Query 000611
Match_columns 1391
No_of_seqs 597 out of 1702
Neff 6.5
Searched_HMMs 46136
Date Mon Apr 1 20:37:03 2013
Command hhsearch -i /work/01045/syshi/lefta3m/000611.a3m -d /work/01045/syshi/HHdatabase/Cdd.hhm -o /work/01045/syshi/leftcdd/000611hhsearch_cdd -cpu 12 -v 0
No Hit Prob E-value P-value Score SS Cols Query HMM Template HMM
1 PF08429 PLU-1: PLU-1-like pro 100.0 8.5E-40 1.8E-44 384.7 34.2 317 269-595 1-333 (335)
2 PF08429 PLU-1: PLU-1-like pro 100.0 5E-37 1.1E-41 361.3 33.1 308 426-746 2-335 (335)
3 KOG1246 DNA-binding protein ju 100.0 3.6E-33 7.7E-38 364.6 7.0 223 1-228 372-599 (904)
4 KOG0958 DNA damage-responsive 99.9 2.8E-23 6E-28 248.2 4.7 90 2-91 217-306 (690)
5 PF02928 zf-C5HC2: C5HC2 zinc 99.5 5E-15 1.1E-19 127.6 4.4 54 170-223 1-54 (54)
6 PF02373 JmjC: JmjC domain, hy 99.5 9.8E-15 2.1E-19 145.0 4.3 73 2-77 42-114 (114)
7 COG5034 TNG2 Chromatin remodel 99.1 4.3E-11 9.4E-16 129.6 3.6 49 1246-1295 217-269 (271)
8 KOG1973 Chromatin remodeling p 99.0 1.6E-10 3.5E-15 132.3 3.3 53 1245-1298 214-270 (274)
9 KOG4323 Polycomb-like PHD Zn-f 98.6 1.9E-08 4.2E-13 119.5 3.8 51 1250-1300 171-228 (464)
10 PF00628 PHD: PHD-finger; Int 98.5 1.8E-08 4E-13 86.0 -0.2 44 1252-1295 1-50 (51)
11 smart00249 PHD PHD zinc finger 98.3 4.9E-07 1.1E-11 75.0 2.6 42 1252-1293 1-47 (47)
12 PF00628 PHD: PHD-finger; Int 98.2 2.8E-07 6.1E-12 78.7 0.9 48 994-1041 1-49 (51)
13 smart00249 PHD PHD zinc finger 98.0 4.7E-06 1E-10 69.0 3.2 47 994-1040 1-47 (47)
14 KOG1632 Uncharacterized PHD Zn 98.0 5.8E-07 1.3E-11 106.0 -3.2 60 994-1053 62-123 (345)
15 KOG1512 PHD Zn-finger protein 97.7 1.1E-05 2.4E-10 88.8 0.7 45 1254-1298 319-365 (381)
16 KOG1973 Chromatin remodeling p 97.6 2.3E-05 5E-10 90.3 1.8 49 988-1041 215-266 (274)
17 KOG4443 Putative transcription 96.8 0.00029 6.3E-09 86.3 -0.7 53 993-1045 19-73 (694)
18 KOG4323 Polycomb-like PHD Zn-f 96.6 0.00072 1.6E-08 81.4 0.8 47 995-1041 171-222 (464)
19 KOG4299 PHD Zn-finger protein 96.2 0.0032 6.9E-08 77.5 3.8 45 1251-1295 254-304 (613)
20 KOG1632 Uncharacterized PHD Zn 96.1 0.0016 3.5E-08 77.3 0.0 53 1249-1301 59-118 (345)
21 KOG2752 Uncharacterized conser 95.8 0.0049 1.1E-07 70.0 2.4 35 1248-1282 126-167 (345)
22 KOG0825 PHD Zn-finger protein 95.7 0.0046 9.9E-08 76.7 1.7 49 995-1044 218-267 (1134)
23 KOG1512 PHD Zn-finger protein 95.6 0.0054 1.2E-07 68.3 1.7 50 989-1041 311-361 (381)
24 KOG1244 Predicted transcriptio 95.4 0.0068 1.5E-07 67.3 1.5 52 989-1041 278-329 (336)
25 KOG1844 PHD Zn-finger proteins 95.1 0.013 2.8E-07 73.8 3.0 54 1248-1301 84-140 (508)
26 PF13831 PHD_2: PHD-finger; PD 94.9 0.0058 1.3E-07 48.6 -0.5 33 1262-1294 2-36 (36)
27 KOG0955 PHD finger protein BR1 94.8 0.017 3.8E-07 76.2 3.0 72 988-1062 215-293 (1051)
28 KOG0957 PHD finger protein [Ge 94.7 0.014 3E-07 69.4 1.8 54 995-1048 547-603 (707)
29 KOG0825 PHD Zn-finger protein 94.4 0.021 4.6E-07 71.1 2.3 47 1250-1296 215-266 (1134)
30 KOG0954 PHD finger protein [Ge 94.2 0.027 5.9E-07 70.1 2.7 69 991-1062 270-343 (893)
31 KOG4299 PHD Zn-finger protein 94.1 0.019 4.2E-07 70.9 1.2 52 992-1043 253-305 (613)
32 COG5034 TNG2 Chromatin remodel 93.7 0.037 8E-07 61.6 2.2 48 989-1041 218-268 (271)
33 KOG0954 PHD finger protein [Ge 93.4 0.045 9.7E-07 68.3 2.6 47 1249-1295 270-320 (893)
34 KOG0955 PHD finger protein BR1 91.9 0.12 2.5E-06 68.8 3.6 56 1245-1300 215-273 (1051)
35 PF13831 PHD_2: PHD-finger; PD 91.1 0.04 8.6E-07 43.9 -1.1 35 1005-1041 2-36 (36)
36 KOG0994 Extracellular matrix g 90.7 73 0.0016 43.1 25.8 27 36-62 1135-1161(1758)
37 KOG0957 PHD finger protein [Ge 90.7 0.16 3.4E-06 60.9 2.6 48 1250-1297 120-180 (707)
38 KOG1244 Predicted transcriptio 89.6 0.18 3.9E-06 56.5 1.9 44 1252-1295 283-330 (336)
39 KOG0994 Extracellular matrix g 89.6 94 0.002 42.1 26.8 45 490-534 1489-1535(1758)
40 KOG1245 Chromatin remodeling c 89.4 0.1 2.2E-06 71.9 -0.2 56 988-1044 1104-1159(1404)
41 KOG0383 Predicted helicase [Ge 88.7 0.17 3.7E-06 64.8 1.1 52 989-1044 44-95 (696)
42 PF07227 DUF1423: Protein of u 88.5 5.3 0.00011 48.7 13.1 36 895-930 21-56 (446)
43 cd04718 BAH_plant_2 BAH, or Br 87.7 0.4 8.6E-06 50.2 2.8 32 1016-1048 1-32 (148)
44 KOG1245 Chromatin remodeling c 86.6 0.15 3.2E-06 70.4 -1.3 51 1248-1298 1106-1160(1404)
45 COG5141 PHD zinc finger-contai 83.5 0.5 1.1E-05 56.8 1.3 51 991-1045 192-245 (669)
46 KOG0956 PHD finger protein AF1 81.0 0.94 2E-05 56.6 2.4 46 1250-1295 6-56 (900)
47 KOG0383 Predicted helicase [Ge 78.2 1.7 3.6E-05 56.2 3.4 41 1252-1295 50-93 (696)
48 KOG1829 Uncharacterized conser 77.0 3.3 7.2E-05 52.4 5.4 31 1262-1296 529-559 (580)
49 PF14446 Prok-RING_1: Prokaryo 71.8 2.2 4.7E-05 37.2 1.4 34 991-1024 4-38 (54)
50 PF13901 DUF4206: Domain of un 71.4 4 8.6E-05 45.4 3.8 67 962-1041 124-196 (202)
51 PF07227 DUF1423: Protein of u 68.6 3.8 8.2E-05 49.9 3.1 46 1252-1298 131-194 (446)
52 KOG2752 Uncharacterized conser 67.2 2.9 6.4E-05 48.3 1.7 35 991-1025 127-167 (345)
53 COG5141 PHD zinc finger-contai 66.5 2.3 4.9E-05 51.5 0.6 45 1254-1298 198-245 (669)
54 KOG1246 DNA-binding protein ju 63.1 3.2 7E-05 56.2 1.2 87 806-909 804-892 (904)
55 COG5415 Predicted integral mem 62.7 6.2 0.00013 43.2 3.0 36 1262-1299 190-226 (251)
56 KOG4443 Putative transcription 61.5 4.5 9.7E-05 51.1 1.9 55 989-1044 65-119 (694)
57 KOG2626 Histone H3 (Lys4) meth 60.7 6 0.00013 48.9 2.8 49 1248-1296 18-76 (544)
58 PF13639 zf-RING_2: Ring finge 57.4 2 4.3E-05 35.5 -1.5 42 994-1041 2-44 (44)
59 KOG0956 PHD finger protein AF1 57.2 5.1 0.00011 50.5 1.4 44 995-1041 8-55 (900)
60 PF15446 zf-PHD-like: PHD/FYVE 56.7 6.2 0.00014 42.1 1.7 47 995-1041 2-58 (175)
61 KOG1829 Uncharacterized conser 55.6 5.6 0.00012 50.4 1.4 49 988-1044 506-560 (580)
62 KOG1844 PHD Zn-finger proteins 55.4 5.7 0.00012 50.2 1.5 51 991-1044 85-136 (508)
63 cd04718 BAH_plant_2 BAH, or Br 51.7 11 0.00025 39.6 2.6 28 1274-1301 2-32 (148)
64 KOG2114 Vacuolar assembly/sort 51.5 21 0.00045 46.7 5.3 40 992-1041 840-879 (933)
65 PF11793 FANCL_C: FANCL C-term 48.1 8.6 0.00019 35.4 1.0 49 993-1041 3-62 (70)
66 KOG4628 Predicted E3 ubiquitin 46.1 14 0.00031 44.1 2.7 45 993-1041 230-274 (348)
67 PHA02929 N1R/p28-like protein; 45.7 26 0.00056 40.1 4.5 48 989-1041 171-223 (238)
68 COG1340 Uncharacterized archae 44.6 3.8E+02 0.0081 31.8 13.6 128 395-533 90-220 (294)
69 PF15446 zf-PHD-like: PHD/FYVE 42.7 33 0.00072 36.8 4.4 38 1262-1299 15-63 (175)
70 PF12678 zf-rbx1: RING-H2 zinc 42.7 9.8 0.00021 35.3 0.5 43 994-1041 21-73 (73)
71 PF06008 Laminin_I: Laminin Do 42.6 4.2E+02 0.009 30.7 14.0 39 370-408 54-93 (264)
72 KOG2910 Uncharacterized conser 42.5 5.1E+02 0.011 28.7 13.6 43 514-556 123-165 (209)
73 smart00154 ZnF_AN1 AN1-like Zi 41.4 14 0.0003 30.2 1.1 26 170-197 1-27 (39)
74 PF13341 RAG2_PHD: RAG2 PHD do 40.4 12 0.00027 34.0 0.8 33 1263-1295 29-70 (78)
75 PF07496 zf-CW: CW-type Zinc F 35.4 25 0.00054 30.3 1.8 29 1263-1292 2-34 (50)
76 KOG1886 BAH domain proteins [T 35.0 52 0.0011 40.8 5.0 53 1244-1296 165-218 (464)
77 PF07649 C1_3: C1-like domain; 34.6 13 0.00028 28.4 -0.1 29 994-1022 2-30 (30)
78 PF04065 Not3: Not1 N-terminal 34.1 98 0.0021 35.4 6.7 37 412-454 49-85 (233)
79 KOG4628 Predicted E3 ubiquitin 32.1 89 0.0019 37.7 6.2 48 1250-1297 230-277 (348)
80 PF13832 zf-HC5HC2H_2: PHD-zin 32.0 19 0.00041 35.8 0.7 31 1250-1282 56-88 (110)
81 PF13922 PHD_3: PHD domain of 30.8 8.8 0.00019 34.6 -1.7 30 1250-1283 33-62 (69)
82 COG5243 HRD1 HRD ubiquitin lig 30.0 35 0.00076 40.6 2.4 48 989-1041 284-341 (491)
83 PF13922 PHD_3: PHD domain of 29.8 12 0.00026 33.7 -1.0 22 1004-1025 40-61 (69)
84 PF13771 zf-HC5HC2H: PHD-like 29.4 44 0.00095 31.8 2.7 30 1252-1283 39-70 (90)
85 PF13901 DUF4206: Domain of un 29.4 1.7E+02 0.0037 32.6 7.6 39 1252-1296 154-198 (202)
86 PRK03564 formate dehydrogenase 29.1 3E+02 0.0065 32.9 9.9 32 989-1020 184-225 (309)
87 PLN03208 E3 ubiquitin-protein 27.8 42 0.0009 37.1 2.4 48 1247-1297 15-78 (193)
88 PF13832 zf-HC5HC2H_2: PHD-zin 26.9 31 0.00067 34.2 1.2 31 991-1023 54-86 (110)
89 PF07649 C1_3: C1-like domain; 26.3 24 0.00051 26.9 0.2 26 1254-1279 5-30 (30)
90 cd00162 RING RING-finger (Real 25.5 19 0.00041 28.6 -0.5 41 995-1041 2-42 (45)
91 cd00350 rubredoxin_like Rubred 25.4 41 0.00089 26.3 1.3 23 1009-1042 3-25 (33)
92 KOG2041 WD40 repeat protein [G 25.3 65 0.0014 41.4 3.6 88 950-1041 1075-1163(1189)
93 KOG4718 Non-SMC (structural ma 24.0 46 0.001 36.9 1.9 43 995-1041 184-226 (235)
94 COG5415 Predicted integral mem 22.6 73 0.0016 35.3 3.0 36 1004-1044 189-224 (251)
95 TIGR01562 FdhE formate dehydro 22.1 4E+02 0.0087 31.8 9.2 31 990-1020 182-223 (305)
96 PF08580 KAR9: Yeast cortical 22.1 1.3E+03 0.029 30.7 14.8 51 505-555 24-75 (683)
97 PHA03247 large tegument protei 20.6 3.4E+03 0.074 31.4 27.8 107 319-454 1318-1436(3151)
No 1
>PF08429 PLU-1: PLU-1-like protein; InterPro: IPR013637 This domain is found in the central region of lysine-specific demethylases, which are nuclear proteins that may have a role in DNA-binding and transcription, and are associated with malignant cancer phenotypes []. The domain is also found in various other Jumonji/ARID domain-containing proteins (see IPR013129 from INTERPRO, IPR001606 from INTERPRO). ; GO: 0016706 oxidoreductase activity, acting on paired donors, with incorporation or reduction of molecular oxygen, 2-oxoglutarate as one donor, and incorporation of one atom each of oxygen into both donors, 0055114 oxidation-reduction process
Probab=100.00 E-value=8.5e-40 Score=384.72 Aligned_cols=317 Identities=24% Similarity=0.383 Sum_probs=289.5
Q ss_pred HHHHhhHHHhhc--cCCChhHHHHHHHHHHhcccCCcchHHHHHHHHHHHHHHhhhhhhhhhhhhhccccCCCC-----C
Q 000611 269 EQWLSCSLKVLQ--GLFSSDAYGTLLREAEQFLWAGFEMDAVRDMVNKLIEGRRWAEGIRDCLHKAENWSSLPG-----S 341 (1391)
Q Consensus 269 e~W~~~~~~iL~--~~~~l~~l~~LL~EaE~~~~~~~~~~~lr~l~~~l~ea~~W~e~a~~c~s~~q~~~~~~~-----~ 341 (1391)
|.|.++++++|. ..++++.|++||+|||+++||.+ ++|+.|+..|.+|+.|++.|+.+++++++.+.+.. +
T Consensus 1 d~W~~k~~~~l~~~~k~~L~~l~~Ll~e~e~~~~~~~--~l~~~L~~~v~~a~~~~~~a~~~l~~k~~~r~~~~~~~~~~ 78 (335)
T PF08429_consen 1 DTWAEKVKEALEESPKPSLKELRSLLSEGEKIPFPLP--ELLENLRNFVKRAESWVEKAQQLLSRKQRTRRRNGKAEDQK 78 (335)
T ss_pred ChhHHHHHHHHhcCCCCCHHHHHHHHHHHHhCCCCCH--HHHHHHHHHHHHHHHHHHHHHHHhcccccccccCCcccccc
Confidence 479999999994 45689999999999999999997 56677778899999999999999999998765542 3
Q ss_pred CCccccHHHHhhhhc-CCCCCCCCCchHHHHHHHHHHHHHHHHHHHHHhc--CCCHHHHHHHHHhhcCCCccccccHHHH
Q 000611 342 DSEKVRLDCVNELLG-FDPLPCNEPGHLILQNYAEEARSLIQEINAALSA--CSKISELELLYSRASGLPICIVESEKLS 418 (1391)
Q Consensus 342 ~~~kl~leeL~~ll~-~~~lpc~~pe~~~Lkel~~~~e~~~~e~~~~L~~--~~~i~eLe~Ll~~g~~~~V~lpEl~kLk 418 (1391)
++.++++++|+.|++ +.+|||++||+.+|+++++.+++|+.+|+.+|+. .+++++++.||++|.+|+|++||+..|+
T Consensus 79 ~~~~~~l~~l~~Ll~e~~~L~~~~pEi~~L~~l~~~ve~f~~~a~~~L~~~~~~~~~~le~Ll~~g~s~~v~lpel~~L~ 158 (335)
T PF08429_consen 79 SRNKLTLEELEALLEEIESLPFDCPEIDQLKELLEEVEEFQSRAQEALSDPESPSLEELEELLEEGESFGVDLPELDQLR 158 (335)
T ss_pred ccccCCHHHHHHHHHHHhcCCeeCchHHHHHHHHHHHHHHHHHHHHHHhccccCCHHHHHHHHHhcccCceeChhHHHHH
Confidence 678899999999999 9999999999999999999999999999999986 4679999999999999999999999999
Q ss_pred HHHHhhhHHHHHHHHHhhccCCCcccHHHHHHHHHHhhhcCCCCCch----HHHHHHHHHHHHHHHHHHHhhc-CCCCHH
Q 000611 419 QRISSAKVWRDSVRKCISNKCPAAIEIDVLYKLESEALDLKIDVPET----DMLLKMIGQAESCRARCSEALR-GSMSLK 493 (1391)
Q Consensus 419 ~rle~~k~W~~~v~~~L~~~~~~~~tLe~Lr~Ll~Ea~~l~v~~Pe~----d~Lqell~~aE~we~kAq~lL~-~~~sl~ 493 (1391)
+++++.+ |+++|+.++.. +...||++|+.|+++|..++. |.. ..|+++++.|+.|+++|+.+|+ ..++++
T Consensus 159 ~~l~~~~-W~~~~~~~~~~--~~~~tL~~l~~Ll~~g~~l~~--~~~~~~~~~L~~~l~~~~~We~ka~~~L~~~~~~l~ 233 (335)
T PF08429_consen 159 RRLEQLE-WLEEAREILSD--PDRLTLDELRELLDEGERLGI--PSDEKLMAELQELLKQGEEWEEKAKELLSRPRVSLE 233 (335)
T ss_pred HHHHHHH-HHHHHHHHhcc--ccCCcHHHHHHHHHhhhcCCC--ccchHHHHHHHHHHHHHHHHHHHHHHHHhcCCCCHH
Confidence 9999998 99999999753 225899999999999999874 544 4778889999999999999999 569999
Q ss_pred HHHHHHHHhCCCccccccHHHHHHHHHHHHHHHHHHHHHHhhhccCCCCCCCHHHHHHHHHhhccCCcCCCCchhHHHHH
Q 000611 494 TVELLLQELGDFTVNMPELELLKQYHSDAIFWIARLNDILVNINGRKDQHNVIDELNCILKEGASLRIQVDDLPLVEVEL 573 (1391)
Q Consensus 494 eLe~ll~e~~~lpv~lpel~~Lk~~L~ka~~W~~~a~~ll~~~~~~~~~~p~l~eL~~Ll~~g~~L~V~lpel~~LE~~L 573 (1391)
+|++|++++.+|||++|.+..|++++.+|++|+.+++.++.. .++.+|+++++++|+.+|+.|+|.++++++||..+
T Consensus 234 ~Le~l~~~~~~ipv~~~~~~~L~~~l~kak~w~~~i~~ll~~---~~~~~p~~~el~~l~~~~~~L~~~~~~~~~Le~~~ 310 (335)
T PF08429_consen 234 QLEALLEEAENIPVSLPSLDKLKDALQKAKEWLRQIEELLEQ---NGSKRPTLDELEELVAESEELPVKLEELSDLEKQL 310 (335)
T ss_pred HHHHHHHHHhcCCCchHHHHHHHHHHHHHHHHHHHHHHHhcc---cCCCCCcHHHHHHHHHHHhcCCCCCchHHHHHHHH
Confidence 999999999999999999999999999999999999999852 24789999999999999999999999999999999
Q ss_pred HHhH-HHHHHHhhhcCCCCHHHH
Q 000611 574 KKAH-CREKALKACDTKMPLDFI 595 (1391)
Q Consensus 574 ~~a~-Wl~~a~k~~~~k~sL~~L 595 (1391)
.+++ |+++++++|+++|+...|
T Consensus 311 ~~~~~W~~~~~k~F~k~ns~~~l 333 (335)
T PF08429_consen 311 KRAEDWMEKAKKLFLKKNSPLHL 333 (335)
T ss_pred HHHHHHHHHHHHHhcccCchhhh
Confidence 9999 999999999999976654
No 2
>PF08429 PLU-1: PLU-1-like protein; InterPro: IPR013637 This domain is found in the central region of lysine-specific demethylases, which are nuclear proteins that may have a role in DNA-binding and transcription, and are associated with malignant cancer phenotypes []. The domain is also found in various other Jumonji/ARID domain-containing proteins (see IPR013129 from INTERPRO, IPR001606 from INTERPRO). ; GO: 0016706 oxidoreductase activity, acting on paired donors, with incorporation or reduction of molecular oxygen, 2-oxoglutarate as one donor, and incorporation of one atom each of oxygen into both donors, 0055114 oxidation-reduction process
Probab=100.00 E-value=5e-37 Score=361.28 Aligned_cols=308 Identities=26% Similarity=0.464 Sum_probs=285.9
Q ss_pred HHHHHHHHHhhccCCCcccHHHHHHHHHHhhhcCCCCCch-HHHHHHHHHHHHHHHHHHHhhcC----------------
Q 000611 426 VWRDSVRKCISNKCPAAIEIDVLYKLESEALDLKIDVPET-DMLLKMIGQAESCRARCSEALRG---------------- 488 (1391)
Q Consensus 426 ~W~~~v~~~L~~~~~~~~tLe~Lr~Ll~Ea~~l~v~~Pe~-d~Lqell~~aE~we~kAq~lL~~---------------- 488 (1391)
+|.++++++|+ .+.+++|++|+.|+.||+...+.+|+. ..|+..+..|+.|.++|+.+|+.
T Consensus 2 ~W~~k~~~~l~--~~~k~~L~~l~~Ll~e~e~~~~~~~~l~~~L~~~v~~a~~~~~~a~~~l~~k~~~r~~~~~~~~~~~ 79 (335)
T PF08429_consen 2 TWAEKVKEALE--ESPKPSLKELRSLLSEGEKIPFPLPELLENLRNFVKRAESWVEKAQQLLSRKQRTRRRNGKAEDQKS 79 (335)
T ss_pred hhHHHHHHHHh--cCCCCCHHHHHHHHHHHHhCCCCCHHHHHHHHHHHHHHHHHHHHHHHHhcccccccccCCccccccc
Confidence 59999999997 567899999999999999998666666 67888899999999999999964
Q ss_pred --CCCHHHHHHHHHHhCCCccccccHHHHHHHHHHHHHHHHHHHHHHhhhccCCCCCCCHHHHHHHHHhhccCCcCCCCc
Q 000611 489 --SMSLKTVELLLQELGDFTVNMPELELLKQYHSDAIFWIARLNDILVNINGRKDQHNVIDELNCILKEGASLRIQVDDL 566 (1391)
Q Consensus 489 --~~sl~eLe~ll~e~~~lpv~lpel~~Lk~~L~ka~~W~~~a~~ll~~~~~~~~~~p~l~eL~~Ll~~g~~L~V~lpel 566 (1391)
++++++|.+|++++.+|||++|++..|++++..+++|+.++++++. +...+.++++++|++.|.+|+|++|++
T Consensus 80 ~~~~~l~~l~~Ll~e~~~L~~~~pEi~~L~~l~~~ve~f~~~a~~~L~-----~~~~~~~~~le~Ll~~g~s~~v~lpel 154 (335)
T PF08429_consen 80 RNKLTLEELEALLEEIESLPFDCPEIDQLKELLEEVEEFQSRAQEALS-----DPESPSLEELEELLEEGESFGVDLPEL 154 (335)
T ss_pred cccCCHHHHHHHHHHHhcCCeeCchHHHHHHHHHHHHHHHHHHHHHHh-----ccccCCHHHHHHHHHhcccCceeChhH
Confidence 2899999999999999999999999999999999999999999996 235678999999999999999999999
Q ss_pred hhHHHHHHHhHHHHHHHhhhcCC--CCHHHHHHHHHHhcccc-hHHHHHHHHHHHHHHHHHHHHHHHHhhcc-ccCCcch
Q 000611 567 PLVEVELKKAHCREKALKACDTK--MPLDFIRQVTAEAVILQ-IEREKLFIDLSGVLAAAMRWEERAADILI-HKAQMCE 642 (1391)
Q Consensus 567 ~~LE~~L~~a~Wl~~a~k~~~~k--~sL~~L~~li~~g~~l~-~~vE~~~~eLq~ll~~~~~WeekA~~~L~-~~~~l~~ 642 (1391)
+.|+..+++++|.++++..+... .||+.|+.+|+.|..++ +.+++.+++|+.+++.++.|+++|+.+|. ..+++++
T Consensus 155 ~~L~~~l~~~~W~~~~~~~~~~~~~~tL~~l~~Ll~~g~~l~~~~~~~~~~~L~~~l~~~~~We~ka~~~L~~~~~~l~~ 234 (335)
T PF08429_consen 155 DQLRRRLEQLEWLEEAREILSDPDRLTLDELRELLDEGERLGIPSDEKLMAELQELLKQGEEWEEKAKELLSRPRVSLEQ 234 (335)
T ss_pred HHHHHHHHHHHHHHHHHHHhccccCCcHHHHHHHHHhhhcCCCccchHHHHHHHHHHHHHHHHHHHHHHHHhcCCCCHHH
Confidence 99999999999999999988776 89999999999999888 68899999999999999999999999999 6789999
Q ss_pred HHHHHHHhhcCcccCCChHHHHHHHHHHHHHHHhhHHhhhhhcccCCCCCCccchhhHHHHHhccccCcccchhhHHHHH
Q 000611 643 FEDIIRASQDIFVVLPSLDEVQNEISTAKSWLKNSELFLASAFAVAPASCSLLRLESLKDLVSQSKFLKISLKEQTELEK 722 (1391)
Q Consensus 643 lE~iI~ea~~ip~~Lp~~~~Lk~~l~~Ar~Wl~k~~~i~~~~~~~~~~~~~~p~LedL~~Lv~~~~~lpV~leel~~Le~ 722 (1391)
|+++++++.+||+++|+...|++++.+|++|..+++.+... .++.+|++++|+.|+++|..|||++++...|+.
T Consensus 235 Le~l~~~~~~ipv~~~~~~~L~~~l~kak~w~~~i~~ll~~------~~~~~p~~~el~~l~~~~~~L~~~~~~~~~Le~ 308 (335)
T PF08429_consen 235 LEALLEEAENIPVSLPSLDKLKDALQKAKEWLRQIEELLEQ------NGSKRPTLDELEELVAESEELPVKLEELSDLEK 308 (335)
T ss_pred HHHHHHHHhcCCCchHHHHHHHHHHHHHHHHHHHHHHHhcc------cCCCCCcHHHHHHHHHHHhcCCCCCchHHHHHH
Confidence 99999999999999999999999999999999999998531 477899999999999999999999999999999
Q ss_pred HHHHHHhHHHHHHH-HHH-hh-hhhhc
Q 000611 723 VINNCERWQNHASS-LLQ-DA-RCLLD 746 (1391)
Q Consensus 723 ~i~~a~~W~e~A~~-fL~-~s-~~Lle 746 (1391)
++.+|+.|.+++.. |.+ || ++|||
T Consensus 309 ~~~~~~~W~~~~~k~F~k~ns~~~ll~ 335 (335)
T PF08429_consen 309 QLKRAEDWMEKAKKLFLKKNSPLHLLE 335 (335)
T ss_pred HHHHHHHHHHHHHHHhcccCchhhhhC
Confidence 99999999999965 665 88 99886
No 3
>KOG1246 consensus DNA-binding protein jumonji/RBP2/SMCY, contains JmjC domain [General function prediction only]
Probab=99.97 E-value=3.6e-33 Score=364.60 Aligned_cols=223 Identities=37% Similarity=0.664 Sum_probs=179.7
Q ss_pred CchHHHHHHHhhCchhhhcCcccccccceeeChhhHhhCCCceeeeecCCCcEEEecCCccccccccccchhhhcccCCC
Q 000611 1 MSTFFFQVMRSSLPDLFDAQPDLLFQLVTMLNPSVLVENGVPVYSVLQEPGNFVITFPRSYHAGFNFGLNCAEAVNFAPA 80 (1391)
Q Consensus 1 ~a~~fe~~~~~~~p~~~~~~p~~l~~~~~~~~P~~L~~~gv~v~~~~Q~~gefvitfP~ayh~gfn~G~n~~Eavnfa~~ 80 (1391)
.|++||++|++..|++|..|||++++++++++|..|..+|||||+++|+|||||||||++||+|||+||||+|+|||||.
T Consensus 372 ~ae~~e~~~~~~~p~~~~~~pd~~~~~~~~~~p~~l~~~gvpv~~~~q~~ge~vitfP~~Y~~g~~~gf~~~e~vn~ap~ 451 (904)
T KOG1246|consen 372 AAEKFEKAMNKLSPGLFIEQPDLLHALVTLMSPNFLTDEGVPVYRTVQNPGEFVITFPRAYHAGFNCGFNFAEAVNFAPS 451 (904)
T ss_pred hHHHHHHHHHhhCCcccccCcccccccccccCcchhhcCCCCceecccCCCCEeecCCCeeeecccccccHHHhcccCCc
Confidence 48999999999999999999999999999999999999999999999999999999999999999999999999999999
Q ss_pred CccccchhhhHHHHHhcccCCCChHHHHHHHhhhcCCCCchHHH--HHHHHHHHHHHHHHHHHHHhcCcccc-ccCCCCC
Q 000611 81 DWLPHGGFGADLYQQYHKAAVLSHEELLCVVAKSDLDSKVSPYL--KRELLRVYTKERMWRERLWRKGIIKS-TPMGPRK 157 (1391)
Q Consensus 81 ~Wl~~g~~~~~~y~~~~r~~vfsheeLl~~~a~~~~~~~~~~~l--~~~l~~~~~~E~~~R~~l~~~gv~~~-~~~~~~~ 157 (1391)
+||++|+.++++|+...+.++|||++|++.+|.........-++ .............++...+..+++.. ++...
T Consensus 452 dwl~~gr~~~~~~~~~~~~~lfs~~~l~~~~~~~~~~~~~~~~~~~~~n~~~~~~~~~~~~~~~~~~~~~~~~~~~~~-- 529 (904)
T KOG1246|consen 452 DWLPVGRGAAEAYSLLLRLSLFSHDELALLNAENPVKIRKQLSLASDKNDDLAGESKKWLEESGRSKLVIEKYERYLL-- 529 (904)
T ss_pred chhHHHHHHHHHHHhhccCCccCHHHHHHhccccchhhhhhhccccccchhhhchhhhhhhhcccchhHHHHHHHHHH--
Confidence 99999999999999999999999999999999865332111111 01111111111111111111121111 11100
Q ss_pred CCCCCCCCC--cccccccccccccccccccccCCceeeccchhhhccCCCCceEEEEecCHHHHHHHHHHHhc
Q 000611 158 CPEYVGTEE--DPTCIICRQYLYLSAVACRCRPAAFVCLEHWEHLCECKTRKLHLLYRHTLAELYDLFLTVDR 228 (1391)
Q Consensus 158 ~~~~~~~~~--~~~C~~Ck~~~flS~v~C~c~~~~~~CL~H~~~lc~C~~~~~~L~yRy~~~eL~~l~~~l~~ 228 (1391)
.... ++ +++|..|+++||+|++.|.|.+.++.|+.|+.++|+|+...+++.|||++++|..++.+++.
T Consensus 530 --~~~~-~~~~~~~c~~ck~~~~l~~~~~~c~~~~~~cl~h~~~~~~~~~~~~~l~~r~~id~l~~~~~k~~~ 599 (904)
T KOG1246|consen 530 --ESLP-DDMLERQCEACKRNCFLSEIECKCKPKKLECLSHYKKLCSCPGTDKTLLLRTNIDELDALLDKLQL 599 (904)
T ss_pred --Hhcc-chhhHHHHHHhcccHhhhhhhhcccccccccccchhhcCCCCccccEEEEecchhHHHHHhhhhhh
Confidence 0111 24 78999999999999999999999999999999999999999999999999999999998754
No 4
>KOG0958 consensus DNA damage-responsive repressor GIS1/RPH1, jumonji superfamily [Replication, recombination and repair]
Probab=99.87 E-value=2.8e-23 Score=248.24 Aligned_cols=90 Identities=41% Similarity=0.753 Sum_probs=87.0
Q ss_pred chHHHHHHHhhCchhhhcCcccccccceeeChhhHhhCCCceeeeecCCCcEEEecCCccccccccccchhhhcccCCCC
Q 000611 2 STFFFQVMRSSLPDLFDAQPDLLFQLVTMLNPSVLVENGVPVYSVLQEPGNFVITFPRSYHAGFNFGLNCAEAVNFAPAD 81 (1391)
Q Consensus 2 a~~fe~~~~~~~p~~~~~~p~~l~~~~~~~~P~~L~~~gv~v~~~~Q~~gefvitfP~ayh~gfn~G~n~~Eavnfa~~~ 81 (1391)
+++||++|.++||+-..+|++||+|++++++|.+|+++|||+++++|++|||+||||..|||||||||||+|++|||++.
T Consensus 217 ~~rfekla~~~fp~~~~~C~aFLRHK~~LiSP~~LkqnGIpfn~ivqeagEFmITFPygyHaGFN~GfN~aES~nFat~R 296 (690)
T KOG0958|consen 217 GDRFEKLASELFPDSSQGCPAFLRHKMTLISPSVLKQNGIPFNRIVQEAGEFMITFPYGYHAGFNHGFNCAESTNFATPR 296 (690)
T ss_pred HHHHHHHHHhhCCccccCCHHHHhhcccccCHHHHHHcCCCcceeeecCCcEEEecCcccccccccchhhhhhhcccchh
Confidence 47899999999999999999999999999999999999999999999999999999999999999999999999999999
Q ss_pred ccccchhhhH
Q 000611 82 WLPHGGFGAD 91 (1391)
Q Consensus 82 Wl~~g~~~~~ 91 (1391)
|++||.+|..
T Consensus 297 wi~YgK~a~~ 306 (690)
T KOG0958|consen 297 WIDYGKQALL 306 (690)
T ss_pred hhhhcccccc
Confidence 9999987653
No 5
>PF02928 zf-C5HC2: C5HC2 zinc finger; InterPro: IPR004198 Zinc finger (Znf) domains are relatively small protein motifs which contain multiple finger-like protrusions that make tandem contacts with their target molecule. Some of these domains bind zinc, but many do not; instead binding other metals such as iron, or no metal at all. For example, some family members form salt bridges to stabilise the finger-like folds. They were first identified as a DNA-binding motif in transcription factor TFIIIA from Xenopus laevis (African clawed frog), however they are now recognised to bind DNA, RNA, protein and/or lipid substrates [, , , , ]. Their binding properties depend on the amino acid sequence of the finger domains and of the linker between fingers, as well as on the higher-order structures and the number of fingers. Znf domains are often found in clusters, where fingers can have different binding specificities. There are many superfamilies of Znf motifs, varying in both sequence and structure. They display considerable versatility in binding modes, even between members of the same class (e.g. some bind DNA, others protein), suggesting that Znf motifs are stable scaffolds that have evolved specialised functions. For example, Znf-containing proteins function in gene transcription, translation, mRNA trafficking, cytoskeleton organisation, epithelial development, cell adhesion, protein folding, chromatin remodelling and zinc sensing, to name but a few []. Zinc-binding motifs are stable structures, and they rarely undergo conformational changes upon binding their target. This entry represents a predicted zinc finger with eight potential zinc ligand binding residues. This domain is found in Jumonji [], and may have a DNA binding function. The mouse jumonji protein is required for neural tube formation, and is essential for normal heart development. It also plays a role in the down-regulation of cell proliferation signalling. More information about these proteins can be found at Protein of the Month: Zinc Fingers [].; GO: 0005634 nucleus
Probab=99.53 E-value=5e-15 Score=127.60 Aligned_cols=54 Identities=46% Similarity=0.939 Sum_probs=52.2
Q ss_pred ccccccccccccccccccCCceeeccchhhhccCCCCceEEEEecCHHHHHHHH
Q 000611 170 CIICRQYLYLSAVACRCRPAAFVCLEHWEHLCECKTRKLHLLYRHTLAELYDLF 223 (1391)
Q Consensus 170 C~~Ck~~~flS~v~C~c~~~~~~CL~H~~~lc~C~~~~~~L~yRy~~~eL~~l~ 223 (1391)
|.+||++||||+|+|+|+|++++||+|+.++|+|++.+++|+||||++||+.||
T Consensus 1 C~~Ck~~~yLS~v~C~C~~~~~~CL~H~~~~c~C~~~~~~L~yR~~~~eL~~lv 54 (54)
T PF02928_consen 1 CSICKAYCYLSAVTCSCKPDKVVCLRHAKELCSCPCSNHTLRYRYDDEELESLV 54 (54)
T ss_pred CcccCCchhhcccccCCCCCcEEccccchhhcCCCCCCeEEEEeCCHHHHHHhC
Confidence 889999999999999998999999999999999999999999999999999885
No 6
>PF02373 JmjC: JmjC domain, hydroxylase; InterPro: IPR013129 Jumonji protein is required for neural tube formation in mice [].There is evidence of domain swapping within the jumonji family of transcription factors []. This domain is often associated with jmjN (see IPR003349 from INTERPRO) and belongs to the Cupin superfamily [].; PDB: 2YU2_A 2YU1_A 3AVR_A 3AVS_A 2OX0_B 2OQ6_B 2WWJ_A 2Q8D_A 3PDQ_A 2YBK_A ....
Probab=99.50 E-value=9.8e-15 Score=145.01 Aligned_cols=73 Identities=38% Similarity=0.633 Sum_probs=64.3
Q ss_pred chHHHHHHHhhCchhhhcCcccccccceeeChhhHhhCCCceeeeecCCCcEEEecCCccccccccccchhhhccc
Q 000611 2 STFFFQVMRSSLPDLFDAQPDLLFQLVTMLNPSVLVENGVPVYSVLQEPGNFVITFPRSYHAGFNFGLNCAEAVNF 77 (1391)
Q Consensus 2 a~~fe~~~~~~~p~~~~~~p~~l~~~~~~~~P~~L~~~gv~v~~~~Q~~gefvitfP~ayh~gfn~G~n~~Eavnf 77 (1391)
+++||+.+++. ...++|+++.+...+++|..|.++|||+|+++|+|||||||+|++||++||.|+|++||+||
T Consensus 42 ~~~~~~~~~~~---~~~~~~~~~~~~~~~~~p~~l~~~gi~~~~~~Q~~Ge~V~i~pg~~H~v~n~g~~i~~a~Nf 114 (114)
T PF02373_consen 42 ADKFEKFLRSK---ESQNCPQFLDHKNIFVSPEQLKKAGIPVYRFVQKPGEFVFIPPGAYHQVFNLGDNISEAVNF 114 (114)
T ss_dssp HHHHHHHHHHH---HHHHSTTGGCTGGEEEGHHHHHHTTS--EEEEEETT-EEEE-TT-EEEEEESSSEEEEEEEE
T ss_pred hhhHHHHHhhc---ccccccccccccccccceeeeeccCcccccceECCCCEEEECCCceEEEEeCCceEEEEecC
Confidence 46788888887 67789999999999999999999999999999999999999999999999999999999998
No 7
>COG5034 TNG2 Chromatin remodeling protein, contains PhD zinc finger [Chromatin structure and dynamics]
Probab=99.09 E-value=4.3e-11 Score=129.64 Aligned_cols=49 Identities=37% Similarity=0.994 Sum_probs=44.4
Q ss_pred cCCCceEEEeccCCCCCCeeeec--CCC-CeeecccccccCCC-CceecCCCCC
Q 000611 1246 RARSMLYCICRKPYDEKAMIACY--QCD-EWYHIDCVKLLSAP-EIYICAACKP 1295 (1391)
Q Consensus 1246 ~~~~~~yC~C~~p~~~~~Mi~Cd--~C~-~WfH~~Cvg~~~~~-~~~~C~~C~~ 1295 (1391)
...+.+||+|+++ .+|.||+|| .|. +|||+.|||+...| +.|||+.|..
T Consensus 217 se~e~lYCfCqqv-SyGqMVaCDn~nCkrEWFH~~CVGLk~pPKG~WYC~eCk~ 269 (271)
T COG5034 217 SEGEELYCFCQQV-SYGQMVACDNANCKREWFHLECVGLKEPPKGKWYCPECKK 269 (271)
T ss_pred ccCceeEEEeccc-ccccceecCCCCCchhheeccccccCCCCCCcEeCHHhHh
Confidence 3677999999996 789999999 697 99999999999988 8999999975
No 8
>KOG1973 consensus Chromatin remodeling protein, contains PHD Zn-finger [Chromatin structure and dynamics]
Probab=99.00 E-value=1.6e-10 Score=132.34 Aligned_cols=53 Identities=34% Similarity=0.895 Sum_probs=45.9
Q ss_pred ccCCCceEEEeccCCCCCCeeeecC--CC-CeeecccccccCCC-CceecCCCCCCCC
Q 000611 1245 LRARSMLYCICRKPYDEKAMIACYQ--CD-EWYHIDCVKLLSAP-EIYICAACKPQAE 1298 (1391)
Q Consensus 1245 ~~~~~~~yC~C~~p~~~~~Mi~Cd~--C~-~WfH~~Cvg~~~~~-~~~~C~~C~~~~~ 1298 (1391)
.+.++..||+|.+ ..+|.||+||. |. +|||+.|||+...| ++||||.|+....
T Consensus 214 ~d~~e~~yC~Cnq-vsyg~Mi~CDn~~C~~eWFH~~CVGL~~~PkgkWyC~~C~~~~~ 270 (274)
T KOG1973|consen 214 VDPDEPTYCICNQ-VSYGKMIGCDNPGCPIEWFHFTCVGLKTKPKGKWYCPRCKAENK 270 (274)
T ss_pred cCCCCCEEEEecc-cccccccccCCCCCCcceEEEeccccccCCCCcccchhhhhhhh
Confidence 4456799999995 57899999997 99 99999999999887 8999999987543
No 9
>KOG4323 consensus Polycomb-like PHD Zn-finger protein [General function prediction only]
Probab=98.61 E-value=1.9e-08 Score=119.48 Aligned_cols=51 Identities=25% Similarity=0.703 Sum_probs=43.9
Q ss_pred ceEEEeccCCCCCCeeeecCCCCeeecccccccCCC-------CceecCCCCCCCCCC
Q 000611 1250 MLYCICRKPYDEKAMIACYQCDEWYHIDCVKLLSAP-------EIYICAACKPQAEES 1300 (1391)
Q Consensus 1250 ~~yC~C~~p~~~~~Mi~Cd~C~~WfH~~Cvg~~~~~-------~~~~C~~C~~~~~~~ 1300 (1391)
..||.|++|.....||||+.|..|||..|......+ ..|||..|..+....
T Consensus 171 c~vC~~g~~~~~NrmlqC~~C~~~fHq~Chqp~i~~~l~~D~~~~w~C~~C~~~~~~~ 228 (464)
T KOG4323|consen 171 CSVCYCGGPGAGNRMLQCDKCRQWYHQACHQPLIKDELAGDPFYEWFCDVCNRGPKKV 228 (464)
T ss_pred eeeeecCCcCccceeeeecccccHHHHHhccCCCCHhhccCccceEeehhhccchhhc
Confidence 669999998877789999999999999999987653 689999998766554
No 10
>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=98.51 E-value=1.8e-08 Score=86.03 Aligned_cols=44 Identities=36% Similarity=1.055 Sum_probs=38.9
Q ss_pred EE-EeccCCCCCCeeeecCCCCeeecccccccCC-----CCceecCCCCC
Q 000611 1252 YC-ICRKPYDEKAMIACYQCDEWYHIDCVKLLSA-----PEIYICAACKP 1295 (1391)
Q Consensus 1252 yC-~C~~p~~~~~Mi~Cd~C~~WfH~~Cvg~~~~-----~~~~~C~~C~~ 1295 (1391)
|| +|+++.+++.||+||.|+.|||..|+|++.. ...|+|+.|..
T Consensus 1 ~C~vC~~~~~~~~~i~C~~C~~~~H~~C~~~~~~~~~~~~~~w~C~~C~~ 50 (51)
T PF00628_consen 1 YCPVCGQSDDDGDMIQCDSCNRWYHQECVGPPEKAEEIPSGDWYCPNCRP 50 (51)
T ss_dssp EBTTTTSSCTTSSEEEBSTTSCEEETTTSTSSHSHHSHHSSSBSSHHHHH
T ss_pred eCcCCCCcCCCCCeEEcCCCChhhCcccCCCChhhccCCCCcEECcCCcC
Confidence 68 9999777899999999999999999999976 25899999864
No 11
>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 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=98.25 E-value=2.8e-07 Score=78.73 Aligned_cols=48 Identities=25% Similarity=0.800 Sum_probs=40.1
Q ss_pred ccccccCCCcCcceeeccccccccccCcCCccccc-cCCCCccccCCcc
Q 000611 994 LCMCCESDSKELEFLICSACKDCYHLQCLRPTEVD-RNHAEAYICPYCQ 1041 (1391)
Q Consensus 994 ~C~~C~~~~~~~~~i~Cd~C~~~YH~~Cv~~~~~~-~~~~~~w~Cp~C~ 1041 (1391)
+|.+|+....++.||.|+.|+.|||..|++++... ......|+|+.|.
T Consensus 1 ~C~vC~~~~~~~~~i~C~~C~~~~H~~C~~~~~~~~~~~~~~w~C~~C~ 49 (51)
T PF00628_consen 1 YCPVCGQSDDDGDMIQCDSCNRWYHQECVGPPEKAEEIPSGDWYCPNCR 49 (51)
T ss_dssp EBTTTTSSCTTSSEEEBSTTSCEEETTTSTSSHSHHSHHSSSBSSHHHH
T ss_pred eCcCCCCcCCCCCeEEcCCCChhhCcccCCCChhhccCCCCcEECcCCc
Confidence 48789888889999999999999999999999432 2223499999997
No 13
>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 KOG1632 consensus Uncharacterized PHD Zn-finger protein [General function prediction only]
Probab=97.98 E-value=5.8e-07 Score=105.98 Aligned_cols=60 Identities=20% Similarity=0.470 Sum_probs=46.9
Q ss_pred ccccccCCCcCcceeeccccccccccCc--CCccccccCCCCccccCCccccccccccccCC
Q 000611 994 LCMCCESDSKELEFLICSACKDCYHLQC--LRPTEVDRNHAEAYICPYCQYFESESVSQFGG 1053 (1391)
Q Consensus 994 ~C~~C~~~~~~~~~i~Cd~C~~~YH~~C--v~~~~~~~~~~~~w~Cp~C~~~~~~~~~~~g~ 1053 (1391)
+|.|-...+.+.+|+.|+.|.+|||+.| |++....++....|.|..|.....+....+|.
T Consensus 62 ~~~~~~~~~p~~~~~~cd~C~~~~~~ec~~v~~~~~e~p~~~~~~c~~c~~~~~~~~~~~~l 123 (345)
T KOG1632|consen 62 YCKCYKPCDPDDLMEQCDLCEDWYHGECWEVGTAEKEAPKEDPKVCDECKEAQDGMSESDGL 123 (345)
T ss_pred hhhcccccCchhhhhccccccccccccccccCchhhcCCccccccccccchhhhhhhhhccc
Confidence 5664333444459999999999999999 99998888999999999999666555554433
No 15
>KOG1512 consensus PHD Zn-finger protein [General function prediction only]
Probab=97.68 E-value=1.1e-05 Score=88.81 Aligned_cols=45 Identities=33% Similarity=0.634 Sum_probs=39.9
Q ss_pred EeccCCCCCCeeeecCCCCeeecccccccCCC-CceecC-CCCCCCC
Q 000611 1254 ICRKPYDEKAMIACYQCDEWYHIDCVKLLSAP-EIYICA-ACKPQAE 1298 (1391)
Q Consensus 1254 ~C~~p~~~~~Mi~Cd~C~~WfH~~Cvg~~~~~-~~~~C~-~C~~~~~ 1298 (1391)
||++|.-..+|+.||.|+.=||.-|||+..-| +.|+|. .|+..+.
T Consensus 319 IC~~P~~E~E~~FCD~CDRG~HT~CVGL~~lP~G~WICD~~C~~~~~ 365 (381)
T KOG1512|consen 319 ICLGPVIESEHLFCDVCDRGPHTLCVGLQDLPRGEWICDMRCREATL 365 (381)
T ss_pred ccCCcccchheeccccccCCCCccccccccccCccchhhhHHHHhcC
Confidence 89999888899999999999999999999987 899997 5776444
No 16
>KOG1973 consensus Chromatin remodeling protein, contains PHD Zn-finger [Chromatin structure and dynamics]
Probab=97.60 E-value=2.3e-05 Score=90.29 Aligned_cols=49 Identities=20% Similarity=0.628 Sum_probs=40.4
Q ss_pred CCccccccccccCCCcCcceeeccc--cc-cccccCcCCccccccCCCCccccCCcc
Q 000611 988 GSVSMTLCMCCESDSKELEFLICSA--CK-DCYHLQCLRPTEVDRNHAEAYICPYCQ 1041 (1391)
Q Consensus 988 ~~~~~~~C~~C~~~~~~~~~i~Cd~--C~-~~YH~~Cv~~~~~~~~~~~~w~Cp~C~ 1041 (1391)
+-++..+|+|+ ...-..||.||. |. +|||+.|||++.. ..+.|.||.|.
T Consensus 215 d~~e~~yC~Cn--qvsyg~Mi~CDn~~C~~eWFH~~CVGL~~~---PkgkWyC~~C~ 266 (274)
T KOG1973|consen 215 DPDEPTYCICN--QVSYGKMIGCDNPGCPIEWFHFTCVGLKTK---PKGKWYCPRCK 266 (274)
T ss_pred CCCCCEEEEec--ccccccccccCCCCCCcceEEEeccccccC---CCCcccchhhh
Confidence 45677889977 555578999999 99 9999999999933 34669999999
No 17
>KOG4443 consensus Putative transcription factor HALR/MLL3, involved in embryonic development [General function prediction only]
Probab=96.75 E-value=0.00029 Score=86.31 Aligned_cols=53 Identities=26% Similarity=0.618 Sum_probs=37.9
Q ss_pred cccccccCC--CcCcceeeccccccccccCcCCccccccCCCCccccCCcccccc
Q 000611 993 TLCMCCESD--SKELEFLICSACKDCYHLQCLRPTEVDRNHAEAYICPYCQYFES 1045 (1391)
Q Consensus 993 ~~C~~C~~~--~~~~~~i~Cd~C~~~YH~~Cv~~~~~~~~~~~~w~Cp~C~~~~~ 1045 (1391)
.+|..|..- ...+.|+.|..|+..||..||......+....-|-||.|...+.
T Consensus 19 ~mc~l~~s~G~~~ag~m~ac~~c~~~yH~~cvt~~~~~~~l~~gWrC~~crvCe~ 73 (694)
T KOG4443|consen 19 LMCPLCGSSGKGRAGRLLACSDCGQKYHPYCVTSWAQHAVLSGGWRCPSCRVCEA 73 (694)
T ss_pred hhhhhhccccccccCcchhhhhhcccCCcchhhHHHhHHHhcCCcccCCceeeee
Confidence 456677543 34578999999999999999996533333334499999995543
No 18
>KOG4323 consensus Polycomb-like PHD Zn-finger protein [General function prediction only]
Probab=96.56 E-value=0.00072 Score=81.37 Aligned_cols=47 Identities=23% Similarity=0.678 Sum_probs=36.5
Q ss_pred ccccc--CCCcCcceeeccccccccccCcCCcc--ccccCCC-CccccCCcc
Q 000611 995 CMCCE--SDSKELEFLICSACKDCYHLQCLRPT--EVDRNHA-EAYICPYCQ 1041 (1391)
Q Consensus 995 C~~C~--~~~~~~~~i~Cd~C~~~YH~~Cv~~~--~~~~~~~-~~w~Cp~C~ 1041 (1391)
|+.|+ .+...+.||+|+.|..|||..|+.+. +..+.+. -.|.|..|.
T Consensus 171 c~vC~~g~~~~~NrmlqC~~C~~~fHq~Chqp~i~~~l~~D~~~~w~C~~C~ 222 (464)
T KOG4323|consen 171 CSVCYCGGPGAGNRMLQCDKCRQWYHQACHQPLIKDELAGDPFYEWFCDVCN 222 (464)
T ss_pred eeeeecCCcCccceeeeecccccHHHHHhccCCCCHhhccCccceEeehhhc
Confidence 66654 44555799999999999999999998 3333333 569999999
No 19
>KOG4299 consensus PHD Zn-finger protein [General function prediction only]
Probab=96.25 E-value=0.0032 Score=77.54 Aligned_cols=45 Identities=24% Similarity=0.631 Sum_probs=37.2
Q ss_pred eEE-EeccCCCCCCeeeecCCCCeeecccccccCC-----CCceecCCCCC
Q 000611 1251 LYC-ICRKPYDEKAMIACYQCDEWYHIDCVKLLSA-----PEIYICAACKP 1295 (1391)
Q Consensus 1251 ~yC-~C~~p~~~~~Mi~Cd~C~~WfH~~Cvg~~~~-----~~~~~C~~C~~ 1295 (1391)
.|| .|+++......|+||.|..=||..|+..+-+ ++.|+|+.|.-
T Consensus 254 ~fCsaCn~~~~F~~~i~CD~Cp~sFH~~CLePPl~~eniP~g~W~C~ec~~ 304 (613)
T KOG4299|consen 254 DFCSACNGSGLFNDIICCDGCPRSFHQTCLEPPLEPENIPPGSWFCPECKI 304 (613)
T ss_pred HHHHHhCCccccccceeecCCchHHHHhhcCCCCCcccCCCCccccCCCee
Confidence 388 8998765555799999999999999998733 38999999964
No 20
>KOG1632 consensus Uncharacterized PHD Zn-finger protein [General function prediction only]
Probab=96.05 E-value=0.0016 Score=77.33 Aligned_cols=53 Identities=34% Similarity=0.817 Sum_probs=45.3
Q ss_pred CceEEEeccCCCCC-CeeeecCCCCeeeccc--ccccCC----CCceecCCCCCCCCCCC
Q 000611 1249 SMLYCICRKPYDEK-AMIACYQCDEWYHIDC--VKLLSA----PEIYICAACKPQAEESS 1301 (1391)
Q Consensus 1249 ~~~yC~C~~p~~~~-~Mi~Cd~C~~WfH~~C--vg~~~~----~~~~~C~~C~~~~~~~~ 1301 (1391)
...||.|..+++.. +|++||.|.+|||+.| ||+... ++.|+|..|.....+..
T Consensus 59 ~~~~~~~~~~~~p~~~~~~cd~C~~~~~~ec~~v~~~~~e~p~~~~~~c~~c~~~~~~~~ 118 (345)
T KOG1632|consen 59 TQRYCKCYKPCDPDDLMEQCDLCEDWYHGECWEVGTAEKEAPKEDPKVCDECKEAQDGMS 118 (345)
T ss_pred hhchhhcccccCchhhhhccccccccccccccccCchhhcCCccccccccccchhhhhhh
Confidence 35599999998865 8999999999999999 999875 38999999987766554
No 21
>KOG2752 consensus Uncharacterized conserved protein, contains N-recognin-type Zn-finger [General function prediction only]
Probab=95.80 E-value=0.0049 Score=69.97 Aligned_cols=35 Identities=31% Similarity=1.008 Sum_probs=28.5
Q ss_pred CCceEEEeccCCCC------CCeeeecCCCCeee-ccccccc
Q 000611 1248 RSMLYCICRKPYDE------KAMIACYQCDEWYH-IDCVKLL 1282 (1391)
Q Consensus 1248 ~~~~yC~C~~p~~~------~~Mi~Cd~C~~WfH-~~Cvg~~ 1282 (1391)
-...||+|.+||++ +.|+||..|++||| ..|+.-.
T Consensus 126 fqG~~C~Cd~~Ypdp~~~~e~~m~QC~iCEDWFHce~c~~~~ 167 (345)
T KOG2752|consen 126 FQGLFCKCDTPYPDPVRTEEGEMLQCVICEDWFHCEGCMQAK 167 (345)
T ss_pred hcceeEEecCCCCCccccccceeeeEEeccchhcccccCccc
Confidence 34779999999987 67999999999999 5555433
No 22
>KOG0825 consensus PHD Zn-finger protein [General function prediction only]
Probab=95.68 E-value=0.0046 Score=76.68 Aligned_cols=49 Identities=29% Similarity=0.794 Sum_probs=42.2
Q ss_pred cccccCCCcCcceeeccccccc-cccCcCCccccccCCCCccccCCccccc
Q 000611 995 CMCCESDSKELEFLICSACKDC-YHLQCLRPTEVDRNHAEAYICPYCQYFE 1044 (1391)
Q Consensus 995 C~~C~~~~~~~~~i~Cd~C~~~-YH~~Cv~~~~~~~~~~~~w~Cp~C~~~~ 1044 (1391)
|.+|...+....||.||.|.+. ||..|+.|...+. -...|.|+.|..+.
T Consensus 218 C~IC~~~DpEdVLLLCDsCN~~~YH~YCLDPdl~ei-P~~eWYC~NC~dL~ 267 (1134)
T KOG0825|consen 218 CDICTVHDPEDVLLLCDSCNKVYYHVYCLDPDLSES-PVNEWYCTNCSLLE 267 (1134)
T ss_pred ceeeccCChHHhheeecccccceeeccccCcccccc-cccceecCcchhhh
Confidence 8889999999999999999999 9999999975442 35789999999544
No 23
>KOG1512 consensus PHD Zn-finger protein [General function prediction only]
Probab=95.59 E-value=0.0054 Score=68.28 Aligned_cols=50 Identities=28% Similarity=0.615 Sum_probs=42.1
Q ss_pred CccccccccccCCCcCcceeeccccccccccCcCCccccccCCCCccccC-Ccc
Q 000611 989 SVSMTLCMCCESDSKELEFLICSACKDCYHLQCLRPTEVDRNHAEAYICP-YCQ 1041 (1391)
Q Consensus 989 ~~~~~~C~~C~~~~~~~~~i~Cd~C~~~YH~~Cv~~~~~~~~~~~~w~Cp-~C~ 1041 (1391)
|.+=.+|.+|.++.-..+|+.||.|+.+||.-|||...- ..+.|+|- +|.
T Consensus 311 C~~C~lC~IC~~P~~E~E~~FCD~CDRG~HT~CVGL~~l---P~G~WICD~~C~ 361 (381)
T KOG1512|consen 311 CSSCELCRICLGPVIESEHLFCDVCDRGPHTLCVGLQDL---PRGEWICDMRCR 361 (381)
T ss_pred hcccHhhhccCCcccchheeccccccCCCCccccccccc---cCccchhhhHHH
Confidence 456678999999999999999999999999999998721 23789998 565
No 24
>KOG1244 consensus Predicted transcription factor Requiem/NEURO-D4 [Transcription]
Probab=95.38 E-value=0.0068 Score=67.27 Aligned_cols=52 Identities=25% Similarity=0.750 Sum_probs=43.5
Q ss_pred CccccccccccCCCcCcceeeccccccccccCcCCccccccCCCCccccCCcc
Q 000611 989 SVSMTLCMCCESDSKELEFLICSACKDCYHLQCLRPTEVDRNHAEAYICPYCQ 1041 (1391)
Q Consensus 989 ~~~~~~C~~C~~~~~~~~~i~Cd~C~~~YH~~Cv~~~~~~~~~~~~w~Cp~C~ 1041 (1391)
|-+=.+|.+|+....++.++.||.|..+||..|+.|+... +..+-|.|.-|.
T Consensus 278 cieck~csicgtsenddqllfcddcdrgyhmyclsppm~e-ppegswsc~KOG 329 (336)
T KOG1244|consen 278 CIECKYCSICGTSENDDQLLFCDDCDRGYHMYCLSPPMVE-PPEGSWSCHLCL 329 (336)
T ss_pred eeecceeccccCcCCCceeEeecccCCceeeEecCCCcCC-CCCCchhHHHHH
Confidence 3344679999999889999999999999999999988544 344789999997
No 25
>KOG1844 consensus PHD Zn-finger proteins [General function prediction only]
Probab=95.08 E-value=0.013 Score=73.84 Aligned_cols=54 Identities=33% Similarity=0.782 Sum_probs=47.0
Q ss_pred CCceEEEeccCCC-CCCeeeecCCCCeeecccccccCC--CCceecCCCCCCCCCCC
Q 000611 1248 RSMLYCICRKPYD-EKAMIACYQCDEWYHIDCVKLLSA--PEIYICAACKPQAEESS 1301 (1391)
Q Consensus 1248 ~~~~yC~C~~p~~-~~~Mi~Cd~C~~WfH~~Cvg~~~~--~~~~~C~~C~~~~~~~~ 1301 (1391)
....-|+|+.-++ +++||+|+.|..|.|..|+|.... |+.|.|..|........
T Consensus 84 ~~~~~c~c~~~~~~~g~~i~c~~c~~Wqh~~C~g~~~~~~p~~y~c~~c~~~~~~~~ 140 (508)
T KOG1844|consen 84 REISRCDCGLEDDMEGLMIQCDWCGRWQHKICCGSFKSTKPDKYVCEICTPRNKEVE 140 (508)
T ss_pred CcccccccccccCCCceeeCCcccCcccCceeeeecCCCCchhceeeeeccccccch
Confidence 4577899999988 899999999999999999998875 58999999998665543
No 26
>PF13831 PHD_2: PHD-finger; PDB: 2L43_A 2KU3_A.
Probab=94.92 E-value=0.0058 Score=48.60 Aligned_cols=33 Identities=21% Similarity=0.722 Sum_probs=19.2
Q ss_pred CCeeeecCCCCeeecccccccCCC--CceecCCCC
Q 000611 1262 KAMIACYQCDEWYHIDCVKLLSAP--EIYICAACK 1294 (1391)
Q Consensus 1262 ~~Mi~Cd~C~~WfH~~Cvg~~~~~--~~~~C~~C~ 1294 (1391)
..||+|+.|...+|.+|-|+...+ +.|+|..|.
T Consensus 2 n~ll~C~~C~v~VH~~CYGv~~~~~~~~W~C~~C~ 36 (36)
T PF13831_consen 2 NPLLFCDNCNVAVHQSCYGVSEVPDGDDWLCDRCE 36 (36)
T ss_dssp CEEEE-SSS--EEEHHHHT-SS--SS-----HHH-
T ss_pred CceEEeCCCCCcCChhhCCcccCCCCCcEECCcCC
Confidence 369999999999999999999876 369998874
No 27
>KOG0955 consensus PHD finger protein BR140/LIN-49 [General function prediction only]
Probab=94.76 E-value=0.017 Score=76.20 Aligned_cols=72 Identities=17% Similarity=0.310 Sum_probs=54.2
Q ss_pred CCccccccccccCCCcC--cceeeccccccccccCcCCccccccCCCCccccCCcccccccccc-----ccCCCCcccCC
Q 000611 988 GSVSMTLCMCCESDSKE--LEFLICSACKDCYHLQCLRPTEVDRNHAEAYICPYCQYFESESVS-----QFGGSPLRFGG 1060 (1391)
Q Consensus 988 ~~~~~~~C~~C~~~~~~--~~~i~Cd~C~~~YH~~Cv~~~~~~~~~~~~w~Cp~C~~~~~~~~~-----~~g~~~~~~~~ 1060 (1391)
+.+.+..|++|.....+ ++++.||.|+..+|+.|+|+.+ ...+.|.|..|.+...+.+- ..||+=++--.
T Consensus 215 ~~~~D~~C~iC~~~~~~n~n~ivfCD~Cnl~VHq~Cygi~~---ipeg~WlCr~Cl~s~~~~v~c~~cp~~~gAFkqt~d 291 (1051)
T KOG0955|consen 215 LLEEDAVCCICLDGECQNSNVIVFCDGCNLAVHQECYGIPF---IPEGQWLCRRCLQSPQRPVRCLLCPSKGGAFKQTDD 291 (1051)
T ss_pred ccCCCccceeecccccCCCceEEEcCCCcchhhhhccCCCC---CCCCcEeehhhccCcCcccceEeccCCCCcceeccC
Confidence 35678889999887666 9999999999999999999553 34588999999977665422 45666555533
Q ss_pred CC
Q 000611 1061 KR 1062 (1391)
Q Consensus 1061 ~r 1062 (1391)
.|
T Consensus 292 gr 293 (1051)
T KOG0955|consen 292 GR 293 (1051)
T ss_pred Cc
Confidence 33
No 28
>KOG0957 consensus PHD finger protein [General function prediction only]
Probab=94.72 E-value=0.014 Score=69.39 Aligned_cols=54 Identities=26% Similarity=0.568 Sum_probs=43.8
Q ss_pred cccccCCCcCcceeeccccccccccCcCCccccccCC---CCccccCCccccccccc
Q 000611 995 CMCCESDSKELEFLICSACKDCYHLQCLRPTEVDRNH---AEAYICPYCQYFESESV 1048 (1391)
Q Consensus 995 C~~C~~~~~~~~~i~Cd~C~~~YH~~Cv~~~~~~~~~---~~~w~Cp~C~~~~~~~~ 1048 (1391)
|.+|+...+++..+.||.|..-||..|+.|+....+. ...|.|..|...++.+.
T Consensus 547 CgiCkks~dQHll~~CDtC~lhYHlGCL~PPLTR~Pkk~kn~gWqCsECdk~esSD~ 603 (707)
T KOG0957|consen 547 CGICKKSTDQHLLTQCDTCHLHYHLGCLSPPLTRLPKKNKNFGWQCSECDKNESSDS 603 (707)
T ss_pred eeeeccchhhHHHhhcchhhceeeccccCCccccCcccccCcceeecccccccCcch
Confidence 9999999999999999999999999999999443332 35699999975554433
No 29
>KOG0825 consensus PHD Zn-finger protein [General function prediction only]
Probab=94.39 E-value=0.021 Score=71.06 Aligned_cols=47 Identities=23% Similarity=0.618 Sum_probs=38.8
Q ss_pred ceEE-EeccCCCCCCeeeecCCCCe-eecccccccC---CCCceecCCCCCC
Q 000611 1250 MLYC-ICRKPYDEKAMIACYQCDEW-YHIDCVKLLS---APEIYICAACKPQ 1296 (1391)
Q Consensus 1250 ~~yC-~C~~p~~~~~Mi~Cd~C~~W-fH~~Cvg~~~---~~~~~~C~~C~~~ 1296 (1391)
.+-| ||..++....|+-||.|+.- ||..|+...- ....|||+.|.-.
T Consensus 215 ~~~C~IC~~~DpEdVLLLCDsCN~~~YH~YCLDPdl~eiP~~eWYC~NC~dL 266 (1134)
T KOG0825|consen 215 EVKCDICTVHDPEDVLLLCDSCNKVYYHVYCLDPDLSESPVNEWYCTNCSLL 266 (1134)
T ss_pred cccceeeccCChHHhheeecccccceeeccccCcccccccccceecCcchhh
Confidence 4556 99998777889999999965 9999999865 2389999999754
No 30
>KOG0954 consensus PHD finger protein [General function prediction only]
Probab=94.18 E-value=0.027 Score=70.08 Aligned_cols=69 Identities=23% Similarity=0.472 Sum_probs=51.8
Q ss_pred cccccccccCCCc--CcceeeccccccccccCcCCccccccCCCCccccCCcccccc-cccc--ccCCCCcccCCCC
Q 000611 991 SMTLCMCCESDSK--ELEFLICSACKDCYHLQCLRPTEVDRNHAEAYICPYCQYFES-ESVS--QFGGSPLRFGGKR 1062 (1391)
Q Consensus 991 ~~~~C~~C~~~~~--~~~~i~Cd~C~~~YH~~Cv~~~~~~~~~~~~w~Cp~C~~~~~-~~~~--~~g~~~~~~~~~r 1062 (1391)
.+.+|..|+.++. .++||.||.|..+-|..|.|+..-. .+.|.|..|...-- .-++ ..||+-+..++..
T Consensus 270 edviCDvCrspD~e~~neMVfCd~Cn~cVHqaCyGIle~p---~gpWlCr~Calg~~ppCvLCPkkGGamK~~~sgT 343 (893)
T KOG0954|consen 270 EDVICDVCRSPDSEEANEMVFCDKCNICVHQACYGILEVP---EGPWLCRTCALGIEPPCVLCPKKGGAMKPTKSGT 343 (893)
T ss_pred ccceeceecCCCccccceeEEeccchhHHHHhhhceeecC---CCCeeehhccccCCCCeeeccccCCcccccCCCC
Confidence 6677999988755 4999999999999999999999432 37899999984321 2222 7788866665444
No 31
>KOG4299 consensus PHD Zn-finger protein [General function prediction only]
Probab=94.12 E-value=0.019 Score=70.91 Aligned_cols=52 Identities=21% Similarity=0.636 Sum_probs=40.7
Q ss_pred ccccccccCCCcCcceeeccccccccccCcCCccccc-cCCCCccccCCcccc
Q 000611 992 MTLCMCCESDSKELEFLICSACKDCYHLQCLRPTEVD-RNHAEAYICPYCQYF 1043 (1391)
Q Consensus 992 ~~~C~~C~~~~~~~~~i~Cd~C~~~YH~~Cv~~~~~~-~~~~~~w~Cp~C~~~ 1043 (1391)
..||..|.+...-..+|.||.|-..||+.|++|+... .-..+.|+|+.|...
T Consensus 253 ~~fCsaCn~~~~F~~~i~CD~Cp~sFH~~CLePPl~~eniP~g~W~C~ec~~k 305 (613)
T KOG4299|consen 253 EDFCSACNGSGLFNDIICCDGCPRSFHQTCLEPPLEPENIPPGSWFCPECKIK 305 (613)
T ss_pred HHHHHHhCCccccccceeecCCchHHHHhhcCCCCCcccCCCCccccCCCeee
Confidence 4599999766444778999999999999999998322 223378999999933
No 32
>COG5034 TNG2 Chromatin remodeling protein, contains PhD zinc finger [Chromatin structure and dynamics]
Probab=93.69 E-value=0.037 Score=61.55 Aligned_cols=48 Identities=25% Similarity=0.715 Sum_probs=36.2
Q ss_pred CccccccccccCCCcCcceeeccc--cc-cccccCcCCccccccCCCCccccCCcc
Q 000611 989 SVSMTLCMCCESDSKELEFLICSA--CK-DCYHLQCLRPTEVDRNHAEAYICPYCQ 1041 (1391)
Q Consensus 989 ~~~~~~C~~C~~~~~~~~~i~Cd~--C~-~~YH~~Cv~~~~~~~~~~~~w~Cp~C~ 1041 (1391)
.....||.|-+... ..||.||. |. .|||..|||+.. +..+.|.||.|.
T Consensus 218 e~e~lYCfCqqvSy--GqMVaCDn~nCkrEWFH~~CVGLk~---pPKG~WYC~eCk 268 (271)
T COG5034 218 EGEELYCFCQQVSY--GQMVACDNANCKREWFHLECVGLKE---PPKGKWYCPECK 268 (271)
T ss_pred cCceeEEEeccccc--ccceecCCCCCchhheeccccccCC---CCCCcEeCHHhH
Confidence 44667798654444 46999995 64 799999999883 235789999997
No 33
>KOG0954 consensus PHD finger protein [General function prediction only]
Probab=93.43 E-value=0.045 Score=68.31 Aligned_cols=47 Identities=30% Similarity=0.813 Sum_probs=39.5
Q ss_pred CceEE-EeccCCCC--CCeeeecCCCCeeecccccccCCC-CceecCCCCC
Q 000611 1249 SMLYC-ICRKPYDE--KAMIACYQCDEWYHIDCVKLLSAP-EIYICAACKP 1295 (1391)
Q Consensus 1249 ~~~yC-~C~~p~~~--~~Mi~Cd~C~~WfH~~Cvg~~~~~-~~~~C~~C~~ 1295 (1391)
+.+.| +|+.|+.. ..||.||.|+--.|-.|.||..-| +.|.|..|.-
T Consensus 270 edviCDvCrspD~e~~neMVfCd~Cn~cVHqaCyGIle~p~gpWlCr~Cal 320 (893)
T KOG0954|consen 270 EDVICDVCRSPDSEEANEMVFCDKCNICVHQACYGILEVPEGPWLCRTCAL 320 (893)
T ss_pred ccceeceecCCCccccceeEEeccchhHHHHhhhceeecCCCCeeehhccc
Confidence 45667 99998654 679999999999999999999876 6899888853
No 34
>KOG0955 consensus PHD finger protein BR140/LIN-49 [General function prediction only]
Probab=91.95 E-value=0.12 Score=68.82 Aligned_cols=56 Identities=20% Similarity=0.526 Sum_probs=44.8
Q ss_pred ccCCCceEEEeccCCCC--CCeeeecCCCCeeecccccccCCC-CceecCCCCCCCCCC
Q 000611 1245 LRARSMLYCICRKPYDE--KAMIACYQCDEWYHIDCVKLLSAP-EIYICAACKPQAEES 1300 (1391)
Q Consensus 1245 ~~~~~~~yC~C~~p~~~--~~Mi~Cd~C~~WfH~~Cvg~~~~~-~~~~C~~C~~~~~~~ 1300 (1391)
+-+.+..+|||....-. .+.|.||.|+--+|.+|+|+...| +.|.|-.|-......
T Consensus 215 ~~~~D~~C~iC~~~~~~n~n~ivfCD~Cnl~VHq~Cygi~~ipeg~WlCr~Cl~s~~~~ 273 (1051)
T KOG0955|consen 215 LLEEDAVCCICLDGECQNSNVIVFCDGCNLAVHQECYGIPFIPEGQWLCRRCLQSPQRP 273 (1051)
T ss_pred ccCCCccceeecccccCCCceEEEcCCCcchhhhhccCCCCCCCCcEeehhhccCcCcc
Confidence 34567889999775443 789999999999999999977765 899999997655443
No 35
>PF13831 PHD_2: PHD-finger; PDB: 2L43_A 2KU3_A.
Probab=91.14 E-value=0.04 Score=43.93 Aligned_cols=35 Identities=26% Similarity=0.738 Sum_probs=19.8
Q ss_pred cceeeccccccccccCcCCccccccCCCCccccCCcc
Q 000611 1005 LEFLICSACKDCYHLQCLRPTEVDRNHAEAYICPYCQ 1041 (1391)
Q Consensus 1005 ~~~i~Cd~C~~~YH~~Cv~~~~~~~~~~~~w~Cp~C~ 1041 (1391)
+.+|.|+.|+-..|.+|.|+.... ....|.|..|.
T Consensus 2 n~ll~C~~C~v~VH~~CYGv~~~~--~~~~W~C~~C~ 36 (36)
T PF13831_consen 2 NPLLFCDNCNVAVHQSCYGVSEVP--DGDDWLCDRCE 36 (36)
T ss_dssp CEEEE-SSS--EEEHHHHT-SS----SS-----HHH-
T ss_pred CceEEeCCCCCcCChhhCCcccCC--CCCcEECCcCC
Confidence 579999999999999999999543 33359999884
No 36
>KOG0994 consensus Extracellular matrix glycoprotein Laminin subunit beta [Extracellular structures]
Probab=90.67 E-value=73 Score=43.07 Aligned_cols=27 Identities=19% Similarity=0.108 Sum_probs=21.7
Q ss_pred HhhCCCceeeeecCCCcEEEecCCccc
Q 000611 36 LVENGVPVYSVLQEPGNFVITFPRSYH 62 (1391)
Q Consensus 36 L~~~gv~v~~~~Q~~gefvitfP~ayh 62 (1391)
+...||-=+|.+|++.-|.=.||..-.
T Consensus 1135 ~C~~Gv~G~rCdqCaRgy~G~fP~C~P 1161 (1758)
T KOG0994|consen 1135 VCRPGVGGPRCDQCARGYSGQFPVCVP 1161 (1758)
T ss_pred eecCCCCCcchhhhhhhhcCCCCCCcc
Confidence 456788889999999998888887543
No 37
>KOG0957 consensus PHD finger protein [General function prediction only]
Probab=90.65 E-value=0.16 Score=60.91 Aligned_cols=48 Identities=25% Similarity=0.648 Sum_probs=37.9
Q ss_pred ceEEEecc--CCCCCCeeeecCCCCeeecccccccCC-----------CCceecCCCCCCC
Q 000611 1250 MLYCICRK--PYDEKAMIACYQCDEWYHIDCVKLLSA-----------PEIYICAACKPQA 1297 (1391)
Q Consensus 1250 ~~yC~C~~--p~~~~~Mi~Cd~C~~WfH~~Cvg~~~~-----------~~~~~C~~C~~~~ 1297 (1391)
.++|+|-+ ..+.+..||||.|+.=.|..|.|+... ...|||..|.-+-
T Consensus 120 ~iCcVClg~rs~da~ei~qCd~CGi~VHEgCYGv~dn~si~s~~s~~stepWfCeaC~~Gv 180 (707)
T KOG0957|consen 120 VICCVCLGQRSVDAGEILQCDKCGINVHEGCYGVLDNVSIPSGSSDCSTEPWFCEACLYGV 180 (707)
T ss_pred eEEEEeecCccccccceeeccccCceecccccccccccccCCCCccCCCCchhhhhHhcCC
Confidence 47899943 333488999999999999999999853 1679999997543
No 38
>KOG1244 consensus Predicted transcription factor Requiem/NEURO-D4 [Transcription]
Probab=89.63 E-value=0.18 Score=56.45 Aligned_cols=44 Identities=27% Similarity=0.766 Sum_probs=38.4
Q ss_pred EE-EeccCCCCCCeeeecCCCCeeecccccccC---CCCceecCCCCC
Q 000611 1252 YC-ICRKPYDEKAMIACYQCDEWYHIDCVKLLS---APEIYICAACKP 1295 (1391)
Q Consensus 1252 yC-~C~~p~~~~~Mi~Cd~C~~WfH~~Cvg~~~---~~~~~~C~~C~~ 1295 (1391)
|| ||+...++...+.||.|+.=||..|+..+- +.+.|-|..|-.
T Consensus 283 ~csicgtsenddqllfcddcdrgyhmyclsppm~eppegswsc~KOG~ 330 (336)
T KOG1244|consen 283 YCSICGTSENDDQLLFCDDCDRGYHMYCLSPPMVEPPEGSWSCHLCLE 330 (336)
T ss_pred eeccccCcCCCceeEeecccCCceeeEecCCCcCCCCCCchhHHHHHH
Confidence 88 999999999999999999999999998653 238999999864
No 39
>KOG0994 consensus Extracellular matrix glycoprotein Laminin subunit beta [Extracellular structures]
Probab=89.58 E-value=94 Score=42.13 Aligned_cols=45 Identities=11% Similarity=0.206 Sum_probs=26.2
Q ss_pred CCHHHHHHHHHHh--CCCccccccHHHHHHHHHHHHHHHHHHHHHHh
Q 000611 490 MSLKTVELLLQEL--GDFTVNMPELELLKQYHSDAIFWIARLNDILV 534 (1391)
Q Consensus 490 ~sl~eLe~ll~e~--~~lpv~lpel~~Lk~~L~ka~~W~~~a~~ll~ 534 (1391)
.+.++++.+.+++ -.||....++..|.+.++....=+..|+.||.
T Consensus 1489 adp~si~~vA~~vL~l~lp~tpeqi~~L~~~I~e~v~sL~nVd~IL~ 1535 (1758)
T KOG0994|consen 1489 ADPDSIEEVAEEVLALELPLTPEQIQQLTGEIQERVASLPNVDAILS 1535 (1758)
T ss_pred CCHHHHHHHHHHHHhccCCCCHHHHHHHHHHHHHHHHhcccHHHHHH
Confidence 5556666665554 45555555666666666555555555666654
No 40
>KOG1245 consensus Chromatin remodeling complex WSTF-ISWI, large subunit (contains heterochromatin localization, PHD and BROMO domains) [Chromatin structure and dynamics]
Probab=89.38 E-value=0.1 Score=71.87 Aligned_cols=56 Identities=29% Similarity=0.721 Sum_probs=47.6
Q ss_pred CCccccccccccCCCcCcceeeccccccccccCcCCccccccCCCCccccCCccccc
Q 000611 988 GSVSMTLCMCCESDSKELEFLICSACKDCYHLQCLRPTEVDRNHAEAYICPYCQYFE 1044 (1391)
Q Consensus 988 ~~~~~~~C~~C~~~~~~~~~i~Cd~C~~~YH~~Cv~~~~~~~~~~~~w~Cp~C~~~~ 1044 (1391)
......+|-+|+...+++.|+.|+.|..|||..|+.|.....+ .+.|+||.|...+
T Consensus 1104 ~s~~~~~c~~cr~k~~~~~m~lc~~c~~~~h~~C~rp~~~~~~-~~dW~C~~c~~e~ 1159 (1404)
T KOG1245|consen 1104 RSAVNALCKVCRRKKQDEKMLLCDECLSGFHLFCLRPALSSVP-PGDWMCPSCRKEH 1159 (1404)
T ss_pred cccchhhhhhhhhcccchhhhhhHhhhhhHHHHhhhhhhccCC-cCCccCCccchhh
Confidence 3566788999999999999999999999999999999966644 3569999999444
No 41
>KOG0383 consensus Predicted helicase [General function prediction only]
Probab=88.71 E-value=0.17 Score=64.81 Aligned_cols=52 Identities=29% Similarity=0.724 Sum_probs=41.4
Q ss_pred CccccccccccCCCcCcceeeccccccccccCcCCccccccCCCCccccCCccccc
Q 000611 989 SVSMTLCMCCESDSKELEFLICSACKDCYHLQCLRPTEVDRNHAEAYICPYCQYFE 1044 (1391)
Q Consensus 989 ~~~~~~C~~C~~~~~~~~~i~Cd~C~~~YH~~Cv~~~~~~~~~~~~w~Cp~C~~~~ 1044 (1391)
......|.+|... ...|.|+.|..+||..|.++.....+..+ |.|++|....
T Consensus 44 ~~~~e~c~ic~~~---g~~l~c~tC~~s~h~~cl~~pl~~~p~~~-~~c~Rc~~p~ 95 (696)
T KOG0383|consen 44 DAEQEACRICADG---GELLWCDTCPASFHASCLGPPLTPQPNGE-FICPRCFCPK 95 (696)
T ss_pred hhhhhhhhhhcCC---CcEEEeccccHHHHHHccCCCCCcCCccc-eeeeeeccCC
Confidence 4566678888543 46788999999999999999977767777 9999997443
No 42
>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=88.46 E-value=5.3 Score=48.72 Aligned_cols=36 Identities=6% Similarity=0.075 Sum_probs=28.1
Q ss_pred HhHHHHHHHHhccccchhhHHHHHHHHHhccccccC
Q 000611 895 KLWQEQVHQFFNLKCAQQSWSLMLQLKELGEAAAFD 930 (1391)
Q Consensus 895 ~~Wq~r~~~~~~~~~~~~s~~~l~~l~~~g~~~~~~ 930 (1391)
-.-++.+|.++..+...--+-.|++++..+.||+..
T Consensus 21 ~~lk~~lr~i~~~~~~r~e~~~lQ~~l~~RsDLt~~ 56 (446)
T PF07227_consen 21 EELKEYLREILEGPEKREEFVALQKLLQRRSDLTSE 56 (446)
T ss_pred HHHHHHHHHHHhCcchHHHHHHHHHHHhccccCCHH
Confidence 345677888887775557788899999999998865
No 43
>cd04718 BAH_plant_2 BAH, or Bromo Adjacent Homology domain, plant-specific sub-family with unknown function. BAH domains are found in a variety of proteins playing roles in transcriptional silencing and the remodeling of chromatin. It is assumed that in most or all of these instances the BAH domain mediates protein-protein interactions.
Probab=87.71 E-value=0.4 Score=50.16 Aligned_cols=32 Identities=34% Similarity=0.786 Sum_probs=25.4
Q ss_pred ccccCcCCccccccCCCCccccCCccccccccc
Q 000611 1016 CYHLQCLRPTEVDRNHAEAYICPYCQYFESESV 1048 (1391)
Q Consensus 1016 ~YH~~Cv~~~~~~~~~~~~w~Cp~C~~~~~~~~ 1048 (1391)
+||..|+.|+...++. +.|+||.|....++..
T Consensus 1 g~H~~CL~Ppl~~~P~-g~W~Cp~C~~~~~~~~ 32 (148)
T cd04718 1 GFHLCCLRPPLKEVPE-GDWICPFCEVEKSGQS 32 (148)
T ss_pred CcccccCCCCCCCCCC-CCcCCCCCcCCCCCCc
Confidence 6999999999776555 6799999996665433
No 44
>KOG1245 consensus Chromatin remodeling complex WSTF-ISWI, large subunit (contains heterochromatin localization, PHD and BROMO domains) [Chromatin structure and dynamics]
Probab=86.63 E-value=0.15 Score=70.36 Aligned_cols=51 Identities=22% Similarity=0.709 Sum_probs=42.0
Q ss_pred CCceEE-EeccCCCCCCeeeecCCCCeeecccccccCC---CCceecCCCCCCCC
Q 000611 1248 RSMLYC-ICRKPYDEKAMIACYQCDEWYHIDCVKLLSA---PEIYICAACKPQAE 1298 (1391)
Q Consensus 1248 ~~~~yC-~C~~p~~~~~Mi~Cd~C~~WfH~~Cvg~~~~---~~~~~C~~C~~~~~ 1298 (1391)
.....| +|+.-.....|+-||.|..|||.-|+...-. +..|+||.|++...
T Consensus 1106 ~~~~~c~~cr~k~~~~~m~lc~~c~~~~h~~C~rp~~~~~~~~dW~C~~c~~e~~ 1160 (1404)
T KOG1245|consen 1106 AVNALCKVCRRKKQDEKMLLCDECLSGFHLFCLRPALSSVPPGDWMCPSCRKEHR 1160 (1404)
T ss_pred cchhhhhhhhhcccchhhhhhHhhhhhHHHHhhhhhhccCCcCCccCCccchhhh
Confidence 345567 8988766678999999999999999997653 58999999997664
No 45
>COG5141 PHD zinc finger-containing protein [General function prediction only]
Probab=83.47 E-value=0.5 Score=56.77 Aligned_cols=51 Identities=24% Similarity=0.563 Sum_probs=39.8
Q ss_pred cccccccccCCCc--CcceeeccccccccccCcCCccccccCCC-CccccCCcccccc
Q 000611 991 SMTLCMCCESDSK--ELEFLICSACKDCYHLQCLRPTEVDRNHA-EAYICPYCQYFES 1045 (1391)
Q Consensus 991 ~~~~C~~C~~~~~--~~~~i~Cd~C~~~YH~~Cv~~~~~~~~~~-~~w~Cp~C~~~~~ 1045 (1391)
=++.|..|-+... .+.++.||.|+.+-|++|.|+. ..+ +.|+|..|....-
T Consensus 192 ~d~~C~~c~~t~~eN~naiVfCdgC~i~VHq~CYGI~----f~peG~WlCrkCi~~~~ 245 (669)
T COG5141 192 FDDICTKCTSTHNENSNAIVFCDGCEICVHQSCYGIQ----FLPEGFWLCRKCIYGEY 245 (669)
T ss_pred hhhhhHhccccccCCcceEEEecCcchhhhhhcccce----ecCcchhhhhhhccccc
Confidence 3456888866543 4889999999999999999988 222 5899999995543
No 46
>KOG0956 consensus PHD finger protein AF10 [General function prediction only]
Probab=81.00 E-value=0.94 Score=56.63 Aligned_cols=46 Identities=22% Similarity=0.683 Sum_probs=37.6
Q ss_pred ceEEEecc--CCCCCCeeeec--CCCCeeecccccccCCC-CceecCCCCC
Q 000611 1250 MLYCICRK--PYDEKAMIACY--QCDEWYHIDCVKLLSAP-EIYICAACKP 1295 (1391)
Q Consensus 1250 ~~yC~C~~--p~~~~~Mi~Cd--~C~~WfH~~Cvg~~~~~-~~~~C~~C~~ 1295 (1391)
.-+|+|.. .+.....|-|| .|..-.|..|.||..-| +.|||..|..
T Consensus 6 GGCCVCSDErGWaeNPLVYCDG~nCsVAVHQaCYGIvqVPtGpWfCrKCes 56 (900)
T KOG0956|consen 6 GGCCVCSDERGWAENPLVYCDGHNCSVAVHQACYGIVQVPTGPWFCRKCES 56 (900)
T ss_pred cceeeecCcCCCccCceeeecCCCceeeeehhcceeEecCCCchhhhhhhh
Confidence 34899964 33346799999 69999999999999876 8999999954
No 47
>KOG0383 consensus Predicted helicase [General function prediction only]
Probab=78.18 E-value=1.7 Score=56.16 Aligned_cols=41 Identities=24% Similarity=0.613 Sum_probs=33.0
Q ss_pred EEEeccCCCCCCeeeecCCCCeeecccccccCCC---CceecCCCCC
Q 000611 1252 YCICRKPYDEKAMIACYQCDEWYHIDCVKLLSAP---EIYICAACKP 1295 (1391)
Q Consensus 1252 yC~C~~p~~~~~Mi~Cd~C~~WfH~~Cvg~~~~~---~~~~C~~C~~ 1295 (1391)
+|+|.. +|.-+.||.|..|||..|.|..-.+ ..|.|+.|..
T Consensus 50 c~ic~~---~g~~l~c~tC~~s~h~~cl~~pl~~~p~~~~~c~Rc~~ 93 (696)
T KOG0383|consen 50 CRICAD---GGELLWCDTCPASFHASCLGPPLTPQPNGEFICPRCFC 93 (696)
T ss_pred hhhhcC---CCcEEEeccccHHHHHHccCCCCCcCCccceeeeeecc
Confidence 457775 5788899999999999999876542 4499999954
No 48
>KOG1829 consensus Uncharacterized conserved protein, contains C1, PH and RUN domains [Signal transduction mechanisms]
Probab=76.98 E-value=3.3 Score=52.35 Aligned_cols=31 Identities=23% Similarity=0.628 Sum_probs=25.7
Q ss_pred CCeeeecCCCCeeecccccccCCCCceecCCCCCC
Q 000611 1262 KAMIACYQCDEWYHIDCVKLLSAPEIYICAACKPQ 1296 (1391)
Q Consensus 1262 ~~Mi~Cd~C~~WfH~~Cvg~~~~~~~~~C~~C~~~ 1296 (1391)
+.-..|+.|.-|||-.|....... ||.|...
T Consensus 529 ~~~~rC~~C~avfH~~C~~r~s~~----CPrC~R~ 559 (580)
T KOG1829|consen 529 RNTRRCSTCLAVFHKKCLRRKSPC----CPRCERR 559 (580)
T ss_pred ccceeHHHHHHHHHHHHHhccCCC----CCchHHH
Confidence 446889999999999999877665 9999753
No 49
>PF14446 Prok-RING_1: Prokaryotic RING finger family 1
Probab=71.77 E-value=2.2 Score=37.21 Aligned_cols=34 Identities=24% Similarity=0.596 Sum_probs=28.3
Q ss_pred cccccccccCCCc-CcceeeccccccccccCcCCc
Q 000611 991 SMTLCMCCESDSK-ELEFLICSACKDCYHLQCLRP 1024 (1391)
Q Consensus 991 ~~~~C~~C~~~~~-~~~~i~Cd~C~~~YH~~Cv~~ 1024 (1391)
.+..|.+|+.+.. ...++.|..|+.-||..|...
T Consensus 4 ~~~~C~~Cg~~~~~~dDiVvCp~CgapyHR~C~~~ 38 (54)
T PF14446_consen 4 EGCKCPVCGKKFKDGDDIVVCPECGAPYHRDCWEK 38 (54)
T ss_pred cCccChhhCCcccCCCCEEECCCCCCcccHHHHhh
Confidence 4567999988854 688999999999999999743
No 50
>PF13901 DUF4206: Domain of unknown function (DUF4206)
Probab=71.43 E-value=4 Score=45.44 Aligned_cols=67 Identities=28% Similarity=0.574 Sum_probs=43.1
Q ss_pred CcchHHHHHHHHHHhhhhhhccCCCCCCccccc-cccccCC-----CcCcceeeccccccccccCcCCccccccCCCCcc
Q 000611 962 KNSLLGLLQKIKQSVHRSLYIYNKPHGSVSMTL-CMCCESD-----SKELEFLICSACKDCYHLQCLRPTEVDRNHAEAY 1035 (1391)
Q Consensus 962 ~~sL~~~l~~i~~~l~~~~~~~~~~~~~~~~~~-C~~C~~~-----~~~~~~i~Cd~C~~~YH~~Cv~~~~~~~~~~~~w 1035 (1391)
.++|...|+.+.+....- |+ .=+.|.+.++ |-+|..+ .+.....+|..|+..||..|..- -
T Consensus 124 ~G~L~~~L~~l~~~~~~H--V~-~C~lC~~kGfiCe~C~~~~~IfPF~~~~~~~C~~C~~v~H~~C~~~----------~ 190 (202)
T PF13901_consen 124 SGQLLPQLEKLVQFAEKH--VY-SCELCQQKGFICEICNSDDIIFPFQIDTTVRCPKCKSVFHKSCFRK----------K 190 (202)
T ss_pred hchHHHHHHHHHHHHHHH--HH-HhHHHHhCCCCCccCCCCCCCCCCCCCCeeeCCcCccccchhhcCC----------C
Confidence 455666666665442221 11 1113555555 8888654 34468899999999999999662 1
Q ss_pred ccCCcc
Q 000611 1036 ICPYCQ 1041 (1391)
Q Consensus 1036 ~Cp~C~ 1041 (1391)
.||.|.
T Consensus 191 ~CpkC~ 196 (202)
T PF13901_consen 191 SCPKCA 196 (202)
T ss_pred CCCCcH
Confidence 299998
No 51
>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=68.59 E-value=3.8 Score=49.90 Aligned_cols=46 Identities=35% Similarity=0.876 Sum_probs=33.5
Q ss_pred EEEeccCCCC----CCeeeecCCCCeeecccc--------cccCC------CCceecCCCCCCCC
Q 000611 1252 YCICRKPYDE----KAMIACYQCDEWYHIDCV--------KLLSA------PEIYICAACKPQAE 1298 (1391)
Q Consensus 1252 yC~C~~p~~~----~~Mi~Cd~C~~WfH~~Cv--------g~~~~------~~~~~C~~C~~~~~ 1298 (1391)
+|+|.+ +|+ --+|.||.|..|-|.+|. |.+.. +..|+|..|...+.
T Consensus 131 C~iC~k-fD~~~n~~~Wi~Cd~CgH~cH~dCALr~~~i~~G~s~~g~~g~~d~~f~C~~C~~~se 194 (446)
T PF07227_consen 131 CCICSK-FDDNKNTCSWIGCDVCGHWCHLDCALRHELIGTGPSVKGSIGTLDMQFHCRACGKTSE 194 (446)
T ss_pred ccccCC-cccCCCCeeEEeccCCCceehhhhhcccccccCCccCCCCCccCceEEEccCCCChhh
Confidence 558987 443 239999999999999995 32221 24799999987543
No 52
>KOG2752 consensus Uncharacterized conserved protein, contains N-recognin-type Zn-finger [General function prediction only]
Probab=67.16 E-value=2.9 Score=48.28 Aligned_cols=35 Identities=29% Similarity=0.670 Sum_probs=26.3
Q ss_pred cccccccccCCCc-----Ccceeeccccccccc-cCcCCcc
Q 000611 991 SMTLCMCCESDSK-----ELEFLICSACKDCYH-LQCLRPT 1025 (1391)
Q Consensus 991 ~~~~C~~C~~~~~-----~~~~i~Cd~C~~~YH-~~Cv~~~ 1025 (1391)
++.+|.|=..+.+ +..|++|..|.+||| ..|+...
T Consensus 127 qG~~C~Cd~~Ypdp~~~~e~~m~QC~iCEDWFHce~c~~~~ 167 (345)
T KOG2752|consen 127 QGLFCKCDTPYPDPVRTEEGEMLQCVICEDWFHCEGCMQAK 167 (345)
T ss_pred cceeEEecCCCCCccccccceeeeEEeccchhcccccCccc
Confidence 5678885444332 589999999999999 8887654
No 53
>COG5141 PHD zinc finger-containing protein [General function prediction only]
Probab=66.50 E-value=2.3 Score=51.47 Aligned_cols=45 Identities=22% Similarity=0.560 Sum_probs=36.4
Q ss_pred EeccCCCC--CCeeeecCCCCeeecccccccCCC-CceecCCCCCCCC
Q 000611 1254 ICRKPYDE--KAMIACYQCDEWYHIDCVKLLSAP-EIYICAACKPQAE 1298 (1391)
Q Consensus 1254 ~C~~p~~~--~~Mi~Cd~C~~WfH~~Cvg~~~~~-~~~~C~~C~~~~~ 1298 (1391)
+|...+++ ...|-||+|+--.|.+|-||.--| +.|+|..|--+..
T Consensus 198 ~c~~t~~eN~naiVfCdgC~i~VHq~CYGI~f~peG~WlCrkCi~~~~ 245 (669)
T COG5141 198 KCTSTHNENSNAIVFCDGCEICVHQSCYGIQFLPEGFWLCRKCIYGEY 245 (669)
T ss_pred hccccccCCcceEEEecCcchhhhhhcccceecCcchhhhhhhccccc
Confidence 77665553 669999999999999999999876 5999999865443
No 54
>KOG1246 consensus DNA-binding protein jumonji/RBP2/SMCY, contains JmjC domain [General function prediction only]
Probab=63.13 E-value=3.2 Score=56.23 Aligned_cols=87 Identities=15% Similarity=0.108 Sum_probs=72.3
Q ss_pred cccCCChh-hHH-HHHHHhhcccCcccccccchhhhhhhHHHHHhhhccCCccccCCCChhhHHHHHhcccccccccchh
Q 000611 806 LSVSPSLE-DVE-SLMAVAEGLSTRCFSSMLWNSLIHGVKWLKRALEVISAPCKFKRCKLSDVEEVLAGCKGINFSFPVV 883 (1391)
Q Consensus 806 c~~~p~~~-~~~-~lc~~~~hl~~~cv~~~l~~~~~~~~~wl~~~~~~lp~c~rS~rp~L~~i~~lL~~lq~i~v~~pe~ 883 (1391)
|.....+. +++ ++|.++|| ..|+..+....... +|-++.||++..|..+....+.++++.++.
T Consensus 804 c~~~~~~~~~~~~e~~~~~~~--~~~~~~~~~~~~~~-------------~c~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 868 (904)
T KOG1246|consen 804 CLKRSLAKSQLECELAIDEFH--EICVAVPEKVELSH-------------LCSRCERPRLAVIFVLDPNLKPTPYRVLEN 868 (904)
T ss_pred hhhhhhhhhhhhHHHHHhhhh--heecccCCCccccc-------------hhhhccccchheeeeeccCCCCCccccccc
Confidence 66555555 677 99999999 77777443332222 778999999999999999999999999998
Q ss_pred hHHHHHHHHHhHhHHHHHHHHhcccc
Q 000611 884 IGELTSAIQKHKLWQEQVHQFFNLKC 909 (1391)
Q Consensus 884 ~~~L~~~ier~~~Wq~r~~~~~~~~~ 909 (1391)
..++.+++++ .|+..+.|.|...+
T Consensus 869 -~~~r~~~~~~-~~~~~~~~~~~~~~ 892 (904)
T KOG1246|consen 869 -EKLRCTIEQA-IWLQVALQQFSSED 892 (904)
T ss_pred -cccccchhcc-hHHHHHHHhhhhhh
Confidence 9999999999 99999999998873
No 55
>COG5415 Predicted integral membrane metal-binding protein [General function prediction only]
Probab=62.70 E-value=6.2 Score=43.15 Aligned_cols=36 Identities=28% Similarity=0.630 Sum_probs=28.9
Q ss_pred CCeeeecCCCCeeecccccccCCC-CceecCCCCCCCCC
Q 000611 1262 KAMIACYQCDEWYHIDCVKLLSAP-EIYICAACKPQAEE 1299 (1391)
Q Consensus 1262 ~~Mi~Cd~C~~WfH~~Cvg~~~~~-~~~~C~~C~~~~~~ 1299 (1391)
..-+-|..|.. |..|+...+.+ +.|+|+.|...++.
T Consensus 190 ~~alIC~~C~h--hngl~~~~ek~~~efiC~~Cn~~n~~ 226 (251)
T COG5415 190 FKALICPQCHH--HNGLYRLAEKPIIEFICPHCNHKNDE 226 (251)
T ss_pred hhhhccccccc--cccccccccccchheecccchhhcCc
Confidence 34567888874 89999999887 56999999987763
No 56
>KOG4443 consensus Putative transcription factor HALR/MLL3, involved in embryonic development [General function prediction only]
Probab=61.52 E-value=4.5 Score=51.08 Aligned_cols=55 Identities=24% Similarity=0.658 Sum_probs=42.6
Q ss_pred CccccccccccCCCcCcceeeccccccccccCcCCccccccCCCCccccCCccccc
Q 000611 989 SVSMTLCMCCESDSKELEFLICSACKDCYHLQCLRPTEVDRNHAEAYICPYCQYFE 1044 (1391)
Q Consensus 989 ~~~~~~C~~C~~~~~~~~~i~Cd~C~~~YH~~Cv~~~~~~~~~~~~w~Cp~C~~~~ 1044 (1391)
|-+=..|..|+...+.....-|+.|...||..|..|.-.. -..+.|+|+.|....
T Consensus 65 C~~crvCe~c~~~gD~~kf~~Ck~cDvsyh~yc~~P~~~~-v~sg~~~ckk~~~c~ 119 (694)
T KOG4443|consen 65 CPSCRVCEACGTTGDPKKFLLCKRCDVSYHCYCQKPPNDK-VPSGPWLCKKCTRCR 119 (694)
T ss_pred cCCceeeeeccccCCcccccccccccccccccccCCcccc-ccCcccccHHHHhhh
Confidence 4455667778877777888999999999999999988433 235789999888433
No 57
>KOG2626 consensus Histone H3 (Lys4) methyltransferase complex, subunit CPS60/ASH2/BRE2 [Chromatin structure and dynamics; Transcription]
Probab=60.69 E-value=6 Score=48.92 Aligned_cols=49 Identities=18% Similarity=0.676 Sum_probs=37.6
Q ss_pred CCceEEEeccCCCCC-CeeeecCCCCeeecccccccCC---------CCceecCCCCCC
Q 000611 1248 RSMLYCICRKPYDEK-AMIACYQCDEWYHIDCVKLLSA---------PEIYICAACKPQ 1296 (1391)
Q Consensus 1248 ~~~~yC~C~~p~~~~-~Mi~Cd~C~~WfH~~Cvg~~~~---------~~~~~C~~C~~~ 1296 (1391)
...++|+|+...+.+ .-+||..|-.|||..|.-.+.. ...|+|..|...
T Consensus 18 ~~~~~~y~e~~r~l~~~elqcs~clk~~~~~~~~~~~~~~s~~pf~t~y~fvc~~c~~~ 76 (544)
T KOG2626|consen 18 KQATVCYCEGERNLGIVELQCSTCLKWFHLPTLEAFHLIKSSLPFMTSYEFVCKECTPS 76 (544)
T ss_pred cCccccccccccccCceeeEeeecccccccccccccccccccCCcccceeEEeccccCc
Confidence 346799999876644 4899999999999866554432 278999999986
No 58
>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=57.39 E-value=2 Score=35.52 Aligned_cols=42 Identities=19% Similarity=0.533 Sum_probs=28.7
Q ss_pred ccccccCCCc-CcceeeccccccccccCcCCccccccCCCCccccCCcc
Q 000611 994 LCMCCESDSK-ELEFLICSACKDCYHLQCLRPTEVDRNHAEAYICPYCQ 1041 (1391)
Q Consensus 994 ~C~~C~~~~~-~~~~i~Cd~C~~~YH~~Cv~~~~~~~~~~~~w~Cp~C~ 1041 (1391)
.|.+|..+.. ++.++... |+..||.+|+..-... ...||.|.
T Consensus 2 ~C~IC~~~~~~~~~~~~l~-C~H~fh~~Ci~~~~~~-----~~~CP~CR 44 (44)
T PF13639_consen 2 ECPICLEEFEDGEKVVKLP-CGHVFHRSCIKEWLKR-----NNSCPVCR 44 (44)
T ss_dssp CETTTTCBHHTTSCEEEET-TSEEEEHHHHHHHHHH-----SSB-TTTH
T ss_pred CCcCCChhhcCCCeEEEcc-CCCeeCHHHHHHHHHh-----CCcCCccC
Confidence 4888988754 45555555 9999999997655322 23899883
No 59
>KOG0956 consensus PHD finger protein AF10 [General function prediction only]
Probab=57.22 E-value=5.1 Score=50.53 Aligned_cols=44 Identities=23% Similarity=0.671 Sum_probs=35.8
Q ss_pred cccccCC--CcCcceeeccc--cccccccCcCCccccccCCCCccccCCcc
Q 000611 995 CMCCESD--SKELEFLICSA--CKDCYHLQCLRPTEVDRNHAEAYICPYCQ 1041 (1391)
Q Consensus 995 C~~C~~~--~~~~~~i~Cd~--C~~~YH~~Cv~~~~~~~~~~~~w~Cp~C~ 1041 (1391)
|++|... -.++.+|.||. |.-.-|+.|.|+..- ..+.|+|..|+
T Consensus 8 CCVCSDErGWaeNPLVYCDG~nCsVAVHQaCYGIvqV---PtGpWfCrKCe 55 (900)
T KOG0956|consen 8 CCVCSDERGWAENPLVYCDGHNCSVAVHQACYGIVQV---PTGPWFCRKCE 55 (900)
T ss_pred eeeecCcCCCccCceeeecCCCceeeeehhcceeEec---CCCchhhhhhh
Confidence 7778554 45799999995 999999999999832 24789999999
No 60
>PF15446 zf-PHD-like: PHD/FYVE-zinc-finger like domain
Probab=56.67 E-value=6.2 Score=42.08 Aligned_cols=47 Identities=26% Similarity=0.649 Sum_probs=34.2
Q ss_pred ccccc---CCCcCcceeeccccccccccCcCCcccc-------ccCCCCccccCCcc
Q 000611 995 CMCCE---SDSKELEFLICSACKDCYHLQCLRPTEV-------DRNHAEAYICPYCQ 1041 (1391)
Q Consensus 995 C~~C~---~~~~~~~~i~Cd~C~~~YH~~Cv~~~~~-------~~~~~~~w~Cp~C~ 1041 (1391)
|..|. ....-..+|.|-.|-..||..|+|+-.. .......-.|.+|+
T Consensus 2 C~~C~~~g~~~~kG~Lv~CQGCs~sYHk~CLG~Rs~ReHlVTKVg~d~FVLQCr~Ci 58 (175)
T PF15446_consen 2 CDTCGYEGDDRNKGPLVYCQGCSSSYHKACLGPRSQREHLVTKVGDDDFVLQCRRCI 58 (175)
T ss_pred cccccCCCCCccCCCeEEcCccChHHHhhhcCCccccceeeEEEcCCceEEechhhc
Confidence 66674 3445578999999999999999998732 22222334599999
No 61
>KOG1829 consensus Uncharacterized conserved protein, contains C1, PH and RUN domains [Signal transduction mechanisms]
Probab=55.57 E-value=5.6 Score=50.42 Aligned_cols=49 Identities=24% Similarity=0.600 Sum_probs=34.6
Q ss_pred CCccccc-cccccCC-----CcCcceeeccccccccccCcCCccccccCCCCccccCCccccc
Q 000611 988 GSVSMTL-CMCCESD-----SKELEFLICSACKDCYHLQCLRPTEVDRNHAEAYICPYCQYFE 1044 (1391)
Q Consensus 988 ~~~~~~~-C~~C~~~-----~~~~~~i~Cd~C~~~YH~~Cv~~~~~~~~~~~~w~Cp~C~~~~ 1044 (1391)
.|...++ |..|..+ ...+....|+.|+.+||..|..... . .||.|...+
T Consensus 506 lC~~~gfiCe~Cq~~~iiyPF~~~~~~rC~~C~avfH~~C~~r~s------~--~CPrC~R~q 560 (580)
T KOG1829|consen 506 LCTGKGFICELCQHNDIIYPFETRNTRRCSTCLAVFHKKCLRRKS------P--CCPRCERRQ 560 (580)
T ss_pred hhccCeeeeeeccCCCcccccccccceeHHHHHHHHHHHHHhccC------C--CCCchHHHH
Confidence 4666666 7778543 3356779999999999999965441 1 199999433
No 62
>KOG1844 consensus PHD Zn-finger proteins [General function prediction only]
Probab=55.42 E-value=5.7 Score=50.25 Aligned_cols=51 Identities=20% Similarity=0.520 Sum_probs=41.2
Q ss_pred cccccccccCCCc-CcceeeccccccccccCcCCccccccCCCCccccCCccccc
Q 000611 991 SMTLCMCCESDSK-ELEFLICSACKDCYHLQCLRPTEVDRNHAEAYICPYCQYFE 1044 (1391)
Q Consensus 991 ~~~~C~~C~~~~~-~~~~i~Cd~C~~~YH~~Cv~~~~~~~~~~~~w~Cp~C~~~~ 1044 (1391)
....|. |+..++ +..|+.|+.|+.|=|..|++...... ++.|.|..|....
T Consensus 85 ~~~~c~-c~~~~~~~g~~i~c~~c~~Wqh~~C~g~~~~~~--p~~y~c~~c~~~~ 136 (508)
T KOG1844|consen 85 EISRCD-CGLEDDMEGLMIQCDWCGRWQHKICCGSFKSTK--PDKYVCEICTPRN 136 (508)
T ss_pred cccccc-cccccCCCceeeCCcccCcccCceeeeecCCCC--chhceeeeecccc
Confidence 344476 766666 99999999999999999999985442 7899999999443
No 63
>cd04718 BAH_plant_2 BAH, or Bromo Adjacent Homology domain, plant-specific sub-family with unknown function. BAH domains are found in a variety of proteins playing roles in transcriptional silencing and the remodeling of chromatin. It is assumed that in most or all of these instances the BAH domain mediates protein-protein interactions.
Probab=51.68 E-value=11 Score=39.64 Aligned_cols=28 Identities=25% Similarity=0.645 Sum_probs=21.5
Q ss_pred eecccccccCC--C-CceecCCCCCCCCCCC
Q 000611 1274 YHIDCVKLLSA--P-EIYICAACKPQAEESS 1301 (1391)
Q Consensus 1274 fH~~Cvg~~~~--~-~~~~C~~C~~~~~~~~ 1301 (1391)
||..|+..+-. | +.|+||.|.....+.+
T Consensus 2 ~H~~CL~Ppl~~~P~g~W~Cp~C~~~~~~~~ 32 (148)
T cd04718 2 FHLCCLRPPLKEVPEGDWICPFCEVEKSGQS 32 (148)
T ss_pred cccccCCCCCCCCCCCCcCCCCCcCCCCCCc
Confidence 89999986543 3 7999999997655544
No 64
>KOG2114 consensus Vacuolar assembly/sorting protein PEP5/VPS11 [Intracellular trafficking, secretion, and vesicular transport]
Probab=51.52 E-value=21 Score=46.70 Aligned_cols=40 Identities=30% Similarity=0.740 Sum_probs=27.8
Q ss_pred ccccccccCCCcCcceeeccccccccccCcCCccccccCCCCccccCCcc
Q 000611 992 MTLCMCCESDSKELEFLICSACKDCYHLQCLRPTEVDRNHAEAYICPYCQ 1041 (1391)
Q Consensus 992 ~~~C~~C~~~~~~~~~i~Cd~C~~~YH~~Cv~~~~~~~~~~~~w~Cp~C~ 1041 (1391)
...|..|...-+- +++ =-.|++.||+.|++ .....||.|.
T Consensus 840 ~skCs~C~~~Ldl-P~V-hF~CgHsyHqhC~e--------~~~~~CP~C~ 879 (933)
T KOG2114|consen 840 VSKCSACEGTLDL-PFV-HFLCGHSYHQHCLE--------DKEDKCPKCL 879 (933)
T ss_pred eeeecccCCcccc-cee-eeecccHHHHHhhc--------cCcccCCccc
Confidence 3569999665321 122 24799999999988 3356799999
No 65
>PF11793 FANCL_C: FANCL C-terminal domain; PDB: 3K1L_A.
Probab=48.10 E-value=8.6 Score=35.41 Aligned_cols=49 Identities=29% Similarity=0.543 Sum_probs=18.1
Q ss_pred cccccccCCC---cCcceeecc--ccccccccCcCCcc-c-----cccCCCCccccCCcc
Q 000611 993 TLCMCCESDS---KELEFLICS--ACKDCYHLQCLRPT-E-----VDRNHAEAYICPYCQ 1041 (1391)
Q Consensus 993 ~~C~~C~~~~---~~~~~i~Cd--~C~~~YH~~Cv~~~-~-----~~~~~~~~w~Cp~C~ 1041 (1391)
.-|.||.... +....+.|+ .|+.-||..|+.-- . ...-......||+|.
T Consensus 3 ~~C~IC~~~~~~~~~~p~~~C~n~~C~~~fH~~CL~~wf~~~~~~~~~~~~~~G~CP~C~ 62 (70)
T PF11793_consen 3 LECGICYSYRLDDGEIPDVVCPNPSCGKKFHLLCLSEWFLSLEKSRQSFIPIFGECPYCS 62 (70)
T ss_dssp -S-SSS--SS-TT-----B--S-TT----B-SGGGHHHHHHHHSSS-TTT--EEE-TTT-
T ss_pred CCCCcCCcEecCCCCcCceEcCCcccCCHHHHHHHHHHHHHcccCCeeecccccCCcCCC
Confidence 4588997653 234568898 99999999997422 1 111223346799998
No 66
>KOG4628 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=46.07 E-value=14 Score=44.07 Aligned_cols=45 Identities=24% Similarity=0.627 Sum_probs=34.9
Q ss_pred cccccccCCCcCcceeeccccccccccCcCCccccccCCCCccccCCcc
Q 000611 993 TLCMCCESDSKELEFLICSACKDCYHLQCLRPTEVDRNHAEAYICPYCQ 1041 (1391)
Q Consensus 993 ~~C~~C~~~~~~~~~i~Cd~C~~~YH~~Cv~~~~~~~~~~~~w~Cp~C~ 1041 (1391)
..|+||..+...+.-+.==-|++-||..|+.+=... ..-+||-|.
T Consensus 230 ~~CaIClEdY~~GdklRiLPC~H~FH~~CIDpWL~~----~r~~CPvCK 274 (348)
T KOG4628|consen 230 DTCAICLEDYEKGDKLRILPCSHKFHVNCIDPWLTQ----TRTFCPVCK 274 (348)
T ss_pred ceEEEeecccccCCeeeEecCCCchhhccchhhHhh----cCccCCCCC
Confidence 689999887666666666899999999999865322 135799998
No 67
>PHA02929 N1R/p28-like protein; Provisional
Probab=45.70 E-value=26 Score=40.05 Aligned_cols=48 Identities=23% Similarity=0.525 Sum_probs=31.2
Q ss_pred CccccccccccCCCcCc-----ceeeccccccccccCcCCccccccCCCCccccCCcc
Q 000611 989 SVSMTLCMCCESDSKEL-----EFLICSACKDCYHLQCLRPTEVDRNHAEAYICPYCQ 1041 (1391)
Q Consensus 989 ~~~~~~C~~C~~~~~~~-----~~i~Cd~C~~~YH~~Cv~~~~~~~~~~~~w~Cp~C~ 1041 (1391)
......|.+|.....+. .+..=..|++.||..|+..-.. ..-.||-|.
T Consensus 171 ~~~~~eC~ICle~~~~~~~~~~~~~vl~~C~H~FC~~CI~~Wl~-----~~~tCPlCR 223 (238)
T PHA02929 171 RSKDKECAICMEKVYDKEIKNMYFGILSNCNHVFCIECIDIWKK-----EKNTCPVCR 223 (238)
T ss_pred CCCCCCCccCCcccccCccccccceecCCCCCcccHHHHHHHHh-----cCCCCCCCC
Confidence 34557799997753221 1233457999999999864422 123799998
No 68
>COG1340 Uncharacterized archaeal coiled-coil protein [Function unknown]
Probab=44.57 E-value=3.8e+02 Score=31.75 Aligned_cols=128 Identities=13% Similarity=0.131 Sum_probs=68.0
Q ss_pred HHHHHHHHhhcCCCccccccHHHHHHHHhhhHHHHHHHHHhhc-cCCC-cccHHHHHHHHHHhhhcCCCCCchHHHHHHH
Q 000611 395 SELELLYSRASGLPICIVESEKLSQRISSAKVWRDSVRKCISN-KCPA-AIEIDVLYKLESEALDLKIDVPETDMLLKMI 472 (1391)
Q Consensus 395 ~eLe~Ll~~g~~~~V~lpEl~kLk~rle~~k~W~~~v~~~L~~-~~~~-~~tLe~Lr~Ll~Ea~~l~v~~Pe~d~Lqell 472 (1391)
..+..+.+....++..-+.+..++..++... |.-..... +. ..+. .-.+..|+..+..+... .-.+..++++.
T Consensus 90 ~~~~~l~e~~~~~~~~~~~~~~ler~i~~Le-~~~~T~~L-~~e~E~~lvq~I~~L~k~le~~~k~---~e~~~~~~el~ 164 (294)
T COG1340 90 KEYRELKEKRNEFNLGGRSIKSLEREIERLE-KKQQTSVL-TPEEERELVQKIKELRKELEDAKKA---LEENEKLKELK 164 (294)
T ss_pred HHHHHHHHHhhhhhccCCCHHHHHHHHHHHH-HHHHhcCC-ChHHHHHHHHHHHHHHHHHHHHHHH---HHHHHHHHHHH
Confidence 3445555555556566677788888888776 54333221 10 0000 11344455544444322 33345677777
Q ss_pred HHHHHHHHHHHHhhcCCCCHHHHHHHHHHhCCCcccccc-HHHHHHHHHHHHHHHHHHHHHH
Q 000611 473 GQAESCRARCSEALRGSMSLKTVELLLQELGDFTVNMPE-LELLKQYHSDAIFWIARLNDIL 533 (1391)
Q Consensus 473 ~~aE~we~kAq~lL~~~~sl~eLe~ll~e~~~lpv~lpe-l~~Lk~~L~ka~~W~~~a~~ll 533 (1391)
..+.....+|..+- ..+..+.++++.+.=.|-+ +...+++-.+|...+..+..+.
T Consensus 165 aei~~lk~~~~e~~------eki~~la~eaqe~he~m~k~~~~~De~Rkeade~he~~ve~~ 220 (294)
T COG1340 165 AEIDELKKKAREIH------EKIQELANEAQEYHEEMIKLFEEADELRKEADELHEEFVELS 220 (294)
T ss_pred HHHHHHHHHHHHHH------HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 77777777777663 5566667776555544432 2334444455555555555543
No 69
>PF15446 zf-PHD-like: PHD/FYVE-zinc-finger like domain
Probab=42.68 E-value=33 Score=36.80 Aligned_cols=38 Identities=24% Similarity=0.599 Sum_probs=30.9
Q ss_pred CCeeeecCCCCeeecccccccCC---------CCcee--cCCCCCCCCC
Q 000611 1262 KAMIACYQCDEWYHIDCVKLLSA---------PEIYI--CAACKPQAEE 1299 (1391)
Q Consensus 1262 ~~Mi~Cd~C~~WfH~~Cvg~~~~---------~~~~~--C~~C~~~~~~ 1299 (1391)
|.||-|-+|..=||-.|+|.-.. ++.|+ |..|......
T Consensus 15 G~Lv~CQGCs~sYHk~CLG~Rs~ReHlVTKVg~d~FVLQCr~Cig~~~k 63 (175)
T PF15446_consen 15 GPLVYCQGCSSSYHKACLGPRSQREHLVTKVGDDDFVLQCRRCIGIAHK 63 (175)
T ss_pred CCeEEcCccChHHHhhhcCCccccceeeEEEcCCceEEechhhcChhhc
Confidence 88999999999999999998764 25666 9999764443
No 70
>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=42.66 E-value=9.8 Score=35.28 Aligned_cols=43 Identities=19% Similarity=0.596 Sum_probs=26.7
Q ss_pred ccccccCCC----------cCcceeeccccccccccCcCCccccccCCCCccccCCcc
Q 000611 994 LCMCCESDS----------KELEFLICSACKDCYHLQCLRPTEVDRNHAEAYICPYCQ 1041 (1391)
Q Consensus 994 ~C~~C~~~~----------~~~~~i~Cd~C~~~YH~~Cv~~~~~~~~~~~~w~Cp~C~ 1041 (1391)
.|.||+.+. ++...+.=..|+..||..|+.-=... ...||.|.
T Consensus 21 ~C~IC~~~l~~~~~~~~~~~~~~~i~~~~C~H~FH~~Ci~~Wl~~-----~~~CP~CR 73 (73)
T PF12678_consen 21 NCAICREPLEDPCPECQAPQDECPIVWGPCGHIFHFHCISQWLKQ-----NNTCPLCR 73 (73)
T ss_dssp BETTTTSBTTSTTCCHHHCTTTS-EEEETTSEEEEHHHHHHHHTT-----SSB-TTSS
T ss_pred cccccChhhhChhhhhcCCccccceEecccCCCEEHHHHHHHHhc-----CCcCCCCC
Confidence 399997653 12344555679999999998533221 22899884
No 71
>PF06008 Laminin_I: Laminin Domain I; InterPro: IPR009254 Laminins are glycoproteins that are major constituents of the basement membrane of cells. Laminins are trimeric molecules; laminin-1 is an alpha1 beta1 gamma1 trimer. It has been suggested that the domains I and II from laminin A, B1 and B2 may come together to form a triple helical coiled-coil structure []. Binding to cells via a high affinity receptor, laminin is thought to mediate the attachment, migration and organisation of cells into tissues during embryonic development by interacting with other extracellular matrix components.; GO: 0005102 receptor binding, 0030155 regulation of cell adhesion, 0030334 regulation of cell migration, 0045995 regulation of embryonic development, 0005606 laminin-1 complex
Probab=42.57 E-value=4.2e+02 Score=30.68 Aligned_cols=39 Identities=15% Similarity=0.217 Sum_probs=22.5
Q ss_pred HHHHHHHHHHHHHHHHHHHhcCCC-HHHHHHHHHhhcCCC
Q 000611 370 LQNYAEEARSLIQEINAALSACSK-ISELELLYSRASGLP 408 (1391)
Q Consensus 370 Lkel~~~~e~~~~e~~~~L~~~~~-i~eLe~Ll~~g~~~~ 408 (1391)
+..+...++.++.+++.++..... ....+..+.++..+.
T Consensus 54 l~~L~~d~~~L~~k~~~~~~~~~~l~~~t~~t~~~a~~L~ 93 (264)
T PF06008_consen 54 LESLEQDVENLQEKATKVSRKAQQLNNNTERTLQRAQDLE 93 (264)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 566667777777777777665432 234455555555433
No 72
>KOG2910 consensus Uncharacterized conserved protein predicted to be involved in protein sorting [General function prediction only]
Probab=42.50 E-value=5.1e+02 Score=28.68 Aligned_cols=43 Identities=21% Similarity=0.302 Sum_probs=24.5
Q ss_pred HHHHHHHHHHHHHHHHHHHHhhhccCCCCCCCHHHHHHHHHhh
Q 000611 514 LLKQYHSDAIFWIARLNDILVNINGRKDQHNVIDELNCILKEG 556 (1391)
Q Consensus 514 ~Lk~~L~ka~~W~~~a~~ll~~~~~~~~~~p~l~eL~~Ll~~g 556 (1391)
.+.+--..|.++++.+.++|++.-...+..-...||..|...-
T Consensus 123 rimddt~ea~~YQ~Ein~~L~~~ls~~dEddi~~EldaLese~ 165 (209)
T KOG2910|consen 123 RIMDDTQEAIEYQDEINAILSGSLSAEDEDDILAELDALESEL 165 (209)
T ss_pred HHHHhHHHHHHHHHHHHHHHHhhcccccHHHHHHHHHHHHHHh
Confidence 3333356788999999999974322222233344555554443
No 73
>smart00154 ZnF_AN1 AN1-like Zinc finger. Zinc finger at the C-terminus of An1, a ubiquitin-like protein in Xenopus laevis.
Probab=41.39 E-value=14 Score=30.22 Aligned_cols=26 Identities=38% Similarity=0.954 Sum_probs=23.0
Q ss_pred cccccccccccccccc-ccCCceeeccch
Q 000611 170 CIICRQYLYLSAVACR-CRPAAFVCLEHW 197 (1391)
Q Consensus 170 C~~Ck~~~flS~v~C~-c~~~~~~CL~H~ 197 (1391)
|.+|+...+|..+.|. | +.++|+.|-
T Consensus 1 C~~C~~~~~l~~f~C~~C--~~~FC~~HR 27 (39)
T smart00154 1 CHFCRKKVGLTGFKCRHC--GNLFCGEHR 27 (39)
T ss_pred CcccCCcccccCeECCcc--CCccccccC
Confidence 7889999999889998 7 579999996
No 74
>PF13341 RAG2_PHD: RAG2 PHD domain; PDB: 2JWO_A 2V86_B 2V85_B 2V87_A 2V83_C 2V89_A 2V88_A.
Probab=40.36 E-value=12 Score=33.96 Aligned_cols=33 Identities=30% Similarity=0.673 Sum_probs=19.6
Q ss_pred CeeeecCC-CCeeecccccccCC--------CCceecCCCCC
Q 000611 1263 AMIACYQC-DEWYHIDCVKLLSA--------PEIYICAACKP 1295 (1391)
Q Consensus 1263 ~Mi~Cd~C-~~WfH~~Cvg~~~~--------~~~~~C~~C~~ 1295 (1391)
.||-|..= +.|.|..|+++++. ..+|||..=..
T Consensus 29 AMI~cs~~~GHWvhaqCm~LsE~~L~~LSq~n~KYfC~dH~~ 70 (78)
T PF13341_consen 29 AMIFCSRGGGHWVHAQCMDLSETMLIQLSQENTKYFCNDHVE 70 (78)
T ss_dssp -EEEE-STT-EEEETGGGT--HHHHHHHHHSSS-B--TTTTT
T ss_pred eEEEEeCCCceEeEeecccchHHHHHHHccCCceEEEhhhhc
Confidence 49999854 49999999999874 37999976443
No 75
>PF07496 zf-CW: CW-type Zinc Finger; InterPro: IPR011124 Zinc finger (Znf) domains are relatively small protein motifs which contain multiple finger-like protrusions that make tandem contacts with their target molecule. Some of these domains bind zinc, but many do not; instead binding other metals such as iron, or no metal at all. For example, some family members form salt bridges to stabilise the finger-like folds. They were first identified as a DNA-binding motif in transcription factor TFIIIA from Xenopus laevis (African clawed frog), however they are now recognised to bind DNA, RNA, protein and/or lipid substrates [, , , , ]. Their binding properties depend on the amino acid sequence of the finger domains and of the linker between fingers, as well as on the higher-order structures and the number of fingers. Znf domains are often found in clusters, where fingers can have different binding specificities. There are many superfamilies of Znf motifs, varying in both sequence and structure. They display considerable versatility in binding modes, even between members of the same class (e.g. some bind DNA, others protein), suggesting that Znf motifs are stable scaffolds that have evolved specialised functions. For example, Znf-containing proteins function in gene transcription, translation, mRNA trafficking, cytoskeleton organisation, epithelial development, cell adhesion, protein folding, chromatin remodelling and zinc sensing, to name but a few []. Zinc-binding motifs are stable structures, and they rarely undergo conformational changes upon binding their target. This entry represents a CW-type zinc finger motif, named for its conserved cysteine and tryptophan residues. It is predicted to be a highly specialised mononuclear four-cysteine (C4) zinc finger that plays a role in DNA binding and/or promoting protein-protein interactions in complicated eukaryotic processes including chromatin methylation status and early embryonic development. Weak homology to members of IPR001965 from INTERPRO further evidences these predictions. The domain is found exclusively in vertebrates, vertebrate-infecting parasites and higher plants []. More information about these proteins can be found at Protein of the Month: Zinc Fingers [].; GO: 0008270 zinc ion binding; PDB: 2RR4_A 2E61_A 2L7P_A.
Probab=35.38 E-value=25 Score=30.25 Aligned_cols=29 Identities=17% Similarity=0.595 Sum_probs=16.1
Q ss_pred CeeeecCCCCeeecccccccC----CCCceecCC
Q 000611 1263 AMIACYQCDEWYHIDCVKLLS----APEIYICAA 1292 (1391)
Q Consensus 1263 ~Mi~Cd~C~~WfH~~Cvg~~~----~~~~~~C~~ 1292 (1391)
..||||.|..|=... .++.. -++.|+|..
T Consensus 2 ~WVQCd~C~KWR~lp-~~~~~~~~~~~d~W~C~~ 34 (50)
T PF07496_consen 2 YWVQCDSCLKWRRLP-EEVDPIREELPDPWYCSM 34 (50)
T ss_dssp EEEE-TTT--EEEE--CCHHCTSCCSSTT--GGG
T ss_pred eEEECCCCCceeeCC-hhhCcccccCCCeEEcCC
Confidence 479999999997775 44433 257999975
No 76
>KOG1886 consensus BAH domain proteins [Transcription]
Probab=34.99 E-value=52 Score=40.80 Aligned_cols=53 Identities=9% Similarity=-0.184 Sum_probs=45.6
Q ss_pred hccCCCceEEEeccCCCC-CCeeeecCCCCeeecccccccCCCCceecCCCCCC
Q 000611 1244 SLRARSMLYCICRKPYDE-KAMIACYQCDEWYHIDCVKLLSAPEIYICAACKPQ 1296 (1391)
Q Consensus 1244 ~~~~~~~~yC~C~~p~~~-~~Mi~Cd~C~~WfH~~Cvg~~~~~~~~~C~~C~~~ 1296 (1391)
.-......||.|++.+++ ..|.+|..|+.|+|..|++.......++|..|...
T Consensus 165 ~~~~~~~~~~~~~k~e~d~~~~kt~~~~~~~~~p~~~~t~~~~~~~~~~~~s~~ 218 (464)
T KOG1886|consen 165 LRKLRDGDFGDGQKLEIDMLVPKTGPRRGTLPDPKKVQTLNAAASKRSQQKSEI 218 (464)
T ss_pred ccCccccchhcccccCCccchhhhcccCCCCCCccccccccccccceecccccc
Confidence 345567789999999887 45999999999999999999999999999998543
No 77
>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=34.58 E-value=13 Score=28.36 Aligned_cols=29 Identities=28% Similarity=0.505 Sum_probs=12.5
Q ss_pred ccccccCCCcCcceeeccccccccccCcC
Q 000611 994 LCMCCESDSKELEFLICSACKDCYHLQCL 1022 (1391)
Q Consensus 994 ~C~~C~~~~~~~~~i~Cd~C~~~YH~~Cv 1022 (1391)
.|.+|+.+......-.|..|+-..|..|+
T Consensus 2 ~C~~C~~~~~~~~~Y~C~~Cdf~lH~~Ca 30 (30)
T PF07649_consen 2 RCDACGKPIDGGWFYRCSECDFDLHEECA 30 (30)
T ss_dssp --TTTS----S--EEE-TTT-----HHHH
T ss_pred cCCcCCCcCCCCceEECccCCCccChhcC
Confidence 47888887766778889999999999884
No 78
>PF04065 Not3: Not1 N-terminal domain, CCR4-Not complex component ; InterPro: IPR007207 The Ccr4-Not complex (Not1, Not2, Not3, Not4 and Not5) is a global regulator of transcription that affects genes positively and negatively and is thought to regulate transcription factor TFIID []. This domain is the N-terminal region of the Not proteins.; GO: 0006355 regulation of transcription, DNA-dependent, 0005634 nucleus
Probab=34.09 E-value=98 Score=35.36 Aligned_cols=37 Identities=24% Similarity=0.164 Sum_probs=23.8
Q ss_pred cccHHHHHHHHhhhHHHHHHHHHhhccCCCcccHHHHHHHHHH
Q 000611 412 VESEKLSQRISSAKVWRDSVRKCISNKCPAAIEIDVLYKLESE 454 (1391)
Q Consensus 412 pEl~kLk~rle~~k~W~~~v~~~L~~~~~~~~tLe~Lr~Ll~E 454 (1391)
.|+.+|+.-.+|.++|+..-- + ..+..|.+-|++|+.
T Consensus 49 kEIKKLQR~RdQIK~W~~~~d-i-----Kdk~~L~e~Rk~IE~ 85 (233)
T PF04065_consen 49 KEIKKLQRLRDQIKTWLSSND-I-----KDKKKLLENRKLIEE 85 (233)
T ss_pred HHHHHHHHHHHHHHHHccCcc-c-----ccHHHHHHHHHHHHH
Confidence 477899999999999974221 0 012346666666654
No 79
>KOG4628 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=32.13 E-value=89 Score=37.66 Aligned_cols=48 Identities=19% Similarity=0.538 Sum_probs=36.5
Q ss_pred ceEEEeccCCCCCCeeeecCCCCeeecccccccCCCCceecCCCCCCC
Q 000611 1250 MLYCICRKPYDEKAMIACYQCDEWYHIDCVKLLSAPEIYICAACKPQA 1297 (1391)
Q Consensus 1250 ~~yC~C~~p~~~~~Mi~Cd~C~~WfH~~Cvg~~~~~~~~~C~~C~~~~ 1297 (1391)
..+|||-.-|..|.-+.==-|..=||..||..=-....-+||.|+..-
T Consensus 230 ~~CaIClEdY~~GdklRiLPC~H~FH~~CIDpWL~~~r~~CPvCK~di 277 (348)
T KOG4628|consen 230 DTCAICLEDYEKGDKLRILPCSHKFHVNCIDPWLTQTRTFCPVCKRDI 277 (348)
T ss_pred ceEEEeecccccCCeeeEecCCCchhhccchhhHhhcCccCCCCCCcC
Confidence 378899988888777776788888999999643333356799998743
No 80
>PF13832 zf-HC5HC2H_2: PHD-zinc-finger like domain
Probab=31.99 E-value=19 Score=35.76 Aligned_cols=31 Identities=29% Similarity=0.648 Sum_probs=25.2
Q ss_pred ceEEEeccCCCCCCeeeecC--CCCeeeccccccc
Q 000611 1250 MLYCICRKPYDEKAMIACYQ--CDEWYHIDCVKLL 1282 (1391)
Q Consensus 1250 ~~yC~C~~p~~~~~Mi~Cd~--C~~WfH~~Cvg~~ 1282 (1391)
....+|++. .|..|+|.. |..+||..|.-..
T Consensus 56 ~~C~iC~~~--~G~~i~C~~~~C~~~fH~~CA~~~ 88 (110)
T PF13832_consen 56 LKCSICGKS--GGACIKCSHPGCSTAFHPTCARKA 88 (110)
T ss_pred CcCcCCCCC--CceeEEcCCCCCCcCCCHHHHHHC
Confidence 346699985 678999997 9999999997543
No 81
>PF13922 PHD_3: PHD domain of transcriptional enhancer, Asx
Probab=30.82 E-value=8.8 Score=34.58 Aligned_cols=30 Identities=37% Similarity=0.736 Sum_probs=25.8
Q ss_pred ceEEEeccCCCCCCeeeecCCCCeeecccccccC
Q 000611 1250 MLYCICRKPYDEKAMIACYQCDEWYHIDCVKLLS 1283 (1391)
Q Consensus 1250 ~~yC~C~~p~~~~~Mi~Cd~C~~WfH~~Cvg~~~ 1283 (1391)
..-|.|+. ..||-|-+|+-.-|.+|+|.+.
T Consensus 33 ~~~C~C~L----kAMi~Cq~CGAFCHDDCIgpsk 62 (69)
T PF13922_consen 33 SNKCACSL----KAMIMCQGCGAFCHDDCIGPSK 62 (69)
T ss_pred ccccccch----HHHHHHhhccchhccccccHHH
Confidence 44688886 4799999999999999999765
No 82
>COG5243 HRD1 HRD ubiquitin ligase complex, ER membrane component [Posttranslational modification, protein turnover, chaperones]
Probab=30.03 E-value=35 Score=40.56 Aligned_cols=48 Identities=23% Similarity=0.446 Sum_probs=29.6
Q ss_pred CccccccccccCC--CcC--------cceeeccccccccccCcCCccccccCCCCccccCCcc
Q 000611 989 SVSMTLCMCCESD--SKE--------LEFLICSACKDCYHLQCLRPTEVDRNHAEAYICPYCQ 1041 (1391)
Q Consensus 989 ~~~~~~C~~C~~~--~~~--------~~~i~Cd~C~~~YH~~Cv~~~~~~~~~~~~w~Cp~C~ 1041 (1391)
..++++|++|... ..+ +..--=--||+.+|..|++-=.+ +.-.||-|.
T Consensus 284 ~n~D~~C~ICmde~~h~~~~~~~~~~~~~pKrLpCGHilHl~CLknW~E-----RqQTCPICr 341 (491)
T COG5243 284 TNSDRTCTICMDEMFHPDHEPLPRGLDMTPKRLPCGHILHLHCLKNWLE-----RQQTCPICR 341 (491)
T ss_pred cCCCCeEEEecccccCCCCccCcccccCCcccccccceeeHHHHHHHHH-----hccCCCccc
Confidence 5588999999544 111 00011124888999999764422 234699998
No 83
>PF13922 PHD_3: PHD domain of transcriptional enhancer, Asx
Probab=29.79 E-value=12 Score=33.74 Aligned_cols=22 Identities=23% Similarity=0.732 Sum_probs=20.5
Q ss_pred CcceeeccccccccccCcCCcc
Q 000611 1004 ELEFLICSACKDCYHLQCLRPT 1025 (1391)
Q Consensus 1004 ~~~~i~Cd~C~~~YH~~Cv~~~ 1025 (1391)
-+.||+|-.||...|-.|+||+
T Consensus 40 LkAMi~Cq~CGAFCHDDCIgps 61 (69)
T PF13922_consen 40 LKAMIMCQGCGAFCHDDCIGPS 61 (69)
T ss_pred hHHHHHHhhccchhccccccHH
Confidence 5689999999999999999987
No 84
>PF13771 zf-HC5HC2H: PHD-like zinc-binding domain
Probab=29.45 E-value=44 Score=31.80 Aligned_cols=30 Identities=30% Similarity=0.745 Sum_probs=24.5
Q ss_pred EEEeccCCCCCCeeeec--CCCCeeecccccccC
Q 000611 1252 YCICRKPYDEKAMIACY--QCDEWYHIDCVKLLS 1283 (1391)
Q Consensus 1252 yC~C~~p~~~~~Mi~Cd--~C~~WfH~~Cvg~~~ 1283 (1391)
..+|+++ .|..|+|. .|...||..|.-...
T Consensus 39 C~~C~~~--~Ga~i~C~~~~C~~~fH~~CA~~~~ 70 (90)
T PF13771_consen 39 CSICKKK--GGACIGCSHPGCSRSFHVPCARKAG 70 (90)
T ss_pred CcCCCCC--CCeEEEEeCCCCCcEEChHHHccCC
Confidence 4588876 57899998 599999999986654
No 85
>PF13901 DUF4206: Domain of unknown function (DUF4206)
Probab=29.35 E-value=1.7e+02 Score=32.64 Aligned_cols=39 Identities=26% Similarity=0.863 Sum_probs=28.8
Q ss_pred EE-Eecc-----CCCCCCeeeecCCCCeeecccccccCCCCceecCCCCCC
Q 000611 1252 YC-ICRK-----PYDEKAMIACYQCDEWYHIDCVKLLSAPEIYICAACKPQ 1296 (1391)
Q Consensus 1252 yC-~C~~-----p~~~~~Mi~Cd~C~~WfH~~Cvg~~~~~~~~~C~~C~~~ 1296 (1391)
.| +|+. |++...-++|+.|.-=||-.|..- -.||.|...
T Consensus 154 iCe~C~~~~~IfPF~~~~~~~C~~C~~v~H~~C~~~------~~CpkC~R~ 198 (202)
T PF13901_consen 154 ICEICNSDDIIFPFQIDTTVRCPKCKSVFHKSCFRK------KSCPKCARR 198 (202)
T ss_pred CCccCCCCCCCCCCCCCCeeeCCcCccccchhhcCC------CCCCCcHhH
Confidence 44 6765 333346789999999999999983 229999764
No 86
>PRK03564 formate dehydrogenase accessory protein FdhE; Provisional
Probab=29.05 E-value=3e+02 Score=32.87 Aligned_cols=32 Identities=25% Similarity=0.660 Sum_probs=24.9
Q ss_pred CccccccccccCC----------CcCcceeeccccccccccC
Q 000611 989 SVSMTLCMCCESD----------SKELEFLICSACKDCYHLQ 1020 (1391)
Q Consensus 989 ~~~~~~C~~C~~~----------~~~~~~i~Cd~C~~~YH~~ 1020 (1391)
....++|.+|++. .++..++.|..|+.-+|..
T Consensus 184 ~~~~~~CPvCGs~P~~s~v~~~~~~G~RyL~CslC~teW~~~ 225 (309)
T PRK03564 184 GEQRQFCPVCGSMPVSSVVQIGTTQGLRYLHCNLCESEWHVV 225 (309)
T ss_pred ccCCCCCCCCCCcchhheeeccCCCCceEEEcCCCCCccccc
Confidence 3467999999864 2356789999999998864
No 87
>PLN03208 E3 ubiquitin-protein ligase RMA2; Provisional
Probab=27.80 E-value=42 Score=37.09 Aligned_cols=48 Identities=19% Similarity=0.473 Sum_probs=29.5
Q ss_pred CCCceEE-EeccCCCCCCeeeecCCCCeeeccccccc---------------CCCCceecCCCCCCC
Q 000611 1247 ARSMLYC-ICRKPYDEKAMIACYQCDEWYHIDCVKLL---------------SAPEIYICAACKPQA 1297 (1391)
Q Consensus 1247 ~~~~~yC-~C~~p~~~~~Mi~Cd~C~~WfH~~Cvg~~---------------~~~~~~~C~~C~~~~ 1297 (1391)
..+...| ||..+..+... -.|+..|+..|+.-- .......||.|+..-
T Consensus 15 ~~~~~~CpICld~~~dPVv---T~CGH~FC~~CI~~wl~~s~~s~~~~~~~~~~k~~~~CPvCR~~I 78 (193)
T PLN03208 15 SGGDFDCNICLDQVRDPVV---TLCGHLFCWPCIHKWTYASNNSRQRVDQYDHKREPPKCPVCKSDV 78 (193)
T ss_pred CCCccCCccCCCcCCCcEE---cCCCchhHHHHHHHHHHhccccccccccccccCCCCcCCCCCCcC
Confidence 3344556 99877654322 357888888887410 012457899998744
No 88
>PF13832 zf-HC5HC2H_2: PHD-zinc-finger like domain
Probab=26.88 E-value=31 Score=34.25 Aligned_cols=31 Identities=26% Similarity=0.605 Sum_probs=25.3
Q ss_pred cccccccccCCCcCcceeeccc--cccccccCcCC
Q 000611 991 SMTLCMCCESDSKELEFLICSA--CKDCYHLQCLR 1023 (1391)
Q Consensus 991 ~~~~C~~C~~~~~~~~~i~Cd~--C~~~YH~~Cv~ 1023 (1391)
-...|.+|+.. ....+.|.. |..+||..|..
T Consensus 54 ~~~~C~iC~~~--~G~~i~C~~~~C~~~fH~~CA~ 86 (110)
T PF13832_consen 54 FKLKCSICGKS--GGACIKCSHPGCSTAFHPTCAR 86 (110)
T ss_pred cCCcCcCCCCC--CceeEEcCCCCCCcCCCHHHHH
Confidence 34669999766 556899999 99999999954
No 89
>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=26.27 E-value=24 Score=26.89 Aligned_cols=26 Identities=35% Similarity=0.709 Sum_probs=11.2
Q ss_pred EeccCCCCCCeeeecCCCCeeecccc
Q 000611 1254 ICRKPYDEKAMIACYQCDEWYHIDCV 1279 (1391)
Q Consensus 1254 ~C~~p~~~~~Mi~Cd~C~~WfH~~Cv 1279 (1391)
.|+.+.+++.+-.|..|+-.+|..|+
T Consensus 5 ~C~~~~~~~~~Y~C~~Cdf~lH~~Ca 30 (30)
T PF07649_consen 5 ACGKPIDGGWFYRCSECDFDLHEECA 30 (30)
T ss_dssp TTS----S--EEE-TTT-----HHHH
T ss_pred cCCCcCCCCceEECccCCCccChhcC
Confidence 57777665577889999999999885
No 90
>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=25.54 E-value=19 Score=28.63 Aligned_cols=41 Identities=20% Similarity=0.516 Sum_probs=27.2
Q ss_pred cccccCCCcCcceeeccccccccccCcCCccccccCCCCccccCCcc
Q 000611 995 CMCCESDSKELEFLICSACKDCYHLQCLRPTEVDRNHAEAYICPYCQ 1041 (1391)
Q Consensus 995 C~~C~~~~~~~~~i~Cd~C~~~YH~~Cv~~~~~~~~~~~~w~Cp~C~ 1041 (1391)
|.+|.... ...+.-..|+..||..|+...... ....||.|.
T Consensus 2 C~iC~~~~--~~~~~~~~C~H~~c~~C~~~~~~~----~~~~Cp~C~ 42 (45)
T cd00162 2 CPICLEEF--REPVVLLPCGHVFCRSCIDKWLKS----GKNTCPLCR 42 (45)
T ss_pred CCcCchhh--hCceEecCCCChhcHHHHHHHHHh----CcCCCCCCC
Confidence 66776554 233444569999999998654221 456799987
No 91
>cd00350 rubredoxin_like Rubredoxin_like; nonheme iron binding domain containing a [Fe(SCys)4] center. The family includes rubredoxins, a small electron transfer protein, and a slightly smaller modular rubredoxin domain present in rubrerythrin and nigerythrin and detected either N- or C-terminal to such proteins as flavin reductase, NAD(P)H-nitrite reductase, and ferredoxin-thioredoxin reductase. In rubredoxin, the iron atom is coordinated by four cysteine residues (Fe(S-Cys)4), but iron can also be replaced by cobalt, nickel or zinc and believed to be involved in electron transfer. Rubrerythrins and nigerythrins are small homodimeric proteins, generally consisting of 2 domains: a rubredoxin domain C-terminal to a non-sulfur, oxo-bridged diiron site in the N-terminal rubrerythrin domain. Rubrerythrins and nigerythrins have putative peroxide activity.
Probab=25.36 E-value=41 Score=26.32 Aligned_cols=23 Identities=26% Similarity=0.839 Sum_probs=17.0
Q ss_pred eccccccccccCcCCccccccCCCCccccCCccc
Q 000611 1009 ICSACKDCYHLQCLRPTEVDRNHAEAYICPYCQY 1042 (1391)
Q Consensus 1009 ~Cd~C~~~YH~~Cv~~~~~~~~~~~~w~Cp~C~~ 1042 (1391)
+|..||.-|.+.- ..|.||.|-.
T Consensus 3 ~C~~CGy~y~~~~-----------~~~~CP~Cg~ 25 (33)
T cd00350 3 VCPVCGYIYDGEE-----------APWVCPVCGA 25 (33)
T ss_pred ECCCCCCEECCCc-----------CCCcCcCCCC
Confidence 5777887765443 6799999983
No 92
>KOG2041 consensus WD40 repeat protein [General function prediction only]
Probab=25.26 E-value=65 Score=41.45 Aligned_cols=88 Identities=17% Similarity=0.338 Sum_probs=54.9
Q ss_pred HHHhhhccccCCCcchHHHHHHHHHHhhhhhhccCCCCCCcc-ccccccccCCCcCcceeeccccccccccCcCCccccc
Q 000611 950 RCKEIVGTSVGDKNSLLGLLQKIKQSVHRSLYIYNKPHGSVS-MTLCMCCESDSKELEFLICSACKDCYHLQCLRPTEVD 1028 (1391)
Q Consensus 950 ~~~~~~~~~~~~~~sL~~~l~~i~~~l~~~~~~~~~~~~~~~-~~~C~~C~~~~~~~~~i~Cd~C~~~YH~~Cv~~~~~~ 1028 (1391)
.|-|.|...++ ...|.++...-++.|.-+.+--+.+.|.+. ..-|..|+.+.++ .-++|..|+.-| +-|+.--. .
T Consensus 1075 tCSKAfmkLe~-~e~l~~a~kq~ye~La~~iFsk~~p~d~~~~~vdc~~cg~~i~~-~~~~c~ec~~kf-P~CiasG~-p 1150 (1189)
T KOG2041|consen 1075 TCSKAFMKLEA-FEELDDAEKQEYENLAFRIFSKNPPVDPNSAKVDCSVCGAKIDP-YDLQCSECQTKF-PVCIASGR-P 1150 (1189)
T ss_pred hhHHHHHHHHh-hhhCCHHHHHHHHHHHHHHhccCCCCCCCccceeeeecCCcCCc-cCCCChhhcCcC-ceeeccCC-c
Confidence 35556655555 555666666667776655554444555443 3449889776543 457899999886 56765331 1
Q ss_pred cCCCCccccCCcc
Q 000611 1029 RNHAEAYICPYCQ 1041 (1391)
Q Consensus 1029 ~~~~~~w~Cp~C~ 1041 (1391)
.-...-|+||.|.
T Consensus 1151 It~~~fWlC~~Ck 1163 (1189)
T KOG2041|consen 1151 ITDNIFWLCPRCK 1163 (1189)
T ss_pred cccceEEEccccc
Confidence 1233479999998
No 93
>KOG4718 consensus Non-SMC (structural maintenance of chromosomes) element 1 protein (NSE1) [Chromatin structure and dynamics]
Probab=24.05 E-value=46 Score=36.92 Aligned_cols=43 Identities=19% Similarity=0.388 Sum_probs=28.8
Q ss_pred cccccCCCcCcceeeccccccccccCcCCccccccCCCCccccCCcc
Q 000611 995 CMCCESDSKELEFLICSACKDCYHLQCLRPTEVDRNHAEAYICPYCQ 1041 (1391)
Q Consensus 995 C~~C~~~~~~~~~i~Cd~C~~~YH~~Cv~~~~~~~~~~~~w~Cp~C~ 1041 (1391)
|..|+.-. -..++|+.|+-.||.+|+.--.- ..+..|+|..|-
T Consensus 184 Cn~Ch~Lv--Iqg~rCg~c~i~~h~~c~qty~q--~~~~cphc~d~w 226 (235)
T KOG4718|consen 184 CNLCHCLV--IQGIRCGSCNIQYHRGCIQTYLQ--RRDICPHCGDLW 226 (235)
T ss_pred HhHhHHHh--heeeccCcccchhhhHHHHHHhc--ccCcCCchhccc
Confidence 77775432 22467999999999999864422 245667776665
No 94
>COG5415 Predicted integral membrane metal-binding protein [General function prediction only]
Probab=22.60 E-value=73 Score=35.28 Aligned_cols=36 Identities=31% Similarity=0.624 Sum_probs=26.4
Q ss_pred CcceeeccccccccccCcCCccccccCCCCccccCCccccc
Q 000611 1004 ELEFLICSACKDCYHLQCLRPTEVDRNHAEAYICPYCQYFE 1044 (1391)
Q Consensus 1004 ~~~~i~Cd~C~~~YH~~Cv~~~~~~~~~~~~w~Cp~C~~~~ 1044 (1391)
+..-|+|..|.. |..|+.+.+.. ...|+||+|....
T Consensus 189 ~~~alIC~~C~h--hngl~~~~ek~---~~efiC~~Cn~~n 224 (251)
T COG5415 189 PFKALICPQCHH--HNGLYRLAEKP---IIEFICPHCNHKN 224 (251)
T ss_pred chhhhccccccc--ccccccccccc---chheecccchhhc
Confidence 455678888863 88998887543 3379999999544
No 95
>TIGR01562 FdhE formate dehydrogenase accessory protein FdhE. The only sequence scoring between trusted and noise is that from Aquifex aeolicus, which shows certain structural differences from the proteobacterial forms in the alignment. However it is notable that A. aeolicus also has a sequence scoring above trusted to the alpha subunit of formate dehydrogenase (TIGR01553).
Probab=22.13 E-value=4e+02 Score=31.79 Aligned_cols=31 Identities=39% Similarity=0.724 Sum_probs=24.1
Q ss_pred ccccccccccCC-----------CcCcceeeccccccccccC
Q 000611 990 VSMTLCMCCESD-----------SKELEFLICSACKDCYHLQ 1020 (1391)
Q Consensus 990 ~~~~~C~~C~~~-----------~~~~~~i~Cd~C~~~YH~~ 1020 (1391)
...++|.+|++. .++..++.|..|+.-+|..
T Consensus 182 ~~~~~CPvCGs~P~~s~~~~~~~~~G~RyL~CslC~teW~~~ 223 (305)
T TIGR01562 182 ESRTLCPACGSPPVASMVRQGGKETGLRYLSCSLCATEWHYV 223 (305)
T ss_pred CCCCcCCCCCChhhhhhhcccCCCCCceEEEcCCCCCccccc
Confidence 467799999754 2346789999999998864
No 96
>PF08580 KAR9: Yeast cortical protein KAR9; InterPro: IPR013889 The KAR9 protein in Saccharomyces cerevisiae (Baker's yeast) is a cytoskeletal protein required for karyogamy, correct positioning of the mitotic spindle and for orientation of cytoplasmic microtubules []. KAR9 localises at the shmoo tip in mating cells and at the tip of the growing bud in anaphase [].
Probab=22.09 E-value=1.3e+03 Score=30.66 Aligned_cols=51 Identities=12% Similarity=0.287 Sum_probs=30.2
Q ss_pred CccccccHHHHHHHHHHHHHHHHHHHHHHhhhccC-CCCCCCHHHHHHHHHh
Q 000611 505 FTVNMPELELLKQYHSDAIFWIARLNDILVNINGR-KDQHNVIDELNCILKE 555 (1391)
Q Consensus 505 lpv~lpel~~Lk~~L~ka~~W~~~a~~ll~~~~~~-~~~~p~l~eL~~Ll~~ 555 (1391)
||-..-...++...+.+..+|..++.+++.++++. .+-.+.+..+.+||+.
T Consensus 24 i~~~~~~~~a~~~~~~qi~~Wi~k~k~~l~~L~~~l~~ID~ai~~~l~lIe~ 75 (683)
T PF08580_consen 24 IPTAFNAVKALSGAAEQILDWIQKAKDVLYGLREGLEEIDSAISRFLDLIEV 75 (683)
T ss_pred hhhhHHHHHhhHHHHHHHHHHHHHHHHHHHHHHHhHHHHHHHHHHHHHHHHh
Confidence 34444445566666777889999999988755321 1122345555555555
No 97
>PHA03247 large tegument protein UL36; Provisional
Probab=20.62 E-value=3.4e+03 Score=31.39 Aligned_cols=107 Identities=19% Similarity=0.245 Sum_probs=66.3
Q ss_pred HhhhhhhhhhhhhhccccCCCCCCCccccHHHHhhhhcCCCCCCCCCchHHHHHHHHH----HHHHHHHHHHHHhcCCCH
Q 000611 319 RRWAEGIRDCLHKAENWSSLPGSDSEKVRLDCVNELLGFDPLPCNEPGHLILQNYAEE----ARSLIQEINAALSACSKI 394 (1391)
Q Consensus 319 ~~W~e~a~~c~s~~q~~~~~~~~~~~kl~leeL~~ll~~~~lpc~~pe~~~Lkel~~~----~e~~~~e~~~~L~~~~~i 394 (1391)
+.|...+..|+.++... -..+.-| +.-|++++.. ...|..+++.+|.. +.
T Consensus 1318 erW~~dv~AaL~r~Etr--------seFDa~E----------------L~RLrd~Aa~~gYd~~~f~krAeqalaA--~a 1371 (3151)
T PHA03247 1318 ERWAADVEAALDRVENR--------AEFDAVE----------------LRRLQALAATHGYNPRDFRKRAEQALAA--NA 1371 (3151)
T ss_pred HHHHHHHHHHHHHHhhh--------hhccHHH----------------HHHHHHHHHhcCCChHHHHHHHHHHHHH--hH
Confidence 56888888888887752 1233344 4445555544 67888888888874 34
Q ss_pred HHHHHHHHhhcCCCccccccHHHH-----HHHHhhhHHHHHHHHH---hhccCCCcccHHHHHHHHHH
Q 000611 395 SELELLYSRASGLPICIVESEKLS-----QRISSAKVWRDSVRKC---ISNKCPAAIEIDVLYKLESE 454 (1391)
Q Consensus 395 ~eLe~Ll~~g~~~~V~lpEl~kLk-----~rle~~k~W~~~v~~~---L~~~~~~~~tLe~Lr~Ll~E 454 (1391)
.....-|+....||=|-||=.... .-+.+.. |-+.+--+ ++... .++.|.|-.|+.-
T Consensus 1372 ~~~~~ALe~v~~FNPYtpeN~~~~~~PPla~L~~it-W~daF~~AAp~~~~LF--gVdve~L~~LmrI 1436 (3151)
T PHA03247 1372 KTATLALEAAFAFNPYTPENQRHPMLPPLAAIHRID-WGPAFGAAAETYAEMF--RVDTEPLARLLRL 1436 (3151)
T ss_pred HHHHHHHHHHHhcCCCCccccCCCCCCcHHHHhcCc-hHhhhhhhHHHHHHHh--cccHHHHHHHHHH
Confidence 556677888888998887754422 2344444 98877532 22222 2566666665543
Done!