSPEGDGDIPKWYHWDCFFKKQLRNRETTGDIEEIKGFDELKPEDQEKIRKL 80 (82)
T ss_dssp EE-SSSTEBETTTSCBE-TTSEEEEEEEEETTSSCEEEEEEEHHHHHHTTCCTTSSTSCGGGCETCCCS-HHHHHHHHHH
T ss_pred CcCCCCCccCcccCCcCCCCCEEEEEEecccccCCCCCceECccccccchhhhcccCCCHHHCCChHHCCHHHHHHHHHH
Confidence 89999999999999999999999999999998889999999999999887433 57899999999999999999998
Q ss_pred HH
Q 035625 87 VE 88 (954)
Q Consensus 87 i~ 88 (954)
|+
T Consensus 81 i~ 82 (82)
T PF00645_consen 81 IE 82 (82)
T ss_dssp HS
T ss_pred hC
Confidence 85
No 16
>PF08063 PADR1: PADR1 (NUC008) domain; InterPro: IPR012982 This domain is found in poly(ADP-ribose)-synthetases []. The function of this domain is unknown.; GO: 0003950 NAD+ ADP-ribosyltransferase activity, 0005634 nucleus; PDB: 2JVN_A 4DQY_E 2RIQ_A.
Probab=99.85 E-value=1.9e-22 Score=166.04 Aligned_cols=53 Identities=57% Similarity=1.260 Sum_probs=45.5
Q ss_pred HHHHhhhhhhcCCCCCCCCCC-CcEEEeCceEEEecCccCccccccccCCcccc
Q 035625 260 LRDHCADGMMFGALGRCPICS-GPLRYSGGIYRCRGYQSAWSKCSYSTREPERL 312 (954)
Q Consensus 260 ll~~~aD~~~fG~l~~Cp~C~-g~l~~~~~~Y~C~G~~sewtkC~~~t~~p~R~ 312 (954)
||+||||+|+||+|++||+|+ |+|+|++.+|+|+||||||+||+|+|++|+|+
T Consensus 1 ll~r~aD~m~fGal~~Cp~C~~~~l~~~~~~Y~C~G~~sewtkC~~~t~~p~R~ 54 (55)
T PF08063_consen 1 LLDRCADGMLFGALEPCPKCKGGQLYFDGSGYKCTGYISEWTKCTYSTKDPKRK 54 (55)
T ss_dssp HHHHHHHHHHHTEE---SSSSE-EEEEETTEEEEESECCTTCEEEEEESS--EE
T ss_pred CHHHhhHHHHhcCCCCCCCCCCCeEEecCCccEeCcccCceeEcccCcCCCCcC
Confidence 799999999999999999995 59999999999999999999999999999996
No 17
>smart00773 WGR Proposed nucleic acid binding domain. This domain is named after its most conserved central motif. It is found in a variety of polyA polymerases as well as in molybdate metabolism regulators (e.g. in E.coli) and other proteins of unknown function. The domain is found in isolation in some proteins and is between 70 and 80 residues in length. It is proposed that it may be a nucleic acid binding domain.
Probab=99.71 E-value=4.1e-17 Score=147.51 Aligned_cols=77 Identities=45% Similarity=0.840 Sum_probs=70.5
Q ss_pred CCeeEEEEEEeecCCCCCccEEEEEEEEcCCCCcEEEEEEeeecccccCCCccccCC-CHHHHHHHHHHHHHHHhCCCcc
Q 035625 482 GKSVYNTTLNMSDLSTGVNSYYILQIIQDDKGSDCYVFRKWGRVGNDKIGGSKLEEC-SKEDAVCEFKRLFLEKTGNPWE 560 (954)
Q Consensus 482 ~~~~Y~~~L~~tdi~~~~N~fY~lQll~~~~~~~y~v~~~WGRVG~~~~G~~kl~~~-s~e~Ai~~F~k~F~eKTGn~W~ 560 (954)
++.+|+++|+++|+..|+|+||.|||+++..+ .|+||++|||||+. |++++.+| ++++|+++|+++|.+||++.|.
T Consensus 2 ~~~~~~~~L~~~d~~~n~nkfy~iql~~~~~~-~~~v~~~wGRiG~~--g~~~~~~~~s~~~A~~~f~k~~~~Kt~~gy~ 78 (84)
T smart00773 2 GGEIYDVYLNQTDLASNNNKFYRIQLLEDDFG-GYSVWRRWGRIGTN--GQTKLETFDSLEDAIKEFEKLFKEKTKNGYE 78 (84)
T ss_pred CCceeEEEEEccccccCCeeEEEEEEEEcCCC-CEEEEEEeeecCCC--CceeeEcCCCHHHHHHHHHHHHHHHhcCCCc
Confidence 46789999999999999999999999997654 59999999999985 89999888 6999999999999999999997
Q ss_pred c
Q 035625 561 A 561 (954)
Q Consensus 561 ~ 561 (954)
+
T Consensus 79 ~ 79 (84)
T smart00773 79 E 79 (84)
T ss_pred c
Confidence 4
No 18
>PF00645 zf-PARP: Poly(ADP-ribose) polymerase and DNA-Ligase Zn-finger region; InterPro: IPR001510 Zinc finger (Znf) domains are relatively small protein motifs which contain multiple finger-like protrusions that make tandem contacts with their target molecule. Some of these domains bind zinc, but many do not; instead binding other metals such as iron, or no metal at all. For example, some family members form salt bridges to stabilise the finger-like folds. They were first identified as a DNA-binding motif in transcription factor TFIIIA from Xenopus laevis (African clawed frog), however they are now recognised to bind DNA, RNA, protein and/or lipid substrates [, , , , ]. Their binding properties depend on the amino acid sequence of the finger domains and of the linker between fingers, as well as on the higher-order structures and the number of fingers. Znf domains are often found in clusters, where fingers can have different binding specificities. There are many superfamilies of Znf motifs, varying in both sequence and structure. They display considerable versatility in binding modes, even between members of the same class (e.g. some bind DNA, others protein), suggesting that Znf motifs are stable scaffolds that have evolved specialised functions. For example, Znf-containing proteins function in gene transcription, translation, mRNA trafficking, cytoskeleton organisation, epithelial development, cell adhesion, protein folding, chromatin remodelling and zinc sensing, to name but a few []. Zinc-binding motifs are stable structures, and they rarely undergo conformational changes upon binding their target. This entry represents PARP (Poly(ADP) polymerase) type zinc finger domains. NAD(+) ADP-ribosyltransferase(2.4.2.30 from EC) [, ] is a eukaryotic enzyme that catalyses the covalent attachment of ADP-ribose units from NAD(+) to various nuclear acceptor proteins. This post-translational modification of nuclear proteins is dependent on DNA. It appears to be involved in the regulation of various important cellular processes such as differentiation, proliferation and tumour transformation as well as in the regulation of the molecular events involved in the recovery of the cell from DNA damage. Structurally, NAD(+) ADP-ribosyltransferase consists of three distinct domains: an N-terminal zinc-dependent DNA-binding domain, a central automodification domain and a C-terminal NAD-binding domain. The DNA-binding region contains a pair of PARP-type zinc finger domains which have been shown to bind DNA in a zinc-dependent manner. The PARP-type zinc finger domains seem to bind specifically to single-stranded DNA and to act as a DNA nick sensor. DNA ligase III [] contains, in its N-terminal section, a single copy of a zinc finger highly similar to those of PARP. More information about these proteins can be found at Protein of the Month: Zinc Fingers [].; GO: 0003677 DNA binding, 0008270 zinc ion binding; PDB: 1UW0_A 3OD8_D 3ODA_A 4AV1_A 2DMJ_A 4DQY_D 2L30_A 2CS2_A 2L31_A 3ODE_B ....
Probab=99.65 E-value=3e-17 Score=147.70 Aligned_cols=74 Identities=32% Similarity=0.660 Sum_probs=60.2
Q ss_pred eecccchhhhhhhcccccccceeecccCCCCCCCC--ccccccccccccCCC-----ccccccCCCCCCCHhhHHHHHHh
Q 035625 109 EVSQTSRATCRHCSKKIMKGEVRISAKPDGQGTKG--LAWHHANCFLDLSPS-----TQVEKLSGWGNLTVSDQGAVKAL 181 (954)
Q Consensus 109 EyAks~Rs~Ck~C~~kI~Kge~Ri~~k~~~~~~~~--~~w~H~~Cf~~~~~~-----~~~e~l~G~~~L~~~dq~~v~~~ 181 (954)
|||+|+||+|++|.++|.||+|||+.....+...+ ..|||+.||...... .++++|+||+.|+++||+.|+++
T Consensus 1 EyAks~Ra~Ck~C~~~I~kg~lRiG~~~~~~~~~~~~~~W~H~~C~~~~~~~~~~~~~~~~~i~G~~~L~~~Dq~~i~~~ 80 (82)
T PF00645_consen 1 EYAKSGRAKCKGCKKKIAKGELRIGKIVPSPEGDGDIPKWYHWDCFFKKQLRNRETTGDIEEIKGFDELKPEDQEKIRKL 80 (82)
T ss_dssp EE-SSSTEBETTTSCBE-TTSEEEEEEEEETTSSCEEEEEEEHHHHHHTTCCTTSSTSCGGGCETCCCS-HHHHHHHHHH
T ss_pred CcCCCCCccCcccCCcCCCCCEEEEEEecccccCCCCCceECccccccchhhhcccCCCHHHCCChHHCCHHHHHHHHHH
Confidence 89999999999999999999999999754433333 569999999854332 67999999999999999999988
Q ss_pred c
Q 035625 182 V 182 (954)
Q Consensus 182 ~ 182 (954)
|
T Consensus 81 i 81 (82)
T PF00645_consen 81 I 81 (82)
T ss_dssp H
T ss_pred h
Confidence 6
No 19
>PF05406 WGR: WGR domain; InterPro: IPR008893 This domain is named after the most conserved central motif of the domain. It is found in a variety of polyA polymerases as well as the Escherichia coli molybdate metabolism regulator P33345 from SWISSPROT and other proteins of unknown function.The domain is found in isolation in proteins such as Q9JN21 from SWISSPROT and is between 70 and 80 residues in length. ; PDB: 2EOC_A 2RA8_A 4DQY_C 2CR9_A.
Probab=99.65 E-value=2.5e-16 Score=141.43 Aligned_cols=78 Identities=38% Similarity=0.783 Sum_probs=70.8
Q ss_pred CeeEEEEEEeecCCCCCccEEEEEEEEcCCCCcEEEEEEeeecccccCCCccccCC-CHHHHHHHHHHHHHHHhCCCccc
Q 035625 483 KSVYNTTLNMSDLSTGVNSYYILQIIQDDKGSDCYVFRKWGRVGNDKIGGSKLEEC-SKEDAVCEFKRLFLEKTGNPWEA 561 (954)
Q Consensus 483 ~~~Y~~~L~~tdi~~~~N~fY~lQll~~~~~~~y~v~~~WGRVG~~~~G~~kl~~~-s~e~Ai~~F~k~F~eKTGn~W~~ 561 (954)
+.+|+++|+++|+..|.|+||.|||+++. .|.|+++|||||+. |+.++.+| +.++|+++|+++|.+||++.|.+
T Consensus 2 ~~~y~~~L~~~d~~~n~~kfY~iql~~~~---~~~v~~~wGRiG~~--gq~~~~~f~s~~eA~~~f~~~~~~K~~~gy~~ 76 (81)
T PF05406_consen 2 GIIYNVYLERTDPEKNSNKFYRIQLLPDL---EWVVFRRWGRIGSK--GQTRIKPFDSEEEAIKEFEKLFKEKTGKGYEE 76 (81)
T ss_dssp TEECEEEEEEEETTTTEEEEEEEEEEEET---TEEEEEEEEETTSS--EEEEEEEESSHHHHHHHHHHHHHHHHSSTSCC
T ss_pred CcEEEEEEEEEecCCCcEEEEEEEEEeCC---CeEEEEEECCCCCc--CcEEEEeCCCHHHHHHHHHHHHHHHHcCCCcc
Confidence 57899999999999999999999999876 39999999999986 89999888 69999999999999999999974
Q ss_pred hhhcccC
Q 035625 562 WEQKQNF 568 (954)
Q Consensus 562 ~~~r~~f 568 (954)
+.+|
T Consensus 77 ---~~~f 80 (81)
T PF05406_consen 77 ---RDNF 80 (81)
T ss_dssp ---CGG-
T ss_pred ---cccC
Confidence 6677
No 20
>PLN03123 poly [ADP-ribose] polymerase; Provisional
Probab=99.63 E-value=2.6e-16 Score=194.86 Aligned_cols=86 Identities=23% Similarity=0.442 Sum_probs=76.5
Q ss_pred CCCCcEEEEcccCCcccccccccccCCCeEEEEEeeccccCCCCceeeecccccccccCCCCCCccCCccCCCHHHHHHH
Q 035625 4 PPKPWKVEYAKSGRSSCRSCKSNIEKEALRLGKMVQSSQFDGFMPMWNHASCVLRKANQIKSLDDVEGIESLRWEDQQKI 83 (954)
Q Consensus 4 ~~~~~~vEYAkS~Ra~Ck~C~~~I~kg~LRig~~~~~~~~dg~~~~W~H~~Cf~~~~~~~~~~~~i~G~~~L~~eDq~~i 83 (954)
...+|.|||||||||+|++|+++|.||+||||.+++++ +|.++.|||++||++... ..++++|+||++|+|+||+.|
T Consensus 103 ~~~~~~vEyAkS~Ra~Ck~C~~kI~KgelRig~~v~~~--~g~~~~W~H~~Cf~~~~~-~~~~e~l~Gf~~L~~eDqe~v 179 (981)
T PLN03123 103 SSFEYGIEVAKTSRATCRRCSEKILKGEVRISSKPEGQ--GYKGLAWHHAKCFLEMSP-STPVEKLSGWDTLSDSDQEAV 179 (981)
T ss_pred CCcceEEEEecCCCCccccCCceecCCceEEEeeecCC--CCCcccccccccccccCC-CCChhhCCChhhCCHHHHHHH
Confidence 35689999999999999999999999999999999987 457899999999998653 347889999999999999999
Q ss_pred HHHHHhcCC
Q 035625 84 RKYVEEGVG 92 (954)
Q Consensus 84 ~~~i~~~~~ 92 (954)
++++....+
T Consensus 180 ~~li~~~~~ 188 (981)
T PLN03123 180 LPLVKKSPS 188 (981)
T ss_pred HHHHhhcCC
Confidence 999976443
No 21
>cd07994 WGR WGR domain. The WGR domain is found in a variety of eukaryotic poly(ADP-ribose) polymerases (PARPs) as well as the putative Escherichia coli molybdate metabolism regulator and related bacterial proteins, a small family of bacterial DNA ligases, and various other bacterial proteins of unknown function. It has been called WGR after the most conserved central motif of the domain. The domain occurs in single-domain proteins and in a variety of domain architectures, and is between 70 and 80 residues in length. It has been proposed to function as a nucleic acid binding domain.
Probab=99.59 E-value=4.1e-15 Score=130.71 Aligned_cols=69 Identities=49% Similarity=0.847 Sum_probs=62.6
Q ss_pred EEEEeecCCCCCccEEEEEEEEcCCCCcEEEEEEeeecccccCCCccccCC-CHHHHHHHHHHHHHHHhCCCc
Q 035625 488 TTLNMSDLSTGVNSYYILQIIQDDKGSDCYVFRKWGRVGNDKIGGSKLEEC-SKEDAVCEFKRLFLEKTGNPW 559 (954)
Q Consensus 488 ~~L~~tdi~~~~N~fY~lQll~~~~~~~y~v~~~WGRVG~~~~G~~kl~~~-s~e~Ai~~F~k~F~eKTGn~W 559 (954)
++|+.+|. |+|+||+|||++++....|+||++|||||+. .||+++..+ ++++|+++|+++|.+||++..
T Consensus 2 ~~l~~~d~--~~nKFy~iql~~~~~~~~~~v~~~WGRiGt~-~Gq~~~~~~~s~~~A~~~f~kl~~~Kt~kGY 71 (73)
T cd07994 2 ATLGFQDI--GSNKYYKLQLLEDDKENRYWVFRSYGRVGTV-IGSTKLEQMPSKEEAEEHFMKLYEEKTGKGY 71 (73)
T ss_pred eEEEEEEC--CCceEEEEEEEeccCCCcEEEEEEECCccCc-CCceeeEcCCCHHHHHHHHHHHHHHHhcCCC
Confidence 57899998 8899999999998888899999999999983 289999888 699999999999999999854
No 22
>cd07996 WGR_MMR_like WGR domain of molybdate metabolism regulator and related proteins. The WGR domain is found in the putative Escherichia coli molybdate metabolism regulator and related bacterial proteins, as well as in various other bacterial proteins of unknown function. It has been called WGR after the most conserved central motif of the domain. The domain appears to occur in single-domain proteins and in a variety of domain architectures, together with ATP-dependent DNA ligase domains, WD40 repeats, leucine-rich repeats, and other domains. It has been proposed to function as a nucleic acid binding domain.
Probab=99.15 E-value=1.1e-10 Score=102.95 Aligned_cols=69 Identities=26% Similarity=0.456 Sum_probs=60.8
Q ss_pred EEEEeecCCCCCccEEEEEEEEcCCCCcEEEEEEeeecccccCCCccccCC-CHHHHHHHHHHHHHHHhCCCc
Q 035625 488 TTLNMSDLSTGVNSYYILQIIQDDKGSDCYVFRKWGRVGNDKIGGSKLEEC-SKEDAVCEFKRLFLEKTGNPW 559 (954)
Q Consensus 488 ~~L~~tdi~~~~N~fY~lQll~~~~~~~y~v~~~WGRVG~~~~G~~kl~~~-s~e~Ai~~F~k~F~eKTGn~W 559 (954)
+.|.++|...|.|+||.|||.++ ....|.|+++|||||+. |+.+...| +.++|+++|+++|.+||++.+
T Consensus 2 ~~l~~~d~~~n~~kfy~i~l~~~-lfg~~~v~~~wGRiG~~--Gq~~~~~~~s~~~A~~~~~k~~~~K~~~GY 71 (74)
T cd07996 2 TRLERIDPERNSARFYEIELEGD-LFGEWSLVRRWGRIGTK--GQSRTKTFDSEEEALKAAEKLIREKLKRGY 71 (74)
T ss_pred eEEEEECcccCCCcEEEEEEccc-CCCCEEEEEEECCCCCC--CceEEEECCCHHHHHHHHHHHHHHHHhcCC
Confidence 35889999999999999999984 44679999999999964 89998888 699999999999999998755
No 23
>KOG1037 consensus NAD+ ADP-ribosyltransferase Parp, required for poly-ADP ribosylation of nuclear proteins [Transcription; Replication, recombination and repair; Posttranslational modification, protein turnover, chaperones]
Probab=99.13 E-value=4.5e-11 Score=141.19 Aligned_cols=308 Identities=21% Similarity=0.158 Sum_probs=199.9
Q ss_pred CCCCCCcEEEEcccCCcccccccccccCCCeEEEEEeeccccCCCCceeeecccccccccCC-CCCCccCC---------
Q 035625 2 ANPPKPWKVEYAKSGRSSCRSCKSNIEKEALRLGKMVQSSQFDGFMPMWNHASCVLRKANQI-KSLDDVEG--------- 71 (954)
Q Consensus 2 ~~~~~~~~vEYAkS~Ra~Ck~C~~~I~kg~LRig~~~~~~~~dg~~~~W~H~~Cf~~~~~~~-~~~~~i~G--------- 71 (954)
+.+..+...+|++++++.|+.|...|.+..+|.++.++...|++..+.|.|.+||....... .+..+.+|
T Consensus 3 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ik~~~~~~~~~~~~~~~~s~~~~~~~~~~~~~v~~~~~~~~~~~~~ 82 (531)
T KOG1037|consen 3 NTPIALDNASVLKSEDLNSGTCEHVINKDEFRKGIKELKLIFDGDVDKWKHTSCFLKKDHLIRGPEVKVPGLNQTNVENE 82 (531)
T ss_pred CCCcccccchhhhhhchhccCCcccccchhhhhhhhhhhhccccccCcccccccccCccccccccccccccccccccccc
Confidence 34556789999999999999999889999999999999999999999999999998875333 24456667
Q ss_pred ------ccCCCHHHHHHHHHHHHhcCCCCCC-----CCccccccccceeecccch---hhhhhhccccccc---------
Q 035625 72 ------IESLRWEDQQKIRKYVEEGVGSGSS-----SKSNVTAAEYGIEVSQTSR---ATCRHCSKKIMKG--------- 128 (954)
Q Consensus 72 ------~~~L~~eDq~~i~~~i~~~~~~~~~-----~~~~~~~~~~~vEyAks~R---s~Ck~C~~kI~Kg--------- 128 (954)
++.|+|++|++++...+.++..... +...........++.++++ ..|..|.+.|.+|
T Consensus 83 ~~~~~~~~~l~~d~~~~~~~~~~~~~v~~~~~s~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 162 (531)
T KOG1037|consen 83 NNKEYTEEELEWDEQQKKRKTVEEGGVTGKGQSGIVKKSKSLDKAKKPFEIKSYKLTKNGMETRDEFIPLGHSYEEEDKK 162 (531)
T ss_pred ccchhhhhhhhcccccceeeeeeecccccccccccchhhhhhhhccchhhhhcchhhhhhhhhhhhhhcccchhHHHhhh
Confidence 9999999999999999888765432 1111111223333444444 4455677788777
Q ss_pred ------ceeecccCCCCCCCC----------------------------------------ccccccccccccCC-----
Q 035625 129 ------EVRISAKPDGQGTKG----------------------------------------LAWHHANCFLDLSP----- 157 (954)
Q Consensus 129 ------e~Ri~~k~~~~~~~~----------------------------------------~~w~H~~Cf~~~~~----- 157 (954)
+++.-.+.+....+. .+||++.|+++...
T Consensus 163 ~~~~~~~~~~~~~~~~~~ld~~~~~~~~~i~~~~~m~~~~~~~~~~~~l~~p~g~~s~~~i~~~~~~~~~~k~~~~~~~~ 242 (531)
T KOG1037|consen 163 NFSKCRSCFSPIKTDSGRLDMSVKELIKNIFDVEEMIKALMEMQLDHKLKKPLGKLSLNDINKAYELLLKVKEALKLGKI 242 (531)
T ss_pred hhcccccccChhhcccccccccccccccccccHHHHHHHHHhhccchhhhCCCCccchhhhhhhhhhhhhhhcccccCCc
Confidence 111111111100011 12444444432111
Q ss_pred -CccccccCCCCCCCHh----------hHHHHHHhcC-CCCCCCCCCCCcccccccc-c-CCC------CC--CCc-chh
Q 035625 158 -STQVEKLSGWGNLTVS----------DQGAVKALVN-VPSTTKNGDVSTSRAASVA-S-SNN------LP--DEH-ASD 214 (954)
Q Consensus 158 -~~~~e~l~G~~~L~~~----------dq~~v~~~~~-~~~~~~k~~k~~~k~~~~~-k-~~~------~~--~~~-~~~ 214 (954)
+.-.+....|..|=+. -+..|.++++ +... ..+...+++-. . ... +. ... ...
T Consensus 243 ~~~l~~~~~~f~~~ip~~~~~~~~~~~~~~~le~~~~i~~a~----~~~~~~~~~~~~~~Pl~~~y~~l~c~~~~~~~~~ 318 (531)
T KOG1037|consen 243 GEQLAKASTEFYTLIPHDFGMRKPPNEKQEALEALLDIELAY----GLRKGDDVDATCDDPLDKHYKDLKCKIEKLDKDS 318 (531)
T ss_pred HHHHHHHhhhhhhhcCCCCCcCCCchhhHHHHHHhhhhhhhh----hhhhccccccCCCChhhhHHHhhhhhhccccccc
Confidence 0000111111111111 1133333332 0000 00000000000 0 000 00 000 011
Q ss_pred HHHHHHHHHHHHHHHHHHHHhcCCHHHHHHHHHHcC--CCCCCChhHHHHHhhhhhhcCCCCCCCCCCCcEEEeCceEEE
Q 035625 215 LESKLEAQTKELWALKDDLKKHVTTAELREMLEANG--QDSTGSELDLRDHCADGMMFGALGRCPICSGPLRYSGGIYRC 292 (954)
Q Consensus 215 ~~~~lk~Q~~~~w~~~d~l~~~~~~~~l~~lL~~N~--q~~~~~~~~ll~~~aD~~~fG~l~~Cp~C~g~l~~~~~~Y~C 292 (954)
.+..|..|..+.|...+.+...++..+|+.+++.|. +....++..+...+++||.|+++.+|..|++++.+++..|.|
T Consensus 319 ~e~kmi~~~~~~~~~~~~~~~~~~~~~l~k~~~~~e~~~~~~~~~~~~r~llw~gs~~~n~a~~l~~g~~~~~~~~~~~g 398 (531)
T KOG1037|consen 319 EEFKMIAQYVEKTHAKTSTVKVVQIADLKKVNEKNEADRKVDISELINRQLLWHGSRFGNLAGILSPGLRLAPSEAPVTG 398 (531)
T ss_pred hhHHHHHHHHHhhccccCccCceeehhHHHhhhcccccccccCcccccccchhcccceeeeeccccCCceecCCCCCcee
Confidence 356789999999999999888888999999999999 677888889999999999999999999999999999999999
Q ss_pred ecCccCccccccccCCccccC
Q 035625 293 RGYQSAWSKCSYSTREPERLK 313 (954)
Q Consensus 293 ~G~~sewtkC~~~t~~p~R~~ 313 (954)
.++.++|..|+-.++++.+..
T Consensus 399 ~~~gkgiyfa~~~sks~~y~~ 419 (531)
T KOG1037|consen 399 YMFGKGIYFADAASKSANYCV 419 (531)
T ss_pred eccccceEeeeeccccccccc
Confidence 999999999999999999864
No 24
>KOG4437 consensus ATP-dependent DNA ligase III [Replication, recombination and repair]
Probab=99.09 E-value=4.3e-12 Score=135.86 Aligned_cols=85 Identities=31% Similarity=0.597 Sum_probs=73.8
Q ss_pred CCCcEEEEcccCCcccccccccccCCCeEEEEEeecccc--CCCCceeeecccccccc-------cCCCCCCccCCccCC
Q 035625 5 PKPWKVEYAKSGRSSCRSCKSNIEKEALRLGKMVQSSQF--DGFMPMWNHASCVLRKA-------NQIKSLDDVEGIESL 75 (954)
Q Consensus 5 ~~~~~vEYAkS~Ra~Ck~C~~~I~kg~LRig~~~~~~~~--dg~~~~W~H~~Cf~~~~-------~~~~~~~~i~G~~~L 75 (954)
+.+|++.||| -.|.|++|+++|.||.+|||++++.++. .|.|..|||..|.|+.. +.+..+++|+||++|
T Consensus 3 ~~RFC~DYAK-R~A~C~KCK~~i~KGV~R~GKi~P~~~S~~~~DMK~~~H~~C~FE~L~rAR~TTK~I~~~~EiEG~E~L 81 (482)
T KOG4437|consen 3 EQRFCVDYAK-RTAGCKKCKEKIVKGVCRIGKVVPNPFSESGGDMKEWYHIKCMFEKLERARATTKKIEDLTELEGWEEL 81 (482)
T ss_pred CchHHHHHHH-HhhhhHHHHHHHHHhhhhhccccCCCcccCCchHHHHHHHHHHHHHHHhccccccccccchhhcchhhh
Confidence 4579999999 5899999999999999999999997644 35899999999998753 345677899999999
Q ss_pred CHHHHHHHHHHHHhc
Q 035625 76 RWEDQQKIRKYVEEG 90 (954)
Q Consensus 76 ~~eDq~~i~~~i~~~ 90 (954)
..+||+.|++.|...
T Consensus 82 ~~~~~~~I~~~i~~L 96 (482)
T KOG4437|consen 82 EDNEKEQITQHIADL 96 (482)
T ss_pred chhhHHHHHHHHHHH
Confidence 999999999999754
No 25
>KOG4437 consensus ATP-dependent DNA ligase III [Replication, recombination and repair]
Probab=98.54 E-value=9.9e-09 Score=110.50 Aligned_cols=79 Identities=20% Similarity=0.543 Sum_probs=62.9
Q ss_pred cccceeecccchhhhhhhcccccccceeecccCCCC--CCC--Cccccccccccc----cCCC----ccccccCCCCCCC
Q 035625 104 AEYGIEVSQTSRATCRHCSKKIMKGEVRISAKPDGQ--GTK--GLAWHHANCFLD----LSPS----TQVEKLSGWGNLT 171 (954)
Q Consensus 104 ~~~~vEyAks~Rs~Ck~C~~kI~Kge~Ri~~k~~~~--~~~--~~~w~H~~Cf~~----~~~~----~~~e~l~G~~~L~ 171 (954)
..|.+.||| --+.|++|.++|+||-+|||+.+.++ ..+ ++.|||.+|.++ .++. ...+.|.||+.|.
T Consensus 4 ~RFC~DYAK-R~A~C~KCK~~i~KGV~R~GKi~P~~~S~~~~DMK~~~H~~C~FE~L~rAR~TTK~I~~~~EiEG~E~L~ 82 (482)
T KOG4437|consen 4 QRFCVDYAK-RTAGCKKCKEKIVKGVCRIGKVVPNPFSESGGDMKEWYHIKCMFEKLERARATTKKIEDLTELEGWEELE 82 (482)
T ss_pred chHHHHHHH-HhhhhHHHHHHHHHhhhhhccccCCCcccCCchHHHHHHHHHHHHHHHhccccccccccchhhcchhhhc
Confidence 358999998 23779999999999999999964332 223 366999999984 3442 4578899999999
Q ss_pred HhhHHHHHHhcC
Q 035625 172 VSDQGAVKALVN 183 (954)
Q Consensus 172 ~~dq~~v~~~~~ 183 (954)
++||+.|++++.
T Consensus 83 ~~~~~~I~~~i~ 94 (482)
T KOG4437|consen 83 DNEKEQITQHIA 94 (482)
T ss_pred hhhHHHHHHHHH
Confidence 999999998876
No 26
>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. 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 ....
Probab=98.07 E-value=7.7e-06 Score=71.73 Aligned_cols=67 Identities=19% Similarity=0.336 Sum_probs=55.4
Q ss_pred CCCCCCcEEEEEeCCCcchhHHHHHhhh---------cCCeeEEecCCCCCCCChHHHHHHhcCCCeechhhHHHHh
Q 035625 366 SENLGDLRVSFSRLPKESKCVSCCLINE---------SAETNCLVLGGVPDDPDAEMRKARKMKVPIVREDYLVDCF 433 (954)
Q Consensus 366 ~~pl~~~~i~i~G~~~~~~~~~k~~I~~---------~~~~thlI~t~~e~~~~~~vk~a~~~~i~IVs~dwL~d~~ 433 (954)
.+.|.|+.|++.|..+...++|.++|+. +..+||+|+... .+...+...|...++|||+++||.+|+
T Consensus 3 ~~~F~g~~f~i~~~~~~~~~~l~~~i~~~GG~v~~~~~~~~thvI~~~~-~~~~~k~~~~~~~~i~iV~~~Wi~~ci 78 (78)
T PF00533_consen 3 PKIFEGCTFCISGFDSDEREELEQLIKKHGGTVSNSFSKKTTHVIVGNP-NKRTKKYKAAIANGIPIVSPDWIEDCI 78 (78)
T ss_dssp TTTTTTEEEEESSTSSSHHHHHHHHHHHTTEEEESSSSTTSSEEEESSS-HCCCHHHHHHHHTTSEEEETHHHHHHH
T ss_pred CCCCCCEEEEEccCCCCCHHHHHHHHHHcCCEEEeecccCcEEEEeCCC-CCccHHHHHHHHCCCeEecHHHHHHhC
Confidence 4789999999955556778999999998 456899998776 334567888888999999999999995
No 27
>COG3831 Uncharacterized conserved protein [Function unknown]
Probab=98.06 E-value=1.2e-05 Score=71.82 Aligned_cols=66 Identities=26% Similarity=0.454 Sum_probs=55.5
Q ss_pred EEEEEEeecCCCCCccEEEEEEEEcCCCCcEEEEEEeeecccccCCCccccCCC-HHHHHHHHHHHHHHHhCCCc
Q 035625 486 YNTTLNMSDLSTGVNSYYILQIIQDDKGSDCYVFRKWGRVGNDKIGGSKLEECS-KEDAVCEFKRLFLEKTGNPW 559 (954)
Q Consensus 486 Y~~~L~~tdi~~~~N~fY~lQll~~~~~~~y~v~~~WGRVG~~~~G~~kl~~~s-~e~Ai~~F~k~F~eKTGn~W 559 (954)
|...|...|-..|+++||.|-+-.. .+-++|||||+. ||++++.|+ .++|..+|.++-.+|.....
T Consensus 1 ~~~~l~~~D~~~n~~kFy~~~i~g~------~L~~~wGRiG~~--Gq~~~k~F~~~~~a~~~~~kLi~~KrkkGY 67 (85)
T COG3831 1 YRLYLERIDEKRNMAKFYAVEIEGA------ELTRNWGRIGTK--GQSQIKSFDDSADAEKAALKLIREKRKKGY 67 (85)
T ss_pred CeeEEEEecccccccceEEEEEecc------eeEEeecccccC--cceeeeeCCCHHHHHHHHHHHHHHHHhccc
Confidence 3456889999999999999877632 477999999996 999999995 99999999999999965444
No 28
>smart00292 BRCT breast cancer carboxy-terminal domain.
Probab=97.99 E-value=1.9e-05 Score=68.32 Aligned_cols=68 Identities=25% Similarity=0.320 Sum_probs=54.2
Q ss_pred CCCCCcEEEEEeCC-CcchhHHHHHhhh---------cC-CeeEEecCCCCCCCChHHHHHHhcCCCeechhhHHHHhhc
Q 035625 367 ENLGDLRVSFSRLP-KESKCVSCCLINE---------SA-ETNCLVLGGVPDDPDAEMRKARKMKVPIVREDYLVDCFKR 435 (954)
Q Consensus 367 ~pl~~~~i~i~G~~-~~~~~~~k~~I~~---------~~-~~thlI~t~~e~~~~~~vk~a~~~~i~IVs~dwL~d~~~~ 435 (954)
++|.|+.|++.|.+ ....+.+.+.|.. .. .+||+|++..+..+. .+..|...++|||+++||.+|++.
T Consensus 1 ~~f~g~~~~~~g~~~~~~~~~l~~~i~~~Gg~~~~~~~~~~~thvi~~~~~~~~~-~~~~~~~~~~~iV~~~Wi~~~~~~ 79 (80)
T smart00292 1 KLFKGKVFVITGKFDKNERDELKELIEALGGKVTSSLSSKTTTHVIVGSPEGGKL-ELLLAIALGIPIVTEDWLLDCLKA 79 (80)
T ss_pred CccCCeEEEEeCCCCCccHHHHHHHHHHcCCEEecccCccceeEEEEcCCCCccH-HHHHHHHcCCCCccHHHHHHHHHC
Confidence 47999999999944 3567888888887 23 799999988765332 266777789999999999999875
No 29
>cd00027 BRCT Breast Cancer Suppressor Protein (BRCA1), carboxy-terminal domain. 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.
Probab=97.96 E-value=2.1e-05 Score=66.50 Aligned_cols=62 Identities=27% Similarity=0.416 Sum_probs=51.4
Q ss_pred CcEEEEEeCC-CcchhHHHHHhhh---------cCCeeEEecCCCCCCCChHHHHHHhcCCCeechhhHHHHhh
Q 035625 371 DLRVSFSRLP-KESKCVSCCLINE---------SAETNCLVLGGVPDDPDAEMRKARKMKVPIVREDYLVDCFK 434 (954)
Q Consensus 371 ~~~i~i~G~~-~~~~~~~k~~I~~---------~~~~thlI~t~~e~~~~~~vk~a~~~~i~IVs~dwL~d~~~ 434 (954)
|+.|++.|.+ +....+|+++|.. +..+||+|+...+.... ...|...+++||+++||.+|++
T Consensus 1 ~~~~~i~g~~~~~~~~~l~~~i~~~Gg~v~~~~~~~~thvI~~~~~~~~~--~~~~~~~~~~iV~~~Wi~~~~~ 72 (72)
T cd00027 1 GLTFVITGDLPSEERDELKELIEKLGGKVTSSVSKKTTHVIVGSDAGPKK--LLKAIKLGIPIVTPEWLLDCLK 72 (72)
T ss_pred CCEEEEEecCCCcCHHHHHHHHHHcCCEEeccccCCceEEEECCCCCchH--HHHHHHcCCeEecHHHHHHHhC
Confidence 6889999998 7788999999998 34689999987765332 6677788999999999999963
No 30
>PF12738 PTCB-BRCT: twin BRCT domain; PDB: 3PA6_A 3KTF_C 2WT8_C 3EF1_A 3EF0_A.
Probab=97.45 E-value=0.00014 Score=61.91 Aligned_cols=54 Identities=22% Similarity=0.399 Sum_probs=42.7
Q ss_pred cEEEEEeCCCcchhHHHHHhhh---------cCCeeEEecCCCCCCCChHHHHHHhcCCCeechhh
Q 035625 372 LRVSFSRLPKESKCVSCCLINE---------SAETNCLVLGGVPDDPDAEMRKARKMKVPIVREDY 428 (954)
Q Consensus 372 ~~i~i~G~~~~~~~~~k~~I~~---------~~~~thlI~t~~e~~~~~~vk~a~~~~i~IVs~dw 428 (954)
++|+++|-.+...+++.++|+. +..+||||+. ...+.|.+.|++.|||||+.+|
T Consensus 1 ~~i~~sg~~~~~~~~l~~~i~~~Gg~~~~~lt~~~THLI~~---~~~~~K~~~A~~~gi~vV~~~W 63 (63)
T PF12738_consen 1 VVICFSGFSGKERSQLRKLIEALGGKYSKDLTKKTTHLICS---SPEGKKYRKAKEWGIPVVSPDW 63 (63)
T ss_dssp -EEEEEEB-TTTCCHHHHHHHCTT-EEESSSSTT-SEEEEE---S--HHHHHHHHHCTSEEEEHHH
T ss_pred CEEEECCCCHHHHHHHHHHHHHCCCEEeccccCCceEEEEe---CCCcHHHHHHHHCCCcEECCCC
Confidence 5789999887778999999988 5679999992 2346789999999999999999
No 31
>cd07998 WGR_DNA_ligase WGR domain of bacterial DNA ligases. The WGR domain is found in a small family of predicted bacterial DNA ligases. It has been called WGR after the most conserved central motif of the domain. The domain typically occurs in together with an ATP-dependent DNA ligase domain, and is between 70 and 80 residues in length. It has been proposed to function as a nucleic acid binding domain.
Probab=97.25 E-value=0.0015 Score=58.01 Aligned_cols=59 Identities=19% Similarity=0.231 Sum_probs=48.0
Q ss_pred CCccEEEEEEEEcCCCCcEEEEEEeeecccccCCCcccc--CC-CHHHHHHHHHHHHHHHhCCCc
Q 035625 498 GVNSYYILQIIQDDKGSDCYVFRKWGRVGNDKIGGSKLE--EC-SKEDAVCEFKRLFLEKTGNPW 559 (954)
Q Consensus 498 ~~N~fY~lQll~~~~~~~y~v~~~WGRVG~~~~G~~kl~--~~-s~e~Ai~~F~k~F~eKTGn~W 559 (954)
+.++||.+-|.+. +...|.|-.+|||+|+. ||+... .+ +.+.|.++|.++-.+||....
T Consensus 11 ~S~Kfyev~~~~~-~d~g~~v~~~yGR~Gt~--gq~~tkt~~~~~~~~A~k~~~Klv~eK~~KGY 72 (77)
T cd07998 11 NSDKVYEVDLFEV-SDDGYVVNFRYGRRGSA--LREGTKTVAPVTLEAAEKIFDKLVKSKTNKGY 72 (77)
T ss_pred CCceEEEEEEEec-cCCceEEEEEEccccCC--cccccccCCCCCHHHHHHHHHHHHHHHhcCCc
Confidence 5679999998875 34578899999999997 787554 33 699999999999999987544
No 32
>KOG3226 consensus DNA repair protein [Replication, recombination and repair]
Probab=96.42 E-value=0.0024 Score=70.74 Aligned_cols=83 Identities=16% Similarity=0.253 Sum_probs=71.5
Q ss_pred CCCCCCCCCCcEEEEEeCCCcchhHHHHHhhh---------cCCeeEEecCCCCCCCChHHHHHHhcCCCeechhhHHHH
Q 035625 362 QSSKSENLGDLRVSFSRLPKESKCVSCCLINE---------SAETNCLVLGGVPDDPDAEMRKARKMKVPIVREDYLVDC 432 (954)
Q Consensus 362 ~~~~~~pl~~~~i~i~G~~~~~~~~~k~~I~~---------~~~~thlI~t~~e~~~~~~vk~a~~~~i~IVs~dwL~d~ 432 (954)
....++.|.|.+|+++|-......+|...... +.++||||| .|.+..+.+++.-+|-.||+-+|+++|
T Consensus 311 t~el~klL~GVV~VlSGfqNP~Rs~LRskAl~LGAkY~pDW~~gsThLIC---AF~NTPKy~QV~g~Gg~IV~keWI~~C 387 (508)
T KOG3226|consen 311 TTELSKLLEGVVFVLSGFQNPERSTLRSKALTLGAKYQPDWNAGSTHLIC---AFPNTPKYRQVEGNGGTIVSKEWITEC 387 (508)
T ss_pred chhHHHhhhceEEEEecccCchHHHHHHHHHhhcccccCCcCCCceeEEE---ecCCCcchhhcccCCceEeeHHHHHHH
Confidence 44558899999999999888777888776544 578999999 576778888899999999999999999
Q ss_pred hhcCCCCCCCccccc
Q 035625 433 FKRQKKLPFDLYKVE 447 (954)
Q Consensus 433 ~~~~~~~~~~~y~l~ 447 (954)
-..++.+|+..|++.
T Consensus 388 y~~kk~lp~rrYlm~ 402 (508)
T KOG3226|consen 388 YAQKKLLPIRRYLMH 402 (508)
T ss_pred HHHHhhccHHHHHhc
Confidence 999999999999975
No 33
>PRK06063 DNA polymerase III subunit epsilon; Provisional
Probab=96.05 E-value=0.016 Score=65.36 Aligned_cols=68 Identities=16% Similarity=0.218 Sum_probs=55.2
Q ss_pred CCC-CCCcEEEEEeCCCcchhHHHHHhhh---------cCCeeEEecCCCCCCCChHHHHHHhcCCCeechhhHHHHhh
Q 035625 366 SEN-LGDLRVSFSRLPKESKCVSCCLINE---------SAETNCLVLGGVPDDPDAEMRKARKMKVPIVREDYLVDCFK 434 (954)
Q Consensus 366 ~~p-l~~~~i~i~G~~~~~~~~~k~~I~~---------~~~~thlI~t~~e~~~~~~vk~a~~~~i~IVs~dwL~d~~~ 434 (954)
+.| |.|++|++.|.+..++++++++|+. ++.|+.||+-+..- .+.|.++|+++||||++|+-+.+.+.
T Consensus 229 ~~~l~~g~~~v~TG~l~~~R~e~~~~~~~~G~~v~~sVs~~t~~lv~g~~~~-~ssK~~kA~~~gi~ii~e~~f~~ll~ 306 (313)
T PRK06063 229 GRPLVQGMRVALSAEVSRTHEELVERILHAGLAYSDSVDRDTSLVVCNDPAP-EQGKGYHARQLGVPVLDEAAFLELLR 306 (313)
T ss_pred CCcccCCCEEEEecCCCCCHHHHHHHHHHcCCEecCccccCccEEEECCCCC-cccHHHHHHHcCCccccHHHHHHHHH
Confidence 345 5899999999999899999999998 46677888876442 34689999999999999987766654
No 34
>PRK06195 DNA polymerase III subunit epsilon; Validated
Probab=95.08 E-value=0.055 Score=60.98 Aligned_cols=68 Identities=13% Similarity=0.155 Sum_probs=54.0
Q ss_pred CCCCCCcEEEEEeCCC-cchhHHHHHhhh---------cCCeeEEecCCCCC------CCChHHHHHHhc-----CCCee
Q 035625 366 SENLGDLRVSFSRLPK-ESKCVSCCLINE---------SAETNCLVLGGVPD------DPDAEMRKARKM-----KVPIV 424 (954)
Q Consensus 366 ~~pl~~~~i~i~G~~~-~~~~~~k~~I~~---------~~~~thlI~t~~e~------~~~~~vk~a~~~-----~i~IV 424 (954)
..||.|+.|++.|.|. .++++++++|+. ++.|+.||+-.... ..+.|+++|+++ +|+|+
T Consensus 218 ~~~l~g~~~vfTG~l~~~~R~~~~~~~~~~Gg~v~~sVs~~t~~lV~G~~~~~~~~~~~~~~K~~kA~~l~~~g~~i~ii 297 (309)
T PRK06195 218 FTAFKEEVVVFTGGLASMTRDEAMILVRRLGGTVGSSVTKKTTYLVTNTKDIEDLNREEMSNKLKKAIDLKKKGQNIKFL 297 (309)
T ss_pred CccccCCEEEEccccCCCCHHHHHHHHHHhCCEecCCcccCceEEEECCCcchhhcccCcChHHHHHHHHHhCCCCcEEe
Confidence 4689999999999994 789999999998 46678888875432 335789999887 99999
Q ss_pred chhhHHHHh
Q 035625 425 REDYLVDCF 433 (954)
Q Consensus 425 s~dwL~d~~ 433 (954)
+|+=+.+.+
T Consensus 298 ~E~~f~~l~ 306 (309)
T PRK06195 298 NEEEFLQKC 306 (309)
T ss_pred cHHHHHHHH
Confidence 987555544
No 35
>PRK14350 ligA NAD-dependent DNA ligase LigA; Provisional
Probab=95.00 E-value=0.044 Score=67.58 Aligned_cols=66 Identities=12% Similarity=0.113 Sum_probs=54.6
Q ss_pred CCCCCCcEEEEEeCCC-cchhHHHHHhhh---------cCCeeEEecCCCCCCCChHHHHHHhcCCCeechhhHHHHhh
Q 035625 366 SENLGDLRVSFSRLPK-ESKCVSCCLINE---------SAETNCLVLGGVPDDPDAEMRKARKMKVPIVREDYLVDCFK 434 (954)
Q Consensus 366 ~~pl~~~~i~i~G~~~-~~~~~~k~~I~~---------~~~~thlI~t~~e~~~~~~vk~a~~~~i~IVs~dwL~d~~~ 434 (954)
..||.|..|++.|+|+ .++++++++|+. ++.|+.||+.+ +.+.|+++|+++||||++++-+.+.++
T Consensus 591 ~~~l~gktfV~TG~l~~~~R~e~~~lie~~Ggkv~ssVSkktd~LV~G~---~aGsKl~KA~~LGI~Ii~e~~f~~~l~ 666 (669)
T PRK14350 591 NSFLFGKKFCITGSFNGYSRSVLIDKLTKKGAIFNTCVTKYLDFLLVGE---KAGLKLKKANNLGIKIMSLFDIKSYVD 666 (669)
T ss_pred CCccCCcEEEEecccCCCCHHHHHHHHHHcCCEEeccccCCCcEEEECC---CCCchHHHHHHcCCEEecHHHHHHHhc
Confidence 4579999999999996 589999999998 45677888864 235789999999999999887766543
No 36
>PRK07956 ligA NAD-dependent DNA ligase LigA; Validated
Probab=94.06 E-value=0.11 Score=64.44 Aligned_cols=65 Identities=15% Similarity=0.226 Sum_probs=53.7
Q ss_pred CCCCCcEEEEEeCCC-cchhHHHHHhhh---------cCCeeEEecCCCCCCCChHHHHHHhcCCCeechhhHHHHhh
Q 035625 367 ENLGDLRVSFSRLPK-ESKCVSCCLINE---------SAETNCLVLGGVPDDPDAEMRKARKMKVPIVREDYLVDCFK 434 (954)
Q Consensus 367 ~pl~~~~i~i~G~~~-~~~~~~k~~I~~---------~~~~thlI~t~~e~~~~~~vk~a~~~~i~IVs~dwL~d~~~ 434 (954)
.+|.|+.|++.|+|. .++++++++|+. ++.|+.||+-+. .+.|+++|+++||+|++++-+.+.+.
T Consensus 589 ~~~~g~~~v~TG~l~~~~R~e~~~~i~~~G~~v~~sVs~kt~~lv~G~~---~gsK~~kA~~lgI~ii~E~~f~~~l~ 663 (665)
T PRK07956 589 VDLAGKTVVLTGTLEQLSRDEAKEKLEALGAKVSGSVSKKTDLVVAGEA---AGSKLAKAQELGIEVLDEEEFLRLLG 663 (665)
T ss_pred CCccccEEEEeCCCCCCCHHHHHHHHHHcCCEEeCcccCCCCEEEECCC---CChHHHHHHHcCCeEEcHHHHHHHHh
Confidence 459999999999996 489999999998 456778888653 35789999999999999987766553
No 37
>COG0272 Lig NAD-dependent DNA ligase (contains BRCT domain type II) [DNA replication, recombination, and repair]
Probab=92.92 E-value=0.21 Score=60.78 Aligned_cols=67 Identities=13% Similarity=0.152 Sum_probs=51.7
Q ss_pred CCCCCcEEEEEeCCC-cchhHHHHHhhhcCC-eeEEecCCCCC-----CCChHHHHHHhcCCCeechhhHHHHh
Q 035625 367 ENLGDLRVSFSRLPK-ESKCVSCCLINESAE-TNCLVLGGVPD-----DPDAEMRKARKMKVPIVREDYLVDCF 433 (954)
Q Consensus 367 ~pl~~~~i~i~G~~~-~~~~~~k~~I~~~~~-~thlI~t~~e~-----~~~~~vk~a~~~~i~IVs~dwL~d~~ 433 (954)
.||.|..|++.|+|. .+++++|.+|+..++ ++--||.+-++ +.+.|..+|+++||+|.+|+++...+
T Consensus 593 ~~l~gkt~V~TGtL~~~sR~eak~~le~lGakv~~SVSkktD~vvaG~~aGSKl~kA~eLgv~i~~E~~~~~ll 666 (667)
T COG0272 593 SPLAGKTFVLTGTLEGMSRDEAKALLEALGAKVSGSVSKKTDYVVAGENAGSKLAKAQELGVKIIDEEEFLALL 666 (667)
T ss_pred cccCCCEEEEeccCCCCCHHHHHHHHHHcCCEEeceecccccEEEEcCCCChHHHHHHHcCCeEecHHHHHHhh
Confidence 789999999999998 789999999999433 33333333221 23579999999999999998876543
No 38
>PRK14351 ligA NAD-dependent DNA ligase LigA; Provisional
Probab=92.90 E-value=0.22 Score=61.75 Aligned_cols=68 Identities=21% Similarity=0.317 Sum_probs=55.1
Q ss_pred CCCCCCcEEEEEeCCC-cchhHHHHHhhh---------cCCeeEEecCCCCCCCChHHHHHHhcCCCeechhhHHHHhhc
Q 035625 366 SENLGDLRVSFSRLPK-ESKCVSCCLINE---------SAETNCLVLGGVPDDPDAEMRKARKMKVPIVREDYLVDCFKR 435 (954)
Q Consensus 366 ~~pl~~~~i~i~G~~~-~~~~~~k~~I~~---------~~~~thlI~t~~e~~~~~~vk~a~~~~i~IVs~dwL~d~~~~ 435 (954)
..||.|..|++.|.|. .++++++++|+. ++.|+.||+-+.. ...|+++|+++||+|++++-+.+.+..
T Consensus 607 ~~~l~g~~~v~TG~l~~~~R~~~~~~i~~~Gg~v~~sVs~kt~~Lv~G~~~--g~sKl~kA~~lgi~ii~E~~f~~ll~~ 684 (689)
T PRK14351 607 GDALDGLTFVFTGSLSGYTRSEAQELVEAHGGNATGSVSGNTDYLVVGENP--GQSKRDDAEANDVPTLDEEEFEELLAE 684 (689)
T ss_pred CCCCCCcEEEEccCCCCCCHHHHHHHHHHcCCEEcCCcCCCccEEEEcCCC--ChhHHHHHHHCCCeEecHHHHHHHHHh
Confidence 4579999999999996 589999999998 4667788876532 126899999999999998877666553
No 39
>TIGR00575 dnlj DNA ligase, NAD-dependent. 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.
Probab=92.12 E-value=0.24 Score=61.24 Aligned_cols=60 Identities=18% Similarity=0.298 Sum_probs=50.3
Q ss_pred CCCCCCcEEEEEeCCC-cchhHHHHHhhh---------cCCeeEEecCCCCCCCChHHHHHHhcCCCeechhh
Q 035625 366 SENLGDLRVSFSRLPK-ESKCVSCCLINE---------SAETNCLVLGGVPDDPDAEMRKARKMKVPIVREDY 428 (954)
Q Consensus 366 ~~pl~~~~i~i~G~~~-~~~~~~k~~I~~---------~~~~thlI~t~~e~~~~~~vk~a~~~~i~IVs~dw 428 (954)
..||.|..|++.|+|. .++++++++|+. ++.|+.||+-+. .+.|+++|+++||+|++|+-
T Consensus 582 ~~~l~gk~~v~TG~l~~~~R~~~~~~i~~~G~~v~~sVs~kt~~lv~G~~---~gsKl~kA~~lgi~ii~E~~ 651 (652)
T TIGR00575 582 GSPLAGKTFVLTGTLSQMSRDEAKELLENLGGKVASSVSKKTDYVIAGEK---AGSKLAKAQELGIPIINEEE 651 (652)
T ss_pred CCCccCcEEEEeccCCCCCHHHHHHHHHHcCCEEeCCcCCCccEEEECCC---CChHHHHHHHcCCcEechhh
Confidence 4589999999999996 689999999998 456778887653 35689999999999999863
No 40
>PF02037 SAP: SAP domain; InterPro: IPR003034 The SAP (after SAF-A/B, Acinus and PIAS) motif is a putative DNA binding domain found in diverse nuclear proteins involved in chromosomal organisation [], including in apoptosis []. In yeast, SAP is found in the most distal N-terminal region of E3 SUMO-protein ligase SIZ1, where it is involved in nuclear localization [].; GO: 0003676 nucleic acid binding; PDB: 2RNN_A 1JEQ_A 2KW9_A 2KVU_A 2DO1_A 1ZBU_B 1ZBH_A 2DO5_A 2RNO_A 1H1J_S ....
Probab=82.44 E-value=1.7 Score=32.81 Aligned_cols=32 Identities=28% Similarity=0.489 Sum_probs=28.5
Q ss_pred cCCHHHHHHHHHHcCCCCCCChhHHHHHhhhh
Q 035625 236 HVTTAELREMLEANGQDSTGSELDLRDHCADG 267 (954)
Q Consensus 236 ~~~~~~l~~lL~~N~q~~~~~~~~ll~~~aD~ 267 (954)
.+++++|+++|...+-.+.|.+.+|++|+-+.
T Consensus 3 ~l~v~eLk~~l~~~gL~~~G~K~~Li~Rl~~~ 34 (35)
T PF02037_consen 3 KLTVAELKEELKERGLSTSGKKAELIERLKEH 34 (35)
T ss_dssp TSHHHHHHHHHHHTTS-STSSHHHHHHHHHHH
T ss_pred cCcHHHHHHHHHHCCCCCCCCHHHHHHHHHHh
Confidence 58899999999999999999999999998764
No 41
>smart00513 SAP Putative DNA-binding (bihelical) motif predicted to be involved in chromosomal organisation.
Probab=81.21 E-value=2.6 Score=31.70 Aligned_cols=32 Identities=22% Similarity=0.488 Sum_probs=29.5
Q ss_pred cCCHHHHHHHHHHcCCCCCCChhHHHHHhhhh
Q 035625 236 HVTTAELREMLEANGQDSTGSELDLRDHCADG 267 (954)
Q Consensus 236 ~~~~~~l~~lL~~N~q~~~~~~~~ll~~~aD~ 267 (954)
.++.++|+++|...+.+++|.+..|++|+.+.
T Consensus 3 ~l~~~~Lk~~l~~~gl~~~G~K~~Lv~Rl~~~ 34 (35)
T smart00513 3 KLKVSELKDELKKRGLSTSGTKAELVDRLLEA 34 (35)
T ss_pred cCcHHHHHHHHHHcCCCCCCCHHHHHHHHHHh
Confidence 48899999999999999999999999998764
No 42
>KOG1929 consensus Nucleotide excision repair factor NEF2, RAD4/CUT5 component [Replication, recombination and repair]
Probab=79.51 E-value=2.6 Score=53.03 Aligned_cols=82 Identities=21% Similarity=0.291 Sum_probs=64.4
Q ss_pred CCCCCCCcEEEEEeCCCcchhHHHHHhhhcCC---------eeEEecCCCCCCCChHHHHHHhcCCCeechhhHHHHhhc
Q 035625 365 KSENLGDLRVSFSRLPKESKCVSCCLINESAE---------TNCLVLGGVPDDPDAEMRKARKMKVPIVREDYLVDCFKR 435 (954)
Q Consensus 365 ~~~pl~~~~i~i~G~~~~~~~~~k~~I~~~~~---------~thlI~t~~e~~~~~~vk~a~~~~i~IVs~dwL~d~~~~ 435 (954)
..+.+.+++|++.|-...-+.+++..|-++++ +++++..++... .+-+.|..-+++||+.+||.+++.+
T Consensus 100 ~~p~~~~~~Vc~tgl~~~eK~ei~~~v~k~gg~~~~~L~s~v~~~~~~~~~~~--~kYe~al~wn~~v~~~~w~~~s~~~ 177 (811)
T KOG1929|consen 100 KCPGFFGLKVCLTGLSGDEKSEIKILVPKHGGTLHRSLSSDVNSLKILPEVKT--EKYEQALKWNIPVVSDDWLFDSIEK 177 (811)
T ss_pred cCCcccceEEEecccchHHHHHHHHHhhhcccEEehhhhhhhheeeeccccch--HHHHHHHhhCCccccHHHHhhhhcc
Confidence 35788999999999887678889999888544 445554443321 4566677789999999999999999
Q ss_pred CCCCCCCcccccc
Q 035625 436 QKKLPFDLYKVEV 448 (954)
Q Consensus 436 ~~~~~~~~y~l~~ 448 (954)
....+...|.+.+
T Consensus 178 ~~~~~~~~~e~~~ 190 (811)
T KOG1929|consen 178 TAVLETKPYEGAP 190 (811)
T ss_pred ccccccccccccc
Confidence 9999999998764
No 43
>PRK05601 DNA polymerase III subunit epsilon; Validated
Probab=78.41 E-value=5.3 Score=46.02 Aligned_cols=63 Identities=13% Similarity=0.171 Sum_probs=48.2
Q ss_pred CCCCcEEEEEeCCCcchhHHHHHhhh--------cCCeeEEecCCCCCCCChHHHHHHhcCCCeechh-hHH
Q 035625 368 NLGDLRVSFSRLPKESKCVSCCLINE--------SAETNCLVLGGVPDDPDAEMRKARKMKVPIVRED-YLV 430 (954)
Q Consensus 368 pl~~~~i~i~G~~~~~~~~~k~~I~~--------~~~~thlI~t~~e~~~~~~vk~a~~~~i~IVs~d-wL~ 430 (954)
--.||+|+++|....+.++|.+.+.. ...-|-||++..-..-..|...|+..|||++++. ||.
T Consensus 294 lv~Gm~v~~~~e~~~~~d~li~~~~~agL~y~~~~~r~tslvv~n~~~~~~gk~~~a~~~gipl~~d~~fl~ 365 (377)
T PRK05601 294 LVAGMEVVVAPEITMDPDIIIQAIVRAGLAYSEKLTRQTSVVVCNQTRDLDGKAMHAQRKGIPLLSDVAFLA 365 (377)
T ss_pred cccCcEEEEeCCccCCHHHHHHHHHHccchhhhccccceeEEEeCCCCCccchhhhhhhcCCCccCHHHHHH
Confidence 45799999999999999998887665 2334666666655556678888999999999964 554
No 44
>smart00778 Prim_Zn_Ribbon Zinc-binding domain of primase-helicase. This region represents the zinc binding domain. It is found in the N-terminal region of the bacteriophage P4 alpha protein, which is a multifunctional protein with origin recognition, helicase and primase activities.
Probab=78.17 E-value=1.5 Score=33.68 Aligned_cols=22 Identities=36% Similarity=1.025 Sum_probs=17.5
Q ss_pred CCCCCCCCCC--cEEEeC----ceEEEe
Q 035625 272 ALGRCPICSG--PLRYSG----GIYRCR 293 (954)
Q Consensus 272 ~l~~Cp~C~g--~l~~~~----~~Y~C~ 293 (954)
.-.|||.|+| ++.|+. +.|+|.
T Consensus 2 ~~~pCP~CGG~DrFr~~d~~g~G~~~C~ 29 (37)
T smart00778 2 RHGPCPNCGGSDRFRFDDKDGRGTWFCS 29 (37)
T ss_pred CccCCCCCCCccccccccCCCCcCEEeC
Confidence 4579999976 788875 689986
No 45
>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=77.94 E-value=3 Score=53.31 Aligned_cols=74 Identities=18% Similarity=0.212 Sum_probs=51.4
Q ss_pred cEEEEEeCCCcc-hhHHHHHhhh-----cCCeeEEecCCCCCCCChHHHHHHhcCCCeechhhHHHHhhcCCCCCCCccc
Q 035625 372 LRVSFSRLPKES-KCVSCCLINE-----SAETNCLVLGGVPDDPDAEMRKARKMKVPIVREDYLVDCFKRQKKLPFDLYK 445 (954)
Q Consensus 372 ~~i~i~G~~~~~-~~~~k~~I~~-----~~~~thlI~t~~e~~~~~~vk~a~~~~i~IVs~dwL~d~~~~~~~~~~~~y~ 445 (954)
..+.++|..... -+..+..+.. ..+.||+|+. -+.+..++=.|-..|++||+++||.+|.+.+..+++++|.
T Consensus 660 ~~~lfs~~~~~~~~k~~~k~lg~s~~ss~~e~Th~i~~--rirRT~k~Leai~~G~~ivT~~wL~s~~k~g~~~dek~yi 737 (896)
T KOG2043|consen 660 IEVLFSDKNDGKNYKLAKKFLGGSVASSDSEATHFIAD--RIRRTLKFLEAISSGKPLVTPQWLVSSLKSGEKLDEKPYI 737 (896)
T ss_pred eeeeeeeccCchhhhhHHhhccceeecccccceeeeeh--hhhccHHHHhhhccCCcccchHHHHHHhhccccccCcccc
Confidence 446677766543 1222222111 3457899987 2334556666777899999999999999999999999998
Q ss_pred cc
Q 035625 446 VE 447 (954)
Q Consensus 446 l~ 447 (954)
+.
T Consensus 738 l~ 739 (896)
T KOG2043|consen 738 LH 739 (896)
T ss_pred cc
Confidence 75
No 46
>KOG1929 consensus Nucleotide excision repair factor NEF2, RAD4/CUT5 component [Replication, recombination and repair]
Probab=75.64 E-value=3.2 Score=52.23 Aligned_cols=79 Identities=20% Similarity=0.285 Sum_probs=58.4
Q ss_pred CCCCCCcEEEEEeCCCcchhHHHHHhhhc---------CCeeEEecCCCCCCCChHHHHHHhcCCCeechhhHHHHhhcC
Q 035625 366 SENLGDLRVSFSRLPKESKCVSCCLINES---------AETNCLVLGGVPDDPDAEMRKARKMKVPIVREDYLVDCFKRQ 436 (954)
Q Consensus 366 ~~pl~~~~i~i~G~~~~~~~~~k~~I~~~---------~~~thlI~t~~e~~~~~~vk~a~~~~i~IVs~dwL~d~~~~~ 436 (954)
..||.||.|+.++.-....+.|-..+..+ ...||||++.+ ++.+...|...+||||+.+||..|...+
T Consensus 491 ~~~~e~~~~~~s~~~~~~~e~ln~~~~~~gas~~~~f~r~~~~l~~~~~---k~s~~~~~~kw~ip~vT~~wL~e~~rq~ 567 (811)
T KOG1929|consen 491 SQPFENLTISNSQSAEAEREKLNNLANDLGASNVKTFTRKSTTLLTTSA---KGSKYEIAGKWSIPIVTPDWLYECVRQN 567 (811)
T ss_pred cccccCceEEeeechHHHHHHHhHhhhhccccccceeeecccEEecccc---ccchhhhccccCCCccChhHHHhhcccc
Confidence 57899999999988765556666665552 22378888872 3444455556799999999999999888
Q ss_pred CCCCCCccccc
Q 035625 437 KKLPFDLYKVE 447 (954)
Q Consensus 437 ~~~~~~~y~l~ 447 (954)
+..+...|.+.
T Consensus 568 ~~~~~e~~l~~ 578 (811)
T KOG1929|consen 568 KGERNEGFLNG 578 (811)
T ss_pred Ccccceeeccc
Confidence 88877777764
No 47
>PF13151 DUF3990: Protein of unknown function (DUF3990)
Probab=75.14 E-value=2.3 Score=43.23 Aligned_cols=61 Identities=18% Similarity=0.333 Sum_probs=38.4
Q ss_pred ceeEecCCCCChhhhhccCCCCCCCCCCCcceeeeeeeecccccccccccccCCCCCCceEEEEEEEeeC
Q 035625 800 MLLWHGSRLTNFVGILSQGLRIAPPEAPATGYMFGKGIYFADLVSKSAQYCFTDKKNPVGLMLLSEVGLG 869 (954)
Q Consensus 800 ~lLwHGSr~~N~~gILs~Glriap~~ap~tGymFGkGIYFAd~~sKSa~Yc~~~~~~~~~~mlLceVaLG 869 (954)
|.|||||... + .+-++. ......=||+|.|.++...-|..++......+.+++..-+.-.-
T Consensus 1 M~LYHGS~~~-i-----~~pd~~---~~r~~~DFG~GFY~T~~~~qA~~wA~~~~~~~~~~v~~Y~~~~~ 61 (154)
T PF13151_consen 1 MILYHGSNQI-I-----EKPDLS---KGRPNLDFGKGFYLTTDKEQAKRWAKRKRNGGDPIVNVYEFDED 61 (154)
T ss_pred CEeecCCCcc-c-----cCceec---cCcccCccCceeEcccCHHHHHHHHHhcccCCCCEEEEEEEecc
Confidence 5799999632 1 122221 12233469999999999999998887653344556655555443
No 48
>PF15633 Tox-ART-HYD1: HYD1 signature containing ADP-ribosyltransferase
Probab=74.90 E-value=1.3 Score=41.30 Aligned_cols=40 Identities=33% Similarity=0.661 Sum_probs=31.0
Q ss_pred eEecCCCCChhhhhccCCCCCCCCCCCcceeeeeeeeccccc
Q 035625 802 LWHGSRLTNFVGILSQGLRIAPPEAPATGYMFGKGIYFADLV 843 (954)
Q Consensus 802 LwHGSr~~N~~gILs~Glriap~~ap~tGymFGkGIYFAd~~ 843 (954)
|+|=|+..++-+|+++|---....-|.. .||.|+||++.+
T Consensus 1 lyHYTs~~G~n~I~~s~~i~~~a~~p~~--~~~~g~y~t~~a 40 (96)
T PF15633_consen 1 LYHYTSEKGYNGILESGIIKLKANNPKD--RFGQGQYFTDIA 40 (96)
T ss_pred CccccchhhhHHhhccceEEeccCCccc--cCCCceEEEecC
Confidence 6888999999999998864433333444 799999999975
No 49
>KOG0966 consensus ATP-dependent DNA ligase IV [Replication, recombination and repair]
Probab=74.74 E-value=4.8 Score=49.81 Aligned_cols=82 Identities=17% Similarity=0.247 Sum_probs=56.7
Q ss_pred CCCCCCCCCcEEEEEeCCC--cchhHHHHHhhhcCC---------eeEEecCCCCCCCChHHH-HHHhcCCCeechhhHH
Q 035625 363 SSKSENLGDLRVSFSRLPK--ESKCVSCCLINESAE---------TNCLVLGGVPDDPDAEMR-KARKMKVPIVREDYLV 430 (954)
Q Consensus 363 ~~~~~pl~~~~i~i~G~~~--~~~~~~k~~I~~~~~---------~thlI~t~~e~~~~~~vk-~a~~~~i~IVs~dwL~ 430 (954)
++....|.|+.|++.-... .+++++.+.|.+.++ .|++|++-... +..++ .|.+.++-||...||.
T Consensus 628 ~~~s~if~gl~f~Vlsgt~~~~tk~~le~~ivenGG~iv~nv~p~~~~ci~~a~~e--t~~vk~~~~~~~cdVl~p~Wll 705 (881)
T KOG0966|consen 628 AKISNIFDGLEFCVLSGTSETHTKAKLEEIIVENGGKIVQNVGPSDTLCIATAGKE--TTRVKAQAIKRSCDVLKPAWLL 705 (881)
T ss_pred cchhhhhcCeeEEEecCCcccccHHHHHHHHHHcCCEEEEcCCCCCcceEEecccc--chHHHHHHHhccCceeeHHHHH
Confidence 3346789999997655443 346889998887433 45565543221 22233 3444699999999999
Q ss_pred HHhhcCCCCCCCcccc
Q 035625 431 DCFKRQKKLPFDLYKV 446 (954)
Q Consensus 431 d~~~~~~~~~~~~y~l 446 (954)
||+..++.+|+.++.+
T Consensus 706 dcc~~~~l~p~~P~~~ 721 (881)
T KOG0966|consen 706 DCCKKQRLLPWLPRDL 721 (881)
T ss_pred HHHhhhhccccccHHH
Confidence 9999999888887765
No 50
>COG5275 BRCT domain type II [General function prediction only]
Probab=74.20 E-value=5.9 Score=41.82 Aligned_cols=70 Identities=17% Similarity=0.145 Sum_probs=55.0
Q ss_pred CCCCCCcEEEEEeCCC-cchhHHHHHhhhcC-CeeEEecCCCCC----C-CC-hHHHHHHhcCCCeechhhHHHHhhc
Q 035625 366 SENLGDLRVSFSRLPK-ESKCVSCCLINESA-ETNCLVLGGVPD----D-PD-AEMRKARKMKVPIVREDYLVDCFKR 435 (954)
Q Consensus 366 ~~pl~~~~i~i~G~~~-~~~~~~k~~I~~~~-~~thlI~t~~e~----~-~~-~~vk~a~~~~i~IVs~dwL~d~~~~ 435 (954)
..+|.|+.|++-|.+. -++++.+.+|.-.+ .||.++++.-.| + .+ .+|++++.++|+++.++=+...+..
T Consensus 154 ~~cL~G~~fVfTG~l~TlsR~~a~~lvk~yGgrvT~~pSskTtflvlGdnaGP~K~ekiKqlkIkaidEegf~~LI~~ 231 (276)
T COG5275 154 RECLKGKVFVFTGDLKTLSRDDAKTLVKVYGGRVTAVPSSKTTFLVLGDNAGPSKMEKIKQLKIKAIDEEGFDSLIKD 231 (276)
T ss_pred cccccccEEEEecccccccchhHHHHHHHhCCeeecccccceeEEEecCCCChHHHHHHHHhCCccccHHHHHHHHhc
Confidence 4789999999999997 56788888888743 577777776554 1 22 6899999999999999887766653
No 51
>PF08273 Prim_Zn_Ribbon: Zinc-binding domain of primase-helicase; InterPro: IPR013237 This entry is represented by bacteriophage T7 Gp4. The characteristics of the protein distribution suggest prophage matches in addition to the phage matches. This entry represents a zinc binding domain found in the N-terminal region of the bacteriophage T7 Gp4 and P4 alpha protein. P4 is a multifunctional protein with origin recognition, helicase and primase activities [, , ].; GO: 0003896 DNA primase activity, 0004386 helicase activity, 0008270 zinc ion binding; PDB: 1NUI_B.
Probab=73.64 E-value=1.5 Score=34.31 Aligned_cols=22 Identities=45% Similarity=1.217 Sum_probs=13.2
Q ss_pred CCCCCCCCCC--cEE-EeC----ceEEEe
Q 035625 272 ALGRCPICSG--PLR-YSG----GIYRCR 293 (954)
Q Consensus 272 ~l~~Cp~C~g--~l~-~~~----~~Y~C~ 293 (954)
.-.|||.|+| ++. |+. +.|.|.
T Consensus 2 ~h~pCP~CGG~DrFri~~d~~~~G~~~C~ 30 (40)
T PF08273_consen 2 KHGPCPICGGKDRFRIFDDKDGRGTWICR 30 (40)
T ss_dssp EEE--TTTT-TTTEEEETT----S-EEET
T ss_pred CCCCCCCCcCccccccCcCcccCCCEECC
Confidence 3469999965 776 765 789994
No 52
>COG2824 PhnA Uncharacterized Zn-ribbon-containing protein involved in phosphonate metabolism [Inorganic ion transport and metabolism]
Probab=72.86 E-value=2.9 Score=39.32 Aligned_cols=30 Identities=30% Similarity=0.820 Sum_probs=24.3
Q ss_pred CCCCCCCCCCcEEEe-CceEEEecCccCccc
Q 035625 272 ALGRCPICSGPLRYS-GGIYRCRGYQSAWSK 301 (954)
Q Consensus 272 ~l~~Cp~C~g~l~~~-~~~Y~C~G~~sewtk 301 (954)
-+++||+|+.-..|. +..|.|++-.-||+-
T Consensus 2 ~lp~cp~c~sEytYed~~~~~cpec~~ew~~ 32 (112)
T COG2824 2 SLPPCPKCNSEYTYEDGGQLICPECAHEWNE 32 (112)
T ss_pred CCCCCCccCCceEEecCceEeCchhcccccc
Confidence 379999999888886 568999887777763
No 53
>PF01396 zf-C4_Topoisom: Topoisomerase DNA binding C4 zinc finger; InterPro: IPR013498 DNA topoisomerases regulate the number of topological links between two DNA strands (i.e. change the number of superhelical turns) by catalysing transient single- or double-strand breaks, crossing the strands through one another, then resealing the breaks []. These enzymes have several functions: to remove DNA supercoils during transcription and DNA replication; for strand breakage during recombination; for chromosome condensation; and to disentangle intertwined DNA during mitosis [, ]. DNA topoisomerases are divided into two classes: type I enzymes (5.99.1.2 from EC; topoisomerases I, III and V) break single-strand DNA, and type II enzymes (5.99.1.3 from EC; topoisomerases II, IV and VI) break double-strand DNA []. Type I topoisomerases are ATP-independent enzymes (except for reverse gyrase), and can be subdivided according to their structure and reaction mechanisms: type IA (bacterial and archaeal topoisomerase I, topoisomerase III and reverse gyrase) and type IB (eukaryotic topoisomerase I and topoisomerase V). These enzymes are primarily responsible for relaxing positively and/or negatively supercoiled DNA, except for reverse gyrase, which can introduce positive supercoils into DNA. This entry represents the zinc-finger domain found in type IA topoisomerases, including bacterial and archaeal topoisomerase I and III enzymes, and in eukaryotic topoisomerase III enzymes. Escherichia coli topoisomerase I proteins contain five copies of a zinc-ribbon-like domain at their C terminus, two of which have lost their cysteine residues and are therefore probably not able to bind zinc []. This domain is still considered to be a member of the zinc-ribbon superfamily despite not being able to bind zinc. More information about this protein can be found at Protein of the Month: DNA Topoisomerase [].; GO: 0003677 DNA binding, 0003916 DNA topoisomerase activity, 0006265 DNA topological change, 0005694 chromosome
Probab=70.62 E-value=4.8 Score=31.23 Aligned_cols=31 Identities=32% Similarity=0.891 Sum_probs=22.6
Q ss_pred CCCCCCCCcEEEeC----ceEEEecCccCccccccccCC
Q 035625 274 GRCPICSGPLRYSG----GIYRCRGYQSAWSKCSYSTRE 308 (954)
Q Consensus 274 ~~Cp~C~g~l~~~~----~~Y~C~G~~sewtkC~~~t~~ 308 (954)
..||.|++.|+... .-|-|++| -.|.|+...
T Consensus 2 ~~CP~Cg~~lv~r~~k~g~F~~Cs~y----P~C~~~~~~ 36 (39)
T PF01396_consen 2 EKCPKCGGPLVLRRGKKGKFLGCSNY----PECKYTEPL 36 (39)
T ss_pred cCCCCCCceeEEEECCCCCEEECCCC----CCcCCeEeC
Confidence 57999999887742 36789776 678876543
No 54
>KOG4177 consensus Ankyrin [Cell wall/membrane/envelope biogenesis]
Probab=70.14 E-value=1.3 Score=57.40 Aligned_cols=141 Identities=11% Similarity=0.053 Sum_probs=90.2
Q ss_pred ECCCCCHHHHHHHHHHHhcCCCCCCC--------CccccCceeeeecccccchhhH----HHh---hcCCcceeEecCCC
Q 035625 744 PLPHDSEDYQLIEKYLHATHAPTHTD--------WSLELEEVFSLEREGEFDKFSS----YQR---KLKNRMLLWHGSRL 808 (954)
Q Consensus 744 ~L~~~s~Ey~~I~~y~~~t~~~~h~~--------~~~~I~~If~V~r~~e~~rf~~----~k~---~~~N~~lLwHGSr~ 808 (954)
.|-.+..++....++...|. .+|.. +...+..++.+.....++++.. |.. -..|+..+|||+..
T Consensus 963 ~ll~~~~~~~~~a~~~~~t~-~~h~~~~~~~~~f~~~~~~r~~~~~~~~~~e~~~~~~~~~~e~~~~~~~~~~~f~~~~~ 1041 (1143)
T KOG4177|consen 963 RLLCSITGGVAPAQWEDITG-TTHLTFANDCGSFTTNVSARFWLVDCRKTREAVTHATQLYNELIFVYMAKFVVFAKSNF 1041 (1143)
T ss_pred hhhhcccCCcCcchhhcccc-eeecccccccceeehhhhhHhhhhhcchhhhhhhHHHHHHHHHHHHHHHHHhhhccCCc
Confidence 34445556666667766653 45532 2334556677776666665532 111 14689999999988
Q ss_pred CChhhhhccCCCCCCCCCCCcceeeeeeeecccccccccccccCCC-------------CCCceEEEEEEEeeCceeeec
Q 035625 809 TNFVGILSQGLRIAPPEAPATGYMFGKGIYFADLVSKSAQYCFTDK-------------KNPVGLMLLSEVGLGEVYELK 875 (954)
Q Consensus 809 ~N~~gILs~Glriap~~ap~tGymFGkGIYFAd~~sKSa~Yc~~~~-------------~~~~~~mlLceVaLG~~~~~~ 875 (954)
.|. |-..||... .++ -+.|||.|||||.+++++..|-.... .-....+++|.|.+|...-..
T Consensus 1042 ~~~--~~~~~~~~~--~~~-~~~~~~~~~~f~~~~~~~d~~v~~~~~~~~~~~~n~~p~~~~~~ql~~~~~~~~~~~l~~ 1116 (1143)
T KOG4177|consen 1042 PNE--GRLRCFCMT--DDK-VDKTLEQQEYFAEVARSRDIEVLGGKGGFAEPSGNDVPLTKAGQQLSFCFVPFLENRLAF 1116 (1143)
T ss_pred chh--hcccccccc--CCc-cCcchhhHHHHHHhhhhhhhhhhccccceecccCccccceeccceeEEeeehhhhhhhHH
Confidence 775 566788774 344 45599999999999999998865421 112358999999999864332
Q ss_pred cccCCCCCCCCCCCcccc
Q 035625 876 KAKYMDKPPDGKHSTKGL 893 (954)
Q Consensus 876 ~~~~~~~~p~g~~Sv~g~ 893 (954)
... .. +.|.+|+.+-
T Consensus 1117 ~~~--~~-~~g~~~~~~~ 1131 (1143)
T KOG4177|consen 1117 SVK--KR-HAGRISFMAE 1131 (1143)
T ss_pred HHH--hh-cCCcceeecc
Confidence 222 22 3488888763
No 55
>PF03119 DNA_ligase_ZBD: NAD-dependent DNA ligase C4 zinc finger domain; InterPro: IPR004149 Zinc finger (Znf) domains are relatively small protein motifs which contain multiple finger-like protrusions that make tandem contacts with their target molecule. Some of these domains bind zinc, but many do not; instead binding other metals such as iron, or no metal at all. For example, some family members form salt bridges to stabilise the finger-like folds. They were first identified as a DNA-binding motif in transcription factor TFIIIA from Xenopus laevis (African clawed frog), however they are now recognised to bind DNA, RNA, protein and/or lipid substrates [, , , , ]. Their binding properties depend on the amino acid sequence of the finger domains and of the linker between fingers, as well as on the higher-order structures and the number of fingers. Znf domains are often found in clusters, where fingers can have different binding specificities. There are many superfamilies of Znf motifs, varying in both sequence and structure. They display considerable versatility in binding modes, even between members of the same class (e.g. some bind DNA, others protein), suggesting that Znf motifs are stable scaffolds that have evolved specialised functions. For example, Znf-containing proteins function in gene transcription, translation, mRNA trafficking, cytoskeleton organisation, epithelial development, cell adhesion, protein folding, chromatin remodelling and zinc sensing, to name but a few []. Zinc-binding motifs are stable structures, and they rarely undergo conformational changes upon binding their target. This entry represents the zinc finger domain found in NAD-dependent DNA ligases. DNA ligases catalyse the crucial step of joining the breaks in duplex DNA during DNA replication, repair and recombination, utilizing either ATP or NAD(+) as a cofactor []. This domain is a small zinc binding motif that is presumably DNA binding. It is found only in NAD-dependent DNA ligases. More information about these proteins can be found at Protein of the Month: Zinc Fingers [].; GO: 0003911 DNA ligase (NAD+) activity, 0006260 DNA replication, 0006281 DNA repair; PDB: 1DGS_A 1V9P_B 2OWO_A.
Probab=67.97 E-value=4.9 Score=28.96 Aligned_cols=21 Identities=29% Similarity=0.605 Sum_probs=11.9
Q ss_pred CCCCCCCcEEEeC--ceEEEecC
Q 035625 275 RCPICSGPLRYSG--GIYRCRGY 295 (954)
Q Consensus 275 ~Cp~C~g~l~~~~--~~Y~C~G~ 295 (954)
.||.|+..|+... -.|+|++.
T Consensus 1 ~CP~C~s~l~~~~~ev~~~C~N~ 23 (28)
T PF03119_consen 1 TCPVCGSKLVREEGEVDIRCPNP 23 (28)
T ss_dssp B-TTT--BEEE-CCTTCEEE--C
T ss_pred CcCCCCCEeEcCCCCEeEECCCC
Confidence 4999999998653 38999886
No 56
>PRK10220 hypothetical protein; Provisional
Probab=66.35 E-value=4.8 Score=38.14 Aligned_cols=30 Identities=30% Similarity=0.895 Sum_probs=24.2
Q ss_pred CCCCCCCCCCcEEEe-CceEEEecCccCccc
Q 035625 272 ALGRCPICSGPLRYS-GGIYRCRGYQSAWSK 301 (954)
Q Consensus 272 ~l~~Cp~C~g~l~~~-~~~Y~C~G~~sewtk 301 (954)
.+++||.|+....|. +..|.|+----||+.
T Consensus 2 ~lP~CP~C~seytY~d~~~~vCpeC~hEW~~ 32 (111)
T PRK10220 2 SLPHCPKCNSEYTYEDNGMYICPECAHEWND 32 (111)
T ss_pred CCCcCCCCCCcceEcCCCeEECCcccCcCCc
Confidence 379999999888885 568999877777764
No 57
>TIGR00686 phnA alkylphosphonate utilization operon protein PhnA. The protein family includes an uncharacterized member designated phnA in Escherichia coli, part of a large operon associated with alkylphosphonate uptake and carbon-phosphorus bond cleavage. This protein is not related to the characterized phosphonoacetate hydrolase designated PhnA by Kulakova, et al. (2001, 1997).
Probab=62.10 E-value=6.4 Score=37.34 Aligned_cols=30 Identities=27% Similarity=0.677 Sum_probs=23.8
Q ss_pred CCCCCCCCCcEEEe-CceEEEecCccCcccc
Q 035625 273 LGRCPICSGPLRYS-GGIYRCRGYQSAWSKC 302 (954)
Q Consensus 273 l~~Cp~C~g~l~~~-~~~Y~C~G~~sewtkC 302 (954)
|++||.|+....|. +..|.|+----||..=
T Consensus 2 lp~CP~C~seytY~dg~~~iCpeC~~EW~~~ 32 (109)
T TIGR00686 2 LPPCPKCNSEYTYHDGTQLICPSCLYEWNEN 32 (109)
T ss_pred CCcCCcCCCcceEecCCeeECcccccccccc
Confidence 79999998877775 6689998766677653
No 58
>PRK08665 ribonucleotide-diphosphate reductase subunit alpha; Validated
Probab=59.84 E-value=11 Score=47.69 Aligned_cols=28 Identities=36% Similarity=0.840 Sum_probs=23.7
Q ss_pred CCCCCCCCcEEEeCceEEEecCccCccccc
Q 035625 274 GRCPICSGPLRYSGGIYRCRGYQSAWSKCS 303 (954)
Q Consensus 274 ~~Cp~C~g~l~~~~~~Y~C~G~~sewtkC~ 303 (954)
..||+|+..|+|..|.+.|.. =.|+||.
T Consensus 725 ~~Cp~Cg~~l~~~~GC~~C~~--CG~skC~ 752 (752)
T PRK08665 725 GACPECGSILEHEEGCVVCHS--CGYSKCG 752 (752)
T ss_pred CCCCCCCcccEECCCCCcCCC--CCCCCCC
Confidence 469999989999999999975 3778884
No 59
>KOG4362 consensus Transcriptional regulator BRCA1 [Replication, recombination and repair; Transcription]
Probab=59.51 E-value=17 Score=44.86 Aligned_cols=77 Identities=10% Similarity=0.040 Sum_probs=55.9
Q ss_pred CcEEEEEeCCCcchhHHHHHh----hh--cCCeeEEecCCCC-C--CCChHHHHHHhcCCCeechhhHHHHhhcCCCCCC
Q 035625 371 DLRVSFSRLPKESKCVSCCLI----NE--SAETNCLVLGGVP-D--DPDAEMRKARKMKVPIVREDYLVDCFKRQKKLPF 441 (954)
Q Consensus 371 ~~~i~i~G~~~~~~~~~k~~I----~~--~~~~thlI~t~~e-~--~~~~~vk~a~~~~i~IVs~dwL~d~~~~~~~~~~ 441 (954)
.+..+.+|.......-+.... .+ ...+||+|++-++ . .+..++..+...|.=|++.+|+..|+..++.+++
T Consensus 478 k~~~~~s~l~p~ek~~v~~~a~~t~~k~~~~~~thvi~~~~~~g~c~rTlk~~~gil~gkwi~~~~w~~~s~k~~~~~~e 557 (684)
T KOG4362|consen 478 KLVLLVSGLTPSEKQLVEKFAVDTISKFWIEPVTHVIASTDLEGACLRTLKVLMGILRGKWILSYDWVLASLKLRKWVSE 557 (684)
T ss_pred ceeeeeccCCcchHHHHHHHHHHHHhhccCCCceeeeeecccccchhhhHHHHHHhhcCceeeeHHHHHHHHHhcCCCCC
Confidence 345556666554433333322 22 5679999988654 3 4557788888889999999999999999999999
Q ss_pred Cccccc
Q 035625 442 DLYKVE 447 (954)
Q Consensus 442 ~~y~l~ 447 (954)
.+|.|.
T Consensus 558 epfEl~ 563 (684)
T KOG4362|consen 558 EPFELQ 563 (684)
T ss_pred CCeeEe
Confidence 999875
No 60
>PF11781 RRN7: RNA polymerase I-specific transcription initiation factor Rrn7; InterPro: IPR021752 Rrn7 is a transcription binding factor that associates strongly with both Rrn6 and Rrn11 to form a complex which itself binds the TATA-binding protein and is required for transcription by the core domain of the RNA PolI promoter [],[].
Probab=57.37 E-value=10 Score=29.04 Aligned_cols=22 Identities=41% Similarity=1.016 Sum_probs=15.4
Q ss_pred CCCCCCCCCCCcEEEe-CceEEE
Q 035625 271 GALGRCPICSGPLRYS-GGIYRC 292 (954)
Q Consensus 271 G~l~~Cp~C~g~l~~~-~~~Y~C 292 (954)
|...+|+.|++.+.+. .|.|+|
T Consensus 6 ~~~~~C~~C~~~~~~~~dG~~yC 28 (36)
T PF11781_consen 6 GPNEPCPVCGSRWFYSDDGFYYC 28 (36)
T ss_pred cCCCcCCCCCCeEeEccCCEEEh
Confidence 3345699998774443 478999
No 61
>PRK00420 hypothetical protein; Validated
Probab=53.18 E-value=9.1 Score=36.80 Aligned_cols=39 Identities=28% Similarity=0.518 Sum_probs=29.5
Q ss_pred ChhHHHHHhhhhhhcCCC---CCCCCCCCcEE-EeCceEEEec
Q 035625 256 SELDLRDHCADGMMFGAL---GRCPICSGPLR-YSGGIYRCRG 294 (954)
Q Consensus 256 ~~~~ll~~~aD~~~fG~l---~~Cp~C~g~l~-~~~~~Y~C~G 294 (954)
+.+.+..+.|+.|+-|+- ..||.|+..|. +..+.++|+.
T Consensus 3 ~~~~~~k~~a~~Ll~Ga~ml~~~CP~Cg~pLf~lk~g~~~Cp~ 45 (112)
T PRK00420 3 ESEDIVKKAAELLLKGAKMLSKHCPVCGLPLFELKDGEVVCPV 45 (112)
T ss_pred ccHHHHHHHHHHHHhHHHHccCCCCCCCCcceecCCCceECCC
Confidence 345778888888877763 79999987654 4678899974
No 62
>PF00412 LIM: LIM domain; InterPro: IPR001781 Zinc finger (Znf) domains are relatively small protein motifs which contain multiple finger-like protrusions that make tandem contacts with their target molecule. Some of these domains bind zinc, but many do not; instead binding other metals such as iron, or no metal at all. For example, some family members form salt bridges to stabilise the finger-like folds. They were first identified as a DNA-binding motif in transcription factor TFIIIA from Xenopus laevis (African clawed frog), however they are now recognised to bind DNA, RNA, protein and/or lipid substrates [, , , , ]. Their binding properties depend on the amino acid sequence of the finger domains and of the linker between fingers, as well as on the higher-order structures and the number of fingers. Znf domains are often found in clusters, where fingers can have different binding specificities. There are many superfamilies of Znf motifs, varying in both sequence and structure. They display considerable versatility in binding modes, even between members of the same class (e.g. some bind DNA, others protein), suggesting that Znf motifs are stable scaffolds that have evolved specialised functions. For example, Znf-containing proteins function in gene transcription, translation, mRNA trafficking, cytoskeleton organisation, epithelial development, cell adhesion, protein folding, chromatin remodelling and zinc sensing, to name but a few []. Zinc-binding motifs are stable structures, and they rarely undergo conformational changes upon binding their target. This entry represents LIM-type zinc finger (Znf) domains. LIM domains coordinate one or more zinc atoms, and are named after the three proteins (LIN-11, Isl1 and MEC-3) in which they were first found. They consist of two zinc-binding motifs that resemble GATA-like Znf's, however the residues holding the zinc atom(s) are variable, involving Cys, His, Asp or Glu residues. LIM domains are involved in proteins with differing functions, including gene expression, and cytoskeleton organisation and development [, ]. Protein containing LIM Znf domains include: Caenorhabditis elegans mec-3; a protein required for the differentiation of the set of six touch receptor neurons in this nematode. C. elegans. lin-11; a protein required for the asymmetric division of vulval blast cells. Vertebrate insulin gene enhancer binding protein isl-1. Isl-1 binds to one of the two cis-acting protein-binding domains of the insulin gene. Vertebrate homeobox proteins lim-1, lim-2 (lim-5) and lim3. Vertebrate lmx-1, which acts as a transcriptional activator by binding to the FLAT element; a beta-cell-specific transcriptional enhancer found in the insulin gene. Mammalian LH-2, a transcriptional regulatory protein involved in the control of cell differentiation in developing lymphoid and neural cell types. Drosophila melanogaster (Fruit fly) protein apterous, required for the normal development of the wing and halter imaginal discs. Vertebrate protein kinases LIMK-1 and LIMK-2. Mammalian rhombotins. Rhombotin 1 (RBTN1 or TTG-1) and rhombotin-2 (RBTN2 or TTG-2) are proteins of about 160 amino acids whose genes are disrupted by chromosomal translocations in T-cell leukemia. Mammalian and avian cysteine-rich protein (CRP), a 192 amino-acid protein of unknown function. Seems to interact with zyxin. Mammalian cysteine-rich intestinal protein (CRIP), a small protein which seems to have a role in zinc absorption and may function as an intracellular zinc transport protein. Vertebrate paxillin, a cytoskeletal focal adhesion protein. Mus musculus (Mouse) testin which should not be confused with rat testin which is a thiol protease homologue (see IPR000169 from INTERPRO). Helianthus annuus (Common sunflower) pollen specific protein SF3. Chicken zyxin. Zyxin is a low-abundance adhesion plaque protein which has been shown to interact with CRP. Yeast protein LRG1 which is involved in sporulation []. Saccharomyces cerevisiae (Baker's yeast) rho-type GTPase activating protein RGA1/DBM1. C. elegans homeobox protein ceh-14. C. elegans homeobox protein unc-97. S. cerevisiae hypothetical protein YKR090w. C. elegans hypothetical proteins C28H8.6. These proteins generally contain two tandem copies of the LIM domain in their N-terminal section. Zyxin and paxillin are exceptions in that they contain respectively three and four LIM domains at their C-terminal extremity. In apterous, isl-1, LH-2, lin-11, lim-1 to lim-3, lmx-1 and ceh-14 and mec-3 there is a homeobox domain some 50 to 95 amino acids after the LIM domains. LIM domains contain seven conserved cysteine residues and a histidine. The arrangement followed by these conserved residues is: C-x(2)-C-x(16,23)-H-x(2)-[CH]-x(2)-C-x(2)-C-x(16,21)-C-x(2,3)-[CHD] LIM domains bind two zinc ions []. LIM does not bind DNA, rather it seems to act as an interface for protein-protein interaction. More information about these proteins can be found at Protein of the Month: Zinc Fingers [].; GO: 0008270 zinc ion binding; PDB: 2CO8_A 2EGQ_A 2CUR_A 3IXE_B 1CTL_A 1B8T_A 1X62_A 2DFY_C 1IML_A 2CUQ_A ....
Probab=48.26 E-value=11 Score=31.02 Aligned_cols=28 Identities=36% Similarity=0.702 Sum_probs=21.2
Q ss_pred hhhhcccccccceeecccCCCCCCCCcccccccccc
Q 035625 118 CRHCSKKIMKGEVRISAKPDGQGTKGLAWHHANCFL 153 (954)
Q Consensus 118 Ck~C~~kI~Kge~Ri~~k~~~~~~~~~~w~H~~Cf~ 153 (954)
|.+|.+.|..+++.+... ...||+.||.
T Consensus 1 C~~C~~~I~~~~~~~~~~--------~~~~H~~Cf~ 28 (58)
T PF00412_consen 1 CARCGKPIYGTEIVIKAM--------GKFWHPECFK 28 (58)
T ss_dssp BTTTSSBESSSSEEEEET--------TEEEETTTSB
T ss_pred CCCCCCCccCcEEEEEeC--------CcEEEccccc
Confidence 789999999888775332 2468899997
No 63
>COG1645 Uncharacterized Zn-finger containing protein [General function prediction only]
Probab=46.62 E-value=17 Score=35.81 Aligned_cols=44 Identities=25% Similarity=0.393 Sum_probs=33.8
Q ss_pred CCCCCChhHHHHHhhhhhhcCCC---CCCCCCCCcEEEeCceEEEec
Q 035625 251 QDSTGSELDLRDHCADGMMFGAL---GRCPICSGPLRYSGGIYRCRG 294 (954)
Q Consensus 251 q~~~~~~~~ll~~~aD~~~fG~l---~~Cp~C~g~l~~~~~~Y~C~G 294 (954)
....++++.-...+|+.|+-||- ..||.||-.|.=..|..+|+-
T Consensus 3 ~em~~~~~i~~k~iA~lLl~GAkML~~hCp~Cg~PLF~KdG~v~CPv 49 (131)
T COG1645 3 REMIGDDDIKVKKIAELLLQGAKMLAKHCPKCGTPLFRKDGEVFCPV 49 (131)
T ss_pred ccccCcchhhHHHHHHHHHhhhHHHHhhCcccCCcceeeCCeEECCC
Confidence 34566666667889999999985 689999877655667888953
No 64
>PF08274 PhnA_Zn_Ribbon: PhnA Zinc-Ribbon ; InterPro: IPR013987 The PhnA protein family includes the uncharacterised Escherichia coli protein PhnA and its homologues. The E. coli phnA gene is part of a large operon associated with alkylphosphonate uptake and carbon-phosphorus bond cleavage []. The protein is not related to the characterised phosphonoacetate hydrolase designated PhnA []. This entry represents the N-terminal domain of PhnA, which is predicted to form a zinc-ribbon.; PDB: 2AKL_A.
Probab=45.33 E-value=13 Score=27.38 Aligned_cols=27 Identities=30% Similarity=0.935 Sum_probs=13.6
Q ss_pred CCCCCCCCCcEEE-eCceEEEecCccCc
Q 035625 273 LGRCPICSGPLRY-SGGIYRCRGYQSAW 299 (954)
Q Consensus 273 l~~Cp~C~g~l~~-~~~~Y~C~G~~sew 299 (954)
+++||.|+....| ++..|.|.-=..||
T Consensus 2 ~p~Cp~C~se~~y~D~~~~vCp~C~~ew 29 (30)
T PF08274_consen 2 LPKCPLCGSEYTYEDGELLVCPECGHEW 29 (30)
T ss_dssp S---TTT-----EE-SSSEEETTTTEEE
T ss_pred CCCCCCCCCcceeccCCEEeCCcccccC
Confidence 6899999765554 56789997655555
No 65
>PRK14724 DNA topoisomerase III; Provisional
Probab=44.96 E-value=16 Score=47.72 Aligned_cols=33 Identities=30% Similarity=0.744 Sum_probs=22.5
Q ss_pred CCCCCCCCCcEEEeCceEEEecCcc---Cc-cccccc
Q 035625 273 LGRCPICSGPLRYSGGIYRCRGYQS---AW-SKCSYS 305 (954)
Q Consensus 273 l~~Cp~C~g~l~~~~~~Y~C~G~~s---ew-tkC~~~ 305 (954)
+++||.|++.++-.+..|.|.+|.. .+ ..|.|+
T Consensus 755 ~g~CPkCg~~v~e~gk~y~Cs~~~~~~~~~~~~C~f~ 791 (987)
T PRK14724 755 LGPCPKCGAPVFEHGSNYVCEKSVPTLAQPTPSCTFK 791 (987)
T ss_pred ccCCCCCCCceEeecceEEcCCCcccccCCCCCCCce
Confidence 6899999876544556799998732 12 147765
No 66
>PRK00819 RNA 2'-phosphotransferase; Reviewed
Probab=44.74 E-value=8.4 Score=40.15 Aligned_cols=22 Identities=32% Similarity=0.635 Sum_probs=20.1
Q ss_pred ceeEecCCCCChhhhhccCCCC
Q 035625 800 MLLWHGSRLTNFVGILSQGLRI 821 (954)
Q Consensus 800 ~lLwHGSr~~N~~gILs~Glri 821 (954)
..|||||...++-+|+.+||+.
T Consensus 95 ~~lyHGT~~~~~~~I~~~GL~p 116 (179)
T PRK00819 95 AVLYHGTSSEELDSILEEGLKP 116 (179)
T ss_pred ceeEeCCCHHHHHHHHHhCCCc
Confidence 4899999999999999999874
No 67
>PRK08173 DNA topoisomerase III; Validated
Probab=44.50 E-value=18 Score=46.65 Aligned_cols=35 Identities=26% Similarity=0.640 Sum_probs=25.3
Q ss_pred CCCCCCCCCCcEEEeCceEEEecCccCcccccccc
Q 035625 272 ALGRCPICSGPLRYSGGIYRCRGYQSAWSKCSYST 306 (954)
Q Consensus 272 ~l~~Cp~C~g~l~~~~~~Y~C~G~~sewtkC~~~t 306 (954)
.+++||.|++.++-.+..|.|.+|..+=..|.|..
T Consensus 725 ~~g~CPkCg~~v~e~~k~y~Cs~~~~~~~~C~f~i 759 (862)
T PRK08173 725 PVGACPKCGGRVFEHGMSYVCEKSVGPPKTCDFRS 759 (862)
T ss_pred cccCCCCCCCeeEeeceEEEeCCCcCCCCCCCeee
Confidence 37899999876554556799999864334588775
No 68
>smart00132 LIM Zinc-binding domain present in Lin-11, Isl-1, Mec-3. Zinc-binding domain family. Some LIM domains bind protein partners via tyrosine-containing motifs. LIM domains are found in many key regulators of developmental pathways.
Probab=43.10 E-value=14 Score=27.34 Aligned_cols=29 Identities=34% Similarity=0.617 Sum_probs=19.7
Q ss_pred hhhhhcccccccceeecccCCCCCCCCcccccccccc
Q 035625 117 TCRHCSKKIMKGEVRISAKPDGQGTKGLAWHHANCFL 153 (954)
Q Consensus 117 ~Ck~C~~kI~Kge~Ri~~k~~~~~~~~~~w~H~~Cf~ 153 (954)
.|.+|.+.|.-++..+... ..-||+.||.
T Consensus 1 ~C~~C~~~i~~~~~~~~~~--------~~~~H~~Cf~ 29 (39)
T smart00132 1 KCAGCGKPIRGGELVLRAL--------GKVWHPECFK 29 (39)
T ss_pred CccccCCcccCCcEEEEeC--------CccccccCCC
Confidence 4888999887764554332 2367889986
No 69
>TIGR03655 anti_R_Lar restriction alleviation protein, Lar family. Restriction alleviation proteins provide a countermeasure to host cell restriction enzyme defense against foreign DNA such as phage or plasmids. This family consists of homologs to the phage antirestriction protein Lar, and most members belong to phage genomes or prophage regions of bacterial genomes.
Probab=41.92 E-value=16 Score=30.21 Aligned_cols=10 Identities=50% Similarity=1.361 Sum_probs=8.4
Q ss_pred CCCCCCCCCc
Q 035625 273 LGRCPICSGP 282 (954)
Q Consensus 273 l~~Cp~C~g~ 282 (954)
|.|||-|+|+
T Consensus 1 LkPCPfCGg~ 10 (53)
T TIGR03655 1 LKPCPFCGGA 10 (53)
T ss_pred CCCCCCCCCc
Confidence 6899999873
No 70
>COG1571 Predicted DNA-binding protein containing a Zn-ribbon domain [General function prediction only]
Probab=39.95 E-value=14 Score=43.14 Aligned_cols=41 Identities=32% Similarity=0.728 Sum_probs=31.3
Q ss_pred CCCCCCCCCCcEEEeCc-eEEEecCccCccccccccCCccccCCccccCcccc
Q 035625 272 ALGRCPICSGPLRYSGG-IYRCRGYQSAWSKCSYSTREPERLKGKWKIPEETN 323 (954)
Q Consensus 272 ~l~~Cp~C~g~l~~~~~-~Y~C~G~~sewtkC~~~t~~p~R~~~~~kiP~~~~ 323 (954)
.-+.||.|++++.-.|. +|+| .||.+...+..+ . .+|.++.
T Consensus 349 ~~p~Cp~Cg~~m~S~G~~g~rC-------~kCg~~~~~~~~---~-~v~r~l~ 390 (421)
T COG1571 349 VNPVCPRCGGRMKSAGRNGFRC-------KKCGTRARETLI---K-EVPRDLE 390 (421)
T ss_pred cCCCCCccCCchhhcCCCCccc-------ccccccCCcccc---c-ccccccC
Confidence 45799999999999864 8999 689887766655 2 6666654
No 71
>PRK08173 DNA topoisomerase III; Validated
Probab=36.73 E-value=18 Score=46.52 Aligned_cols=26 Identities=27% Similarity=0.765 Sum_probs=20.6
Q ss_pred CCCCCCCCcEEEeCceEEEecCccCcccccccc
Q 035625 274 GRCPICSGPLRYSGGIYRCRGYQSAWSKCSYST 306 (954)
Q Consensus 274 ~~Cp~C~g~l~~~~~~Y~C~G~~sewtkC~~~t 306 (954)
++||.|++.+...+..|.|++ |.|..
T Consensus 625 ~~CP~Cg~~~~~~~~~~~Cs~-------C~f~~ 650 (862)
T PRK08173 625 TPCPNCGGVVKENYRRFACTK-------CDFSI 650 (862)
T ss_pred ccCCcccccccccCceeEcCC-------CCccc
Confidence 689999887755556799997 88764
No 72
>PF07295 DUF1451: Protein of unknown function (DUF1451); InterPro: IPR009912 This family consists of several hypothetical bacterial proteins of around 160 residues in length. Members of this family contain four highly conserved cysteine resides toward the C-terminal region of the protein. The function of this family is unknown.
Probab=35.76 E-value=18 Score=36.41 Aligned_cols=45 Identities=29% Similarity=0.443 Sum_probs=24.6
Q ss_pred CCHHHHHHHHHHcCCCCCC----ChhHHHHHhhhhh---hcCCCCCCCCCCC
Q 035625 237 VTTAELREMLEANGQDSTG----SELDLRDHCADGM---MFGALGRCPICSG 281 (954)
Q Consensus 237 ~~~~~l~~lL~~N~q~~~~----~~~~ll~~~aD~~---~fG~l~~Cp~C~g 281 (954)
+--.+|.+=|+.++.+..| .-.-+=..|.=-+ .-+.|+|||.|++
T Consensus 87 vEw~el~~d~~h~g~Y~sGE~~g~G~l~C~~Cg~~~~~~~~~~l~~Cp~C~~ 138 (146)
T PF07295_consen 87 VEWAELAQDLEHHGVYHSGEVVGPGTLVCENCGHEVELTHPERLPPCPKCGH 138 (146)
T ss_pred HHHHHHHHHHHhcCCeecCcEecCceEecccCCCEEEecCCCcCCCCCCCCC
Confidence 3345566667777654443 1112222332222 2488999999976
No 73
>KOG3548 consensus DNA damage checkpoint protein RHP9/CRB2/53BP1 [Replication, recombination and repair]
Probab=33.04 E-value=27 Score=44.26 Aligned_cols=35 Identities=14% Similarity=0.337 Sum_probs=30.9
Q ss_pred HHHHHhcCCCeechhhHHHHhhcCCCCCCCccccc
Q 035625 413 MRKARKMKVPIVREDYLVDCFKRQKKLPFDLYKVE 447 (954)
Q Consensus 413 vk~a~~~~i~IVs~dwL~d~~~~~~~~~~~~y~l~ 447 (954)
--.|.++|||.|+..||.+|+..++.++..+|+|.
T Consensus 1002 YLeaLA~giPcVh~~fI~aC~e~nr~Vdy~~YLLp 1036 (1176)
T KOG3548|consen 1002 YLEALARGIPCVHNTFIQACGEQNRCVDYTDYLLP 1036 (1176)
T ss_pred HHHHHHcCCCcccHHHHHHHHhccccccchhhccc
Confidence 33566789999999999999999999999999984
No 74
>PRK09710 lar restriction alleviation and modification protein; Reviewed
Probab=33.02 E-value=39 Score=29.26 Aligned_cols=16 Identities=31% Similarity=0.891 Sum_probs=12.4
Q ss_pred hhcCCCCCCCCCCCcE
Q 035625 268 MMFGALGRCPICSGPL 283 (954)
Q Consensus 268 ~~fG~l~~Cp~C~g~l 283 (954)
|-|-.|.|||-|+.+.
T Consensus 1 ~~~d~lKPCPFCG~~~ 16 (64)
T PRK09710 1 MRYDNVKPCPFCGCPS 16 (64)
T ss_pred CCcccccCCCCCCCce
Confidence 4567899999997643
No 75
>PRK11032 hypothetical protein; Provisional
Probab=32.30 E-value=23 Score=36.31 Aligned_cols=43 Identities=21% Similarity=0.319 Sum_probs=22.7
Q ss_pred HHHHHHHHHHcCCCCCC---Ch-hHHHHHhhhhh---hcCCCCCCCCCCC
Q 035625 239 TAELREMLEANGQDSTG---SE-LDLRDHCADGM---MFGALGRCPICSG 281 (954)
Q Consensus 239 ~~~l~~lL~~N~q~~~~---~~-~~ll~~~aD~~---~fG~l~~Cp~C~g 281 (954)
-.++-+=|+.++.+.+| |. .-+=..|-=-| .-|.++|||.|++
T Consensus 101 w~el~~dl~h~g~Y~sGEvvg~G~LvC~~Cg~~~~~~~p~~i~pCp~C~~ 150 (160)
T PRK11032 101 WREVFQDLNHHGVYHSGEVVGLGNLVCEKCHHHLAFYTPEVLPLCPKCGH 150 (160)
T ss_pred HHHHHHHhhhcCeeecceeeecceEEecCCCCEEEecCCCcCCCCCCCCC
Confidence 34444445555555444 11 12223333333 3499999999965
No 76
>cd04476 RPA1_DBD_C RPA1_DBD_C: A subfamily of OB folds corresponding to the C-terminal OB fold, the ssDNA-binding domain (DBD)-C, of human RPA1 (also called RPA70). RPA1 is the large subunit of Replication protein A (RPA). RPA is a nuclear ssDNA-binding protein (SSB) which appears to be involved in all aspects of DNA metabolism including replication, recombination, and repair. RPA also mediates specific interactions of various nuclear proteins. In animals, plants, and fungi, RPA is a heterotrimer with subunits of 70KDa (RPA1), 32kDa (RPA2), and 14 KDa (RPA3). In addition to DBD-C, RPA1 contains three other OB folds: DBD-A, DBD-B, and RPA1N. The major DNA binding activity of RPA is associated with RPA1 DBD-A and DBD-B. RPA1 DBD-C is involved in DNA binding and trimerization. It contains two structural insertions not found to date in other OB-folds: a zinc ribbon and a three-helix bundle. RPA1 DBD-C also contains a Cys4-type zinc-binding motif, which plays a role in the ssDNA binding fun
Probab=29.50 E-value=28 Score=35.42 Aligned_cols=32 Identities=41% Similarity=0.857 Sum_probs=25.2
Q ss_pred CCCCCCCCCcEEEeC-ceEEEecCccCccccccccCCccc
Q 035625 273 LGRCPICSGPLRYSG-GIYRCRGYQSAWSKCSYSTREPER 311 (954)
Q Consensus 273 l~~Cp~C~g~l~~~~-~~Y~C~G~~sewtkC~~~t~~p~R 311 (954)
-..||.|+..+...+ +.|.| .+|.-...+|..
T Consensus 34 Y~aC~~C~kkv~~~~~~~~~C-------~~C~~~~~~~~~ 66 (166)
T cd04476 34 YPACPGCNKKVVEEGNGTYRC-------EKCNKSVPNPEY 66 (166)
T ss_pred EccccccCcccEeCCCCcEEC-------CCCCCcCCCccE
Confidence 357999998888776 78999 578877667765
No 77
>PRK14724 DNA topoisomerase III; Provisional
Probab=29.41 E-value=32 Score=45.06 Aligned_cols=33 Identities=30% Similarity=0.655 Sum_probs=22.8
Q ss_pred CCCCCCCCcEEEeCceEEEecCccCcccccccc
Q 035625 274 GRCPICSGPLRYSGGIYRCRGYQSAWSKCSYST 306 (954)
Q Consensus 274 ~~Cp~C~g~l~~~~~~Y~C~G~~sewtkC~~~t 306 (954)
.+||.|++.+......|.|+|+-.+=..|.|+.
T Consensus 644 ~~CP~Cg~~~~~~~~~~~Cs~~~~~~~~C~f~~ 676 (987)
T PRK14724 644 TPCPNCGGVVKENYRRYACTGANGAGEGCGFSF 676 (987)
T ss_pred ccCCcccccccccCceeecCCCcCCCCCCCccc
Confidence 689999888865666799998421112488764
No 78
>PF01885 PTS_2-RNA: RNA 2'-phosphotransferase, Tpt1 / KptA family; InterPro: IPR002745 The final step of tRNA splicing in Saccharomyces cerevisiae (Baker's yeast) requires 2'-phosphotransferase (Tpt1) to transfer the 2'-phosphate from ligated tRNA to NAD, producing mature tRNA and ADP ribose-1' '-2' '-cyclic phosphate. Yeast and Mus musculus (Mouse) Tpt1 protein and bacterial KptA protein can catalyze the conversion of the generated intermediate to both product and the original substrate, these enzymes likely use the same reaction mechanism. Step 1 of this reaction is strikingly similar to the ADP-ribosylation of proteins catalyzed by a number of bacterial toxins. KptA, a functional Tpt1 protein homologue from Escherichia coli is strikingly similar to yeast Tpt1 in its kinetic parameters, although E. coli is not known to have a 2'-phosphorylated RNA substrate [,].; GO: 0016772 transferase activity, transferring phosphorus-containing groups, 0006388 tRNA splicing, via endonucleolytic cleavage and ligation; PDB: 1WFX_A.
Probab=27.98 E-value=26 Score=36.79 Aligned_cols=34 Identities=24% Similarity=0.368 Sum_probs=21.5
Q ss_pred cceeEecCCCCChhhhhccCCCCCCCCCCCcceeeeeeeecccc
Q 035625 799 RMLLWHGSRLTNFVGILSQGLRIAPPEAPATGYMFGKGIYFADL 842 (954)
Q Consensus 799 ~~lLwHGSr~~N~~gILs~Glriap~~ap~tGymFGkGIYFAd~ 842 (954)
-..|+|||...+|-.|+.+||+. |-..-|.||..
T Consensus 105 p~~lyHGT~~~~~~~I~~~GL~~----------m~R~hVHls~~ 138 (186)
T PF01885_consen 105 PPILYHGTYRKAWPSILEEGLKP----------MGRNHVHLSTG 138 (186)
T ss_dssp -SEEEE--BGGGHHHHHHH-B-------------SSSSEEEES-
T ss_pred CCEEEEccchhhHHHHHHhCCCC----------CCCCEEEEeec
Confidence 36999999999999999999764 22334778775
No 79
>COG2888 Predicted Zn-ribbon RNA-binding protein with a function in translation [Translation, ribosomal structure and biogenesis]
Probab=27.00 E-value=43 Score=28.56 Aligned_cols=20 Identities=40% Similarity=0.803 Sum_probs=13.8
Q ss_pred CCCCCCCCCcEEEe-------CceEEE
Q 035625 273 LGRCPICSGPLRYS-------GGIYRC 292 (954)
Q Consensus 273 l~~Cp~C~g~l~~~-------~~~Y~C 292 (954)
--+||.|+..+.+. +..|.|
T Consensus 27 ~F~CPnCGe~~I~Rc~~CRk~g~~Y~C 53 (61)
T COG2888 27 KFPCPNCGEVEIYRCAKCRKLGNPYRC 53 (61)
T ss_pred EeeCCCCCceeeehhhhHHHcCCceEC
Confidence 44788887666653 457888
No 80
>cd01436 Dipth_tox_like Mono-ADP-ribosylating toxins catalyze the transfer of ADP_ribose from NAD+ to eukaryotic Elongation Factor 2, halting protein synthesis. A single molecule of delivered toxin is sufficient to kill a cell. These toxins share mono-ADP-ribosylating activity with a variety of bacterial toxins, such as cholera toxin and pertussis toxin. The structural core is homologous to the poly-ADP ribosylating enzymes such as the PARP enzymes and Tankyrase. Diphtheria toxin is encoded by a lysogenic bacteriophage. Both diphtheria toxin and Pseudomonas aeruginosa exotoxin A are multi-domain proteins. These domains provide a EF2 ADP_ribosylating, receptor-binding, and intracellular trafficking/transmembrane functions .
Probab=26.91 E-value=28 Score=33.68 Aligned_cols=47 Identities=26% Similarity=0.479 Sum_probs=34.4
Q ss_pred EecCCCCChhhhhccCCCCCCCCCCCcce---eeeeeeecccccccccccccCC
Q 035625 803 WHGSRLTNFVGILSQGLRIAPPEAPATGY---MFGKGIYFADLVSKSAQYCFTD 853 (954)
Q Consensus 803 wHGSr~~N~~gILs~Glriap~~ap~tGy---mFGkGIYFAd~~sKSa~Yc~~~ 853 (954)
+|||...-..+|.. |.+- |.....|. .+ +|.|-||...-+++|+...
T Consensus 3 YHGT~~~~~~sI~~-gI~~--~~~g~~~~~d~~W-~GfY~a~~~~~A~GYa~d~ 52 (147)
T cd01436 3 YHGTKPGYVDSIQK-GIQK--PKSGTQGNYDDDW-KGFYSTDNKYDAAGYSVDN 52 (147)
T ss_pred ccccchHHHHHHHh-hccC--CCCCCCcchhhhh-cceeecCCHhhhcceeecc
Confidence 79999998888987 6554 32222221 23 7999999999999999754
No 81
>COG1656 Uncharacterized conserved protein [Function unknown]
Probab=25.64 E-value=45 Score=34.19 Aligned_cols=49 Identities=22% Similarity=0.329 Sum_probs=29.0
Q ss_pred ChhHHHHHhhhhhhcCCC----CCCCCCCCcEEEeC-ceE------EEecCccCcccccc
Q 035625 256 SELDLRDHCADGMMFGAL----GRCPICSGPLRYSG-GIY------RCRGYQSAWSKCSY 304 (954)
Q Consensus 256 ~~~~ll~~~aD~~~fG~l----~~Cp~C~g~l~~~~-~~Y------~C~G~~sewtkC~~ 304 (954)
.+.++++.++=..+++++ ..||.|||.|..-+ ..- .=.++..+|..|+.
T Consensus 76 ~~~Ql~e~~~~~~l~~~~~~e~~RCp~CN~~L~~vs~eev~~~Vp~~~~~~~~~f~~C~~ 135 (165)
T COG1656 76 IEEQLAEFLARLGLKPRLFPEFSRCPECNGELEKVSREEVKEKVPEKVYRNYEEFYRCPK 135 (165)
T ss_pred HHHHHHHHHHHhccchhcccccccCcccCCEeccCcHHHHhhccchhhhhcccceeECCC
Confidence 445666666655666644 45999999987643 110 12345566666653
No 82
>PRK00432 30S ribosomal protein S27ae; Validated
Probab=24.08 E-value=44 Score=27.48 Aligned_cols=21 Identities=19% Similarity=0.409 Sum_probs=14.7
Q ss_pred CCCCCCCCC-cEEEeCceEEEe
Q 035625 273 LGRCPICSG-PLRYSGGIYRCR 293 (954)
Q Consensus 273 l~~Cp~C~g-~l~~~~~~Y~C~ 293 (954)
..-||.|+. -+.-+.+.+.|.
T Consensus 20 ~~fCP~Cg~~~m~~~~~r~~C~ 41 (50)
T PRK00432 20 NKFCPRCGSGFMAEHLDRWHCG 41 (50)
T ss_pred cCcCcCCCcchheccCCcEECC
Confidence 458999964 444456789994
No 83
>PF13408 Zn_ribbon_recom: Recombinase zinc beta ribbon domain
Probab=23.74 E-value=67 Score=26.26 Aligned_cols=35 Identities=23% Similarity=0.507 Sum_probs=24.9
Q ss_pred cCCCCCCCCCCCcEEEeC-----ceEEEecCccCcccccc
Q 035625 270 FGALGRCPICSGPLRYSG-----GIYRCRGYQSAWSKCSY 304 (954)
Q Consensus 270 fG~l~~Cp~C~g~l~~~~-----~~Y~C~G~~sewtkC~~ 304 (954)
|--+..|+.||..|.... ..|.|.+....=..|..
T Consensus 2 l~g~l~C~~CG~~m~~~~~~~~~~yy~C~~~~~~~~~C~~ 41 (58)
T PF13408_consen 2 LSGLLRCGHCGSKMTRRKRKGKYRYYRCSNRRRKGKGCPN 41 (58)
T ss_pred CCCcEEcccCCcEeEEEECCCCceEEEcCCCcCCCCCCCC
Confidence 556778999998776542 37999888765435764
No 84
>PF12949 HeH: HeH/LEM domain; PDB: 2OUT_A.
Probab=23.30 E-value=69 Score=24.50 Aligned_cols=29 Identities=21% Similarity=0.385 Sum_probs=17.4
Q ss_pred cCCHHHHHHHHHHcCCCCCCC--hhHHHHHh
Q 035625 236 HVTTAELREMLEANGQDSTGS--ELDLRDHC 264 (954)
Q Consensus 236 ~~~~~~l~~lL~~N~q~~~~~--~~~ll~~~ 264 (954)
.+++++||.+|.+|+...|++ +.+|+.-+
T Consensus 3 sltV~~Lk~iL~~~~I~~ps~AkKaeLv~L~ 33 (35)
T PF12949_consen 3 SLTVAQLKRILDEHGIEFPSNAKKAELVALF 33 (35)
T ss_dssp T--SHHHHHHHHHHT---SSS--SHHHHHH-
T ss_pred cCcHHHHHHHHHHcCCCCCCCCCHHHHHHHH
Confidence 488999999999999876653 44565543
No 85
>COG2835 Uncharacterized conserved protein [Function unknown]
Probab=23.27 E-value=64 Score=27.64 Aligned_cols=20 Identities=40% Similarity=1.011 Sum_probs=14.9
Q ss_pred CCCCCCCCCcEEEeC--ceEEE
Q 035625 273 LGRCPICSGPLRYSG--GIYRC 292 (954)
Q Consensus 273 l~~Cp~C~g~l~~~~--~~Y~C 292 (954)
+..||.|+|.|.|.. ..-+|
T Consensus 8 iLaCP~~kg~L~~~~~~~~L~c 29 (60)
T COG2835 8 ILACPVCKGPLVYDEEKQELIC 29 (60)
T ss_pred eeeccCcCCcceEeccCCEEEe
Confidence 346999999999974 45555
No 86
>PF08271 TF_Zn_Ribbon: TFIIB zinc-binding; InterPro: IPR013137 Zinc finger (Znf) domains are relatively small protein motifs which contain multiple finger-like protrusions that make tandem contacts with their target molecule. Some of these domains bind zinc, but many do not; instead binding other metals such as iron, or no metal at all. For example, some family members form salt bridges to stabilise the finger-like folds. They were first identified as a DNA-binding motif in transcription factor TFIIIA from Xenopus laevis (African clawed frog), however they are now recognised to bind DNA, RNA, protein and/or lipid substrates [, , , , ]. Their binding properties depend on the amino acid sequence of the finger domains and of the linker between fingers, as well as on the higher-order structures and the number of fingers. Znf domains are often found in clusters, where fingers can have different binding specificities. There are many superfamilies of Znf motifs, varying in both sequence and structure. They display considerable versatility in binding modes, even between members of the same class (e.g. some bind DNA, others protein), suggesting that Znf motifs are stable scaffolds that have evolved specialised functions. For example, Znf-containing proteins function in gene transcription, translation, mRNA trafficking, cytoskeleton organisation, epithelial development, cell adhesion, protein folding, chromatin remodelling and zinc sensing, to name but a few []. Zinc-binding motifs are stable structures, and they rarely undergo conformational changes upon binding their target. This entry represents a zinc finger motif found in transcription factor IIB (TFIIB). In eukaryotes the initiation of transcription of protein encoding genes by the polymerase II complexe (Pol II) is modulated by general and specific transcription factors. The general transcription factors operate through common promoters elements (such as the TATA box). At least seven different proteins associate to form the general transcription factors: TFIIA, -IIB, -IID, -IIE, -IIF, -IIG, and -IIH []. TFIIB and TFIID are responsible for promoter recognition and interaction with pol II; together with Pol II, they form a minimal initiation complex capable of transcription under certain conditions. The TATA box of a Pol II promoter is bound in the initiation complex by the TBP subunit of TFIID, which bends the DNA around the C-terminal domain of TFIIB whereas the N-terminal zinc finger of TFIIB interacts with Pol II [, ]. The TFIIB zinc finger adopts a zinc ribbon fold characterised by two beta-hairpins forming two structurally similar zinc-binding sub-sites []. The zinc finger contacts the rbp1 subunit of Pol II through its dock domain, a conserved region of about 70 amino acids located close to the polymerase active site []. In the Pol II complex this surface is located near the RNA exit groove. Interestingly this sequence is best conserved in the three polymerases that utilise a TFIIB-like general transcription factor (Pol II, Pol III, and archaeal RNA polymerase) but not in Pol I []. More information about these proteins can be found at Protein of the Month: Zinc Fingers [].; GO: 0008270 zinc ion binding, 0006355 regulation of transcription, DNA-dependent; PDB: 1VD4_A 1PFT_A 3K1F_M 3K7A_M 1RO4_A 1RLY_A 1DL6_A.
Probab=22.92 E-value=79 Score=24.83 Aligned_cols=19 Identities=26% Similarity=0.854 Sum_probs=14.8
Q ss_pred CCCCCCC-cEEEe--CceEEEe
Q 035625 275 RCPICSG-PLRYS--GGIYRCR 293 (954)
Q Consensus 275 ~Cp~C~g-~l~~~--~~~Y~C~ 293 (954)
.||.|++ .++++ .+.+.|+
T Consensus 2 ~Cp~Cg~~~~~~D~~~g~~vC~ 23 (43)
T PF08271_consen 2 KCPNCGSKEIVFDPERGELVCP 23 (43)
T ss_dssp SBTTTSSSEEEEETTTTEEEET
T ss_pred CCcCCcCCceEEcCCCCeEECC
Confidence 5999965 57787 5789994
No 87
>PRK08332 ribonucleotide-diphosphate reductase subunit alpha; Validated
Probab=22.68 E-value=51 Score=45.35 Aligned_cols=28 Identities=39% Similarity=0.929 Sum_probs=23.6
Q ss_pred CCCCCCCc------EEEeCceEEEecCccCcccccc
Q 035625 275 RCPICSGP------LRYSGGIYRCRGYQSAWSKCSY 304 (954)
Q Consensus 275 ~Cp~C~g~------l~~~~~~Y~C~G~~sewtkC~~ 304 (954)
-||+|++. |.+.+|...|+. =.|++|.-
T Consensus 1706 ~cp~c~~~~~~~~~~~~~~gc~~c~~--cg~s~c~~ 1739 (1740)
T PRK08332 1706 YCPVCYEKEGKLVELRMESGCATCPV--CGWSKCVI 1739 (1740)
T ss_pred CCCCCCCCCCcceeeEecCCceeCCC--CCCccccC
Confidence 39999776 899999999986 58999963
No 88
>COG1859 KptA RNA:NAD 2'-phosphotransferase [Translation, ribosomal structure and biogenesis]
Probab=22.60 E-value=42 Score=35.81 Aligned_cols=24 Identities=29% Similarity=0.515 Sum_probs=21.1
Q ss_pred CcceeEecCCCCChhhhhccCCCC
Q 035625 798 NRMLLWHGSRLTNFVGILSQGLRI 821 (954)
Q Consensus 798 N~~lLwHGSr~~N~~gILs~Glri 821 (954)
.-..|+|||...++-+|+.+||..
T Consensus 119 ~p~~LyhGTs~~~l~~I~~~Gi~P 142 (211)
T COG1859 119 PPAVLYHGTSPEFLPSILEEGLKP 142 (211)
T ss_pred CCcEEEecCChhhhHHHHHhcCcc
Confidence 455799999999999999999864
No 89
>PRK10445 endonuclease VIII; Provisional
Probab=22.39 E-value=58 Score=36.01 Aligned_cols=27 Identities=26% Similarity=0.503 Sum_probs=20.5
Q ss_pred hhhcCC-CCCCCCCCCcEE---EeC-ceEEEe
Q 035625 267 GMMFGA-LGRCPICSGPLR---YSG-GIYRCR 293 (954)
Q Consensus 267 ~~~fG~-l~~Cp~C~g~l~---~~~-~~Y~C~ 293 (954)
..+||+ -.+||.|++.+. +.+ +.|+|+
T Consensus 228 ~~Vy~r~g~~Cp~Cg~~I~~~~~~gR~t~~CP 259 (263)
T PRK10445 228 FKVFHRDGEACERCGGIIEKTTLSSRPFYWCP 259 (263)
T ss_pred EEEeCCCCCCCCCCCCEeEEEEECCCCcEECC
Confidence 467886 789999988654 443 689996
No 90
>PRK11827 hypothetical protein; Provisional
Probab=22.16 E-value=58 Score=27.95 Aligned_cols=20 Identities=35% Similarity=0.894 Sum_probs=14.8
Q ss_pred CCCCCCCCcEEEeC--ceEEEe
Q 035625 274 GRCPICSGPLRYSG--GIYRCR 293 (954)
Q Consensus 274 ~~Cp~C~g~l~~~~--~~Y~C~ 293 (954)
..||.|+|.|.|+. ..-.|+
T Consensus 9 LaCP~ckg~L~~~~~~~~Lic~ 30 (60)
T PRK11827 9 IACPVCNGKLWYNQEKQELICK 30 (60)
T ss_pred eECCCCCCcCeEcCCCCeEECC
Confidence 45999999999974 345553
No 91
>PRK01103 formamidopyrimidine/5-formyluracil/ 5-hydroxymethyluracil DNA glycosylase; Validated
Probab=21.65 E-value=62 Score=35.93 Aligned_cols=28 Identities=21% Similarity=0.581 Sum_probs=20.2
Q ss_pred hhhcCCC-CCCCCCCCcEEE---eC-ceEEEec
Q 035625 267 GMMFGAL-GRCPICSGPLRY---SG-GIYRCRG 294 (954)
Q Consensus 267 ~~~fG~l-~~Cp~C~g~l~~---~~-~~Y~C~G 294 (954)
..+||+- .|||.|+..+.. .+ +.|+|+.
T Consensus 238 l~Vy~R~g~pC~~Cg~~I~~~~~~gR~t~~CP~ 270 (274)
T PRK01103 238 LQVYGREGEPCRRCGTPIEKIKQGGRSTFFCPR 270 (274)
T ss_pred eEEcCCCCCCCCCCCCeeEEEEECCCCcEECcC
Confidence 3689964 699999876543 33 6899963
No 92
>PF07191 zinc-ribbons_6: zinc-ribbons; InterPro: IPR010807 This family consists of several short, hypothetical bacterial proteins of around 70 residues in length. Members of this family 8 highly conserved cysteine residues. The function of the family is unknown.; PDB: 2JRP_A 2JNE_A.
Probab=21.09 E-value=83 Score=27.84 Aligned_cols=22 Identities=41% Similarity=1.055 Sum_probs=16.2
Q ss_pred CCCCCCCcEEEeCceEEEecCc
Q 035625 275 RCPICSGPLRYSGGIYRCRGYQ 296 (954)
Q Consensus 275 ~Cp~C~g~l~~~~~~Y~C~G~~ 296 (954)
.||.|...|.-.++.|.|..=-
T Consensus 3 ~CP~C~~~L~~~~~~~~C~~C~ 24 (70)
T PF07191_consen 3 TCPKCQQELEWQGGHYHCEACQ 24 (70)
T ss_dssp B-SSS-SBEEEETTEEEETTT-
T ss_pred cCCCCCCccEEeCCEEECcccc
Confidence 5999988899999999996543
No 93
>PF08792 A2L_zn_ribbon: A2L zinc ribbon domain; InterPro: IPR014900 This zinc ribbon protein is found associated with some viral A2L transcription factors [].
Probab=20.99 E-value=78 Score=23.81 Aligned_cols=21 Identities=24% Similarity=0.463 Sum_probs=15.9
Q ss_pred CCCCCCCCCcEEE-e-CceEEEe
Q 035625 273 LGRCPICSGPLRY-S-GGIYRCR 293 (954)
Q Consensus 273 l~~Cp~C~g~l~~-~-~~~Y~C~ 293 (954)
+..|+.|++.+++ + .+.|.|.
T Consensus 3 ~~~C~~C~~~~i~~~~~~~~~C~ 25 (33)
T PF08792_consen 3 LKKCSKCGGNGIVNKEDDYEVCI 25 (33)
T ss_pred ceEcCCCCCCeEEEecCCeEEcc
Confidence 5679999987777 3 3678883
No 94
>PF06906 DUF1272: Protein of unknown function (DUF1272); InterPro: IPR010696 This family consists of several hypothetical bacterial proteins of around 80 residues in length. This family contains a number of conserved cysteine residues and its function is unknown.
Probab=20.89 E-value=55 Score=27.63 Aligned_cols=20 Identities=45% Similarity=1.009 Sum_probs=14.2
Q ss_pred HHhhhhhhcCCCCCCCCCCCcEE
Q 035625 262 DHCADGMMFGALGRCPICSGPLR 284 (954)
Q Consensus 262 ~~~aD~~~fG~l~~Cp~C~g~l~ 284 (954)
..||+.++ -..||.|+|.|+
T Consensus 33 ~~C~e~~l---~~~CPNCgGelv 52 (57)
T PF06906_consen 33 ADCAETML---NGVCPNCGGELV 52 (57)
T ss_pred HHHHHHHh---cCcCcCCCCccc
Confidence 34666666 457999998775
No 95
>TIGR01057 topA_arch DNA topoisomerase I, archaeal. This model describes topoisomerase I from archaea. These enzymes are involved in the control of DNA topology. DNA topoisomerase I belongs to the type I topoisomerases, which are ATP-independent.
Probab=20.06 E-value=64 Score=40.15 Aligned_cols=23 Identities=39% Similarity=1.015 Sum_probs=16.7
Q ss_pred CCCCCCCCCcEEEe---Cc-eEEEecC
Q 035625 273 LGRCPICSGPLRYS---GG-IYRCRGY 295 (954)
Q Consensus 273 l~~Cp~C~g~l~~~---~~-~Y~C~G~ 295 (954)
..+||.|++++... .+ .|.|.||
T Consensus 589 ~~~CPkCg~~l~~~~~k~g~f~gCs~y 615 (618)
T TIGR01057 589 VGKCPKCGGKLVSKYAKKGRFVGCSNY 615 (618)
T ss_pred cCCCCcCCCeeeeeecCCccEEECCCC
Confidence 36899998877642 23 4999887
Done!