Query 000879
Match_columns 1239
No_of_seqs 521 out of 2248
Neff 4.6
Searched_HMMs 46136
Date Tue Apr 2 00:34:33 2013
Command hhsearch -i /work/01045/syshi/lefta3m/000879.a3m -d /work/01045/syshi/HHdatabase/Cdd.hhm -o /work/01045/syshi/leftcdd/000879hhsearch_cdd -cpu 12 -v 0
No Hit Prob E-value P-value Score SS Cols Query HMM Template HMM
1 KOG1929 Nucleotide excision re 99.8 1.6E-18 3.5E-23 212.7 18.8 631 7-792 89-799 (811)
2 KOG4362 Transcriptional regula 99.7 2.1E-16 4.6E-21 189.8 11.5 192 927-1129 475-678 (684)
3 KOG2043 Signaling protein SWIF 99.6 2.5E-15 5.5E-20 187.4 8.8 182 931-1125 660-849 (896)
4 KOG3226 DNA repair protein [Re 99.6 3.6E-15 7.8E-20 166.6 8.1 133 21-172 317-449 (508)
5 PF12738 PTCB-BRCT: twin BRCT 99.5 3.1E-15 6.7E-20 131.1 4.7 63 25-89 1-63 (63)
6 PF00533 BRCT: BRCA1 C Terminu 99.3 1.4E-11 3.1E-16 109.8 9.1 74 19-94 3-78 (78)
7 KOG0825 PHD Zn-finger protein 99.3 1.5E-12 3.2E-17 155.4 3.1 113 1104-1229 132-266 (1134)
8 cd00027 BRCT Breast Cancer Sup 99.1 1.9E-10 4.2E-15 98.4 7.8 70 24-95 1-72 (72)
9 smart00292 BRCT breast cancer 99.1 3.4E-10 7.4E-15 99.0 7.8 75 21-97 2-80 (80)
10 PF00533 BRCT: BRCA1 C Terminu 98.9 4.2E-09 9.2E-14 93.9 8.7 68 931-1001 9-78 (78)
11 KOG3548 DNA damage checkpoint 98.8 2.8E-08 6E-13 121.9 12.7 206 921-1129 919-1155(1176)
12 cd00027 BRCT Breast Cancer Sup 98.8 2.4E-08 5.2E-13 85.4 7.8 69 931-1002 2-72 (72)
13 KOG1244 Predicted transcriptio 98.7 3.4E-09 7.5E-14 115.7 2.0 51 1173-1229 281-331 (336)
14 PF12738 PTCB-BRCT: twin BRCT 98.7 1.5E-08 3.2E-13 89.1 4.5 62 931-996 1-63 (63)
15 PLN03122 Poly [ADP-ribose] pol 98.6 1.2E-07 2.7E-12 118.8 11.7 87 19-108 187-278 (815)
16 PLN03123 poly [ADP-ribose] pol 98.6 1.3E-07 2.9E-12 120.6 9.5 88 18-107 390-480 (981)
17 smart00292 BRCT breast cancer 98.6 1.9E-07 4.2E-12 81.6 7.5 71 931-1004 6-80 (80)
18 KOG3226 DNA repair protein [Re 98.5 1.5E-07 3.3E-12 106.6 8.4 84 930-1017 320-404 (508)
19 KOG4299 PHD Zn-finger protein 98.4 6.4E-08 1.4E-12 116.0 1.6 51 1173-1229 253-305 (613)
20 PF00628 PHD: PHD-finger; Int 98.4 6.4E-08 1.4E-12 81.8 0.9 48 1175-1228 1-50 (51)
21 KOG1929 Nucleotide excision re 98.3 3.6E-07 7.7E-12 114.2 4.8 98 8-107 480-577 (811)
22 KOG1973 Chromatin remodeling p 98.2 8.5E-07 1.9E-11 99.8 3.0 55 1168-1230 214-269 (274)
23 COG5034 TNG2 Chromatin remodel 98.1 1.2E-06 2.6E-11 95.9 3.2 51 1170-1228 218-269 (271)
24 smart00249 PHD PHD zinc finger 98.0 4.4E-06 9.5E-11 67.7 3.8 46 1175-1226 1-47 (47)
25 KOG1512 PHD Zn-finger protein 97.9 2.9E-06 6.4E-11 93.7 1.3 48 1173-1228 314-362 (381)
26 KOG1245 Chromatin remodeling c 97.9 2.5E-06 5.5E-11 112.5 -0.8 55 1171-1231 1106-1160(1404)
27 KOG4443 Putative transcription 97.6 2.6E-05 5.5E-10 94.5 2.1 51 1174-1230 69-119 (694)
28 KOG0383 Predicted helicase [Ge 97.6 2.7E-05 5.8E-10 96.6 1.8 53 1170-1231 44-96 (696)
29 KOG0323 TFIIF-interacting CTD 97.6 3.4E-05 7.3E-10 94.8 2.5 87 21-108 441-531 (635)
30 PRK14350 ligA NAD-dependent DN 97.5 0.00018 4E-09 89.8 8.1 71 21-93 593-664 (669)
31 PRK06195 DNA polymerase III su 97.5 0.00033 7.1E-09 80.3 9.2 70 19-90 218-302 (309)
32 PRK06063 DNA polymerase III su 97.4 0.00041 8.8E-09 79.8 9.1 71 20-92 231-303 (313)
33 KOG0955 PHD finger protein BR1 97.4 8.2E-05 1.8E-09 95.6 3.6 56 1170-1233 216-273 (1051)
34 PRK07956 ligA NAD-dependent DN 97.4 0.00048 1E-08 86.3 9.0 73 21-95 590-663 (665)
35 KOG3524 Predicted guanine nucl 97.3 0.00028 6.1E-09 86.1 6.4 184 931-1151 122-305 (850)
36 KOG0957 PHD finger protein [Ge 97.3 6.8E-05 1.5E-09 88.1 0.9 50 1171-1226 542-595 (707)
37 PRK14351 ligA NAD-dependent DN 97.3 0.00068 1.5E-08 85.2 9.1 75 20-96 608-684 (689)
38 COG0272 Lig NAD-dependent DNA 97.2 0.00067 1.4E-08 83.8 8.0 71 20-92 593-664 (667)
39 TIGR00575 dnlj DNA ligase, NAD 97.2 0.00057 1.2E-08 85.5 7.4 67 21-89 584-651 (652)
40 KOG3524 Predicted guanine nucl 97.2 0.00016 3.4E-09 88.2 2.2 72 20-95 117-188 (850)
41 KOG0956 PHD finger protein AF1 97.0 0.00026 5.6E-09 86.0 1.9 49 1174-1228 6-56 (900)
42 KOG0954 PHD finger protein [Ge 96.9 0.00043 9.4E-09 84.8 2.6 51 1171-1229 269-321 (893)
43 PLN03122 Poly [ADP-ribose] pol 96.7 0.0026 5.7E-08 81.0 7.5 81 931-1015 193-278 (815)
44 KOG4323 Polycomb-like PHD Zn-f 96.6 0.00085 1.8E-08 80.0 1.7 53 1174-1232 169-227 (464)
45 COG5141 PHD zinc finger-contai 96.6 0.0011 2.3E-08 78.4 2.4 56 1167-1230 187-244 (669)
46 PLN03123 poly [ADP-ribose] pol 96.6 0.0036 7.8E-08 81.2 7.4 83 930-1015 396-481 (981)
47 KOG0966 ATP-dependent DNA liga 96.2 0.0089 1.9E-07 74.7 7.2 86 21-108 633-722 (881)
48 KOG2043 Signaling protein SWIF 96.1 0.0064 1.4E-07 78.3 5.9 79 25-108 660-739 (896)
49 KOG0966 ATP-dependent DNA liga 96.1 0.036 7.8E-07 69.5 11.9 81 931-1014 638-721 (881)
50 KOG3548 DNA damage checkpoint 96.0 0.0069 1.5E-07 76.3 4.9 89 18-108 922-1036(1176)
51 PF13831 PHD_2: PHD-finger; PD 95.3 0.0042 9E-08 50.2 -0.3 34 1186-1227 2-36 (36)
52 COG5275 BRCT domain type II [G 95.2 0.083 1.8E-06 57.8 9.0 72 19-92 154-227 (276)
53 KOG1473 Nucleosome remodeling 94.9 0.017 3.6E-07 74.2 3.2 47 1173-1228 344-390 (1414)
54 KOG1246 DNA-binding protein ju 92.6 0.11 2.4E-06 67.9 4.5 55 1170-1231 152-206 (904)
55 PRK05601 DNA polymerase III su 92.1 0.48 1E-05 56.2 8.4 87 7-95 280-368 (377)
56 KOG4362 Transcriptional regula 90.6 0.43 9.2E-06 60.1 6.4 81 23-108 477-563 (684)
57 KOG2481 Protein required for n 89.2 0.33 7.2E-06 58.8 3.8 77 22-106 328-414 (570)
58 KOG2481 Protein required for n 89.0 0.27 5.8E-06 59.6 2.9 70 942-1016 341-417 (570)
59 PRK06063 DNA polymerase III su 88.0 1.2 2.6E-05 51.8 7.2 68 931-1001 236-305 (313)
60 COG5163 NOP7 Protein required 87.4 0.55 1.2E-05 55.4 3.9 80 931-1016 354-441 (591)
61 KOG0323 TFIIF-interacting CTD 86.4 0.34 7.4E-06 60.7 1.7 84 930-1017 444-533 (635)
62 PRK06195 DNA polymerase III su 84.0 3 6.4E-05 48.4 7.7 68 931-1001 224-306 (309)
63 COG5163 NOP7 Protein required 83.8 0.81 1.8E-05 54.0 3.1 34 1042-1078 348-381 (591)
64 PRK14350 ligA NAD-dependent DN 83.5 1.5 3.3E-05 55.8 5.6 74 1042-1125 591-664 (669)
65 PRK14351 ligA NAD-dependent DN 79.6 4.8 0.0001 51.7 8.0 70 931-1003 613-684 (689)
66 KOG4443 Putative transcription 78.8 0.58 1.3E-05 58.2 -0.4 51 1173-1229 18-71 (694)
67 PRK07956 ligA NAD-dependent DN 78.1 6 0.00013 50.6 8.2 69 931-1003 594-664 (665)
68 PF12861 zf-Apc11: Anaphase-pr 76.7 0.93 2E-05 43.6 0.5 60 1139-1229 21-80 (85)
69 COG0272 Lig NAD-dependent DNA 74.8 4.3 9.2E-05 51.5 5.5 73 1043-1125 593-665 (667)
70 TIGR00575 dnlj DNA ligase, NAD 74.7 5.5 0.00012 50.9 6.5 62 931-996 588-651 (652)
71 KOG4628 Predicted E3 ubiquitin 71.3 3 6.6E-05 49.3 3.0 48 1174-1230 230-277 (348)
72 KOG4299 PHD Zn-finger protein 66.5 4.4 9.5E-05 50.7 3.0 50 1173-1231 47-97 (613)
73 PF15446 zf-PHD-like: PHD/FYVE 65.9 3.4 7.5E-05 44.3 1.7 48 1175-1228 1-59 (175)
74 PF11793 FANCL_C: FANCL C-term 63.6 0.71 1.5E-05 42.5 -3.3 52 1174-1229 3-64 (70)
75 PF13901 DUF4206: Domain of un 63.1 5 0.00011 44.1 2.4 57 1133-1230 138-199 (202)
76 KOG0957 PHD finger protein [Ge 57.4 6.9 0.00015 47.8 2.4 52 1174-1231 120-181 (707)
77 KOG1473 Nucleosome remodeling 54.8 2.8 6E-05 55.1 -1.4 52 1170-1229 425-479 (1414)
78 KOG0383 Predicted helicase [Ge 51.4 2.7 5.8E-05 53.7 -2.3 51 1170-1229 503-554 (696)
79 PF14446 Prok-RING_1: Prokaryo 51.2 10 0.00022 33.9 1.8 35 1171-1211 3-38 (54)
80 KOG2093 Translesion DNA polyme 45.7 21 0.00047 46.5 4.2 94 9-108 38-131 (1016)
81 PF10367 Vps39_2: Vacuolar sor 43.7 18 0.0004 34.6 2.6 31 1173-1210 78-108 (109)
82 KOG1512 PHD Zn-finger protein 43.1 7.7 0.00017 44.6 -0.1 51 1172-1228 257-316 (381)
83 PF13639 zf-RING_2: Ring finge 38.1 1.7 3.8E-05 35.8 -4.6 43 1175-1227 2-44 (44)
84 KOG1632 Uncharacterized PHD Zn 37.5 16 0.00034 43.5 1.3 47 1178-1230 64-114 (345)
85 KOG1734 Predicted RING-contain 36.2 9.1 0.0002 43.8 -0.9 55 1170-1229 221-279 (328)
86 PF13832 zf-HC5HC2H_2: PHD-zin 32.0 28 0.0006 34.2 1.8 32 1173-1210 55-86 (110)
87 PF15446 zf-PHD-like: PHD/FYVE 31.1 37 0.00079 36.8 2.6 22 1185-1212 121-142 (175)
88 PF12678 zf-rbx1: RING-H2 zinc 30.8 13 0.00028 34.5 -0.7 25 1199-1227 49-73 (73)
89 cd00162 RING RING-finger (Real 30.5 13 0.00028 29.3 -0.7 42 1176-1228 2-43 (45)
90 PF07227 DUF1423: Protein of u 30.2 42 0.0009 41.2 3.2 56 1168-1229 123-192 (446)
91 cd00730 rubredoxin Rubredoxin; 28.6 33 0.00071 30.1 1.5 17 1214-1231 29-45 (50)
92 PF08746 zf-RING-like: RING-li 27.6 15 0.00033 31.0 -0.8 43 1176-1226 1-43 (43)
93 PF00301 Rubredoxin: Rubredoxi 27.0 31 0.00067 30.0 1.0 17 1214-1231 29-45 (47)
94 PF13771 zf-HC5HC2H: PHD-like 25.9 45 0.00098 31.3 2.0 33 1173-1211 36-68 (90)
95 PHA02929 N1R/p28-like protein; 25.8 28 0.0006 39.6 0.7 49 1172-1230 173-226 (238)
96 PF07649 C1_3: C1-like domain; 23.4 35 0.00076 26.4 0.6 29 1175-1209 2-30 (30)
97 COG5275 BRCT domain type II [G 21.1 2.6E+02 0.0057 31.7 6.8 61 930-993 159-221 (276)
98 PF05221 AdoHcyase: S-adenosyl 21.0 2.4E+02 0.0052 32.9 6.8 37 1040-1077 36-72 (268)
99 KOG3612 PHD Zn-finger protein 20.2 89 0.0019 39.2 3.4 51 1170-1230 57-109 (588)
No 1
>KOG1929 consensus Nucleotide excision repair factor NEF2, RAD4/CUT5 component [Replication, recombination and repair]
Probab=99.79 E-value=1.6e-18 Score=212.71 Aligned_cols=631 Identities=14% Similarity=0.050 Sum_probs=400.2
Q ss_pred CccccCCCCCCCCCCCCccEEEecCCCCccHHHHHHHHHHhCCEecCCcccCcccEEEeccCC-chHHHHHHhcCCceee
Q 000879 7 SIMYRPLKDLNGIHGANSLVMCLTGYQRQDREDIMTLVRLMGSQFSKPLVANKVTHLICYKFE-GEKYELAKKIKSIKLV 85 (1239)
Q Consensus 7 ~ily~P~p~~~pIp~f~G~vIs~SGf~g~eR~~L~~LI~~lGA~yt~~llsk~tTHLIc~~~~-G~Ky~~Akkwg~IpIV 85 (1239)
.+++.|+.....+|+|.||.||+|||.+.++..|..+|..+||+|... ++..+.||+....- ++||++|.+|+ ++||
T Consensus 89 ~~~~~~l~~~~~~p~~~~~~Vc~tgl~~~eK~ei~~~v~k~gg~~~~~-L~s~v~~~~~~~~~~~~kYe~al~wn-~~v~ 166 (811)
T KOG1929|consen 89 IRLLDPLRDTMKCPGFFGLKVCLTGLSGDEKSEIKILVPKHGGTLHRS-LSSDVNSLKILPEVKTEKYEQALKWN-IPVV 166 (811)
T ss_pred CccCccchhhhcCCcccceEEEecccchHHHHHHHHHhhhcccEEehh-hhhhhheeeeccccchHHHHHHHhhC-Cccc
Confidence 567788777789999999999999999999999999999999999999 78888887777664 49999999997 9999
Q ss_pred cchHHHHHHHhcCcCCCcccccCCchhhhhhhhhcCchHHHHhhcccCCCCCCCCCCCCCCCCCCcCCCCCCCCcccCcc
Q 000879 86 NHRWLEDCLRVWELLPEVNYDKSGYELETMEAEAKDSEEEIEVASLKQFGGRDVNKSPHNLNVGIINAHESPKSTLEGQG 165 (1239)
Q Consensus 86 n~dWLeDClr~~krLpE~~Y~~~g~e~d~~~~e~~dSedE~e~~~~k~~~g~~~~~SP~~~k~gt~~~~~~~~~t~~~~~ 165 (1239)
+.+||++|+.....++...|..... ...++.|...-++..+
T Consensus 167 ~~~w~~~s~~~~~~~~~~~~e~~~~----------------------------------~~~is~~~~~~~~~~~----- 207 (811)
T KOG1929|consen 167 SDDWLFDSIEKTAVLETKPYEGAPV----------------------------------AEAISGPIGSTLPKEI----- 207 (811)
T ss_pred cHHHHhhhhcccccccccccccccc----------------------------------cceeccCCcccccccc-----
Confidence 9999999999999999999987310 0000000000000000
Q ss_pred ccCCCCCCCCcccccCCCCccccCCCCCCCccccccccccccccccccccCC---CCCCCCCCCcCcccccccccccccc
Q 000879 166 LLVGSTIPEASSGIDNATDMLSTPSRVSRSHQISGFDNVNITEVNGCHYTGA---SRDNSHEKTPNSAKVKSDLVPTSKN 242 (1239)
Q Consensus 166 ~~~~~~~p~g~~~~~~~~~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~---~~~~~~~~~~~~~~~~~~~~~~s~~ 242 (1239)
+.+- .....+.+.+.-...| .+ .+|.|+-.+. ++.... .+++++
T Consensus 208 -------~~~~--s~t~~~~~~~~~~~~n-~~----------~~p~~a~~~~~~~c~v~~s-------------~~~~~~ 254 (811)
T KOG1929|consen 208 -------LDGD--SRTANDTWSTSKVVTN-IK----------VLPFQAKIGNLDDCLVETS-------------GTTSRN 254 (811)
T ss_pred -------cccc--chhhhccccchhcccc-cc----------cchhhhhccccccceeeec-------------CCcccc
Confidence 0000 0001111111111111 00 1111111110 111111 034666
Q ss_pred cccccCCCCccccccccccCCCcccccccCC--CcCC-------------ccccccccccccccccccccccccCCCCCc
Q 000879 243 AEISYHSGSKFCSLNYSRKTPRKSILTMSSG--KVDN-------------DVLNIISSKVENAETRTVTACGEIPKRGGE 307 (1239)
Q Consensus 243 ~~~~~~s~~~~~~~~y~r~~~~~~~~~~~~~--~~~~-------------~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 307 (1239)
+++..|. ...+|+++..++++.+++++ .+++ -..|..++..+..+++ ..+..++
T Consensus 255 ~s~l~r~----~~~g~~~~~~e~~e~~st~l~~~~~~~~~q~~d~~g~~~~~~n~~~~~~~~~s~~-------~~~~~~~ 323 (811)
T KOG1929|consen 255 RSALSRL----SNNGGSLRFLERLEETSTSLLGDFDPNLEQLWDDNGLKQSFQNLGPSVLGPNSKR-------RSKNSVL 323 (811)
T ss_pred hhHhHHh----hhcccceeecccCccccchhhcccchHHHhhhhhccCcccccccCcccccccccc-------ccccccc
Confidence 6776665 77899999999999776544 6654 2355566666666666 2335577
Q ss_pred cccc-cccccccccccccCcccccccccccccccccCCCCCCCCCCCCccccCCCCCCccc------------CCCCCCC
Q 000879 308 LCHE-EESIVLPQKRMSNSTGAGSKSQKMSHNAAECNPRSPINYKTPVSETKSSACHSFET------------GNHLSPG 374 (1239)
Q Consensus 308 ~~~~-~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~p~~~~~~~~~~~~~~~~~~~~------------~~~~~~~ 374 (1239)
++|. +|+ +++.+.++.....++....+|+. ..+++++. -..|.+....+.|.-+.+ .+.+..+
T Consensus 324 ~~k~~sF~--~d~~~~~~~~~~~~~ll~q~~~~-a~L~~~~~-~~~~~~~~a~~~D~~~~is~i~e~~~~~~tp~~~~~~ 399 (811)
T KOG1929|consen 324 IFKNCSFI--IDFEKPGDHESPDKDLLRQYHGK-AYLFPSSA-RSYQKIRSAVPLDSLPDISSINENQDSLGTPSFSESR 399 (811)
T ss_pred cccccccc--ccccccCCccccchhHHhhcCCc-eeecCccc-ccccccccccccCCCcccccccCCCCccccccccchh
Confidence 8888 666 89999999999999999999986 44444333 345556555555532221 1111112
Q ss_pred CCCCcceee---eCCC-CC-------------------CCCCCCCCCCCcccccccccccccccccchHH--hhhccccc
Q 000879 375 SNGHYTIET---ATPS-TA-------------------PNKKPLTPDLPSLKTVTSEALHSEGADRNALE--TCRGSKES 429 (1239)
Q Consensus 375 ~~~~~~~~~---~~~~-~~-------------------~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~--~~~~~~~~ 429 (1239)
..+ .+++ .-++ .+ .-.-+-..|..+.+-+.-|..+.-.+..|..- ....+..+
T Consensus 400 ~~~--~~~~~~~~v~s~~~~~~~e~i~~~~~~~~~~~~~l~~~~~~~~~~~~~~~~e~~~~~k~v~~~~~v~~~~~~~~~ 477 (811)
T KOG1929|consen 400 ELG--AKLLKPVDVPSVKPFFNTEKIESSSFENELLHHLLLPSTFLDVTLTEFAGVEVKHLLKNVTNPFSVNCILDLSSS 477 (811)
T ss_pred hhh--hhhcccccccccccccchhhhccccccccchhccccccccccceeeccccceeehhcccccchhHHHHHHHhhcC
Confidence 211 1110 1111 11 01112233666666666666666654444332 22222222
Q ss_pred cccCCCCCCCCCCccccccccchhhhhcccccCCC---ccccccceeccCCCCCCCCCCccccCcccccchhhhhhhhhh
Q 000879 430 TVASKTDNEDFGMGSVHLDGEAEDAQNLHQDLEGS---SAKNRFLVMDKSPRPVNIDSPQVGKDKLIAKPIRKKMVAKKA 506 (1239)
Q Consensus 430 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~---~~~~~~~~~~~s~~~~~~~~~~~~~~~~~~~~~~~k~~~k~~ 506 (1239)
. -++.+.+++.+.....+|.++-.... ....--.+|+......+..+++ +.--+++.. .|.......
T Consensus 478 ~--------~~~~~~vp~~~l~~~~e~~~~~~s~~~~~~~e~ln~~~~~~gas~~~~f~r-~~~~l~~~~-~k~s~~~~~ 547 (811)
T KOG1929|consen 478 T--------EDNLRPVPAAALSQPFENLTISNSQSAEAEREKLNNLANDLGASNVKTFTR-KSTTLLTTS-AKGSKYEIA 547 (811)
T ss_pred c--------hhhcCcchhhcccccccCceEEeeechHHHHHHHhHhhhhccccccceeee-cccEEeccc-cccchhhhc
Confidence 2 35668899999999999999887543 4444456677888878888886 332334433 344444333
Q ss_pred cCCCCCcccccceEeeccCCCCCCccccchhhhccccccccCCCcccc-CCCCcchhhhhhhhhhhhcccCCCCCCCCcc
Q 000879 507 FGSGHTTNRKGSIYSNKISSLSSPAVCLSREVERANQEKFSSTSELET-DPPNLSDEATKEMETTLVAKCGDNSGDGIKT 585 (1239)
Q Consensus 507 ~g~~~~~~~k~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~-~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 585 (1239)
-|-..++++.|.||..+.+.+.++++++. .+..+++.+..+.+... ..|..+...++.+..+ ...++.-+.+..
T Consensus 548 ~kw~ip~vT~~wL~e~~rq~~~~~~e~~l--~~~st~~e~~~~~~~~~~~~P~~k~~t~s~sv~~---~~~~~~~~s~~~ 622 (811)
T KOG1929|consen 548 GKWSIPIVTPDWLYECVRQNKGERNEGFL--NGNSTAKERPISPSIRFAVVPGKKPDTVSKSVVH---KEDTNKPKSVAT 622 (811)
T ss_pred cccCCCccChhHHHhhccccCcccceeec--cccccccccCcccccccccCCCCCcceeecceec---ccccCCCccccc
Confidence 34448999999999999999999999999 44888888999999988 9999999999999887 566667788888
Q ss_pred ccCCcCCCCchhhHHHHHhhccccccccccccccccchh---------------ccCCCc-ccccccccccccCccccc-
Q 000879 586 MDDETEAPDEKYEIEFEKMLNNEKSEGVQSIHKEDTMMK---------------RVPGVG-HEAHDSMVYGRDGITGKE- 648 (1239)
Q Consensus 586 ~d~~~~a~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~---------------~~~~~~-~~~~~~~~~~~~~~~~~~- 648 (1239)
++..--++..+.|..++.++..++ ...++|...|.+-. -..+++ +-+.+++.+.|.+.+|..
T Consensus 623 v~~~g~~~~~e~h~~~d~~~~~~s-k~~~~~~~~d~~~~~~~le~~~~~~ps~~~~~v~~~~~~~a~~~~~r~~~~~~~s 701 (811)
T KOG1929|consen 623 VSGKGSGSVYEEHLLLDTEVKFDS-KIAKTPPGGDLRDVSDYLELPLFDRPSHDLSRVVLQQYDLASSQRKRTALDGCVS 701 (811)
T ss_pred ccccCCCccccccccccchhhhhh-hhhcCCCcccccccccceecccccCcCCChhhccceeeeeccccccchhhhhhhh
Confidence 888888888888877776664443 44666666664333 111333 357889999999999877
Q ss_pred ccccccCccccCcccccccccccccc--cccccccCCCCCCCCccccCCcccccchhhhhhhhhhccchhhcccCCCCCc
Q 000879 649 VMNAEVGMTVSGKRFDLDESTSKMDG--MKSKRKIRPSDKANGNVSADKETVESWDDEAEAADEKVGNVFEEALNDEKPE 726 (1239)
Q Consensus 649 ~~~~~~g~~~~~~~~~~~~~~~~~~~--~k~~~~~~~~~k~~~~~~~~~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~ 726 (1239)
.+-++++. |. .....+ .+.+-.+.++.+++|..++++ ...+.+|..+.+..
T Consensus 702 ~~~~k~q~--t~--------~~~~~r~~~~e~~~~~~~~~~~~~~~~~g--------~~~~~~~~~~~~~~--------- 754 (811)
T KOG1929|consen 702 EQVPKKQP--TA--------ISNPERIQRTEKVSHLNDRYAPGIDDKRG--------ASLEEPHWRLTRNQ--------- 754 (811)
T ss_pred hhcCCcCc--cc--------ccCccccccccccchhhcccCCCcccccc--------hhhhchhhhccccc---------
Confidence 77778877 33 333444 344667778999999987755 22223333333221
Q ss_pred chhhhcchhhhhhcCCCCCCCCCccccccccccccccccccceeeccccccccccccccccccchh
Q 000879 727 GVELIHKEDAELKRIPGAGHEAHDSVVCRHDEITGKEGINAQVRTTLSGEMFDLDESNSKRDGTKC 792 (1239)
Q Consensus 727 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~g~~~~~~~~~~~~~~~~~~~~~~~~~~~~~K~ 792 (1239)
+.-|.|-|-- +.|++.|+++ -++++|+++...-..-..+++|.++
T Consensus 755 ----------------~~~~~~~d~s--e~~~~~~~~~---~~~~~~~~~~s~~~~~~~~~~~~~~ 799 (811)
T KOG1929|consen 755 ----------------TKDHKPDDIS--EPDGKKGEER---VETNRLQTPPSNVAKKSKKEDGAKA 799 (811)
T ss_pred ----------------cccCCccccc--cCcchhhhhh---ccCcccccCCccccCCCcccchHHH
Confidence 1122222111 7888888887 3477777777666666666666654
No 2
>KOG4362 consensus Transcriptional regulator BRCA1 [Replication, recombination and repair; Transcription]
Probab=99.66 E-value=2.1e-16 Score=189.83 Aligned_cols=192 Identities=21% Similarity=0.277 Sum_probs=140.5
Q ss_pred cCCCeEEEEecChHhHHHHHHHHHHhCCEEEecCCCccCcccEEEcCC-----CCCcHHHHHHHhcCCeEechhHHHHHH
Q 000879 927 KDEPIWFILSGHRLQRKEFQVVIRHLKGRLCRDSHQWSYQATHFIAPE-----IRRTEKFFAAAASGRWILKTDYLSACS 1001 (1239)
Q Consensus 927 k~~~~vfllSGLs~erkeL~k~IkqLGG~V~~d~s~fd~scTHLI~~k-----~~RT~KfL~AIA~GkWIVsp~WL~dSl 1001 (1239)
-..+.+.+.+|+++..+++...+..+ .+ ...|++.+||+|+.. +.||+|||+||++|+|||+++|+.+|+
T Consensus 475 ~~kk~~~~~s~l~p~ek~~v~~~a~~--t~---~k~~~~~~thvi~~~~~~g~c~rTlk~~~gil~gkwi~~~~w~~~s~ 549 (684)
T KOG4362|consen 475 FKKKLVLLVSGLTPSEKQLVEKFAVD--TI---SKFWIEPVTHVIASTDLEGACLRTLKVLMGILRGKWILSYDWVLASL 549 (684)
T ss_pred cccceeeeeccCCcchHHHHHHHHHH--HH---hhccCCCceeeeeecccccchhhhHHHHHHhhcCceeeeHHHHHHHH
Confidence 34457999999986655555555544 22 334889999999987 999999999999999999999999999
Q ss_pred hcCCCCCCCcccccCCCCCcccccccchhhHHHHHHHhcCCCCCCCceEEEecCCCCCCHHHHHHHHHhCCcEEeccCCC
Q 000879 1002 QAGKFLLEEPYEWHKNGLSEDGAINLEAPRKWRLLRERTGHGAFHGMRIIVYGDCIAPPLDTLKRVVKAGDGNILATSPP 1081 (1239)
Q Consensus 1002 kaGrfLDEe~YEl~d~~~e~d~~~~~~aprRwRl~~~~~~~kLFsG~~f~L~~~~v~p~~~~LkrLIeaGGGkVv~~~Pp 1081 (1239)
+.++|++|++|||..+.-. .-..++..|+++..+.++||.|..||++++|..++.+.|..||.++||.++...+.
T Consensus 550 k~~~~~~eepfEl~~d~~~-----~~~~~~~~~~~a~s~~~kLf~gl~~~~~g~fs~~p~~~l~~l~~~~gg~~l~~~~~ 624 (684)
T KOG4362|consen 550 KLRKWVSEEPFELQIDVPG-----AREGPKEKRLRAESYKPKLFEGLKFYFVGDFSNPPKEQLQELVHLAGGTILQVPRV 624 (684)
T ss_pred HhcCCCCCCCeeEeecccC-----cccCcccccccccccCcchhcCCcceeecccccCcHHHHHHHHhhcCcceeeccCc
Confidence 9999999999999976322 11345555566666679999999999999999999999999999999999988553
Q ss_pred ccccccCCCccc----cccCCCCch--hhHHHH-HHhcCcceeeecceeeeeecc
Q 000879 1082 YTRFLNSGVDFA----VVSPGMPRV--DLWVQE-FLKHEIPCVVADYLVEFVCKP 1129 (1239)
Q Consensus 1082 ~~~~l~s~~d~i----IVs~~~~~~--d~wlqe-L~k~GIpC~s~EYIldyIck~ 1129 (1239)
.-.+... .+.. ++..+...+ ..-..- ....+.+.+...|+++.+..+
T Consensus 625 ~~~~~k~-s~~~~~~~~~~~~~~~~~k~~~~ea~~~s~~a~~~~~~wvl~s~a~~ 678 (684)
T KOG4362|consen 625 AYSDKKK-STIVVLSEKPVLDSILWQKVNDAEALALSQRARAVSSSWVLDSIAGY 678 (684)
T ss_pred ccccccc-cceeEeecccCCCchhhhhhccHHHHHHhcCCCccchhhhhcchhce
Confidence 2111111 1111 111111111 001112 257899999999999988654
No 3
>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=99.57 E-value=2.5e-15 Score=187.44 Aligned_cols=182 Identities=25% Similarity=0.447 Sum_probs=138.5
Q ss_pred eEEEEecChHhHHHHHHHHHHhCCEEEecCCCccCcccEEEcCCCCCcHHHHHHHhcCCeEechhHHHHHHhcCCCCCCC
Q 000879 931 IWFILSGHRLQRKEFQVVIRHLKGRLCRDSHQWSYQATHFIAPEIRRTEKFFAAAASGRWILKTDYLSACSQAGKFLLEE 1010 (1239)
Q Consensus 931 ~vfllSGLs~erkeL~k~IkqLGG~V~~d~s~fd~scTHLI~~k~~RT~KfL~AIA~GkWIVsp~WL~dSlkaGrfLDEe 1010 (1239)
+.++|+++.+. ..|..+++.|||.+.... .++||+|+.+++||.|||+||++|+|||+++||.+|++.|.|+||.
T Consensus 660 ~~~lfs~~~~~-~~~k~~~k~lg~s~~ss~----~e~Th~i~~rirRT~k~Leai~~G~~ivT~~wL~s~~k~g~~~dek 734 (896)
T KOG2043|consen 660 IEVLFSDKNDG-KNYKLAKKFLGGSVASSD----SEATHFIADRIRRTLKFLEAISSGKPLVTPQWLVSSLKSGEKLDEK 734 (896)
T ss_pred eeeeeeeccCc-hhhhhHHhhccceeeccc----ccceeeeehhhhccHHHHhhhccCCcccchHHHHHHhhccccccCc
Confidence 68999998543 356778889998886543 5799999999999999999999999999999999999999999999
Q ss_pred cccccCCCCCcccccccchhhHHHHHHHhcCCCCCCCceEEEecCCCCCCHHHHHHHHHhCCcEEeccCCCcc---cc-c
Q 000879 1011 PYEWHKNGLSEDGAINLEAPRKWRLLRERTGHGAFHGMRIIVYGDCIAPPLDTLKRVVKAGDGNILATSPPYT---RF-L 1086 (1239)
Q Consensus 1011 ~YEl~d~~~e~d~~~~~~aprRwRl~~~~~~~kLFsG~~f~L~~~~v~p~~~~LkrLIeaGGGkVv~~~Pp~~---~~-l 1086 (1239)
+|.+.|...+.++++.+. .++.|.+. ..+|.|+.||++ +++.++...+.+||+++||.|+...|-.. .+ +
T Consensus 735 ~yil~D~ekEk~~gf~l~----ssl~RAr~-~plL~g~~v~vt-p~v~p~~~~v~eiie~~ggnvv~~~p~~~~~~k~~l 808 (896)
T KOG2043|consen 735 PYILHDEEKEKEFGFRLK----SSLLRARA-DPLLEGINVHVT-PSVTPSPKTVVEIIEISGGNVVSDSPKGVYTKKIVL 808 (896)
T ss_pred cccccCHHHHhccCcchh----hHHHHhhc-chhhcCceEEec-cccccCcchhHHHHhhcCcceecccCccceeccccc
Confidence 999999877766554433 22223222 499999999995 67889999999999999999999877532 11 1
Q ss_pred cC-CCccccccCCCCchhhHHHHHHhcCcc---eeeecceeee
Q 000879 1087 NS-GVDFAVVSPGMPRVDLWVQEFLKHEIP---CVVADYLVEF 1125 (1239)
Q Consensus 1087 ~s-~~d~iIVs~~~~~~d~wlqeL~k~GIp---C~s~EYIldy 1125 (1239)
.. ..+.+++.+...+ .+ +-.|+..+.+ +|..+|++..
T Consensus 809 ~~~~~~~v~itc~~D~-~~-~~~fl~~~~~~~~i~~~~~~l~~ 849 (896)
T KOG2043|consen 809 SAHDLDVVGITCSEDR-TF-CDNFLDNGLEQENIFSPEYVLKG 849 (896)
T ss_pred ccCcccceeecccccc-cc-cccccccccccccccchHhhhhc
Confidence 11 1334555443221 11 2334677777 8999888766
No 4
>KOG3226 consensus DNA repair protein [Replication, recombination and repair]
Probab=99.57 E-value=3.6e-15 Score=166.60 Aligned_cols=133 Identities=18% Similarity=0.267 Sum_probs=102.8
Q ss_pred CCCccEEEecCCCCccHHHHHHHHHHhCCEecCCcccCcccEEEeccCCchHHHHHHhcCCceeecchHHHHHHHhcCcC
Q 000879 21 GANSLVMCLTGYQRQDREDIMTLVRLMGSQFSKPLVANKVTHLICYKFEGEKYELAKKIKSIKLVNHRWLEDCLRVWELL 100 (1239)
Q Consensus 21 ~f~G~vIs~SGf~g~eR~~L~~LI~~lGA~yt~~llsk~tTHLIc~~~~G~Ky~~Akkwg~IpIVn~dWLeDClr~~krL 100 (1239)
-|+|++++||||++.+|..|+.-+..|||+|.++ |...+|||||++++++||.+....|+ .||+.+||++|++..++|
T Consensus 317 lL~GVV~VlSGfqNP~Rs~LRskAl~LGAkY~pD-W~~gsThLICAF~NTPKy~QV~g~Gg-~IV~keWI~~Cy~~kk~l 394 (508)
T KOG3226|consen 317 LLEGVVFVLSGFQNPERSTLRSKALTLGAKYQPD-WNAGSTHLICAFPNTPKYRQVEGNGG-TIVSKEWITECYAQKKLL 394 (508)
T ss_pred hhhceEEEEecccCchHHHHHHHHHhhcccccCC-cCCCceeEEEecCCCcchhhcccCCc-eEeeHHHHHHHHHHHhhc
Confidence 3789999999999999999999999999999999 99999999999999999999999985 799999999999999999
Q ss_pred CCcccccCCchhhhhhhhhcCchHHHHhhcccCCCCCCCCCCCCCCCCCCcCCCCCCCCcccCccccCCCCC
Q 000879 101 PEVNYDKSGYELETMEAEAKDSEEEIEVASLKQFGGRDVNKSPHNLNVGIINAHESPKSTLEGQGLLVGSTI 172 (1239)
Q Consensus 101 pE~~Y~~~g~e~d~~~~e~~dSedE~e~~~~k~~~g~~~~~SP~~~k~gt~~~~~~~~~t~~~~~~~~~~~~ 172 (1239)
|..+|++.+... .-+.++. + ..++.......++|.++.+++.+.-+..+.+++.+
T Consensus 395 p~rrYlm~~~~p-----~~p~s~p----------q--~~~~~tr~~~~ssp~k~~~~e~~k~~tp~~q~d~~ 449 (508)
T KOG3226|consen 395 PIRRYLMHAGKP-----WRPSSSP----------Q--DANRETREHLSSSPEKQVEKETEKRGTPSTQSDAC 449 (508)
T ss_pred cHHHHHhcCCCC-----CCCCCCh----------h--hcccccccccCCCccccCCcccccccCcccccccc
Confidence 999999865311 1111111 1 12222334455666777777765444444444433
No 5
>PF12738 PTCB-BRCT: twin BRCT domain; PDB: 3PA6_A 3KTF_C 2WT8_C 3EF1_A 3EF0_A.
Probab=99.55 E-value=3.1e-15 Score=131.05 Aligned_cols=63 Identities=37% Similarity=0.782 Sum_probs=55.9
Q ss_pred cEEEecCCCCccHHHHHHHHHHhCCEecCCcccCcccEEEeccCCchHHHHHHhcCCceeecchH
Q 000879 25 LVMCLTGYQRQDREDIMTLVRLMGSQFSKPLVANKVTHLICYKFEGEKYELAKKIKSIKLVNHRW 89 (1239)
Q Consensus 25 ~vIs~SGf~g~eR~~L~~LI~~lGA~yt~~llsk~tTHLIc~~~~G~Ky~~Akkwg~IpIVn~dW 89 (1239)
|+||+|||.+.+|..|+.++.+|||.|+.. +++++|||||....|.||+.|++|+ |+||+++|
T Consensus 1 ~~i~~sg~~~~~~~~l~~~i~~~Gg~~~~~-lt~~~THLI~~~~~~~K~~~A~~~g-i~vV~~~W 63 (63)
T PF12738_consen 1 VVICFSGFSGKERSQLRKLIEALGGKYSKD-LTKKTTHLICSSPEGKKYRKAKEWG-IPVVSPDW 63 (63)
T ss_dssp -EEEEEEB-TTTCCHHHHHHHCTT-EEESS-SSTT-SEEEEES--HHHHHHHHHCT-SEEEEHHH
T ss_pred CEEEECCCCHHHHHHHHHHHHHCCCEEecc-ccCCceEEEEeCCCcHHHHHHHHCC-CcEECCCC
Confidence 689999999999999999999999999999 6999999999999999999999998 99999999
No 6
>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=99.27 E-value=1.4e-11 Score=109.78 Aligned_cols=74 Identities=27% Similarity=0.549 Sum_probs=70.1
Q ss_pred CCCCCccEEEecCCCCccHHHHHHHHHHhCCEecCCcccCcccEEEeccC--CchHHHHHHhcCCceeecchHHHHHH
Q 000879 19 IHGANSLVMCLTGYQRQDREDIMTLVRLMGSQFSKPLVANKVTHLICYKF--EGEKYELAKKIKSIKLVNHRWLEDCL 94 (1239)
Q Consensus 19 Ip~f~G~vIs~SGf~g~eR~~L~~LI~~lGA~yt~~llsk~tTHLIc~~~--~G~Ky~~Akkwg~IpIVn~dWLeDCl 94 (1239)
-+.|+|+.|+++++...+|..|+.+|..+||++... ++..+||||+... ...||..|..++ |+||+++||++|+
T Consensus 3 ~~~F~g~~f~i~~~~~~~~~~l~~~i~~~GG~v~~~-~~~~~thvI~~~~~~~~~k~~~~~~~~-i~iV~~~Wi~~ci 78 (78)
T PF00533_consen 3 PKIFEGCTFCISGFDSDEREELEQLIKKHGGTVSNS-FSKKTTHVIVGNPNKRTKKYKAAIANG-IPIVSPDWIEDCI 78 (78)
T ss_dssp TTTTTTEEEEESSTSSSHHHHHHHHHHHTTEEEESS-SSTTSSEEEESSSHCCCHHHHHHHHTT-SEEEETHHHHHHH
T ss_pred CCCCCCEEEEEccCCCCCHHHHHHHHHHcCCEEEee-cccCcEEEEeCCCCCccHHHHHHHHCC-CeEecHHHHHHhC
Confidence 356999999999999999999999999999999988 8999999999988 899999999998 9999999999996
No 7
>KOG0825 consensus PHD Zn-finger protein [General function prediction only]
Probab=99.27 E-value=1.5e-12 Score=155.42 Aligned_cols=113 Identities=19% Similarity=0.443 Sum_probs=86.5
Q ss_pred hHHHHHHhcCcceeeecceeeeeeccCCccccccccccchhhhhhhhhhhhhh----------------hhhhccC----
Q 000879 1104 LWVQEFLKHEIPCVVADYLVEFVCKPGYSLERHVQYNTHAWAEKSLSNLLSKA----------------EEIVMDL---- 1163 (1239)
Q Consensus 1104 ~wlqeL~k~GIpC~s~EYIldyIck~gc~LerHvlyntcPlc~~sf~~i~~~~----------------e~i~~~~---- 1163 (1239)
.|...|....++| .+|||. +|...|-...++||+|+.-|..+.+.. +.+++.+
T Consensus 132 s~~DqL~~~~k~c------~H~FC~-~Ci~sWsR~aqTCPiDR~EF~~v~V~eS~~~~~~vR~lP~EEs~~~~e~~~d~~ 204 (1134)
T KOG0825|consen 132 SCNDQLEESEKHT------AHYFCE-ECVGSWSRCAQTCPVDRGEFGEVKVLESTGIEANVRCLPSEESENILEKGGDEK 204 (1134)
T ss_pred HHHHHhhcccccc------ccccHH-HHhhhhhhhcccCchhhhhhheeeeeccccccceeEecchhhhhhhhhhccccc
Confidence 3555555544444 456777 577888899999999999999998532 1122211
Q ss_pred -CCCCCCCCccccccccCCCCCCCcEEEecCCCCCCccCCc-cccccCCCCCCCCCCCCccCcccCcC
Q 000879 1164 -TPPNDYDTDKITCQACGCSDRGEVMLICGDESGSVGCGVG-MHIDCCDPPLESVPEEDWFCPTCTRS 1229 (1239)
Q Consensus 1164 -~~~e~~~~~~~~C~vC~~~~~~~~lLlCd~~~g~~~C~~~-yH~~Cl~PpL~~vP~gdW~Cp~C~~~ 1229 (1239)
+.......+...|.+|...+.++.||+|| .|+.+ ||+|||+|+|-+||.+.|||++|...
T Consensus 205 ~d~~~~~~~E~~~C~IC~~~DpEdVLLLCD------sCN~~~YH~YCLDPdl~eiP~~eWYC~NC~dL 266 (1134)
T KOG0825|consen 205 QDQISGLSQEEVKCDICTVHDPEDVLLLCD------SCNKVYYHVYCLDPDLSESPVNEWYCTNCSLL 266 (1134)
T ss_pred cccccCcccccccceeeccCChHHhheeec------ccccceeeccccCcccccccccceecCcchhh
Confidence 12223345667899999999999999999 99999 99999999999999999999999754
No 8
>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=99.11 E-value=1.9e-10 Score=98.39 Aligned_cols=70 Identities=31% Similarity=0.570 Sum_probs=64.5
Q ss_pred ccEEEecCCC-CccHHHHHHHHHHhCCEecCCcccCcccEEEeccCCchH-HHHHHhcCCceeecchHHHHHHH
Q 000879 24 SLVMCLTGYQ-RQDREDIMTLVRLMGSQFSKPLVANKVTHLICYKFEGEK-YELAKKIKSIKLVNHRWLEDCLR 95 (1239)
Q Consensus 24 G~vIs~SGf~-g~eR~~L~~LI~~lGA~yt~~llsk~tTHLIc~~~~G~K-y~~Akkwg~IpIVn~dWLeDClr 95 (1239)
|+.|+++|+. +.+|..|.+++..+||++... ++..+||||+......+ +..|..++ ++||+++||++|+.
T Consensus 1 ~~~~~i~g~~~~~~~~~l~~~i~~~Gg~v~~~-~~~~~thvI~~~~~~~~~~~~~~~~~-~~iV~~~Wi~~~~~ 72 (72)
T cd00027 1 GLTFVITGDLPSEERDELKELIEKLGGKVTSS-VSKKTTHVIVGSDAGPKKLLKAIKLG-IPIVTPEWLLDCLK 72 (72)
T ss_pred CCEEEEEecCCCcCHHHHHHHHHHcCCEEecc-ccCCceEEEECCCCCchHHHHHHHcC-CeEecHHHHHHHhC
Confidence 6899999998 899999999999999999998 88999999999987766 88898887 99999999999973
No 9
>smart00292 BRCT breast cancer carboxy-terminal domain.
Probab=99.07 E-value=3.4e-10 Score=99.03 Aligned_cols=75 Identities=28% Similarity=0.547 Sum_probs=66.8
Q ss_pred CCCccEEEecC-CCCccHHHHHHHHHHhCCEecCCcccC-cccEEEeccCCchH--HHHHHhcCCceeecchHHHHHHHh
Q 000879 21 GANSLVMCLTG-YQRQDREDIMTLVRLMGSQFSKPLVAN-KVTHLICYKFEGEK--YELAKKIKSIKLVNHRWLEDCLRV 96 (1239)
Q Consensus 21 ~f~G~vIs~SG-f~g~eR~~L~~LI~~lGA~yt~~llsk-~tTHLIc~~~~G~K--y~~Akkwg~IpIVn~dWLeDClr~ 96 (1239)
.|+|++|+++| +....+..|++++..+||++... ++. .+||+|+......+ +..|...+ ++||+++||++|+..
T Consensus 2 ~f~g~~~~~~g~~~~~~~~~l~~~i~~~Gg~~~~~-~~~~~~thvi~~~~~~~~~~~~~~~~~~-~~iV~~~Wi~~~~~~ 79 (80)
T smart00292 2 LFKGKVFVITGKFDKNERDELKELIEALGGKVTSS-LSSKTTTHVIVGSPEGGKLELLLAIALG-IPIVTEDWLLDCLKA 79 (80)
T ss_pred ccCCeEEEEeCCCCCccHHHHHHHHHHcCCEEecc-cCccceeEEEEcCCCCccHHHHHHHHcC-CCCccHHHHHHHHHC
Confidence 58999999999 88899999999999999999988 777 99999999886655 47777776 999999999999986
Q ss_pred c
Q 000879 97 W 97 (1239)
Q Consensus 97 ~ 97 (1239)
+
T Consensus 80 ~ 80 (80)
T smart00292 80 G 80 (80)
T ss_pred c
Confidence 4
No 10
>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=98.92 E-value=4.2e-09 Score=93.93 Aligned_cols=68 Identities=31% Similarity=0.500 Sum_probs=61.4
Q ss_pred eEEEEecCh-HhHHHHHHHHHHhCCEEEecCCCccCcccEEEcCCC-CCcHHHHHHHhcCCeEechhHHHHHH
Q 000879 931 IWFILSGHR-LQRKEFQVVIRHLKGRLCRDSHQWSYQATHFIAPEI-RRTEKFFAAAASGRWILKTDYLSACS 1001 (1239)
Q Consensus 931 ~vfllSGLs-~erkeL~k~IkqLGG~V~~d~s~fd~scTHLI~~k~-~RT~KfL~AIA~GkWIVsp~WL~dSl 1001 (1239)
..|+++++. .++..|.++|+++||.+.. .++..|||||++.. .++.|++.|++.|.|||+++||.+|+
T Consensus 9 ~~f~i~~~~~~~~~~l~~~i~~~GG~v~~---~~~~~~thvI~~~~~~~~~k~~~~~~~~i~iV~~~Wi~~ci 78 (78)
T PF00533_consen 9 CTFCISGFDSDEREELEQLIKKHGGTVSN---SFSKKTTHVIVGNPNKRTKKYKAAIANGIPIVSPDWIEDCI 78 (78)
T ss_dssp EEEEESSTSSSHHHHHHHHHHHTTEEEES---SSSTTSSEEEESSSHCCCHHHHHHHHTTSEEEETHHHHHHH
T ss_pred EEEEEccCCCCCHHHHHHHHHHcCCEEEe---ecccCcEEEEeCCCCCccHHHHHHHHCCCeEecHHHHHHhC
Confidence 677788876 6788999999999999954 37889999999997 89999999999999999999999996
No 11
>KOG3548 consensus DNA damage checkpoint protein RHP9/CRB2/53BP1 [Replication, recombination and repair]
Probab=98.80 E-value=2.8e-08 Score=121.92 Aligned_cols=206 Identities=12% Similarity=0.104 Sum_probs=128.4
Q ss_pred cccccccCCCeEEEEecChHhHHHHHHHHHHhCCEEEecCC--CccCc---------------------ccEEEcCCCCC
Q 000879 921 KSLNKLKDEPIWFILSGHRLQRKEFQVVIRHLKGRLCRDSH--QWSYQ---------------------ATHFIAPEIRR 977 (1239)
Q Consensus 921 es~~~~k~~~~vfllSGLs~erkeL~k~IkqLGG~V~~d~s--~fd~s---------------------cTHLI~~k~~R 977 (1239)
+...+..=...+|+||+...........+...||.|....- -|+.. ---||+++..|
T Consensus 919 e~~gkniFd~cvF~lTsa~~sd~~~r~s~e~~gg~vle~gl~~~Fn~p~~g~~~~lr~Ln~~q~~ks~~qalLIsdth~R 998 (1176)
T KOG3548|consen 919 EAIGKNIFDGCVFMLTSANRSDSASRPSMEKHGGLVLEKGLMNLFNTPFKGGGIVLRQLNSFQERKSNYQALLISDTHYR 998 (1176)
T ss_pred hhhCcchhcceeEEEeccccchhhhhhhhhccCChhhhccccccccccccCCcchHHhhhHHhhhccccceeEeehhhhH
Confidence 33333444458999999876556666667777777643210 01111 12588888999
Q ss_pred cHHHHHHHhcCCeEechhHHHHHHhcCCCCCCCcccccCCCCCcccccccchhhH-HHHH-HH---hcCCCCCCCceEEE
Q 000879 978 TEKFFAAAASGRWILKTDYLSACSQAGKFLLEEPYEWHKNGLSEDGAINLEAPRK-WRLL-RE---RTGHGAFHGMRIIV 1052 (1239)
Q Consensus 978 T~KfL~AIA~GkWIVsp~WL~dSlkaGrfLDEe~YEl~d~~~e~d~~~~~~aprR-wRl~-~~---~~~~kLFsG~~f~L 1052 (1239)
|.|||.|||+|.++|++.||.+|+++++++|-.+|.|.....-+....+..+++. -+-. +. -.-++.+.++.|.+
T Consensus 999 t~KYLeaLA~giPcVh~~fI~aC~e~nr~Vdy~~YLLpsGyS~rlds~l~~~i~~fn~~~nLkd~~l~vk~~l~~~~v~q 1078 (1176)
T KOG3548|consen 999 THKYLEALARGIPCVHNTFIQACGEQNRCVDYTDYLLPSGYSIRLDSQLMPAIEPFNPSENLKDTTLYVKSTLSAREVTQ 1078 (1176)
T ss_pred HHHHHHHHHcCCCcccHHHHHHHHhccccccchhhcccCccccccccccccCccccCchhhccceeeEeeccccceeEEE
Confidence 9999999999999999999999999999999999999864221222233333321 1110 00 01145556666666
Q ss_pred ecCCCCCCHHHHHHHHHhCCcEEeccCCCccc---cccCCCccccccCCCCchhhHHHHHHhcCcceeeecceeeeeecc
Q 000879 1053 YGDCIAPPLDTLKRVVKAGDGNILATSPPYTR---FLNSGVDFAVVSPGMPRVDLWVQEFLKHEIPCVVADYLVEFVCKP 1129 (1239)
Q Consensus 1053 ~~~~v~p~~~~LkrLIeaGGGkVv~~~Pp~~~---~l~s~~d~iIVs~~~~~~d~wlqeL~k~GIpC~s~EYIldyIck~ 1129 (1239)
.++. .....-+..++++||+-++...-.... .+-.-.+ +|+.++.+. +.....+-..+.|++..|||..+|+..
T Consensus 1079 ~gp~-~~f~e~~~e~le~G~aa~vd~~hada~~~D~~l~~fd-vvl~d~~~~-~svmk~ad~l~~pvvs~EWvIQtiI~~ 1155 (1176)
T KOG3548|consen 1079 TGPG-GTFIEIWKEILELGGAAVVDGYHADAETLDETLLKFD-VVLVDGTFR-DSVMKYADTLGAPVVSSEWVIQTIILG 1155 (1176)
T ss_pred ecCC-cchHHHHHHHHHhhchheeccccccccccccccccee-EEEecCccH-HHHHHHHHHhCCCccChhHhheeeecc
Confidence 6553 345677888999999887766222111 1111123 333333322 222343446789999999999999874
No 12
>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=98.76 E-value=2.4e-08 Score=85.39 Aligned_cols=69 Identities=25% Similarity=0.415 Sum_probs=60.4
Q ss_pred eEEEEecCh--HhHHHHHHHHHHhCCEEEecCCCccCcccEEEcCCCCCcHHHHHHHhcCCeEechhHHHHHHh
Q 000879 931 IWFILSGHR--LQRKEFQVVIRHLKGRLCRDSHQWSYQATHFIAPEIRRTEKFFAAAASGRWILKTDYLSACSQ 1002 (1239)
Q Consensus 931 ~vfllSGLs--~erkeL~k~IkqLGG~V~~d~s~fd~scTHLI~~k~~RT~KfL~AIA~GkWIVsp~WL~dSlk 1002 (1239)
+.|+++|.. ..+..|.++|..+||.+... ++..+||||+.......++..|+..|.|||+++||.+|++
T Consensus 2 ~~~~i~g~~~~~~~~~l~~~i~~~Gg~v~~~---~~~~~thvI~~~~~~~~~~~~~~~~~~~iV~~~Wi~~~~~ 72 (72)
T cd00027 2 LTFVITGDLPSEERDELKELIEKLGGKVTSS---VSKKTTHVIVGSDAGPKKLLKAIKLGIPIVTPEWLLDCLK 72 (72)
T ss_pred CEEEEEecCCCcCHHHHHHHHHHcCCEEecc---ccCCceEEEECCCCCchHHHHHHHcCCeEecHHHHHHHhC
Confidence 478899975 67889999999999999654 6679999999997766669999999999999999999974
No 13
>KOG1244 consensus Predicted transcription factor Requiem/NEURO-D4 [Transcription]
Probab=98.73 E-value=3.4e-09 Score=115.71 Aligned_cols=51 Identities=33% Similarity=0.892 Sum_probs=47.5
Q ss_pred cccccccCCCCCCCcEEEecCCCCCCccCCccccccCCCCCCCCCCCCccCcccCcC
Q 000879 1173 KITCQACGCSDRGEVMLICGDESGSVGCGVGMHIDCCDPPLESVPEEDWFCPTCTRS 1229 (1239)
Q Consensus 1173 ~~~C~vC~~~~~~~~lLlCd~~~g~~~C~~~yH~~Cl~PpL~~vP~gdW~Cp~C~~~ 1229 (1239)
..+|.+|+..++.+.||+|| .|+++||||||.|||.+.|+|.|-|.-|...
T Consensus 281 ck~csicgtsenddqllfcd------dcdrgyhmyclsppm~eppegswsc~KOG~~ 331 (336)
T KOG1244|consen 281 CKYCSICGTSENDDQLLFCD------DCDRGYHMYCLSPPMVEPPEGSWSCHLCLEE 331 (336)
T ss_pred cceeccccCcCCCceeEeec------ccCCceeeEecCCCcCCCCCCchhHHHHHHH
Confidence 45699999999999999999 8999999999999999999999999999754
No 14
>PF12738 PTCB-BRCT: twin BRCT domain; PDB: 3PA6_A 3KTF_C 2WT8_C 3EF1_A 3EF0_A.
Probab=98.70 E-value=1.5e-08 Score=89.06 Aligned_cols=62 Identities=23% Similarity=0.403 Sum_probs=51.4
Q ss_pred eEEEEecCh-HhHHHHHHHHHHhCCEEEecCCCccCcccEEEcCCCCCcHHHHHHHhcCCeEechhH
Q 000879 931 IWFILSGHR-LQRKEFQVVIRHLKGRLCRDSHQWSYQATHFIAPEIRRTEKFFAAAASGRWILKTDY 996 (1239)
Q Consensus 931 ~vfllSGLs-~erkeL~k~IkqLGG~V~~d~s~fd~scTHLI~~k~~RT~KfL~AIA~GkWIVsp~W 996 (1239)
++|++||+. .++..|.+++..+||.+..+ |+.++||||+... .+.||-.|...|.+||+++|
T Consensus 1 ~~i~~sg~~~~~~~~l~~~i~~~Gg~~~~~---lt~~~THLI~~~~-~~~K~~~A~~~gi~vV~~~W 63 (63)
T PF12738_consen 1 VVICFSGFSGKERSQLRKLIEALGGKYSKD---LTKKTTHLICSSP-EGKKYRKAKEWGIPVVSPDW 63 (63)
T ss_dssp -EEEEEEB-TTTCCHHHHHHHCTT-EEESS---SSTT-SEEEEES---HHHHHHHHHCTSEEEEHHH
T ss_pred CEEEECCCCHHHHHHHHHHHHHCCCEEecc---ccCCceEEEEeCC-CcHHHHHHHHCCCcEECCCC
Confidence 489999997 66889999999999999654 7889999999765 59999999999999999999
No 15
>PLN03122 Poly [ADP-ribose] polymerase; Provisional
Probab=98.63 E-value=1.2e-07 Score=118.82 Aligned_cols=87 Identities=23% Similarity=0.284 Sum_probs=78.5
Q ss_pred CCCCCccEEEecCCCCccHHHHHHHHHHhCCEecCCcccCcccEEEeccCC----c-hHHHHHHhcCCceeecchHHHHH
Q 000879 19 IHGANSLVMCLTGYQRQDREDIMTLVRLMGSQFSKPLVANKVTHLICYKFE----G-EKYELAKKIKSIKLVNHRWLEDC 93 (1239)
Q Consensus 19 Ip~f~G~vIs~SGf~g~eR~~L~~LI~~lGA~yt~~llsk~tTHLIc~~~~----G-~Ky~~Akkwg~IpIVn~dWLeDC 93 (1239)
-++|.|++|+|||-....|..++.+|+.+||+++.. + ..+||||++..+ | .|+++|++++ |+||+.+||++|
T Consensus 187 ~kpL~G~~fviTGtl~~sr~elK~~Ie~~GGkvsss-V-s~~T~lIvt~~ev~k~gsSKlkkAk~lg-IpIVsEd~L~d~ 263 (815)
T PLN03122 187 GKPFSGMMISLSGRLSRTHQYWKKDIEKHGGKVANS-V-EGVTCLVVSPAERERGGSSKIAEAMERG-IPVVREAWLIDS 263 (815)
T ss_pred CCCcCCcEEEEeCCCCCCHHHHHHHHHHcCCEEccc-c-ccceEEEEcCccccccCccHHHHHHHcC-CcCccHHHHHHH
Confidence 456999999999977779999999999999999998 6 677899988754 4 8999999997 999999999999
Q ss_pred HHhcCcCCCcccccC
Q 000879 94 LRVWELLPEVNYDKS 108 (1239)
Q Consensus 94 lr~~krLpE~~Y~~~ 108 (1239)
+..+..+++..|++.
T Consensus 264 i~~~k~~~~~~y~l~ 278 (815)
T PLN03122 264 IEKQEAQPLEAYDVV 278 (815)
T ss_pred HhcCCcccchhhhhc
Confidence 999999999999973
No 16
>PLN03123 poly [ADP-ribose] polymerase; Provisional
Probab=98.56 E-value=1.3e-07 Score=120.59 Aligned_cols=88 Identities=19% Similarity=0.308 Sum_probs=80.9
Q ss_pred CCCCCCccEEEecCCCCccHHHHHHHHHHhCCEecCCcccCcccEEEeccC---CchHHHHHHhcCCceeecchHHHHHH
Q 000879 18 GIHGANSLVMCLTGYQRQDREDIMTLVRLMGSQFSKPLVANKVTHLICYKF---EGEKYELAKKIKSIKLVNHRWLEDCL 94 (1239)
Q Consensus 18 pIp~f~G~vIs~SGf~g~eR~~L~~LI~~lGA~yt~~llsk~tTHLIc~~~---~G~Ky~~Akkwg~IpIVn~dWLeDCl 94 (1239)
..++|.|+.|+++|-++..+.+++.+|+.+||+|+.. ++..+||||+... .+.|+++|+..+ ||||+.+||+||+
T Consensus 390 ~~~~l~~~~i~i~G~~~~~~~~~k~~Ie~~GG~~s~~-v~~~~t~l~tt~e~~k~~~kv~qAk~~~-ipIVsedwL~ds~ 467 (981)
T PLN03123 390 ESEFLGDLKVSIVGASKEKVTEWKAKIEEAGGVFHAT-VKKDTNCLVVCGELDDEDAEMRKARRMK-IPIVREDYLVDCF 467 (981)
T ss_pred cCCCcCCeEEEEecCCCCcHHHHHHHHHhcCCEEeee-ccCCceEEEccHHhhhcchHHHHHHhcC-CCcccHHHHHHHH
Confidence 4688999999999987887899999999999999999 8999999999864 689999999997 9999999999999
Q ss_pred HhcCcCCCccccc
Q 000879 95 RVWELLPEVNYDK 107 (1239)
Q Consensus 95 r~~krLpE~~Y~~ 107 (1239)
....++|+..|.+
T Consensus 468 ~~~~~~p~~~y~~ 480 (981)
T PLN03123 468 KKKKKLPFDKYKL 480 (981)
T ss_pred hccccCcchhhhh
Confidence 9999999988865
No 17
>smart00292 BRCT breast cancer carboxy-terminal domain.
Probab=98.55 E-value=1.9e-07 Score=81.62 Aligned_cols=71 Identities=28% Similarity=0.441 Sum_probs=59.2
Q ss_pred eEEEEec-Ch-HhHHHHHHHHHHhCCEEEecCCCccC-cccEEEcCCCCCcH-HHHHHHhcCCeEechhHHHHHHhcC
Q 000879 931 IWFILSG-HR-LQRKEFQVVIRHLKGRLCRDSHQWSY-QATHFIAPEIRRTE-KFFAAAASGRWILKTDYLSACSQAG 1004 (1239)
Q Consensus 931 ~vfllSG-Ls-~erkeL~k~IkqLGG~V~~d~s~fd~-scTHLI~~k~~RT~-KfL~AIA~GkWIVsp~WL~dSlkaG 1004 (1239)
+.|+++| +. ..+..+.++|.++||.+... ++. ++||||+....... +++.|+..+.+||+++||.+|++.+
T Consensus 6 ~~~~~~g~~~~~~~~~l~~~i~~~Gg~~~~~---~~~~~~thvi~~~~~~~~~~~~~~~~~~~~iV~~~Wi~~~~~~~ 80 (80)
T smart00292 6 KVFVITGKFDKNERDELKELIEALGGKVTSS---LSSKTTTHVIVGSPEGGKLELLLAIALGIPIVTEDWLLDCLKAG 80 (80)
T ss_pred eEEEEeCCCCCccHHHHHHHHHHcCCEEecc---cCccceeEEEEcCCCCccHHHHHHHHcCCCCccHHHHHHHHHCc
Confidence 6788888 55 67789999999999999654 666 89999999844333 3899999999999999999999864
No 18
>KOG3226 consensus DNA repair protein [Replication, recombination and repair]
Probab=98.55 E-value=1.5e-07 Score=106.62 Aligned_cols=84 Identities=24% Similarity=0.413 Sum_probs=77.8
Q ss_pred CeEEEEecCh-HhHHHHHHHHHHhCCEEEecCCCccCcccEEEcCCCCCcHHHHHHHhcCCeEechhHHHHHHhcCCCCC
Q 000879 930 PIWFILSGHR-LQRKEFQVVIRHLKGRLCRDSHQWSYQATHFIAPEIRRTEKFFAAAASGRWILKTDYLSACSQAGKFLL 1008 (1239)
Q Consensus 930 ~~vfllSGLs-~erkeL~k~IkqLGG~V~~d~s~fd~scTHLI~~k~~RT~KfL~AIA~GkWIVsp~WL~dSlkaGrfLD 1008 (1239)
-+||+||||- ++|..|......||++|-.| |+..||||||.... |.||-...-.|.-||+-+||++|.+..+.||
T Consensus 320 GVV~VlSGfqNP~Rs~LRskAl~LGAkY~pD---W~~gsThLICAF~N-TPKy~QV~g~Gg~IV~keWI~~Cy~~kk~lp 395 (508)
T KOG3226|consen 320 GVVFVLSGFQNPERSTLRSKALTLGAKYQPD---WNAGSTHLICAFPN-TPKYRQVEGNGGTIVSKEWITECYAQKKLLP 395 (508)
T ss_pred ceEEEEecccCchHHHHHHHHHhhcccccCC---cCCCceeEEEecCC-CcchhhcccCCceEeeHHHHHHHHHHHhhcc
Confidence 3799999995 89999999999999999544 99999999999876 9999999999999999999999999999999
Q ss_pred CCcccccCC
Q 000879 1009 EEPYEWHKN 1017 (1239)
Q Consensus 1009 Ee~YEl~d~ 1017 (1239)
.+.|.+..+
T Consensus 396 ~rrYlm~~~ 404 (508)
T KOG3226|consen 396 IRRYLMHAG 404 (508)
T ss_pred HHHHHhcCC
Confidence 999999874
No 19
>KOG4299 consensus PHD Zn-finger protein [General function prediction only]
Probab=98.43 E-value=6.4e-08 Score=116.05 Aligned_cols=51 Identities=37% Similarity=0.942 Sum_probs=46.2
Q ss_pred cccccccCCCCCCCcEEEecCCCCCCccCCccccccCCCCC--CCCCCCCccCcccCcC
Q 000879 1173 KITCQACGCSDRGEVMLICGDESGSVGCGVGMHIDCCDPPL--ESVPEEDWFCPTCTRS 1229 (1239)
Q Consensus 1173 ~~~C~vC~~~~~~~~lLlCd~~~g~~~C~~~yH~~Cl~PpL--~~vP~gdW~Cp~C~~~ 1229 (1239)
.++|..|++.+.-..+|+|| +|++.||++||+||| +.+|.|.|||+.|...
T Consensus 253 ~~fCsaCn~~~~F~~~i~CD------~Cp~sFH~~CLePPl~~eniP~g~W~C~ec~~k 305 (613)
T KOG4299|consen 253 EDFCSACNGSGLFNDIICCD------GCPRSFHQTCLEPPLEPENIPPGSWFCPECKIK 305 (613)
T ss_pred HHHHHHhCCccccccceeec------CCchHHHHhhcCCCCCcccCCCCccccCCCeee
Confidence 56999999998777789999 899999999999994 6799999999999765
No 20
>PF00628 PHD: PHD-finger; InterPro: IPR019787 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 PHD (homeodomain) zinc finger domain [,], which is a C4HC3 zinc-finger-like motif found in nuclear proteins thought to be involved in chromatin-mediated transcriptional regulation. The PHD finger motif is reminiscent of, but distinct from the C3HC4 type RING finger. The function of this domain is not yet known but in analogy with the LIM domain it could be involved in protein-protein interaction and be important for the assembly or activity of multicomponent complexes involved in transcriptional activation or repression. Alternatively, the interactions could be intra-molecular and be important in maintaining the structural integrity of the protein. In similarity to the RING finger and the LIM domain, the PHD finger is thought to bind two zinc ions. More information about these proteins can be found at Protein of the Month: Zinc Fingers [].; GO: 0005515 protein binding; PDB: 3ZVY_A 2LGG_A 3SOW_A 3SOU_B 3ASL_A 3ASK_A 3ZVZ_B 3T6R_A 2LGK_A 3SOX_B ....
Probab=98.42 E-value=6.4e-08 Score=81.80 Aligned_cols=48 Identities=38% Similarity=1.023 Sum_probs=43.0
Q ss_pred cccccCCCCCCCcEEEecCCCCCCccCCccccccCCCCCC--CCCCCCccCcccCc
Q 000879 1175 TCQACGCSDRGEVMLICGDESGSVGCGVGMHIDCCDPPLE--SVPEEDWFCPTCTR 1228 (1239)
Q Consensus 1175 ~C~vC~~~~~~~~lLlCd~~~g~~~C~~~yH~~Cl~PpL~--~vP~gdW~Cp~C~~ 1228 (1239)
+|.+|+..++.+.||.|+ .|.+.||+.|+.|++. .++.+.|+|+.|..
T Consensus 1 ~C~vC~~~~~~~~~i~C~------~C~~~~H~~C~~~~~~~~~~~~~~w~C~~C~~ 50 (51)
T PF00628_consen 1 YCPVCGQSDDDGDMIQCD------SCNRWYHQECVGPPEKAEEIPSGDWYCPNCRP 50 (51)
T ss_dssp EBTTTTSSCTTSSEEEBS------TTSCEEETTTSTSSHSHHSHHSSSBSSHHHHH
T ss_pred eCcCCCCcCCCCCeEEcC------CCChhhCcccCCCChhhccCCCCcEECcCCcC
Confidence 589999988889999999 9999999999999987 55667999999964
No 21
>KOG1929 consensus Nucleotide excision repair factor NEF2, RAD4/CUT5 component [Replication, recombination and repair]
Probab=98.33 E-value=3.6e-07 Score=114.19 Aligned_cols=98 Identities=23% Similarity=0.320 Sum_probs=91.2
Q ss_pred ccccCCCCCCCCCCCCccEEEecCCCCccHHHHHHHHHHhCCEecCCcccCcccEEEeccCCchHHHHHHhcCCceeecc
Q 000879 8 IMYRPLKDLNGIHGANSLVMCLTGYQRQDREDIMTLVRLMGSQFSKPLVANKVTHLICYKFEGEKYELAKKIKSIKLVNH 87 (1239)
Q Consensus 8 ily~P~p~~~pIp~f~G~vIs~SGf~g~eR~~L~~LI~~lGA~yt~~llsk~tTHLIc~~~~G~Ky~~Akkwg~IpIVn~ 87 (1239)
.+++|+|...++++|++|.|+++.....+|.-|..++..+||..... |.+..|||||++..+.||..|.+|+ ||||++
T Consensus 480 ~~~~~vp~~~l~~~~e~~~~~~s~~~~~~~e~ln~~~~~~gas~~~~-f~r~~~~l~~~~~k~s~~~~~~kw~-ip~vT~ 557 (811)
T KOG1929|consen 480 DNLRPVPAAALSQPFENLTISNSQSAEAEREKLNNLANDLGASNVKT-FTRKSTTLLTTSAKGSKYEIAGKWS-IPIVTP 557 (811)
T ss_pred hhcCcchhhcccccccCceEEeeechHHHHHHHhHhhhhccccccce-eeecccEEeccccccchhhhccccC-CCccCh
Confidence 45568888788999999999999999999999999999999999999 5555599999999999999999998 999999
Q ss_pred hHHHHHHHhcCcCCCccccc
Q 000879 88 RWLEDCLRVWELLPEVNYDK 107 (1239)
Q Consensus 88 dWLeDClr~~krLpE~~Y~~ 107 (1239)
+||..|.+++..++..-|++
T Consensus 558 ~wL~e~~rq~~~~~~e~~l~ 577 (811)
T KOG1929|consen 558 DWLYECVRQNKGERNEGFLN 577 (811)
T ss_pred hHHHhhccccCcccceeecc
Confidence 99999999999999999998
No 22
>KOG1973 consensus Chromatin remodeling protein, contains PHD Zn-finger [Chromatin structure and dynamics]
Probab=98.17 E-value=8.5e-07 Score=99.75 Aligned_cols=55 Identities=25% Similarity=0.690 Sum_probs=44.6
Q ss_pred CCCCccccccccCCCCCCCcEEEecCCCCCCccC-CccccccCCCCCCCCCCCCccCcccCcCC
Q 000879 1168 DYDTDKITCQACGCSDRGEVMLICGDESGSVGCG-VGMHIDCCDPPLESVPEEDWFCPTCTRSR 1230 (1239)
Q Consensus 1168 ~~~~~~~~C~vC~~~~~~~~lLlCd~~~g~~~C~-~~yH~~Cl~PpL~~vP~gdW~Cp~C~~~r 1230 (1239)
.+.++..+| +|... ..+.|+-||+. .|+ ..||+.|+ .|...|.|.||||.|....
T Consensus 214 ~d~~e~~yC-~Cnqv-syg~Mi~CDn~----~C~~eWFH~~CV--GL~~~PkgkWyC~~C~~~~ 269 (274)
T KOG1973|consen 214 VDPDEPTYC-ICNQV-SYGKMIGCDNP----GCPIEWFHFTCV--GLKTKPKGKWYCPRCKAEN 269 (274)
T ss_pred cCCCCCEEE-Eeccc-ccccccccCCC----CCCcceEEEecc--ccccCCCCcccchhhhhhh
Confidence 345566788 67744 35579999954 899 78999999 9999999999999998764
No 23
>COG5034 TNG2 Chromatin remodeling protein, contains PhD zinc finger [Chromatin structure and dynamics]
Probab=98.14 E-value=1.2e-06 Score=95.88 Aligned_cols=51 Identities=27% Similarity=0.902 Sum_probs=44.4
Q ss_pred CCccccccccCCCCCCCcEEEecCCCCCCccCC-ccccccCCCCCCCCCCCCccCcccCc
Q 000879 1170 DTDKITCQACGCSDRGEVMLICGDESGSVGCGV-GMHIDCCDPPLESVPEEDWFCPTCTR 1228 (1239)
Q Consensus 1170 ~~~~~~C~vC~~~~~~~~lLlCd~~~g~~~C~~-~yH~~Cl~PpL~~vP~gdW~Cp~C~~ 1228 (1239)
.++..+| -|++...+ .|+-||+. .|.+ .||+.|+ .|...|+|.|||+.|..
T Consensus 218 e~e~lYC-fCqqvSyG-qMVaCDn~----nCkrEWFH~~CV--GLk~pPKG~WYC~eCk~ 269 (271)
T COG5034 218 EGEELYC-FCQQVSYG-QMVACDNA----NCKREWFHLECV--GLKEPPKGKWYCPECKK 269 (271)
T ss_pred cCceeEE-Eecccccc-cceecCCC----CCchhheecccc--ccCCCCCCcEeCHHhHh
Confidence 5677889 89998655 69999965 9997 5899999 99999999999999975
No 24
>smart00249 PHD PHD zinc finger. The plant homeodomain (PHD) finger is a C4HC3 zinc-finger-like motif found in nuclear proteins thought to be involved in epigenetics and chromatin-mediated transcriptional regulation. The PHD finger binds two zinc ions using the so-called 'cross-brace' motif and is thus structurally related to the KOG1512 consensus PHD Zn-finger protein [General function prediction only]
Probab=97.93 E-value=2.9e-06 Score=93.71 Aligned_cols=48 Identities=27% Similarity=0.664 Sum_probs=43.0
Q ss_pred cccccccCCCCCCCcEEEecCCCCCCccCCccccccCCCCCCCCCCCCccCc-ccCc
Q 000879 1173 KITCQACGCSDRGEVMLICGDESGSVGCGVGMHIDCCDPPLESVPEEDWFCP-TCTR 1228 (1239)
Q Consensus 1173 ~~~C~vC~~~~~~~~lLlCd~~~g~~~C~~~yH~~Cl~PpL~~vP~gdW~Cp-~C~~ 1228 (1239)
...|.+|++...++.|++|| .|+++||++|+ .|..+|.|.|.|. .|..
T Consensus 314 C~lC~IC~~P~~E~E~~FCD------~CDRG~HT~CV--GL~~lP~G~WICD~~C~~ 362 (381)
T KOG1512|consen 314 CELCRICLGPVIESEHLFCD------VCDRGPHTLCV--GLQDLPRGEWICDMRCRE 362 (381)
T ss_pred cHhhhccCCcccchheeccc------cccCCCCcccc--ccccccCccchhhhHHHH
Confidence 35589999999999999999 99999999999 9999999999998 3543
No 26
>KOG1245 consensus Chromatin remodeling complex WSTF-ISWI, large subunit (contains heterochromatin localization, PHD and BROMO domains) [Chromatin structure and dynamics]
Probab=97.86 E-value=2.5e-06 Score=112.48 Aligned_cols=55 Identities=36% Similarity=0.906 Sum_probs=50.8
Q ss_pred CccccccccCCCCCCCcEEEecCCCCCCccCCccccccCCCCCCCCCCCCccCcccCcCCC
Q 000879 1171 TDKITCQACGCSDRGEVMLICGDESGSVGCGVGMHIDCCDPPLESVPEEDWFCPTCTRSRI 1231 (1239)
Q Consensus 1171 ~~~~~C~vC~~~~~~~~lLlCd~~~g~~~C~~~yH~~Cl~PpL~~vP~gdW~Cp~C~~~r~ 1231 (1239)
.....|.+|......+.|++|+ .|..+||++|++|.|..+|.|+||||.|+..+.
T Consensus 1106 ~~~~~c~~cr~k~~~~~m~lc~------~c~~~~h~~C~rp~~~~~~~~dW~C~~c~~e~~ 1160 (1404)
T KOG1245|consen 1106 AVNALCKVCRRKKQDEKMLLCD------ECLSGFHLFCLRPALSSVPPGDWMCPSCRKEHR 1160 (1404)
T ss_pred cchhhhhhhhhcccchhhhhhH------hhhhhHHHHhhhhhhccCCcCCccCCccchhhh
Confidence 4456799999999889999999 999999999999999999999999999998763
No 27
>KOG4443 consensus Putative transcription factor HALR/MLL3, involved in embryonic development [General function prediction only]
Probab=97.59 E-value=2.6e-05 Score=94.51 Aligned_cols=51 Identities=39% Similarity=0.980 Sum_probs=47.2
Q ss_pred ccccccCCCCCCCcEEEecCCCCCCccCCccccccCCCCCCCCCCCCccCcccCcCC
Q 000879 1174 ITCQACGCSDRGEVMLICGDESGSVGCGVGMHIDCCDPPLESVPEEDWFCPTCTRSR 1230 (1239)
Q Consensus 1174 ~~C~vC~~~~~~~~lLlCd~~~g~~~C~~~yH~~Cl~PpL~~vP~gdW~Cp~C~~~r 1230 (1239)
..|+.|+..+++...++|+ .|+..||.||..|+++.||.|.|+|+.|..-+
T Consensus 69 rvCe~c~~~gD~~kf~~Ck------~cDvsyh~yc~~P~~~~v~sg~~~ckk~~~c~ 119 (694)
T KOG4443|consen 69 RVCEACGTTGDPKKFLLCK------RCDVSYHCYCQKPPNDKVPSGPWLCKKCTRCR 119 (694)
T ss_pred eeeeeccccCCcccccccc------cccccccccccCCccccccCcccccHHHHhhh
Confidence 4589999999999999999 99999999999999999999999999997554
No 28
>KOG0383 consensus Predicted helicase [General function prediction only]
Probab=97.56 E-value=2.7e-05 Score=96.60 Aligned_cols=53 Identities=28% Similarity=0.815 Sum_probs=46.5
Q ss_pred CCccccccccCCCCCCCcEEEecCCCCCCccCCccccccCCCCCCCCCCCCccCcccCcCCC
Q 000879 1170 DTDKITCQACGCSDRGEVMLICGDESGSVGCGVGMHIDCCDPPLESVPEEDWFCPTCTRSRI 1231 (1239)
Q Consensus 1170 ~~~~~~C~vC~~~~~~~~lLlCd~~~g~~~C~~~yH~~Cl~PpL~~vP~gdW~Cp~C~~~r~ 1231 (1239)
+.+...|.+|..++ .+|+|| .|+..||.+|++|||..+|.++|.|+.|.++..
T Consensus 44 ~~~~e~c~ic~~~g---~~l~c~------tC~~s~h~~cl~~pl~~~p~~~~~c~Rc~~p~~ 96 (696)
T KOG0383|consen 44 DAEQEACRICADGG---ELLWCD------TCPASFHASCLGPPLTPQPNGEFICPRCFCPKN 96 (696)
T ss_pred hhhhhhhhhhcCCC---cEEEec------cccHHHHHHccCCCCCcCCccceeeeeeccCCC
Confidence 55677899999886 788899 999999999999999999999999999955543
No 29
>KOG0323 consensus TFIIF-interacting CTD phosphatases, including NLI-interacting factor [Transcription]
Probab=97.56 E-value=3.4e-05 Score=94.83 Aligned_cols=87 Identities=24% Similarity=0.303 Sum_probs=80.0
Q ss_pred CCCccEEEecCCCC----ccHHHHHHHHHHhCCEecCCcccCcccEEEeccCCchHHHHHHhcCCceeecchHHHHHHHh
Q 000879 21 GANSLVMCLTGYQR----QDREDIMTLVRLMGSQFSKPLVANKVTHLICYKFEGEKYELAKKIKSIKLVNHRWLEDCLRV 96 (1239)
Q Consensus 21 ~f~G~vIs~SGf~g----~eR~~L~~LI~~lGA~yt~~llsk~tTHLIc~~~~G~Ky~~Akkwg~IpIVn~dWLeDClr~ 96 (1239)
-++||.+.|||+.. .++.++-.+...+|+...+. +...+||||+.++.+.|..+|...+.|.||+..|||.|+..
T Consensus 441 v~~~~~~vfSg~~P~~~~~~~s~~~~~~~~~g~vs~~~-~~~~~th~i~~~~gt~k~~~a~~~~~~~Vv~~~wl~~~~e~ 519 (635)
T KOG0323|consen 441 VLKGSQIVFSGLHPTGSTDESADILGVAQQLGAVSAPD-VSDKTTHLIAANAGTKKVYKAVVSGSAKVVNAAWLWRSLEK 519 (635)
T ss_pred HhhccceeecccccCcCCcchhhhhhhhhcccceeccc-ccchhhhHHhhccCcceeeccccccceeEechhHHHHHHHH
Confidence 45799999999654 56789999999999999988 99999999999999999999999988999999999999999
Q ss_pred cCcCCCcccccC
Q 000879 97 WELLPEVNYDKS 108 (1239)
Q Consensus 97 ~krLpE~~Y~~~ 108 (1239)
|..+++..|.+.
T Consensus 520 w~~v~ek~~~l~ 531 (635)
T KOG0323|consen 520 WGKVEEKLEPLD 531 (635)
T ss_pred hcchhccccccc
Confidence 999999999874
No 30
>PRK14350 ligA NAD-dependent DNA ligase LigA; Provisional
Probab=97.51 E-value=0.00018 Score=89.83 Aligned_cols=71 Identities=18% Similarity=0.250 Sum_probs=66.4
Q ss_pred CCCccEEEecC-CCCccHHHHHHHHHHhCCEecCCcccCcccEEEeccCCchHHHHHHhcCCceeecchHHHHH
Q 000879 21 GANSLVMCLTG-YQRQDREDIMTLVRLMGSQFSKPLVANKVTHLICYKFEGEKYELAKKIKSIKLVNHRWLEDC 93 (1239)
Q Consensus 21 ~f~G~vIs~SG-f~g~eR~~L~~LI~~lGA~yt~~llsk~tTHLIc~~~~G~Ky~~Akkwg~IpIVn~dWLeDC 93 (1239)
+|.|.+|+||| |.+..|..++.+|+.+||+++.. ++++|++|||....|.|+.+|.+.| |+|++-+.+++-
T Consensus 593 ~l~gktfV~TG~l~~~~R~e~~~lie~~Ggkv~ss-VSkktd~LV~G~~aGsKl~KA~~LG-I~Ii~e~~f~~~ 664 (669)
T PRK14350 593 FLFGKKFCITGSFNGYSRSVLIDKLTKKGAIFNTC-VTKYLDFLLVGEKAGLKLKKANNLG-IKIMSLFDIKSY 664 (669)
T ss_pred ccCCcEEEEecccCCCCHHHHHHHHHHcCCEEecc-ccCCCcEEEECCCCCchHHHHHHcC-CEEecHHHHHHH
Confidence 48999999999 66789999999999999999999 9999999999998899999999998 999999888763
No 31
>PRK06195 DNA polymerase III subunit epsilon; Validated
Probab=97.49 E-value=0.00033 Score=80.27 Aligned_cols=70 Identities=26% Similarity=0.331 Sum_probs=61.2
Q ss_pred CCCCCccEEEecCCC-CccHHHHHHHHHHhCCEecCCcccCcccEEEecc---------CCchHHHHHHhc-----CCce
Q 000879 19 IHGANSLVMCLTGYQ-RQDREDIMTLVRLMGSQFSKPLVANKVTHLICYK---------FEGEKYELAKKI-----KSIK 83 (1239)
Q Consensus 19 Ip~f~G~vIs~SGf~-g~eR~~L~~LI~~lGA~yt~~llsk~tTHLIc~~---------~~G~Ky~~Akkw-----g~Ip 83 (1239)
-++|.|.+|||||-. ...|.+++.+|..+||.++.. ++++|++||+.. ..|.|+++|+++ + |+
T Consensus 218 ~~~l~g~~~vfTG~l~~~~R~~~~~~~~~~Gg~v~~s-Vs~~t~~lV~G~~~~~~~~~~~~~~K~~kA~~l~~~g~~-i~ 295 (309)
T PRK06195 218 FTAFKEEVVVFTGGLASMTRDEAMILVRRLGGTVGSS-VTKKTTYLVTNTKDIEDLNREEMSNKLKKAIDLKKKGQN-IK 295 (309)
T ss_pred CccccCCEEEEccccCCCCHHHHHHHHHHhCCEecCC-cccCceEEEECCCcchhhcccCcChHHHHHHHHHhCCCC-cE
Confidence 456999999999954 689999999999999999999 999999999985 357899999987 5 99
Q ss_pred eecchHH
Q 000879 84 LVNHRWL 90 (1239)
Q Consensus 84 IVn~dWL 90 (1239)
|++-+=+
T Consensus 296 ii~E~~f 302 (309)
T PRK06195 296 FLNEEEF 302 (309)
T ss_pred EecHHHH
Confidence 9986433
No 32
>PRK06063 DNA polymerase III subunit epsilon; Provisional
Probab=97.44 E-value=0.00041 Score=79.81 Aligned_cols=71 Identities=11% Similarity=0.207 Sum_probs=63.6
Q ss_pred CCCCccEEEecCCCCccHHHHHHHHHHhCCEecCCcccCcccEEEeccCCc--hHHHHHHhcCCceeecchHHHH
Q 000879 20 HGANSLVMCLTGYQRQDREDIMTLVRLMGSQFSKPLVANKVTHLICYKFEG--EKYELAKKIKSIKLVNHRWLED 92 (1239)
Q Consensus 20 p~f~G~vIs~SGf~g~eR~~L~~LI~~lGA~yt~~llsk~tTHLIc~~~~G--~Ky~~Akkwg~IpIVn~dWLeD 92 (1239)
|-+.|.+|+|||-....|..++.+|..+||+++.. ++++|+.|||....| .|.++|+++| |+|++-+=+++
T Consensus 231 ~l~~g~~~v~TG~l~~~R~e~~~~~~~~G~~v~~s-Vs~~t~~lv~g~~~~~ssK~~kA~~~g-i~ii~e~~f~~ 303 (313)
T PRK06063 231 PLVQGMRVALSAEVSRTHEELVERILHAGLAYSDS-VDRDTSLVVCNDPAPEQGKGYHARQLG-VPVLDEAAFLE 303 (313)
T ss_pred cccCCCEEEEecCCCCCHHHHHHHHHHcCCEecCc-cccCccEEEECCCCCcccHHHHHHHcC-CccccHHHHHH
Confidence 44789999999965689999999999999999999 999999999998877 7999999997 99999765544
No 33
>KOG0955 consensus PHD finger protein BR140/LIN-49 [General function prediction only]
Probab=97.43 E-value=8.2e-05 Score=95.60 Aligned_cols=56 Identities=27% Similarity=0.782 Sum_probs=48.2
Q ss_pred CCccccccccCCCCCC--CcEEEecCCCCCCccCCccccccCCCCCCCCCCCCccCcccCcCCCCC
Q 000879 1170 DTDKITCQACGCSDRG--EVMLICGDESGSVGCGVGMHIDCCDPPLESVPEEDWFCPTCTRSRINP 1233 (1239)
Q Consensus 1170 ~~~~~~C~vC~~~~~~--~~lLlCd~~~g~~~C~~~yH~~Cl~PpL~~vP~gdW~Cp~C~~~r~~~ 1233 (1239)
.+.+.+|.+|...+.. +.+|+|| +|+.++|++|+. ..-+|+|.|+|..|..+...+
T Consensus 216 ~~~D~~C~iC~~~~~~n~n~ivfCD------~Cnl~VHq~Cyg--i~~ipeg~WlCr~Cl~s~~~~ 273 (1051)
T KOG0955|consen 216 LEEDAVCCICLDGECQNSNVIVFCD------GCNLAVHQECYG--IPFIPEGQWLCRRCLQSPQRP 273 (1051)
T ss_pred cCCCccceeecccccCCCceEEEcC------CCcchhhhhccC--CCCCCCCcEeehhhccCcCcc
Confidence 4556789999998755 8999999 999999999995 567999999999999886544
No 34
>PRK07956 ligA NAD-dependent DNA ligase LigA; Validated
Probab=97.35 E-value=0.00048 Score=86.33 Aligned_cols=73 Identities=18% Similarity=0.263 Sum_probs=67.4
Q ss_pred CCCccEEEecCCCC-ccHHHHHHHHHHhCCEecCCcccCcccEEEeccCCchHHHHHHhcCCceeecchHHHHHHH
Q 000879 21 GANSLVMCLTGYQR-QDREDIMTLVRLMGSQFSKPLVANKVTHLICYKFEGEKYELAKKIKSIKLVNHRWLEDCLR 95 (1239)
Q Consensus 21 ~f~G~vIs~SGf~g-~eR~~L~~LI~~lGA~yt~~llsk~tTHLIc~~~~G~Ky~~Akkwg~IpIVn~dWLeDClr 95 (1239)
+|.|.+|||||... ..|..++.+|..+||.++.. ++++|+.|||....|.|+++|.+.| |+|++-+.+++.+.
T Consensus 590 ~~~g~~~v~TG~l~~~~R~e~~~~i~~~G~~v~~s-Vs~kt~~lv~G~~~gsK~~kA~~lg-I~ii~E~~f~~~l~ 663 (665)
T PRK07956 590 DLAGKTVVLTGTLEQLSRDEAKEKLEALGAKVSGS-VSKKTDLVVAGEAAGSKLAKAQELG-IEVLDEEEFLRLLG 663 (665)
T ss_pred CccccEEEEeCCCCCCCHHHHHHHHHHcCCEEeCc-ccCCCCEEEECCCCChHHHHHHHcC-CeEEcHHHHHHHHh
Confidence 38999999999765 69999999999999999999 9999999999998899999999997 99999988887664
No 35
>KOG3524 consensus Predicted guanine nucleotide exchange factor (PEBBLE) [Signal transduction mechanisms]
Probab=97.34 E-value=0.00028 Score=86.07 Aligned_cols=184 Identities=16% Similarity=0.228 Sum_probs=125.6
Q ss_pred eEEEEecChHhHHHHHHHHHHhCCEEEecCCCccCcccEEEcCCCCCcHHHHHHHhcCCeEechhHHHHHHhcCCCCCCC
Q 000879 931 IWFILSGHRLQRKEFQVVIRHLKGRLCRDSHQWSYQATHFIAPEIRRTEKFFAAAASGRWILKTDYLSACSQAGKFLLEE 1010 (1239)
Q Consensus 931 ~vfllSGLs~erkeL~k~IkqLGG~V~~d~s~fd~scTHLI~~k~~RT~KfL~AIA~GkWIVsp~WL~dSlkaGrfLDEe 1010 (1239)
++.+|||+-.....|..++..+||.|..+ +...+||||+.... ..||-.|+.. ..++.+.||.+|++...|++
T Consensus 122 vvlcfTg~rkk~e~lv~lvh~mgg~irkd---~nsktthli~n~s~-gek~~~a~t~-~~~~rp~wv~~aw~~rn~~y-- 194 (850)
T KOG3524|consen 122 VVMCFTGERKKKEELVDLVHYMGGSIRKD---TNSKTTHLIANKVE-GEKQSIALVG-VPTMRPDWVTEAWKHRNDSY-- 194 (850)
T ss_pred ceeeeeccchhhHHHHHHHHHhcceeEee---eccCceEEEeeccc-ceEEEEEeec-cceechHhhhhhhcCcchhh--
Confidence 68899998644448999999999999776 56799999999865 5688888877 99999999999999888875
Q ss_pred cccccCCCCCcccccccchhhHHHHHHHhcCCCCCCCceEEEecCCCCCCHHHHHHHHHhCCcEEeccCCCccccccCCC
Q 000879 1011 PYEWHKNGLSEDGAINLEAPRKWRLLRERTGHGAFHGMRIIVYGDCIAPPLDTLKRVVKAGDGNILATSPPYTRFLNSGV 1090 (1239)
Q Consensus 1011 ~YEl~d~~~e~d~~~~~~aprRwRl~~~~~~~kLFsG~~f~L~~~~v~p~~~~LkrLIeaGGGkVv~~~Pp~~~~l~s~~ 1090 (1239)
|-|..+.+.. .. .-+.|.|..|+|. .|-.--.+.|.+.++.-||.... .++ ..
T Consensus 195 -fda~~~~f~d----------~h-------rl~~feg~~~~f~-gF~~ee~~~m~~sle~~gg~~a~-~d~-------~c 247 (850)
T KOG3524|consen 195 -FDAMEPCFVD----------KH-------RLGVFEGLSLFFH-GFKQEEIDDMLRSLENTGGKLAP-SDT-------LC 247 (850)
T ss_pred -hhhhccchhh----------hh-------ccccccCCeEeec-CCcHHHHHHHHHHHHhcCCcccC-CCC-------Cc
Confidence 4444332211 11 2488999999997 45334567888889999998877 333 24
Q ss_pred ccccccCCCCchhhHHHHHHhcCcceeeecceeeeeeccCCccccccccccchhhhhhhhh
Q 000879 1091 DFAVVSPGMPRVDLWVQEFLKHEIPCVVADYLVEFVCKPGYSLERHVQYNTHAWAEKSLSN 1151 (1239)
Q Consensus 1091 d~iIVs~~~~~~d~wlqeL~k~GIpC~s~EYIldyIck~gc~LerHvlyntcPlc~~sf~~ 1151 (1239)
.|+++..+.+.+. ..-.....-++..+|.--+|...-|-+|--.+|...++-++....
T Consensus 248 thvvv~e~~~~~~---p~~~s~~~~~vk~ewfw~siq~g~~a~e~~yl~~~~~~~~~p~~~ 305 (850)
T KOG3524|consen 248 THVVVNEDNDEVE---PLAVSSNQVHVKKEWFWVSIQRGCCAIEDNYLLPTGKLHRKPLES 305 (850)
T ss_pred eeEeecCCccccc---cccccccceeecccceEEEEecchhccccceeccccceecccccc
Confidence 5666644432111 111123334556677766666654557777777766665554443
No 36
>KOG0957 consensus PHD finger protein [General function prediction only]
Probab=97.31 E-value=6.8e-05 Score=88.09 Aligned_cols=50 Identities=28% Similarity=0.834 Sum_probs=45.7
Q ss_pred CccccccccCCCCCCCcEEEecCCCCCCccCCccccccCCCCCCCCCCC----CccCccc
Q 000879 1171 TDKITCQACGCSDRGEVMLICGDESGSVGCGVGMHIDCCDPPLESVPEE----DWFCPTC 1226 (1239)
Q Consensus 1171 ~~~~~C~vC~~~~~~~~lLlCd~~~g~~~C~~~yH~~Cl~PpL~~vP~g----dW~Cp~C 1226 (1239)
.....|.+|++..+...++.|| .|..-||+.||+|||+.+|.- -|.|..|
T Consensus 542 a~~ysCgiCkks~dQHll~~CD------tC~lhYHlGCL~PPLTR~Pkk~kn~gWqCsEC 595 (707)
T KOG0957|consen 542 AMNYSCGICKKSTDQHLLTQCD------TCHLHYHLGCLSPPLTRLPKKNKNFGWQCSEC 595 (707)
T ss_pred ccceeeeeeccchhhHHHhhcc------hhhceeeccccCCccccCcccccCcceeeccc
Confidence 3456799999999999999999 999999999999999999964 4999999
No 37
>PRK14351 ligA NAD-dependent DNA ligase LigA; Provisional
Probab=97.28 E-value=0.00068 Score=85.21 Aligned_cols=75 Identities=19% Similarity=0.233 Sum_probs=67.8
Q ss_pred CCCCccEEEecCCC-CccHHHHHHHHHHhCCEecCCcccCcccEEEeccCCc-hHHHHHHhcCCceeecchHHHHHHHh
Q 000879 20 HGANSLVMCLTGYQ-RQDREDIMTLVRLMGSQFSKPLVANKVTHLICYKFEG-EKYELAKKIKSIKLVNHRWLEDCLRV 96 (1239)
Q Consensus 20 p~f~G~vIs~SGf~-g~eR~~L~~LI~~lGA~yt~~llsk~tTHLIc~~~~G-~Ky~~Akkwg~IpIVn~dWLeDClr~ 96 (1239)
.+|.|.+|||||.. ...|.+++.+|..+||+++.. ++++|++||+....| .|+++|.+.| |+|++-+.|++=+..
T Consensus 608 ~~l~g~~~v~TG~l~~~~R~~~~~~i~~~Gg~v~~s-Vs~kt~~Lv~G~~~g~sKl~kA~~lg-i~ii~E~~f~~ll~~ 684 (689)
T PRK14351 608 DALDGLTFVFTGSLSGYTRSEAQELVEAHGGNATGS-VSGNTDYLVVGENPGQSKRDDAEAND-VPTLDEEEFEELLAE 684 (689)
T ss_pred CCCCCcEEEEccCCCCCCHHHHHHHHHHcCCEEcCC-cCCCccEEEEcCCCChhHHHHHHHCC-CeEecHHHHHHHHHh
Confidence 35999999999966 469999999999999999999 999999999998878 7999999998 999999888776554
No 38
>COG0272 Lig NAD-dependent DNA ligase (contains BRCT domain type II) [DNA replication, recombination, and repair]
Probab=97.22 E-value=0.00067 Score=83.77 Aligned_cols=71 Identities=18% Similarity=0.317 Sum_probs=67.1
Q ss_pred CCCCccEEEecC-CCCccHHHHHHHHHHhCCEecCCcccCcccEEEeccCCchHHHHHHhcCCceeecchHHHH
Q 000879 20 HGANSLVMCLTG-YQRQDREDIMTLVRLMGSQFSKPLVANKVTHLICYKFEGEKYELAKKIKSIKLVNHRWLED 92 (1239)
Q Consensus 20 p~f~G~vIs~SG-f~g~eR~~L~~LI~~lGA~yt~~llsk~tTHLIc~~~~G~Ky~~Akkwg~IpIVn~dWLeD 92 (1239)
.+|.|.+|+||| +.+..|..++.+++.+||+++.+ ++++|..||+...-|.|+.+|++.| |+|.+-+|+..
T Consensus 593 ~~l~gkt~V~TGtL~~~sR~eak~~le~lGakv~~S-VSkktD~vvaG~~aGSKl~kA~eLg-v~i~~E~~~~~ 664 (667)
T COG0272 593 SPLAGKTFVLTGTLEGMSRDEAKALLEALGAKVSGS-VSKKTDYVVAGENAGSKLAKAQELG-VKIIDEEEFLA 664 (667)
T ss_pred cccCCCEEEEeccCCCCCHHHHHHHHHHcCCEEece-ecccccEEEEcCCCChHHHHHHHcC-CeEecHHHHHH
Confidence 679999999999 67799999999999999999999 9999999999999999999999998 99999988764
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=97.21 E-value=0.00057 Score=85.55 Aligned_cols=67 Identities=21% Similarity=0.311 Sum_probs=61.7
Q ss_pred CCCccEEEecCCC-CccHHHHHHHHHHhCCEecCCcccCcccEEEeccCCchHHHHHHhcCCceeecchH
Q 000879 21 GANSLVMCLTGYQ-RQDREDIMTLVRLMGSQFSKPLVANKVTHLICYKFEGEKYELAKKIKSIKLVNHRW 89 (1239)
Q Consensus 21 ~f~G~vIs~SGf~-g~eR~~L~~LI~~lGA~yt~~llsk~tTHLIc~~~~G~Ky~~Akkwg~IpIVn~dW 89 (1239)
+|.|.+|||||.. ...|..++.+|+.+||+++.. ++++|++|||....|.|+++|.+.+ |+|++-+.
T Consensus 584 ~l~gk~~v~TG~l~~~~R~~~~~~i~~~G~~v~~s-Vs~kt~~lv~G~~~gsKl~kA~~lg-i~ii~E~~ 651 (652)
T TIGR00575 584 PLAGKTFVLTGTLSQMSRDEAKELLENLGGKVASS-VSKKTDYVIAGEKAGSKLAKAQELG-IPIINEEE 651 (652)
T ss_pred CccCcEEEEeccCCCCCHHHHHHHHHHcCCEEeCC-cCCCccEEEECCCCChHHHHHHHcC-CcEechhh
Confidence 4899999999965 579999999999999999999 9999999999998889999999997 99998653
No 40
>KOG3524 consensus Predicted guanine nucleotide exchange factor (PEBBLE) [Signal transduction mechanisms]
Probab=97.19 E-value=0.00016 Score=88.18 Aligned_cols=72 Identities=31% Similarity=0.558 Sum_probs=66.3
Q ss_pred CCCCccEEEecCCCCccHHHHHHHHHHhCCEecCCcccCcccEEEeccCCchHHHHHHhcCCceeecchHHHHHHH
Q 000879 20 HGANSLVMCLTGYQRQDREDIMTLVRLMGSQFSKPLVANKVTHLICYKFEGEKYELAKKIKSIKLVNHRWLEDCLR 95 (1239)
Q Consensus 20 p~f~G~vIs~SGf~g~eR~~L~~LI~~lGA~yt~~llsk~tTHLIc~~~~G~Ky~~Akkwg~IpIVn~dWLeDClr 95 (1239)
-.|.++++||||+....+ .+..++..|||.+... +...+|||||....|+||..|+-. .+++.++||..|+.
T Consensus 117 ~~m~~vvlcfTg~rkk~e-~lv~lvh~mgg~irkd-~nsktthli~n~s~gek~~~a~t~--~~~~rp~wv~~aw~ 188 (850)
T KOG3524|consen 117 ELMKDVVMCFTGERKKKE-ELVDLVHYMGGSIRKD-TNSKTTHLIANKVEGEKQSIALVG--VPTMRPDWVTEAWK 188 (850)
T ss_pred hhhcCceeeeeccchhhH-HHHHHHHHhcceeEee-eccCceEEEeecccceEEEEEeec--cceechHhhhhhhc
Confidence 348999999999999887 9999999999999988 889999999999999999999886 79999999988765
No 41
>KOG0956 consensus PHD finger protein AF10 [General function prediction only]
Probab=97.03 E-value=0.00026 Score=86.02 Aligned_cols=49 Identities=27% Similarity=0.735 Sum_probs=41.6
Q ss_pred ccccccCCCC--CCCcEEEecCCCCCCccCCccccccCCCCCCCCCCCCccCcccCc
Q 000879 1174 ITCQACGCSD--RGEVMLICGDESGSVGCGVGMHIDCCDPPLESVPEEDWFCPTCTR 1228 (1239)
Q Consensus 1174 ~~C~vC~~~~--~~~~lLlCd~~~g~~~C~~~yH~~Cl~PpL~~vP~gdW~Cp~C~~ 1228 (1239)
.-|-||.... .++.|++||+ ..|..+.|..|+ .+-.||.|.|||..|-.
T Consensus 6 GGCCVCSDErGWaeNPLVYCDG----~nCsVAVHQaCY--GIvqVPtGpWfCrKCes 56 (900)
T KOG0956|consen 6 GGCCVCSDERGWAENPLVYCDG----HNCSVAVHQACY--GIVQVPTGPWFCRKCES 56 (900)
T ss_pred cceeeecCcCCCccCceeeecC----CCceeeeehhcc--eeEecCCCchhhhhhhh
Confidence 4587997654 3478999995 599999999999 88999999999999954
No 42
>KOG0954 consensus PHD finger protein [General function prediction only]
Probab=96.93 E-value=0.00043 Score=84.80 Aligned_cols=51 Identities=29% Similarity=0.863 Sum_probs=45.5
Q ss_pred CccccccccCCCC--CCCcEEEecCCCCCCccCCccccccCCCCCCCCCCCCccCcccCcC
Q 000879 1171 TDKITCQACGCSD--RGEVMLICGDESGSVGCGVGMHIDCCDPPLESVPEEDWFCPTCTRS 1229 (1239)
Q Consensus 1171 ~~~~~C~vC~~~~--~~~~lLlCd~~~g~~~C~~~yH~~Cl~PpL~~vP~gdW~Cp~C~~~ 1229 (1239)
+++..|.||..++ ..+.|++|| .|+...|+.|+ .|.++|+|.|.|..|.-.
T Consensus 269 dedviCDvCrspD~e~~neMVfCd------~Cn~cVHqaCy--GIle~p~gpWlCr~Calg 321 (893)
T KOG0954|consen 269 DEDVICDVCRSPDSEEANEMVFCD------KCNICVHQACY--GILEVPEGPWLCRTCALG 321 (893)
T ss_pred cccceeceecCCCccccceeEEec------cchhHHHHhhh--ceeecCCCCeeehhcccc
Confidence 3678899999885 567999999 99999999999 899999999999999654
No 43
>PLN03122 Poly [ADP-ribose] polymerase; Provisional
Probab=96.74 E-value=0.0026 Score=80.97 Aligned_cols=81 Identities=16% Similarity=0.208 Sum_probs=69.4
Q ss_pred eEEEEecC-hHhHHHHHHHHHHhCCEEEecCCCccCcccEEEcCCCC--C--cHHHHHHHhcCCeEechhHHHHHHhcCC
Q 000879 931 IWFILSGH-RLQRKEFQVVIRHLKGRLCRDSHQWSYQATHFIAPEIR--R--TEKFFAAAASGRWILKTDYLSACSQAGK 1005 (1239)
Q Consensus 931 ~vfllSGL-s~erkeL~k~IkqLGG~V~~d~s~fd~scTHLI~~k~~--R--T~KfL~AIA~GkWIVsp~WL~dSlkaGr 1005 (1239)
..|+|||. +..+.++.++|..+||.+...+ ..+||||+..-. + +-|+=.|...|..||+.+||.+|+..+.
T Consensus 193 ~~fviTGtl~~sr~elK~~Ie~~GGkvsssV----s~~T~lIvt~~ev~k~gsSKlkkAk~lgIpIVsEd~L~d~i~~~k 268 (815)
T PLN03122 193 MMISLSGRLSRTHQYWKKDIEKHGGKVANSV----EGVTCLVVSPAERERGGSSKIAEAMERGIPVVREAWLIDSIEKQE 268 (815)
T ss_pred cEEEEeCCCCCCHHHHHHHHHHcCCEEcccc----ccceEEEEcCccccccCccHHHHHHHcCCcCccHHHHHHHHhcCC
Confidence 68999995 4567899999999999996543 579999987733 3 3689999999999999999999999999
Q ss_pred CCCCCccccc
Q 000879 1006 FLLEEPYEWH 1015 (1239)
Q Consensus 1006 fLDEe~YEl~ 1015 (1239)
.+++..|.+.
T Consensus 269 ~~~~~~y~l~ 278 (815)
T PLN03122 269 AQPLEAYDVV 278 (815)
T ss_pred cccchhhhhc
Confidence 9999999984
No 44
>KOG4323 consensus Polycomb-like PHD Zn-finger protein [General function prediction only]
Probab=96.60 E-value=0.00085 Score=80.01 Aligned_cols=53 Identities=32% Similarity=0.843 Sum_probs=42.1
Q ss_pred ccccccCCCC--CCCcEEEecCCCCCCccCCccccccCCCCCCCC----CCCCccCcccCcCCCC
Q 000879 1174 ITCQACGCSD--RGEVMLICGDESGSVGCGVGMHIDCCDPPLESV----PEEDWFCPTCTRSRIN 1232 (1239)
Q Consensus 1174 ~~C~vC~~~~--~~~~lLlCd~~~g~~~C~~~yH~~Cl~PpL~~v----P~gdW~Cp~C~~~r~~ 1232 (1239)
..|.+|.+++ ..+.||.|+ +|...||..|..|+.+.. |.+.|||..|......
T Consensus 169 ~qc~vC~~g~~~~~NrmlqC~------~C~~~fHq~Chqp~i~~~l~~D~~~~w~C~~C~~~~~~ 227 (464)
T KOG4323|consen 169 LQCSVCYCGGPGAGNRMLQCD------KCRQWYHQACHQPLIKDELAGDPFYEWFCDVCNRGPKK 227 (464)
T ss_pred ceeeeeecCCcCccceeeeec------ccccHHHHHhccCCCCHhhccCccceEeehhhccchhh
Confidence 3477877654 567999999 999999999999996543 5667999999876543
No 45
>COG5141 PHD zinc finger-containing protein [General function prediction only]
Probab=96.59 E-value=0.0011 Score=78.43 Aligned_cols=56 Identities=23% Similarity=0.695 Sum_probs=46.7
Q ss_pred CCCCCccccccccCCCCC--CCcEEEecCCCCCCccCCccccccCCCCCCCCCCCCccCcccCcCC
Q 000879 1167 NDYDTDKITCQACGCSDR--GEVMLICGDESGSVGCGVGMHIDCCDPPLESVPEEDWFCPTCTRSR 1230 (1239)
Q Consensus 1167 e~~~~~~~~C~vC~~~~~--~~~lLlCd~~~g~~~C~~~yH~~Cl~PpL~~vP~gdW~Cp~C~~~r 1230 (1239)
+.++.-+..|.+|...+. .+.+++|| +|+-+.|..|. ++.-+|+|.|+|..|.-..
T Consensus 187 ~~~d~~d~~C~~c~~t~~eN~naiVfCd------gC~i~VHq~CY--GI~f~peG~WlCrkCi~~~ 244 (669)
T COG5141 187 EPSDEFDDICTKCTSTHNENSNAIVFCD------GCEICVHQSCY--GIQFLPEGFWLCRKCIYGE 244 (669)
T ss_pred CCchhhhhhhHhccccccCCcceEEEec------Ccchhhhhhcc--cceecCcchhhhhhhcccc
Confidence 334456788999998864 47899999 99999999999 7778999999999997654
No 46
>PLN03123 poly [ADP-ribose] polymerase; Provisional
Probab=96.59 E-value=0.0036 Score=81.23 Aligned_cols=83 Identities=16% Similarity=0.176 Sum_probs=69.8
Q ss_pred CeEEEEecC-hHhHHHHHHHHHHhCCEEEecCCCccCcccEEEcCC--CCCcHHHHHHHhcCCeEechhHHHHHHhcCCC
Q 000879 930 PIWFILSGH-RLQRKEFQVVIRHLKGRLCRDSHQWSYQATHFIAPE--IRRTEKFFAAAASGRWILKTDYLSACSQAGKF 1006 (1239)
Q Consensus 930 ~~vfllSGL-s~erkeL~k~IkqLGG~V~~d~s~fd~scTHLI~~k--~~RT~KfL~AIA~GkWIVsp~WL~dSlkaGrf 1006 (1239)
.++|.++|- +....++.+.|..+||.+... .+..|||||+.. -++..|+-.|...|..||+.+||.+|...+..
T Consensus 396 ~~~i~i~G~~~~~~~~~k~~Ie~~GG~~s~~---v~~~~t~l~tt~e~~k~~~kv~qAk~~~ipIVsedwL~ds~~~~~~ 472 (981)
T PLN03123 396 DLKVSIVGASKEKVTEWKAKIEEAGGVFHAT---VKKDTNCLVVCGELDDEDAEMRKARRMKIPIVREDYLVDCFKKKKK 472 (981)
T ss_pred CeEEEEecCCCCcHHHHHHHHHhcCCEEeee---ccCCceEEEccHHhhhcchHHHHHHhcCCCcccHHHHHHHHhcccc
Confidence 478999994 455678999999999999654 567899999887 45667888999999999999999999999888
Q ss_pred CCCCccccc
Q 000879 1007 LLEEPYEWH 1015 (1239)
Q Consensus 1007 LDEe~YEl~ 1015 (1239)
+++..|-+.
T Consensus 473 ~p~~~y~~~ 481 (981)
T PLN03123 473 LPFDKYKLE 481 (981)
T ss_pred Ccchhhhhc
Confidence 888888664
No 47
>KOG0966 consensus ATP-dependent DNA ligase IV [Replication, recombination and repair]
Probab=96.20 E-value=0.0089 Score=74.65 Aligned_cols=86 Identities=22% Similarity=0.278 Sum_probs=67.6
Q ss_pred CCCccEEE-ecCCCCcc-HHHHHHHHHHhCCEecCCcccCcccEEEec--cCCchHHHHHHhcCCceeecchHHHHHHHh
Q 000879 21 GANSLVMC-LTGYQRQD-REDIMTLVRLMGSQFSKPLVANKVTHLICY--KFEGEKYELAKKIKSIKLVNHRWLEDCLRV 96 (1239)
Q Consensus 21 ~f~G~vIs-~SGf~g~e-R~~L~~LI~~lGA~yt~~llsk~tTHLIc~--~~~G~Ky~~Akkwg~IpIVn~dWLeDClr~ 96 (1239)
.|.|+.+| ++|+.... ++.++++|..+||.+... +.+..||.||. .....+-.+|.+.. +-||++.||+||...
T Consensus 633 if~gl~f~Vlsgt~~~~tk~~le~~ivenGG~iv~n-v~p~~~~ci~~a~~et~~vk~~~~~~~-cdVl~p~Wlldcc~~ 710 (881)
T KOG0966|consen 633 IFDGLEFCVLSGTSETHTKAKLEEIIVENGGKIVQN-VGPSDTLCIATAGKETTRVKAQAIKRS-CDVLKPAWLLDCCKK 710 (881)
T ss_pred hhcCeeEEEecCCcccccHHHHHHHHHHcCCEEEEc-CCCCCcceEEeccccchHHHHHHHhcc-CceeeHHHHHHHHhh
Confidence 46788776 46787755 799999999999999988 78889999973 33444444444444 889999999999999
Q ss_pred cCcCCCcccccC
Q 000879 97 WELLPEVNYDKS 108 (1239)
Q Consensus 97 ~krLpE~~Y~~~ 108 (1239)
.+.+|..+|.++
T Consensus 711 ~~l~p~~P~~~f 722 (881)
T KOG0966|consen 711 QRLLPWLPRDLF 722 (881)
T ss_pred hhccccccHHHH
Confidence 999997776654
No 48
>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=96.15 E-value=0.0064 Score=78.25 Aligned_cols=79 Identities=19% Similarity=0.262 Sum_probs=67.9
Q ss_pred cEEEecCCCCccHHHHHHHHHHhCCEecCCcccCcccEEEeccC-CchHHHHHHhcCCceeecchHHHHHHHhcCcCCCc
Q 000879 25 LVMCLTGYQRQDREDIMTLVRLMGSQFSKPLVANKVTHLICYKF-EGEKYELAKKIKSIKLVNHRWLEDCLRVWELLPEV 103 (1239)
Q Consensus 25 ~vIs~SGf~g~eR~~L~~LI~~lGA~yt~~llsk~tTHLIc~~~-~G~Ky~~Akkwg~IpIVn~dWLeDClr~~krLpE~ 103 (1239)
+.+.|++|.. ...+...+..+|+.+... ....||+|+... .+.|+-.|...| ++||+.+||.+|++.+..+++.
T Consensus 660 ~~~lfs~~~~--~~~~k~~~k~lg~s~~ss--~~e~Th~i~~rirRT~k~Leai~~G-~~ivT~~wL~s~~k~g~~~dek 734 (896)
T KOG2043|consen 660 IEVLFSDKND--GKNYKLAKKFLGGSVASS--DSEATHFIADRIRRTLKFLEAISSG-KPLVTPQWLVSSLKSGEKLDEK 734 (896)
T ss_pred eeeeeeeccC--chhhhhHHhhccceeecc--cccceeeeehhhhccHHHHhhhccC-CcccchHHHHHHhhccccccCc
Confidence 4566777644 456888899999888865 678999999865 899999999998 8999999999999999999999
Q ss_pred ccccC
Q 000879 104 NYDKS 108 (1239)
Q Consensus 104 ~Y~~~ 108 (1239)
.|.+.
T Consensus 735 ~yil~ 739 (896)
T KOG2043|consen 735 PYILH 739 (896)
T ss_pred ccccc
Confidence 99984
No 49
>KOG0966 consensus ATP-dependent DNA ligase IV [Replication, recombination and repair]
Probab=96.12 E-value=0.036 Score=69.52 Aligned_cols=81 Identities=20% Similarity=0.249 Sum_probs=63.3
Q ss_pred eEEEEecCh--HhHHHHHHHHHHhCCEEEecCCCccCcccEEEc-CCCCCcHHHHHHHhcCCeEechhHHHHHHhcCCCC
Q 000879 931 IWFILSGHR--LQRKEFQVVIRHLKGRLCRDSHQWSYQATHFIA-PEIRRTEKFFAAAASGRWILKTDYLSACSQAGKFL 1007 (1239)
Q Consensus 931 ~vfllSGLs--~erkeL~k~IkqLGG~V~~d~s~fd~scTHLI~-~k~~RT~KfL~AIA~GkWIVsp~WL~dSlkaGrfL 1007 (1239)
-+.+|+|.. +.+..|+++|...||.++..+ .+..||.|+ ....-|..--.+|++++=||+|.||.+|....+++
T Consensus 638 ~f~Vlsgt~~~~tk~~le~~ivenGG~iv~nv---~p~~~~ci~~a~~et~~vk~~~~~~~cdVl~p~Wlldcc~~~~l~ 714 (881)
T KOG0966|consen 638 EFCVLSGTSETHTKAKLEEIIVENGGKIVQNV---GPSDTLCIATAGKETTRVKAQAIKRSCDVLKPAWLLDCCKKQRLL 714 (881)
T ss_pred eEEEecCCcccccHHHHHHHHHHcCCEEEEcC---CCCCcceEEeccccchHHHHHHHhccCceeeHHHHHHHHhhhhcc
Confidence 455777875 446899999999999998764 456899885 22334566677889999999999999999999988
Q ss_pred CCCcccc
Q 000879 1008 LEEPYEW 1014 (1239)
Q Consensus 1008 DEe~YEl 1014 (1239)
+..++-+
T Consensus 715 p~~P~~~ 721 (881)
T KOG0966|consen 715 PWLPRDL 721 (881)
T ss_pred ccccHHH
Confidence 8766543
No 50
>KOG3548 consensus DNA damage checkpoint protein RHP9/CRB2/53BP1 [Replication, recombination and repair]
Probab=95.98 E-value=0.0069 Score=76.28 Aligned_cols=89 Identities=18% Similarity=0.125 Sum_probs=63.4
Q ss_pred CCCCCCccEEEecCCCCccHHHHHHHHHHhCCEecCCcccC-------------------------cccEEEeccC-Cch
Q 000879 18 GIHGANSLVMCLTGYQRQDREDIMTLVRLMGSQFSKPLVAN-------------------------KVTHLICYKF-EGE 71 (1239)
Q Consensus 18 pIp~f~G~vIs~SGf~g~eR~~L~~LI~~lGA~yt~~llsk-------------------------~tTHLIc~~~-~G~ 71 (1239)
+--.|.||++.||+-+.. +.+.+.-+..+||.+....|.. .--.||+... .+-
T Consensus 922 gkniFd~cvF~lTsa~~s-d~~~r~s~e~~gg~vle~gl~~~Fn~p~~g~~~~lr~Ln~~q~~ks~~qalLIsdth~Rt~ 1000 (1176)
T KOG3548|consen 922 GKNIFDGCVFMLTSANRS-DSASRPSMEKHGGLVLEKGLMNLFNTPFKGGGIVLRQLNSFQERKSNYQALLISDTHYRTH 1000 (1176)
T ss_pred CcchhcceeEEEeccccc-hhhhhhhhhccCChhhhccccccccccccCCcchHHhhhHHhhhccccceeEeehhhhHHH
Confidence 445699999999996553 3334444444666553332222 0123444332 679
Q ss_pred HHHHHHhcCCceeecchHHHHHHHhcCcCCCcccccC
Q 000879 72 KYELAKKIKSIKLVNHRWLEDCLRVWELLPEVNYDKS 108 (1239)
Q Consensus 72 Ky~~Akkwg~IpIVn~dWLeDClr~~krLpE~~Y~~~ 108 (1239)
||-.|+++| ||+|++.||.+|+.+++.+|..+|++.
T Consensus 1001 KYLeaLA~g-iPcVh~~fI~aC~e~nr~Vdy~~YLLp 1036 (1176)
T KOG3548|consen 1001 KYLEALARG-IPCVHNTFIQACGEQNRCVDYTDYLLP 1036 (1176)
T ss_pred HHHHHHHcC-CCcccHHHHHHHHhccccccchhhccc
Confidence 999999998 999999999999999999999999973
No 51
>PF13831 PHD_2: PHD-finger; PDB: 2L43_A 2KU3_A.
Probab=95.29 E-value=0.0042 Score=50.20 Aligned_cols=34 Identities=35% Similarity=1.061 Sum_probs=20.6
Q ss_pred CcEEEecCCCCCCccCCccccccCCCCCCCCCCC-CccCcccC
Q 000879 1186 EVMLICGDESGSVGCGVGMHIDCCDPPLESVPEE-DWFCPTCT 1227 (1239)
Q Consensus 1186 ~~lLlCd~~~g~~~C~~~yH~~Cl~PpL~~vP~g-dW~Cp~C~ 1227 (1239)
+.||.|+ .|....|..|. .+..+|.+ +|+|..|.
T Consensus 2 n~ll~C~------~C~v~VH~~CY--Gv~~~~~~~~W~C~~C~ 36 (36)
T PF13831_consen 2 NPLLFCD------NCNVAVHQSCY--GVSEVPDGDDWLCDRCE 36 (36)
T ss_dssp CEEEE-S------SS--EEEHHHH--T-SS--SS-----HHH-
T ss_pred CceEEeC------CCCCcCChhhC--CcccCCCCCcEECCcCC
Confidence 4799999 99999999999 77888887 89999884
No 52
>COG5275 BRCT domain type II [General function prediction only]
Probab=95.22 E-value=0.083 Score=57.81 Aligned_cols=72 Identities=26% Similarity=0.365 Sum_probs=62.7
Q ss_pred CCCCCccEEEecCCCC-ccHHHHHHHHHHhCCEecCCcccCcccEEEeccCCc-hHHHHHHhcCCceeecchHHHH
Q 000879 19 IHGANSLVMCLTGYQR-QDREDIMTLVRLMGSQFSKPLVANKVTHLICYKFEG-EKYELAKKIKSIKLVNHRWLED 92 (1239)
Q Consensus 19 Ip~f~G~vIs~SGf~g-~eR~~L~~LI~~lGA~yt~~llsk~tTHLIc~~~~G-~Ky~~Akkwg~IpIVn~dWLeD 92 (1239)
--.|.|++|.|||... ..|..-..||..+||+++.. .+.++|+||..+.-| .|++.+++++ |++++-+=|..
T Consensus 154 ~~cL~G~~fVfTG~l~TlsR~~a~~lvk~yGgrvT~~-pSskTtflvlGdnaGP~K~ekiKqlk-IkaidEegf~~ 227 (276)
T COG5275 154 RECLKGKVFVFTGDLKTLSRDDAKTLVKVYGGRVTAV-PSSKTTFLVLGDNAGPSKMEKIKQLK-IKAIDEEGFDS 227 (276)
T ss_pred cccccccEEEEecccccccchhHHHHHHHhCCeeecc-cccceeEEEecCCCChHHHHHHHHhC-CccccHHHHHH
Confidence 3457899999999877 89999999999999999998 899999999987655 6799999998 99988776643
No 53
>KOG1473 consensus Nucleosome remodeling factor, subunit NURF301/BPTF [Chromatin structure and dynamics; Transcription]
Probab=94.93 E-value=0.017 Score=74.18 Aligned_cols=47 Identities=28% Similarity=0.626 Sum_probs=41.3
Q ss_pred cccccccCCCCCCCcEEEecCCCCCCccCCccccccCCCCCCCCCCCCccCcccCc
Q 000879 1173 KITCQACGCSDRGEVMLICGDESGSVGCGVGMHIDCCDPPLESVPEEDWFCPTCTR 1228 (1239)
Q Consensus 1173 ~~~C~vC~~~~~~~~lLlCd~~~g~~~C~~~yH~~Cl~PpL~~vP~gdW~Cp~C~~ 1228 (1239)
++.|.+|+..+ .+++|. .|++.||+.|+.||+.++|..+|-|--|..
T Consensus 344 ddhcrf~~d~~---~~lc~E------t~prvvhlEcv~hP~~~~~s~~~e~evc~~ 390 (1414)
T KOG1473|consen 344 DDHCRFCHDLG---DLLCCE------TCPRVVHLECVFHPRFAVPSAFWECEVCNI 390 (1414)
T ss_pred cccccccCccc---ceeecc------cCCceEEeeecCCccccCCCccchhhhhhh
Confidence 34789998875 667777 999999999999999999999999999973
No 54
>KOG1246 consensus DNA-binding protein jumonji/RBP2/SMCY, contains JmjC domain [General function prediction only]
Probab=92.55 E-value=0.11 Score=67.92 Aligned_cols=55 Identities=33% Similarity=0.806 Sum_probs=48.0
Q ss_pred CCccccccccCCCCCCCcEEEecCCCCCCccCCccccccCCCCCCCCCCCCccCcccCcCCC
Q 000879 1170 DTDKITCQACGCSDRGEVMLICGDESGSVGCGVGMHIDCCDPPLESVPEEDWFCPTCTRSRI 1231 (1239)
Q Consensus 1170 ~~~~~~C~vC~~~~~~~~lLlCd~~~g~~~C~~~yH~~Cl~PpL~~vP~gdW~Cp~C~~~r~ 1231 (1239)
..+...|..|.+.... .+++|+ +|...||.+|+.|++..+|.|+|.|+.|.....
T Consensus 152 ~~~~~~~~~~~k~~~~-~~~~~~------~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 206 (904)
T KOG1246|consen 152 FIDYPQCNTCSKGKEE-KLLLCD------SCDDSYHTYCLRPPLTRVPDGDWRCPKCIPTPE 206 (904)
T ss_pred cccchhhhccccCCCc-cceecc------cccCcccccccCCCCCcCCcCcccCCccccccc
Confidence 4455679999998877 455999 999999999999999999999999999988853
No 55
>PRK05601 DNA polymerase III subunit epsilon; Validated
Probab=92.05 E-value=0.48 Score=56.19 Aligned_cols=87 Identities=13% Similarity=0.127 Sum_probs=73.3
Q ss_pred CccccCCCCCCCCCCCCccEEEecCCCCccHHHHHHHHHHhCCEecCCcccCcccEEEeccC--CchHHHHHHhcCCcee
Q 000879 7 SIMYRPLKDLNGIHGANSLVMCLTGYQRQDREDIMTLVRLMGSQFSKPLVANKVTHLICYKF--EGEKYELAKKIKSIKL 84 (1239)
Q Consensus 7 ~ily~P~p~~~pIp~f~G~vIs~SGf~g~eR~~L~~LI~~lGA~yt~~llsk~tTHLIc~~~--~G~Ky~~Akkwg~IpI 84 (1239)
..+..|-+.-.+-+-..|+.|+|++=...+++.|...+...|-.|+.. +++.|..|||... ...|-..|...| ||+
T Consensus 280 ~~~~nPG~~~~~~~lv~Gm~v~~~~e~~~~~d~li~~~~~agL~y~~~-~~r~tslvv~n~~~~~~gk~~~a~~~g-ipl 357 (377)
T PRK05601 280 RTLENPGTYEPGKGLVAGMEVVVAPEITMDPDIIIQAIVRAGLAYSEK-LTRQTSVVVCNQTRDLDGKAMHAQRKG-IPL 357 (377)
T ss_pred CCCCCCCccCCCCccccCcEEEEeCCccCCHHHHHHHHHHccchhhhc-cccceeEEEeCCCCCccchhhhhhhcC-CCc
Confidence 344555554444556689999999999999999999999999999999 9999999999876 578999999987 999
Q ss_pred ecchHHHHHHH
Q 000879 85 VNHRWLEDCLR 95 (1239)
Q Consensus 85 Vn~dWLeDClr 95 (1239)
|+-.=+.+++.
T Consensus 358 ~~d~~fl~~~~ 368 (377)
T PRK05601 358 LSDVAFLAAVE 368 (377)
T ss_pred cCHHHHHHHHH
Confidence 99877777665
No 56
>KOG4362 consensus Transcriptional regulator BRCA1 [Replication, recombination and repair; Transcription]
Probab=90.60 E-value=0.43 Score=60.07 Aligned_cols=81 Identities=16% Similarity=0.202 Sum_probs=69.9
Q ss_pred CccEEEecCCCCccHHHHHHHHHHhCCEecCCcccCcccEEEeccC------CchHHHHHHhcCCceeecchHHHHHHHh
Q 000879 23 NSLVMCLTGYQRQDREDIMTLVRLMGSQFSKPLVANKVTHLICYKF------EGEKYELAKKIKSIKLVNHRWLEDCLRV 96 (1239)
Q Consensus 23 ~G~vIs~SGf~g~eR~~L~~LI~~lGA~yt~~llsk~tTHLIc~~~------~G~Ky~~Akkwg~IpIVn~dWLeDClr~ 96 (1239)
+-++.+.+|....+...|...+.. +.... +..-+||+|+.-. ++-||..+...| .-|++++|+..|+..
T Consensus 477 kk~~~~~s~l~p~ek~~v~~~a~~---t~~k~-~~~~~thvi~~~~~~g~c~rTlk~~~gil~g-kwi~~~~w~~~s~k~ 551 (684)
T KOG4362|consen 477 KKLVLLVSGLTPSEKQLVEKFAVD---TISKF-WIEPVTHVIASTDLEGACLRTLKVLMGILRG-KWILSYDWVLASLKL 551 (684)
T ss_pred cceeeeeccCCcchHHHHHHHHHH---HHhhc-cCCCceeeeeecccccchhhhHHHHHHhhcC-ceeeeHHHHHHHHHh
Confidence 468889999999999998888877 56655 8889999999754 678999998876 679999999999999
Q ss_pred cCcCCCcccccC
Q 000879 97 WELLPEVNYDKS 108 (1239)
Q Consensus 97 ~krLpE~~Y~~~ 108 (1239)
+..++|.+|.+.
T Consensus 552 ~~~~~eepfEl~ 563 (684)
T KOG4362|consen 552 RKWVSEEPFELQ 563 (684)
T ss_pred cCCCCCCCeeEe
Confidence 999999999983
No 57
>KOG2481 consensus Protein required for normal rRNA processing [RNA processing and modification]
Probab=89.19 E-value=0.33 Score=58.85 Aligned_cols=77 Identities=22% Similarity=0.287 Sum_probs=55.9
Q ss_pred CCccEEEecCCCCccHHHHHHHHHHhCCEecCCc---------ccCcccEEEeccCC-chHHHHHHhcCCceeecchHHH
Q 000879 22 ANSLVMCLTGYQRQDREDIMTLVRLMGSQFSKPL---------VANKVTHLICYKFE-GEKYELAKKIKSIKLVNHRWLE 91 (1239)
Q Consensus 22 f~G~vIs~SGf~g~eR~~L~~LI~~lGA~yt~~l---------lsk~tTHLIc~~~~-G~Ky~~Akkwg~IpIVn~dWLe 91 (1239)
|+||++=++- ..-|+.|..+|+.+||.+...- .+...||=|+..+. +.+|. | ..-|.|.||+
T Consensus 328 F~glkFfl~r--eVPresL~fiI~s~GG~V~wd~~~~g~~~~~~d~~ITH~IvDrP~~~~~v~-----g-R~YvQPQWvf 399 (570)
T KOG2481|consen 328 FSGLKFFLNR--EVPRESLEFIIRSFGGKVSWDPLGIGATYDESDERITHQIVDRPGQQTSVI-----G-RTYVQPQWVF 399 (570)
T ss_pred hhcceeeeec--cCchHHHHHHHHHcCCceecCccCCCCcccccccceeeeeecccCccceee-----e-eeeecchhhh
Confidence 4555554442 3568899999999999887441 11346999998872 33332 2 3579999999
Q ss_pred HHHHhcCcCCCcccc
Q 000879 92 DCLRVWELLPEVNYD 106 (1239)
Q Consensus 92 DClr~~krLpE~~Y~ 106 (1239)
||+.++.++|...|.
T Consensus 400 DsvNar~llpt~~Y~ 414 (570)
T KOG2481|consen 400 DSVNARLLLPTEKYF 414 (570)
T ss_pred hhccchhhccHhhhC
Confidence 999999999988887
No 58
>KOG2481 consensus Protein required for normal rRNA processing [RNA processing and modification]
Probab=89.04 E-value=0.27 Score=59.63 Aligned_cols=70 Identities=21% Similarity=0.292 Sum_probs=54.7
Q ss_pred HHHHHHHHHHhCCEEEecC-------CCccCcccEEEcCCCCCcHHHHHHHhcCCeEechhHHHHHHhcCCCCCCCcccc
Q 000879 942 RKEFQVVIRHLKGRLCRDS-------HQWSYQATHFIAPEIRRTEKFFAAAASGRWILKTDYLSACSQAGKFLLEEPYEW 1014 (1239)
Q Consensus 942 rkeL~k~IkqLGG~V~~d~-------s~fd~scTHLI~~k~~RT~KfL~AIA~GkWIVsp~WL~dSlkaGrfLDEe~YEl 1014 (1239)
+..|.=+|...||.|.-++ ..-+..+||=|++.+.-+.+| .|+--|.|+||.||+.+|..++-+.|..
T Consensus 341 resL~fiI~s~GG~V~wd~~~~g~~~~~~d~~ITH~IvDrP~~~~~v-----~gR~YvQPQWvfDsvNar~llpt~~Y~~ 415 (570)
T KOG2481|consen 341 RESLEFIIRSFGGKVSWDPLGIGATYDESDERITHQIVDRPGQQTSV-----IGRTYVQPQWVFDSVNARLLLPTEKYFP 415 (570)
T ss_pred hHHHHHHHHHcCCceecCccCCCCcccccccceeeeeecccCcccee-----eeeeeecchhhhhhccchhhccHhhhCC
Confidence 4567888999999995331 011135699999998766555 4778899999999999999999999987
Q ss_pred cC
Q 000879 1015 HK 1016 (1239)
Q Consensus 1015 ~d 1016 (1239)
..
T Consensus 416 G~ 417 (570)
T KOG2481|consen 416 GK 417 (570)
T ss_pred Cc
Confidence 75
No 59
>PRK06063 DNA polymerase III subunit epsilon; Provisional
Probab=88.03 E-value=1.2 Score=51.79 Aligned_cols=68 Identities=13% Similarity=0.043 Sum_probs=56.1
Q ss_pred eEEEEec-ChHhHHHHHHHHHHhCCEEEecCCCccCcccEEEcCC-CCCcHHHHHHHhcCCeEechhHHHHHH
Q 000879 931 IWFILSG-HRLQRKEFQVVIRHLKGRLCRDSHQWSYQATHFIAPE-IRRTEKFFAAAASGRWILKTDYLSACS 1001 (1239)
Q Consensus 931 ~vfllSG-Ls~erkeL~k~IkqLGG~V~~d~s~fd~scTHLI~~k-~~RT~KfL~AIA~GkWIVsp~WL~dSl 1001 (1239)
..|+||| +...|.++.++|.++||.|.. ..+.+++.||++. ...+-|.--|-..|..|++..-+.+-+
T Consensus 236 ~~~v~TG~l~~~R~e~~~~~~~~G~~v~~---sVs~~t~~lv~g~~~~~ssK~~kA~~~gi~ii~e~~f~~ll 305 (313)
T PRK06063 236 MRVALSAEVSRTHEELVERILHAGLAYSD---SVDRDTSLVVCNDPAPEQGKGYHARQLGVPVLDEAAFLELL 305 (313)
T ss_pred CEEEEecCCCCCHHHHHHHHHHcCCEecC---ccccCccEEEECCCCCcccHHHHHHHcCCccccHHHHHHHH
Confidence 4788998 455788999999999999954 3778999999997 443469999999999999988777655
No 60
>COG5163 NOP7 Protein required for biogenesis of the 60S ribosomal subunit [Translation, ribosomal structure and biogenesis]
Probab=87.41 E-value=0.55 Score=55.40 Aligned_cols=80 Identities=19% Similarity=0.216 Sum_probs=58.9
Q ss_pred eEEEEecChHhHHHHHHHHHHhCCEEEecC--------CCccCcccEEEcCCCCCcHHHHHHHhcCCeEechhHHHHHHh
Q 000879 931 IWFILSGHRLQRKEFQVVIRHLKGRLCRDS--------HQWSYQATHFIAPEIRRTEKFFAAAASGRWILKTDYLSACSQ 1002 (1239)
Q Consensus 931 ~vfllSGLs~erkeL~k~IkqLGG~V~~d~--------s~fd~scTHLI~~k~~RT~KfL~AIA~GkWIVsp~WL~dSlk 1002 (1239)
+.|.+|.-- -...|.=+|...||.|+.++ ...++.+||-||+++.-. --..|.--+.|+||.||+.
T Consensus 354 f~FyisreV-p~dsLefiilscGG~V~~~p~~~~i~~~~~vD~~vth~i~drp~~~-----~kvegrtYiQPQw~fDsiN 427 (591)
T COG5163 354 FKFYISREV-PGDSLEFIILSCGGSVVGSPCEADIHVSEKVDEKVTHQIVDRPVMK-----NKVEGRTYIQPQWLFDSIN 427 (591)
T ss_pred eEEEEeccc-cchHHHHHHHHcCCcccCchhhccCCchhhccchhhhhhccchhhh-----hhhcceeeechHHHHhhhc
Confidence 455555421 12356677899999985442 245668999999987532 3357888999999999999
Q ss_pred cCCCCCCCcccccC
Q 000879 1003 AGKFLLEEPYEWHK 1016 (1239)
Q Consensus 1003 aGrfLDEe~YEl~d 1016 (1239)
.|.+..-+.|....
T Consensus 428 kG~l~~~~~Y~~G~ 441 (591)
T COG5163 428 KGKLACVENYCVGK 441 (591)
T ss_pred cccchhhhhccccc
Confidence 99999988988775
No 61
>KOG0323 consensus TFIIF-interacting CTD phosphatases, including NLI-interacting factor [Transcription]
Probab=86.36 E-value=0.34 Score=60.73 Aligned_cols=84 Identities=19% Similarity=0.179 Sum_probs=67.2
Q ss_pred CeEEEEecCh-----HhHHHHHHHHHHhCCEEEecCCCccCcccEEEcCCCCCcHHHHHHHhcC-CeEechhHHHHHHhc
Q 000879 930 PIWFILSGHR-----LQRKEFQVVIRHLKGRLCRDSHQWSYQATHFIAPEIRRTEKFFAAAASG-RWILKTDYLSACSQA 1003 (1239)
Q Consensus 930 ~~vfllSGLs-----~erkeL~k~IkqLGG~V~~d~s~fd~scTHLI~~k~~RT~KfL~AIA~G-kWIVsp~WL~dSlka 1003 (1239)
-..++|||+. .+.........++|..... .++..+||||+.++. |.|...|...+ +|||.+.||..|+..
T Consensus 444 ~~~~vfSg~~P~~~~~~~s~~~~~~~~~g~vs~~---~~~~~~th~i~~~~g-t~k~~~a~~~~~~~Vv~~~wl~~~~e~ 519 (635)
T KOG0323|consen 444 GSQIVFSGLHPTGSTDESADILGVAQQLGAVSAP---DVSDKTTHLIAANAG-TKKVYKAVVSGSAKVVNAAWLWRSLEK 519 (635)
T ss_pred ccceeecccccCcCCcchhhhhhhhhcccceecc---cccchhhhHHhhccC-cceeeccccccceeEechhHHHHHHHH
Confidence 3578899974 2344555667788866643 377899999999984 89998888888 899999999999998
Q ss_pred CCCCCCCcccccCC
Q 000879 1004 GKFLLEEPYEWHKN 1017 (1239)
Q Consensus 1004 GrfLDEe~YEl~d~ 1017 (1239)
=..++|..|-+.+.
T Consensus 520 w~~v~ek~~~l~~~ 533 (635)
T KOG0323|consen 520 WGKVEEKLEPLDDD 533 (635)
T ss_pred hcchhccccccccc
Confidence 88889999888864
No 62
>PRK06195 DNA polymerase III subunit epsilon; Validated
Probab=83.99 E-value=3 Score=48.36 Aligned_cols=68 Identities=15% Similarity=0.183 Sum_probs=52.6
Q ss_pred eEEEEec-Ch-HhHHHHHHHHHHhCCEEEecCCCccCcccEEEcCCC--------CCcHHHHHHHhc-----CCeEechh
Q 000879 931 IWFILSG-HR-LQRKEFQVVIRHLKGRLCRDSHQWSYQATHFIAPEI--------RRTEKFFAAAAS-----GRWILKTD 995 (1239)
Q Consensus 931 ~vfllSG-Ls-~erkeL~k~IkqLGG~V~~d~s~fd~scTHLI~~k~--------~RT~KfL~AIA~-----GkWIVsp~ 995 (1239)
..|+||| |. -.|.+++++|+++||.|.. ..+.+++.||++.. .-+-|+--|... |..|++.+
T Consensus 224 ~~~vfTG~l~~~~R~~~~~~~~~~Gg~v~~---sVs~~t~~lV~G~~~~~~~~~~~~~~K~~kA~~l~~~g~~i~ii~E~ 300 (309)
T PRK06195 224 EVVVFTGGLASMTRDEAMILVRRLGGTVGS---SVTKKTTYLVTNTKDIEDLNREEMSNKLKKAIDLKKKGQNIKFLNEE 300 (309)
T ss_pred CEEEEccccCCCCHHHHHHHHHHhCCEecC---CcccCceEEEECCCcchhhcccCcChHHHHHHHHHhCCCCcEEecHH
Confidence 5899998 43 5788999999999999954 37789999999952 224588888777 88999876
Q ss_pred HHHHHH
Q 000879 996 YLSACS 1001 (1239)
Q Consensus 996 WL~dSl 1001 (1239)
=+.+-+
T Consensus 301 ~f~~l~ 306 (309)
T PRK06195 301 EFLQKC 306 (309)
T ss_pred HHHHHH
Confidence 555444
No 63
>COG5163 NOP7 Protein required for biogenesis of the 60S ribosomal subunit [Translation, ribosomal structure and biogenesis]
Probab=83.81 E-value=0.81 Score=54.03 Aligned_cols=34 Identities=18% Similarity=0.472 Sum_probs=29.8
Q ss_pred CCCCCCceEEEecCCCCCCHHHHHHHHHhCCcEEecc
Q 000879 1042 HGAFHGMRIIVYGDCIAPPLDTLKRVVKAGDGNILAT 1078 (1239)
Q Consensus 1042 ~kLFsG~~f~L~~~~v~p~~~~LkrLIeaGGGkVv~~ 1078 (1239)
..||+|+.|||... .+.+.|+-||.+|||.|+-.
T Consensus 348 ~slFS~f~Fyisre---Vp~dsLefiilscGG~V~~~ 381 (591)
T COG5163 348 KSLFSGFKFYISRE---VPGDSLEFIILSCGGSVVGS 381 (591)
T ss_pred hhhhhceEEEEecc---ccchHHHHHHHHcCCcccCc
Confidence 58999999999654 46899999999999999866
No 64
>PRK14350 ligA NAD-dependent DNA ligase LigA; Provisional
Probab=83.53 E-value=1.5 Score=55.84 Aligned_cols=74 Identities=11% Similarity=0.086 Sum_probs=57.4
Q ss_pred CCCCCCceEEEecCCCCCCHHHHHHHHHhCCcEEeccCCCccccccCCCccccccCCCCchhhHHHHHHhcCcceeeecc
Q 000879 1042 HGAFHGMRIIVYGDCIAPPLDTLKRVVKAGDGNILATSPPYTRFLNSGVDFAVVSPGMPRVDLWVQEFLKHEIPCVVADY 1121 (1239)
Q Consensus 1042 ~kLFsG~~f~L~~~~v~p~~~~LkrLIeaGGGkVv~~~Pp~~~~l~s~~d~iIVs~~~~~~d~wlqeL~k~GIpC~s~EY 1121 (1239)
..+|.|.+|+|+|.+...++++++.+|+..||+|... +....+|+|+-... -..+....+.||+++.-+-
T Consensus 591 ~~~l~gktfV~TG~l~~~~R~e~~~lie~~Ggkv~ss-------VSkktd~LV~G~~a---GsKl~KA~~LGI~Ii~e~~ 660 (669)
T PRK14350 591 NSFLFGKKFCITGSFNGYSRSVLIDKLTKKGAIFNTC-------VTKYLDFLLVGEKA---GLKLKKANNLGIKIMSLFD 660 (669)
T ss_pred CCccCCcEEEEecccCCCCHHHHHHHHHHcCCEEecc-------ccCCCcEEEECCCC---CchHHHHHHcCCEEecHHH
Confidence 3569999999999876679999999999999999987 44556788874322 1246777889999998765
Q ss_pred eeee
Q 000879 1122 LVEF 1125 (1239)
Q Consensus 1122 Ildy 1125 (1239)
++..
T Consensus 661 f~~~ 664 (669)
T PRK14350 661 IKSY 664 (669)
T ss_pred HHHH
Confidence 5443
No 65
>PRK14351 ligA NAD-dependent DNA ligase LigA; Provisional
Probab=79.57 E-value=4.8 Score=51.68 Aligned_cols=70 Identities=17% Similarity=0.125 Sum_probs=57.4
Q ss_pred eEEEEecC-h-HhHHHHHHHHHHhCCEEEecCCCccCcccEEEcCCCCCcHHHHHHHhcCCeEechhHHHHHHhc
Q 000879 931 IWFILSGH-R-LQRKEFQVVIRHLKGRLCRDSHQWSYQATHFIAPEIRRTEKFFAAAASGRWILKTDYLSACSQA 1003 (1239)
Q Consensus 931 ~vfllSGL-s-~erkeL~k~IkqLGG~V~~d~s~fd~scTHLI~~k~~RT~KfL~AIA~GkWIVsp~WL~dSlka 1003 (1239)
..|+|||. . -.|.++.++|+++||.|... .+.+++.||++.---.-|+--|-..|..|++.+-+.+-++.
T Consensus 613 ~~~v~TG~l~~~~R~~~~~~i~~~Gg~v~~s---Vs~kt~~Lv~G~~~g~sKl~kA~~lgi~ii~E~~f~~ll~~ 684 (689)
T PRK14351 613 LTFVFTGSLSGYTRSEAQELVEAHGGNATGS---VSGNTDYLVVGENPGQSKRDDAEANDVPTLDEEEFEELLAE 684 (689)
T ss_pred cEEEEccCCCCCCHHHHHHHHHHcCCEEcCC---cCCCccEEEEcCCCChhHHHHHHHCCCeEecHHHHHHHHHh
Confidence 58999984 3 47889999999999999643 67899999999733235999999999999999888776654
No 66
>KOG4443 consensus Putative transcription factor HALR/MLL3, involved in embryonic development [General function prediction only]
Probab=78.78 E-value=0.58 Score=58.24 Aligned_cols=51 Identities=29% Similarity=0.731 Sum_probs=37.8
Q ss_pred cccccccCCCC--CCCcEEEecCCCCCCccCCccccccCCCCCCCC-CCCCccCcccCcC
Q 000879 1173 KITCQACGCSD--RGEVMLICGDESGSVGCGVGMHIDCCDPPLESV-PEEDWFCPTCTRS 1229 (1239)
Q Consensus 1173 ~~~C~vC~~~~--~~~~lLlCd~~~g~~~C~~~yH~~Cl~PpL~~v-P~gdW~Cp~C~~~ 1229 (1239)
...|.+|+..+ ..+.|+.|. .|...||.+|+.--+... =.+-|.||.|+.-
T Consensus 18 ~~mc~l~~s~G~~~ag~m~ac~------~c~~~yH~~cvt~~~~~~~l~~gWrC~~crvC 71 (694)
T KOG4443|consen 18 CLMCPLCGSSGKGRAGRLLACS------DCGQKYHPYCVTSWAQHAVLSGGWRCPSCRVC 71 (694)
T ss_pred hhhhhhhccccccccCcchhhh------hhcccCCcchhhHHHhHHHhcCCcccCCceee
Confidence 45688887776 456799999 899999999996444433 2334999999643
No 67
>PRK07956 ligA NAD-dependent DNA ligase LigA; Validated
Probab=78.11 E-value=6 Score=50.64 Aligned_cols=69 Identities=19% Similarity=0.176 Sum_probs=57.5
Q ss_pred eEEEEecC-h-HhHHHHHHHHHHhCCEEEecCCCccCcccEEEcCCCCCcHHHHHHHhcCCeEechhHHHHHHhc
Q 000879 931 IWFILSGH-R-LQRKEFQVVIRHLKGRLCRDSHQWSYQATHFIAPEIRRTEKFFAAAASGRWILKTDYLSACSQA 1003 (1239)
Q Consensus 931 ~vfllSGL-s-~erkeL~k~IkqLGG~V~~d~s~fd~scTHLI~~k~~RT~KfL~AIA~GkWIVsp~WL~dSlka 1003 (1239)
..|+|||. . -.|.++.++|.++||.|... .+.+++.||++.-. +-|+--|...|..|++.+-+.+.+..
T Consensus 594 ~~~v~TG~l~~~~R~e~~~~i~~~G~~v~~s---Vs~kt~~lv~G~~~-gsK~~kA~~lgI~ii~E~~f~~~l~~ 664 (665)
T PRK07956 594 KTVVLTGTLEQLSRDEAKEKLEALGAKVSGS---VSKKTDLVVAGEAA-GSKLAKAQELGIEVLDEEEFLRLLGE 664 (665)
T ss_pred cEEEEeCCCCCCCHHHHHHHHHHcCCEEeCc---ccCCCCEEEECCCC-ChHHHHHHHcCCeEEcHHHHHHHHhc
Confidence 68999995 3 37889999999999999643 67899999999732 36999999999999999988887654
No 68
>PF12861 zf-Apc11: Anaphase-promoting complex subunit 11 RING-H2 finger
Probab=76.73 E-value=0.93 Score=43.57 Aligned_cols=60 Identities=15% Similarity=0.345 Sum_probs=44.8
Q ss_pred cccchhhhhhhhhhhhhhhhhhccCCCCCCCCCccccccccCCCCCCCcEEEecCCCCCCccCCccccccCCCCCCCCCC
Q 000879 1139 YNTHAWAEKSLSNLLSKAEEIVMDLTPPNDYDTDKITCQACGCSDRGEVMLICGDESGSVGCGVGMHIDCCDPPLESVPE 1218 (1239)
Q Consensus 1139 yntcPlc~~sf~~i~~~~e~i~~~~~~~e~~~~~~~~C~vC~~~~~~~~lLlCd~~~g~~~C~~~yH~~Cl~PpL~~vP~ 1218 (1239)
-..|.+|+..|. ..|..|...++.-.++++. |...||+.|+.--|..- .
T Consensus 21 dd~CgICr~~fd-----------------------g~Cp~Ck~Pgd~Cplv~g~-------C~H~FH~hCI~kWl~~~-~ 69 (85)
T PF12861_consen 21 DDVCGICRMPFD-----------------------GCCPDCKFPGDDCPLVWGK-------CSHNFHMHCILKWLSTQ-S 69 (85)
T ss_pred CCceeeEecccc-----------------------cCCCCccCCCCCCceeecc-------CccHHHHHHHHHHHccc-c
Confidence 568888877765 3578888888776666554 99999999987666653 2
Q ss_pred CCccCcccCcC
Q 000879 1219 EDWFCPTCTRS 1229 (1239)
Q Consensus 1219 gdW~Cp~C~~~ 1229 (1239)
..=.||-|+..
T Consensus 70 ~~~~CPmCR~~ 80 (85)
T PF12861_consen 70 SKGQCPMCRQP 80 (85)
T ss_pred CCCCCCCcCCe
Confidence 23489999875
No 69
>COG0272 Lig NAD-dependent DNA ligase (contains BRCT domain type II) [DNA replication, recombination, and repair]
Probab=74.85 E-value=4.3 Score=51.52 Aligned_cols=73 Identities=10% Similarity=0.170 Sum_probs=57.7
Q ss_pred CCCCCceEEEecCCCCCCHHHHHHHHHhCCcEEeccCCCccccccCCCccccccCCCCchhhHHHHHHhcCcceeeecce
Q 000879 1043 GAFHGMRIIVYGDCIAPPLDTLKRVVKAGDGNILATSPPYTRFLNSGVDFAVVSPGMPRVDLWVQEFLKHEIPCVVADYL 1122 (1239)
Q Consensus 1043 kLFsG~~f~L~~~~v~p~~~~LkrLIeaGGGkVv~~~Pp~~~~l~s~~d~iIVs~~~~~~d~wlqeL~k~GIpC~s~EYI 1122 (1239)
.+|.|.+|+|+|..-..++++.+.+|++.||+|... +....||+|.-.+. -..+....+.||+++.-+.+
T Consensus 593 ~~l~gkt~V~TGtL~~~sR~eak~~le~lGakv~~S-------VSkktD~vvaG~~a---GSKl~kA~eLgv~i~~E~~~ 662 (667)
T COG0272 593 SPLAGKTFVLTGTLEGMSRDEAKALLEALGAKVSGS-------VSKKTDYVVAGENA---GSKLAKAQELGVKIIDEEEF 662 (667)
T ss_pred cccCCCEEEEeccCCCCCHHHHHHHHHHcCCEEece-------ecccccEEEEcCCC---ChHHHHHHHcCCeEecHHHH
Confidence 779999999999887789999999999999999876 34456888875442 22466677899999987765
Q ss_pred eee
Q 000879 1123 VEF 1125 (1239)
Q Consensus 1123 ldy 1125 (1239)
+.+
T Consensus 663 ~~l 665 (667)
T COG0272 663 LAL 665 (667)
T ss_pred HHh
Confidence 443
No 70
>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=74.73 E-value=5.5 Score=50.92 Aligned_cols=62 Identities=24% Similarity=0.304 Sum_probs=50.7
Q ss_pred eEEEEec-Ch-HhHHHHHHHHHHhCCEEEecCCCccCcccEEEcCCCCCcHHHHHHHhcCCeEechhH
Q 000879 931 IWFILSG-HR-LQRKEFQVVIRHLKGRLCRDSHQWSYQATHFIAPEIRRTEKFFAAAASGRWILKTDY 996 (1239)
Q Consensus 931 ~vfllSG-Ls-~erkeL~k~IkqLGG~V~~d~s~fd~scTHLI~~k~~RT~KfL~AIA~GkWIVsp~W 996 (1239)
..|+||| |. ..|.++.++|+++||.|... .+.+++.||++.-. .-|+--|...|..|++.+.
T Consensus 588 k~~v~TG~l~~~~R~~~~~~i~~~G~~v~~s---Vs~kt~~lv~G~~~-gsKl~kA~~lgi~ii~E~~ 651 (652)
T TIGR00575 588 KTFVLTGTLSQMSRDEAKELLENLGGKVASS---VSKKTDYVIAGEKA-GSKLAKAQELGIPIINEEE 651 (652)
T ss_pred cEEEEeccCCCCCHHHHHHHHHHcCCEEeCC---cCCCccEEEECCCC-ChHHHHHHHcCCcEechhh
Confidence 4789998 44 57889999999999999543 67899999999733 2399999999999988654
No 71
>KOG4628 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=71.31 E-value=3 Score=49.25 Aligned_cols=48 Identities=31% Similarity=0.555 Sum_probs=34.5
Q ss_pred ccccccCCCCCCCcEEEecCCCCCCccCCccccccCCCCCCCCCCCCccCcccCcCC
Q 000879 1174 ITCQACGCSDRGEVMLICGDESGSVGCGVGMHIDCCDPPLESVPEEDWFCPTCTRSR 1230 (1239)
Q Consensus 1174 ~~C~vC~~~~~~~~lLlCd~~~g~~~C~~~yH~~Cl~PpL~~vP~gdW~Cp~C~~~r 1230 (1239)
+.|.+|-..=..+..|--= -|...||..|++|=|..- .=+||-|...-
T Consensus 230 ~~CaIClEdY~~GdklRiL------PC~H~FH~~CIDpWL~~~---r~~CPvCK~di 277 (348)
T KOG4628|consen 230 DTCAICLEDYEKGDKLRIL------PCSHKFHVNCIDPWLTQT---RTFCPVCKRDI 277 (348)
T ss_pred ceEEEeecccccCCeeeEe------cCCCchhhccchhhHhhc---CccCCCCCCcC
Confidence 6799998864433333334 688999999999987552 12799998763
No 72
>KOG4299 consensus PHD Zn-finger protein [General function prediction only]
Probab=66.53 E-value=4.4 Score=50.71 Aligned_cols=50 Identities=26% Similarity=0.759 Sum_probs=39.8
Q ss_pred cccccccCCCCCCCcEEEecCCCCCCccCCccccccCCCCCC-CCCCCCccCcccCcCCC
Q 000879 1173 KITCQACGCSDRGEVMLICGDESGSVGCGVGMHIDCCDPPLE-SVPEEDWFCPTCTRSRI 1231 (1239)
Q Consensus 1173 ~~~C~vC~~~~~~~~lLlCd~~~g~~~C~~~yH~~Cl~PpL~-~vP~gdW~Cp~C~~~r~ 1231 (1239)
...|.+|..++ .++.|+ .|+.+||..|..++|. ..+.+.|.|..|-..+.
T Consensus 47 ~ts~~~~~~~g---n~~~~~------~~~~s~h~~~~~~~~sp~~~~~~~~~~~~~~~~~ 97 (613)
T KOG4299|consen 47 ATSCGICKSGG---NLLCCD------HCPASFHLECDKPPLSPDLKGSEINCSRCPKGRE 97 (613)
T ss_pred hhhcchhhhcC---Cccccc------cCccccchhccCcccCcccccccccccCCCcccc
Confidence 44588888886 567788 9999999999999987 23456899999987543
No 73
>PF15446 zf-PHD-like: PHD/FYVE-zinc-finger like domain
Probab=65.85 E-value=3.4 Score=44.27 Aligned_cols=48 Identities=29% Similarity=0.758 Sum_probs=33.5
Q ss_pred cccccCC---CCCCCcEEEecCCCCCCccCCccccccCCCCC------CCCCCCC--ccCcccCc
Q 000879 1175 TCQACGC---SDRGEVMLICGDESGSVGCGVGMHIDCCDPPL------ESVPEED--WFCPTCTR 1228 (1239)
Q Consensus 1175 ~C~vC~~---~~~~~~lLlCd~~~g~~~C~~~yH~~Cl~PpL------~~vP~gd--W~Cp~C~~ 1228 (1239)
.|.+|+. ...-+.||+|- +|-.+||..||.|-- +.|-.++ .-|..|+.
T Consensus 1 ~C~~C~~~g~~~~kG~Lv~CQ------GCs~sYHk~CLG~Rs~ReHlVTKVg~d~FVLQCr~Cig 59 (175)
T PF15446_consen 1 TCDTCGYEGDDRNKGPLVYCQ------GCSSSYHKACLGPRSQREHLVTKVGDDDFVLQCRRCIG 59 (175)
T ss_pred CcccccCCCCCccCCCeEEcC------ccChHHHhhhcCCccccceeeEEEcCCceEEechhhcC
Confidence 4888954 33457899999 999999999998763 2333433 34666644
No 74
>PF11793 FANCL_C: FANCL C-terminal domain; PDB: 3K1L_A.
Probab=63.64 E-value=0.71 Score=42.50 Aligned_cols=52 Identities=21% Similarity=0.450 Sum_probs=21.1
Q ss_pred ccccccCCCCC---CCcEEEecCCCCCCccCCccccccCCCCCCCCCC-------CCccCcccCcC
Q 000879 1174 ITCQACGCSDR---GEVMLICGDESGSVGCGVGMHIDCCDPPLESVPE-------EDWFCPTCTRS 1229 (1239)
Q Consensus 1174 ~~C~vC~~~~~---~~~lLlCd~~~g~~~C~~~yH~~Cl~PpL~~vP~-------gdW~Cp~C~~~ 1229 (1239)
..|.+|..... ....+.|++. .|...||+.||---|...+. -.+-||.|...
T Consensus 3 ~~C~IC~~~~~~~~~~p~~~C~n~----~C~~~fH~~CL~~wf~~~~~~~~~~~~~~G~CP~C~~~ 64 (70)
T PF11793_consen 3 LECGICYSYRLDDGEIPDVVCPNP----SCGKKFHLLCLSEWFLSLEKSRQSFIPIFGECPYCSSP 64 (70)
T ss_dssp -S-SSS--SS-TT-----B--S-T----T----B-SGGGHHHHHHHHSSS-TTT--EEE-TTT-SE
T ss_pred CCCCcCCcEecCCCCcCceEcCCc----ccCCHHHHHHHHHHHHHcccCCeeecccccCCcCCCCe
Confidence 45899987532 2346889965 99999999998543332222 13569999764
No 75
>PF13901 DUF4206: Domain of unknown function (DUF4206)
Probab=63.15 E-value=5 Score=44.05 Aligned_cols=57 Identities=25% Similarity=0.616 Sum_probs=43.4
Q ss_pred cccccccccchhhhhhhhhhhhhhhhhhccCCCCCCCCCccccccccCCCC-----CCCcEEEecCCCCCCccCCccccc
Q 000879 1133 LERHVQYNTHAWAEKSLSNLLSKAEEIVMDLTPPNDYDTDKITCQACGCSD-----RGEVMLICGDESGSVGCGVGMHID 1207 (1239)
Q Consensus 1133 LerHvlyntcPlc~~sf~~i~~~~e~i~~~~~~~e~~~~~~~~C~vC~~~~-----~~~~lLlCd~~~g~~~C~~~yH~~ 1207 (1239)
...||. .|++|.+. -..|++|+..+ +.+....|. .|...||..
T Consensus 138 ~~~HV~--~C~lC~~k------------------------GfiCe~C~~~~~IfPF~~~~~~~C~------~C~~v~H~~ 185 (202)
T PF13901_consen 138 AEKHVY--SCELCQQK------------------------GFICEICNSDDIIFPFQIDTTVRCP------KCKSVFHKS 185 (202)
T ss_pred HHHHHH--HhHHHHhC------------------------CCCCccCCCCCCCCCCCCCCeeeCC------cCccccchh
Confidence 567887 89999655 24699999865 235678999 999999999
Q ss_pred cCCCCCCCCCCCCccCcccCcCC
Q 000879 1208 CCDPPLESVPEEDWFCPTCTRSR 1230 (1239)
Q Consensus 1208 Cl~PpL~~vP~gdW~Cp~C~~~r 1230 (1239)
|... =.||.|...+
T Consensus 186 C~~~---------~~CpkC~R~~ 199 (202)
T PF13901_consen 186 CFRK---------KSCPKCARRQ 199 (202)
T ss_pred hcCC---------CCCCCcHhHh
Confidence 9953 1499997543
No 76
>KOG0957 consensus PHD finger protein [General function prediction only]
Probab=57.36 E-value=6.9 Score=47.80 Aligned_cols=52 Identities=27% Similarity=0.672 Sum_probs=38.4
Q ss_pred ccccccCCC--CCCCcEEEecCCCCCCccCCccccccCCCC-CCCCCCC-------CccCcccCcCCC
Q 000879 1174 ITCQACGCS--DRGEVMLICGDESGSVGCGVGMHIDCCDPP-LESVPEE-------DWFCPTCTRSRI 1231 (1239)
Q Consensus 1174 ~~C~vC~~~--~~~~~lLlCd~~~g~~~C~~~yH~~Cl~Pp-L~~vP~g-------dW~Cp~C~~~r~ 1231 (1239)
..|-||-.. .+.+.+|.|| .|....|-.|+.-- -.+||.| -|||.-|+..-.
T Consensus 120 ~iCcVClg~rs~da~ei~qCd------~CGi~VHEgCYGv~dn~si~s~~s~~stepWfCeaC~~Gvs 181 (707)
T KOG0957|consen 120 VICCVCLGQRSVDAGEILQCD------KCGINVHEGCYGVLDNVSIPSGSSDCSTEPWFCEACLYGVS 181 (707)
T ss_pred eEEEEeecCccccccceeecc------ccCceecccccccccccccCCCCccCCCCchhhhhHhcCCC
Confidence 368899554 3667899999 99999999998432 1345643 499999987644
No 77
>KOG1473 consensus Nucleosome remodeling factor, subunit NURF301/BPTF [Chromatin structure and dynamics; Transcription]
Probab=54.78 E-value=2.8 Score=55.15 Aligned_cols=52 Identities=13% Similarity=0.057 Sum_probs=40.7
Q ss_pred CCccccccccCCCCCCCcEEEecCCCCCCccCCcccc-ccCCCC--CCCCCCCCccCcccCcC
Q 000879 1170 DTDKITCQACGCSDRGEVMLICGDESGSVGCGVGMHI-DCCDPP--LESVPEEDWFCPTCTRS 1229 (1239)
Q Consensus 1170 ~~~~~~C~vC~~~~~~~~lLlCd~~~g~~~C~~~yH~-~Cl~Pp--L~~vP~gdW~Cp~C~~~ 1229 (1239)
......|.+|+..+ .+|+|++ .|+.+||+ .||+-- =..+|++-|+|+.|...
T Consensus 425 wfi~rrl~Ie~~de---t~l~yys-----T~pqly~ll~cLd~~~~e~~L~d~i~~~~ee~~r 479 (1414)
T KOG1473|consen 425 WFISRRLRIEGMDE---TLLWYYS-----TCPQLYHLLRCLDRTYVEMYLCDGIWERREEIIR 479 (1414)
T ss_pred hceeeeeEEecCCC---cEEEEec-----CcHHHHHHHHHhchHHHHHhhccchhhhHHHHHH
Confidence 44567799998653 7888883 59999999 999733 24689999999999654
No 78
>KOG0383 consensus Predicted helicase [General function prediction only]
Probab=51.43 E-value=2.7 Score=53.66 Aligned_cols=51 Identities=18% Similarity=0.295 Sum_probs=43.7
Q ss_pred CCccccccccCCCCCCCcEEEecCCCCCCccCCccccccCCC-CCCCCCCCCccCcccCcC
Q 000879 1170 DTDKITCQACGCSDRGEVMLICGDESGSVGCGVGMHIDCCDP-PLESVPEEDWFCPTCTRS 1229 (1239)
Q Consensus 1170 ~~~~~~C~vC~~~~~~~~lLlCd~~~g~~~C~~~yH~~Cl~P-pL~~vP~gdW~Cp~C~~~ 1229 (1239)
+..+..|..|.... ..|+|. .|-+.||..|++| |++..+.|.|-|+.|...
T Consensus 503 ~~~d~~~~~~~~~l---~~l~~p------~~lrr~k~d~l~~~P~Kte~i~~~~~~~~Q~~ 554 (696)
T KOG0383|consen 503 EFHDISCEEQIKKL---HLLLCP------HMLRRLKLDVLKPMPLKTELIGRVELSPCQKK 554 (696)
T ss_pred hcchhhHHHHHHhh---ccccCc------hhhhhhhhhhccCCCccceeEEEEecCHHHHH
Confidence 34456789998875 568899 9999999999999 999999999999999643
No 79
>PF14446 Prok-RING_1: Prokaryotic RING finger family 1
Probab=51.20 E-value=10 Score=33.91 Aligned_cols=35 Identities=29% Similarity=0.770 Sum_probs=29.2
Q ss_pred CccccccccCCCC-CCCcEEEecCCCCCCccCCccccccCCC
Q 000879 1171 TDKITCQACGCSD-RGEVMLICGDESGSVGCGVGMHIDCCDP 1211 (1239)
Q Consensus 1171 ~~~~~C~vC~~~~-~~~~lLlCd~~~g~~~C~~~yH~~Cl~P 1211 (1239)
+....|.+|+..- +++.++.|. .|...||-.|+..
T Consensus 3 ~~~~~C~~Cg~~~~~~dDiVvCp------~CgapyHR~C~~~ 38 (54)
T PF14446_consen 3 YEGCKCPVCGKKFKDGDDIVVCP------ECGAPYHRDCWEK 38 (54)
T ss_pred ccCccChhhCCcccCCCCEEECC------CCCCcccHHHHhh
Confidence 3456799999986 377899999 9999999999854
No 80
>KOG2093 consensus Translesion DNA polymerase - REV1 deoxycytidyl transferase [Replication, recombination and repair]
Probab=45.67 E-value=21 Score=46.50 Aligned_cols=94 Identities=7% Similarity=0.128 Sum_probs=72.2
Q ss_pred cccCCCCCCCCCCCCccEEEecCCCCccHHHHHHHHHHhCCEecCCcccCcccEEEeccCCchHHHHHHhcCCceeecch
Q 000879 9 MYRPLKDLNGIHGANSLVMCLTGYQRQDREDIMTLVRLMGSQFSKPLVANKVTHLICYKFEGEKYELAKKIKSIKLVNHR 88 (1239)
Q Consensus 9 ly~P~p~~~pIp~f~G~vIs~SGf~g~eR~~L~~LI~~lGA~yt~~llsk~tTHLIc~~~~G~Ky~~Akkwg~IpIVn~d 88 (1239)
++.+.. +.-.|.|+.|+.-|+....-..++..-..+|+.|........++|+||...-..+++ .+..=...+..
T Consensus 38 ~~~~~t---~~s~fs~is~~~ngs~~e~~nelk~~~~~~t~~~~~~~~rs~T~~ii~~~l~a~~vk---~~~~~~~~~~e 111 (1016)
T KOG2093|consen 38 AWDAAT---GSSSFSGISISVNGSTDESANELKLQNMFHTGASAASYERSGTENIIAQGLPADLVK---GFTIPKHISIE 111 (1016)
T ss_pred hccCcC---CcceeeeeeeccCCccccchHHHhhhhhhcccccccccccccceeeecccchHHHhc---cccchhhhcHH
Confidence 444554 477889999999999888888888888889998885547889999999876444432 22211456889
Q ss_pred HHHHHHHhcCcCCCcccccC
Q 000879 89 WLEDCLRVWELLPEVNYDKS 108 (1239)
Q Consensus 89 WLeDClr~~krLpE~~Y~~~ 108 (1239)
|+.+|+..+..+...+|+..
T Consensus 112 ~iie~~~~~~~~~~~~~~~~ 131 (1016)
T KOG2093|consen 112 WIIECCENGMDVGYYPYQLY 131 (1016)
T ss_pred HHHHHHhccCccccccceee
Confidence 99999999999998888874
No 81
>PF10367 Vps39_2: Vacuolar sorting protein 39 domain 2; InterPro: IPR019453 This entry represents a domain found in the vacuolar sorting protein Vps39 and transforming growth factor beta receptor-associated protein Trap1. Vps39, a component of the C-Vps complex, is thought to be required for the fusion of endosomes and other types of transport intermediates with the vacuole [, ]. In Saccharomyces cerevisiae (Baker's yeast), Vps39 has been shown to stimulate nucleotide exchange []. Trap1 plays a role in the TGF-beta/activin signaling pathway. It associates with inactive heteromeric TGF-beta and activin receptor complexes, mainly through the type II receptor, and is released upon activation of signaling [, ]. The precise function of this domain has not been characterised In Vps39 this domain is involved in localisation and in mediating the interactions with Vps11 [].
Probab=43.66 E-value=18 Score=34.57 Aligned_cols=31 Identities=26% Similarity=0.612 Sum_probs=22.1
Q ss_pred cccccccCCCCCCCcEEEecCCCCCCccCCccccccCC
Q 000879 1173 KITCQACGCSDRGEVMLICGDESGSVGCGVGMHIDCCD 1210 (1239)
Q Consensus 1173 ~~~C~vC~~~~~~~~lLlCd~~~g~~~C~~~yH~~Cl~ 1210 (1239)
...|.+|++.-....... . -|...||..|+.
T Consensus 78 ~~~C~vC~k~l~~~~f~~-~------p~~~v~H~~C~~ 108 (109)
T PF10367_consen 78 STKCSVCGKPLGNSVFVV-F------PCGHVVHYSCIK 108 (109)
T ss_pred CCCccCcCCcCCCceEEE-e------CCCeEEeccccc
Confidence 456999999875544333 3 366889999984
No 82
>KOG1512 consensus PHD Zn-finger protein [General function prediction only]
Probab=43.10 E-value=7.7 Score=44.56 Aligned_cols=51 Identities=18% Similarity=0.296 Sum_probs=36.4
Q ss_pred ccccccccCCC------CCCCcEEEecCCCCCCccCCccccccCCCCCCC---CCCCCccCcccCc
Q 000879 1172 DKITCQACGCS------DRGEVMLICGDESGSVGCGVGMHIDCCDPPLES---VPEEDWFCPTCTR 1228 (1239)
Q Consensus 1172 ~~~~C~vC~~~------~~~~~lLlCd~~~g~~~C~~~yH~~Cl~PpL~~---vP~gdW~Cp~C~~ 1228 (1239)
....|.+|-.. +..+.||.|. .|...||.+|+.-+..- +-...|-|-.|.-
T Consensus 257 ~~~~~~~~~~~~~~~~~~r~~S~I~C~------~C~~~~HP~Ci~M~~elv~~~KTY~W~C~~C~l 316 (381)
T KOG1512|consen 257 RRNERKHFWDIQTNIIQSRRNSWIVCK------PCATRPHPYCVAMIPELVGQYKTYFWKCSSCEL 316 (381)
T ss_pred chhhhhhhhcchhhhhhhhhccceeec------ccccCCCCcchhcCHHHHhHHhhcchhhcccHh
Confidence 34457777554 2456899999 99999999999655322 3356899999954
No 83
>PF13639 zf-RING_2: Ring finger domain; PDB: 2KIZ_A 4EPO_C 1IYM_A 2EP4_A 2ECT_A 2JRJ_A 2ECN_A 2ECM_A 3NG2_A 2EA6_A ....
Probab=38.12 E-value=1.7 Score=35.85 Aligned_cols=43 Identities=23% Similarity=0.449 Sum_probs=27.8
Q ss_pred cccccCCCCCCCcEEEecCCCCCCccCCccccccCCCCCCCCCCCCccCcccC
Q 000879 1175 TCQACGCSDRGEVMLICGDESGSVGCGVGMHIDCCDPPLESVPEEDWFCPTCT 1227 (1239)
Q Consensus 1175 ~C~vC~~~~~~~~lLlCd~~~g~~~C~~~yH~~Cl~PpL~~vP~gdW~Cp~C~ 1227 (1239)
.|.+|...-..+..+.-- .|...||..|+..-|.. .-.||.|+
T Consensus 2 ~C~IC~~~~~~~~~~~~l------~C~H~fh~~Ci~~~~~~----~~~CP~CR 44 (44)
T PF13639_consen 2 ECPICLEEFEDGEKVVKL------PCGHVFHRSCIKEWLKR----NNSCPVCR 44 (44)
T ss_dssp CETTTTCBHHTTSCEEEE------TTSEEEEHHHHHHHHHH----SSB-TTTH
T ss_pred CCcCCChhhcCCCeEEEc------cCCCeeCHHHHHHHHHh----CCcCCccC
Confidence 478887765333333344 59999999999765544 23888885
No 84
>KOG1632 consensus Uncharacterized PHD Zn-finger protein [General function prediction only]
Probab=37.50 E-value=16 Score=43.46 Aligned_cols=47 Identities=21% Similarity=0.458 Sum_probs=36.9
Q ss_pred ccCCCCCCC-cEEEecCCCCCCccCCcccccc--CCCCCCCCC-CCCccCcccCcCC
Q 000879 1178 ACGCSDRGE-VMLICGDESGSVGCGVGMHIDC--CDPPLESVP-EEDWFCPTCTRSR 1230 (1239)
Q Consensus 1178 vC~~~~~~~-~lLlCd~~~g~~~C~~~yH~~C--l~PpL~~vP-~gdW~Cp~C~~~r 1230 (1239)
.|....+++ .|+-|+ .|..+||-.| ++.+-..+| ...|+|..|...+
T Consensus 64 ~~~~~~~p~~~~~~cd------~C~~~~~~ec~~v~~~~~e~p~~~~~~c~~c~~~~ 114 (345)
T KOG1632|consen 64 KCYKPCDPDDLMEQCD------LCEDWYHGECWEVGTAEKEAPKEDPKVCDECKEAQ 114 (345)
T ss_pred hcccccCchhhhhccc------cccccccccccccCchhhcCCccccccccccchhh
Confidence 444444443 789999 9999999999 888877777 4689999997765
No 85
>KOG1734 consensus Predicted RING-containing E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=36.23 E-value=9.1 Score=43.80 Aligned_cols=55 Identities=18% Similarity=0.393 Sum_probs=29.7
Q ss_pred CCccccccccCCCCCCCc----EEEecCCCCCCccCCccccccCCCCCCCCCCCCccCcccCcC
Q 000879 1170 DTDKITCQACGCSDRGEV----MLICGDESGSVGCGVGMHIDCCDPPLESVPEEDWFCPTCTRS 1229 (1239)
Q Consensus 1170 ~~~~~~C~vC~~~~~~~~----lLlCd~~~g~~~C~~~yH~~Cl~PpL~~vP~gdW~Cp~C~~~ 1229 (1239)
..++..|.+|++.-+.+. ++ .+ .-.-.|+..||-+|.+-= -+-.-.=+||.|...
T Consensus 221 hl~d~vCaVCg~~~~~s~~eegvi--en-ty~LsCnHvFHEfCIrGW--civGKkqtCPYCKek 279 (328)
T KOG1734|consen 221 HLSDSVCAVCGQQIDVSVDEEGVI--EN-TYKLSCNHVFHEFCIRGW--CIVGKKQTCPYCKEK 279 (328)
T ss_pred CCCcchhHhhcchheeecchhhhh--hh-heeeecccchHHHhhhhh--eeecCCCCCchHHHH
Confidence 345566888877632211 00 00 001268899999998531 111113489999765
No 86
>PF13832 zf-HC5HC2H_2: PHD-zinc-finger like domain
Probab=31.95 E-value=28 Score=34.15 Aligned_cols=32 Identities=34% Similarity=0.913 Sum_probs=26.0
Q ss_pred cccccccCCCCCCCcEEEecCCCCCCccCCccccccCC
Q 000879 1173 KITCQACGCSDRGEVMLICGDESGSVGCGVGMHIDCCD 1210 (1239)
Q Consensus 1173 ~~~C~vC~~~~~~~~lLlCd~~~g~~~C~~~yH~~Cl~ 1210 (1239)
...|.+|+.. .+..+.|... +|...||..|..
T Consensus 55 ~~~C~iC~~~--~G~~i~C~~~----~C~~~fH~~CA~ 86 (110)
T PF13832_consen 55 KLKCSICGKS--GGACIKCSHP----GCSTAFHPTCAR 86 (110)
T ss_pred CCcCcCCCCC--CceeEEcCCC----CCCcCCCHHHHH
Confidence 4679999997 3468999943 699999999974
No 87
>PF15446 zf-PHD-like: PHD/FYVE-zinc-finger like domain
Probab=31.11 E-value=37 Score=36.83 Aligned_cols=22 Identities=27% Similarity=0.706 Sum_probs=18.6
Q ss_pred CCcEEEecCCCCCCccCCccccccCCCC
Q 000879 1185 GEVMLICGDESGSVGCGVGMHIDCCDPP 1212 (1239)
Q Consensus 1185 ~~~lLlCd~~~g~~~C~~~yH~~Cl~Pp 1212 (1239)
.+.|.-|. .|.++||+..|.|+
T Consensus 121 ~nVLFRC~------~C~RawH~~HLP~~ 142 (175)
T PF15446_consen 121 DNVLFRCT------SCHRAWHFEHLPPP 142 (175)
T ss_pred hheEEecC------CccceeehhhCCCC
Confidence 45788899 99999999999654
No 88
>PF12678 zf-rbx1: RING-H2 zinc finger; InterPro: IPR024766 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 domain constitutes a conserved region found in proteins that participate in diverse functions relevant to chromosome metabolism and cell cycle control [].The domain contains 8 cysteine/ histidine residues which are proposed to be the conserved residues involved in zinc binding.; PDB: 4A0C_D 4A0L_I 4A0K_B 2ECL_A 1LDK_C 3RTR_F 3DQV_Y 1U6G_B 1LDJ_B 2HYE_D ....
Probab=30.83 E-value=13 Score=34.50 Aligned_cols=25 Identities=32% Similarity=0.741 Sum_probs=17.6
Q ss_pred ccCCccccccCCCCCCCCCCCCccCcccC
Q 000879 1199 GCGVGMHIDCCDPPLESVPEEDWFCPTCT 1227 (1239)
Q Consensus 1199 ~C~~~yH~~Cl~PpL~~vP~gdW~Cp~C~ 1227 (1239)
.|...||..|+..=|.. ...||-|+
T Consensus 49 ~C~H~FH~~Ci~~Wl~~----~~~CP~CR 73 (73)
T PF12678_consen 49 PCGHIFHFHCISQWLKQ----NNTCPLCR 73 (73)
T ss_dssp TTSEEEEHHHHHHHHTT----SSB-TTSS
T ss_pred ccCCCEEHHHHHHHHhc----CCcCCCCC
Confidence 69999999999544432 24899885
No 89
>cd00162 RING RING-finger (Really Interesting New Gene) domain, a specialized type of Zn-finger of 40 to 60 residues that binds two atoms of zinc; defined by the 'cross-brace' motif C-X2-C-X(9-39)-C-X(1-3)- H-X(2-3)-(N/C/H)-X2-C-X(4-48)C-X2-C; probably involved in mediating protein-protein interactions; identified in a proteins with a wide range of functions such as viral replication, signal transduction, and development; has two variants, the C3HC4-type and a C3H2C3-type (RING-H2 finger), which have different cysteine/histidine pattern; a subset of RINGs are associated with B-Boxes (C-X2-H-X7-C-X7-C-X2-C-H-X2-H)
Probab=30.48 E-value=13 Score=29.26 Aligned_cols=42 Identities=29% Similarity=0.469 Sum_probs=27.5
Q ss_pred ccccCCCCCCCcEEEecCCCCCCccCCccccccCCCCCCCCCCCCccCcccCc
Q 000879 1176 CQACGCSDRGEVMLICGDESGSVGCGVGMHIDCCDPPLESVPEEDWFCPTCTR 1228 (1239)
Q Consensus 1176 C~vC~~~~~~~~lLlCd~~~g~~~C~~~yH~~Cl~PpL~~vP~gdW~Cp~C~~ 1228 (1239)
|.+|...-. ..+... .|...||..|+..-+.. +...||.|..
T Consensus 2 C~iC~~~~~--~~~~~~------~C~H~~c~~C~~~~~~~---~~~~Cp~C~~ 43 (45)
T cd00162 2 CPICLEEFR--EPVVLL------PCGHVFCRSCIDKWLKS---GKNTCPLCRT 43 (45)
T ss_pred CCcCchhhh--CceEec------CCCChhcHHHHHHHHHh---CcCCCCCCCC
Confidence 677776541 223333 58888999998655443 5678999975
No 90
>PF07227 DUF1423: Protein of unknown function (DUF1423); InterPro: IPR004082 A total of 715 potential protein-coding genes have been identified in the nucleotide sequence of Arabidopsis thaliana chromosome 5, with an average gene density of 1 gene per 4001 bp []. Amongst the gene products is a well-conserved family of 130.7kDa proteins that share no sequence similarity with any other known proteins, other than in plants. The sequences are characterised by an N-terminal domain of variable length, a central cysteine-rich region and a relatively acidic C-terminal domain. The sequences may possess a PHD finger.
Probab=30.22 E-value=42 Score=41.19 Aligned_cols=56 Identities=21% Similarity=0.457 Sum_probs=39.1
Q ss_pred CCCCccccccccCCCC---CCCcEEEecCCCCCCccCCccccccCCC-CC-------CC---CCCCCccCcccCcC
Q 000879 1168 DYDTDKITCQACGCSD---RGEVMLICGDESGSVGCGVGMHIDCCDP-PL-------ES---VPEEDWFCPTCTRS 1229 (1239)
Q Consensus 1168 ~~~~~~~~C~vC~~~~---~~~~lLlCd~~~g~~~C~~~yH~~Cl~P-pL-------~~---vP~gdW~Cp~C~~~ 1229 (1239)
+.-.....|.+|++.+ ++-.-|-|| .|....|+.|--- .+ .. ..++..||..|-..
T Consensus 123 ~gFC~~C~C~iC~kfD~~~n~~~Wi~Cd------~CgH~cH~dCALr~~~i~~G~s~~g~~g~~d~~f~C~~C~~~ 192 (446)
T PF07227_consen 123 PGFCRRCMCCICSKFDDNKNTCSWIGCD------VCGHWCHLDCALRHELIGTGPSVKGSIGTLDMQFHCRACGKT 192 (446)
T ss_pred CCccccCCccccCCcccCCCCeeEEecc------CCCceehhhhhcccccccCCccCCCCCccCceEEEccCCCCh
Confidence 3456677788998876 345678899 9999999999421 11 11 13567999999654
No 91
>cd00730 rubredoxin Rubredoxin; nonheme iron binding domains containing a [Fe(SCys)4] center. Rubredoxins are small nonheme iron proteins. The iron atom is coordinated by four cysteine residues (Fe(S-Cys)4), but iron can also be replaced by cobalt, nickel or zinc. They are believed to be involved in electron transfer.
Probab=28.60 E-value=33 Score=30.15 Aligned_cols=17 Identities=41% Similarity=1.242 Sum_probs=12.8
Q ss_pred CCCCCCCccCcccCcCCC
Q 000879 1214 ESVPEEDWFCPTCTRSRI 1231 (1239)
Q Consensus 1214 ~~vP~gdW~Cp~C~~~r~ 1231 (1239)
..+|+ +|.||.|...+.
T Consensus 29 ~~Lp~-~w~CP~C~a~K~ 45 (50)
T cd00730 29 EDLPD-DWVCPVCGAGKD 45 (50)
T ss_pred hHCCC-CCCCCCCCCcHH
Confidence 44666 899999987653
No 92
>PF08746 zf-RING-like: RING-like domain; InterPro: IPR014857 This is a zinc finger domain that is related to the C3HC4 RING finger domain (IPR001841 from INTERPRO). ; PDB: 3NW0_A 2CT0_A.
Probab=27.64 E-value=15 Score=31.05 Aligned_cols=43 Identities=28% Similarity=0.676 Sum_probs=20.9
Q ss_pred ccccCCCCCCCcEEEecCCCCCCccCCccccccCCCCCCCCCCCCccCccc
Q 000879 1176 CQACGCSDRGEVMLICGDESGSVGCGVGMHIDCCDPPLESVPEEDWFCPTC 1226 (1239)
Q Consensus 1176 C~vC~~~~~~~~lLlCd~~~g~~~C~~~yH~~Cl~PpL~~vP~gdW~Cp~C 1226 (1239)
|.+|+.-.-.+ +.|.++ .|...+|.+|+.--+...... -||.|
T Consensus 1 C~~C~~iv~~G--~~C~~~----~C~~r~H~~C~~~y~r~~~~~--~CP~C 43 (43)
T PF08746_consen 1 CEACKEIVTQG--QRCSNR----DCNVRLHDDCFKKYFRHRSNP--KCPNC 43 (43)
T ss_dssp -TTT-SB-SSS--EE-SS------S--EE-HHHHHHHTTT-SS---B-TTT
T ss_pred CcccchhHeee--ccCCCC----ccCchHHHHHHHHHHhcCCCC--CCcCC
Confidence 56676654322 568854 799999999996655554432 78877
No 93
>PF00301 Rubredoxin: Rubredoxin; InterPro: IPR004039 Rubredoxin is a low molecular weight iron-containing bacterial protein involved in electron transfer [, ], sometimes replacing ferredoxin as an electron carrier []. The 3-D structures of a number of rubredoxins have been solved [, ]. The fold belongs to the alpha+beta class, with 2 alpha-helices and 2-3 beta-strands. Its active site contains an iron ion which is co-ordinated by the sulphurs of four conserved cysteine residues forming an almost regular tetrahedron. The conserved cysteines reside on two loops, which are the most conserved regions of the protein. In addition, a ring of acidic residues in the proximity of the [Fe(Cys)4] centre is also well-conserved []. ; GO: 0009055 electron carrier activity, 0046872 metal ion binding; PDB: 2RDV_C 1RDV_A 1S24_A 1T9O_B 1B2J_A 1SMW_A 2PVE_B 1BFY_A 1T9P_C 1C09_C ....
Probab=27.04 E-value=31 Score=29.99 Aligned_cols=17 Identities=41% Similarity=1.281 Sum_probs=9.9
Q ss_pred CCCCCCCccCcccCcCCC
Q 000879 1214 ESVPEEDWFCPTCTRSRI 1231 (1239)
Q Consensus 1214 ~~vP~gdW~Cp~C~~~r~ 1231 (1239)
..+|+ +|.||.|...+.
T Consensus 29 ~~Lp~-~w~CP~C~a~K~ 45 (47)
T PF00301_consen 29 EDLPD-DWVCPVCGAPKS 45 (47)
T ss_dssp GGS-T-T-B-TTTSSBGG
T ss_pred HHCCC-CCcCcCCCCccc
Confidence 44554 699999987753
No 94
>PF13771 zf-HC5HC2H: PHD-like zinc-binding domain
Probab=25.91 E-value=45 Score=31.35 Aligned_cols=33 Identities=27% Similarity=0.773 Sum_probs=25.9
Q ss_pred cccccccCCCCCCCcEEEecCCCCCCccCCccccccCCC
Q 000879 1173 KITCQACGCSDRGEVMLICGDESGSVGCGVGMHIDCCDP 1211 (1239)
Q Consensus 1173 ~~~C~vC~~~~~~~~lLlCd~~~g~~~C~~~yH~~Cl~P 1211 (1239)
...|.+|+.. .+..|-|.. ..|...||..|..-
T Consensus 36 ~~~C~~C~~~--~Ga~i~C~~----~~C~~~fH~~CA~~ 68 (90)
T PF13771_consen 36 KLKCSICKKK--GGACIGCSH----PGCSRSFHVPCARK 68 (90)
T ss_pred CCCCcCCCCC--CCeEEEEeC----CCCCcEEChHHHcc
Confidence 4569999988 236788984 48999999999743
No 95
>PHA02929 N1R/p28-like protein; Provisional
Probab=25.78 E-value=28 Score=39.57 Aligned_cols=49 Identities=20% Similarity=0.341 Sum_probs=31.9
Q ss_pred ccccccccCCCCCCCc-----EEEecCCCCCCccCCccccccCCCCCCCCCCCCccCcccCcCC
Q 000879 1172 DKITCQACGCSDRGEV-----MLICGDESGSVGCGVGMHIDCCDPPLESVPEEDWFCPTCTRSR 1230 (1239)
Q Consensus 1172 ~~~~C~vC~~~~~~~~-----lLlCd~~~g~~~C~~~yH~~Cl~PpL~~vP~gdW~Cp~C~~~r 1230 (1239)
.+..|.+|...-.... ...-. .|...||..|+.+-+..- =.||.|+..-
T Consensus 173 ~~~eC~ICle~~~~~~~~~~~~~vl~------~C~H~FC~~CI~~Wl~~~----~tCPlCR~~~ 226 (238)
T PHA02929 173 KDKECAICMEKVYDKEIKNMYFGILS------NCNHVFCIECIDIWKKEK----NTCPVCRTPF 226 (238)
T ss_pred CCCCCccCCcccccCccccccceecC------CCCCcccHHHHHHHHhcC----CCCCCCCCEe
Confidence 3567999988632211 11122 589999999997755442 2799998764
No 96
>PF07649 C1_3: C1-like domain; InterPro: IPR011424 This short domain is rich in cysteines and histidines. The pattern of conservation is similar to that found in IPR002219 from INTERPRO. C1 domains are protein kinase C-like zinc finger structures. Diacylglycerol (DAG) kinases (DGKs) have a two or three commonly conserved cysteine-rich C1 domains []. DGKs modulate the balance between the two signaling lipids, DAG and phosphatidic acid (PA), by phosphorylating DAG to yield PA []. The PKD (protein kinase D) family are novel DAG receptors. They have twin C1 domains, designated C1a and C1b, which bind DAG or phorbol esters. Individual C1 domains differ in ligand-binding activity and selectivity []. ; GO: 0047134 protein-disulfide reductase activity, 0055114 oxidation-reduction process; PDB: 1V5N_A.
Probab=23.45 E-value=35 Score=26.41 Aligned_cols=29 Identities=31% Similarity=0.831 Sum_probs=12.7
Q ss_pred cccccCCCCCCCcEEEecCCCCCCccCCccccccC
Q 000879 1175 TCQACGCSDRGEVMLICGDESGSVGCGVGMHIDCC 1209 (1239)
Q Consensus 1175 ~C~vC~~~~~~~~lLlCd~~~g~~~C~~~yH~~Cl 1209 (1239)
.|.+|+....+.....|. .|+-..|..|.
T Consensus 2 ~C~~C~~~~~~~~~Y~C~------~Cdf~lH~~Ca 30 (30)
T PF07649_consen 2 RCDACGKPIDGGWFYRCS------ECDFDLHEECA 30 (30)
T ss_dssp --TTTS----S--EEE-T------TT-----HHHH
T ss_pred cCCcCCCcCCCCceEECc------cCCCccChhcC
Confidence 589999988776788899 99999998873
No 97
>COG5275 BRCT domain type II [General function prediction only]
Probab=21.08 E-value=2.6e+02 Score=31.74 Aligned_cols=61 Identities=15% Similarity=0.196 Sum_probs=39.8
Q ss_pred CeEEEEecCh--HhHHHHHHHHHHhCCEEEecCCCccCcccEEEcCCCCCcHHHHHHHhcCCeEec
Q 000879 930 PIWFILSGHR--LQRKEFQVVIRHLKGRLCRDSHQWSYQATHFIAPEIRRTEKFFAAAASGRWILK 993 (1239)
Q Consensus 930 ~~vfllSGLs--~erkeL~k~IkqLGG~V~~d~s~fd~scTHLI~~k~~RT~KfL~AIA~GkWIVs 993 (1239)
-.+|+|||.- ..|..-..+++++||.|...+ +..+|.||.+.-----|+--+--.+...+.
T Consensus 159 G~~fVfTG~l~TlsR~~a~~lvk~yGgrvT~~p---SskTtflvlGdnaGP~K~ekiKqlkIkaid 221 (276)
T COG5275 159 GKVFVFTGDLKTLSRDDAKTLVKVYGGRVTAVP---SSKTTFLVLGDNAGPSKMEKIKQLKIKAID 221 (276)
T ss_pred ccEEEEecccccccchhHHHHHHHhCCeeeccc---ccceeEEEecCCCChHHHHHHHHhCCcccc
Confidence 4699999962 566677889999999997653 467888888872211244333344444433
No 98
>PF05221 AdoHcyase: S-adenosyl-L-homocysteine hydrolase; InterPro: IPR000043 Adenosylhomocysteinase (S-adenosyl-L-homocysteine hydrolase, 3.3.1.1 from EC) (AdoHcyase) is an enzyme of the activated methyl cycle, responsible for the reversible hydration of S-adenosyl-L-homocysteine into adenosine and homocysteine. This enzyme is ubiquitous, highly conserved, and may play a key role in the regulation of the intracellular concentration of adenosylhomocysteine. AdoHcyase requires NAD+ as a cofactor and contains a central glycine-rich region which is thought to be involved in NAD-binding.; GO: 0004013 adenosylhomocysteinase activity, 0006730 one-carbon metabolic process; PDB: 3N58_B 3H9U_C 2ZJ1_C 3DHY_B 2ZIZ_C 2ZJ0_D 3CE6_B 1K0U_F 1B3R_A 1XWF_D ....
Probab=20.98 E-value=2.4e+02 Score=32.91 Aligned_cols=37 Identities=16% Similarity=0.128 Sum_probs=28.7
Q ss_pred cCCCCCCCceEEEecCCCCCCHHHHHHHHHhCCcEEec
Q 000879 1040 TGHGAFHGMRIIVYGDCIAPPLDTLKRVVKAGDGNILA 1077 (1239)
Q Consensus 1040 ~~~kLFsG~~f~L~~~~v~p~~~~LkrLIeaGGGkVv~ 1077 (1239)
...++|.|.+|..+ -.+......|.+.|.++|+.|.-
T Consensus 36 ~~~kPl~G~rIa~c-LHle~kTA~L~~tL~a~GAeV~~ 72 (268)
T PF05221_consen 36 EAEKPLKGARIAGC-LHLEAKTAVLAETLKALGAEVRW 72 (268)
T ss_dssp TTT-TTTTEEEEEE-S--SHHHHHHHHHHHHTTEEEEE
T ss_pred hccCCCCCCEEEEE-EechHHHHHHHHHHHHcCCeEEE
Confidence 35799999999986 34556788999999999999964
No 99
>KOG3612 consensus PHD Zn-finger protein [General function prediction only]
Probab=20.25 E-value=89 Score=39.24 Aligned_cols=51 Identities=18% Similarity=0.246 Sum_probs=39.3
Q ss_pred CCccccccccCCCCCCCcEEEecCCCCCCccCCccccccCCCCCCCCCC--CCccCcccCcCC
Q 000879 1170 DTDKITCQACGCSDRGEVMLICGDESGSVGCGVGMHIDCCDPPLESVPE--EDWFCPTCTRSR 1230 (1239)
Q Consensus 1170 ~~~~~~C~vC~~~~~~~~lLlCd~~~g~~~C~~~yH~~Cl~PpL~~vP~--gdW~Cp~C~~~r 1230 (1239)
...+.+|.-|+-.+ ..|.|+ -|-+.||..|+.|- ..++. --|-||.|..-.
T Consensus 57 ~N~d~~cfechlpg---~vl~c~------vc~Rs~h~~c~sp~-~q~r~~s~p~~~p~p~s~k 109 (588)
T KOG3612|consen 57 SNIDPFCFECHLPG---AVLKCI------VCHRSFHENCQSPD-PQKRNYSVPSDKPQPYSFK 109 (588)
T ss_pred cCCCcccccccCCc---ceeeee------hhhccccccccCcc-hhhccccccccCCcccccC
Confidence 34567799998886 778999 99999999999876 34443 359999996543
Done!