Query 001193
Match_columns 1127
No_of_seqs 371 out of 2031
Neff 4.6
Searched_HMMs 46136
Date Thu Mar 28 18:21:37 2013
Command hhsearch -i /work/01045/syshi/csienesis_hhblits_a3m/001193.a3m -d /work/01045/syshi/HHdatabase/Cdd.hhm -o /work/01045/syshi/hhsearch_cdd/001193hhsearch_cdd -cpu 12 -v 0
No Hit Prob E-value P-value Score SS Cols Query HMM Template HMM
1 KOG2462 C2H2-type Zn-finger pr 99.8 1.4E-21 3E-26 210.8 7.0 134 960-1118 129-265 (279)
2 KOG2462 C2H2-type Zn-finger pr 99.8 1.8E-20 3.9E-25 202.3 6.7 111 1009-1127 128-246 (279)
3 KOG3608 Zn finger proteins [Ge 99.4 1.4E-13 3E-18 152.3 3.6 150 965-1120 183-345 (467)
4 KOG1074 Transcriptional repres 99.4 1.4E-13 3.1E-18 164.6 3.0 57 1065-1125 880-936 (958)
5 KOG3608 Zn finger proteins [Ge 99.3 5.7E-13 1.2E-17 147.5 2.9 152 965-1127 140-322 (467)
6 KOG3623 Homeobox transcription 99.3 4.2E-13 9.1E-18 158.1 1.7 100 1012-1117 211-330 (1007)
7 KOG3576 Ovo and related transc 99.3 1.3E-12 2.7E-17 136.4 3.7 108 1009-1122 115-238 (267)
8 KOG1074 Transcriptional repres 99.3 4.4E-13 9.6E-18 160.5 -0.4 80 1038-1121 607-693 (958)
9 KOG3623 Homeobox transcription 99.2 2.4E-12 5.1E-17 152.0 0.8 77 1037-1117 895-971 (1007)
10 KOG3576 Ovo and related transc 99.1 9.3E-12 2E-16 130.0 0.3 82 1036-1121 117-199 (267)
11 PLN03086 PRLI-interacting fact 98.7 7.6E-08 1.7E-12 115.3 10.6 134 962-1119 408-563 (567)
12 PLN03086 PRLI-interacting fact 98.5 1.5E-07 3.2E-12 112.8 6.9 103 1010-1127 432-544 (567)
13 PHA00733 hypothetical protein 98.5 1.7E-07 3.6E-12 93.6 5.1 86 1009-1120 38-123 (128)
14 PHA02768 hypothetical protein; 98.0 3.4E-06 7.3E-11 72.9 2.3 42 1065-1112 6-47 (55)
15 PHA02768 hypothetical protein; 98.0 3.6E-06 7.7E-11 72.7 2.0 43 1037-1083 6-48 (55)
16 PF13465 zf-H2C2_2: Zinc-finge 97.7 1.9E-05 4.1E-10 58.3 1.9 25 1081-1107 1-25 (26)
17 KOG3993 Transcription factor ( 97.7 1.9E-05 4.2E-10 90.7 2.3 157 958-1120 292-482 (500)
18 PHA00733 hypothetical protein 97.6 0.00011 2.3E-09 73.8 5.7 46 1041-1090 78-123 (128)
19 PF13465 zf-H2C2_2: Zinc-finge 97.3 0.00011 2.3E-09 54.3 1.3 26 1051-1078 1-26 (26)
20 KOG3993 Transcription factor ( 97.0 0.00015 3.3E-09 83.6 0.1 109 1010-1122 266-382 (500)
21 PHA00616 hypothetical protein 96.8 0.00052 1.1E-08 57.1 1.5 34 1064-1099 1-34 (44)
22 PHA00616 hypothetical protein 96.8 0.00066 1.4E-08 56.5 1.7 32 1094-1127 1-32 (44)
23 COG5189 SFP1 Putative transcri 96.8 0.00049 1.1E-08 77.1 1.1 55 1062-1118 347-420 (423)
24 PHA00732 hypothetical protein 96.7 0.0012 2.6E-08 61.3 3.1 46 1037-1090 2-48 (79)
25 PHA00732 hypothetical protein 96.5 0.0021 4.6E-08 59.6 3.2 48 1011-1063 1-51 (79)
26 PF12756 zf-C2H2_2: C2H2 type 96.3 0.0029 6.2E-08 58.4 2.9 27 1094-1122 50-76 (100)
27 PF05605 zf-Di19: Drought indu 96.1 0.0087 1.9E-07 51.4 4.6 50 1064-1120 2-53 (54)
28 COG5189 SFP1 Putative transcri 96.1 0.0019 4.2E-08 72.5 0.7 73 1009-1087 347-419 (423)
29 PF00096 zf-C2H2: Zinc finger, 95.2 0.011 2.3E-07 41.8 1.7 23 1095-1119 1-23 (23)
30 PF05605 zf-Di19: Drought indu 94.9 0.036 7.9E-07 47.6 4.2 49 1037-1090 3-53 (54)
31 PF13894 zf-C2H2_4: C2H2-type 94.5 0.027 5.9E-07 39.2 2.1 24 1095-1120 1-24 (24)
32 PF13912 zf-C2H2_6: C2H2-type 94.0 0.028 6.2E-07 41.2 1.4 25 1094-1120 1-25 (27)
33 COG5048 FOG: Zn-finger [Genera 93.9 0.036 7.7E-07 62.2 2.8 143 962-1124 290-446 (467)
34 KOG2231 Predicted E3 ubiquitin 93.8 0.069 1.5E-06 66.2 5.1 46 1013-1060 184-236 (669)
35 PF00096 zf-C2H2: Zinc finger, 93.7 0.034 7.4E-07 39.3 1.4 23 1065-1089 1-23 (23)
36 PF12756 zf-C2H2_2: C2H2 type 93.6 0.043 9.4E-07 50.6 2.3 72 1013-1089 1-73 (100)
37 PF13894 zf-C2H2_4: C2H2-type 92.7 0.059 1.3E-06 37.5 1.3 17 1072-1088 6-22 (24)
38 COG5048 FOG: Zn-finger [Genera 91.8 0.07 1.5E-06 59.9 1.3 66 1011-1078 289-365 (467)
39 smart00355 ZnF_C2H2 zinc finge 90.9 0.21 4.6E-06 34.9 2.6 23 1095-1119 1-23 (26)
40 PF13912 zf-C2H2_6: C2H2-type 90.7 0.17 3.8E-06 37.0 2.0 24 1011-1036 1-24 (27)
41 PRK04860 hypothetical protein; 89.3 0.23 5E-06 52.1 2.3 39 1063-1109 118-156 (160)
42 PF09237 GAGA: GAGA factor; I 87.8 0.4 8.6E-06 41.6 2.3 28 1092-1121 22-49 (54)
43 smart00355 ZnF_C2H2 zinc finge 87.4 0.52 1.1E-05 32.9 2.4 24 1065-1090 1-24 (26)
44 PF09237 GAGA: GAGA factor; I 86.9 0.4 8.7E-06 41.6 1.8 40 1053-1094 12-52 (54)
45 KOG2231 Predicted E3 ubiquitin 86.8 0.79 1.7E-05 57.2 5.1 21 1039-1059 185-205 (669)
46 PRK04860 hypothetical protein; 84.3 0.55 1.2E-05 49.3 1.8 38 1036-1079 119-156 (160)
47 KOG4377 Zn-finger protein [Gen 81.9 0.75 1.6E-05 54.1 1.9 27 1095-1121 402-428 (480)
48 PF12874 zf-met: Zinc-finger o 81.3 0.49 1.1E-05 34.1 0.1 22 1095-1118 1-22 (25)
49 PF13909 zf-H2C2_5: C2H2-type 77.4 1.5 3.2E-05 31.5 1.5 22 1095-1119 1-22 (24)
50 PF12874 zf-met: Zinc-finger o 77.1 1.1 2.4E-05 32.2 0.8 15 1072-1086 6-20 (25)
51 COG5236 Uncharacterized conser 75.8 2.9 6.4E-05 48.4 4.1 71 1012-1088 221-303 (493)
52 KOG4173 Alpha-SNAP protein [In 75.4 0.91 2E-05 49.3 0.0 87 1009-1095 77-176 (253)
53 PF12171 zf-C2H2_jaz: Zinc-fin 73.7 2 4.4E-05 31.8 1.5 20 1038-1057 3-22 (27)
54 KOG1146 Homeobox protein [Gene 73.3 1.8 3.9E-05 57.3 1.8 26 1091-1118 515-540 (1406)
55 KOG2893 Zn finger protein [Gen 72.9 1.4 3.1E-05 48.6 0.8 48 1009-1059 9-58 (341)
56 KOG4173 Alpha-SNAP protein [In 71.7 1.4 3.1E-05 47.8 0.4 77 1037-1118 82-168 (253)
57 KOG2785 C2H2-type Zn-finger pr 70.2 5.4 0.00012 47.0 4.5 156 962-1123 4-247 (390)
58 PF12171 zf-C2H2_jaz: Zinc-fin 68.1 1.1 2.3E-05 33.3 -1.0 22 1095-1118 2-23 (27)
59 KOG1146 Homeobox protein [Gene 67.1 1 2.2E-05 59.3 -2.1 94 1012-1124 1261-1356(1406)
60 PF13909 zf-H2C2_5: C2H2-type 60.5 5.6 0.00012 28.5 1.5 23 1065-1090 1-23 (24)
61 smart00451 ZnF_U1 U1-like zinc 57.9 2.7 5.9E-05 32.4 -0.5 23 1094-1118 3-25 (35)
62 PF13913 zf-C2HC_2: zinc-finge 55.2 8.5 0.00018 28.6 1.7 6 1018-1023 7-12 (25)
63 COG5236 Uncharacterized conser 53.9 9.7 0.00021 44.4 2.7 24 1012-1035 152-175 (493)
64 PF13913 zf-C2HC_2: zinc-finge 44.6 18 0.0004 26.8 2.1 19 1096-1117 4-22 (25)
65 KOG4377 Zn-finger protein [Gen 43.3 14 0.0003 44.1 2.0 115 963-1090 275-427 (480)
66 KOG2893 Zn finger protein [Gen 39.8 9.9 0.00021 42.4 0.1 40 1040-1085 14-53 (341)
67 smart00451 ZnF_U1 U1-like zinc 33.6 31 0.00068 26.5 2.0 22 1011-1034 3-24 (35)
68 PF09538 FYDLN_acid: Protein o 33.2 27 0.00059 34.7 2.0 13 1064-1078 26-38 (108)
69 COG4049 Uncharacterized protei 33.0 17 0.00038 32.4 0.5 27 1090-1118 13-39 (65)
70 TIGR02098 MJ0042_CXXC MJ0042 f 30.6 27 0.00057 27.8 1.1 10 1018-1027 7-16 (38)
71 KOG4124 Putative transcription 29.4 12 0.00027 43.6 -1.2 71 1009-1086 347-418 (442)
72 KOG2482 Predicted C2H2-type Zn 26.6 44 0.00096 39.3 2.4 101 1011-1119 195-357 (423)
73 PF09986 DUF2225: Uncharacteri 25.9 23 0.0005 38.8 0.1 24 1009-1034 3-26 (214)
74 cd04864 LigD_Pol_like_1 LigD_P 25.2 1.3E+02 0.0028 33.9 5.6 45 264-308 116-173 (228)
75 cd04861 LigD_Pol_like LigD_Pol 23.4 1.4E+02 0.0031 33.5 5.6 46 264-309 115-173 (227)
76 COG1198 PriA Primosomal protei 23.2 63 0.0014 41.7 3.1 10 1012-1023 436-445 (730)
77 PF09986 DUF2225: Uncharacteri 23.2 26 0.00055 38.5 -0.2 43 1063-1109 4-61 (214)
78 PRK00464 nrdR transcriptional 22.7 28 0.00061 36.7 -0.0 15 1036-1050 28-42 (154)
79 cd04865 LigD_Pol_like_2 LigD_P 21.9 1.6E+02 0.0035 33.1 5.6 46 264-309 116-174 (228)
80 cd04866 LigD_Pol_like_3 LigD_P 21.7 1.6E+02 0.0036 32.9 5.6 46 264-309 110-169 (223)
81 smart00531 TFIIE Transcription 21.7 52 0.0011 34.0 1.7 11 1037-1047 100-110 (147)
82 TIGR01755 flav_wrbA NAD(P)H:qu 21.7 74 0.0016 34.2 2.9 26 282-307 1-26 (197)
83 cd04862 PaeLigD_Pol_like PaeLi 21.6 1.7E+02 0.0036 33.0 5.6 46 264-309 115-173 (227)
84 TIGR00622 ssl1 transcription f 21.4 1.3E+02 0.0027 30.6 4.1 48 1066-1119 57-104 (112)
85 PF14353 CpXC: CpXC protein 21.0 18 0.00039 36.1 -1.8 46 1012-1059 2-61 (128)
86 TIGR02300 FYDLN_acid conserved 20.7 68 0.0015 33.1 2.2 14 1063-1078 25-38 (129)
No 1
>KOG2462 consensus C2H2-type Zn-finger protein [Transcription]
Probab=99.84 E-value=1.4e-21 Score=210.75 Aligned_cols=134 Identities=25% Similarity=0.452 Sum_probs=120.4
Q ss_pred CCCcCCccCccCCChhhHHHHHhhccccCcccCCCCCCCccccccccCCCCceecCCCCCCCcccChHHHHhhhhcc---
Q 001193 960 CEGLRSRAGKDAANTSEVDIRKIAEKRATKTMRNRESVPAPCQDKKKILKGHHRCDLDGCRMSFETKRELSLHKRNR--- 1036 (1127)
Q Consensus 960 c~~~C~~CgK~Fssks~L~~H~r~eKp~gKtF~srssL~~~H~~k~H~~eKpykC~~~~CGKsF~sks~Lk~H~r~H--- 1036 (1127)
-.+.|+.||+.+.+.++|.+|+..+.+ + ..++-+.|. .|||.|.+...|+.|+++|
T Consensus 129 ~r~~c~eCgk~ysT~snLsrHkQ~H~~----------~---------~s~ka~~C~--~C~K~YvSmpALkMHirTH~l~ 187 (279)
T KOG2462|consen 129 PRYKCPECGKSYSTSSNLSRHKQTHRS----------L---------DSKKAFSCK--YCGKVYVSMPALKMHIRTHTLP 187 (279)
T ss_pred Cceeccccccccccccccchhhccccc----------c---------cccccccCC--CCCceeeehHHHhhHhhccCCC
Confidence 347899999999999999998843221 1 014557899 9999999999999999998
Q ss_pred ccCCCCCCcccChhHHHhhhhhcCCCCcccCCCCCCCCcccChhHHHHHHHhcCCCCcccCCCCCCCCcccChhHHHHHH
Q 001193 1037 CPHEGCGKRFSSHKYAIIHQRVHDDERPLKCPWKGCSMSFKWAWARTEHIRVHTGERPYKCKFEGCGLSFRFVSDISRHR 1116 (1127)
Q Consensus 1037 c~Ce~CGKsFssks~Lk~HqrtHtGEKPykCp~e~CGKsFsskssLk~H~RiHTGEKPYkC~v~GCGKsFss~S~L~kH~ 1116 (1127)
|.|..|||.|....-|+-|+|+|+|||||.|+. |+|.|..+++|+.||++|.+.|+|+|.. |+|.|...+.|.+|.
T Consensus 188 c~C~iCGKaFSRPWLLQGHiRTHTGEKPF~C~h--C~kAFADRSNLRAHmQTHS~~K~~qC~~--C~KsFsl~SyLnKH~ 263 (279)
T KOG2462|consen 188 CECGICGKAFSRPWLLQGHIRTHTGEKPFSCPH--CGKAFADRSNLRAHMQTHSDVKKHQCPR--CGKSFALKSYLNKHS 263 (279)
T ss_pred cccccccccccchHHhhcccccccCCCCccCCc--ccchhcchHHHHHHHHhhcCCccccCcc--hhhHHHHHHHHHHhh
Confidence 899999999999999999999999999999955 9999999999999999999999999999 999999999999998
Q ss_pred HH
Q 001193 1117 RK 1118 (1127)
Q Consensus 1117 Rk 1118 (1127)
..
T Consensus 264 ES 265 (279)
T KOG2462|consen 264 ES 265 (279)
T ss_pred hh
Confidence 63
No 2
>KOG2462 consensus C2H2-type Zn-finger protein [Transcription]
Probab=99.81 E-value=1.8e-20 Score=202.25 Aligned_cols=111 Identities=31% Similarity=0.614 Sum_probs=105.8
Q ss_pred CCceecCCCCCCCcccChHHHHhhhhcc--------ccCCCCCCcccChhHHHhhhhhcCCCCcccCCCCCCCCcccChh
Q 001193 1009 KGHHRCDLDGCRMSFETKRELSLHKRNR--------CPHEGCGKRFSSHKYAIIHQRVHDDERPLKCPWKGCSMSFKWAW 1080 (1127)
Q Consensus 1009 eKpykC~~~~CGKsF~sks~Lk~H~r~H--------c~Ce~CGKsFssks~Lk~HqrtHtGEKPykCp~e~CGKsFssks 1080 (1127)
...|+|. .||+.+.+.++|-+|+.+| +.|+.|||.|.+...|..|+++|+ -+++| ..|||.|...|
T Consensus 128 ~~r~~c~--eCgk~ysT~snLsrHkQ~H~~~~s~ka~~C~~C~K~YvSmpALkMHirTH~--l~c~C--~iCGKaFSRPW 201 (279)
T KOG2462|consen 128 HPRYKCP--ECGKSYSTSSNLSRHKQTHRSLDSKKAFSCKYCGKVYVSMPALKMHIRTHT--LPCEC--GICGKAFSRPW 201 (279)
T ss_pred CCceecc--ccccccccccccchhhcccccccccccccCCCCCceeeehHHHhhHhhccC--CCccc--ccccccccchH
Confidence 4458999 9999999999999999998 679999999999999999999998 68999 55999999999
Q ss_pred HHHHHHHhcCCCCcccCCCCCCCCcccChhHHHHHHHHhCCCCCCCC
Q 001193 1081 ARTEHIRVHTGERPYKCKFEGCGLSFRFVSDISRHRRKTGHYENLSA 1127 (1127)
Q Consensus 1081 sLk~H~RiHTGEKPYkC~v~GCGKsFss~S~L~kH~RkH~h~k~~~C 1127 (1127)
.|+.|+|+|||||||.|.. |+|.|..+++|+.||++|.+.|+|+|
T Consensus 202 LLQGHiRTHTGEKPF~C~h--C~kAFADRSNLRAHmQTHS~~K~~qC 246 (279)
T KOG2462|consen 202 LLQGHIRTHTGEKPFSCPH--CGKAFADRSNLRAHMQTHSDVKKHQC 246 (279)
T ss_pred HhhcccccccCCCCccCCc--ccchhcchHHHHHHHHhhcCCccccC
Confidence 9999999999999999999 99999999999999999999999998
No 3
>KOG3608 consensus Zn finger proteins [General function prediction only]
Probab=99.39 E-value=1.4e-13 Score=152.26 Aligned_cols=150 Identities=21% Similarity=0.368 Sum_probs=112.8
Q ss_pred CccCccCCChhhHHHHHh---hcc-----ccCcccCCCCCCCccccccc-cCCCCceecCCCCCCCcccChHHHHhhhhc
Q 001193 965 SRAGKDAANTSEVDIRKI---AEK-----RATKTMRNRESVPAPCQDKK-KILKGHHRCDLDGCRMSFETKRELSLHKRN 1035 (1127)
Q Consensus 965 ~~CgK~Fssks~L~~H~r---~eK-----p~gKtF~srssL~~~H~~k~-H~~eKpykC~~~~CGKsF~sks~Lk~H~r~ 1035 (1127)
..|.+.|.++..|+.|.+ ++| -++.-|+++..| ..|.++. -....+|+|. .|-|.|.+...|+.|+..
T Consensus 183 ~~Ct~~~~~k~~LreH~r~Hs~eKvvACp~Cg~~F~~~tkl-~DH~rRqt~l~~n~fqC~--~C~KrFaTeklL~~Hv~r 259 (467)
T KOG3608|consen 183 AMCTKHMGNKYRLREHIRTHSNEKVVACPHCGELFRTKTKL-FDHLRRQTELNTNSFQCA--QCFKRFATEKLLKSHVVR 259 (467)
T ss_pred hhhhhhhccHHHHHHHHHhcCCCeEEecchHHHHhccccHH-HHHHHhhhhhcCCchHHH--HHHHHHhHHHHHHHHHHH
Confidence 346666666666666666 222 125556666655 5554332 2335578888 889999988888888887
Q ss_pred c---ccCCCCCCcccChhHHHhhhhh-cCCCCcccCCCCCCCCcccChhHHHHHHHhcCCCCcccCCCCCCCCcccChhH
Q 001193 1036 R---CPHEGCGKRFSSHKYAIIHQRV-HDDERPLKCPWKGCSMSFKWAWARTEHIRVHTGERPYKCKFEGCGLSFRFVSD 1111 (1127)
Q Consensus 1036 H---c~Ce~CGKsFssks~Lk~Hqrt-HtGEKPykCp~e~CGKsFsskssLk~H~RiHTGEKPYkC~v~GCGKsFss~S~ 1111 (1127)
| |+|+.|..+....+.|..|++. |...|||+| +.|++.|.+.+.|.+|..+|. +..|.|.++.|..+|++...
T Consensus 260 Hvn~ykCplCdmtc~~~ssL~~H~r~rHs~dkpfKC--d~Cd~~c~~esdL~kH~~~HS-~~~y~C~h~~C~~s~r~~~q 336 (467)
T KOG3608|consen 260 HVNCYKCPLCDMTCSSASSLTTHIRYRHSKDKPFKC--DECDTRCVRESDLAKHVQVHS-KTVYQCEHPDCHYSVRTYTQ 336 (467)
T ss_pred hhhcccccccccCCCChHHHHHHHHhhhccCCCccc--cchhhhhccHHHHHHHHHhcc-ccceecCCCCCcHHHHHHHH
Confidence 5 8888888888888889888884 888888998 778888888888888888887 66688888888888888888
Q ss_pred HHHHHHHhC
Q 001193 1112 ISRHRRKTG 1120 (1127)
Q Consensus 1112 L~kH~RkH~ 1120 (1127)
+.+|++.|+
T Consensus 337 ~~~H~~evh 345 (467)
T KOG3608|consen 337 MRRHFLEVH 345 (467)
T ss_pred HHHHHHHhc
Confidence 888888755
No 4
>KOG1074 consensus Transcriptional repressor SALM [Transcription]
Probab=99.38 E-value=1.4e-13 Score=164.56 Aligned_cols=57 Identities=26% Similarity=0.498 Sum_probs=51.9
Q ss_pred ccCCCCCCCCcccChhHHHHHHHhcCCCCcccCCCCCCCCcccChhHHHHHHHHhCCCCCC
Q 001193 1065 LKCPWKGCSMSFKWAWARTEHIRVHTGERPYKCKFEGCGLSFRFVSDISRHRRKTGHYENL 1125 (1127)
Q Consensus 1065 ykCp~e~CGKsFsskssLk~H~RiHTGEKPYkC~v~GCGKsFss~S~L~kH~RkH~h~k~~ 1125 (1127)
+.| ..||+.|...+.|..|+|+|+|+|||.|.+ |++.|..+.+|+.||.+|+...++
T Consensus 880 h~C--~vCgk~FsSSsALqiH~rTHtg~KPF~C~f--C~~aFttrgnLKvHMgtH~w~q~~ 936 (958)
T KOG1074|consen 880 HVC--NVCGKQFSSSAALEIHMRTHTGPKPFFCHF--CEEAFTTRGNLKVHMGTHMWVQPP 936 (958)
T ss_pred hhh--ccchhcccchHHHHHhhhcCCCCCCccchh--hhhhhhhhhhhhhhhccccccCCC
Confidence 357 669999999999999999999999999999 999999999999999998765544
No 5
>KOG3608 consensus Zn finger proteins [General function prediction only]
Probab=99.31 E-value=5.7e-13 Score=147.49 Aligned_cols=152 Identities=26% Similarity=0.372 Sum_probs=133.7
Q ss_pred CccCccCCChhhHHHHHh----h-----------ccc--------cCcccCCCCCCCccccccccCCCCceecCCCCCCC
Q 001193 965 SRAGKDAANTSEVDIRKI----A-----------EKR--------ATKTMRNRESVPAPCQDKKKILKGHHRCDLDGCRM 1021 (1127)
Q Consensus 965 ~~CgK~Fssks~L~~H~r----~-----------eKp--------~gKtF~srssL~~~H~~k~H~~eKpykC~~~~CGK 1021 (1127)
..|+..|.+...|..|.- . ++| +.+.|..++.| .+| .+.|+++|...|+ .||.
T Consensus 140 edCe~~F~s~~ef~dHV~~H~l~ceyd~~~~~~D~~pv~~C~W~~Ct~~~~~k~~L-reH-~r~Hs~eKvvACp--~Cg~ 215 (467)
T KOG3608|consen 140 EDCEREFVSIVEFQDHVVKHALFCEYDIQKTPEDERPVTMCNWAMCTKHMGNKYRL-REH-IRTHSNEKVVACP--HCGE 215 (467)
T ss_pred hhcCCcccCHHHHHHHHHHhhhhhhhhhhhCCCCCCceeeccchhhhhhhccHHHH-HHH-HHhcCCCeEEecc--hHHH
Confidence 679999999999999865 1 111 26778888888 888 7899999999999 9999
Q ss_pred cccChHHHHhhhhc-------cccCCCCCCcccChhHHHhhhhhcCCCCcccCCCCCCCCcccChhHHHHHHHh-cCCCC
Q 001193 1022 SFETKRELSLHKRN-------RCPHEGCGKRFSSHKYAIIHQRVHDDERPLKCPWKGCSMSFKWAWARTEHIRV-HTGER 1093 (1127)
Q Consensus 1022 sF~sks~Lk~H~r~-------Hc~Ce~CGKsFssks~Lk~HqrtHtGEKPykCp~e~CGKsFsskssLk~H~Ri-HTGEK 1093 (1127)
.|.++..|-.|.+. +|.|..|.|.|.+...|..|++.|.. -|+||+ |+......+.|..|+|. |...|
T Consensus 216 ~F~~~tkl~DH~rRqt~l~~n~fqC~~C~KrFaTeklL~~Hv~rHvn--~ykCpl--Cdmtc~~~ssL~~H~r~rHs~dk 291 (467)
T KOG3608|consen 216 LFRTKTKLFDHLRRQTELNTNSFQCAQCFKRFATEKLLKSHVVRHVN--CYKCPL--CDMTCSSASSLTTHIRYRHSKDK 291 (467)
T ss_pred HhccccHHHHHHHhhhhhcCCchHHHHHHHHHhHHHHHHHHHHHhhh--cccccc--cccCCCChHHHHHHHHhhhccCC
Confidence 99999999999874 59999999999999999999999974 599966 99999999999999986 99999
Q ss_pred cccCCCCCCCCcccChhHHHHHHHHhCCCCCCCC
Q 001193 1094 PYKCKFEGCGLSFRFVSDISRHRRKTGHYENLSA 1127 (1127)
Q Consensus 1094 PYkC~v~GCGKsFss~S~L~kH~RkH~h~k~~~C 1127 (1127)
||+|+. |++.|.+.+.|.+|...|. .-.|+|
T Consensus 292 pfKCd~--Cd~~c~~esdL~kH~~~HS-~~~y~C 322 (467)
T KOG3608|consen 292 PFKCDE--CDTRCVRESDLAKHVQVHS-KTVYQC 322 (467)
T ss_pred Cccccc--hhhhhccHHHHHHHHHhcc-ccceec
Confidence 999999 9999999999999999875 555554
No 6
>KOG3623 consensus Homeobox transcription factor SIP1 [Transcription]
Probab=99.31 E-value=4.2e-13 Score=158.11 Aligned_cols=100 Identities=27% Similarity=0.552 Sum_probs=92.4
Q ss_pred eecCCCCCCCcccChHHHHhhhhcc-------ccCCCCCCcccChhHHHhhhhhcCC-------------CCcccCCCCC
Q 001193 1012 HRCDLDGCRMSFETKRELSLHKRNR-------CPHEGCGKRFSSHKYAIIHQRVHDD-------------ERPLKCPWKG 1071 (1127)
Q Consensus 1012 ykC~~~~CGKsF~sks~Lk~H~r~H-------c~Ce~CGKsFssks~Lk~HqrtHtG-------------EKPykCp~e~ 1071 (1127)
..|. .|.+.+.....|+.|++.. |.|..|..+|..+..|.+||.+|.. -|.|+| .+
T Consensus 211 ltcp--ycdrgykrltslkeHikyrhekne~nfsC~lCsytFAyRtQLErhm~~hkpg~dqa~sltqsa~lRKFKC--tE 286 (1007)
T KOG3623|consen 211 LTCP--YCDRGYKRLTSLKEHIKYRHEKNEPNFSCMLCSYTFAYRTQLERHMQLHKPGGDQAISLTQSALLRKFKC--TE 286 (1007)
T ss_pred hcch--hHHHHHHHHHHHHHHHHHHHhhCCCCCcchhhhhhhhhHHHHHHHHHhhcCCCcccccccchhhhccccc--cc
Confidence 5688 8999999999999998863 8999999999999999999998842 378999 78
Q ss_pred CCCcccChhHHHHHHHhcCCCCcccCCCCCCCCcccChhHHHHHHH
Q 001193 1072 CSMSFKWAWARTEHIRVHTGERPYKCKFEGCGLSFRFVSDISRHRR 1117 (1127)
Q Consensus 1072 CGKsFsskssLk~H~RiHTGEKPYkC~v~GCGKsFss~S~L~kH~R 1117 (1127)
|||.|+.+.+|+.|+|+|.|||||.|+. |+|+|.....+..||.
T Consensus 287 CgKAFKfKHHLKEHlRIHSGEKPfeCpn--CkKRFSHSGSySSHmS 330 (1007)
T KOG3623|consen 287 CGKAFKFKHHLKEHLRIHSGEKPFECPN--CKKRFSHSGSYSSHMS 330 (1007)
T ss_pred cchhhhhHHHHHhhheeecCCCCcCCcc--cccccccCCccccccc
Confidence 9999999999999999999999999998 9999999999999985
No 7
>KOG3576 consensus Ovo and related transcription factors [Transcription]
Probab=99.29 E-value=1.3e-12 Score=136.40 Aligned_cols=108 Identities=25% Similarity=0.425 Sum_probs=97.1
Q ss_pred CCceecCCCCCCCcccChHHHHhhhhcc-----ccCCCCCCcccChhHHHhhhhhcCCCCcccCCCCCCCCcccChhHHH
Q 001193 1009 KGHHRCDLDGCRMSFETKRELSLHKRNR-----CPHEGCGKRFSSHKYAIIHQRVHDDERPLKCPWKGCSMSFKWAWART 1083 (1127)
Q Consensus 1009 eKpykC~~~~CGKsF~sks~Lk~H~r~H-----c~Ce~CGKsFssks~Lk~HqrtHtGEKPykCp~e~CGKsFsskssLk 1083 (1127)
...|.|. .|+|.|....-|.+|++.| +-|..|||.|.....|++|+|+|+|.+||+| ..|+|.|.++-.|.
T Consensus 115 ~d~ftCr--vCgK~F~lQRmlnrh~kch~~vkr~lct~cgkgfndtfdlkrh~rthtgvrpykc--~~c~kaftqrcsle 190 (267)
T KOG3576|consen 115 QDSFTCR--VCGKKFGLQRMLNRHLKCHSDVKRHLCTFCGKGFNDTFDLKRHTRTHTGVRPYKC--SLCEKAFTQRCSLE 190 (267)
T ss_pred CCeeeee--hhhhhhhHHHHHHHHhhhccHHHHHHHhhccCcccchhhhhhhhccccCccccch--hhhhHHHHhhccHH
Confidence 4458999 9999999999999999987 6788999999999999999999999999999 66999999999999
Q ss_pred HHHH-hcC----------CCCcccCCCCCCCCcccChhHHHHHHHHhCCC
Q 001193 1084 EHIR-VHT----------GERPYKCKFEGCGLSFRFVSDISRHRRKTGHY 1122 (1127)
Q Consensus 1084 ~H~R-iHT----------GEKPYkC~v~GCGKsFss~S~L~kH~RkH~h~ 1122 (1127)
.|.+ +|. .+|-|.|.. ||.+-.....+..|++.|+..
T Consensus 191 shl~kvhgv~~~yaykerr~kl~vced--cg~t~~~~e~~~~h~~~~hp~ 238 (267)
T KOG3576|consen 191 SHLKKVHGVQHQYAYKERRAKLYVCED--CGYTSERPEVYYLHLKLHHPF 238 (267)
T ss_pred HHHHHHcCchHHHHHHHhhhheeeecc--cCCCCCChhHHHHHHHhcCCC
Confidence 9976 453 357799998 999999999999999988764
No 8
>KOG1074 consensus Transcriptional repressor SALM [Transcription]
Probab=99.28 E-value=4.4e-13 Score=160.48 Aligned_cols=80 Identities=26% Similarity=0.437 Sum_probs=67.9
Q ss_pred cCCCCCCcccChhHHHhhhhhcCCCCcccCCCCCCCCcccChhHHHHHHHhcCCC----CcccCC---CCCCCCcccChh
Q 001193 1038 PHEGCGKRFSSHKYAIIHQRVHDDERPLKCPWKGCSMSFKWAWARTEHIRVHTGE----RPYKCK---FEGCGLSFRFVS 1110 (1127)
Q Consensus 1038 ~Ce~CGKsFssks~Lk~HqrtHtGEKPykCp~e~CGKsFsskssLk~H~RiHTGE----KPYkC~---v~GCGKsFss~S 1110 (1127)
.|-.|-+...-++.|+.|.|+|+|+|||+| ++||+.|.++.+|+.|+-+|... -+|.|+ + |-+.|...-
T Consensus 607 qCiiC~rVlSC~saLqmHyrtHtGERPFkC--KiCgRAFtTkGNLkaH~~vHka~p~~R~q~ScP~~~i--c~~kftn~V 682 (958)
T KOG1074|consen 607 QCIICLRVLSCPSALQMHYRTHTGERPFKC--KICGRAFTTKGNLKAHMSVHKAKPPARVQFSCPSTFI--CQKKFTNAV 682 (958)
T ss_pred ceeeeeecccchhhhhhhhhcccCcCcccc--ccccchhccccchhhcccccccCccccccccCCchhh--hcccccccc
Confidence 477789999889999999999999999999 66999999999999999888643 337788 8 999999999
Q ss_pred HHHHHHHHhCC
Q 001193 1111 DISRHRRKTGH 1121 (1127)
Q Consensus 1111 ~L~kH~RkH~h 1121 (1127)
.|..|++.|..
T Consensus 683 ~lpQhIriH~~ 693 (958)
T KOG1074|consen 683 TLPQHIRIHLG 693 (958)
T ss_pred cccceEEeecC
Confidence 99999988863
No 9
>KOG3623 consensus Homeobox transcription factor SIP1 [Transcription]
Probab=99.21 E-value=2.4e-12 Score=151.96 Aligned_cols=77 Identities=31% Similarity=0.619 Sum_probs=74.9
Q ss_pred ccCCCCCCcccChhHHHhhhhhcCCCCcccCCCCCCCCcccChhHHHHHHHhcCCCCcccCCCCCCCCcccChhHHHHHH
Q 001193 1037 CPHEGCGKRFSSHKYAIIHQRVHDDERPLKCPWKGCSMSFKWAWARTEHIRVHTGERPYKCKFEGCGLSFRFVSDISRHR 1116 (1127)
Q Consensus 1037 c~Ce~CGKsFssks~Lk~HqrtHtGEKPykCp~e~CGKsFsskssLk~H~RiHTGEKPYkC~v~GCGKsFss~S~L~kH~ 1116 (1127)
|.|+.|.|.|...+.|.+|..-|+|.|||+| .+|.|.|+.+.+|..|+|.|.|||||+|+. |+|+|.....+..||
T Consensus 895 yaCDqCDK~FqKqSSLaRHKYEHsGqRPyqC--~iCkKAFKHKHHLtEHkRLHSGEKPfQCdK--ClKRFSHSGSYSQHM 970 (1007)
T KOG3623|consen 895 YACDQCDKAFQKQSSLARHKYEHSGQRPYQC--IICKKAFKHKHHLTEHKRLHSGEKPFQCDK--CLKRFSHSGSYSQHM 970 (1007)
T ss_pred chHHHHHHHHHhhHHHHHhhhhhcCCCCccc--chhhHhhhhhhhhhhhhhhccCCCcchhhh--hhhhcccccchHhhh
Confidence 8999999999999999999999999999999 679999999999999999999999999999 999999999999998
Q ss_pred H
Q 001193 1117 R 1117 (1127)
Q Consensus 1117 R 1117 (1127)
-
T Consensus 971 N 971 (1007)
T KOG3623|consen 971 N 971 (1007)
T ss_pred c
Confidence 5
No 10
>KOG3576 consensus Ovo and related transcription factors [Transcription]
Probab=99.13 E-value=9.3e-12 Score=130.02 Aligned_cols=82 Identities=30% Similarity=0.635 Sum_probs=77.4
Q ss_pred cccCCCCCCcccChhHHHhhhhhcCCCCcccCCCCCCCCcccChhHHHHHHHhcCCCCcccCCCCCCCCcccChhHHHHH
Q 001193 1036 RCPHEGCGKRFSSHKYAIIHQRVHDDERPLKCPWKGCSMSFKWAWARTEHIRVHTGERPYKCKFEGCGLSFRFVSDISRH 1115 (1127)
Q Consensus 1036 Hc~Ce~CGKsFssks~Lk~HqrtHtGEKPykCp~e~CGKsFsskssLk~H~RiHTGEKPYkC~v~GCGKsFss~S~L~kH 1115 (1127)
.|.|..|+|.|.....|.+|++-|...|.|-|++ |||.|.....|++|+|+|||-+||+|.. |+|.|+++-.|..|
T Consensus 117 ~ftCrvCgK~F~lQRmlnrh~kch~~vkr~lct~--cgkgfndtfdlkrh~rthtgvrpykc~~--c~kaftqrcslesh 192 (267)
T KOG3576|consen 117 SFTCRVCGKKFGLQRMLNRHLKCHSDVKRHLCTF--CGKGFNDTFDLKRHTRTHTGVRPYKCSL--CEKAFTQRCSLESH 192 (267)
T ss_pred eeeeehhhhhhhHHHHHHHHhhhccHHHHHHHhh--ccCcccchhhhhhhhccccCccccchhh--hhHHHHhhccHHHH
Confidence 3689999999999999999999999999999976 9999999999999999999999999999 99999999999999
Q ss_pred HHH-hCC
Q 001193 1116 RRK-TGH 1121 (1127)
Q Consensus 1116 ~Rk-H~h 1121 (1127)
.++ |+-
T Consensus 193 l~kvhgv 199 (267)
T KOG3576|consen 193 LKKVHGV 199 (267)
T ss_pred HHHHcCc
Confidence 886 543
No 11
>PLN03086 PRLI-interacting factor K; Provisional
Probab=98.66 E-value=7.6e-08 Score=115.27 Aligned_cols=134 Identities=18% Similarity=0.315 Sum_probs=100.3
Q ss_pred CcCCccCccCCChhhHHHHHhhcc---------ccCcccCCCCCCCccccccccCCCCceecCCCCCCCcccChHHHHhh
Q 001193 962 GLRSRAGKDAANTSEVDIRKIAEK---------RATKTMRNRESVPAPCQDKKKILKGHHRCDLDGCRMSFETKRELSLH 1032 (1127)
Q Consensus 962 ~~C~~CgK~Fssks~L~~H~r~eK---------p~gKtF~srssL~~~H~~k~H~~eKpykC~~~~CGKsF~sks~Lk~H 1032 (1127)
..|+.|..... ...|..|...+. .|+..|. ....++++.|+ .|++.|. ...|..|
T Consensus 408 V~C~NC~~~i~-l~~l~lHe~~C~r~~V~Cp~~~Cg~v~~------------r~el~~H~~C~--~Cgk~f~-~s~LekH 471 (567)
T PLN03086 408 VECRNCKHYIP-SRSIALHEAYCSRHNVVCPHDGCGIVLR------------VEEAKNHVHCE--KCGQAFQ-QGEMEKH 471 (567)
T ss_pred EECCCCCCccc-hhHHHHHHhhCCCcceeCCcccccceee------------ccccccCccCC--CCCCccc-hHHHHHH
Confidence 35666777655 345557776221 1333332 22234447899 9999996 6889999
Q ss_pred hhcc---ccCCCCCCcccChhHHHhhhhhcCCCCcccCCCCCCCCcccC----------hhHHHHHHHhcCCCCcccCCC
Q 001193 1033 KRNR---CPHEGCGKRFSSHKYAIIHQRVHDDERPLKCPWKGCSMSFKW----------AWARTEHIRVHTGERPYKCKF 1099 (1127)
Q Consensus 1033 ~r~H---c~Ce~CGKsFssks~Lk~HqrtHtGEKPykCp~e~CGKsFss----------kssLk~H~RiHTGEKPYkC~v 1099 (1127)
++.+ +.|+ ||+.| .+..|..|+.+|.+.+++.|++ |++.|.. ...|..|+.++ |.+++.|..
T Consensus 472 ~~~~Hkpv~Cp-Cg~~~-~R~~L~~H~~thCp~Kpi~C~f--C~~~v~~g~~~~d~~d~~s~Lt~HE~~C-G~rt~~C~~ 546 (567)
T PLN03086 472 MKVFHEPLQCP-CGVVL-EKEQMVQHQASTCPLRLITCRF--CGDMVQAGGSAMDVRDRLRGMSEHESIC-GSRTAPCDS 546 (567)
T ss_pred HHhcCCCccCC-CCCCc-chhHHHhhhhccCCCCceeCCC--CCCccccCccccchhhhhhhHHHHHHhc-CCcceEccc
Confidence 9874 6788 99765 6789999999999999999977 9999952 45899999986 899999998
Q ss_pred CCCCCcccChhHHHHHHHHh
Q 001193 1100 EGCGLSFRFVSDISRHRRKT 1119 (1127)
Q Consensus 1100 ~GCGKsFss~S~L~kH~RkH 1119 (1127)
||+.|..+ .|..|+...
T Consensus 547 --Cgk~Vrlr-dm~~H~~~~ 563 (567)
T PLN03086 547 --CGRSVMLK-EMDIHQIAV 563 (567)
T ss_pred --cCCeeeeh-hHHHHHHHh
Confidence 99999765 568887753
No 12
>PLN03086 PRLI-interacting factor K; Provisional
Probab=98.50 E-value=1.5e-07 Score=112.84 Aligned_cols=103 Identities=22% Similarity=0.414 Sum_probs=82.4
Q ss_pred CceecCCCCCCCcccChHHHHhhhhccccCCCCCCcccChhHHHhhhhhcCCCCcccCCCCCCCCcccChhHHHHHHHhc
Q 001193 1010 GHHRCDLDGCRMSFETKRELSLHKRNRCPHEGCGKRFSSHKYAIIHQRVHDDERPLKCPWKGCSMSFKWAWARTEHIRVH 1089 (1127)
Q Consensus 1010 KpykC~~~~CGKsF~sks~Lk~H~r~Hc~Ce~CGKsFssks~Lk~HqrtHtGEKPykCp~e~CGKsFsskssLk~H~RiH 1089 (1127)
..-.|+...||..|. +..|.. |+.|+.|++.|. ...|..|+++|+ ++|.| . ||+.| .+..|..|+++|
T Consensus 432 ~~V~Cp~~~Cg~v~~-r~el~~----H~~C~~Cgk~f~-~s~LekH~~~~H--kpv~C--p-Cg~~~-~R~~L~~H~~th 499 (567)
T PLN03086 432 HNVVCPHDGCGIVLR-VEEAKN----HVHCEKCGQAFQ-QGEMEKHMKVFH--EPLQC--P-CGVVL-EKEQMVQHQAST 499 (567)
T ss_pred cceeCCcccccceee-cccccc----CccCCCCCCccc-hHHHHHHHHhcC--CCccC--C-CCCCc-chhHHHhhhhcc
Confidence 345687446999983 333444 568999999996 688999999986 89999 6 99765 678999999999
Q ss_pred CCCCcccCCCCCCCCccc----------ChhHHHHHHHHhCCCCCCCC
Q 001193 1090 TGERPYKCKFEGCGLSFR----------FVSDISRHRRKTGHYENLSA 1127 (1127)
Q Consensus 1090 TGEKPYkC~v~GCGKsFs----------s~S~L~kH~RkH~h~k~~~C 1127 (1127)
.+.+|+.|.+ |++.|. ..+.|..|...+ +.+.+.|
T Consensus 500 Cp~Kpi~C~f--C~~~v~~g~~~~d~~d~~s~Lt~HE~~C-G~rt~~C 544 (567)
T PLN03086 500 CPLRLITCRF--CGDMVQAGGSAMDVRDRLRGMSEHESIC-GSRTAPC 544 (567)
T ss_pred CCCCceeCCC--CCCccccCccccchhhhhhhHHHHHHhc-CCcceEc
Confidence 9999999999 999995 246899999886 6666665
No 13
>PHA00733 hypothetical protein
Probab=98.46 E-value=1.7e-07 Score=93.62 Aligned_cols=86 Identities=21% Similarity=0.264 Sum_probs=67.3
Q ss_pred CCceecCCCCCCCcccChHHHHhhhhccccCCCCCCcccChhHHHhhhhhcCCCCcccCCCCCCCCcccChhHHHHHHHh
Q 001193 1009 KGHHRCDLDGCRMSFETKRELSLHKRNRCPHEGCGKRFSSHKYAIIHQRVHDDERPLKCPWKGCSMSFKWAWARTEHIRV 1088 (1127)
Q Consensus 1009 eKpykC~~~~CGKsF~sks~Lk~H~r~Hc~Ce~CGKsFssks~Lk~HqrtHtGEKPykCp~e~CGKsFsskssLk~H~Ri 1088 (1127)
.+++.|. .|.+.|.....|..| ..|.+|+..| +.+||.| ..||+.|.....|..|++.
T Consensus 38 ~~~~~~~--~~~~~~~~~~~l~~~-----------------~~l~~~~~~~-~~kPy~C--~~Cgk~Fss~s~L~~H~r~ 95 (128)
T PHA00733 38 QKRLIRA--VVKTLIYNPQLLDES-----------------SYLYKLLTSK-AVSPYVC--PLCLMPFSSSVSLKQHIRY 95 (128)
T ss_pred hhhHHHH--HHhhhccChhhhcch-----------------HHHHhhcccC-CCCCccC--CCCCCcCCCHHHHHHHHhc
Confidence 4567777 677766655544443 3366665544 4899999 6699999999999999998
Q ss_pred cCCCCcccCCCCCCCCcccChhHHHHHHHHhC
Q 001193 1089 HTGERPYKCKFEGCGLSFRFVSDISRHRRKTG 1120 (1127)
Q Consensus 1089 HTGEKPYkC~v~GCGKsFss~S~L~kH~RkH~ 1120 (1127)
| +.+|.|.. |++.|.....|.+|+.+.|
T Consensus 96 h--~~~~~C~~--CgK~F~~~~sL~~H~~~~h 123 (128)
T PHA00733 96 T--EHSKVCPV--CGKEFRNTDSTLDHVCKKH 123 (128)
T ss_pred C--CcCccCCC--CCCccCCHHHHHHHHHHhc
Confidence 7 36799999 9999999999999998654
No 14
>PHA02768 hypothetical protein; Provisional
Probab=97.98 E-value=3.4e-06 Score=72.90 Aligned_cols=42 Identities=17% Similarity=0.211 Sum_probs=30.0
Q ss_pred ccCCCCCCCCcccChhHHHHHHHhcCCCCcccCCCCCCCCcccChhHH
Q 001193 1065 LKCPWKGCSMSFKWAWARTEHIRVHTGERPYKCKFEGCGLSFRFVSDI 1112 (1127)
Q Consensus 1065 ykCp~e~CGKsFsskssLk~H~RiHTGEKPYkC~v~GCGKsFss~S~L 1112 (1127)
|+| +.||+.|....+|..|+++|+ +||+|.. |++.|.+.+.|
T Consensus 6 y~C--~~CGK~Fs~~~~L~~H~r~H~--k~~kc~~--C~k~f~~~s~l 47 (55)
T PHA02768 6 YEC--PICGEIYIKRKSMITHLRKHN--TNLKLSN--CKRISLRTGEY 47 (55)
T ss_pred cCc--chhCCeeccHHHHHHHHHhcC--CcccCCc--ccceeccccee
Confidence 667 457777777777777777777 6777766 77777766554
No 15
>PHA02768 hypothetical protein; Provisional
Probab=97.95 E-value=3.6e-06 Score=72.75 Aligned_cols=43 Identities=23% Similarity=0.266 Sum_probs=38.3
Q ss_pred ccCCCCCCcccChhHHHhhhhhcCCCCcccCCCCCCCCcccChhHHH
Q 001193 1037 CPHEGCGKRFSSHKYAIIHQRVHDDERPLKCPWKGCSMSFKWAWART 1083 (1127)
Q Consensus 1037 c~Ce~CGKsFssks~Lk~HqrtHtGEKPykCp~e~CGKsFsskssLk 1083 (1127)
|.|+.||+.|.....|..|+++|+ ++|+| ..|++.|.+.+.|.
T Consensus 6 y~C~~CGK~Fs~~~~L~~H~r~H~--k~~kc--~~C~k~f~~~s~l~ 48 (55)
T PHA02768 6 YECPICGEIYIKRKSMITHLRKHN--TNLKL--SNCKRISLRTGEYI 48 (55)
T ss_pred cCcchhCCeeccHHHHHHHHHhcC--CcccC--CcccceecccceeE
Confidence 689999999999999999999999 79999 66999999887664
No 16
>PF13465 zf-H2C2_2: Zinc-finger double domain; PDB: 2EN7_A 1TF6_A 1TF3_A 2ELT_A 2EOS_A 2EN2_A 2DMD_A 2WBS_A 2WBU_A 2EM5_A ....
Probab=97.69 E-value=1.9e-05 Score=58.32 Aligned_cols=25 Identities=56% Similarity=1.224 Sum_probs=18.4
Q ss_pred HHHHHHHhcCCCCcccCCCCCCCCccc
Q 001193 1081 ARTEHIRVHTGERPYKCKFEGCGLSFR 1107 (1127)
Q Consensus 1081 sLk~H~RiHTGEKPYkC~v~GCGKsFs 1107 (1127)
+|..|+++|+|++||.|+. |++.|.
T Consensus 1 ~l~~H~~~H~~~k~~~C~~--C~k~F~ 25 (26)
T PF13465_consen 1 NLRRHMRTHTGEKPYKCPY--CGKSFS 25 (26)
T ss_dssp HHHHHHHHHSSSSSEEESS--SSEEES
T ss_pred CHHHHhhhcCCCCCCCCCC--CcCeeC
Confidence 3677777777777777777 777775
No 17
>KOG3993 consensus Transcription factor (contains Zn finger) [Transcription]
Probab=97.66 E-value=1.9e-05 Score=90.69 Aligned_cols=157 Identities=13% Similarity=0.102 Sum_probs=101.4
Q ss_pred CCCCCcCCccCccCCChhhHHHHHhhccccCccc--CCCC--------CCCccccc-cccCCCCceecCCCCCCCcccCh
Q 001193 958 SPCEGLRSRAGKDAANTSEVDIRKIAEKRATKTM--RNRE--------SVPAPCQD-KKKILKGHHRCDLDGCRMSFETK 1026 (1127)
Q Consensus 958 ~Pc~~~C~~CgK~Fssks~L~~H~r~eKp~gKtF--~srs--------sL~~~H~~-k~H~~eKpykC~~~~CGKsF~sk 1026 (1127)
...++.|+.|+|.|....+|..|+|.+||....- .... .+-.+--+ -......-|.|. .|+|.|++.
T Consensus 292 V~vEYrCPEC~KVFsCPANLASHRRWHKPR~eaa~a~~~P~k~~~~~rae~~ea~rsg~dss~gi~~C~--~C~KkFrRq 369 (500)
T KOG3993|consen 292 VHVEYRCPECDKVFSCPANLASHRRWHKPRPEAAKAGSPPPKQAVETRAEVQEAERSGDDSSSGIFSCH--TCGKKFRRQ 369 (500)
T ss_pred EEeeecCCcccccccCchhhhhhhcccCCchhhhhcCCCChhhhhhhhhhhhhccccCCcccCceeecH--HhhhhhHHH
Confidence 3456899999999999999999999888761111 0000 00000000 001224469999 999999999
Q ss_pred HHHHhhhhccc----------------------cCCCCCCcccChhHHHhhhhhcCC-CCcccCCCCCCCCcccChhHHH
Q 001193 1027 RELSLHKRNRC----------------------PHEGCGKRFSSHKYAIIHQRVHDD-ERPLKCPWKGCSMSFKWAWART 1083 (1127)
Q Consensus 1027 s~Lk~H~r~Hc----------------------~Ce~CGKsFssks~Lk~HqrtHtG-EKPykCp~e~CGKsFsskssLk 1083 (1127)
..|+.|+..|. -|..|+-.|.....--.|...|.+ .....|++ |+..+..+..--
T Consensus 370 AYLrKHqlthq~~~~~k~~a~~f~~s~~~~l~~~~~~~a~h~~a~~~~g~~vl~~a~sael~~pp~--~~~ppsss~~sg 447 (500)
T KOG3993|consen 370 AYLRKHQLTHQRAPLAKEKAPKFLLSRVIPLMHFNQAVATHSSASDSHGDEVLYVAGSAELELPPY--DGSPPSSSGSSG 447 (500)
T ss_pred HHHHHhHHhhhccccchhcccCcchhhcccccccccccccccccccccccceeeeeccccccCCCC--CCCCcccCCCCC
Confidence 99999977652 233344333332222222222221 12235655 888888887777
Q ss_pred HHHHhcCCCCcccCCCCCCCCcccChhHHHHHHHHhC
Q 001193 1084 EHIRVHTGERPYKCKFEGCGLSFRFVSDISRHRRKTG 1120 (1127)
Q Consensus 1084 ~H~RiHTGEKPYkC~v~GCGKsFss~S~L~kH~RkH~ 1120 (1127)
.|.|.-..+.-|.|.+ |...|.....|.+|..+-|
T Consensus 448 g~~rlg~~~q~f~~ky--~~atfyss~~ltrhin~~H 482 (500)
T KOG3993|consen 448 GYGRLGIAEQGFTCKY--CPATFYSSPGLTRHINKCH 482 (500)
T ss_pred ccccccchhhcccccc--chHhhhcCcchHhHhhhcC
Confidence 7777666678899999 9999999999999987643
No 18
>PHA00733 hypothetical protein
Probab=97.57 E-value=0.00011 Score=73.76 Aligned_cols=46 Identities=24% Similarity=0.281 Sum_probs=26.5
Q ss_pred CCCCcccChhHHHhhhhhcCCCCcccCCCCCCCCcccChhHHHHHHHhcC
Q 001193 1041 GCGKRFSSHKYAIIHQRVHDDERPLKCPWKGCSMSFKWAWARTEHIRVHT 1090 (1127)
Q Consensus 1041 ~CGKsFssks~Lk~HqrtHtGEKPykCp~e~CGKsFsskssLk~H~RiHT 1090 (1127)
.||+.|.+...|..|++.| ..+|.| ..|++.|.....|..|++.++
T Consensus 78 ~Cgk~Fss~s~L~~H~r~h--~~~~~C--~~CgK~F~~~~sL~~H~~~~h 123 (128)
T PHA00733 78 LCLMPFSSSVSLKQHIRYT--EHSKVC--PVCGKEFRNTDSTLDHVCKKH 123 (128)
T ss_pred CCCCcCCCHHHHHHHHhcC--CcCccC--CCCCCccCCHHHHHHHHHHhc
Confidence 3444444444444444444 235777 447777777777777766543
No 19
>PF13465 zf-H2C2_2: Zinc-finger double domain; PDB: 2EN7_A 1TF6_A 1TF3_A 2ELT_A 2EOS_A 2EN2_A 2DMD_A 2WBS_A 2WBU_A 2EM5_A ....
Probab=97.28 E-value=0.00011 Score=54.35 Aligned_cols=26 Identities=38% Similarity=0.623 Sum_probs=23.2
Q ss_pred HHHhhhhhcCCCCcccCCCCCCCCcccC
Q 001193 1051 YAIIHQRVHDDERPLKCPWKGCSMSFKW 1078 (1127)
Q Consensus 1051 ~Lk~HqrtHtGEKPykCp~e~CGKsFss 1078 (1127)
+|.+|+++|+|++||+| ..|++.|.+
T Consensus 1 ~l~~H~~~H~~~k~~~C--~~C~k~F~~ 26 (26)
T PF13465_consen 1 NLRRHMRTHTGEKPYKC--PYCGKSFSN 26 (26)
T ss_dssp HHHHHHHHHSSSSSEEE--SSSSEEESS
T ss_pred CHHHHhhhcCCCCCCCC--CCCcCeeCc
Confidence 48899999999999999 559999974
No 20
>KOG3993 consensus Transcription factor (contains Zn finger) [Transcription]
Probab=97.04 E-value=0.00015 Score=83.60 Aligned_cols=109 Identities=19% Similarity=0.279 Sum_probs=73.4
Q ss_pred CceecCCCCCCCcccChHHHHhhhhc-----cccCCCCCCcccChhHHHhhhhhcCCCCccc-CCCCCCCCcccChhHHH
Q 001193 1010 GHHRCDLDGCRMSFETKRELSLHKRN-----RCPHEGCGKRFSSHKYAIIHQRVHDDERPLK-CPWKGCSMSFKWAWART 1083 (1127)
Q Consensus 1010 KpykC~~~~CGKsF~sks~Lk~H~r~-----Hc~Ce~CGKsFssks~Lk~HqrtHtGEKPyk-Cp~e~CGKsFsskssLk 1083 (1127)
..|.|. .|...|.....|-+|.-- -|.|+.|+|.|+-..+|..|.|.|.-...-. -...-=.+.-......+
T Consensus 266 GdyiCq--LCK~kYeD~F~LAQHrC~RIV~vEYrCPEC~KVFsCPANLASHRRWHKPR~eaa~a~~~P~k~~~~~rae~~ 343 (500)
T KOG3993|consen 266 GDYICQ--LCKEKYEDAFALAQHRCPRIVHVEYRCPECDKVFSCPANLASHRRWHKPRPEAAKAGSPPPKQAVETRAEVQ 343 (500)
T ss_pred HHHHHH--HHHHhhhhHHHHhhccCCeeEEeeecCCcccccccCchhhhhhhcccCCchhhhhcCCCChhhhhhhhhhhh
Confidence 459999 999999999999999642 3999999999999999999999995321100 00000000111111111
Q ss_pred HHHHh--cCCCCcccCCCCCCCCcccChhHHHHHHHHhCCC
Q 001193 1084 EHIRV--HTGERPYKCKFEGCGLSFRFVSDISRHRRKTGHY 1122 (1127)
Q Consensus 1084 ~H~Ri--HTGEKPYkC~v~GCGKsFss~S~L~kH~RkH~h~ 1122 (1127)
.-.|. -..+.-|.|.+ |+|.|++...|++|+.+|+..
T Consensus 344 ea~rsg~dss~gi~~C~~--C~KkFrRqAYLrKHqlthq~~ 382 (500)
T KOG3993|consen 344 EAERSGDDSSSGIFSCHT--CGKKFRRQAYLRKHQLTHQRA 382 (500)
T ss_pred hccccCCcccCceeecHH--hhhhhHHHHHHHHhHHhhhcc
Confidence 11111 01234699999 999999999999999887543
No 21
>PHA00616 hypothetical protein
Probab=96.82 E-value=0.00052 Score=57.11 Aligned_cols=34 Identities=15% Similarity=0.256 Sum_probs=24.0
Q ss_pred cccCCCCCCCCcccChhHHHHHHHhcCCCCcccCCC
Q 001193 1064 PLKCPWKGCSMSFKWAWARTEHIRVHTGERPYKCKF 1099 (1127)
Q Consensus 1064 PykCp~e~CGKsFsskssLk~H~RiHTGEKPYkC~v 1099 (1127)
||+| ..||+.|.+++.|..|++.|+|+++|.|+.
T Consensus 1 pYqC--~~CG~~F~~~s~l~~H~r~~hg~~~~~~~~ 34 (44)
T PHA00616 1 MYQC--LRCGGIFRKKKEVIEHLLSVHKQNKLTLEY 34 (44)
T ss_pred CCcc--chhhHHHhhHHHHHHHHHHhcCCCccceeE
Confidence 5677 447777777777777777777777777664
No 22
>PHA00616 hypothetical protein
Probab=96.76 E-value=0.00066 Score=56.52 Aligned_cols=32 Identities=25% Similarity=0.432 Sum_probs=29.9
Q ss_pred cccCCCCCCCCcccChhHHHHHHHHhCCCCCCCC
Q 001193 1094 PYKCKFEGCGLSFRFVSDISRHRRKTGHYENLSA 1127 (1127)
Q Consensus 1094 PYkC~v~GCGKsFss~S~L~kH~RkH~h~k~~~C 1127 (1127)
||+|.. ||+.|...+.|.+|+++|++.+++.|
T Consensus 1 pYqC~~--CG~~F~~~s~l~~H~r~~hg~~~~~~ 32 (44)
T PHA00616 1 MYQCLR--CGGIFRKKKEVIEHLLSVHKQNKLTL 32 (44)
T ss_pred CCccch--hhHHHhhHHHHHHHHHHhcCCCccce
Confidence 799999 99999999999999999999998875
No 23
>COG5189 SFP1 Putative transcriptional repressor regulating G2/M transition [Transcription / Cell division and chromosome partitioning]
Probab=96.75 E-value=0.00049 Score=77.07 Aligned_cols=55 Identities=27% Similarity=0.744 Sum_probs=44.0
Q ss_pred CCcccCCCCCCCCcccChhHHHHHHHh-c------------------CCCCcccCCCCCCCCcccChhHHHHHHHH
Q 001193 1062 ERPLKCPWKGCSMSFKWAWARTEHIRV-H------------------TGERPYKCKFEGCGLSFRFVSDISRHRRK 1118 (1127)
Q Consensus 1062 EKPykCp~e~CGKsFsskssLk~H~Ri-H------------------TGEKPYkC~v~GCGKsFss~S~L~kH~Rk 1118 (1127)
+|||+|++..|.|.|+....|+-|+.- | ...|||.|++ |+|+|+....|+-|+..
T Consensus 347 ~KpykCpV~gC~K~YknqnGLKYH~lhGH~~~~~~~~p~p~~~~~F~~~~KPYrCev--C~KRYKNlNGLKYHr~H 420 (423)
T COG5189 347 GKPYKCPVEGCNKKYKNQNGLKYHMLHGHQNQKLHENPSPEKMNIFSAKDKPYRCEV--CDKRYKNLNGLKYHRKH 420 (423)
T ss_pred CceecCCCCCchhhhccccchhhhhhccccCcccCCCCCccccccccccCCceeccc--cchhhccCccceecccc
Confidence 478888888888888888888888653 3 1249999999 99999999999999764
No 24
>PHA00732 hypothetical protein
Probab=96.71 E-value=0.0012 Score=61.34 Aligned_cols=46 Identities=22% Similarity=0.278 Sum_probs=29.3
Q ss_pred ccCCCCCCcccChhHHHhhhhh-cCCCCcccCCCCCCCCcccChhHHHHHHHhcC
Q 001193 1037 CPHEGCGKRFSSHKYAIIHQRV-HDDERPLKCPWKGCSMSFKWAWARTEHIRVHT 1090 (1127)
Q Consensus 1037 c~Ce~CGKsFssks~Lk~Hqrt-HtGEKPykCp~e~CGKsFsskssLk~H~RiHT 1090 (1127)
|.|..||+.|.+...|..|++. |. ++.| ..|++.|. .|..|.+++.
T Consensus 2 y~C~~Cgk~F~s~s~Lk~H~r~~H~---~~~C--~~CgKsF~---~l~~H~~~~~ 48 (79)
T PHA00732 2 FKCPICGFTTVTLFALKQHARRNHT---LTKC--PVCNKSYR---RLNQHFYSQY 48 (79)
T ss_pred ccCCCCCCccCCHHHHHHHhhcccC---CCcc--CCCCCEeC---ChhhhhcccC
Confidence 4677777777777777777763 54 2467 44777776 3666665544
No 25
>PHA00732 hypothetical protein
Probab=96.47 E-value=0.0021 Score=59.65 Aligned_cols=48 Identities=21% Similarity=0.247 Sum_probs=41.4
Q ss_pred ceecCCCCCCCcccChHHHHhhhhc-c--ccCCCCCCcccChhHHHhhhhhcCCCC
Q 001193 1011 HHRCDLDGCRMSFETKRELSLHKRN-R--CPHEGCGKRFSSHKYAIIHQRVHDDER 1063 (1127)
Q Consensus 1011 pykC~~~~CGKsF~sks~Lk~H~r~-H--c~Ce~CGKsFssks~Lk~HqrtHtGEK 1063 (1127)
||.|. .||+.|.+...|+.|++. | +.|+.||+.|. .|..|.+++.+..
T Consensus 1 py~C~--~Cgk~F~s~s~Lk~H~r~~H~~~~C~~CgKsF~---~l~~H~~~~~~~~ 51 (79)
T PHA00732 1 MFKCP--ICGFTTVTLFALKQHARRNHTLTKCPVCNKSYR---RLNQHFYSQYDIE 51 (79)
T ss_pred CccCC--CCCCccCCHHHHHHHhhcccCCCccCCCCCEeC---ChhhhhcccCCcc
Confidence 58899 999999999999999984 4 78999999998 5889998776543
No 26
>PF12756 zf-C2H2_2: C2H2 type zinc-finger (2 copies); PDB: 2DMI_A.
Probab=96.29 E-value=0.0029 Score=58.45 Aligned_cols=27 Identities=26% Similarity=0.709 Sum_probs=16.4
Q ss_pred cccCCCCCCCCcccChhHHHHHHHHhCCC
Q 001193 1094 PYKCKFEGCGLSFRFVSDISRHRRKTGHY 1122 (1127)
Q Consensus 1094 PYkC~v~GCGKsFss~S~L~kH~RkH~h~ 1122 (1127)
.+.|.. |++.|.....|..|++.++|.
T Consensus 50 ~~~C~~--C~~~f~s~~~l~~Hm~~~~H~ 76 (100)
T PF12756_consen 50 SFRCPY--CNKTFRSREALQEHMRSKHHK 76 (100)
T ss_dssp SEEBSS--SS-EESSHHHHHHHHHHTTTT
T ss_pred CCCCCc--cCCCCcCHHHHHHHHcCccCC
Confidence 466666 666666666666666655444
No 27
>PF05605 zf-Di19: Drought induced 19 protein (Di19), zinc-binding; InterPro: IPR008598 This entry consists of several drought induced 19 (Di19) like and RING finger 114 proteins. Di19 has been found to be strongly expressed in both the roots and leaves of Arabidopsis thaliana during progressive drought [], whilst RING finger proteins are thought to play a role in spermatogenesis. The precise function is unknown.
Probab=96.09 E-value=0.0087 Score=51.36 Aligned_cols=50 Identities=22% Similarity=0.487 Sum_probs=36.3
Q ss_pred cccCCCCCCCCcccChhHHHHHHHh-cCCC-CcccCCCCCCCCcccChhHHHHHHHHhC
Q 001193 1064 PLKCPWKGCSMSFKWAWARTEHIRV-HTGE-RPYKCKFEGCGLSFRFVSDISRHRRKTG 1120 (1127)
Q Consensus 1064 PykCp~e~CGKsFsskssLk~H~Ri-HTGE-KPYkC~v~GCGKsFss~S~L~kH~RkH~ 1120 (1127)
.|.||| |++. .....|..|... |..+ +.+.|++ |...+. .+|.+|+..+|
T Consensus 2 ~f~CP~--C~~~-~~~~~L~~H~~~~H~~~~~~v~CPi--C~~~~~--~~l~~Hl~~~H 53 (54)
T PF05605_consen 2 SFTCPY--CGKG-FSESSLVEHCEDEHRSESKNVVCPI--CSSRVT--DNLIRHLNSQH 53 (54)
T ss_pred CcCCCC--CCCc-cCHHHHHHHHHhHCcCCCCCccCCC--chhhhh--hHHHHHHHHhc
Confidence 478877 9994 455678888665 6554 5688988 988655 48888988654
No 28
>COG5189 SFP1 Putative transcriptional repressor regulating G2/M transition [Transcription / Cell division and chromosome partitioning]
Probab=96.07 E-value=0.0019 Score=72.48 Aligned_cols=73 Identities=14% Similarity=0.347 Sum_probs=51.2
Q ss_pred CCceecCCCCCCCcccChHHHHhhhhccccCCCCCCcccChhHHHhhhhhcCCCCcccCCCCCCCCcccChhHHHHHHH
Q 001193 1009 KGHHRCDLDGCRMSFETKRELSLHKRNRCPHEGCGKRFSSHKYAIIHQRVHDDERPLKCPWKGCSMSFKWAWARTEHIR 1087 (1127)
Q Consensus 1009 eKpykC~~~~CGKsF~sks~Lk~H~r~Hc~Ce~CGKsFssks~Lk~HqrtHtGEKPykCp~e~CGKsFsskssLk~H~R 1087 (1127)
+|||+|+.+.|.|.|.....|+.|+..-+ |.....-...-..|...-...|||.| +.|+|+|+....|+-|+.
T Consensus 347 ~KpykCpV~gC~K~YknqnGLKYH~lhGH----~~~~~~~~p~p~~~~~F~~~~KPYrC--evC~KRYKNlNGLKYHr~ 419 (423)
T COG5189 347 GKPYKCPVEGCNKKYKNQNGLKYHMLHGH----QNQKLHENPSPEKMNIFSAKDKPYRC--EVCDKRYKNLNGLKYHRK 419 (423)
T ss_pred CceecCCCCCchhhhccccchhhhhhccc----cCcccCCCCCccccccccccCCceec--cccchhhccCccceeccc
Confidence 59999999999999999999999988521 11111111111122222345699999 559999999999999854
No 29
>PF00096 zf-C2H2: Zinc finger, C2H2 type; InterPro: IPR007087 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. The C2H2 zinc finger is the classical zinc finger domain. The two conserved cysteines and histidines co-ordinate a zinc ion. The following pattern describes the zinc finger: #-X-C-X(1-5)-C-X3-#-X5-#-X2-H-X(3-6)-[H/C], where X can be any amino acid, and numbers in brackets indicate the number of residues. The positions marked # are those that are important for the stable fold of the zinc finger. The final position can be either his or cys. The C2H2 zinc finger is composed of two short beta strands followed by an alpha helix. The amino terminal part of the helix binds the major groove in DNA binding zinc fingers. The accepted consensus binding sequence for Sp1 is usually defined by the asymmetric hexanucleotide core GGGCGG but this sequence does not include, among others, the GAG (=CTC) repeat that constitutes a high-affinity site for Sp1 binding to the wt1 promoter []. This entry represents the classical C2H2 zinc finger domain. More information about these proteins can be found at Protein of the Month: Zinc Fingers [].; GO: 0008270 zinc ion binding, 0005622 intracellular; PDB: 2D9H_A 2EPC_A 1SP1_A 1VA3_A 2WBT_B 2ELR_A 2YTP_A 2YTT_A 1VA1_A 2ELO_A ....
Probab=95.22 E-value=0.011 Score=41.81 Aligned_cols=23 Identities=48% Similarity=0.967 Sum_probs=14.9
Q ss_pred ccCCCCCCCCcccChhHHHHHHHHh
Q 001193 1095 YKCKFEGCGLSFRFVSDISRHRRKT 1119 (1127)
Q Consensus 1095 YkC~v~GCGKsFss~S~L~kH~RkH 1119 (1127)
|+|+. |++.|.+...|.+|++.|
T Consensus 1 y~C~~--C~~~f~~~~~l~~H~~~H 23 (23)
T PF00096_consen 1 YKCPI--CGKSFSSKSNLKRHMRRH 23 (23)
T ss_dssp EEETT--TTEEESSHHHHHHHHHHH
T ss_pred CCCCC--CCCccCCHHHHHHHHhHC
Confidence 45666 666666666666666653
No 30
>PF05605 zf-Di19: Drought induced 19 protein (Di19), zinc-binding; InterPro: IPR008598 This entry consists of several drought induced 19 (Di19) like and RING finger 114 proteins. Di19 has been found to be strongly expressed in both the roots and leaves of Arabidopsis thaliana during progressive drought [], whilst RING finger proteins are thought to play a role in spermatogenesis. The precise function is unknown.
Probab=94.86 E-value=0.036 Score=47.57 Aligned_cols=49 Identities=24% Similarity=0.344 Sum_probs=35.2
Q ss_pred ccCCCCCCcccChhHHHhhhhh-cCCC-CcccCCCCCCCCcccChhHHHHHHHhcC
Q 001193 1037 CPHEGCGKRFSSHKYAIIHQRV-HDDE-RPLKCPWKGCSMSFKWAWARTEHIRVHT 1090 (1127)
Q Consensus 1037 c~Ce~CGKsFssks~Lk~Hqrt-HtGE-KPykCp~e~CGKsFsskssLk~H~RiHT 1090 (1127)
|.|+.|++ ..+...|..|... |..+ +.+.||+ |...+. ..|..|+..++
T Consensus 3 f~CP~C~~-~~~~~~L~~H~~~~H~~~~~~v~CPi--C~~~~~--~~l~~Hl~~~H 53 (54)
T PF05605_consen 3 FTCPYCGK-GFSESSLVEHCEDEHRSESKNVVCPI--CSSRVT--DNLIRHLNSQH 53 (54)
T ss_pred cCCCCCCC-ccCHHHHHHHHHhHCcCCCCCccCCC--chhhhh--hHHHHHHHHhc
Confidence 67888888 4556778888664 6553 5689965 998655 38889988754
No 31
>PF13894 zf-C2H2_4: C2H2-type zinc finger; PDB: 2ELX_A 2EPP_A 2DLK_A 1X6H_A 2EOU_A 2EMB_A 2GQJ_A 2CSH_A 2WBT_B 2ELM_A ....
Probab=94.50 E-value=0.027 Score=39.22 Aligned_cols=24 Identities=38% Similarity=0.837 Sum_probs=15.7
Q ss_pred ccCCCCCCCCcccChhHHHHHHHHhC
Q 001193 1095 YKCKFEGCGLSFRFVSDISRHRRKTG 1120 (1127)
Q Consensus 1095 YkC~v~GCGKsFss~S~L~kH~RkH~ 1120 (1127)
|.|+. |++.|.+...|..|+++|+
T Consensus 1 ~~C~~--C~~~~~~~~~l~~H~~~~H 24 (24)
T PF13894_consen 1 FQCPI--CGKSFRSKSELRQHMRTHH 24 (24)
T ss_dssp EE-SS--TS-EESSHHHHHHHHHHHS
T ss_pred CCCcC--CCCcCCcHHHHHHHHHhhC
Confidence 56777 7777777777777777653
No 32
>PF13912 zf-C2H2_6: C2H2-type zinc finger; PDB: 1JN7_A 1FU9_A 2L1O_A 1NJQ_A 2EN8_A 2EMM_A 1FV5_A 1Y0J_B 2L6Z_B.
Probab=93.98 E-value=0.028 Score=41.20 Aligned_cols=25 Identities=32% Similarity=0.818 Sum_probs=18.8
Q ss_pred cccCCCCCCCCcccChhHHHHHHHHhC
Q 001193 1094 PYKCKFEGCGLSFRFVSDISRHRRKTG 1120 (1127)
Q Consensus 1094 PYkC~v~GCGKsFss~S~L~kH~RkH~ 1120 (1127)
||.|.. |++.|.....|..|++.|.
T Consensus 1 ~~~C~~--C~~~F~~~~~l~~H~~~h~ 25 (27)
T PF13912_consen 1 PFECDE--CGKTFSSLSALREHKRSHC 25 (27)
T ss_dssp SEEETT--TTEEESSHHHHHHHHCTTT
T ss_pred CCCCCc--cCCccCChhHHHHHhHHhc
Confidence 577777 8888888788888877664
No 33
>COG5048 FOG: Zn-finger [General function prediction only]
Probab=93.93 E-value=0.036 Score=62.25 Aligned_cols=143 Identities=16% Similarity=0.161 Sum_probs=79.4
Q ss_pred CcCCccCccCCChhhHHHHHhhccccCcccCCCCCCCccccccccCCC--CceecCCCCCCCcccChHHHHhhhhcc---
Q 001193 962 GLRSRAGKDAANTSEVDIRKIAEKRATKTMRNRESVPAPCQDKKKILK--GHHRCDLDGCRMSFETKRELSLHKRNR--- 1036 (1127)
Q Consensus 962 ~~C~~CgK~Fssks~L~~H~r~eKp~gKtF~srssL~~~H~~k~H~~e--KpykC~~~~CGKsF~sks~Lk~H~r~H--- 1036 (1127)
..|..|...|.....|..|.+. ..|..+ +++.|.+..|++.|.....+..|...|
T Consensus 290 ~~~~~~~~~~s~~~~l~~~~~~--------------------~~h~~~~~~~~~~p~~~~~~~~~~~~~~~~~~~~~~~~ 349 (467)
T COG5048 290 IKSKQCNISFSRSSPLTRHLRS--------------------VNHSGESLKPFSCPYSLCGKLFSRNDALKRHILLHTSI 349 (467)
T ss_pred CCCccccCCccccccccccccc--------------------cccccccCCceeeeccCCCccccccccccCCcccccCC
Confidence 4455666666655555444321 145566 778887556888888888888887764
Q ss_pred ----ccCCCCCCcccChhHHHhh-----hhhcCCCCcccCCCCCCCCcccChhHHHHHHHhcCCCCcccCCCCCCCCccc
Q 001193 1037 ----CPHEGCGKRFSSHKYAIIH-----QRVHDDERPLKCPWKGCSMSFKWAWARTEHIRVHTGERPYKCKFEGCGLSFR 1107 (1127)
Q Consensus 1037 ----c~Ce~CGKsFssks~Lk~H-----qrtHtGEKPykCp~e~CGKsFsskssLk~H~RiHTGEKPYkC~v~GCGKsFs 1107 (1127)
+.-..|.+.+.....-..+ .......+.+.|.+..|-..+.....+..|...|...+++.|...+|.+.|.
T Consensus 350 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 429 (467)
T COG5048 350 SPAKEKLLNSSSKFSPLLNNEPPQSLQQYKDLKNDKKSETLSNSCIRNFKRDSNLSLHIITHLSFRPYNCKNPPCSKSFN 429 (467)
T ss_pred CccccccccCccccccccCCCCccchhhccCccCCccccccccchhhhhccccccccccccccccCCcCCCCCcchhhcc
Confidence 1113344333333221111 1111223445554445666666666666666666666655555555777777
Q ss_pred ChhHHHHHHHHhCCCCC
Q 001193 1108 FVSDISRHRRKTGHYEN 1124 (1127)
Q Consensus 1108 s~S~L~kH~RkH~h~k~ 1124 (1127)
....+..|++.|.....
T Consensus 430 ~~~~~~~~~~~~~~~~~ 446 (467)
T COG5048 430 RHYNLIPHKKIHTNHAP 446 (467)
T ss_pred CcccccccccccccCCc
Confidence 77666666666544443
No 34
>KOG2231 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=93.84 E-value=0.069 Score=66.19 Aligned_cols=46 Identities=22% Similarity=0.200 Sum_probs=26.1
Q ss_pred ecCCCCCCCcccChHHHHhhhhc-cccCCCCC------CcccChhHHHhhhhhcC
Q 001193 1013 RCDLDGCRMSFETKRELSLHKRN-RCPHEGCG------KRFSSHKYAIIHQRVHD 1060 (1127)
Q Consensus 1013 kC~~~~CGKsF~sks~Lk~H~r~-Hc~Ce~CG------KsFssks~Lk~HqrtHt 1060 (1127)
.|. .|...|.....|.+|++. |+.|..|. .-|.....|..|.+.++
T Consensus 184 ~C~--~C~~~fld~~el~rH~~~~h~~chfC~~~~~~neyy~~~~dLe~HfR~~H 236 (669)
T KOG2231|consen 184 LCK--FCHERFLDDDELYRHLRFDHEFCHFCDYKTGQNEYYNDYDDLEEHFRKGH 236 (669)
T ss_pred cch--hhhhhhccHHHHHHhhccceeheeecCcccccchhcccchHHHHHhhhcC
Confidence 355 666666666666666664 34454442 33555555666655443
No 35
>PF00096 zf-C2H2: Zinc finger, C2H2 type; InterPro: IPR007087 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. The C2H2 zinc finger is the classical zinc finger domain. The two conserved cysteines and histidines co-ordinate a zinc ion. The following pattern describes the zinc finger: #-X-C-X(1-5)-C-X3-#-X5-#-X2-H-X(3-6)-[H/C], where X can be any amino acid, and numbers in brackets indicate the number of residues. The positions marked # are those that are important for the stable fold of the zinc finger. The final position can be either his or cys. The C2H2 zinc finger is composed of two short beta strands followed by an alpha helix. The amino terminal part of the helix binds the major groove in DNA binding zinc fingers. The accepted consensus binding sequence for Sp1 is usually defined by the asymmetric hexanucleotide core GGGCGG but this sequence does not include, among others, the GAG (=CTC) repeat that constitutes a high-affinity site for Sp1 binding to the wt1 promoter []. This entry represents the classical C2H2 zinc finger domain. More information about these proteins can be found at Protein of the Month: Zinc Fingers [].; GO: 0008270 zinc ion binding, 0005622 intracellular; PDB: 2D9H_A 2EPC_A 1SP1_A 1VA3_A 2WBT_B 2ELR_A 2YTP_A 2YTT_A 1VA1_A 2ELO_A ....
Probab=93.72 E-value=0.034 Score=39.27 Aligned_cols=23 Identities=35% Similarity=0.545 Sum_probs=13.4
Q ss_pred ccCCCCCCCCcccChhHHHHHHHhc
Q 001193 1065 LKCPWKGCSMSFKWAWARTEHIRVH 1089 (1127)
Q Consensus 1065 ykCp~e~CGKsFsskssLk~H~RiH 1089 (1127)
|.| ..|++.|.++..|..|++.|
T Consensus 1 y~C--~~C~~~f~~~~~l~~H~~~H 23 (23)
T PF00096_consen 1 YKC--PICGKSFSSKSNLKRHMRRH 23 (23)
T ss_dssp EEE--TTTTEEESSHHHHHHHHHHH
T ss_pred CCC--CCCCCccCCHHHHHHHHhHC
Confidence 456 33666666666666666553
No 36
>PF12756 zf-C2H2_2: C2H2 type zinc-finger (2 copies); PDB: 2DMI_A.
Probab=93.61 E-value=0.043 Score=50.62 Aligned_cols=72 Identities=22% Similarity=0.402 Sum_probs=20.9
Q ss_pred ecCCCCCCCcccChHHHHhhhhccccCC-CCCCcccChhHHHhhhhhcCCCCcccCCCCCCCCcccChhHHHHHHHhc
Q 001193 1013 RCDLDGCRMSFETKRELSLHKRNRCPHE-GCGKRFSSHKYAIIHQRVHDDERPLKCPWKGCSMSFKWAWARTEHIRVH 1089 (1127)
Q Consensus 1013 kC~~~~CGKsF~sks~Lk~H~r~Hc~Ce-~CGKsFssks~Lk~HqrtHtGEKPykCp~e~CGKsFsskssLk~H~RiH 1089 (1127)
+|. .|+..|.+...|..|+...+.-. .....+.....+..+.+.-. ...+.|.+ |++.|.+...|..|++.+
T Consensus 1 ~C~--~C~~~f~~~~~l~~H~~~~H~~~~~~~~~l~~~~~~~~~~~~~~-~~~~~C~~--C~~~f~s~~~l~~Hm~~~ 73 (100)
T PF12756_consen 1 QCL--FCDESFSSVDDLLQHMKKKHGFDIPDQKYLVDPNRLLNYLRKKV-KESFRCPY--CNKTFRSREALQEHMRSK 73 (100)
T ss_dssp ---------------------------------------------------SSEEBSS--SS-EESSHHHHHHHHHHT
T ss_pred Ccc--cccccccccccccccccccccccccccccccccccccccccccc-CCCCCCCc--cCCCCcCHHHHHHHHcCc
Confidence 477 89999999999999997543211 12222334444444443322 23699955 999999999999999964
No 37
>PF13894 zf-C2H2_4: C2H2-type zinc finger; PDB: 2ELX_A 2EPP_A 2DLK_A 1X6H_A 2EOU_A 2EMB_A 2GQJ_A 2CSH_A 2WBT_B 2ELM_A ....
Probab=92.74 E-value=0.059 Score=37.51 Aligned_cols=17 Identities=29% Similarity=0.547 Sum_probs=7.6
Q ss_pred CCCcccChhHHHHHHHh
Q 001193 1072 CSMSFKWAWARTEHIRV 1088 (1127)
Q Consensus 1072 CGKsFsskssLk~H~Ri 1088 (1127)
|++.|.+...|..|++.
T Consensus 6 C~~~~~~~~~l~~H~~~ 22 (24)
T PF13894_consen 6 CGKSFRSKSELRQHMRT 22 (24)
T ss_dssp TS-EESSHHHHHHHHHH
T ss_pred CCCcCCcHHHHHHHHHh
Confidence 44444444444444443
No 38
>COG5048 FOG: Zn-finger [General function prediction only]
Probab=91.82 E-value=0.07 Score=59.92 Aligned_cols=66 Identities=27% Similarity=0.335 Sum_probs=33.0
Q ss_pred ceecCCCCCCCcccChHHHHhhhh--c-------cccCC--CCCCcccChhHHHhhhhhcCCCCcccCCCCCCCCcccC
Q 001193 1011 HHRCDLDGCRMSFETKRELSLHKR--N-------RCPHE--GCGKRFSSHKYAIIHQRVHDDERPLKCPWKGCSMSFKW 1078 (1127)
Q Consensus 1011 pykC~~~~CGKsF~sks~Lk~H~r--~-------Hc~Ce--~CGKsFssks~Lk~HqrtHtGEKPykCp~e~CGKsFss 1078 (1127)
++.|. .|...|.....|..|.+ . .+.|+ .|++.|.....+..|...|++.+++.|.+..|.+.+..
T Consensus 289 ~~~~~--~~~~~~s~~~~l~~~~~~~~h~~~~~~~~~~p~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 365 (467)
T COG5048 289 PIKSK--QCNISFSRSSPLTRHLRSVNHSGESLKPFSCPYSLCGKLFSRNDALKRHILLHTSISPAKEKLLNSSSKFSP 365 (467)
T ss_pred CCCCc--cccCCccccccccccccccccccccCCceeeeccCCCccccccccccCCcccccCCCccccccccCcccccc
Confidence 34555 55555555555555555 1 23344 45555555555555555555555555544444444333
No 39
>smart00355 ZnF_C2H2 zinc finger.
Probab=90.95 E-value=0.21 Score=34.88 Aligned_cols=23 Identities=35% Similarity=0.749 Sum_probs=13.5
Q ss_pred ccCCCCCCCCcccChhHHHHHHHHh
Q 001193 1095 YKCKFEGCGLSFRFVSDISRHRRKT 1119 (1127)
Q Consensus 1095 YkC~v~GCGKsFss~S~L~kH~RkH 1119 (1127)
|.|.. |++.|.....|..|++.|
T Consensus 1 ~~C~~--C~~~f~~~~~l~~H~~~H 23 (26)
T smart00355 1 YRCPE--CGKVFKSKSALKEHMRTH 23 (26)
T ss_pred CCCCC--CcchhCCHHHHHHHHHHh
Confidence 34555 666666666666666544
No 40
>PF13912 zf-C2H2_6: C2H2-type zinc finger; PDB: 1JN7_A 1FU9_A 2L1O_A 1NJQ_A 2EN8_A 2EMM_A 1FV5_A 1Y0J_B 2L6Z_B.
Probab=90.71 E-value=0.17 Score=37.03 Aligned_cols=24 Identities=33% Similarity=0.667 Sum_probs=15.9
Q ss_pred ceecCCCCCCCcccChHHHHhhhhcc
Q 001193 1011 HHRCDLDGCRMSFETKRELSLHKRNR 1036 (1127)
Q Consensus 1011 pykC~~~~CGKsF~sks~Lk~H~r~H 1036 (1127)
+|.|. .|++.|.+...|..|++.|
T Consensus 1 ~~~C~--~C~~~F~~~~~l~~H~~~h 24 (27)
T PF13912_consen 1 PFECD--ECGKTFSSLSALREHKRSH 24 (27)
T ss_dssp SEEET--TTTEEESSHHHHHHHHCTT
T ss_pred CCCCC--ccCCccCChhHHHHHhHHh
Confidence 46666 6777777666666666654
No 41
>PRK04860 hypothetical protein; Provisional
Probab=89.32 E-value=0.23 Score=52.08 Aligned_cols=39 Identities=36% Similarity=0.761 Sum_probs=32.8
Q ss_pred CcccCCCCCCCCcccChhHHHHHHHhcCCCCcccCCCCCCCCcccCh
Q 001193 1063 RPLKCPWKGCSMSFKWAWARTEHIRVHTGERPYKCKFEGCGLSFRFV 1109 (1127)
Q Consensus 1063 KPykCp~e~CGKsFsskssLk~H~RiHTGEKPYkC~v~GCGKsFss~ 1109 (1127)
-+|.| . |++ ....+.+|.++|+|+++|.|.. |++.|...
T Consensus 118 ~~Y~C--~-C~~---~~~~~rrH~ri~~g~~~YrC~~--C~~~l~~~ 156 (160)
T PRK04860 118 FPYRC--K-CQE---HQLTVRRHNRVVRGEAVYRCRR--CGETLVFK 156 (160)
T ss_pred EEEEc--C-CCC---eeCHHHHHHHHhcCCccEECCC--CCceeEEe
Confidence 36899 5 887 6677899999999999999998 99988754
No 42
>PF09237 GAGA: GAGA factor; InterPro: IPR015318 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. Members of this entry bind to a 5'-GAGAG-3' DNA consensus binding site, and contain a Cys2-His2 zinc finger core as well as an N-terminal extension containing two highly basic regions. The zinc finger core binds in the DNA major groove and recognises the first three GAG bases of the consensus in a manner similar to that seen in other classical zinc finger-DNA complexes. The second basic region forms a helix that interacts in the major groove recognising the last G of the consensus, while the first basic region wraps around the DNA in the minor groove and recognises the A in the fourth position of the consensus sequence []. More information about these proteins can be found at Protein of the Month: Zinc Fingers [].; PDB: 1YUI_A 1YUJ_A.
Probab=87.82 E-value=0.4 Score=41.61 Aligned_cols=28 Identities=29% Similarity=0.598 Sum_probs=12.6
Q ss_pred CCcccCCCCCCCCcccChhHHHHHHHHhCC
Q 001193 1092 ERPYKCKFEGCGLSFRFVSDISRHRRKTGH 1121 (1127)
Q Consensus 1092 EKPYkC~v~GCGKsFss~S~L~kH~RkH~h 1121 (1127)
+.|-.|++ |+..+.+..+|++|+..+|.
T Consensus 22 ~~PatCP~--C~a~~~~srnLrRHle~~H~ 49 (54)
T PF09237_consen 22 EQPATCPI--CGAVIRQSRNLRRHLEIRHF 49 (54)
T ss_dssp S--EE-TT--T--EESSHHHHHHHHHHHTT
T ss_pred CCCCCCCc--chhhccchhhHHHHHHHHhc
Confidence 44555555 55555555555555554433
No 43
>smart00355 ZnF_C2H2 zinc finger.
Probab=87.38 E-value=0.52 Score=32.90 Aligned_cols=24 Identities=38% Similarity=0.625 Sum_probs=15.4
Q ss_pred ccCCCCCCCCcccChhHHHHHHHhcC
Q 001193 1065 LKCPWKGCSMSFKWAWARTEHIRVHT 1090 (1127)
Q Consensus 1065 ykCp~e~CGKsFsskssLk~H~RiHT 1090 (1127)
|.| ..|++.|.....|..|++.|.
T Consensus 1 ~~C--~~C~~~f~~~~~l~~H~~~H~ 24 (26)
T smart00355 1 YRC--PECGKVFKSKSALKEHMRTHX 24 (26)
T ss_pred CCC--CCCcchhCCHHHHHHHHHHhc
Confidence 456 347777777777777766554
No 44
>PF09237 GAGA: GAGA factor; InterPro: IPR015318 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. Members of this entry bind to a 5'-GAGAG-3' DNA consensus binding site, and contain a Cys2-His2 zinc finger core as well as an N-terminal extension containing two highly basic regions. The zinc finger core binds in the DNA major groove and recognises the first three GAG bases of the consensus in a manner similar to that seen in other classical zinc finger-DNA complexes. The second basic region forms a helix that interacts in the major groove recognising the last G of the consensus, while the first basic region wraps around the DNA in the minor groove and recognises the A in the fourth position of the consensus sequence []. More information about these proteins can be found at Protein of the Month: Zinc Fingers [].; PDB: 1YUI_A 1YUJ_A.
Probab=86.86 E-value=0.4 Score=41.58 Aligned_cols=40 Identities=18% Similarity=0.481 Sum_probs=25.0
Q ss_pred Hhhhhhc-CCCCcccCCCCCCCCcccChhHHHHHHHhcCCCCc
Q 001193 1053 IIHQRVH-DDERPLKCPWKGCSMSFKWAWARTEHIRVHTGERP 1094 (1127)
Q Consensus 1053 k~HqrtH-tGEKPykCp~e~CGKsFsskssLk~H~RiHTGEKP 1094 (1127)
..|.+.| ..+.|..||. |+..+.+..+|++|+.++++.||
T Consensus 12 ~~~~k~~~~S~~PatCP~--C~a~~~~srnLrRHle~~H~~k~ 52 (54)
T PF09237_consen 12 TKKPKSKSQSEQPATCPI--CGAVIRQSRNLRRHLEIRHFKKP 52 (54)
T ss_dssp ----CCCCTTS--EE-TT--T--EESSHHHHHHHHHHHTTTS-
T ss_pred hhHHHHhhccCCCCCCCc--chhhccchhhHHHHHHHHhcccC
Confidence 4444443 5678999955 99999999999999998888776
No 45
>KOG2231 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=86.80 E-value=0.79 Score=57.25 Aligned_cols=21 Identities=24% Similarity=0.313 Sum_probs=11.1
Q ss_pred CCCCCCcccChhHHHhhhhhc
Q 001193 1039 HEGCGKRFSSHKYAIIHQRVH 1059 (1127)
Q Consensus 1039 Ce~CGKsFssks~Lk~HqrtH 1059 (1127)
|..|...|.....|.+|++.+
T Consensus 185 C~~C~~~fld~~el~rH~~~~ 205 (669)
T KOG2231|consen 185 CKFCHERFLDDDELYRHLRFD 205 (669)
T ss_pred chhhhhhhccHHHHHHhhccc
Confidence 445555555555555555543
No 46
>PRK04860 hypothetical protein; Provisional
Probab=84.30 E-value=0.55 Score=49.32 Aligned_cols=38 Identities=18% Similarity=0.406 Sum_probs=32.1
Q ss_pred cccCCCCCCcccChhHHHhhhhhcCCCCcccCCCCCCCCcccCh
Q 001193 1036 RCPHEGCGKRFSSHKYAIIHQRVHDDERPLKCPWKGCSMSFKWA 1079 (1127)
Q Consensus 1036 Hc~Ce~CGKsFssks~Lk~HqrtHtGEKPykCp~e~CGKsFssk 1079 (1127)
.|.|. |++ ....+.+|.++|+++++|.| ..|+..|...
T Consensus 119 ~Y~C~-C~~---~~~~~rrH~ri~~g~~~YrC--~~C~~~l~~~ 156 (160)
T PRK04860 119 PYRCK-CQE---HQLTVRRHNRVVRGEAVYRC--RRCGETLVFK 156 (160)
T ss_pred EEEcC-CCC---eeCHHHHHHHHhcCCccEEC--CCCCceeEEe
Confidence 47786 887 66788999999999999999 6699988754
No 47
>KOG4377 consensus Zn-finger protein [General function prediction only]
Probab=81.90 E-value=0.75 Score=54.07 Aligned_cols=27 Identities=30% Similarity=0.651 Sum_probs=23.5
Q ss_pred ccCCCCCCCCcccChhHHHHHHHHhCC
Q 001193 1095 YKCKFEGCGLSFRFVSDISRHRRKTGH 1121 (1127)
Q Consensus 1095 YkC~v~GCGKsFss~S~L~kH~RkH~h 1121 (1127)
|.|..+||+..|...+.+..|.|+|..
T Consensus 402 fhc~r~Gc~~tl~s~sqm~shkrkheR 428 (480)
T KOG4377|consen 402 FHCDRLGCEATLYSVSQMASHKRKHER 428 (480)
T ss_pred eeecccCCceEEEehhhhhhhhhhhhh
Confidence 568878999999999999999998853
No 48
>PF12874 zf-met: Zinc-finger of C2H2 type; PDB: 1ZU1_A 2KVG_A.
Probab=81.30 E-value=0.49 Score=34.05 Aligned_cols=22 Identities=27% Similarity=0.670 Sum_probs=14.2
Q ss_pred ccCCCCCCCCcccChhHHHHHHHH
Q 001193 1095 YKCKFEGCGLSFRFVSDISRHRRK 1118 (1127)
Q Consensus 1095 YkC~v~GCGKsFss~S~L~kH~Rk 1118 (1127)
|.|.. |++.|.....|..|++.
T Consensus 1 ~~C~~--C~~~f~s~~~~~~H~~s 22 (25)
T PF12874_consen 1 FYCDI--CNKSFSSENSLRQHLRS 22 (25)
T ss_dssp EEETT--TTEEESSHHHHHHHHTT
T ss_pred CCCCC--CCCCcCCHHHHHHHHCc
Confidence 45666 66666666666666654
No 49
>PF13909 zf-H2C2_5: C2H2-type zinc-finger domain; PDB: 1X5W_A.
Probab=77.38 E-value=1.5 Score=31.51 Aligned_cols=22 Identities=36% Similarity=0.798 Sum_probs=11.9
Q ss_pred ccCCCCCCCCcccChhHHHHHHHHh
Q 001193 1095 YKCKFEGCGLSFRFVSDISRHRRKT 1119 (1127)
Q Consensus 1095 YkC~v~GCGKsFss~S~L~kH~RkH 1119 (1127)
|+|+. |+.... ...|.+|++.|
T Consensus 1 y~C~~--C~y~t~-~~~l~~H~~~~ 22 (24)
T PF13909_consen 1 YKCPH--CSYSTS-KSNLKRHLKRH 22 (24)
T ss_dssp EE-SS--SS-EES-HHHHHHHHHHH
T ss_pred CCCCC--CCCcCC-HHHHHHHHHhh
Confidence 45666 666555 56666666654
No 50
>PF12874 zf-met: Zinc-finger of C2H2 type; PDB: 1ZU1_A 2KVG_A.
Probab=77.10 E-value=1.1 Score=32.18 Aligned_cols=15 Identities=27% Similarity=0.503 Sum_probs=6.1
Q ss_pred CCCcccChhHHHHHH
Q 001193 1072 CSMSFKWAWARTEHI 1086 (1127)
Q Consensus 1072 CGKsFsskssLk~H~ 1086 (1127)
|++.|.+...|..|+
T Consensus 6 C~~~f~s~~~~~~H~ 20 (25)
T PF12874_consen 6 CNKSFSSENSLRQHL 20 (25)
T ss_dssp TTEEESSHHHHHHHH
T ss_pred CCCCcCCHHHHHHHH
Confidence 444444444444443
No 51
>COG5236 Uncharacterized conserved protein, contains RING Zn-finger [General function prediction only]
Probab=75.80 E-value=2.9 Score=48.39 Aligned_cols=71 Identities=24% Similarity=0.330 Sum_probs=52.5
Q ss_pred eecCCCCCCCcccChHHHHhhhhc-cccCCCCCCc-------ccChhHHHhhhhhcCCCCcccCCCCCCC----CcccCh
Q 001193 1012 HRCDLDGCRMSFETKRELSLHKRN-RCPHEGCGKR-------FSSHKYAIIHQRVHDDERPLKCPWKGCS----MSFKWA 1079 (1127)
Q Consensus 1012 ykC~~~~CGKsF~sks~Lk~H~r~-Hc~Ce~CGKs-------Fssks~Lk~HqrtHtGEKPykCp~e~CG----KsFssk 1079 (1127)
-.|. .|...|..-..|.+|++. |-.|.+|.+. |+....|..|.+. --|.|++..|. ..|...
T Consensus 221 P~C~--FC~~~FYdDDEL~~HcR~~HE~ChICD~v~p~~~QYFK~Y~~Le~HF~~----~hy~ct~qtc~~~k~~vf~~~ 294 (493)
T COG5236 221 PLCI--FCKIYFYDDDELRRHCRLRHEACHICDMVGPIRYQYFKSYEDLEAHFRN----AHYCCTFQTCRVGKCYVFPYH 294 (493)
T ss_pred chhh--hccceecChHHHHHHHHhhhhhhhhhhccCccchhhhhCHHHHHHHhhc----CceEEEEEEEecCcEEEeccH
Confidence 3588 899999999999999996 4457777654 6677777777653 23677766665 468888
Q ss_pred hHHHHHHHh
Q 001193 1080 WARTEHIRV 1088 (1127)
Q Consensus 1080 ssLk~H~Ri 1088 (1127)
..|..|+..
T Consensus 295 ~el~~h~~~ 303 (493)
T COG5236 295 TELLEHLTR 303 (493)
T ss_pred HHHHHHHHH
Confidence 888899654
No 52
>KOG4173 consensus Alpha-SNAP protein [Intracellular trafficking, secretion, and vesicular transport]
Probab=75.44 E-value=0.91 Score=49.26 Aligned_cols=87 Identities=21% Similarity=0.412 Sum_probs=66.1
Q ss_pred CCceecCCCCCCCcccChHHHHhhhhcc--ccCCCCCCcccChhHHHhhhhh-c---------CCCCcccCCCCCCCCcc
Q 001193 1009 KGHHRCDLDGCRMSFETKRELSLHKRNR--CPHEGCGKRFSSHKYAIIHQRV-H---------DDERPLKCPWKGCSMSF 1076 (1127)
Q Consensus 1009 eKpykC~~~~CGKsF~sks~Lk~H~r~H--c~Ce~CGKsFssks~Lk~Hqrt-H---------tGEKPykCp~e~CGKsF 1076 (1127)
...|.|....|.+.|...-+...|.... -.|..|.+.|.+..-|..|+.- | .|.--|.|.+++|+-.|
T Consensus 77 ~~~~~cqvagc~~~~d~lD~~E~hY~~~h~~sCs~C~r~~Pt~hLLd~HI~E~HDs~Fqa~veRG~dMy~ClvEgCt~KF 156 (253)
T KOG4173|consen 77 VPAFACQVAGCCQVFDALDDYEHHYHTLHGNSCSFCKRAFPTGHLLDAHILEWHDSLFQALVERGQDMYQCLVEGCTEKF 156 (253)
T ss_pred cccccccccchHHHHhhhhhHHHhhhhcccchhHHHHHhCCchhhhhHHHHHHHHHHHHHHHHcCccHHHHHHHhhhhhh
Confidence 3458898888999998888777776442 4789999999999999999763 3 24445889888999999
Q ss_pred cChhHHHHHH-HhcCCCCcc
Q 001193 1077 KWAWARTEHI-RVHTGERPY 1095 (1127)
Q Consensus 1077 sskssLk~H~-RiHTGEKPY 1095 (1127)
++....+.|+ +.|.-...|
T Consensus 157 kT~r~RkdH~I~~Hk~Pa~f 176 (253)
T KOG4173|consen 157 KTSRDRKDHMIRMHKYPADF 176 (253)
T ss_pred hhhhhhhhHHHHhccCCcce
Confidence 9999889995 457533333
No 53
>PF12171 zf-C2H2_jaz: Zinc-finger double-stranded RNA-binding; InterPro: IPR022755 This zinc finger is found in archaea and eukaryotes, and is approximately 30 amino acids in length. The mammalian members of this group occur multiple times along the protein, joined by flexible linkers, and are referred to as JAZ - dsRNA-binding ZF protein - zinc-fingers. The JAZ proteins are expressed in all tissues tested and localise in the nucleus, particularly the nucleolus []. JAZ preferentially binds to double-stranded (ds) RNA or RNA/DNA hybrids rather than DNA. In addition to binding double-stranded RNA, these zinc-fingers are required for nucleolar localisation. This entry represents the multiple-adjacent-C2H2 zinc finger, JAZ. ; PDB: 4DGW_A 1ZR9_A.
Probab=73.66 E-value=2 Score=31.83 Aligned_cols=20 Identities=30% Similarity=0.421 Sum_probs=9.1
Q ss_pred cCCCCCCcccChhHHHhhhh
Q 001193 1038 PHEGCGKRFSSHKYAIIHQR 1057 (1127)
Q Consensus 1038 ~Ce~CGKsFssks~Lk~Hqr 1057 (1127)
.|..|++.|.+...|..|++
T Consensus 3 ~C~~C~k~f~~~~~~~~H~~ 22 (27)
T PF12171_consen 3 YCDACDKYFSSENQLKQHMK 22 (27)
T ss_dssp BBTTTTBBBSSHHHHHCCTT
T ss_pred CcccCCCCcCCHHHHHHHHc
Confidence 34444444444444444443
No 54
>KOG1146 consensus Homeobox protein [General function prediction only]
Probab=73.33 E-value=1.8 Score=57.26 Aligned_cols=26 Identities=27% Similarity=0.576 Sum_probs=23.1
Q ss_pred CCCcccCCCCCCCCcccChhHHHHHHHH
Q 001193 1091 GERPYKCKFEGCGLSFRFVSDISRHRRK 1118 (1127)
Q Consensus 1091 GEKPYkC~v~GCGKsFss~S~L~kH~Rk 1118 (1127)
+-+||.|.. |...|..+.+|..|+..
T Consensus 515 ~~~p~~C~~--C~~stttng~LsihlqS 540 (1406)
T KOG1146|consen 515 PGKPYPCRA--CNYSTTTNGNLSIHLQS 540 (1406)
T ss_pred CCCccccee--eeeeeecchHHHHHHHH
Confidence 347899999 99999999999999874
No 55
>KOG2893 consensus Zn finger protein [General function prediction only]
Probab=72.88 E-value=1.4 Score=48.60 Aligned_cols=48 Identities=25% Similarity=0.342 Sum_probs=38.1
Q ss_pred CCceecCCCCCCCcccChHHHHhhhhc-cccCCCCCCcccChhHHHhhhh-hc
Q 001193 1009 KGHHRCDLDGCRMSFETKRELSLHKRN-RCPHEGCGKRFSSHKYAIIHQR-VH 1059 (1127)
Q Consensus 1009 eKpykC~~~~CGKsF~sks~Lk~H~r~-Hc~Ce~CGKsFssks~Lk~Hqr-tH 1059 (1127)
.|++ |= .|++.|....-|..|++. ||+|.+|.|.+.+--.|..|.. +|
T Consensus 9 ~kpw-cw--ycnrefddekiliqhqkakhfkchichkkl~sgpglsihcmqvh 58 (341)
T KOG2893|consen 9 DKPW-CW--YCNREFDDEKILIQHQKAKHFKCHICHKKLFSGPGLSIHCMQVH 58 (341)
T ss_pred CCce-ee--ecccccchhhhhhhhhhhccceeeeehhhhccCCCceeehhhhh
Confidence 4555 65 799999999999999885 8999999988877777777743 45
No 56
>KOG4173 consensus Alpha-SNAP protein [Intracellular trafficking, secretion, and vesicular transport]
Probab=71.69 E-value=1.4 Score=47.79 Aligned_cols=77 Identities=26% Similarity=0.478 Sum_probs=60.8
Q ss_pred ccCCCCCCcccChhHHHhhhhhcCCCCcccCCCCCCCCcccChhHHHHHHHh-c---------CCCCcccCCCCCCCCcc
Q 001193 1037 CPHEGCGKRFSSHKYAIIHQRVHDDERPLKCPWKGCSMSFKWAWARTEHIRV-H---------TGERPYKCKFEGCGLSF 1106 (1127)
Q Consensus 1037 c~Ce~CGKsFssks~Lk~HqrtHtGEKPykCp~e~CGKsFsskssLk~H~Ri-H---------TGEKPYkC~v~GCGKsF 1106 (1127)
|+--.|...|.....+..|..+-++. .| ..|.+.|.+...|..|+.- | .|.--|+|-+.||+..|
T Consensus 82 cqvagc~~~~d~lD~~E~hY~~~h~~---sC--s~C~r~~Pt~hLLd~HI~E~HDs~Fqa~veRG~dMy~ClvEgCt~KF 156 (253)
T KOG4173|consen 82 CQVAGCCQVFDALDDYEHHYHTLHGN---SC--SFCKRAFPTGHLLDAHILEWHDSLFQALVERGQDMYQCLVEGCTEKF 156 (253)
T ss_pred ccccchHHHHhhhhhHHHhhhhcccc---hh--HHHHHhCCchhhhhHHHHHHHHHHHHHHHHcCccHHHHHHHhhhhhh
Confidence 44456888999888888887653332 69 4599999999999999753 3 35556999999999999
Q ss_pred cChhHHHHHHHH
Q 001193 1107 RFVSDISRHRRK 1118 (1127)
Q Consensus 1107 ss~S~L~kH~Rk 1118 (1127)
.+...-..|+..
T Consensus 157 kT~r~RkdH~I~ 168 (253)
T KOG4173|consen 157 KTSRDRKDHMIR 168 (253)
T ss_pred hhhhhhhhHHHH
Confidence 999999999864
No 57
>KOG2785 consensus C2H2-type Zn-finger protein [General function prediction only]
Probab=70.23 E-value=5.4 Score=47.02 Aligned_cols=156 Identities=15% Similarity=0.222 Sum_probs=96.5
Q ss_pred CcCCccCccCCChhhHHHHHh-hcccc-------------CcccCCCCCCCcccccc-ccCCCCceecCCCCCCCcccCh
Q 001193 962 GLRSRAGKDAANTSEVDIRKI-AEKRA-------------TKTMRNRESVPAPCQDK-KKILKGHHRCDLDGCRMSFETK 1026 (1127)
Q Consensus 962 ~~C~~CgK~Fssks~L~~H~r-~eKp~-------------gKtF~srssL~~~H~~k-~H~~eKpykC~~~~CGKsF~sk 1026 (1127)
+.|..|...|.....-+.|.+ ..+.| ...|..+-.....-... ....+-++.|. .|.+.|...
T Consensus 4 ftC~tC~v~F~~ad~Qr~HyKSdWHRYNLKRkVA~lPPItaE~F~~k~~s~~~~~~~~~e~~~~~~~c~--~c~k~~~s~ 81 (390)
T KOG2785|consen 4 FTCNTCNVEFDDADEQRAHYKSDWHRYNLKRKVASLPPITAEEFNEKVLSDDSEKEENLEEAESVVYCE--ACNKSFASP 81 (390)
T ss_pred ceeeceeeeeccHHHHHHHhhhhHHHhhHHhHhhcCCCcCHHHHhHHHhhhhhhhhhhhhhcccceehH--HhhccccCh
Confidence 678889999999988999988 33333 11222211110000001 13345678999 999999999
Q ss_pred HHHHhhhhc--c--------------------ccC-------------CCCCCcccChhHHHhhhhh--c----------
Q 001193 1027 RELSLHKRN--R--------------------CPH-------------EGCGKRFSSHKYAIIHQRV--H---------- 1059 (1127)
Q Consensus 1027 s~Lk~H~r~--H--------------------c~C-------------e~CGKsFssks~Lk~Hqrt--H---------- 1059 (1127)
.....|+.. | .++ ..+-..+........+... +
T Consensus 82 ~a~~~hl~Sk~h~~~~~~~~r~~e~d~a~~~q~~~~~p~~l~~~~e~e~~~~E~~~~~d~~~e~~~dd~~Edi~~d~~~e 161 (390)
T KOG2785|consen 82 KAHENHLKSKKHVENLSNHQRSEEGDSAKISQLPSRRPSNLQNKGESELKWYEVDSDEDSSEEEEEDDEEEDIEEDGDDE 161 (390)
T ss_pred hhHHHHHHHhhcchhhhhhhccccccchhhhhccccCccccccCCCcccchhhcccccccchhhccCcchhhhhhccchh
Confidence 888888763 1 111 1111111111111111110 0
Q ss_pred CCCCcccCCCCCCCCcccChhHHHHHHHhcCCC-----------------------CcccCCCCCCC---CcccChhHHH
Q 001193 1060 DDERPLKCPWKGCSMSFKWAWARTEHIRVHTGE-----------------------RPYKCKFEGCG---LSFRFVSDIS 1113 (1127)
Q Consensus 1060 tGEKPykCp~e~CGKsFsskssLk~H~RiHTGE-----------------------KPYkC~v~GCG---KsFss~S~L~ 1113 (1127)
...-|-.|.+ |++.|++-.....||..|+|- .-|.|-. |. +.|.+.-..+
T Consensus 162 ~e~~Pt~CLf--C~~~~k~~e~~~~HM~~~HgffIPdreYL~D~~GLl~YLgeKV~~~~~CL~--CN~~~~~f~sleavr 237 (390)
T KOG2785|consen 162 DELIPTDCLF--CDKKSKSLEENLKHMFKEHGFFIPDREYLTDEKGLLKYLGEKVGIGFICLF--CNELGRPFSSLEAVR 237 (390)
T ss_pred cccCCcceee--cCCCcccHHHHHHHHhhccCCcCCchHhhhchhHHHHHHHHHhccCceEEE--eccccCcccccHHHH
Confidence 0113467966 999999999999999987762 3477888 98 9999999999
Q ss_pred HHHHHhCCCC
Q 001193 1114 RHRRKTGHYE 1123 (1127)
Q Consensus 1114 kH~RkH~h~k 1123 (1127)
.||...+|.+
T Consensus 238 ~HM~~K~HCk 247 (390)
T KOG2785|consen 238 AHMRDKGHCK 247 (390)
T ss_pred HHHhhccCcc
Confidence 9999776765
No 58
>PF12171 zf-C2H2_jaz: Zinc-finger double-stranded RNA-binding; InterPro: IPR022755 This zinc finger is found in archaea and eukaryotes, and is approximately 30 amino acids in length. The mammalian members of this group occur multiple times along the protein, joined by flexible linkers, and are referred to as JAZ - dsRNA-binding ZF protein - zinc-fingers. The JAZ proteins are expressed in all tissues tested and localise in the nucleus, particularly the nucleolus []. JAZ preferentially binds to double-stranded (ds) RNA or RNA/DNA hybrids rather than DNA. In addition to binding double-stranded RNA, these zinc-fingers are required for nucleolar localisation. This entry represents the multiple-adjacent-C2H2 zinc finger, JAZ. ; PDB: 4DGW_A 1ZR9_A.
Probab=68.09 E-value=1.1 Score=33.26 Aligned_cols=22 Identities=18% Similarity=0.542 Sum_probs=12.9
Q ss_pred ccCCCCCCCCcccChhHHHHHHHH
Q 001193 1095 YKCKFEGCGLSFRFVSDISRHRRK 1118 (1127)
Q Consensus 1095 YkC~v~GCGKsFss~S~L~kH~Rk 1118 (1127)
|.|.. |++.|.....|..|++.
T Consensus 2 ~~C~~--C~k~f~~~~~~~~H~~s 23 (27)
T PF12171_consen 2 FYCDA--CDKYFSSENQLKQHMKS 23 (27)
T ss_dssp CBBTT--TTBBBSSHHHHHCCTTS
T ss_pred CCccc--CCCCcCCHHHHHHHHcc
Confidence 45655 66666666666666553
No 59
>KOG1146 consensus Homeobox protein [General function prediction only]
Probab=67.08 E-value=1 Score=59.34 Aligned_cols=94 Identities=15% Similarity=0.137 Sum_probs=53.8
Q ss_pred eecCCCCCCCcccChHHHHhhhh--ccccCCCCCCcccChhHHHhhhhhcCCCCcccCCCCCCCCcccChhHHHHHHHhc
Q 001193 1012 HRCDLDGCRMSFETKRELSLHKR--NRCPHEGCGKRFSSHKYAIIHQRVHDDERPLKCPWKGCSMSFKWAWARTEHIRVH 1089 (1127)
Q Consensus 1012 ykC~~~~CGKsF~sks~Lk~H~r--~Hc~Ce~CGKsFssks~Lk~HqrtHtGEKPykCp~e~CGKsFsskssLk~H~RiH 1089 (1127)
+.|. .|.+.|.....+. |.- .||.|..|...|.....|..|++ + |-+.|.....+.-|.-.|
T Consensus 1261 ~~c~--~~~~~~~~~~~~~-~l~~~~~~~~~~~~~~~~~~~~l~~~~~--------k-----~~~~~~~~~~~~~~~l~~ 1324 (1406)
T KOG1146|consen 1261 GECG--AVDELLTPSFGIS-TLDVTHRYLCRQCKMAFDGEAPLTAHQR--------K-----FCFAGRGSGGSMPPPLRV 1324 (1406)
T ss_pred chhh--hccccccCcccee-ecccchhHHHHHHHhhhcchhHHHHHHH--------H-----HHhccCccccCCCCcccC
Confidence 4555 5555555555555 433 23555555555555555555541 1 112233333333343344
Q ss_pred CCCCcccCCCCCCCCcccChhHHHHHHHHhCCCCC
Q 001193 1090 TGERPYKCKFEGCGLSFRFVSDISRHRRKTGHYEN 1124 (1127)
Q Consensus 1090 TGEKPYkC~v~GCGKsFss~S~L~kH~RkH~h~k~ 1124 (1127)
..-++| |.. |...|.....|..||+..+|..+
T Consensus 1325 ~d~~~~-c~~--c~~~~~~~~alqihm~~~~~~~k 1356 (1406)
T KOG1146|consen 1325 PDCTYH-CLA--CEVLLSGREALQIHMRSSAHRRK 1356 (1406)
T ss_pred cccccc-chH--HHhhcchhHHHHHHHHHhhhccc
Confidence 444667 999 99999999999999997555543
No 60
>PF13909 zf-H2C2_5: C2H2-type zinc-finger domain; PDB: 1X5W_A.
Probab=60.46 E-value=5.6 Score=28.49 Aligned_cols=23 Identities=35% Similarity=0.638 Sum_probs=13.4
Q ss_pred ccCCCCCCCCcccChhHHHHHHHhcC
Q 001193 1065 LKCPWKGCSMSFKWAWARTEHIRVHT 1090 (1127)
Q Consensus 1065 ykCp~e~CGKsFsskssLk~H~RiHT 1090 (1127)
|+|+ .|+.... ...|..|++.|+
T Consensus 1 y~C~--~C~y~t~-~~~l~~H~~~~H 23 (24)
T PF13909_consen 1 YKCP--HCSYSTS-KSNLKRHLKRHH 23 (24)
T ss_dssp EE-S--SSS-EES-HHHHHHHHHHHH
T ss_pred CCCC--CCCCcCC-HHHHHHHHHhhC
Confidence 5673 3776666 667777776643
No 61
>smart00451 ZnF_U1 U1-like zinc finger. Family of C2H2-type zinc fingers, present in matrin, U1 small nuclear ribonucleoprotein C and other RNA-binding proteins.
Probab=57.90 E-value=2.7 Score=32.35 Aligned_cols=23 Identities=22% Similarity=0.587 Sum_probs=15.4
Q ss_pred cccCCCCCCCCcccChhHHHHHHHH
Q 001193 1094 PYKCKFEGCGLSFRFVSDISRHRRK 1118 (1127)
Q Consensus 1094 PYkC~v~GCGKsFss~S~L~kH~Rk 1118 (1127)
+|.|.. |++.|.....+..|++.
T Consensus 3 ~~~C~~--C~~~~~~~~~~~~H~~g 25 (35)
T smart00451 3 GFYCKL--CNVTFTDEISVEAHLKG 25 (35)
T ss_pred CeEccc--cCCccCCHHHHHHHHCh
Confidence 466776 77777766677777654
No 62
>PF13913 zf-C2HC_2: zinc-finger of a C2HC-type
Probab=55.18 E-value=8.5 Score=28.61 Aligned_cols=6 Identities=33% Similarity=0.634 Sum_probs=2.4
Q ss_pred CCCCcc
Q 001193 1018 GCRMSF 1023 (1127)
Q Consensus 1018 ~CGKsF 1023 (1127)
.||+.|
T Consensus 7 ~CgR~F 12 (25)
T PF13913_consen 7 ICGRKF 12 (25)
T ss_pred CCCCEE
Confidence 344444
No 63
>COG5236 Uncharacterized conserved protein, contains RING Zn-finger [General function prediction only]
Probab=53.85 E-value=9.7 Score=44.37 Aligned_cols=24 Identities=21% Similarity=0.463 Sum_probs=15.4
Q ss_pred eecCCCCCCCcccChHHHHhhhhc
Q 001193 1012 HRCDLDGCRMSFETKRELSLHKRN 1035 (1127)
Q Consensus 1012 ykC~~~~CGKsF~sks~Lk~H~r~ 1035 (1127)
|.|+...|..+......|+.|.+.
T Consensus 152 F~CP~skc~~~C~~~k~lk~H~K~ 175 (493)
T COG5236 152 FKCPKSKCHRRCGSLKELKKHYKA 175 (493)
T ss_pred hcCCchhhhhhhhhHHHHHHHHHh
Confidence 666665666666666667777654
No 64
>PF13913 zf-C2HC_2: zinc-finger of a C2HC-type
Probab=44.57 E-value=18 Score=26.85 Aligned_cols=19 Identities=26% Similarity=0.779 Sum_probs=10.6
Q ss_pred cCCCCCCCCcccChhHHHHHHH
Q 001193 1096 KCKFEGCGLSFRFVSDISRHRR 1117 (1127)
Q Consensus 1096 kC~v~GCGKsFss~S~L~kH~R 1117 (1127)
.|+. ||+.| ....|.+|+.
T Consensus 4 ~C~~--CgR~F-~~~~l~~H~~ 22 (25)
T PF13913_consen 4 PCPI--CGRKF-NPDRLEKHEK 22 (25)
T ss_pred cCCC--CCCEE-CHHHHHHHHH
Confidence 4555 66666 4455555553
No 65
>KOG4377 consensus Zn-finger protein [General function prediction only]
Probab=43.33 E-value=14 Score=44.06 Aligned_cols=115 Identities=17% Similarity=0.208 Sum_probs=64.9
Q ss_pred cCCccCccCCChhhHHHHHhhccccCcccCCCCCCCccccccccCCCCceecCCCCCCCcccChHHHHhhhh--------
Q 001193 963 LRSRAGKDAANTSEVDIRKIAEKRATKTMRNRESVPAPCQDKKKILKGHHRCDLDGCRMSFETKRELSLHKR-------- 1034 (1127)
Q Consensus 963 ~C~~CgK~Fssks~L~~H~r~eKp~gKtF~srssL~~~H~~k~H~~eKpykC~~~~CGKsF~sks~Lk~H~r-------- 1034 (1127)
+.+.|+..+-.+....+|...++.... .| .+ -.|.-...|.|....|.+ +-++...|..
T Consensus 275 l~e~C~ykr~~k~DvirH~~~hkkrdn------sL--~d--gf~rfs~syhC~~~~C~k---sTsdV~~h~nFht~~~n~ 341 (480)
T KOG4377|consen 275 LNEYCFYKRGQKNDVIRHVEIHKKRDN------SL--ID--GFHRFSNSYHCTGQICEK---STSDVLLHDNFHTDKRNN 341 (480)
T ss_pred cCccccccccchhhhHHHHHHHhhccc------cc--cc--chhhcCccchhhhcccCc---ccccccccCccccccccC
Confidence 346688877778888888873332110 01 00 001111227788778877 3444555533
Q ss_pred ----ccccCCCCC--CcccChhHHHhhhhhcCCC------------------------CcccCCCCCCCCcccChhHHHH
Q 001193 1035 ----NRCPHEGCG--KRFSSHKYAIIHQRVHDDE------------------------RPLKCPWKGCSMSFKWAWARTE 1084 (1127)
Q Consensus 1035 ----~Hc~Ce~CG--KsFssks~Lk~HqrtHtGE------------------------KPykCp~e~CGKsFsskssLk~ 1084 (1127)
.||.|-.|| -.|+....-..|.+-+.++ .-|-|.+.+|+.+|..-+.+..
T Consensus 342 GfrrthfhC~r~gCTdtfK~~khk~yh~kdda~~~dGfkkf~k~e~cay~gCkys~~cnhfhc~r~Gc~~tl~s~sqm~s 421 (480)
T KOG4377|consen 342 GFRRTHFHCQRIGCTDTFKDSKHKPYHYKDDAGEIDGFKKFFKDENCAYTGCKYSGICNHFHCDRLGCEATLYSVSQMAS 421 (480)
T ss_pred ceecceeEEeccCCccccccccccccccCcchhhhhhhhhhhccccCCccCcccccceeeeeecccCCceEEEehhhhhh
Confidence 356776655 5555333333333333222 1134555789999999999999
Q ss_pred HHHhcC
Q 001193 1085 HIRVHT 1090 (1127)
Q Consensus 1085 H~RiHT 1090 (1127)
|.|.|.
T Consensus 422 hkrkhe 427 (480)
T KOG4377|consen 422 HKRKHE 427 (480)
T ss_pred hhhhhh
Confidence 998885
No 66
>KOG2893 consensus Zn finger protein [General function prediction only]
Probab=39.82 E-value=9.9 Score=42.37 Aligned_cols=40 Identities=25% Similarity=0.404 Sum_probs=18.1
Q ss_pred CCCCCcccChhHHHhhhhhcCCCCcccCCCCCCCCcccChhHHHHH
Q 001193 1040 EGCGKRFSSHKYAIIHQRVHDDERPLKCPWKGCSMSFKWAWARTEH 1085 (1127)
Q Consensus 1040 e~CGKsFssks~Lk~HqrtHtGEKPykCp~e~CGKsFsskssLk~H 1085 (1127)
=.|++.|....-|.+|++. |-|+| .+|.|.+.+--.|..|
T Consensus 14 wycnrefddekiliqhqka----khfkc--hichkkl~sgpglsih 53 (341)
T KOG2893|consen 14 WYCNREFDDEKILIQHQKA----KHFKC--HICHKKLFSGPGLSIH 53 (341)
T ss_pred eecccccchhhhhhhhhhh----cccee--eeehhhhccCCCceee
Confidence 3455555555555555442 22455 2255444444444444
No 67
>smart00451 ZnF_U1 U1-like zinc finger. Family of C2H2-type zinc fingers, present in matrin, U1 small nuclear ribonucleoprotein C and other RNA-binding proteins.
Probab=33.64 E-value=31 Score=26.46 Aligned_cols=22 Identities=18% Similarity=0.493 Sum_probs=14.9
Q ss_pred ceecCCCCCCCcccChHHHHhhhh
Q 001193 1011 HHRCDLDGCRMSFETKRELSLHKR 1034 (1127)
Q Consensus 1011 pykC~~~~CGKsF~sks~Lk~H~r 1034 (1127)
+|.|. .|++.|.....+..|++
T Consensus 3 ~~~C~--~C~~~~~~~~~~~~H~~ 24 (35)
T smart00451 3 GFYCK--LCNVTFTDEISVEAHLK 24 (35)
T ss_pred CeEcc--ccCCccCCHHHHHHHHC
Confidence 46677 67777777776766654
No 68
>PF09538 FYDLN_acid: Protein of unknown function (FYDLN_acid); InterPro: IPR012644 Members of this family are bacterial proteins with a conserved motif [KR]FYDLN, sometimes flanked by a pair of CXXC motifs, followed by a long region of low complexity sequence in which roughly half the residues are Asp and Glu, including multiple runs of five or more acidic residues. The function of members of this family is unknown.
Probab=33.22 E-value=27 Score=34.75 Aligned_cols=13 Identities=38% Similarity=0.953 Sum_probs=5.6
Q ss_pred cccCCCCCCCCcccC
Q 001193 1064 PLKCPWKGCSMSFKW 1078 (1127)
Q Consensus 1064 PykCp~e~CGKsFss 1078 (1127)
|..||+ ||..|.-
T Consensus 26 PivCP~--CG~~~~~ 38 (108)
T PF09538_consen 26 PIVCPK--CGTEFPP 38 (108)
T ss_pred CccCCC--CCCccCc
Confidence 444433 4444433
No 69
>COG4049 Uncharacterized protein containing archaeal-type C2H2 Zn-finger [General function prediction only]
Probab=32.96 E-value=17 Score=32.37 Aligned_cols=27 Identities=41% Similarity=0.717 Sum_probs=18.2
Q ss_pred CCCCcccCCCCCCCCcccChhHHHHHHHH
Q 001193 1090 TGERPYKCKFEGCGLSFRFVSDISRHRRK 1118 (1127)
Q Consensus 1090 TGEKPYkC~v~GCGKsFss~S~L~kH~Rk 1118 (1127)
-||.-+.|+. ||..|+....+.+|..+
T Consensus 13 DGE~~lrCPR--C~~~FR~~K~Y~RHVNK 39 (65)
T COG4049 13 DGEEFLRCPR--CGMVFRRRKDYIRHVNK 39 (65)
T ss_pred CCceeeeCCc--hhHHHHHhHHHHHHhhH
Confidence 3566667766 77777777777777654
No 70
>TIGR02098 MJ0042_CXXC MJ0042 family finger-like domain. This domain contains a CXXCX(19)CXXC motif suggestive of both zinc fingers and thioredoxin, usually found at the N-terminus of prokaryotic proteins. One partially characterized gene, agmX, is among a large set in Myxococcus whose interruption affects adventurous gliding motility.
Probab=30.62 E-value=27 Score=27.84 Aligned_cols=10 Identities=30% Similarity=0.720 Sum_probs=4.6
Q ss_pred CCCCcccChH
Q 001193 1018 GCRMSFETKR 1027 (1127)
Q Consensus 1018 ~CGKsF~sks 1027 (1127)
.|+..|.-..
T Consensus 7 ~C~~~~~v~~ 16 (38)
T TIGR02098 7 NCKTSFRVVD 16 (38)
T ss_pred CCCCEEEeCH
Confidence 4555444433
No 71
>KOG4124 consensus Putative transcriptional repressor regulating G2/M transition [Transcription; Cell cycle control, cell division, chromosome partitioning]
Probab=29.36 E-value=12 Score=43.63 Aligned_cols=71 Identities=21% Similarity=0.426 Sum_probs=46.7
Q ss_pred CCceecCCCCCCCcccChHHHHhhhhc-cccCCCCCCcccChhHHHhhhhhcCCCCcccCCCCCCCCcccChhHHHHHH
Q 001193 1009 KGHHRCDLDGCRMSFETKRELSLHKRN-RCPHEGCGKRFSSHKYAIIHQRVHDDERPLKCPWKGCSMSFKWAWARTEHI 1086 (1127)
Q Consensus 1009 eKpykC~~~~CGKsF~sks~Lk~H~r~-Hc~Ce~CGKsFssks~Lk~HqrtHtGEKPykCp~e~CGKsFsskssLk~H~ 1086 (1127)
.++|+|+++.|.+.+....+|+.|... ||.- - ...++ .-+-|+-.....|||.| +.|.++++....|+-|.
T Consensus 347 ~~~~~~~vp~~~~~~~n~ng~~~~~~~~h~s~--i--~~~s~-~~~ph~~~~~~nk~~r~--~i~~~~~k~~~~l~~~~ 418 (442)
T KOG4124|consen 347 DKPYKCPVPNCDKAYKNQNGLKYHKLHGHCSP--I--TTPTP-APIPHQGFVVENKPYRC--EVCSKRYKNLNGLKYHR 418 (442)
T ss_pred cCCCCCCCCcchhhcccCcceeeccccCcCCC--C--CCCCC-CCCCcceeeeccCcccC--hhhhhhhccCCCCCcee
Confidence 578999999999999999999999764 3321 0 11111 12223333345688999 44988888776666653
No 72
>KOG2482 consensus Predicted C2H2-type Zn-finger protein [Transcription]
Probab=26.57 E-value=44 Score=39.28 Aligned_cols=101 Identities=24% Similarity=0.392 Sum_probs=63.7
Q ss_pred ceecCCCCCCCcccChHHHHhhhhc--ccc---------------CCCCCCcccC-hhHHHhhhhhc-------------
Q 001193 1011 HHRCDLDGCRMSFETKRELSLHKRN--RCP---------------HEGCGKRFSS-HKYAIIHQRVH------------- 1059 (1127)
Q Consensus 1011 pykC~~~~CGKsF~sks~Lk~H~r~--Hc~---------------Ce~CGKsFss-ks~Lk~HqrtH------------- 1059 (1127)
.+.|- .|.+.|+.+..|+.||+. |.. +..-||+... ...+. +.+-
T Consensus 195 r~~CL--yCekifrdkntLkeHMrkK~HrrinPknreYDkfyiINY~ev~ks~t~~~~e~d--ret~~d~~E~D~~wsDw 270 (423)
T KOG2482|consen 195 RLRCL--YCEKIFRDKNTLKEHMRKKRHRRINPKNREYDKFYIINYLEVGKSWTIVHSEDD--RETNEDINETDDTWSDW 270 (423)
T ss_pred hheee--eeccccCCcHHHHHHHHhccCcccCCCccccceEEEEeHhhcCCccchhhhhhh--hhhhccccccccchhhh
Confidence 47898 899999999999999985 211 1122332211 11111 1111
Q ss_pred --CCCCc--ccCCCCCCCCcccChhHHHHHHHh-cCC------------------------CCcc--cCCCCCCCCcccC
Q 001193 1060 --DDERP--LKCPWKGCSMSFKWAWARTEHIRV-HTG------------------------ERPY--KCKFEGCGLSFRF 1108 (1127)
Q Consensus 1060 --tGEKP--ykCp~e~CGKsFsskssLk~H~Ri-HTG------------------------EKPY--kC~v~GCGKsFss 1108 (1127)
.+.-+ .+|.+ |....-+...|..||++ |.- ...+ .|-. |.-.|-.
T Consensus 271 ~ed~a~a~~v~CLf--C~~~~en~~~l~eHmk~vHe~Dl~Ki~sd~~Ln~YqrvrviNyiRkq~~~~~c~~--cd~~F~~ 346 (423)
T KOG2482|consen 271 NEDDAEALSVVCLF--CTNFYENPVFLFEHMKIVHEFDLLKIQSDYSLNFYQRVRVINYIRKQKKKSRCAE--CDLSFWK 346 (423)
T ss_pred hcCCCCccceEEEe--eccchhhHHHHHHHHHHHHHhhHHhhccccccchhhhhhHHHHHHHHhhcccccc--ccccccC
Confidence 01122 48966 99988889999999875 521 0112 3544 9999999
Q ss_pred hhHHHHHHHHh
Q 001193 1109 VSDISRHRRKT 1119 (1127)
Q Consensus 1109 ~S~L~kH~RkH 1119 (1127)
...|..||--|
T Consensus 347 e~~l~~hm~e~ 357 (423)
T KOG2482|consen 347 EPGLLIHMVED 357 (423)
T ss_pred cchhhhhcccc
Confidence 99999999753
No 73
>PF09986 DUF2225: Uncharacterized protein conserved in bacteria (DUF2225); InterPro: IPR018708 This conserved bacterial family has no known function.
Probab=25.93 E-value=23 Score=38.82 Aligned_cols=24 Identities=29% Similarity=0.389 Sum_probs=16.1
Q ss_pred CCceecCCCCCCCcccChHHHHhhhh
Q 001193 1009 KGHHRCDLDGCRMSFETKRELSLHKR 1034 (1127)
Q Consensus 1009 eKpykC~~~~CGKsF~sks~Lk~H~r 1034 (1127)
.+.+.|+ .|++.|.++.-.....+
T Consensus 3 ~k~~~CP--vC~~~F~~~~vrs~~~r 26 (214)
T PF09986_consen 3 DKKITCP--VCGKEFKTKKVRSGKIR 26 (214)
T ss_pred CCceECC--CCCCeeeeeEEEcCCce
Confidence 3557788 88888887765544444
No 74
>cd04864 LigD_Pol_like_1 LigD_Pol_like_1: Polymerase (Pol) domain of mostly bacterial LigD proteins similar to Pseudomonas aeruginosa (Pae) LigD, subgroup 1. The LigD Pol domain belongs to the archaeal/eukaryal primase (AEP) superfamily. In prokaryotes, LigD along with Ku is required for non-homologous end joining (NHEJ)-mediated repair of DNA double-strand breaks (DSB). NHEJ-mediated DNA DSB repair is error-prone. It has been suggested that LigD Pol contributes to NHEJ-mediated DNA DSB repair in vivo, by filling in short 5'-overhangs with ribonucleotides; the filled in termini would then be sealed by the associated LigD ligase domain, resulting in short stretches of RNA incorporated into the genomic DNA. The Pol domains of PaeLigD and Mycobacterium tuberculosis (Mt)LigD are stimulated by manganese, are error-prone, and prefer adding rNTPs to dNTPs in vitro; however PaeLigD and MtLigD belong to other subgroups, proteins in this subgroup await functional characterization.
Probab=25.18 E-value=1.3e+02 Score=33.89 Aligned_cols=45 Identities=24% Similarity=0.427 Sum_probs=40.2
Q ss_pred hhhhhHHHHHHHHHhcC-----------CceEEEEecc--chHHHHHHHHHHHHHhCC
Q 001193 264 FCLEHAAQIEEILQSKG-----------GAEILVICHS--DYQKIKAHAAAVAEEIGS 308 (1127)
Q Consensus 264 fcleha~e~~~~l~~~g-----------g~~~l~ich~--dy~k~~a~A~~vaee~~~ 308 (1127)
-|.|=|+.+-++|...| |.||+|=.-| +|..+++-|+.||++|.-
T Consensus 116 ~v~~~A~~~r~~L~~~gL~~f~KTSG~kGlHv~vPl~~~~~~~~~r~fa~~lA~~l~~ 173 (228)
T cd04864 116 AVRTAALAVRELLDELGLPSFVKTTGSRGFHVVVPLDGRGDFDDVRAFAAEAADALAK 173 (228)
T ss_pred HHHHHHHHHHHHHHHcCCccceEccCCCeEEEEEEcCCCCCHHHHHHHHHHHHHHHHH
Confidence 59999999999999987 8999998887 578999999999999864
No 75
>cd04861 LigD_Pol_like LigD_Pol_like: Polymerase (Pol) domain of bacterial LigD proteins similar to Pseudomonas aeruginosa (Pae) LigD. The LigD Pol domain belongs to the archaeal/eukaryal primase (AEP) superfamily. In prokaryotes, LigD along with Ku is required for non-homologous end joining (NHEJ)-mediated repair of DNA double-strand breaks (DSB). NHEJ-mediated DNA DSB repair is error-prone. PaeLigD is monomeric, containing an N-terminal phosphoesterase module, a central polymerase (Pol) domain, and a C-terminal ATP-dependent ligase domain. Mycobacterium tuberculosis (Mt)LigD, also found in this group, is monomeric and contains the same modules but these are arranged differently: an N-terminal Pol domain, a central phosphoesterase module, and a C-terminal ligase domain. It has been suggested that LigD Pol contributes to NHEJ-mediated DNA DSB repair in vivo, by filling in short 5'-overhangs with ribonucleotides; the filled in termini would then be sealed by the associated LigD ligase do
Probab=23.42 E-value=1.4e+02 Score=33.45 Aligned_cols=46 Identities=26% Similarity=0.406 Sum_probs=41.1
Q ss_pred hhhhhHHHHHHHHHhcC-----------CceEEEEecc--chHHHHHHHHHHHHHhCCc
Q 001193 264 FCLEHAAQIEEILQSKG-----------GAEILVICHS--DYQKIKAHAAAVAEEIGSP 309 (1127)
Q Consensus 264 fcleha~e~~~~l~~~g-----------g~~~l~ich~--dy~k~~a~A~~vaee~~~~ 309 (1127)
-|.|=|+.|-+.|...| |.||.|=..| +|...++-|+.||++|.-.
T Consensus 115 ~v~~~A~~vr~~L~~lgL~~f~KTSG~kGlHV~vPl~~~~~~~~~r~fa~~iA~~l~~~ 173 (227)
T cd04861 115 DVVEAALLLRELLDELGLESFPKTSGGKGLHVYVPLAPRYTWDEVRAFAKALARELARR 173 (227)
T ss_pred HHHHHHHHHHHHHHHcCCccceEccCCCeEEEEEEcCCCCCHHHHHHHHHHHHHHHHHH
Confidence 59999999999999987 8999999887 6789999999999998643
No 76
>COG1198 PriA Primosomal protein N' (replication factor Y) - superfamily II helicase [DNA replication, recombination, and repair]
Probab=23.23 E-value=63 Score=41.74 Aligned_cols=10 Identities=20% Similarity=0.448 Sum_probs=6.6
Q ss_pred eecCCCCCCCcc
Q 001193 1012 HRCDLDGCRMSF 1023 (1127)
Q Consensus 1012 ykC~~~~CGKsF 1023 (1127)
..|. .||..|
T Consensus 436 l~C~--~Cg~v~ 445 (730)
T COG1198 436 LLCR--DCGYIA 445 (730)
T ss_pred eecc--cCCCcc
Confidence 3477 788765
No 77
>PF09986 DUF2225: Uncharacterized protein conserved in bacteria (DUF2225); InterPro: IPR018708 This conserved bacterial family has no known function.
Probab=23.17 E-value=26 Score=38.51 Aligned_cols=43 Identities=33% Similarity=0.658 Sum_probs=23.3
Q ss_pred CcccCCCCCCCCcccChhHHHHHHHh----------cCCCCc-----ccCCCCCCCCcccCh
Q 001193 1063 RPLKCPWKGCSMSFKWAWARTEHIRV----------HTGERP-----YKCKFEGCGLSFRFV 1109 (1127)
Q Consensus 1063 KPykCp~e~CGKsFsskssLk~H~Ri----------HTGEKP-----YkC~v~GCGKsFss~ 1109 (1127)
+.+.||+ |++.|....-+....|+ ..+..| ..|+. ||.+|...
T Consensus 4 k~~~CPv--C~~~F~~~~vrs~~~r~~~~d~D~~~~Y~~vnP~~Y~V~vCP~--CgyA~~~~ 61 (214)
T PF09986_consen 4 KKITCPV--CGKEFKTKKVRSGKIRVIRRDSDFCPRYKGVNPLFYEVWVCPH--CGYAAFEE 61 (214)
T ss_pred CceECCC--CCCeeeeeEEEcCCceEeeecCCCccccCCCCCeeeeEEECCC--CCCccccc
Confidence 4455644 66666655444443332 123334 36988 99887644
No 78
>PRK00464 nrdR transcriptional regulator NrdR; Validated
Probab=22.66 E-value=28 Score=36.66 Aligned_cols=15 Identities=40% Similarity=0.789 Sum_probs=9.2
Q ss_pred cccCCCCCCcccChh
Q 001193 1036 RCPHEGCGKRFSSHK 1050 (1127)
Q Consensus 1036 Hc~Ce~CGKsFssks 1050 (1127)
++.|+.||++|.+.-
T Consensus 28 ~~~c~~c~~~f~~~e 42 (154)
T PRK00464 28 RRECLACGKRFTTFE 42 (154)
T ss_pred eeeccccCCcceEeE
Confidence 356667777766543
No 79
>cd04865 LigD_Pol_like_2 LigD_Pol_like_2: Polymerase (Pol) domain of bacterial LigD proteins similar to Pseudomonas aeruginosa (Pae) LigD, subgroup 2. The LigD Pol domain belongs to the archaeal/eukaryal primase (AEP) superfamily. In prokaryotes, LigD along with Ku is required for non-homologous end joining (NHEJ)-mediated repair of DNA double-strand breaks (DSB). NHEJ-mediated DNA DSB repair is error-prone. It has been suggested that LigD Pol contributes to NHEJ-mediated DNA DSB repair in vivo, by filling in short 5'-overhangs with ribonucleotides; the filled in termini would then be sealed by the associated LigD ligase domain, resulting in short stretches of RNA incorporated into the genomic DNA. The Pol domains of PaeLigD and Mycobacterium tuberculosis (Mt)LigD are stimulated by manganese, are error-prone, and prefer adding rNTPs to dNTPs in vitro; however PaeLigD and MtLigD belong to other subgroups, proteins in this subgroup await functional characterization.
Probab=21.88 E-value=1.6e+02 Score=33.10 Aligned_cols=46 Identities=24% Similarity=0.372 Sum_probs=40.8
Q ss_pred hhhhhHHHHHHHHHhcC-----------CceEEEEecc--chHHHHHHHHHHHHHhCCc
Q 001193 264 FCLEHAAQIEEILQSKG-----------GAEILVICHS--DYQKIKAHAAAVAEEIGSP 309 (1127)
Q Consensus 264 fcleha~e~~~~l~~~g-----------g~~~l~ich~--dy~k~~a~A~~vaee~~~~ 309 (1127)
-|.|=|+.|-++|...| |.||+|=.-| +|...++-|+.||++|.-.
T Consensus 116 ~v~~~A~~vr~~L~~lgL~sf~KTSG~kGlHv~vPl~~~~~~~~~r~fa~~iA~~l~~~ 174 (228)
T cd04865 116 DVVEVALLVREVLDELGLRGYPKTSGARGLHIYVPIAPRYTFEEVRRFAELLAREVERR 174 (228)
T ss_pred HHHHHHHHHHHHHHHcCCccceEccCCCeEEEEEEcCCCCCHHHHHHHHHHHHHHHHHH
Confidence 59999999999999988 8999998887 6789999999999998643
No 80
>cd04866 LigD_Pol_like_3 LigD_Pol_like_3: Polymerase (Pol) domain of bacterial LigD proteins similar to Pseudomonas aeruginosa (Pae) LigD, subgroup 3. The LigD Pol domain belongs to the archaeal/eukaryal primase (AEP) superfamily. In prokaryotes, LigD along with Ku is required for non-homologous end joining (NHEJ)-mediated repair of DNA double-strand breaks (DSB). NHEJ-mediated DNA DSB repair is error-prone. It has been suggested that LigD Pol contributes to NHEJ-mediated repair DSB repair in vivo, by filling in short 5'-overhangs with ribonucleotides; the filled in termini would then be sealed by the associated LigD ligase domain, resulting in short stretches of RNA incorporated into the genomic DNA. The Pol domains of PaeLigD and Mycobacterium tuberculosis (Mt)LigD are stimulated by manganese, are error-prone, and prefer adding rNTPs to dNTPs in vitro; however PaeLigD and MtLigD belong to other subgroups, proteins in this subgroup await functional characterization.
Probab=21.71 E-value=1.6e+02 Score=32.95 Aligned_cols=46 Identities=22% Similarity=0.399 Sum_probs=40.7
Q ss_pred hhhhhHHHHHHHHHhcC-----------CceEEEEec-c--chHHHHHHHHHHHHHhCCc
Q 001193 264 FCLEHAAQIEEILQSKG-----------GAEILVICH-S--DYQKIKAHAAAVAEEIGSP 309 (1127)
Q Consensus 264 fcleha~e~~~~l~~~g-----------g~~~l~ich-~--dy~k~~a~A~~vaee~~~~ 309 (1127)
-|.|=|+.|-+.|...| |.||.|=.. | +|..+++-|+.||++|.-.
T Consensus 110 ~v~~~A~~vr~~L~~lgL~~f~KTSG~kGlHV~vPl~~~~~~~~~~r~fa~~iA~~l~~~ 169 (223)
T cd04866 110 LAVEAANLLKEILDALGLTSFVKTSGNKGLQVYIPLPDNKFTYDETRLFTEFIAEYLCQQ 169 (223)
T ss_pred HHHHHHHHHHHHHHHcCCccceEccCCCeEEEEEEcCCCCCCHHHHHHHHHHHHHHHHHH
Confidence 58999999999999987 899999888 5 6889999999999998643
No 81
>smart00531 TFIIE Transcription initiation factor IIE.
Probab=21.66 E-value=52 Score=33.96 Aligned_cols=11 Identities=9% Similarity=0.528 Sum_probs=5.0
Q ss_pred ccCCCCCCccc
Q 001193 1037 CPHEGCGKRFS 1047 (1127)
Q Consensus 1037 c~Ce~CGKsFs 1047 (1127)
|.|+.|++.|.
T Consensus 100 Y~Cp~C~~~y~ 110 (147)
T smart00531 100 YKCPNCQSKYT 110 (147)
T ss_pred EECcCCCCEee
Confidence 34444444444
No 82
>TIGR01755 flav_wrbA NAD(P)H:quinone oxidoreductase, type IV. This model represents a protein, WrbA, related to and slightly larger than flavodoxin. It was just shown, in E. coli and Archaeoglobus fulgidus (and previously for some eukaryotic homologs) to act as fourth type of NAD(P)H:quinone oxidoreductase. In E. coli, this protein was earlier reported to be produced during stationary phase, bind to the trp repressor, and make trp operon repression more efficient. WrbA does not interact with the trp operator by itself. Members are found in species in which homologs of the E. coli trp operon repressor TrpR are not detected.
Probab=21.66 E-value=74 Score=34.17 Aligned_cols=26 Identities=38% Similarity=0.437 Sum_probs=23.9
Q ss_pred ceEEEEeccchHHHHHHHHHHHHHhC
Q 001193 282 AEILVICHSDYQKIKAHAAAVAEEIG 307 (1127)
Q Consensus 282 ~~~l~ich~dy~k~~a~A~~vaee~~ 307 (1127)
++||||+|+-|.-.++.|+.||+.+.
T Consensus 1 ~kilIiY~S~~G~T~~lA~~ia~g~~ 26 (197)
T TIGR01755 1 VKVLVLYYSMYGHIETMARAVAEGAR 26 (197)
T ss_pred CeEEEEEeCCCCHHHHHHHHHHHHHH
Confidence 47999999999999999999999884
No 83
>cd04862 PaeLigD_Pol_like PaeLigD_Pol_like: Polymerase (Pol) domain of bacterial LigD proteins similar to Pseudomonas aeruginosa (Pae) LigD. The LigD Pol domain belongs to the archaeal/eukaryal primase (AEP) superfamily. In prokaryotes, LigD along with Ku is required for non-homologous end joining (NHEJ)-mediated repair of DNA double-strand breaks (DSB). NHEJ-mediated DNA DSB repair is error-prone. PaeLigD is monomeric, containing an N-terminal phosphoesterase module, a central polymerase (Pol) domain, and a C-terminal ATP-dependent ligase domain. It has been suggested that LigD Pol contributes to NHEJ-mediated DNA DSB repair in vivo, by filling in short 5'-overhangs with ribonucleotides; the filled in termini would then be sealed by the associated LigD ligase domain, resulting in short stretches of RNA incorporated into the genomic DNA. The PaeLigD Pol domain in vitro, in a manganese-dependent fashion, catalyzes templated extensions of 5'-overhang duplex DNA, and nontemplated single-nu
Probab=21.59 E-value=1.7e+02 Score=32.98 Aligned_cols=46 Identities=26% Similarity=0.434 Sum_probs=40.7
Q ss_pred hhhhhHHHHHHHHHhcC-----------CceEEEEecc--chHHHHHHHHHHHHHhCCc
Q 001193 264 FCLEHAAQIEEILQSKG-----------GAEILVICHS--DYQKIKAHAAAVAEEIGSP 309 (1127)
Q Consensus 264 fcleha~e~~~~l~~~g-----------g~~~l~ich~--dy~k~~a~A~~vaee~~~~ 309 (1127)
-|.|=|+.|-+.|...| |.||.|=..| +|..+++-|+.||++|.-.
T Consensus 115 ~v~~~A~~~r~~L~~lgL~~~~KTSG~kGlHV~vPl~~~~~~~~~r~fa~~lA~~l~~~ 173 (227)
T cd04862 115 AVVEAALLVRELLDELGLESFVKTSGGKGLHVVVPLAPRAGWDEVKAFAKALAQHLART 173 (227)
T ss_pred HHHHHHHHHHHHHHHcCCccceEccCCCeEEEEEEcCCCCCHHHHHHHHHHHHHHHHHH
Confidence 59999999999999887 8999998887 6789999999999998643
No 84
>TIGR00622 ssl1 transcription factor ssl1. This family is based on the phylogenomic analysis of JA Eisen (1999, Ph.D. Thesis, Stanford University).
Probab=21.41 E-value=1.3e+02 Score=30.55 Aligned_cols=48 Identities=21% Similarity=0.305 Sum_probs=27.6
Q ss_pred cCCCCCCCCcccChhHHHHHHHhcCCCCcccCCCCCCCCcccChhHHHHHHHHh
Q 001193 1066 KCPWKGCSMSFKWAWARTEHIRVHTGERPYKCKFEGCGLSFRFVSDISRHRRKT 1119 (1127)
Q Consensus 1066 kCp~e~CGKsFsskssLk~H~RiHTGEKPYkC~v~GCGKsFss~S~L~kH~RkH 1119 (1127)
.| -.|.+.|........- .-.....|+|+. |...|-..-+...|...|
T Consensus 57 ~C--~~C~~~f~~~~~~~~~--~~~~~~~y~C~~--C~~~FC~dCD~fiHe~Lh 104 (112)
T TIGR00622 57 FC--FGCQGPFPKPPVSPFD--ELKDSHRYVCAV--CKNVFCVDCDVFVHESLH 104 (112)
T ss_pred cc--cCcCCCCCCccccccc--ccccccceeCCC--CCCccccccchhhhhhcc
Confidence 37 5677777654311100 011234578877 888887776777776655
No 85
>PF14353 CpXC: CpXC protein
Probab=21.02 E-value=18 Score=36.14 Aligned_cols=46 Identities=17% Similarity=0.244 Sum_probs=28.9
Q ss_pred eecCCCCCCCcccChHHH----------Hhhhh----ccccCCCCCCcccChhHHHhhhhhc
Q 001193 1012 HRCDLDGCRMSFETKREL----------SLHKR----NRCPHEGCGKRFSSHKYAIIHQRVH 1059 (1127)
Q Consensus 1012 ykC~~~~CGKsF~sks~L----------k~H~r----~Hc~Ce~CGKsFssks~Lk~HqrtH 1059 (1127)
..|+ .|+..|...... +.-.. ..+.|+.||+.|.-...+..|-..|
T Consensus 2 itCP--~C~~~~~~~v~~~I~~~~~p~l~e~il~g~l~~~~CP~Cg~~~~~~~p~lY~D~~~ 61 (128)
T PF14353_consen 2 ITCP--HCGHEFEFEVWTSINADEDPELKEKILDGSLFSFTCPSCGHKFRLEYPLLYHDPEK 61 (128)
T ss_pred cCCC--CCCCeeEEEEEeEEcCcCCHHHHHHHHcCCcCEEECCCCCCceecCCCEEEEcCCC
Confidence 3577 899888543322 22111 1378999999988777776665543
No 86
>TIGR02300 FYDLN_acid conserved hypothetical protein TIGR02300. Members of this family are bacterial proteins with a conserved motif [KR]FYDLN, sometimes flanked by a pair of CXXC motifs, followed by a long region of low complexity sequence in which roughly half the residues are Asp and Glu, including multiple runs of five or more acidic residues. The function of members of this family is unknown.
Probab=20.67 E-value=68 Score=33.07 Aligned_cols=14 Identities=29% Similarity=0.494 Sum_probs=6.3
Q ss_pred CcccCCCCCCCCcccC
Q 001193 1063 RPLKCPWKGCSMSFKW 1078 (1127)
Q Consensus 1063 KPykCp~e~CGKsFss 1078 (1127)
.|..||+ ||..|.-
T Consensus 25 ~p~vcP~--cg~~~~~ 38 (129)
T TIGR02300 25 RPAVSPY--TGEQFPP 38 (129)
T ss_pred CCccCCC--cCCccCc
Confidence 3444533 5544433
Done!