Query 038961
Match_columns 457
No_of_seqs 351 out of 3246
Neff 7.1
Searched_HMMs 46136
Date Fri Mar 29 04:59:54 2013
Command hhsearch -i /work/01045/syshi/csienesis_hhblits_a3m/038961.a3m -d /work/01045/syshi/HHdatabase/Cdd.hhm -o /work/01045/syshi/hhsearch_cdd/038961hhsearch_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 99.9 1.2E-23 2.7E-28 200.8 3.6 80 282-392 186-265 (279)
2 KOG1074 Transcriptional repres 99.8 8.7E-19 1.9E-23 186.9 10.9 90 281-397 603-695 (958)
3 KOG2462 C2H2-type Zn-finger pr 99.7 1.9E-17 4.2E-22 158.5 5.1 102 266-400 141-245 (279)
4 KOG1074 Transcriptional repres 99.6 3.7E-16 8E-21 167.0 5.8 56 324-398 880-935 (958)
5 KOG3576 Ovo and related transc 99.2 7.5E-13 1.6E-17 121.4 -1.0 85 279-394 113-198 (267)
6 KOG3623 Homeobox transcription 99.2 2.6E-12 5.6E-17 135.8 0.6 82 279-391 890-971 (1007)
7 KOG3608 Zn finger proteins [Ge 99.2 5.4E-12 1.2E-16 124.1 -0.0 92 274-394 282-377 (467)
8 KOG3608 Zn finger proteins [Ge 99.0 4.7E-11 1E-15 117.6 -0.9 84 282-397 262-348 (467)
9 KOG3576 Ovo and related transc 99.0 5.9E-11 1.3E-15 109.1 -1.0 115 262-396 124-238 (267)
10 KOG3623 Homeobox transcription 98.9 3.4E-10 7.4E-15 120.1 2.1 103 271-392 226-331 (1007)
11 PHA02768 hypothetical protein; 98.6 1.1E-08 2.3E-13 75.8 1.6 25 5-29 5-29 (55)
12 PHA00733 hypothetical protein 98.6 2.6E-08 5.7E-13 87.6 3.1 83 280-395 37-124 (128)
13 PHA02768 hypothetical protein; 98.2 4.1E-07 8.9E-12 67.4 1.1 44 323-387 5-48 (55)
14 PF13465 zf-H2C2_2: Zinc-finge 98.2 3.4E-07 7.4E-12 57.8 -0.1 26 346-382 1-26 (26)
15 PLN03086 PRLI-interacting fact 98.0 3.4E-06 7.5E-11 90.3 4.1 86 274-389 471-559 (567)
16 PF13465 zf-H2C2_2: Zinc-finge 98.0 2.6E-06 5.6E-11 53.8 0.8 12 82-93 15-26 (26)
17 PHA00733 hypothetical protein 97.9 3.1E-06 6.7E-11 74.5 1.0 26 3-28 71-96 (128)
18 PHA00732 hypothetical protein 97.9 4.3E-06 9.2E-11 67.3 1.5 25 5-29 1-26 (79)
19 PLN03086 PRLI-interacting fact 97.8 1.8E-05 3.9E-10 84.9 4.4 80 278-393 448-537 (567)
20 KOG3993 Transcription factor ( 97.7 6.4E-06 1.4E-10 83.6 -0.6 29 369-397 355-383 (500)
21 PF00096 zf-C2H2: Zinc finger, 97.7 8.1E-06 1.8E-10 49.6 -0.3 23 6-28 1-23 (23)
22 PHA00616 hypothetical protein 97.6 1.1E-05 2.3E-10 57.1 -0.1 34 283-328 1-34 (44)
23 PF00096 zf-C2H2: Zinc finger, 97.4 4E-05 8.7E-10 46.5 0.2 23 371-393 1-23 (23)
24 PHA00616 hypothetical protein 97.3 5.6E-05 1.2E-09 53.5 0.5 28 370-397 1-28 (44)
25 PF13912 zf-C2H2_6: C2H2-type 97.2 6.5E-05 1.4E-09 47.5 -0.2 25 5-29 1-25 (27)
26 PHA00732 hypothetical protein 97.2 0.00018 4E-09 57.8 2.4 37 283-334 1-38 (79)
27 KOG3993 Transcription factor ( 97.1 0.00013 2.9E-09 74.3 0.5 80 6-101 296-376 (500)
28 PF13912 zf-C2H2_6: C2H2-type 97.1 0.00014 3.1E-09 45.9 0.4 26 370-395 1-26 (27)
29 PF13894 zf-C2H2_4: C2H2-type 97.1 0.00013 2.7E-09 44.2 -0.1 23 6-28 1-23 (24)
30 COG5189 SFP1 Putative transcri 97.0 0.0003 6.5E-09 69.3 1.5 71 279-390 345-418 (423)
31 PF13894 zf-C2H2_4: C2H2-type 96.8 0.00042 9.1E-09 41.8 0.8 24 371-394 1-24 (24)
32 smart00355 ZnF_C2H2 zinc finge 96.7 0.00051 1.1E-08 42.0 0.5 24 6-29 1-24 (26)
33 PF12756 zf-C2H2_2: C2H2 type 96.7 0.00064 1.4E-08 56.0 1.1 73 285-393 1-73 (100)
34 PF12874 zf-met: Zinc-finger o 96.6 0.0005 1.1E-08 42.5 -0.3 24 6-29 1-24 (25)
35 smart00355 ZnF_C2H2 zinc finge 96.2 0.0025 5.3E-08 38.9 1.5 25 371-395 1-25 (26)
36 PF05605 zf-Di19: Drought indu 96.2 0.0034 7.3E-08 46.6 2.4 51 323-394 2-53 (54)
37 PF12171 zf-C2H2_jaz: Zinc-fin 96.2 0.001 2.3E-08 42.1 -0.5 24 5-28 1-24 (27)
38 COG5189 SFP1 Putative transcri 96.1 0.005 1.1E-07 60.9 3.5 24 3-26 347-372 (423)
39 PF05605 zf-Di19: Drought indu 95.3 0.011 2.3E-07 43.9 2.1 49 283-353 2-51 (54)
40 PF09237 GAGA: GAGA factor; I 95.2 0.011 2.3E-07 43.1 1.5 31 365-395 19-49 (54)
41 PF12874 zf-met: Zinc-finger o 94.8 0.0086 1.9E-07 36.8 0.1 23 371-393 1-23 (25)
42 PF12756 zf-C2H2_2: C2H2 type 94.2 0.0092 2E-07 49.0 -1.0 71 7-103 1-72 (100)
43 PF12171 zf-C2H2_jaz: Zinc-fin 93.8 0.027 5.8E-07 35.5 0.9 23 371-393 2-24 (27)
44 PRK04860 hypothetical protein; 92.6 0.053 1.2E-06 49.5 1.3 37 282-334 118-154 (160)
45 PF09237 GAGA: GAGA factor; I 92.6 0.057 1.2E-06 39.4 1.1 31 278-308 19-49 (54)
46 PRK04860 hypothetical protein; 92.2 0.055 1.2E-06 49.4 0.9 40 322-384 118-157 (160)
47 smart00451 ZnF_U1 U1-like zinc 91.8 0.057 1.2E-06 35.8 0.3 23 5-27 3-25 (35)
48 PF13909 zf-H2C2_5: C2H2-type 91.6 0.066 1.4E-06 32.6 0.4 23 371-394 1-23 (24)
49 PF13913 zf-C2HC_2: zinc-finge 91.4 0.076 1.6E-06 33.0 0.6 21 6-27 3-23 (25)
50 PF13913 zf-C2HC_2: zinc-finge 90.6 0.14 3E-06 31.8 1.2 21 371-392 3-23 (25)
51 PF13909 zf-H2C2_5: C2H2-type 89.9 0.085 1.8E-06 32.1 -0.2 22 6-28 1-22 (24)
52 KOG2231 Predicted E3 ubiquitin 89.8 0.34 7.4E-06 53.3 4.2 24 6-29 100-139 (669)
53 PF09538 FYDLN_acid: Protein o 88.2 0.31 6.8E-06 41.6 2.0 13 82-94 27-39 (108)
54 COG5048 FOG: Zn-finger [Genera 87.7 0.33 7.1E-06 49.6 2.2 57 322-397 288-350 (467)
55 KOG2893 Zn finger protein [Gen 87.1 0.2 4.3E-06 48.0 0.1 51 321-395 9-60 (341)
56 smart00451 ZnF_U1 U1-like zinc 87.0 0.36 7.7E-06 31.9 1.4 23 370-392 3-25 (35)
57 KOG2785 C2H2-type Zn-finger pr 86.8 0.24 5.2E-06 50.6 0.6 76 281-392 164-242 (390)
58 KOG1146 Homeobox protein [Gene 84.8 0.52 1.1E-05 55.1 2.0 80 278-392 460-540 (1406)
59 PF09986 DUF2225: Uncharacteri 84.6 0.48 1E-05 45.4 1.5 25 3-27 3-27 (214)
60 PF02892 zf-BED: BED zinc fing 82.3 0.51 1.1E-05 33.2 0.5 24 2-25 13-40 (45)
61 COG5048 FOG: Zn-finger [Genera 81.0 1.3 2.8E-05 45.2 3.2 63 282-375 288-356 (467)
62 TIGR02300 FYDLN_acid conserved 79.0 1.3 2.9E-05 38.6 2.0 13 82-94 27-39 (129)
63 KOG4167 Predicted DNA-binding 78.6 0.54 1.2E-05 51.7 -0.6 71 16-103 744-818 (907)
64 KOG1146 Homeobox protein [Gene 74.9 1.9 4.2E-05 50.6 2.4 30 365-395 1324-1353(1406)
65 KOG2231 Predicted E3 ubiquitin 73.1 1.8 3.8E-05 47.9 1.5 18 291-308 122-140 (669)
66 COG5236 Uncharacterized conser 72.7 1.8 3.8E-05 43.9 1.3 17 289-305 159-175 (493)
67 smart00614 ZnF_BED BED zinc fi 71.0 2.5 5.5E-05 30.6 1.5 25 5-29 18-48 (50)
68 KOG2893 Zn finger protein [Gen 60.5 3.8 8.2E-05 39.5 0.8 24 6-29 11-34 (341)
69 COG4049 Uncharacterized protei 60.2 3 6.5E-05 31.1 0.1 29 365-393 12-41 (65)
70 KOG4167 Predicted DNA-binding 60.2 1.5 3.3E-05 48.3 -2.1 26 5-30 792-817 (907)
71 PF09986 DUF2225: Uncharacteri 55.8 7 0.00015 37.4 1.8 53 282-334 4-59 (214)
72 KOG2482 Predicted C2H2-type Zn 55.4 5.6 0.00012 40.3 1.1 25 5-29 195-221 (423)
73 COG4957 Predicted transcriptio 54.1 5.7 0.00012 35.0 0.8 25 6-33 77-101 (148)
74 PF05443 ROS_MUCR: ROS/MUCR tr 51.9 7.4 0.00016 34.4 1.2 22 6-30 73-94 (132)
75 PF09538 FYDLN_acid: Protein o 50.7 9.9 0.00021 32.5 1.7 16 368-383 24-39 (108)
76 KOG2071 mRNA cleavage and poly 49.2 8.2 0.00018 42.0 1.2 27 3-29 416-442 (579)
77 smart00734 ZnF_Rad18 Rad18-lik 49.1 11 0.00023 23.6 1.3 20 371-391 2-21 (26)
78 COG1198 PriA Primosomal protei 48.9 11 0.00025 42.5 2.3 49 315-379 436-484 (730)
79 PRK00464 nrdR transcriptional 46.9 12 0.00026 34.0 1.7 21 369-389 27-47 (154)
80 COG4049 Uncharacterized protei 41.9 8.2 0.00018 28.8 -0.1 29 1-29 13-42 (65)
81 COG1592 Rubrerythrin [Energy p 41.5 16 0.00034 33.7 1.6 14 365-378 144-157 (166)
82 cd00350 rubredoxin_like Rubred 39.3 18 0.00039 23.8 1.3 10 369-378 16-25 (33)
83 KOG2186 Cell growth-regulating 38.1 15 0.00033 35.8 1.1 37 345-394 16-52 (276)
84 TIGR00373 conserved hypothetic 37.9 11 0.00024 34.3 0.0 18 5-22 109-126 (158)
85 smart00531 TFIIE Transcription 37.7 11 0.00024 33.8 0.0 17 4-20 98-114 (147)
86 cd00729 rubredoxin_SM Rubredox 36.3 20 0.00044 23.9 1.1 10 369-378 17-26 (34)
87 KOG0717 Molecular chaperone (D 36.0 13 0.00027 39.5 0.2 22 6-27 293-314 (508)
88 PRK06266 transcription initiat 35.4 12 0.00027 34.7 -0.0 17 5-21 117-133 (178)
89 PF06524 NOA36: NOA36 protein; 33.6 36 0.00078 33.5 2.8 97 278-396 137-235 (314)
90 TIGR02098 MJ0042_CXXC MJ0042 f 33.5 23 0.00049 23.8 1.1 12 370-381 25-36 (38)
91 KOG4124 Putative transcription 31.0 25 0.00055 35.9 1.4 23 367-389 395-417 (442)
92 PF13717 zinc_ribbon_4: zinc-r 30.9 32 0.00069 23.2 1.4 13 369-381 24-36 (36)
93 PF12013 DUF3505: Protein of u 30.3 26 0.00057 29.5 1.2 26 370-395 80-109 (109)
94 PF05443 ROS_MUCR: ROS/MUCR tr 29.9 19 0.00041 31.9 0.2 23 370-395 72-94 (132)
95 PRK06266 transcription initiat 29.2 26 0.00056 32.6 1.0 20 280-299 114-133 (178)
96 TIGR00622 ssl1 transcription f 28.7 1.2E+02 0.0027 26.0 4.9 31 368-398 79-109 (112)
97 TIGR02300 FYDLN_acid conserved 28.7 44 0.00096 29.3 2.3 20 368-387 24-43 (129)
98 PF09845 DUF2072: Zn-ribbon co 27.5 30 0.00066 30.5 1.1 15 370-384 1-15 (131)
99 PF01363 FYVE: FYVE zinc finge 26.0 30 0.00064 26.4 0.7 13 82-94 26-38 (69)
100 PF10571 UPF0547: Uncharacteri 24.9 40 0.00086 21.1 1.0 11 371-381 15-25 (26)
101 KOG4173 Alpha-SNAP protein [In 24.7 6.9 0.00015 37.0 -3.6 88 282-394 78-171 (253)
102 PRK00398 rpoP DNA-directed RNA 24.4 43 0.00093 23.6 1.2 12 370-381 21-32 (46)
103 COG1997 RPL43A Ribosomal prote 24.3 45 0.00098 27.3 1.4 32 281-334 33-64 (89)
104 PF06220 zf-U1: U1 zinc finger 24.3 40 0.00088 23.1 1.0 22 4-25 2-25 (38)
105 PRK14873 primosome assembly pr 24.2 40 0.00087 37.9 1.6 53 310-379 378-431 (665)
106 TIGR00595 priA primosomal prot 24.2 46 0.00099 36.1 2.0 49 315-379 214-262 (505)
107 COG1592 Rubrerythrin [Energy p 23.6 56 0.0012 30.1 2.1 25 282-331 133-157 (166)
108 KOG0978 E3 ubiquitin ligase in 23.6 43 0.00094 37.6 1.6 21 369-389 677-697 (698)
109 PF13719 zinc_ribbon_5: zinc-r 23.5 48 0.001 22.4 1.3 14 368-381 23-36 (37)
110 PF04810 zf-Sec23_Sec24: Sec23 22.5 49 0.0011 22.8 1.2 15 365-379 19-33 (40)
111 TIGR00373 conserved hypothetic 22.3 50 0.0011 30.0 1.5 24 277-300 103-126 (158)
112 PHA00626 hypothetical protein 22.0 43 0.00093 25.1 0.8 14 4-17 22-35 (59)
113 PRK05580 primosome assembly pr 21.3 53 0.0012 37.0 1.8 49 315-379 382-430 (679)
114 cd00065 FYVE FYVE domain; Zinc 21.1 58 0.0013 23.6 1.4 13 82-94 19-31 (57)
115 PRK14890 putative Zn-ribbon RN 20.9 53 0.0011 24.9 1.1 10 369-378 47-56 (59)
116 COG4888 Uncharacterized Zn rib 20.8 29 0.00063 29.1 -0.3 12 82-93 47-58 (104)
117 PF14279 HNH_5: HNH endonuclea 20.7 31 0.00067 27.1 -0.2 12 83-94 32-43 (71)
118 PF04959 ARS2: Arsenite-resist 20.7 34 0.00073 32.9 0.1 28 2-29 74-102 (214)
119 COG4391 Uncharacterized protei 20.6 58 0.0013 24.9 1.3 13 369-381 47-59 (62)
120 COG4957 Predicted transcriptio 20.2 47 0.001 29.4 0.8 23 371-396 77-99 (148)
No 1
>KOG2462 consensus C2H2-type Zn-finger protein [Transcription]
Probab=99.88 E-value=1.2e-23 Score=200.78 Aligned_cols=80 Identities=33% Similarity=0.492 Sum_probs=75.9
Q ss_pred CccccCCCCCccCCchhhhhhccccCCccCccccccCCCCCCccCCCCCCCCcchhhhhccCcchhhhhhccccCCCCcc
Q 038961 282 SKFECATCNKIFHSYQALGGHRASHKKIKGCFATKIDSSENSIEAEHSPDPTADSKLIKSINNENSADHFFVADCDDHRA 361 (457)
Q Consensus 282 kpy~C~~C~K~F~s~~~L~~H~~~H~~~k~~~~~~c~~cekp~~C~~C~k~f~~~k~f~~~~~~~L~~H~~~~~~~~~~~ 361 (457)
-+++|.+|||.|.+..-|++|+|+|+| ||||.|..|+++|+.. +||+.|+++
T Consensus 186 l~c~C~iCGKaFSRPWLLQGHiRTHTG------------EKPF~C~hC~kAFADR--------SNLRAHmQT-------- 237 (279)
T KOG2462|consen 186 LPCECGICGKAFSRPWLLQGHIRTHTG------------EKPFSCPHCGKAFADR--------SNLRAHMQT-------- 237 (279)
T ss_pred CCcccccccccccchHHhhcccccccC------------CCCccCCcccchhcch--------HHHHHHHHh--------
Confidence 578999999999999999999999999 9999999999999855 999999999
Q ss_pred ccccCCCccccCCCCCCCCCCchhhhhhhhh
Q 038961 362 ETSCGAKKKHECPICLKVFPSGQALGGHKRS 392 (457)
Q Consensus 362 ~~~H~geKp~~C~~Cgk~F~~~~~L~~H~r~ 392 (457)
|.+.|+|+|..|+|+|+..+.|.+|...
T Consensus 238 ---HS~~K~~qC~~C~KsFsl~SyLnKH~ES 265 (279)
T KOG2462|consen 238 ---HSDVKKHQCPRCGKSFALKSYLNKHSES 265 (279)
T ss_pred ---hcCCccccCcchhhHHHHHHHHHHhhhh
Confidence 9999999999999999999999999754
No 2
>KOG1074 consensus Transcriptional repressor SALM [Transcription]
Probab=99.77 E-value=8.7e-19 Score=186.89 Aligned_cols=90 Identities=28% Similarity=0.442 Sum_probs=77.7
Q ss_pred CCccccCCCCCccCCchhhhhhccccCCccCccccccCCCCCCccCCCCCCCCcchhhhhccCcchhhhhhccccCCCCc
Q 038961 281 RSKFECATCNKIFHSYQALGGHRASHKKIKGCFATKIDSSENSIEAEHSPDPTADSKLIKSINNENSADHFFVADCDDHR 360 (457)
Q Consensus 281 ekpy~C~~C~K~F~s~~~L~~H~~~H~~~k~~~~~~c~~cekp~~C~~C~k~f~~~k~f~~~~~~~L~~H~~~~~~~~~~ 360 (457)
-.|.+|-+|-++....++|+.|.|+|+| ||||+|.+|++.|+.. .+|+.|+-+ |+
T Consensus 603 TdPNqCiiC~rVlSC~saLqmHyrtHtG------------ERPFkCKiCgRAFtTk--------GNLkaH~~v-----Hk 657 (958)
T KOG1074|consen 603 TDPNQCIICLRVLSCPSALQMHYRTHTG------------ERPFKCKICGRAFTTK--------GNLKAHMSV-----HK 657 (958)
T ss_pred CCccceeeeeecccchhhhhhhhhcccC------------cCccccccccchhccc--------cchhhcccc-----cc
Confidence 4578999999999999999999999999 9999999988888754 999999998 22
Q ss_pred cccccCCCccccCC---CCCCCCCCchhhhhhhhhccCCC
Q 038961 361 AETSCGAKKKHECP---ICLKVFPSGQALGGHKRSHLLGG 397 (457)
Q Consensus 361 ~~~~H~geKp~~C~---~Cgk~F~~~~~L~~H~r~H~~~~ 397 (457)
+. +.-.-+|.|+ +|-+-|...-.|..|+|+|.++.
T Consensus 658 a~--p~~R~q~ScP~~~ic~~kftn~V~lpQhIriH~~~~ 695 (958)
T KOG1074|consen 658 AK--PPARVQFSCPSTFICQKKFTNAVTLPQHIRIHLGGQ 695 (958)
T ss_pred cC--ccccccccCCchhhhcccccccccccceEEeecCCC
Confidence 22 2223579999 99999999999999999999653
No 3
>KOG2462 consensus C2H2-type Zn-finger protein [Transcription]
Probab=99.68 E-value=1.9e-17 Score=158.45 Aligned_cols=102 Identities=21% Similarity=0.307 Sum_probs=83.4
Q ss_pred cCCCCChhhhhhcC---CCCccccCCCCCccCCchhhhhhccccCCccCccccccCCCCCCccCCCCCCCCcchhhhhcc
Q 038961 266 TTDASDAEFYKDSQ---KRSKFECATCNKIFHSYQALGGHRASHKKIKGCFATKIDSSENSIEAEHSPDPTADSKLIKSI 342 (457)
Q Consensus 266 ~~~~~~~~~~~~h~---~ekpy~C~~C~K~F~s~~~L~~H~~~H~~~k~~~~~~c~~cekp~~C~~C~k~f~~~k~f~~~ 342 (457)
.....+..|.+.|- ..+.+.|.+|+|+|.+-.+|..|+|+|+- +++|.+|||.|...
T Consensus 141 sT~snLsrHkQ~H~~~~s~ka~~C~~C~K~YvSmpALkMHirTH~l--------------~c~C~iCGKaFSRP------ 200 (279)
T KOG2462|consen 141 STSSNLSRHKQTHRSLDSKKAFSCKYCGKVYVSMPALKMHIRTHTL--------------PCECGICGKAFSRP------ 200 (279)
T ss_pred ccccccchhhcccccccccccccCCCCCceeeehHHHhhHhhccCC--------------Ccccccccccccch------
Confidence 33444555555543 46778888888888888888888888885 67899987777655
Q ss_pred CcchhhhhhccccCCCCccccccCCCccccCCCCCCCCCCchhhhhhhhhccCCCCCC
Q 038961 343 NNENSADHFFVADCDDHRAETSCGAKKKHECPICLKVFPSGQALGGHKRSHLLGGNEA 400 (457)
Q Consensus 343 ~~~~L~~H~~~~~~~~~~~~~~H~geKp~~C~~Cgk~F~~~~~L~~H~r~H~~~~~~~ 400 (457)
+-|+.|+|+ |||||||.|+.|+|+|+.+++|+.||++|.+.....
T Consensus 201 --WLLQGHiRT-----------HTGEKPF~C~hC~kAFADRSNLRAHmQTHS~~K~~q 245 (279)
T KOG2462|consen 201 --WLLQGHIRT-----------HTGEKPFSCPHCGKAFADRSNLRAHMQTHSDVKKHQ 245 (279)
T ss_pred --HHhhccccc-----------ccCCCCccCCcccchhcchHHHHHHHHhhcCCcccc
Confidence 889999999 999999999999999999999999999999865443
No 4
>KOG1074 consensus Transcriptional repressor SALM [Transcription]
Probab=99.61 E-value=3.7e-16 Score=167.05 Aligned_cols=56 Identities=16% Similarity=0.153 Sum_probs=48.8
Q ss_pred ccCCCCCCCCcchhhhhccCcchhhhhhccccCCCCccccccCCCccccCCCCCCCCCCchhhhhhhhhccCCCC
Q 038961 324 IEAEHSPDPTADSKLIKSINNENSADHFFVADCDDHRAETSCGAKKKHECPICLKVFPSGQALGGHKRSHLLGGN 398 (457)
Q Consensus 324 ~~C~~C~k~f~~~k~f~~~~~~~L~~H~~~~~~~~~~~~~~H~geKp~~C~~Cgk~F~~~~~L~~H~r~H~~~~~ 398 (457)
..|.+|++.|..+ +.|..|+|+ |+|+|||.|.+|++.|..+.+|+.||.+|.....
T Consensus 880 h~C~vCgk~FsSS--------sALqiH~rT-----------Htg~KPF~C~fC~~aFttrgnLKvHMgtH~w~q~ 935 (958)
T KOG1074|consen 880 HVCNVCGKQFSSS--------AALEIHMRT-----------HTGPKPFFCHFCEEAFTTRGNLKVHMGTHMWVQP 935 (958)
T ss_pred hhhccchhcccch--------HHHHHhhhc-----------CCCCCCccchhhhhhhhhhhhhhhhhccccccCC
Confidence 4677777666644 999999999 9999999999999999999999999999987433
No 5
>KOG3576 consensus Ovo and related transcription factors [Transcription]
Probab=99.24 E-value=7.5e-13 Score=121.45 Aligned_cols=85 Identities=20% Similarity=0.319 Sum_probs=69.6
Q ss_pred CCCCccccCCCCCccCCchhhhhhccccCCccCccccccCCCCCCccCCCCCCCCcchhhhhccCcchhhhhhccccCCC
Q 038961 279 QKRSKFECATCNKIFHSYQALGGHRASHKKIKGCFATKIDSSENSIEAEHSPDPTADSKLIKSINNENSADHFFVADCDD 358 (457)
Q Consensus 279 ~~ekpy~C~~C~K~F~s~~~L~~H~~~H~~~k~~~~~~c~~cekp~~C~~C~k~f~~~k~f~~~~~~~L~~H~~~~~~~~ 358 (457)
.+...|.|.+|+|.|....-|.+|++.|.. .|.|-|..|++.|... -+|++|+|+
T Consensus 113 sd~d~ftCrvCgK~F~lQRmlnrh~kch~~------------vkr~lct~cgkgfndt--------fdlkrh~rt----- 167 (267)
T KOG3576|consen 113 SDQDSFTCRVCGKKFGLQRMLNRHLKCHSD------------VKRHLCTFCGKGFNDT--------FDLKRHTRT----- 167 (267)
T ss_pred CCCCeeeeehhhhhhhHHHHHHHHhhhccH------------HHHHHHhhccCcccch--------hhhhhhhcc-----
Confidence 345568899999999888888889888888 7788888888777644 778889988
Q ss_pred CccccccCCCccccCCCCCCCCCCchhhhhhhh-hcc
Q 038961 359 HRAETSCGAKKKHECPICLKVFPSGQALGGHKR-SHL 394 (457)
Q Consensus 359 ~~~~~~H~geKp~~C~~Cgk~F~~~~~L~~H~r-~H~ 394 (457)
|+|.+||+|..|+|+|.+...|..|.+ +|-
T Consensus 168 ------htgvrpykc~~c~kaftqrcsleshl~kvhg 198 (267)
T KOG3576|consen 168 ------HTGVRPYKCSLCEKAFTQRCSLESHLKKVHG 198 (267)
T ss_pred ------ccCccccchhhhhHHHHhhccHHHHHHHHcC
Confidence 899999999999999998888888854 453
No 6
>KOG3623 consensus Homeobox transcription factor SIP1 [Transcription]
Probab=99.20 E-value=2.6e-12 Score=135.80 Aligned_cols=82 Identities=20% Similarity=0.407 Sum_probs=74.8
Q ss_pred CCCCccccCCCCCccCCchhhhhhccccCCccCccccccCCCCCCccCCCCCCCCcchhhhhccCcchhhhhhccccCCC
Q 038961 279 QKRSKFECATCNKIFHSYQALGGHRASHKKIKGCFATKIDSSENSIEAEHSPDPTADSKLIKSINNENSADHFFVADCDD 358 (457)
Q Consensus 279 ~~ekpy~C~~C~K~F~s~~~L~~H~~~H~~~k~~~~~~c~~cekp~~C~~C~k~f~~~k~f~~~~~~~L~~H~~~~~~~~ 358 (457)
+.+.+|.|+.|.|+|...+.|.+|.--|+| .|||+|.+|.|.| +.. .+|..|+|.
T Consensus 890 te~gmyaCDqCDK~FqKqSSLaRHKYEHsG------------qRPyqC~iCkKAF------KHK--HHLtEHkRL----- 944 (1007)
T KOG3623|consen 890 TEDGMYACDQCDKAFQKQSSLARHKYEHSG------------QRPYQCIICKKAF------KHK--HHLTEHKRL----- 944 (1007)
T ss_pred CccccchHHHHHHHHHhhHHHHHhhhhhcC------------CCCcccchhhHhh------hhh--hhhhhhhhh-----
Confidence 456789999999999999999999999999 9999999965554 444 999999999
Q ss_pred CccccccCCCccccCCCCCCCCCCchhhhhhhh
Q 038961 359 HRAETSCGAKKKHECPICLKVFPSGQALGGHKR 391 (457)
Q Consensus 359 ~~~~~~H~geKp~~C~~Cgk~F~~~~~L~~H~r 391 (457)
|.|||||.|+.|+|+|.....+..||.
T Consensus 945 ------HSGEKPfQCdKClKRFSHSGSYSQHMN 971 (1007)
T KOG3623|consen 945 ------HSGEKPFQCDKCLKRFSHSGSYSQHMN 971 (1007)
T ss_pred ------ccCCCcchhhhhhhhcccccchHhhhc
Confidence 999999999999999999999999984
No 7
>KOG3608 consensus Zn finger proteins [General function prediction only]
Probab=99.15 E-value=5.4e-12 Score=124.12 Aligned_cols=92 Identities=22% Similarity=0.393 Sum_probs=72.5
Q ss_pred hhh-hcCCCCccccCCCCCccCCchhhhhhccccCCccCccccccCCCCCCccCCCCCCCCcchhhhhccCcchhhhhhc
Q 038961 274 FYK-DSQKRSKFECATCNKIFHSYQALGGHRASHKKIKGCFATKIDSSENSIEAEHSPDPTADSKLIKSINNENSADHFF 352 (457)
Q Consensus 274 ~~~-~h~~ekpy~C~~C~K~F~s~~~L~~H~~~H~~~k~~~~~~c~~cekp~~C~~C~k~f~~~k~f~~~~~~~L~~H~~ 352 (457)
|++ .|+..+||+|+.|.+.|...+.|.+|..+|+. -.|+|+..+ |...|+.. ..+.+|++
T Consensus 282 H~r~rHs~dkpfKCd~Cd~~c~~esdL~kH~~~HS~-------------~~y~C~h~~----C~~s~r~~--~q~~~H~~ 342 (467)
T KOG3608|consen 282 HIRYRHSKDKPFKCDECDTRCVRESDLAKHVQVHSK-------------TVYQCEHPD----CHYSVRTY--TQMRRHFL 342 (467)
T ss_pred HHHhhhccCCCccccchhhhhccHHHHHHHHHhccc-------------cceecCCCC----CcHHHHHH--HHHHHHHH
Confidence 544 38889999999999999999999999999985 468888733 23333333 77888988
Q ss_pred cccCCCCccccccCCC--ccccCCCCCCCCCCchhhhhhh-hhcc
Q 038961 353 VADCDDHRAETSCGAK--KKHECPICLKVFPSGQALGGHK-RSHL 394 (457)
Q Consensus 353 ~~~~~~~~~~~~H~ge--Kp~~C~~Cgk~F~~~~~L~~H~-r~H~ 394 (457)
- +|.|. -+|.|..|.|.|.++.+|..|+ |.|.
T Consensus 343 e----------vhEg~np~~Y~CH~Cdr~ft~G~~L~~HL~kkH~ 377 (467)
T KOG3608|consen 343 E----------VHEGNNPILYACHCCDRFFTSGKSLSAHLMKKHG 377 (467)
T ss_pred H----------hccCCCCCceeeecchhhhccchhHHHHHHHhhc
Confidence 6 15554 5799999999999999999994 5554
No 8
>KOG3608 consensus Zn finger proteins [General function prediction only]
Probab=98.99 E-value=4.7e-11 Score=117.57 Aligned_cols=84 Identities=18% Similarity=0.282 Sum_probs=71.6
Q ss_pred CccccCCCCCccCCchhhhhhccc-cCCccCccccccCCCCCCccCCCCCCCCcchhhhhccCcchhhhhhccccCCCCc
Q 038961 282 SKFECATCNKIFHSYQALGGHRAS-HKKIKGCFATKIDSSENSIEAEHSPDPTADSKLIKSINNENSADHFFVADCDDHR 360 (457)
Q Consensus 282 kpy~C~~C~K~F~s~~~L~~H~~~-H~~~k~~~~~~c~~cekp~~C~~C~k~f~~~k~f~~~~~~~L~~H~~~~~~~~~~ 360 (457)
.-|+|+.|.-+....+.|..|++. |.. .|||+|+.|.+.|... +.|.+|..+
T Consensus 262 n~ykCplCdmtc~~~ssL~~H~r~rHs~------------dkpfKCd~Cd~~c~~e--------sdL~kH~~~------- 314 (467)
T KOG3608|consen 262 NCYKCPLCDMTCSSASSLTTHIRYRHSK------------DKPFKCDECDTRCVRE--------SDLAKHVQV------- 314 (467)
T ss_pred hcccccccccCCCChHHHHHHHHhhhcc------------CCCccccchhhhhccH--------HHHHHHHHh-------
Confidence 459999999999999999999874 788 8999999977665433 899999998
Q ss_pred cccccCCCccccCCC--CCCCCCCchhhhhhhhhccCCC
Q 038961 361 AETSCGAKKKHECPI--CLKVFPSGQALGGHKRSHLLGG 397 (457)
Q Consensus 361 ~~~~H~geKp~~C~~--Cgk~F~~~~~L~~H~r~H~~~~ 397 (457)
|. +-.|.|.. |...|++...|.+|++-|..+.
T Consensus 315 ----HS-~~~y~C~h~~C~~s~r~~~q~~~H~~evhEg~ 348 (467)
T KOG3608|consen 315 ----HS-KTVYQCEHPDCHYSVRTYTQMRRHFLEVHEGN 348 (467)
T ss_pred ----cc-ccceecCCCCCcHHHHHHHHHHHHHHHhccCC
Confidence 87 67799988 9999999999999988776443
No 9
>KOG3576 consensus Ovo and related transcription factors [Transcription]
Probab=98.98 E-value=5.9e-11 Score=109.08 Aligned_cols=115 Identities=14% Similarity=0.055 Sum_probs=87.7
Q ss_pred cccccCCCCChhhhhhcCCCCccccCCCCCccCCchhhhhhccccCCccCccccccCCCCCCccCCCCCCCCcchhhhhc
Q 038961 262 LKRSTTDASDAEFYKDSQKRSKFECATCNKIFHSYQALGGHRASHKKIKGCFATKIDSSENSIEAEHSPDPTADSKLIKS 341 (457)
Q Consensus 262 ~~~~~~~~~~~~~~~~h~~ekpy~C~~C~K~F~s~~~L~~H~~~H~~~k~~~~~~c~~cekp~~C~~C~k~f~~~k~f~~ 341 (457)
.|.|.-++.+..|++-|...+.|.|..|||.|.....|++|+|+|+| .+||+|..|+++|+..
T Consensus 124 gK~F~lQRmlnrh~kch~~vkr~lct~cgkgfndtfdlkrh~rthtg------------vrpykc~~c~kaftqr----- 186 (267)
T KOG3576|consen 124 GKKFGLQRMLNRHLKCHSDVKRHLCTFCGKGFNDTFDLKRHTRTHTG------------VRPYKCSLCEKAFTQR----- 186 (267)
T ss_pred hhhhhHHHHHHHHhhhccHHHHHHHhhccCcccchhhhhhhhccccC------------ccccchhhhhHHHHhh-----
Confidence 44455566677899999999999999999999999999999999999 8999999987777632
Q ss_pred cCcchhhhhhccccCCCCccccccCCCccccCCCCCCCCCCchhhhhhhhhccCC
Q 038961 342 INNENSADHFFVADCDDHRAETSCGAKKKHECPICLKVFPSGQALGGHKRSHLLG 396 (457)
Q Consensus 342 ~~~~~L~~H~~~~~~~~~~~~~~H~geKp~~C~~Cgk~F~~~~~L~~H~r~H~~~ 396 (457)
..|..|.+..+.-.+.-.-.-..+|.|.|..||.+-.....+..|++.|...
T Consensus 187 ---csleshl~kvhgv~~~yaykerr~kl~vcedcg~t~~~~e~~~~h~~~~hp~ 238 (267)
T KOG3576|consen 187 ---CSLESHLKKVHGVQHQYAYKERRAKLYVCEDCGYTSERPEVYYLHLKLHHPF 238 (267)
T ss_pred ---ccHHHHHHHHcCchHHHHHHHhhhheeeecccCCCCCChhHHHHHHHhcCCC
Confidence 6677776540000000000012358899999999999998999999988764
No 10
>KOG3623 consensus Homeobox transcription factor SIP1 [Transcription]
Probab=98.92 E-value=3.4e-10 Score=120.08 Aligned_cols=103 Identities=21% Similarity=0.314 Sum_probs=80.6
Q ss_pred Chhhhhh-c-CCCCccccCCCCCccCCchhhhhhccccCCccC-ccccccCCCCCCccCCCCCCCCcchhhhhccCcchh
Q 038961 271 DAEFYKD-S-QKRSKFECATCNKIFHSYQALGGHRASHKKIKG-CFATKIDSSENSIEAEHSPDPTADSKLIKSINNENS 347 (457)
Q Consensus 271 ~~~~~~~-h-~~ekpy~C~~C~K~F~s~~~L~~H~~~H~~~k~-~~~~~c~~cekp~~C~~C~k~f~~~k~f~~~~~~~L 347 (457)
+.+|++. | ..+..|.|..|..+|.++..|.+||.+|..-.. ....+=.-|-|.|+|..|+ |+|+.. .+|
T Consensus 226 lkeHikyrhekne~nfsC~lCsytFAyRtQLErhm~~hkpg~dqa~sltqsa~lRKFKCtECg------KAFKfK--HHL 297 (1007)
T KOG3623|consen 226 LKEHIKYRHEKNEPNFSCMLCSYTFAYRTQLERHMQLHKPGGDQAISLTQSALLRKFKCTECG------KAFKFK--HHL 297 (1007)
T ss_pred HHHHHHHHHhhCCCCCcchhhhhhhhhHHHHHHHHHhhcCCCcccccccchhhhccccccccc------hhhhhH--HHH
Confidence 4466543 3 346679999999999999999999999975221 1122233346889999955 555555 999
Q ss_pred hhhhccccCCCCccccccCCCccccCCCCCCCCCCchhhhhhhhh
Q 038961 348 ADHFFVADCDDHRAETSCGAKKKHECPICLKVFPSGQALGGHKRS 392 (457)
Q Consensus 348 ~~H~~~~~~~~~~~~~~H~geKp~~C~~Cgk~F~~~~~L~~H~r~ 392 (457)
+.|+|+ |.|||||+|+.|+|+|.....+..||-.
T Consensus 298 KEHlRI-----------HSGEKPfeCpnCkKRFSHSGSySSHmSS 331 (1007)
T KOG3623|consen 298 KEHLRI-----------HSGEKPFECPNCKKRFSHSGSYSSHMSS 331 (1007)
T ss_pred Hhhhee-----------ecCCCCcCCcccccccccCCcccccccc
Confidence 999999 9999999999999999999999999744
No 11
>PHA02768 hypothetical protein; Provisional
Probab=98.64 E-value=1.1e-08 Score=75.78 Aligned_cols=25 Identities=24% Similarity=0.484 Sum_probs=24.1
Q ss_pred ccccCCCCcccCCCCchhhHhhhcc
Q 038961 5 KHVCKFCSKSFPCGRSLGGHMRSHM 29 (457)
Q Consensus 5 ~~~Ck~C~K~F~~~~~L~~HmR~H~ 29 (457)
.|.|.+|||+|....+|..|||+|+
T Consensus 5 ~y~C~~CGK~Fs~~~~L~~H~r~H~ 29 (55)
T PHA02768 5 GYECPICGEIYIKRKSMITHLRKHN 29 (55)
T ss_pred ccCcchhCCeeccHHHHHHHHHhcC
Confidence 4899999999999999999999999
No 12
>PHA00733 hypothetical protein
Probab=98.59 E-value=2.6e-08 Score=87.55 Aligned_cols=83 Identities=16% Similarity=0.155 Sum_probs=67.9
Q ss_pred CCCccccCCCCCccCCchhhhhh--ccc---cCCccCccccccCCCCCCccCCCCCCCCcchhhhhccCcchhhhhhccc
Q 038961 280 KRSKFECATCNKIFHSYQALGGH--RAS---HKKIKGCFATKIDSSENSIEAEHSPDPTADSKLIKSINNENSADHFFVA 354 (457)
Q Consensus 280 ~ekpy~C~~C~K~F~s~~~L~~H--~~~---H~~~k~~~~~~c~~cekp~~C~~C~k~f~~~k~f~~~~~~~L~~H~~~~ 354 (457)
..+++.|.+|.+.|.....|..| .+. +.+ .+||.|+.|++.|... ..|..|++.
T Consensus 37 ~~~~~~~~~~~~~~~~~~~l~~~~~l~~~~~~~~------------~kPy~C~~Cgk~Fss~--------s~L~~H~r~- 95 (128)
T PHA00733 37 EQKRLIRAVVKTLIYNPQLLDESSYLYKLLTSKA------------VSPYVCPLCLMPFSSS--------VSLKQHIRY- 95 (128)
T ss_pred hhhhHHHHHHhhhccChhhhcchHHHHhhcccCC------------CCCccCCCCCCcCCCH--------HHHHHHHhc-
Confidence 46789999999999998888776 222 233 7899999988888755 889999987
Q ss_pred cCCCCccccccCCCccccCCCCCCCCCCchhhhhhhhhccC
Q 038961 355 DCDDHRAETSCGAKKKHECPICLKVFPSGQALGGHKRSHLL 395 (457)
Q Consensus 355 ~~~~~~~~~~H~geKp~~C~~Cgk~F~~~~~L~~H~r~H~~ 395 (457)
| +++|.|++|++.|.+...|..|++..++
T Consensus 96 ----------h--~~~~~C~~CgK~F~~~~sL~~H~~~~h~ 124 (128)
T PHA00733 96 ----------T--EHSKVCPVCGKEFRNTDSTLDHVCKKHN 124 (128)
T ss_pred ----------C--CcCccCCCCCCccCCHHHHHHHHHHhcC
Confidence 5 4579999999999999999999877554
No 13
>PHA02768 hypothetical protein; Provisional
Probab=98.22 E-value=4.1e-07 Score=67.38 Aligned_cols=44 Identities=7% Similarity=-0.005 Sum_probs=37.2
Q ss_pred CccCCCCCCCCcchhhhhccCcchhhhhhccccCCCCccccccCCCccccCCCCCCCCCCchhhh
Q 038961 323 SIEAEHSPDPTADSKLIKSINNENSADHFFVADCDDHRAETSCGAKKKHECPICLKVFPSGQALG 387 (457)
Q Consensus 323 p~~C~~C~k~f~~~k~f~~~~~~~L~~H~~~~~~~~~~~~~~H~geKp~~C~~Cgk~F~~~~~L~ 387 (457)
.|+|+.|++.|+.. ++|..|+++ |+ +||+|..|++.|.+.+.|.
T Consensus 5 ~y~C~~CGK~Fs~~--------~~L~~H~r~-----------H~--k~~kc~~C~k~f~~~s~l~ 48 (55)
T PHA02768 5 GYECPICGEIYIKR--------KSMITHLRK-----------HN--TNLKLSNCKRISLRTGEYI 48 (55)
T ss_pred ccCcchhCCeeccH--------HHHHHHHHh-----------cC--CcccCCcccceecccceeE
Confidence 47888888777755 889999999 87 7999999999999888774
No 14
>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=98.17 E-value=3.4e-07 Score=57.78 Aligned_cols=26 Identities=31% Similarity=0.540 Sum_probs=23.8
Q ss_pred hhhhhhccccCCCCccccccCCCccccCCCCCCCCCC
Q 038961 346 NSADHFFVADCDDHRAETSCGAKKKHECPICLKVFPS 382 (457)
Q Consensus 346 ~L~~H~~~~~~~~~~~~~~H~geKp~~C~~Cgk~F~~ 382 (457)
+|.+|+++ |+|+|||.|++|++.|.+
T Consensus 1 ~l~~H~~~-----------H~~~k~~~C~~C~k~F~~ 26 (26)
T PF13465_consen 1 NLRRHMRT-----------HTGEKPYKCPYCGKSFSN 26 (26)
T ss_dssp HHHHHHHH-----------HSSSSSEEESSSSEEESS
T ss_pred CHHHHhhh-----------cCCCCCCCCCCCcCeeCc
Confidence 47899999 999999999999999964
No 15
>PLN03086 PRLI-interacting factor K; Provisional
Probab=98.03 E-value=3.4e-06 Score=90.34 Aligned_cols=86 Identities=15% Similarity=0.282 Sum_probs=42.4
Q ss_pred hhhhcCCCCccccCCCCCccCCchhhhhhccccCCccCccccccCCCCCCccCCCCCCCCcchhh---hhccCcchhhhh
Q 038961 274 FYKDSQKRSKFECATCNKIFHSYQALGGHRASHKKIKGCFATKIDSSENSIEAEHSPDPTADSKL---IKSINNENSADH 350 (457)
Q Consensus 274 ~~~~h~~ekpy~C~~C~K~F~s~~~L~~H~~~H~~~k~~~~~~c~~cekp~~C~~C~k~f~~~k~---f~~~~~~~L~~H 350 (457)
|+++++ +||.|. ||+.| .+..|..|+++|.. .+++.|.+|+..|..+.. +.. ....|..|
T Consensus 471 H~~~~H--kpv~Cp-Cg~~~-~R~~L~~H~~thCp------------~Kpi~C~fC~~~v~~g~~~~d~~d-~~s~Lt~H 533 (567)
T PLN03086 471 HMKVFH--EPLQCP-CGVVL-EKEQMVQHQASTCP------------LRLITCRFCGDMVQAGGSAMDVRD-RLRGMSEH 533 (567)
T ss_pred HHHhcC--CCccCC-CCCCc-chhHHHhhhhccCC------------CCceeCCCCCCccccCccccchhh-hhhhHHHH
Confidence 444432 455555 55433 33455555555555 566666666555431100 000 00345666
Q ss_pred hccccCCCCccccccCCCccccCCCCCCCCCCchhhhhh
Q 038961 351 FFVADCDDHRAETSCGAKKKHECPICLKVFPSGQALGGH 389 (457)
Q Consensus 351 ~~~~~~~~~~~~~~H~geKp~~C~~Cgk~F~~~~~L~~H 389 (457)
..+ + |.+++.|..||+.|..+ .|..|
T Consensus 534 E~~-----------C-G~rt~~C~~Cgk~Vrlr-dm~~H 559 (567)
T PLN03086 534 ESI-----------C-GSRTAPCDSCGRSVMLK-EMDIH 559 (567)
T ss_pred HHh-----------c-CCcceEccccCCeeeeh-hHHHH
Confidence 655 3 66666666666666554 34455
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=97.96 E-value=2.6e-06 Score=53.76 Aligned_cols=12 Identities=33% Similarity=0.717 Sum_probs=10.5
Q ss_pred cccccccCCccC
Q 038961 82 QQQQLCGKGFVS 93 (457)
Q Consensus 82 ~~C~~CgK~F~s 93 (457)
|.|++|+|.|.+
T Consensus 15 ~~C~~C~k~F~~ 26 (26)
T PF13465_consen 15 YKCPYCGKSFSN 26 (26)
T ss_dssp EEESSSSEEESS
T ss_pred CCCCCCcCeeCc
Confidence 789999999974
No 17
>PHA00733 hypothetical protein
Probab=97.92 E-value=3.1e-06 Score=74.49 Aligned_cols=26 Identities=31% Similarity=0.490 Sum_probs=15.7
Q ss_pred CcccccCCCCcccCCCCchhhHhhhc
Q 038961 3 EFKHVCKFCSKSFPCGRSLGGHMRSH 28 (457)
Q Consensus 3 ek~~~Ck~C~K~F~~~~~L~~HmR~H 28 (457)
+++|.|+.|++.|.+...|..|+++|
T Consensus 71 ~kPy~C~~Cgk~Fss~s~L~~H~r~h 96 (128)
T PHA00733 71 VSPYVCPLCLMPFSSSVSLKQHIRYT 96 (128)
T ss_pred CCCccCCCCCCcCCCHHHHHHHHhcC
Confidence 45566666666666666666666654
No 18
>PHA00732 hypothetical protein
Probab=97.91 E-value=4.3e-06 Score=67.27 Aligned_cols=25 Identities=24% Similarity=0.333 Sum_probs=23.0
Q ss_pred ccccCCCCcccCCCCchhhHhhh-cc
Q 038961 5 KHVCKFCSKSFPCGRSLGGHMRS-HM 29 (457)
Q Consensus 5 ~~~Ck~C~K~F~~~~~L~~HmR~-H~ 29 (457)
||.|.+|++.|....+|..||+. |.
T Consensus 1 py~C~~Cgk~F~s~s~Lk~H~r~~H~ 26 (79)
T PHA00732 1 MFKCPICGFTTVTLFALKQHARRNHT 26 (79)
T ss_pred CccCCCCCCccCCHHHHHHHhhcccC
Confidence 68999999999999999999995 66
No 19
>PLN03086 PRLI-interacting factor K; Provisional
Probab=97.79 E-value=1.8e-05 Score=84.90 Aligned_cols=80 Identities=13% Similarity=0.311 Sum_probs=63.4
Q ss_pred cCCCCccccCCCCCccCCchhhhhhccccCCccCccccccCCCCCCccCCCCCCCCcchhhhhccCcchhhhhhccccCC
Q 038961 278 SQKRSKFECATCNKIFHSYQALGGHRASHKKIKGCFATKIDSSENSIEAEHSPDPTADSKLIKSINNENSADHFFVADCD 357 (457)
Q Consensus 278 h~~ekpy~C~~C~K~F~s~~~L~~H~~~H~~~k~~~~~~c~~cekp~~C~~C~k~f~~~k~f~~~~~~~L~~H~~~~~~~ 357 (457)
..-++.+.|+.|++.|. ...|..|+.+|+. ++.|. |++.+. +..|..|+.+
T Consensus 448 ~el~~H~~C~~Cgk~f~-~s~LekH~~~~Hk--------------pv~Cp-Cg~~~~---------R~~L~~H~~t---- 498 (567)
T PLN03086 448 EEAKNHVHCEKCGQAFQ-QGEMEKHMKVFHE--------------PLQCP-CGVVLE---------KEQMVQHQAS---- 498 (567)
T ss_pred cccccCccCCCCCCccc-hHHHHHHHHhcCC--------------CccCC-CCCCcc---------hhHHHhhhhc----
Confidence 34456689999999996 6789999998754 67777 764331 2789999998
Q ss_pred CCccccccCCCccccCCCCCCCCCCc----------hhhhhhhhhc
Q 038961 358 DHRAETSCGAKKKHECPICLKVFPSG----------QALGGHKRSH 393 (457)
Q Consensus 358 ~~~~~~~H~geKp~~C~~Cgk~F~~~----------~~L~~H~r~H 393 (457)
|..+||+.|+.|++.|..+ ..|..|..++
T Consensus 499 -------hCp~Kpi~C~fC~~~v~~g~~~~d~~d~~s~Lt~HE~~C 537 (567)
T PLN03086 499 -------TCPLRLITCRFCGDMVQAGGSAMDVRDRLRGMSEHESIC 537 (567)
T ss_pred -------cCCCCceeCCCCCCccccCccccchhhhhhhHHHHHHhc
Confidence 9999999999999999633 4788998875
No 20
>KOG3993 consensus Transcription factor (contains Zn finger) [Transcription]
Probab=97.70 E-value=6.4e-06 Score=83.61 Aligned_cols=29 Identities=24% Similarity=0.319 Sum_probs=25.6
Q ss_pred ccccCCCCCCCCCCchhhhhhhhhccCCC
Q 038961 369 KKHECPICLKVFPSGQALGGHKRSHLLGG 397 (457)
Q Consensus 369 Kp~~C~~Cgk~F~~~~~L~~H~r~H~~~~ 397 (457)
--|.|.+|+|.|.+...|+.|+-+|....
T Consensus 355 gi~~C~~C~KkFrRqAYLrKHqlthq~~~ 383 (500)
T KOG3993|consen 355 GIFSCHTCGKKFRRQAYLRKHQLTHQRAP 383 (500)
T ss_pred ceeecHHhhhhhHHHHHHHHhHHhhhccc
Confidence 36999999999999999999998887543
No 21
>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=97.67 E-value=8.1e-06 Score=49.64 Aligned_cols=23 Identities=43% Similarity=0.798 Sum_probs=22.1
Q ss_pred cccCCCCcccCCCCchhhHhhhc
Q 038961 6 HVCKFCSKSFPCGRSLGGHMRSH 28 (457)
Q Consensus 6 ~~Ck~C~K~F~~~~~L~~HmR~H 28 (457)
|+|.+|+++|.....|..||+.|
T Consensus 1 y~C~~C~~~f~~~~~l~~H~~~H 23 (23)
T PF00096_consen 1 YKCPICGKSFSSKSNLKRHMRRH 23 (23)
T ss_dssp EEETTTTEEESSHHHHHHHHHHH
T ss_pred CCCCCCCCccCCHHHHHHHHhHC
Confidence 78999999999999999999987
No 22
>PHA00616 hypothetical protein
Probab=97.64 E-value=1.1e-05 Score=57.08 Aligned_cols=34 Identities=26% Similarity=0.481 Sum_probs=32.0
Q ss_pred ccccCCCCCccCCchhhhhhccccCCccCccccccCCCCCCccCCC
Q 038961 283 KFECATCNKIFHSYQALGGHRASHKKIKGCFATKIDSSENSIEAEH 328 (457)
Q Consensus 283 py~C~~C~K~F~s~~~L~~H~~~H~~~k~~~~~~c~~cekp~~C~~ 328 (457)
||+|..||+.|...+.|..|++.|++ ++++.|++
T Consensus 1 pYqC~~CG~~F~~~s~l~~H~r~~hg------------~~~~~~~~ 34 (44)
T PHA00616 1 MYQCLRCGGIFRKKKEVIEHLLSVHK------------QNKLTLEY 34 (44)
T ss_pred CCccchhhHHHhhHHHHHHHHHHhcC------------CCccceeE
Confidence 69999999999999999999999999 88888875
No 23
>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=97.39 E-value=4e-05 Score=46.52 Aligned_cols=23 Identities=48% Similarity=0.823 Sum_probs=21.8
Q ss_pred ccCCCCCCCCCCchhhhhhhhhc
Q 038961 371 HECPICLKVFPSGQALGGHKRSH 393 (457)
Q Consensus 371 ~~C~~Cgk~F~~~~~L~~H~r~H 393 (457)
|.|++|++.|.+...|..|++.|
T Consensus 1 y~C~~C~~~f~~~~~l~~H~~~H 23 (23)
T PF00096_consen 1 YKCPICGKSFSSKSNLKRHMRRH 23 (23)
T ss_dssp EEETTTTEEESSHHHHHHHHHHH
T ss_pred CCCCCCCCccCCHHHHHHHHhHC
Confidence 78999999999999999999886
No 24
>PHA00616 hypothetical protein
Probab=97.35 E-value=5.6e-05 Score=53.48 Aligned_cols=28 Identities=18% Similarity=0.173 Sum_probs=26.3
Q ss_pred cccCCCCCCCCCCchhhhhhhhhccCCC
Q 038961 370 KHECPICLKVFPSGQALGGHKRSHLLGG 397 (457)
Q Consensus 370 p~~C~~Cgk~F~~~~~L~~H~r~H~~~~ 397 (457)
||+|+.||+.|...+.|..|++.|++..
T Consensus 1 pYqC~~CG~~F~~~s~l~~H~r~~hg~~ 28 (44)
T PHA00616 1 MYQCLRCGGIFRKKKEVIEHLLSVHKQN 28 (44)
T ss_pred CCccchhhHHHhhHHHHHHHHHHhcCCC
Confidence 7999999999999999999999999863
No 25
>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=97.24 E-value=6.5e-05 Score=47.48 Aligned_cols=25 Identities=36% Similarity=0.599 Sum_probs=23.9
Q ss_pred ccccCCCCcccCCCCchhhHhhhcc
Q 038961 5 KHVCKFCSKSFPCGRSLGGHMRSHM 29 (457)
Q Consensus 5 ~~~Ck~C~K~F~~~~~L~~HmR~H~ 29 (457)
+|.|++|++.|.+..+|..|||.|.
T Consensus 1 ~~~C~~C~~~F~~~~~l~~H~~~h~ 25 (27)
T PF13912_consen 1 PFECDECGKTFSSLSALREHKRSHC 25 (27)
T ss_dssp SEEETTTTEEESSHHHHHHHHCTTT
T ss_pred CCCCCccCCccCChhHHHHHhHHhc
Confidence 6899999999999999999999996
No 26
>PHA00732 hypothetical protein
Probab=97.24 E-value=0.00018 Score=57.82 Aligned_cols=37 Identities=19% Similarity=0.270 Sum_probs=31.3
Q ss_pred ccccCCCCCccCCchhhhhhccc-cCCccCccccccCCCCCCccCCCCCCCCc
Q 038961 283 KFECATCNKIFHSYQALGGHRAS-HKKIKGCFATKIDSSENSIEAEHSPDPTA 334 (457)
Q Consensus 283 py~C~~C~K~F~s~~~L~~H~~~-H~~~k~~~~~~c~~cekp~~C~~C~k~f~ 334 (457)
||.|..|++.|.+...|..|++. |.+ +.|+.|++.|.
T Consensus 1 py~C~~Cgk~F~s~s~Lk~H~r~~H~~---------------~~C~~CgKsF~ 38 (79)
T PHA00732 1 MFKCPICGFTTVTLFALKQHARRNHTL---------------TKCPVCNKSYR 38 (79)
T ss_pred CccCCCCCCccCCHHHHHHHhhcccCC---------------CccCCCCCEeC
Confidence 68999999999999999999985 654 36888887774
No 27
>KOG3993 consensus Transcription factor (contains Zn finger) [Transcription]
Probab=97.12 E-value=0.00013 Score=74.29 Aligned_cols=80 Identities=23% Similarity=0.358 Sum_probs=47.9
Q ss_pred cccCCCCcccCCCCchhhHhhhccCCCCCCCcccchhhhhccCCCCCCCCCCCCCCcCCCCccccccccCCCc-cccccc
Q 038961 6 HVCKFCSKSFPCGRSLGGHMRSHMITVTETTDGHHKQLAKKKLPSVNNTETNGYGLRENPKKSKRIADSSENN-SSQQQQ 84 (457)
Q Consensus 6 ~~Ck~C~K~F~~~~~L~~HmR~H~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~lre~P~kt~r~~~~~~~~-~~~~~C 84 (457)
|+|..|+|.|.|.-+|-.|.|+|--..-......++... ++++ .-..+|+++ ++.+. +.-|.|
T Consensus 296 YrCPEC~KVFsCPANLASHRRWHKPR~eaa~a~~~P~k~-----~~~~----rae~~ea~r-------sg~dss~gi~~C 359 (500)
T KOG3993|consen 296 YRCPECDKVFSCPANLASHRRWHKPRPEAAKAGSPPPKQ-----AVET----RAEVQEAER-------SGDDSSSGIFSC 359 (500)
T ss_pred ecCCcccccccCchhhhhhhcccCCchhhhhcCCCChhh-----hhhh----hhhhhhccc-------cCCcccCceeec
Confidence 899999999999999999999998443221111110000 0000 001123321 11111 225899
Q ss_pred ccccCCccCCccccccc
Q 038961 85 QLCGKGFVSWKPMKCNS 101 (457)
Q Consensus 85 ~~CgK~F~s~~~mr~Hs 101 (457)
.+|||.|.+..-||-|.
T Consensus 360 ~~C~KkFrRqAYLrKHq 376 (500)
T KOG3993|consen 360 HTCGKKFRRQAYLRKHQ 376 (500)
T ss_pred HHhhhhhHHHHHHHHhH
Confidence 99999999887788884
No 28
>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=97.11 E-value=0.00014 Score=45.85 Aligned_cols=26 Identities=50% Similarity=0.639 Sum_probs=24.4
Q ss_pred cccCCCCCCCCCCchhhhhhhhhccC
Q 038961 370 KHECPICLKVFPSGQALGGHKRSHLL 395 (457)
Q Consensus 370 p~~C~~Cgk~F~~~~~L~~H~r~H~~ 395 (457)
||+|.+|++.|.+..+|..|++.|..
T Consensus 1 ~~~C~~C~~~F~~~~~l~~H~~~h~~ 26 (27)
T PF13912_consen 1 PFECDECGKTFSSLSALREHKRSHCS 26 (27)
T ss_dssp SEEETTTTEEESSHHHHHHHHCTTTT
T ss_pred CCCCCccCCccCChhHHHHHhHHhcC
Confidence 68999999999999999999999875
No 29
>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=97.08 E-value=0.00013 Score=44.23 Aligned_cols=23 Identities=43% Similarity=0.829 Sum_probs=19.9
Q ss_pred cccCCCCcccCCCCchhhHhhhc
Q 038961 6 HVCKFCSKSFPCGRSLGGHMRSH 28 (457)
Q Consensus 6 ~~Ck~C~K~F~~~~~L~~HmR~H 28 (457)
|.|.+|++.|.+...|..||++|
T Consensus 1 ~~C~~C~~~~~~~~~l~~H~~~~ 23 (24)
T PF13894_consen 1 FQCPICGKSFRSKSELRQHMRTH 23 (24)
T ss_dssp EE-SSTS-EESSHHHHHHHHHHH
T ss_pred CCCcCCCCcCCcHHHHHHHHHhh
Confidence 78999999999999999999976
No 30
>COG5189 SFP1 Putative transcriptional repressor regulating G2/M transition [Transcription / Cell division and chromosome partitioning]
Probab=96.98 E-value=0.0003 Score=69.32 Aligned_cols=71 Identities=20% Similarity=0.394 Sum_probs=47.4
Q ss_pred CCCCccccCC--CCCccCCchhhhhhccc-cCCccCccccccCCCCCCccCCCCCCCCcchhhhhccCcchhhhhhcccc
Q 038961 279 QKRSKFECAT--CNKIFHSYQALGGHRAS-HKKIKGCFATKIDSSENSIEAEHSPDPTADSKLIKSINNENSADHFFVAD 355 (457)
Q Consensus 279 ~~ekpy~C~~--C~K~F~s~~~L~~H~~~-H~~~k~~~~~~c~~cekp~~C~~C~k~f~~~k~f~~~~~~~L~~H~~~~~ 355 (457)
.++|||+|++ |.|++....-|+.|+.- |.. .+...-+- -..|.-.
T Consensus 345 ~d~KpykCpV~gC~K~YknqnGLKYH~lhGH~~------------~~~~~~p~------------------p~~~~~F-- 392 (423)
T COG5189 345 KDGKPYKCPVEGCNKKYKNQNGLKYHMLHGHQN------------QKLHENPS------------------PEKMNIF-- 392 (423)
T ss_pred ecCceecCCCCCchhhhccccchhhhhhccccC------------cccCCCCC------------------ccccccc--
Confidence 3469999987 99999999999998763 322 11111100 0011111
Q ss_pred CCCCccccccCCCccccCCCCCCCCCCchhhhhhh
Q 038961 356 CDDHRAETSCGAKKKHECPICLKVFPSGQALGGHK 390 (457)
Q Consensus 356 ~~~~~~~~~H~geKp~~C~~Cgk~F~~~~~L~~H~ 390 (457)
-...|||+|++|+|.+.....|+.|+
T Consensus 393 ---------~~~~KPYrCevC~KRYKNlNGLKYHr 418 (423)
T COG5189 393 ---------SAKDKPYRCEVCDKRYKNLNGLKYHR 418 (423)
T ss_pred ---------cccCCceeccccchhhccCccceecc
Confidence 23469999999999999999999885
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=96.83 E-value=0.00042 Score=41.84 Aligned_cols=24 Identities=46% Similarity=0.809 Sum_probs=20.2
Q ss_pred ccCCCCCCCCCCchhhhhhhhhcc
Q 038961 371 HECPICLKVFPSGQALGGHKRSHL 394 (457)
Q Consensus 371 ~~C~~Cgk~F~~~~~L~~H~r~H~ 394 (457)
|.|++|++.|.+...|..|+++|.
T Consensus 1 ~~C~~C~~~~~~~~~l~~H~~~~H 24 (24)
T PF13894_consen 1 FQCPICGKSFRSKSELRQHMRTHH 24 (24)
T ss_dssp EE-SSTS-EESSHHHHHHHHHHHS
T ss_pred CCCcCCCCcCCcHHHHHHHHHhhC
Confidence 789999999999999999998873
No 32
>smart00355 ZnF_C2H2 zinc finger.
Probab=96.71 E-value=0.00051 Score=42.03 Aligned_cols=24 Identities=38% Similarity=0.632 Sum_probs=22.8
Q ss_pred cccCCCCcccCCCCchhhHhhhcc
Q 038961 6 HVCKFCSKSFPCGRSLGGHMRSHM 29 (457)
Q Consensus 6 ~~Ck~C~K~F~~~~~L~~HmR~H~ 29 (457)
|.|..|++.|.....|..||++|.
T Consensus 1 ~~C~~C~~~f~~~~~l~~H~~~H~ 24 (26)
T smart00355 1 YRCPECGKVFKSKSALKEHMRTHX 24 (26)
T ss_pred CCCCCCcchhCCHHHHHHHHHHhc
Confidence 689999999999999999999987
No 33
>PF12756 zf-C2H2_2: C2H2 type zinc-finger (2 copies); PDB: 2DMI_A.
Probab=96.68 E-value=0.00064 Score=55.97 Aligned_cols=73 Identities=25% Similarity=0.404 Sum_probs=22.0
Q ss_pred ccCCCCCccCCchhhhhhccccCCccCccccccCCCCCCccCCCCCCCCcchhhhhccCcchhhhhhccccCCCCccccc
Q 038961 285 ECATCNKIFHSYQALGGHRASHKKIKGCFATKIDSSENSIEAEHSPDPTADSKLIKSINNENSADHFFVADCDDHRAETS 364 (457)
Q Consensus 285 ~C~~C~K~F~s~~~L~~H~~~H~~~k~~~~~~c~~cekp~~C~~C~k~f~~~k~f~~~~~~~L~~H~~~~~~~~~~~~~~ 364 (457)
+|..|+..|.+...|..|+....+.. -+ .... +... ..+..+.+.
T Consensus 1 ~C~~C~~~f~~~~~l~~H~~~~H~~~-----------~~-~~~~----------l~~~--~~~~~~~~~----------- 45 (100)
T PF12756_consen 1 QCLFCDESFSSVDDLLQHMKKKHGFD-----------IP-DQKY----------LVDP--NRLLNYLRK----------- 45 (100)
T ss_dssp --------------------------------------------------------------------------------
T ss_pred Cccccccccccccccccccccccccc-----------cc-cccc----------cccc--ccccccccc-----------
Confidence 59999999999999999997655411 11 0000 0000 222222221
Q ss_pred cCCCccccCCCCCCCCCCchhhhhhhhhc
Q 038961 365 CGAKKKHECPICLKVFPSGQALGGHKRSH 393 (457)
Q Consensus 365 H~geKp~~C~~Cgk~F~~~~~L~~H~r~H 393 (457)
.-...+.|.+|++.|.+..+|..||+.+
T Consensus 46 -~~~~~~~C~~C~~~f~s~~~l~~Hm~~~ 73 (100)
T PF12756_consen 46 -KVKESFRCPYCNKTFRSREALQEHMRSK 73 (100)
T ss_dssp ----SSEEBSSSS-EESSHHHHHHHHHHT
T ss_pred -ccCCCCCCCccCCCCcCHHHHHHHHcCc
Confidence 1123699999999999999999999975
No 34
>PF12874 zf-met: Zinc-finger of C2H2 type; PDB: 1ZU1_A 2KVG_A.
Probab=96.55 E-value=0.0005 Score=42.50 Aligned_cols=24 Identities=42% Similarity=0.773 Sum_probs=22.2
Q ss_pred cccCCCCcccCCCCchhhHhhhcc
Q 038961 6 HVCKFCSKSFPCGRSLGGHMRSHM 29 (457)
Q Consensus 6 ~~Ck~C~K~F~~~~~L~~HmR~H~ 29 (457)
|.|++|++.|.+...|..||++|.
T Consensus 1 ~~C~~C~~~f~s~~~~~~H~~s~~ 24 (25)
T PF12874_consen 1 FYCDICNKSFSSENSLRQHLRSKK 24 (25)
T ss_dssp EEETTTTEEESSHHHHHHHHTTHH
T ss_pred CCCCCCCCCcCCHHHHHHHHCcCC
Confidence 689999999999999999999863
No 35
>smart00355 ZnF_C2H2 zinc finger.
Probab=96.24 E-value=0.0025 Score=38.86 Aligned_cols=25 Identities=48% Similarity=0.753 Sum_probs=22.9
Q ss_pred ccCCCCCCCCCCchhhhhhhhhccC
Q 038961 371 HECPICLKVFPSGQALGGHKRSHLL 395 (457)
Q Consensus 371 ~~C~~Cgk~F~~~~~L~~H~r~H~~ 395 (457)
|.|+.|++.|.....|..|++.|..
T Consensus 1 ~~C~~C~~~f~~~~~l~~H~~~H~~ 25 (26)
T smart00355 1 YRCPECGKVFKSKSALKEHMRTHXX 25 (26)
T ss_pred CCCCCCcchhCCHHHHHHHHHHhcc
Confidence 6899999999999999999998864
No 36
>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=96.21 E-value=0.0034 Score=46.63 Aligned_cols=51 Identities=20% Similarity=0.219 Sum_probs=37.3
Q ss_pred CccCCCCCCCCcchhhhhccCcchhhhhhccccCCCCccccccCCC-ccccCCCCCCCCCCchhhhhhhhhcc
Q 038961 323 SIEAEHSPDPTADSKLIKSINNENSADHFFVADCDDHRAETSCGAK-KKHECPICLKVFPSGQALGGHKRSHL 394 (457)
Q Consensus 323 p~~C~~C~k~f~~~k~f~~~~~~~L~~H~~~~~~~~~~~~~~H~ge-Kp~~C~~Cgk~F~~~~~L~~H~r~H~ 394 (457)
.|.|++|++.|. . ..|..|.... |..+ +.+.||+|...+. .+|..|++.+.
T Consensus 2 ~f~CP~C~~~~~-~--------~~L~~H~~~~----------H~~~~~~v~CPiC~~~~~--~~l~~Hl~~~H 53 (54)
T PF05605_consen 2 SFTCPYCGKGFS-E--------SSLVEHCEDE----------HRSESKNVVCPICSSRVT--DNLIRHLNSQH 53 (54)
T ss_pred CcCCCCCCCccC-H--------HHHHHHHHhH----------CcCCCCCccCCCchhhhh--hHHHHHHHHhc
Confidence 477888776433 1 6788887761 6665 6799999998755 48999988764
No 37
>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=96.17 E-value=0.001 Score=42.07 Aligned_cols=24 Identities=33% Similarity=0.670 Sum_probs=21.7
Q ss_pred ccccCCCCcccCCCCchhhHhhhc
Q 038961 5 KHVCKFCSKSFPCGRSLGGHMRSH 28 (457)
Q Consensus 5 ~~~Ck~C~K~F~~~~~L~~HmR~H 28 (457)
.|.|.+|+|.|.+..+|..||+++
T Consensus 1 q~~C~~C~k~f~~~~~~~~H~~sk 24 (27)
T PF12171_consen 1 QFYCDACDKYFSSENQLKQHMKSK 24 (27)
T ss_dssp -CBBTTTTBBBSSHHHHHCCTTSH
T ss_pred CCCcccCCCCcCCHHHHHHHHccC
Confidence 478999999999999999999874
No 38
>COG5189 SFP1 Putative transcriptional repressor regulating G2/M transition [Transcription / Cell division and chromosome partitioning]
Probab=96.08 E-value=0.005 Score=60.94 Aligned_cols=24 Identities=25% Similarity=0.383 Sum_probs=22.5
Q ss_pred CcccccCC--CCcccCCCCchhhHhh
Q 038961 3 EFKHVCKF--CSKSFPCGRSLGGHMR 26 (457)
Q Consensus 3 ek~~~Ck~--C~K~F~~~~~L~~HmR 26 (457)
+|||+|.+ |+|.+.++.-|+-||.
T Consensus 347 ~KpykCpV~gC~K~YknqnGLKYH~l 372 (423)
T COG5189 347 GKPYKCPVEGCNKKYKNQNGLKYHML 372 (423)
T ss_pred CceecCCCCCchhhhccccchhhhhh
Confidence 59999987 9999999999999996
No 39
>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=95.33 E-value=0.011 Score=43.89 Aligned_cols=49 Identities=20% Similarity=0.316 Sum_probs=35.9
Q ss_pred ccccCCCCCccCCchhhhhhcc-ccCCccCccccccCCCCCCccCCCCCCCCcchhhhhccCcchhhhhhcc
Q 038961 283 KFECATCNKIFHSYQALGGHRA-SHKKIKGCFATKIDSSENSIEAEHSPDPTADSKLIKSINNENSADHFFV 353 (457)
Q Consensus 283 py~C~~C~K~F~s~~~L~~H~~-~H~~~k~~~~~~c~~cekp~~C~~C~k~f~~~k~f~~~~~~~L~~H~~~ 353 (457)
.|.|++|++ ..+...|..|.. .|... .+.+.|++|...+. .+|..|+..
T Consensus 2 ~f~CP~C~~-~~~~~~L~~H~~~~H~~~-----------~~~v~CPiC~~~~~----------~~l~~Hl~~ 51 (54)
T PF05605_consen 2 SFTCPYCGK-GFSESSLVEHCEDEHRSE-----------SKNVVCPICSSRVT----------DNLIRHLNS 51 (54)
T ss_pred CcCCCCCCC-ccCHHHHHHHHHhHCcCC-----------CCCccCCCchhhhh----------hHHHHHHHH
Confidence 389999999 556788999965 46652 35788999864332 578888875
No 40
>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=95.17 E-value=0.011 Score=43.10 Aligned_cols=31 Identities=23% Similarity=0.449 Sum_probs=22.4
Q ss_pred cCCCccccCCCCCCCCCCchhhhhhhhhccC
Q 038961 365 CGAKKKHECPICLKVFPSGQALGGHKRSHLL 395 (457)
Q Consensus 365 H~geKp~~C~~Cgk~F~~~~~L~~H~r~H~~ 395 (457)
+..+.|..|++|+..+.+..+|++|+..+++
T Consensus 19 ~~S~~PatCP~C~a~~~~srnLrRHle~~H~ 49 (54)
T PF09237_consen 19 SQSEQPATCPICGAVIRQSRNLRRHLEIRHF 49 (54)
T ss_dssp CTTS--EE-TTT--EESSHHHHHHHHHHHTT
T ss_pred hccCCCCCCCcchhhccchhhHHHHHHHHhc
Confidence 4457899999999999999999999977665
No 41
>PF12874 zf-met: Zinc-finger of C2H2 type; PDB: 1ZU1_A 2KVG_A.
Probab=94.78 E-value=0.0086 Score=36.85 Aligned_cols=23 Identities=43% Similarity=0.677 Sum_probs=21.2
Q ss_pred ccCCCCCCCCCCchhhhhhhhhc
Q 038961 371 HECPICLKVFPSGQALGGHKRSH 393 (457)
Q Consensus 371 ~~C~~Cgk~F~~~~~L~~H~r~H 393 (457)
|.|.+|++.|.+...|..|++.+
T Consensus 1 ~~C~~C~~~f~s~~~~~~H~~s~ 23 (25)
T PF12874_consen 1 FYCDICNKSFSSENSLRQHLRSK 23 (25)
T ss_dssp EEETTTTEEESSHHHHHHHHTTH
T ss_pred CCCCCCCCCcCCHHHHHHHHCcC
Confidence 68999999999999999999875
No 42
>PF12756 zf-C2H2_2: C2H2 type zinc-finger (2 copies); PDB: 2DMI_A.
Probab=94.18 E-value=0.0092 Score=48.95 Aligned_cols=71 Identities=23% Similarity=0.348 Sum_probs=18.0
Q ss_pred ccCCCCcccCCCCchhhHhh-hccCCCCCCCcccchhhhhccCCCCCCCCCCCCCCcCCCCccccccccCCCcccccccc
Q 038961 7 VCKFCSKSFPCGRSLGGHMR-SHMITVTETTDGHHKQLAKKKLPSVNNTETNGYGLRENPKKSKRIADSSENNSSQQQQQ 85 (457)
Q Consensus 7 ~Ck~C~K~F~~~~~L~~HmR-~H~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~lre~P~kt~r~~~~~~~~~~~~~C~ 85 (457)
.|.+|+..|.....|..||+ .|....+.... +. .......-++..- ...+.|.
T Consensus 1 ~C~~C~~~f~~~~~l~~H~~~~H~~~~~~~~~----------l~---~~~~~~~~~~~~~-------------~~~~~C~ 54 (100)
T PF12756_consen 1 QCLFCDESFSSVDDLLQHMKKKHGFDIPDQKY----------LV---DPNRLLNYLRKKV-------------KESFRCP 54 (100)
T ss_dssp --------------------------------------------------------------------------SSEEBS
T ss_pred Cccccccccccccccccccccccccccccccc----------cc---ccccccccccccc-------------CCCCCCC
Confidence 49999999999999999996 66532221000 00 0000000011110 0127899
Q ss_pred cccCCccCCccccccccc
Q 038961 86 LCGKGFVSWKPMKCNSEK 103 (457)
Q Consensus 86 ~CgK~F~s~~~mr~Hs~~ 103 (457)
+|++.|.+..+++.|...
T Consensus 55 ~C~~~f~s~~~l~~Hm~~ 72 (100)
T PF12756_consen 55 YCNKTFRSREALQEHMRS 72 (100)
T ss_dssp SSS-EESSHHHHHHHHHH
T ss_pred ccCCCCcCHHHHHHHHcC
Confidence 999999999987777643
No 43
>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=93.82 E-value=0.027 Score=35.52 Aligned_cols=23 Identities=35% Similarity=0.553 Sum_probs=21.1
Q ss_pred ccCCCCCCCCCCchhhhhhhhhc
Q 038961 371 HECPICLKVFPSGQALGGHKRSH 393 (457)
Q Consensus 371 ~~C~~Cgk~F~~~~~L~~H~r~H 393 (457)
|-|.+|++.|.+..+|..|++++
T Consensus 2 ~~C~~C~k~f~~~~~~~~H~~sk 24 (27)
T PF12171_consen 2 FYCDACDKYFSSENQLKQHMKSK 24 (27)
T ss_dssp CBBTTTTBBBSSHHHHHCCTTSH
T ss_pred CCcccCCCCcCCHHHHHHHHccC
Confidence 78999999999999999998763
No 44
>PRK04860 hypothetical protein; Provisional
Probab=92.64 E-value=0.053 Score=49.55 Aligned_cols=37 Identities=11% Similarity=0.284 Sum_probs=31.8
Q ss_pred CccccCCCCCccCCchhhhhhccccCCccCccccccCCCCCCccCCCCCCCCc
Q 038961 282 SKFECATCNKIFHSYQALGGHRASHKKIKGCFATKIDSSENSIEAEHSPDPTA 334 (457)
Q Consensus 282 kpy~C~~C~K~F~s~~~L~~H~~~H~~~k~~~~~~c~~cekp~~C~~C~k~f~ 334 (457)
-+|.|. |++ ....+.+|.++|++ +++|.|..|+..|.
T Consensus 118 ~~Y~C~-C~~---~~~~~rrH~ri~~g------------~~~YrC~~C~~~l~ 154 (160)
T PRK04860 118 FPYRCK-CQE---HQLTVRRHNRVVRG------------EAVYRCRRCGETLV 154 (160)
T ss_pred EEEEcC-CCC---eeCHHHHHHHHhcC------------CccEECCCCCceeE
Confidence 379998 998 67788999999999 99999999876554
No 45
>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=92.57 E-value=0.057 Score=39.39 Aligned_cols=31 Identities=19% Similarity=0.339 Sum_probs=23.0
Q ss_pred cCCCCccccCCCCCccCCchhhhhhccccCC
Q 038961 278 SQKRSKFECATCNKIFHSYQALGGHRASHKK 308 (457)
Q Consensus 278 h~~ekpy~C~~C~K~F~s~~~L~~H~~~H~~ 308 (457)
+..+.|..|++|+..+.+..+|.+|+.++.+
T Consensus 19 ~~S~~PatCP~C~a~~~~srnLrRHle~~H~ 49 (54)
T PF09237_consen 19 SQSEQPATCPICGAVIRQSRNLRRHLEIRHF 49 (54)
T ss_dssp CTTS--EE-TTT--EESSHHHHHHHHHHHTT
T ss_pred hccCCCCCCCcchhhccchhhHHHHHHHHhc
Confidence 4467899999999999999999999988777
No 46
>PRK04860 hypothetical protein; Provisional
Probab=92.25 E-value=0.055 Score=49.43 Aligned_cols=40 Identities=10% Similarity=0.081 Sum_probs=32.0
Q ss_pred CCccCCCCCCCCcchhhhhccCcchhhhhhccccCCCCccccccCCCccccCCCCCCCCCCch
Q 038961 322 NSIEAEHSPDPTADSKLIKSINNENSADHFFVADCDDHRAETSCGAKKKHECPICLKVFPSGQ 384 (457)
Q Consensus 322 kp~~C~~C~k~f~~~k~f~~~~~~~L~~H~~~~~~~~~~~~~~H~geKp~~C~~Cgk~F~~~~ 384 (457)
-+|.|. |++ +. ..+.+|.++ |+|+++|.|..|++.|....
T Consensus 118 ~~Y~C~-C~~---~~--------~~~rrH~ri-----------~~g~~~YrC~~C~~~l~~~~ 157 (160)
T PRK04860 118 FPYRCK-CQE---HQ--------LTVRRHNRV-----------VRGEAVYRCRRCGETLVFKG 157 (160)
T ss_pred EEEEcC-CCC---ee--------CHHHHHHHH-----------hcCCccEECCCCCceeEEec
Confidence 367787 764 11 678999999 99999999999999987543
No 47
>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=91.80 E-value=0.057 Score=35.85 Aligned_cols=23 Identities=26% Similarity=0.622 Sum_probs=21.0
Q ss_pred ccccCCCCcccCCCCchhhHhhh
Q 038961 5 KHVCKFCSKSFPCGRSLGGHMRS 27 (457)
Q Consensus 5 ~~~Ck~C~K~F~~~~~L~~HmR~ 27 (457)
+|.|++|++.|....+|..|++.
T Consensus 3 ~~~C~~C~~~~~~~~~~~~H~~g 25 (35)
T smart00451 3 GFYCKLCNVTFTDEISVEAHLKG 25 (35)
T ss_pred CeEccccCCccCCHHHHHHHHCh
Confidence 58899999999999999999974
No 48
>PF13909 zf-H2C2_5: C2H2-type zinc-finger domain; PDB: 1X5W_A.
Probab=91.61 E-value=0.066 Score=32.60 Aligned_cols=23 Identities=26% Similarity=0.459 Sum_probs=18.5
Q ss_pred ccCCCCCCCCCCchhhhhhhhhcc
Q 038961 371 HECPICLKVFPSGQALGGHKRSHL 394 (457)
Q Consensus 371 ~~C~~Cgk~F~~~~~L~~H~r~H~ 394 (457)
|+|+.|+.... ...|..|++.|.
T Consensus 1 y~C~~C~y~t~-~~~l~~H~~~~H 23 (24)
T PF13909_consen 1 YKCPHCSYSTS-KSNLKRHLKRHH 23 (24)
T ss_dssp EE-SSSS-EES-HHHHHHHHHHHH
T ss_pred CCCCCCCCcCC-HHHHHHHHHhhC
Confidence 78999998888 889999998865
No 49
>PF13913 zf-C2HC_2: zinc-finger of a C2HC-type
Probab=91.41 E-value=0.076 Score=33.05 Aligned_cols=21 Identities=24% Similarity=0.523 Sum_probs=18.3
Q ss_pred cccCCCCcccCCCCchhhHhhh
Q 038961 6 HVCKFCSKSFPCGRSLGGHMRS 27 (457)
Q Consensus 6 ~~Ck~C~K~F~~~~~L~~HmR~ 27 (457)
..|.+||+.| ...+|..|+++
T Consensus 3 ~~C~~CgR~F-~~~~l~~H~~~ 23 (25)
T PF13913_consen 3 VPCPICGRKF-NPDRLEKHEKI 23 (25)
T ss_pred CcCCCCCCEE-CHHHHHHHHHh
Confidence 4799999999 78889999864
No 50
>PF13913 zf-C2HC_2: zinc-finger of a C2HC-type
Probab=90.56 E-value=0.14 Score=31.84 Aligned_cols=21 Identities=33% Similarity=0.722 Sum_probs=17.7
Q ss_pred ccCCCCCCCCCCchhhhhhhhh
Q 038961 371 HECPICLKVFPSGQALGGHKRS 392 (457)
Q Consensus 371 ~~C~~Cgk~F~~~~~L~~H~r~ 392 (457)
..|++||+.| ....|..|+++
T Consensus 3 ~~C~~CgR~F-~~~~l~~H~~~ 23 (25)
T PF13913_consen 3 VPCPICGRKF-NPDRLEKHEKI 23 (25)
T ss_pred CcCCCCCCEE-CHHHHHHHHHh
Confidence 4799999999 67789999764
No 51
>PF13909 zf-H2C2_5: C2H2-type zinc-finger domain; PDB: 1X5W_A.
Probab=89.94 E-value=0.085 Score=32.10 Aligned_cols=22 Identities=32% Similarity=0.572 Sum_probs=18.0
Q ss_pred cccCCCCcccCCCCchhhHhhhc
Q 038961 6 HVCKFCSKSFPCGRSLGGHMRSH 28 (457)
Q Consensus 6 ~~Ck~C~K~F~~~~~L~~HmR~H 28 (457)
|.|.+|.-... ...|..||+.|
T Consensus 1 y~C~~C~y~t~-~~~l~~H~~~~ 22 (24)
T PF13909_consen 1 YKCPHCSYSTS-KSNLKRHLKRH 22 (24)
T ss_dssp EE-SSSS-EES-HHHHHHHHHHH
T ss_pred CCCCCCCCcCC-HHHHHHHHHhh
Confidence 78999999998 88999999975
No 52
>KOG2231 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=89.78 E-value=0.34 Score=53.34 Aligned_cols=24 Identities=38% Similarity=0.832 Sum_probs=18.5
Q ss_pred cccCCCCcccC---------------CCCchhhHhh-hcc
Q 038961 6 HVCKFCSKSFP---------------CGRSLGGHMR-SHM 29 (457)
Q Consensus 6 ~~Ck~C~K~F~---------------~~~~L~~HmR-~H~ 29 (457)
|.|.+|+++|. .-..|++||+ .|.
T Consensus 100 ~~C~~C~~~~~~~~~~~~~~~c~~~~s~~~Lk~H~~~~H~ 139 (669)
T KOG2231|consen 100 HSCHICDRRFRALYNKKECLHCTEFKSVENLKNHMRDQHK 139 (669)
T ss_pred hhcCccccchhhhcccCCCccccchhHHHHHHHHHHHhhh
Confidence 67888888883 5667888884 776
No 53
>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=88.16 E-value=0.31 Score=41.56 Aligned_cols=13 Identities=23% Similarity=0.274 Sum_probs=10.2
Q ss_pred cccccccCCccCC
Q 038961 82 QQQQLCGKGFVSW 94 (457)
Q Consensus 82 ~~C~~CgK~F~s~ 94 (457)
.+|+.||..|.-.
T Consensus 27 ivCP~CG~~~~~~ 39 (108)
T PF09538_consen 27 IVCPKCGTEFPPE 39 (108)
T ss_pred ccCCCCCCccCcc
Confidence 5799999988844
No 54
>COG5048 FOG: Zn-finger [General function prediction only]
Probab=87.66 E-value=0.33 Score=49.60 Aligned_cols=57 Identities=23% Similarity=0.301 Sum_probs=48.9
Q ss_pred CCccCCCCCCCCcchhhhhccCcchhhhhhc--cccCCCCccccccCCC--ccccCC--CCCCCCCCchhhhhhhhhccC
Q 038961 322 NSIEAEHSPDPTADSKLIKSINNENSADHFF--VADCDDHRAETSCGAK--KKHECP--ICLKVFPSGQALGGHKRSHLL 395 (457)
Q Consensus 322 kp~~C~~C~k~f~~~k~f~~~~~~~L~~H~~--~~~~~~~~~~~~H~ge--Kp~~C~--~Cgk~F~~~~~L~~H~r~H~~ 395 (457)
.++.|..|...|... ..|..|.+ . |+++ +||.|+ .|++.|.+...|..|...|++
T Consensus 288 ~~~~~~~~~~~~s~~--------~~l~~~~~~~~-----------h~~~~~~~~~~p~~~~~~~~~~~~~~~~~~~~~~~ 348 (467)
T COG5048 288 LPIKSKQCNISFSRS--------SPLTRHLRSVN-----------HSGESLKPFSCPYSLCGKLFSRNDALKRHILLHTS 348 (467)
T ss_pred cCCCCccccCCcccc--------ccccccccccc-----------cccccCCceeeeccCCCccccccccccCCcccccC
Confidence 467888877666644 78888888 7 9999 999999 799999999999999999997
Q ss_pred CC
Q 038961 396 GG 397 (457)
Q Consensus 396 ~~ 397 (457)
-.
T Consensus 349 ~~ 350 (467)
T COG5048 349 IS 350 (467)
T ss_pred CC
Confidence 54
No 55
>KOG2893 consensus Zn finger protein [General function prediction only]
Probab=87.08 E-value=0.2 Score=48.04 Aligned_cols=51 Identities=24% Similarity=0.242 Sum_probs=38.6
Q ss_pred CCCccCCCCCCCCcchhhhhccCcchhhhhhccccCCCCccccccCCCccccCCCCCCCCCCchhhhhh-hhhccC
Q 038961 321 ENSIEAEHSPDPTADSKLIKSINNENSADHFFVADCDDHRAETSCGAKKKHECPICLKVFPSGQALGGH-KRSHLL 395 (457)
Q Consensus 321 ekp~~C~~C~k~f~~~k~f~~~~~~~L~~H~~~~~~~~~~~~~~H~geKp~~C~~Cgk~F~~~~~L~~H-~r~H~~ 395 (457)
.||| |-+|++.|-.. .-|..|++ .|-|+|.||.|...++-.|..| |.+|..
T Consensus 9 ~kpw-cwycnrefdde--------kiliqhqk---------------akhfkchichkkl~sgpglsihcmqvhke 60 (341)
T KOG2893|consen 9 DKPW-CWYCNREFDDE--------KILIQHQK---------------AKHFKCHICHKKLFSGPGLSIHCMQVHKE 60 (341)
T ss_pred CCce-eeecccccchh--------hhhhhhhh---------------hccceeeeehhhhccCCCceeehhhhhhh
Confidence 3454 88888777655 44666555 4679999999988899999999 888863
No 56
>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=87.00 E-value=0.36 Score=31.91 Aligned_cols=23 Identities=17% Similarity=0.452 Sum_probs=20.3
Q ss_pred cccCCCCCCCCCCchhhhhhhhh
Q 038961 370 KHECPICLKVFPSGQALGGHKRS 392 (457)
Q Consensus 370 p~~C~~Cgk~F~~~~~L~~H~r~ 392 (457)
+|.|.+|++.|....++..|++.
T Consensus 3 ~~~C~~C~~~~~~~~~~~~H~~g 25 (35)
T smart00451 3 GFYCKLCNVTFTDEISVEAHLKG 25 (35)
T ss_pred CeEccccCCccCCHHHHHHHHCh
Confidence 58899999999999999999754
No 57
>KOG2785 consensus C2H2-type Zn-finger protein [General function prediction only]
Probab=86.77 E-value=0.24 Score=50.60 Aligned_cols=76 Identities=16% Similarity=0.158 Sum_probs=49.8
Q ss_pred CCccccCCCCCccCCchhhhhhccccCCccCccccccCCCCCCccCCCCCCCCcchhhhhccCcchhhhhhccccCCCCc
Q 038961 281 RSKFECATCNKIFHSYQALGGHRASHKKIKGCFATKIDSSENSIEAEHSPDPTADSKLIKSINNENSADHFFVADCDDHR 360 (457)
Q Consensus 281 ekpy~C~~C~K~F~s~~~L~~H~~~H~~~k~~~~~~c~~cekp~~C~~C~k~f~~~k~f~~~~~~~L~~H~~~~~~~~~~ 360 (457)
..|-.|-.|++.|.+--.-..||..|+|..= .++.|--+. ..|..-+..
T Consensus 164 ~~Pt~CLfC~~~~k~~e~~~~HM~~~HgffI--------PdreYL~D~----------------~GLl~YLge------- 212 (390)
T KOG2785|consen 164 LIPTDCLFCDKKSKSLEENLKHMFKEHGFFI--------PDREYLTDE----------------KGLLKYLGE------- 212 (390)
T ss_pred cCCcceeecCCCcccHHHHHHHHhhccCCcC--------CchHhhhch----------------hHHHHHHHH-------
Confidence 3457899999999999888899998888210 034443332 111111110
Q ss_pred cccccCCCccccCCCCC---CCCCCchhhhhhhhh
Q 038961 361 AETSCGAKKKHECPICL---KVFPSGQALGGHKRS 392 (457)
Q Consensus 361 ~~~~H~geKp~~C~~Cg---k~F~~~~~L~~H~r~ 392 (457)
+ -..-|.|-.|+ +.|.+-.+.+.||+.
T Consensus 213 --K---V~~~~~CL~CN~~~~~f~sleavr~HM~~ 242 (390)
T KOG2785|consen 213 --K---VGIGFICLFCNELGRPFSSLEAVRAHMRD 242 (390)
T ss_pred --H---hccCceEEEeccccCcccccHHHHHHHhh
Confidence 0 02458888898 999999999999853
No 58
>KOG1146 consensus Homeobox protein [General function prediction only]
Probab=84.79 E-value=0.52 Score=55.09 Aligned_cols=80 Identities=24% Similarity=0.294 Sum_probs=53.4
Q ss_pred cCCCCccccCCCCCccCCchhhhhhccc-cCCccCccccccCCCCCCccCCCCCCCCcchhhhhccCcchhhhhhccccC
Q 038961 278 SQKRSKFECATCNKIFHSYQALGGHRAS-HKKIKGCFATKIDSSENSIEAEHSPDPTADSKLIKSINNENSADHFFVADC 356 (457)
Q Consensus 278 h~~ekpy~C~~C~K~F~s~~~L~~H~~~-H~~~k~~~~~~c~~cekp~~C~~C~k~f~~~k~f~~~~~~~L~~H~~~~~~ 356 (457)
|+-.+.|.|..|+-.|.....|..|||+ |.. ... .+| .....|.+.
T Consensus 460 ~S~~kt~~cpkc~~~yk~a~~L~vhmRskhp~------------~~~---~~c---------------~~gq~~~~~--- 506 (1406)
T KOG1146|consen 460 HSFFKTLKCPKCNWHYKLAQTLGVHMRSKHPE------------SQS---AYC---------------KAGQNHPRL--- 506 (1406)
T ss_pred ecccccccCCccchhhhhHHHhhhcccccccc------------cch---hHh---------------Hhccccccc---
Confidence 4455889999999999999999999987 443 111 111 111222222
Q ss_pred CCCccccccCCCccccCCCCCCCCCCchhhhhhhhh
Q 038961 357 DDHRAETSCGAKKKHECPICLKVFPSGQALGGHKRS 392 (457)
Q Consensus 357 ~~~~~~~~H~geKp~~C~~Cgk~F~~~~~L~~H~r~ 392 (457)
++....-.+-+||.|..|...|....+|..|+..
T Consensus 507 --arg~~~~~~~~p~~C~~C~~stttng~LsihlqS 540 (1406)
T KOG1146|consen 507 --ARGEVYRCPGKPYPCRACNYSTTTNGNLSIHLQS 540 (1406)
T ss_pred --cccccccCCCCcccceeeeeeeecchHHHHHHHH
Confidence 1111112345899999999999999999999765
No 59
>PF09986 DUF2225: Uncharacterized protein conserved in bacteria (DUF2225); InterPro: IPR018708 This conserved bacterial family has no known function.
Probab=84.61 E-value=0.48 Score=45.37 Aligned_cols=25 Identities=28% Similarity=0.598 Sum_probs=21.9
Q ss_pred CcccccCCCCcccCCCCchhhHhhh
Q 038961 3 EFKHVCKFCSKSFPCGRSLGGHMRS 27 (457)
Q Consensus 3 ek~~~Ck~C~K~F~~~~~L~~HmR~ 27 (457)
+|..+|.+|++.|....-+.+..|.
T Consensus 3 ~k~~~CPvC~~~F~~~~vrs~~~r~ 27 (214)
T PF09986_consen 3 DKKITCPVCGKEFKTKKVRSGKIRV 27 (214)
T ss_pred CCceECCCCCCeeeeeEEEcCCceE
Confidence 4778999999999999988888874
No 60
>PF02892 zf-BED: BED zinc finger; InterPro: IPR003656 Zinc finger (Znf) domains are relatively small protein motifs which contain multiple finger-like protrusions that make tandem contacts with their target molecule. Some of these domains bind zinc, but many do not; instead binding other metals such as iron, or no metal at all. For example, some family members form salt bridges to stabilise the finger-like folds. They were first identified as a DNA-binding motif in transcription factor TFIIIA from Xenopus laevis (African clawed frog), however they are now recognised to bind DNA, RNA, protein and/or lipid substrates [, , , , ]. Their binding properties depend on the amino acid sequence of the finger domains and of the linker between fingers, as well as on the higher-order structures and the number of fingers. Znf domains are often found in clusters, where fingers can have different binding specificities. There are many superfamilies of Znf motifs, varying in both sequence and structure. They display considerable versatility in binding modes, even between members of the same class (e.g. some bind DNA, others protein), suggesting that Znf motifs are stable scaffolds that have evolved specialised functions. For example, Znf-containing proteins function in gene transcription, translation, mRNA trafficking, cytoskeleton organisation, epithelial development, cell adhesion, protein folding, chromatin remodelling and zinc sensing, to name but a few []. Zinc-binding motifs are stable structures, and they rarely undergo conformational changes upon binding their target. This entry represents predicted BED-type zinc finger domains. The BED finger which was named after the Drosophila proteins BEAF and DREF, is found in one or more copies in cellular regulatory factors and transposases from plants, animals and fungi. The BED finger is an about 50 to 60 amino acid residues domain that contains a characteristic motif with two highly conserved aromatic positions, as well as a shared pattern of cysteines and histidines that is predicted to form a zinc finger. As diverse BED fingers are able to bind DNA, it has been suggested that DNA-binding is the general function of this domain []. Some proteins known to contain a BED domain include animal, plant and fungi AC1 and Hobo-like transposases; Caenorhabditis elegans Dpy-20 protein, a predicted cuticular gene transcriptional regulator; Drosophila BEAF (boundary element-associated factor), thought to be involved in chromatin insulation; Drosophila DREF, a transcriptional regulator for S-phase genes; and tobacco 3AF1 and tomato E4/E8-BP1, light- and ethylene-regulated DNA binding proteins that contain two BED fingers. More information about these proteins can be found at Protein of the Month: Zinc Fingers [].; GO: 0003677 DNA binding; PDB: 2DJR_A 2CT5_A.
Probab=82.34 E-value=0.51 Score=33.20 Aligned_cols=24 Identities=29% Similarity=0.610 Sum_probs=14.9
Q ss_pred CCcccccCCCCcccCCC----CchhhHh
Q 038961 2 REFKHVCKFCSKSFPCG----RSLGGHM 25 (457)
Q Consensus 2 ~ek~~~Ck~C~K~F~~~----~~L~~Hm 25 (457)
+...-+|++|++.|..+ ..|..|+
T Consensus 13 ~~~~a~C~~C~~~~~~~~~~ts~l~~HL 40 (45)
T PF02892_consen 13 DKKKAKCKYCGKVIKYSSGGTSNLKRHL 40 (45)
T ss_dssp CSS-EEETTTTEE-----SSTHHHHHHH
T ss_pred CcCeEEeCCCCeEEeeCCCcHHHHHHhh
Confidence 34567899999999987 5677777
No 61
>COG5048 FOG: Zn-finger [General function prediction only]
Probab=81.05 E-value=1.3 Score=45.16 Aligned_cols=63 Identities=13% Similarity=0.178 Sum_probs=45.8
Q ss_pred CccccCCCCCccCCchhhhhhcc--ccCCccCccccccCCCC--CCccCC--CCCCCCcchhhhhccCcchhhhhhcccc
Q 038961 282 SKFECATCNKIFHSYQALGGHRA--SHKKIKGCFATKIDSSE--NSIEAE--HSPDPTADSKLIKSINNENSADHFFVAD 355 (457)
Q Consensus 282 kpy~C~~C~K~F~s~~~L~~H~~--~H~~~k~~~~~~c~~ce--kp~~C~--~C~k~f~~~k~f~~~~~~~L~~H~~~~~ 355 (457)
.++.|..|...|.....|..|.+ .|.+ + +++.|. .|++.|... ..+..|..+
T Consensus 288 ~~~~~~~~~~~~s~~~~l~~~~~~~~h~~------------~~~~~~~~p~~~~~~~~~~~--------~~~~~~~~~-- 345 (467)
T COG5048 288 LPIKSKQCNISFSRSSPLTRHLRSVNHSG------------ESLKPFSCPYSLCGKLFSRN--------DALKRHILL-- 345 (467)
T ss_pred cCCCCccccCCcccccccccccccccccc------------ccCCceeeeccCCCcccccc--------ccccCCccc--
Confidence 46788888888888888888888 7887 6 777777 566555433 667777777
Q ss_pred CCCCccccccCCCccccCCC
Q 038961 356 CDDHRAETSCGAKKKHECPI 375 (457)
Q Consensus 356 ~~~~~~~~~H~geKp~~C~~ 375 (457)
|++.+++.|..
T Consensus 346 ---------~~~~~~~~~~~ 356 (467)
T COG5048 346 ---------HTSISPAKEKL 356 (467)
T ss_pred ---------ccCCCcccccc
Confidence 77777777654
No 62
>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=78.96 E-value=1.3 Score=38.59 Aligned_cols=13 Identities=15% Similarity=0.154 Sum_probs=10.0
Q ss_pred cccccccCCccCC
Q 038961 82 QQQQLCGKGFVSW 94 (457)
Q Consensus 82 ~~C~~CgK~F~s~ 94 (457)
..|..||..|.-.
T Consensus 27 ~vcP~cg~~~~~~ 39 (129)
T TIGR02300 27 AVSPYTGEQFPPE 39 (129)
T ss_pred ccCCCcCCccCcc
Confidence 5799999988644
No 63
>KOG4167 consensus Predicted DNA-binding protein, contains SANT and ELM2 domains [Transcription]
Probab=78.64 E-value=0.54 Score=51.66 Aligned_cols=71 Identities=27% Similarity=0.356 Sum_probs=39.6
Q ss_pred CCCCchhhHhhhccCCCCCCCcccchhhhhccCCCCCCCCCCCCCCcCCCCccccccccCCCcccccccccccCCccCCc
Q 038961 16 PCGRSLGGHMRSHMITVTETTDGHHKQLAKKKLPSVNNTETNGYGLRENPKKSKRIADSSENNSSQQQQQLCGKGFVSWK 95 (457)
Q Consensus 16 ~~~~~L~~HmR~H~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~lre~P~kt~r~~~~~~~~~~~~~C~~CgK~F~s~~ 95 (457)
.++-+|++|-|+|.+.+-.+....-..+....++... .|+ +....| +.-|.|++|||.|-.-+
T Consensus 744 n~g~~~~~~~~~~~~~~~~~~~~~~~pr~~~~pg~~~-S~~---~~~~~~-------------~giFpCreC~kvF~KiK 806 (907)
T KOG4167|consen 744 NCGQALNGHARIHGGTNQVTKARGAIPRGKQKPGGTQ-SGS---SGETDP-------------TGIFPCRECGKVFFKIK 806 (907)
T ss_pred CccccccCCcccccccccccccccCCCCCCCCCCccc-ccc---CCCCCC-------------CceeehHHHHHHHHHHh
Confidence 4568999999999976544322211111122222111 111 111111 23489999999998777
Q ss_pred c----ccccccc
Q 038961 96 P----MKCNSEK 103 (457)
Q Consensus 96 ~----mr~Hs~~ 103 (457)
+ |++|--+
T Consensus 807 SrNAHMK~Hr~q 818 (907)
T KOG4167|consen 807 SRNAHMKTHRQQ 818 (907)
T ss_pred hhhHHHHHHHHH
Confidence 7 9998644
No 64
>KOG1146 consensus Homeobox protein [General function prediction only]
Probab=74.93 E-value=1.9 Score=50.62 Aligned_cols=30 Identities=27% Similarity=0.325 Sum_probs=24.8
Q ss_pred cCCCccccCCCCCCCCCCchhhhhhhhhccC
Q 038961 365 CGAKKKHECPICLKVFPSGQALGGHKRSHLL 395 (457)
Q Consensus 365 H~geKp~~C~~Cgk~F~~~~~L~~H~r~H~~ 395 (457)
+..-++| |.+|...|....+|..|||+-.+
T Consensus 1324 ~~d~~~~-c~~c~~~~~~~~alqihm~~~~~ 1353 (1406)
T KOG1146|consen 1324 VPDCTYH-CLACEVLLSGREALQIHMRSSAH 1353 (1406)
T ss_pred Ccccccc-chHHHhhcchhHHHHHHHHHhhh
Confidence 4445677 99999999999999999998433
No 65
>KOG2231 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=73.14 E-value=1.8 Score=47.91 Aligned_cols=18 Identities=33% Similarity=0.405 Sum_probs=12.3
Q ss_pred CccCCchhhhhhcc-ccCC
Q 038961 291 KIFHSYQALGGHRA-SHKK 308 (457)
Q Consensus 291 K~F~s~~~L~~H~~-~H~~ 308 (457)
..|.+...|+.|++ .|..
T Consensus 122 ~~~~s~~~Lk~H~~~~H~~ 140 (669)
T KOG2231|consen 122 TEFKSVENLKNHMRDQHKL 140 (669)
T ss_pred cchhHHHHHHHHHHHhhhh
Confidence 33447888999984 5655
No 66
>COG5236 Uncharacterized conserved protein, contains RING Zn-finger [General function prediction only]
Probab=72.70 E-value=1.8 Score=43.86 Aligned_cols=17 Identities=24% Similarity=0.417 Sum_probs=8.4
Q ss_pred CCCccCCchhhhhhccc
Q 038961 289 CNKIFHSYQALGGHRAS 305 (457)
Q Consensus 289 C~K~F~s~~~L~~H~~~ 305 (457)
|..+...+..|..|.+.
T Consensus 159 c~~~C~~~k~lk~H~K~ 175 (493)
T COG5236 159 CHRRCGSLKELKKHYKA 175 (493)
T ss_pred hhhhhhhHHHHHHHHHh
Confidence 44444445555555544
No 67
>smart00614 ZnF_BED BED zinc finger. DNA-binding domain in chromatin-boundary-element-binding proteins and transposases
Probab=70.97 E-value=2.5 Score=30.57 Aligned_cols=25 Identities=32% Similarity=0.743 Sum_probs=20.1
Q ss_pred ccccCCCCcccCCCC-----chhhHhh-hcc
Q 038961 5 KHVCKFCSKSFPCGR-----SLGGHMR-SHM 29 (457)
Q Consensus 5 ~~~Ck~C~K~F~~~~-----~L~~HmR-~H~ 29 (457)
.=.|++|++.+.... .|..||+ .|.
T Consensus 18 ~a~C~~C~~~l~~~~~~gTs~L~rHl~~~h~ 48 (50)
T smart00614 18 RAKCKYCGKKLSRSSKGGTSNLRRHLRRKHP 48 (50)
T ss_pred EEEecCCCCEeeeCCCCCcHHHHHHHHhHCc
Confidence 356999999998874 8888887 665
No 68
>KOG2893 consensus Zn finger protein [General function prediction only]
Probab=60.51 E-value=3.8 Score=39.50 Aligned_cols=24 Identities=21% Similarity=0.480 Sum_probs=20.7
Q ss_pred cccCCCCcccCCCCchhhHhhhcc
Q 038961 6 HVCKFCSKSFPCGRSLGGHMRSHM 29 (457)
Q Consensus 6 ~~Ck~C~K~F~~~~~L~~HmR~H~ 29 (457)
=.|=+||+-|...+.|-.|++.-.
T Consensus 11 pwcwycnrefddekiliqhqkakh 34 (341)
T KOG2893|consen 11 PWCWYCNREFDDEKILIQHQKAKH 34 (341)
T ss_pred ceeeecccccchhhhhhhhhhhcc
Confidence 359999999999999999998543
No 69
>COG4049 Uncharacterized protein containing archaeal-type C2H2 Zn-finger [General function prediction only]
Probab=60.18 E-value=3 Score=31.09 Aligned_cols=29 Identities=24% Similarity=0.421 Sum_probs=24.5
Q ss_pred cCCCccccCCCCCCCCCCchhhhhhh-hhc
Q 038961 365 CGAKKKHECPICLKVFPSGQALGGHK-RSH 393 (457)
Q Consensus 365 H~geKp~~C~~Cgk~F~~~~~L~~H~-r~H 393 (457)
-.||--+.||-||..|.......+|. +.|
T Consensus 12 RDGE~~lrCPRC~~~FR~~K~Y~RHVNKaH 41 (65)
T COG4049 12 RDGEEFLRCPRCGMVFRRRKDYIRHVNKAH 41 (65)
T ss_pred cCCceeeeCCchhHHHHHhHHHHHHhhHHh
Confidence 45788899999999999999999994 444
No 70
>KOG4167 consensus Predicted DNA-binding protein, contains SANT and ELM2 domains [Transcription]
Probab=60.16 E-value=1.5 Score=48.34 Aligned_cols=26 Identities=31% Similarity=0.473 Sum_probs=24.4
Q ss_pred ccccCCCCcccCCCCchhhHhhhccC
Q 038961 5 KHVCKFCSKSFPCGRSLGGHMRSHMI 30 (457)
Q Consensus 5 ~~~Ck~C~K~F~~~~~L~~HmR~H~~ 30 (457)
-|-|.+|+|.|.--++|..||++|.+
T Consensus 792 iFpCreC~kvF~KiKSrNAHMK~Hr~ 817 (907)
T KOG4167|consen 792 IFPCRECGKVFFKIKSRNAHMKTHRQ 817 (907)
T ss_pred eeehHHHHHHHHHHhhhhHHHHHHHH
Confidence 48899999999999999999999994
No 71
>PF09986 DUF2225: Uncharacterized protein conserved in bacteria (DUF2225); InterPro: IPR018708 This conserved bacterial family has no known function.
Probab=55.84 E-value=7 Score=37.42 Aligned_cols=53 Identities=13% Similarity=0.136 Sum_probs=31.5
Q ss_pred CccccCCCCCccCCchhhhhhccc-c--CCccCccccccCCCCCCccCCCCCCCCc
Q 038961 282 SKFECATCNKIFHSYQALGGHRAS-H--KKIKGCFATKIDSSENSIEAEHSPDPTA 334 (457)
Q Consensus 282 kpy~C~~C~K~F~s~~~L~~H~~~-H--~~~k~~~~~~c~~cekp~~C~~C~k~f~ 334 (457)
+.+.|++|++.|.+..-+.+..++ . +...+-+...-+..--.+.|+.|+.++.
T Consensus 4 k~~~CPvC~~~F~~~~vrs~~~r~~~~d~D~~~~Y~~vnP~~Y~V~vCP~CgyA~~ 59 (214)
T PF09986_consen 4 KKITCPVCGKEFKTKKVRSGKIRVIRRDSDFCPRYKGVNPLFYEVWVCPHCGYAAF 59 (214)
T ss_pred CceECCCCCCeeeeeEEEcCCceEeeecCCCccccCCCCCeeeeEEECCCCCCccc
Confidence 568999999999998777766543 2 2211111111111122357999887765
No 72
>KOG2482 consensus Predicted C2H2-type Zn-finger protein [Transcription]
Probab=55.44 E-value=5.6 Score=40.34 Aligned_cols=25 Identities=36% Similarity=0.683 Sum_probs=22.5
Q ss_pred ccccCCCCcccCCCCchhhHhh--hcc
Q 038961 5 KHVCKFCSKSFPCGRSLGGHMR--SHM 29 (457)
Q Consensus 5 ~~~Ck~C~K~F~~~~~L~~HmR--~H~ 29 (457)
++.|-+|.|.|+....|+-||| -|.
T Consensus 195 r~~CLyCekifrdkntLkeHMrkK~Hr 221 (423)
T KOG2482|consen 195 RLRCLYCEKIFRDKNTLKEHMRKKRHR 221 (423)
T ss_pred hheeeeeccccCCcHHHHHHHHhccCc
Confidence 4789999999999999999998 566
No 73
>COG4957 Predicted transcriptional regulator [Transcription]
Probab=54.11 E-value=5.7 Score=35.03 Aligned_cols=25 Identities=28% Similarity=0.369 Sum_probs=21.0
Q ss_pred cccCCCCcccCCCCchhhHhhhccCCCC
Q 038961 6 HVCKFCSKSFPCGRSLGGHMRSHMITVT 33 (457)
Q Consensus 6 ~~Ck~C~K~F~~~~~L~~HmR~H~~~~~ 33 (457)
-+|-+|||.|. +|++|+++|.+..|
T Consensus 77 IicLEDGkkfK---SLKRHL~t~~gmTP 101 (148)
T COG4957 77 IICLEDGKKFK---SLKRHLTTHYGLTP 101 (148)
T ss_pred EEEeccCcchH---HHHHHHhcccCCCH
Confidence 36999999995 69999999996654
No 74
>PF05443 ROS_MUCR: ROS/MUCR transcriptional regulator protein; InterPro: IPR008807 This family consists of several ROS/MUCR transcriptional regulator proteins. The ros chromosomal gene is present in octopine and nopaline strains of Agrobacterium tumefaciens as well as in Rhizobium meliloti (Sinorhizobium meliloti). This gene encodes a 15.5 kDa protein that specifically represses the virC and virD operons in the virulence region of the Ti plasmid [] and is necessary for succinoglycan production []. S. meliloti can produce two types of acidic exopolysaccharides, succinoglycan and galactoglucan, that are interchangeable for infection of Medicago sativa (Alfalfa) nodules. MucR from S. meliloti acts as a transcriptional repressor that blocks the expression of the exp genes responsible for galactoglucan production therefore allowing the exclusive production of succinoglycan [].; GO: 0003677 DNA binding, 0008270 zinc ion binding, 0006355 regulation of transcription, DNA-dependent; PDB: 2JSP_A.
Probab=51.92 E-value=7.4 Score=34.44 Aligned_cols=22 Identities=36% Similarity=0.706 Sum_probs=15.4
Q ss_pred cccCCCCcccCCCCchhhHhhhccC
Q 038961 6 HVCKFCSKSFPCGRSLGGHMRSHMI 30 (457)
Q Consensus 6 ~~Ck~C~K~F~~~~~L~~HmR~H~~ 30 (457)
-+|-+|||.|. .|++|++.|.+
T Consensus 73 i~clecGk~~k---~LkrHL~~~~g 94 (132)
T PF05443_consen 73 IICLECGKKFK---TLKRHLRTHHG 94 (132)
T ss_dssp EE-TBT--EES---BHHHHHHHTT-
T ss_pred eEEccCCcccc---hHHHHHHHccC
Confidence 47999999996 57999999963
No 75
>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=50.69 E-value=9.9 Score=32.46 Aligned_cols=16 Identities=38% Similarity=0.739 Sum_probs=13.7
Q ss_pred CccccCCCCCCCCCCc
Q 038961 368 KKKHECPICLKVFPSG 383 (457)
Q Consensus 368 eKp~~C~~Cgk~F~~~ 383 (457)
..|-.||.||..|.-.
T Consensus 24 k~PivCP~CG~~~~~~ 39 (108)
T PF09538_consen 24 KDPIVCPKCGTEFPPE 39 (108)
T ss_pred CCCccCCCCCCccCcc
Confidence 4688899999999876
No 76
>KOG2071 consensus mRNA cleavage and polyadenylation factor I/II complex, subunit Pcf11 [RNA processing and modification]
Probab=49.19 E-value=8.2 Score=41.96 Aligned_cols=27 Identities=26% Similarity=0.407 Sum_probs=24.7
Q ss_pred CcccccCCCCcccCCCCchhhHhhhcc
Q 038961 3 EFKHVCKFCSKSFPCGRSLGGHMRSHM 29 (457)
Q Consensus 3 ek~~~Ck~C~K~F~~~~~L~~HmR~H~ 29 (457)
.++..|+.||+||.+......||-+|.
T Consensus 416 ~~pnqC~~CG~R~~~~ee~sk~md~H~ 442 (579)
T KOG2071|consen 416 DSPNQCKSCGLRFDDSEERSKHMDIHD 442 (579)
T ss_pred CCcchhcccccccccchhhhhHhhhhh
Confidence 457899999999999999999999998
No 77
>smart00734 ZnF_Rad18 Rad18-like CCHC zinc finger. Yeast Rad18p functions with Rad5p in error-free post-replicative DNA repair. This zinc finger is likely to bind nucleic-acids.
Probab=49.11 E-value=11 Score=23.63 Aligned_cols=20 Identities=20% Similarity=0.710 Sum_probs=15.9
Q ss_pred ccCCCCCCCCCCchhhhhhhh
Q 038961 371 HECPICLKVFPSGQALGGHKR 391 (457)
Q Consensus 371 ~~C~~Cgk~F~~~~~L~~H~r 391 (457)
..||+|++.+ ....+..|..
T Consensus 2 v~CPiC~~~v-~~~~in~HLD 21 (26)
T smart00734 2 VQCPVCFREV-PENLINSHLD 21 (26)
T ss_pred CcCCCCcCcc-cHHHHHHHHH
Confidence 3699999999 5567888875
No 78
>COG1198 PriA Primosomal protein N' (replication factor Y) - superfamily II helicase [DNA replication, recombination, and repair]
Probab=48.91 E-value=11 Score=42.49 Aligned_cols=49 Identities=14% Similarity=0.146 Sum_probs=33.3
Q ss_pred cccCCCCCCccCCCCCCCCcchhhhhccCcchhhhhhccccCCCCccccccCCCccccCCCCCCC
Q 038961 315 TKIDSSENSIEAEHSPDPTADSKLIKSINNENSADHFFVADCDDHRAETSCGAKKKHECPICLKV 379 (457)
Q Consensus 315 ~~c~~cekp~~C~~C~k~f~~~k~f~~~~~~~L~~H~~~~~~~~~~~~~~H~geKp~~C~~Cgk~ 379 (457)
.-|..|+..++|+.|+...+-.+ ....|..|.-. |....|..|+.||-.
T Consensus 436 l~C~~Cg~v~~Cp~Cd~~lt~H~-----~~~~L~CH~Cg-----------~~~~~p~~Cp~Cgs~ 484 (730)
T COG1198 436 LLCRDCGYIAECPNCDSPLTLHK-----ATGQLRCHYCG-----------YQEPIPQSCPECGSE 484 (730)
T ss_pred eecccCCCcccCCCCCcceEEec-----CCCeeEeCCCC-----------CCCCCCCCCCCCCCC
Confidence 46999999999999875443211 11345555554 666789999999865
No 79
>PRK00464 nrdR transcriptional regulator NrdR; Validated
Probab=46.90 E-value=12 Score=34.05 Aligned_cols=21 Identities=24% Similarity=0.404 Sum_probs=16.1
Q ss_pred ccccCCCCCCCCCCchhhhhh
Q 038961 369 KKHECPICLKVFPSGQALGGH 389 (457)
Q Consensus 369 Kp~~C~~Cgk~F~~~~~L~~H 389 (457)
+-|+|+.||++|...-.+..=
T Consensus 27 ~~~~c~~c~~~f~~~e~~~~~ 47 (154)
T PRK00464 27 RRRECLACGKRFTTFERVELV 47 (154)
T ss_pred eeeeccccCCcceEeEeccCc
Confidence 449999999999876655443
No 80
>COG4049 Uncharacterized protein containing archaeal-type C2H2 Zn-finger [General function prediction only]
Probab=41.86 E-value=8.2 Score=28.83 Aligned_cols=29 Identities=24% Similarity=0.295 Sum_probs=26.1
Q ss_pred CCCcccccCCCCcccCCCCchhhHhh-hcc
Q 038961 1 DREFKHVCKFCSKSFPCGRSLGGHMR-SHM 29 (457)
Q Consensus 1 ~~ek~~~Ck~C~K~F~~~~~L~~HmR-~H~ 29 (457)
|||--+.|.-|++-|...+....|.. +|.
T Consensus 13 DGE~~lrCPRC~~~FR~~K~Y~RHVNKaH~ 42 (65)
T COG4049 13 DGEEFLRCPRCGMVFRRRKDYIRHVNKAHG 42 (65)
T ss_pred CCceeeeCCchhHHHHHhHHHHHHhhHHhh
Confidence 67888999999999999999999984 776
No 81
>COG1592 Rubrerythrin [Energy production and conversion]
Probab=41.46 E-value=16 Score=33.68 Aligned_cols=14 Identities=29% Similarity=0.641 Sum_probs=11.9
Q ss_pred cCCCccccCCCCCC
Q 038961 365 CGAKKKHECPICLK 378 (457)
Q Consensus 365 H~geKp~~C~~Cgk 378 (457)
|.|+-|-.||+||.
T Consensus 144 ~~ge~P~~CPiCga 157 (166)
T COG1592 144 HEGEAPEVCPICGA 157 (166)
T ss_pred ccCCCCCcCCCCCC
Confidence 66788999999983
No 82
>cd00350 rubredoxin_like Rubredoxin_like; nonheme iron binding domain containing a [Fe(SCys)4] center. The family includes rubredoxins, a small electron transfer protein, and a slightly smaller modular rubredoxin domain present in rubrerythrin and nigerythrin and detected either N- or C-terminal to such proteins as flavin reductase, NAD(P)H-nitrite reductase, and ferredoxin-thioredoxin reductase. In rubredoxin, the iron atom is coordinated by four cysteine residues (Fe(S-Cys)4), but iron can also be replaced by cobalt, nickel or zinc and believed to be involved in electron transfer. Rubrerythrins and nigerythrins are small homodimeric proteins, generally consisting of 2 domains: a rubredoxin domain C-terminal to a non-sulfur, oxo-bridged diiron site in the N-terminal rubrerythrin domain. Rubrerythrins and nigerythrins have putative peroxide activity.
Probab=39.33 E-value=18 Score=23.80 Aligned_cols=10 Identities=30% Similarity=0.840 Sum_probs=8.8
Q ss_pred ccccCCCCCC
Q 038961 369 KKHECPICLK 378 (457)
Q Consensus 369 Kp~~C~~Cgk 378 (457)
.++.|++||.
T Consensus 16 ~~~~CP~Cg~ 25 (33)
T cd00350 16 APWVCPVCGA 25 (33)
T ss_pred CCCcCcCCCC
Confidence 7899999985
No 83
>KOG2186 consensus Cell growth-regulating nucleolar protein [Cell cycle control, cell division, chromosome partitioning]
Probab=38.08 E-value=15 Score=35.81 Aligned_cols=37 Identities=19% Similarity=0.328 Sum_probs=29.4
Q ss_pred chhhhhhccccCCCCccccccCCCccccCCCCCCCCCCchhhhhhhhhcc
Q 038961 345 ENSADHFFVADCDDHRAETSCGAKKKHECPICLKVFPSGQALGGHKRSHL 394 (457)
Q Consensus 345 ~~L~~H~~~~~~~~~~~~~~H~geKp~~C~~Cgk~F~~~~~L~~H~r~H~ 394 (457)
..+.+|+.. .++ .-|.|-.|++.|-. .....|..+-+
T Consensus 16 p~vekH~sr-----------Crn-~~fSCIDC~k~F~~-~sYknH~kCIT 52 (276)
T KOG2186|consen 16 PQVEKHMSR-----------CRN-AYFSCIDCGKTFER-VSYKNHTKCIT 52 (276)
T ss_pred cchHHHHHh-----------ccC-CeeEEeeccccccc-chhhhhhhhcc
Confidence 567788877 666 67999999999987 67788876655
No 84
>TIGR00373 conserved hypothetical protein TIGR00373. This family of proteins is, so far, restricted to archaeal genomes. The family appears to be distantly related to the N-terminal region of the eukaryotic transcription initiation factor IIE alpha chain.
Probab=37.91 E-value=11 Score=34.33 Aligned_cols=18 Identities=11% Similarity=0.279 Sum_probs=14.5
Q ss_pred ccccCCCCcccCCCCchh
Q 038961 5 KHVCKFCSKSFPCGRSLG 22 (457)
Q Consensus 5 ~~~Ck~C~K~F~~~~~L~ 22 (457)
-|.|.-|+++|..-.||.
T Consensus 109 ~Y~Cp~c~~r~tf~eA~~ 126 (158)
T TIGR00373 109 FFICPNMCVRFTFNEAME 126 (158)
T ss_pred eEECCCCCcEeeHHHHHH
Confidence 388999999988877774
No 85
>smart00531 TFIIE Transcription initiation factor IIE.
Probab=37.66 E-value=11 Score=33.78 Aligned_cols=17 Identities=12% Similarity=0.254 Sum_probs=13.0
Q ss_pred cccccCCCCcccCCCCc
Q 038961 4 FKHVCKFCSKSFPCGRS 20 (457)
Q Consensus 4 k~~~Ck~C~K~F~~~~~ 20 (457)
.-|.|..|+++|.--.+
T Consensus 98 ~~Y~Cp~C~~~y~~~ea 114 (147)
T smart00531 98 AYYKCPNCQSKYTFLEA 114 (147)
T ss_pred cEEECcCCCCEeeHHHH
Confidence 34899999999985443
No 86
>cd00729 rubredoxin_SM Rubredoxin, Small Modular nonheme iron binding domain containing a [Fe(SCys)4] center, present in rubrerythrin and nigerythrin and detected either N- or C-terminal to such proteins as flavin reductase, NAD(P)H-nitrite reductase, and ferredoxin-thioredoxin reductase. In rubredoxin, the iron atom is coordinated by four cysteine residues (Fe(S-Cys)4), and believed to be involved in electron transfer. Rubrerythrins and nigerythrins are small homodimeric proteins, generally consisting of 2 domains: a rubredoxin domain C-terminal to a non-sulfur, oxo-bridged diiron site in the N-terminal rubrerythrin domain. Rubrerythrins and nigerythrins have putative peroxide activity.
Probab=36.32 E-value=20 Score=23.86 Aligned_cols=10 Identities=40% Similarity=1.012 Sum_probs=8.5
Q ss_pred ccccCCCCCC
Q 038961 369 KKHECPICLK 378 (457)
Q Consensus 369 Kp~~C~~Cgk 378 (457)
.|..|++||.
T Consensus 17 ~p~~CP~Cg~ 26 (34)
T cd00729 17 APEKCPICGA 26 (34)
T ss_pred CCCcCcCCCC
Confidence 5789999985
No 87
>KOG0717 consensus Molecular chaperone (DnaJ superfamily) [Posttranslational modification, protein turnover, chaperones]
Probab=36.01 E-value=13 Score=39.46 Aligned_cols=22 Identities=36% Similarity=0.653 Sum_probs=20.2
Q ss_pred cccCCCCcccCCCCchhhHhhh
Q 038961 6 HVCKFCSKSFPCGRSLGGHMRS 27 (457)
Q Consensus 6 ~~Ck~C~K~F~~~~~L~~HmR~ 27 (457)
+-|-+|+|+|.+.++|+.|..+
T Consensus 293 lyC~vCnKsFKseKq~kNHEnS 314 (508)
T KOG0717|consen 293 LYCVVCNKSFKSEKQLKNHENS 314 (508)
T ss_pred eEEeeccccccchHHHHhhHHH
Confidence 6799999999999999999864
No 88
>PRK06266 transcription initiation factor E subunit alpha; Validated
Probab=35.38 E-value=12 Score=34.73 Aligned_cols=17 Identities=18% Similarity=0.475 Sum_probs=13.9
Q ss_pred ccccCCCCcccCCCCch
Q 038961 5 KHVCKFCSKSFPCGRSL 21 (457)
Q Consensus 5 ~~~Ck~C~K~F~~~~~L 21 (457)
-|.|..|+++|.--.|+
T Consensus 117 ~Y~Cp~C~~rytf~eA~ 133 (178)
T PRK06266 117 FFFCPNCHIRFTFDEAM 133 (178)
T ss_pred EEECCCCCcEEeHHHHh
Confidence 48899999999877765
No 89
>PF06524 NOA36: NOA36 protein; InterPro: IPR010531 This family consists of several NOA36 proteins which contain 29 highly conserved cysteine residues. The function of this protein is unknown.; GO: 0008270 zinc ion binding, 0005634 nucleus
Probab=33.62 E-value=36 Score=33.48 Aligned_cols=97 Identities=21% Similarity=0.236 Sum_probs=56.9
Q ss_pred cCCCCccccCCCCCccCCchhhhhhccccCCccCccccccCCCCC--CccCCCCCCCCcchhhhhccCcchhhhhhcccc
Q 038961 278 SQKRSKFECATCNKIFHSYQALGGHRASHKKIKGCFATKIDSSEN--SIEAEHSPDPTADSKLIKSINNENSADHFFVAD 355 (457)
Q Consensus 278 h~~ekpy~C~~C~K~F~s~~~L~~H~~~H~~~k~~~~~~c~~cek--p~~C~~C~k~f~~~k~f~~~~~~~L~~H~~~~~ 355 (457)
..|-+.|+|..|.. |.-...-..|+.+-...- .-.|+|.+|.| .|.|-.|---| -..|.+.
T Consensus 137 ~hGGrif~CsfC~~-flCEDDQFEHQAsCQvLe-~E~~KC~SCNrlGq~sCLRCK~cf-------------CddHvrr-- 199 (314)
T PF06524_consen 137 DHGGRIFKCSFCDN-FLCEDDQFEHQASCQVLE-SETFKCQSCNRLGQYSCLRCKICF-------------CDDHVRR-- 199 (314)
T ss_pred cCCCeEEEeecCCC-eeeccchhhhhhhhhhhh-cccccccccccccchhhhheeeee-------------hhhhhhh--
Confidence 45778899999986 555555566776542210 12456666643 23333321111 1234433
Q ss_pred CCCCccccccCCCccccCCCCCCCCCCchhhhhhhhhccCC
Q 038961 356 CDDHRAETSCGAKKKHECPICLKVFPSGQALGGHKRSHLLG 396 (457)
Q Consensus 356 ~~~~~~~~~H~geKp~~C~~Cgk~F~~~~~L~~H~r~H~~~ 396 (457)
++.+ ....+++.||.||..-.....|..-.|+|.=+
T Consensus 200 ----Kg~k-y~k~k~~PCPKCg~et~eTkdLSmStR~hkyG 235 (314)
T PF06524_consen 200 ----KGFK-YEKGKPIPCPKCGYETQETKDLSMSTRSHKYG 235 (314)
T ss_pred ----cccc-cccCCCCCCCCCCCcccccccceeeeecchhc
Confidence 1111 33348999999999888888888777888643
No 90
>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=33.45 E-value=23 Score=23.80 Aligned_cols=12 Identities=33% Similarity=0.584 Sum_probs=9.9
Q ss_pred cccCCCCCCCCC
Q 038961 370 KHECPICLKVFP 381 (457)
Q Consensus 370 p~~C~~Cgk~F~ 381 (457)
...|+.|+..|.
T Consensus 25 ~v~C~~C~~~~~ 36 (38)
T TIGR02098 25 KVRCGKCGHVWY 36 (38)
T ss_pred EEECCCCCCEEE
Confidence 578999998874
No 91
>KOG4124 consensus Putative transcriptional repressor regulating G2/M transition [Transcription; Cell cycle control, cell division, chromosome partitioning]
Probab=31.00 E-value=25 Score=35.87 Aligned_cols=23 Identities=26% Similarity=0.485 Sum_probs=18.8
Q ss_pred CCccccCCCCCCCCCCchhhhhh
Q 038961 367 AKKKHECPICLKVFPSGQALGGH 389 (457)
Q Consensus 367 geKp~~C~~Cgk~F~~~~~L~~H 389 (457)
..|||+|++|.+++..--.|..|
T Consensus 395 ~nk~~r~~i~~~~~k~~~~l~~~ 417 (442)
T KOG4124|consen 395 ENKPYRCEVCSKRYKNLNGLKYH 417 (442)
T ss_pred ccCcccChhhhhhhccCCCCCce
Confidence 35999999999998877777665
No 92
>PF13717 zinc_ribbon_4: zinc-ribbon domain
Probab=30.92 E-value=32 Score=23.21 Aligned_cols=13 Identities=38% Similarity=0.728 Sum_probs=10.6
Q ss_pred ccccCCCCCCCCC
Q 038961 369 KKHECPICLKVFP 381 (457)
Q Consensus 369 Kp~~C~~Cgk~F~ 381 (457)
+..+|+.|+..|.
T Consensus 24 ~~v~C~~C~~~f~ 36 (36)
T PF13717_consen 24 RKVRCSKCGHVFF 36 (36)
T ss_pred cEEECCCCCCEeC
Confidence 4579999999884
No 93
>PF12013 DUF3505: Protein of unknown function (DUF3505); InterPro: IPR022698 This family of proteins is functionally uncharacterised. This protein is found in eukaryotes. Proteins in this family are typically between 247 to 1018 amino acids in length. This region contains two segments that are likely to be C2H2 zinc binding domains.
Probab=30.27 E-value=26 Score=29.47 Aligned_cols=26 Identities=23% Similarity=0.313 Sum_probs=23.3
Q ss_pred cccC----CCCCCCCCCchhhhhhhhhccC
Q 038961 370 KHEC----PICLKVFPSGQALGGHKRSHLL 395 (457)
Q Consensus 370 p~~C----~~Cgk~F~~~~~L~~H~r~H~~ 395 (457)
-|.| ..|+..+.+...+..|.+.++|
T Consensus 80 G~~C~~~~~~C~y~~~~~~~m~~H~~~~Hg 109 (109)
T PF12013_consen 80 GYRCQCDPPHCGYITRSKKTMRKHWRKEHG 109 (109)
T ss_pred CeeeecCCCCCCcEeccHHHHHHHHHHhcC
Confidence 4899 9999999999999999988764
No 94
>PF05443 ROS_MUCR: ROS/MUCR transcriptional regulator protein; InterPro: IPR008807 This family consists of several ROS/MUCR transcriptional regulator proteins. The ros chromosomal gene is present in octopine and nopaline strains of Agrobacterium tumefaciens as well as in Rhizobium meliloti (Sinorhizobium meliloti). This gene encodes a 15.5 kDa protein that specifically represses the virC and virD operons in the virulence region of the Ti plasmid [] and is necessary for succinoglycan production []. S. meliloti can produce two types of acidic exopolysaccharides, succinoglycan and galactoglucan, that are interchangeable for infection of Medicago sativa (Alfalfa) nodules. MucR from S. meliloti acts as a transcriptional repressor that blocks the expression of the exp genes responsible for galactoglucan production therefore allowing the exclusive production of succinoglycan [].; GO: 0003677 DNA binding, 0008270 zinc ion binding, 0006355 regulation of transcription, DNA-dependent; PDB: 2JSP_A.
Probab=29.89 E-value=19 Score=31.87 Aligned_cols=23 Identities=35% Similarity=0.390 Sum_probs=15.3
Q ss_pred cccCCCCCCCCCCchhhhhhhhhccC
Q 038961 370 KHECPICLKVFPSGQALGGHKRSHLL 395 (457)
Q Consensus 370 p~~C~~Cgk~F~~~~~L~~H~r~H~~ 395 (457)
--.|-+|||.|. .|++|++.|+|
T Consensus 72 ~i~clecGk~~k---~LkrHL~~~~g 94 (132)
T PF05443_consen 72 YIICLECGKKFK---TLKRHLRTHHG 94 (132)
T ss_dssp -EE-TBT--EES---BHHHHHHHTT-
T ss_pred eeEEccCCcccc---hHHHHHHHccC
Confidence 357999999996 46999999976
No 95
>PRK06266 transcription initiation factor E subunit alpha; Validated
Probab=29.23 E-value=26 Score=32.60 Aligned_cols=20 Identities=25% Similarity=0.467 Sum_probs=16.6
Q ss_pred CCCccccCCCCCccCCchhh
Q 038961 280 KRSKFECATCNKIFHSYQAL 299 (457)
Q Consensus 280 ~ekpy~C~~C~K~F~s~~~L 299 (457)
...-|.|+.|++.|+.-.++
T Consensus 114 ~~~~Y~Cp~C~~rytf~eA~ 133 (178)
T PRK06266 114 NNMFFFCPNCHIRFTFDEAM 133 (178)
T ss_pred CCCEEECCCCCcEEeHHHHh
Confidence 44569999999999988876
No 96
>TIGR00622 ssl1 transcription factor ssl1. This family is based on the phylogenomic analysis of JA Eisen (1999, Ph.D. Thesis, Stanford University).
Probab=28.73 E-value=1.2e+02 Score=26.01 Aligned_cols=31 Identities=23% Similarity=0.351 Sum_probs=25.7
Q ss_pred CccccCCCCCCCCCCchhhhhhhhhccCCCC
Q 038961 368 KKKHECPICLKVFPSGQALGGHKRSHLLGGN 398 (457)
Q Consensus 368 eKp~~C~~Cgk~F~~~~~L~~H~r~H~~~~~ 398 (457)
...|+|+.|...|--.-..-.|...|.-.|.
T Consensus 79 ~~~y~C~~C~~~FC~dCD~fiHe~Lh~CPGC 109 (112)
T TIGR00622 79 SHRYVCAVCKNVFCVDCDVFVHESLHCCPGC 109 (112)
T ss_pred ccceeCCCCCCccccccchhhhhhccCCcCC
Confidence 3579999999999988888889888876544
No 97
>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=28.69 E-value=44 Score=29.33 Aligned_cols=20 Identities=25% Similarity=0.419 Sum_probs=15.7
Q ss_pred CccccCCCCCCCCCCchhhh
Q 038961 368 KKKHECPICLKVFPSGQALG 387 (457)
Q Consensus 368 eKp~~C~~Cgk~F~~~~~L~ 387 (457)
..|-.|+.||..|.-...++
T Consensus 24 k~p~vcP~cg~~~~~~~~~~ 43 (129)
T TIGR02300 24 RRPAVSPYTGEQFPPEEALK 43 (129)
T ss_pred CCCccCCCcCCccCcchhhc
Confidence 46889999999997765544
No 98
>PF09845 DUF2072: Zn-ribbon containing protein (DUF2072); InterPro: IPR018645 This archaeal Zinc-ribbon containing proteins have no known function.
Probab=27.45 E-value=30 Score=30.48 Aligned_cols=15 Identities=40% Similarity=0.968 Sum_probs=13.7
Q ss_pred cccCCCCCCCCCCch
Q 038961 370 KHECPICLKVFPSGQ 384 (457)
Q Consensus 370 p~~C~~Cgk~F~~~~ 384 (457)
||+|..||+.|..++
T Consensus 1 PH~Ct~Cg~~f~dgs 15 (131)
T PF09845_consen 1 PHQCTKCGRVFEDGS 15 (131)
T ss_pred CcccCcCCCCcCCCc
Confidence 799999999999876
No 99
>PF01363 FYVE: FYVE zinc finger; InterPro: IPR000306 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 FYVE zinc finger is named after four proteins that it has been found in: Fab1, YOTB/ZK632.12, Vac1, and EEA1. The FYVE finger has been shown to bind two zinc ions []. The FYVE finger has eight potential zinc coordinating cysteine positions. Many members of this family also include two histidines in a motif R+HHC+XCG, where + represents a charged residue and X any residue. FYVE-type domains are divided into two known classes: FYVE domains that specifically bind to phosphatidylinositol 3-phosphate in lipid bilayers and FYVE-related domains of undetermined function []. Those that bind to phosphatidylinositol 3-phosphate are often found in proteins targeted to lipid membranes that are involved in regulating membrane traffic [, , ]. Most FYVE domains target proteins to endosomes by binding specifically to phosphatidylinositol-3-phosphate at the membrane surface. By contrast, the CARP2 FYVE-like domain is not optimized to bind to phosphoinositides or insert into lipid bilayers. FYVE domains are distinguished from other zinc fingers by three signature sequences: an N-terminal WxxD motif, a basic R(R/K)HHCR patch, and a C-terminal RVC motif. More information about these proteins can be found at Protein of the Month: Zinc Fingers [].; GO: 0046872 metal ion binding; PDB: 1HYI_A 1JOC_B 1HYJ_A 1DVP_A 3ZYQ_A 4AVX_A 1VFY_A 3T7L_A 1X4U_A 1WFK_A ....
Probab=26.03 E-value=30 Score=26.41 Aligned_cols=13 Identities=23% Similarity=0.386 Sum_probs=7.5
Q ss_pred cccccccCCccCC
Q 038961 82 QQQQLCGKGFVSW 94 (457)
Q Consensus 82 ~~C~~CgK~F~s~ 94 (457)
+.|..||..|=+.
T Consensus 26 hhCr~CG~~vC~~ 38 (69)
T PF01363_consen 26 HHCRNCGRVVCSS 38 (69)
T ss_dssp EE-TTT--EEECC
T ss_pred EccCCCCCEECCc
Confidence 4599999988755
No 100
>PF10571 UPF0547: Uncharacterised protein family UPF0547; InterPro: IPR018886 This domain may well be a type of zinc-finger as it carries two pairs of highly conserved cysteine residues though with no accompanying histidines. Several members are annotated as putative helicases.
Probab=24.88 E-value=40 Score=21.14 Aligned_cols=11 Identities=36% Similarity=0.673 Sum_probs=9.0
Q ss_pred ccCCCCCCCCC
Q 038961 371 HECPICLKVFP 381 (457)
Q Consensus 371 ~~C~~Cgk~F~ 381 (457)
-.|+.||..|.
T Consensus 15 ~~Cp~CG~~F~ 25 (26)
T PF10571_consen 15 KFCPHCGYDFE 25 (26)
T ss_pred CcCCCCCCCCc
Confidence 36999999885
No 101
>KOG4173 consensus Alpha-SNAP protein [Intracellular trafficking, secretion, and vesicular transport]
Probab=24.69 E-value=6.9 Score=37.02 Aligned_cols=88 Identities=16% Similarity=0.296 Sum_probs=48.8
Q ss_pred CccccCC--CCCccCCchhhhhhccc-cCCccCccccccCCCCCCccCCCCCCCCcchhhhhccCcchhhhhhccccCCC
Q 038961 282 SKFECAT--CNKIFHSYQALGGHRAS-HKKIKGCFATKIDSSENSIEAEHSPDPTADSKLIKSINNENSADHFFVADCDD 358 (457)
Q Consensus 282 kpy~C~~--C~K~F~s~~~L~~H~~~-H~~~k~~~~~~c~~cekp~~C~~C~k~f~~~k~f~~~~~~~L~~H~~~~~~~~ 358 (457)
+.|.|++ |-..|........|..+ |+. .|.+|.+.|..+ .-|..|+.- .-+.
T Consensus 78 ~~~~cqvagc~~~~d~lD~~E~hY~~~h~~----------------sCs~C~r~~Pt~--------hLLd~HI~E-~HDs 132 (253)
T KOG4173|consen 78 PAFACQVAGCCQVFDALDDYEHHYHTLHGN----------------SCSFCKRAFPTG--------HLLDAHILE-WHDS 132 (253)
T ss_pred ccccccccchHHHHhhhhhHHHhhhhcccc----------------hhHHHHHhCCch--------hhhhHHHHH-HHHH
Confidence 4567766 66677766666666533 333 466655555544 334444321 0000
Q ss_pred CccccccCCCccccCCC--CCCCCCCchhhhhh-hhhcc
Q 038961 359 HRAETSCGAKKKHECPI--CLKVFPSGQALGGH-KRSHL 394 (457)
Q Consensus 359 ~~~~~~H~geKp~~C~~--Cgk~F~~~~~L~~H-~r~H~ 394 (457)
.-+.++-.|.--|+|-+ |+-.|.+..+...| +++|.
T Consensus 133 ~Fqa~veRG~dMy~ClvEgCt~KFkT~r~RkdH~I~~Hk 171 (253)
T KOG4173|consen 133 LFQALVERGQDMYQCLVEGCTEKFKTSRDRKDHMIRMHK 171 (253)
T ss_pred HHHHHHHcCccHHHHHHHhhhhhhhhhhhhhhHHHHhcc
Confidence 00011134455688844 99999998888888 46675
No 102
>PRK00398 rpoP DNA-directed RNA polymerase subunit P; Provisional
Probab=24.41 E-value=43 Score=23.61 Aligned_cols=12 Identities=25% Similarity=0.484 Sum_probs=9.1
Q ss_pred cccCCCCCCCCC
Q 038961 370 KHECPICLKVFP 381 (457)
Q Consensus 370 p~~C~~Cgk~F~ 381 (457)
...|+.||..+.
T Consensus 21 ~~~Cp~CG~~~~ 32 (46)
T PRK00398 21 GVRCPYCGYRIL 32 (46)
T ss_pred ceECCCCCCeEE
Confidence 689999986553
No 103
>COG1997 RPL43A Ribosomal protein L37AE/L43A [Translation, ribosomal structure and biogenesis]
Probab=24.28 E-value=45 Score=27.31 Aligned_cols=32 Identities=16% Similarity=0.240 Sum_probs=22.8
Q ss_pred CCccccCCCCCccCCchhhhhhccccCCccCccccccCCCCCCccCCCCCCCCc
Q 038961 281 RSKFECATCNKIFHSYQALGGHRASHKKIKGCFATKIDSSENSIEAEHSPDPTA 334 (457)
Q Consensus 281 ekpy~C~~C~K~F~s~~~L~~H~~~H~~~k~~~~~~c~~cekp~~C~~C~k~f~ 334 (457)
..+|.|+.|++. .+.|+-++ =|.|..|+..|+
T Consensus 33 ~~~~~Cp~C~~~--------~VkR~a~G--------------IW~C~kCg~~fA 64 (89)
T COG1997 33 RAKHVCPFCGRT--------TVKRIATG--------------IWKCRKCGAKFA 64 (89)
T ss_pred hcCCcCCCCCCc--------ceeeeccC--------------eEEcCCCCCeec
Confidence 457999999984 34455555 477888887776
No 104
>PF06220 zf-U1: U1 zinc finger; InterPro: IPR013085 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. C2H2-type (classical) zinc fingers (Znf) were the first class to be characterised. They contain a short beta hairpin and an alpha helix (beta/beta/alpha structure), where a single zinc atom is held in place by Cys(2)His(2) (C2H2) residues in a tetrahedral array. C2H2 Znf's can be divided into three groups based on the number and pattern of fingers: triple-C2H2 (binds single ligand), multiple-adjacent-C2H2 (binds multiple ligands), and separated paired-C2H2 []. C2H2 Znf's are the most common DNA-binding motifs found in eukaryotic transcription factors, and have also been identified in prokaryotes []. Transcription factors usually contain several Znf's (each with a conserved beta/beta/alpha structure) capable of making multiple contacts along the DNA, where the C2H2 Znf motifs recognise DNA sequences by binding to the major groove of DNA via a short alpha-helix in the Znf, the Znf spanning 3-4 bases of the DNA []. C2H2 Znf's can also bind to RNA and protein targets []. This entry represents a C2H2-type zinc finger motif found in several U1 small nuclear ribonucleoprotein C (U1-C) proteins. Some proteins contain multiple copies of this motif. The U1 small nuclear ribonucleoprotein (U1 snRNP) binds to the pre-mRNA 5' splice site at early stages of spliceosome assembly. Recruitment of U1 to a class of weak 5' splice site is promoted by binding of the protein TIA-1 to uridine-rich sequences immediately downstream from the 5' splice site. Binding of TIA-1 in the vicinity of a 5' splice site helps to stabilise U1 snRNP recruitment, at least in part, via a direct interaction with U1-C, thus providing one molecular mechanism for the function of this splicing regulator []. More information about these proteins can be found at Protein of the Month: Zinc Fingers [].; GO: 0008270 zinc ion binding; PDB: 2VRD_A.
Probab=24.27 E-value=40 Score=23.06 Aligned_cols=22 Identities=18% Similarity=0.403 Sum_probs=9.5
Q ss_pred cccccCCCCcccCCCCch--hhHh
Q 038961 4 FKHVCKFCSKSFPCGRSL--GGHM 25 (457)
Q Consensus 4 k~~~Ck~C~K~F~~~~~L--~~Hm 25 (457)
++|-|++|++.|...... +.|.
T Consensus 2 ~ryyCdyC~~~~~~d~~~~Rk~H~ 25 (38)
T PF06220_consen 2 PRYYCDYCKKYLTHDSPSIRKQHE 25 (38)
T ss_dssp -S-B-TTT--B-S--SHHHHHHHT
T ss_pred cCeecccccceecCCChHHHHHhh
Confidence 579999999999666533 4554
No 105
>PRK14873 primosome assembly protein PriA; Provisional
Probab=24.19 E-value=40 Score=37.87 Aligned_cols=53 Identities=15% Similarity=0.253 Sum_probs=33.3
Q ss_pred cCcccc-ccCCCCCCccCCCCCCCCcchhhhhccCcchhhhhhccccCCCCccccccCCCccccCCCCCCC
Q 038961 310 KGCFAT-KIDSSENSIEAEHSPDPTADSKLIKSINNENSADHFFVADCDDHRAETSCGAKKKHECPICLKV 379 (457)
Q Consensus 310 k~~~~~-~c~~cekp~~C~~C~k~f~~~k~f~~~~~~~L~~H~~~~~~~~~~~~~~H~geKp~~C~~Cgk~ 379 (457)
+++.++ .|..|+....|..|+-+..-. . ....|..|.=. +.. .|+.|+.||-.
T Consensus 378 rGyap~l~C~~Cg~~~~C~~C~~~L~~h----~-~~~~l~Ch~CG-----------~~~-~p~~Cp~Cgs~ 431 (665)
T PRK14873 378 RGYVPSLACARCRTPARCRHCTGPLGLP----S-AGGTPRCRWCG-----------RAA-PDWRCPRCGSD 431 (665)
T ss_pred CCCCCeeEhhhCcCeeECCCCCCceeEe----c-CCCeeECCCCc-----------CCC-cCccCCCCcCC
Confidence 344443 799999999999987443321 1 01335555443 333 58899999865
No 106
>TIGR00595 priA primosomal protein N'. All proteins in this family for which functions are known are components of the primosome which is involved in replication, repair, and recombination.This family is based on the phylogenomic analysis of JA Eisen (1999, Ph.D. Thesis, Stanford University).
Probab=24.18 E-value=46 Score=36.09 Aligned_cols=49 Identities=12% Similarity=0.078 Sum_probs=26.5
Q ss_pred cccCCCCCCccCCCCCCCCcchhhhhccCcchhhhhhccccCCCCccccccCCCccccCCCCCCC
Q 038961 315 TKIDSSENSIEAEHSPDPTADSKLIKSINNENSADHFFVADCDDHRAETSCGAKKKHECPICLKV 379 (457)
Q Consensus 315 ~~c~~cekp~~C~~C~k~f~~~k~f~~~~~~~L~~H~~~~~~~~~~~~~~H~geKp~~C~~Cgk~ 379 (457)
..|..|+...+|+.|+-+..-.+ . ...|..|.=. +...-|..|+.|+-.
T Consensus 214 ~~C~~Cg~~~~C~~C~~~l~~h~---~--~~~l~Ch~Cg-----------~~~~~~~~Cp~C~s~ 262 (505)
T TIGR00595 214 LLCRSCGYILCCPNCDVSLTYHK---K--EGKLRCHYCG-----------YQEPIPKTCPQCGSE 262 (505)
T ss_pred eEhhhCcCccCCCCCCCceEEec---C--CCeEEcCCCc-----------CcCCCCCCCCCCCCC
Confidence 35777777777777763322110 0 0223333333 444567888888753
No 107
>COG1592 Rubrerythrin [Energy production and conversion]
Probab=23.61 E-value=56 Score=30.12 Aligned_cols=25 Identities=16% Similarity=0.299 Sum_probs=18.9
Q ss_pred CccccCCCCCccCCchhhhhhccccCCccCccccccCCCCCCccCCCCCC
Q 038961 282 SKFECATCNKIFHSYQALGGHRASHKKIKGCFATKIDSSENSIEAEHSPD 331 (457)
Q Consensus 282 kpy~C~~C~K~F~s~~~L~~H~~~H~~~k~~~~~~c~~cekp~~C~~C~k 331 (457)
+-|.|.+||.+ |.| +-|-+|++|+.
T Consensus 133 ~~~vC~vCGy~-------------~~g------------e~P~~CPiCga 157 (166)
T COG1592 133 KVWVCPVCGYT-------------HEG------------EAPEVCPICGA 157 (166)
T ss_pred CEEEcCCCCCc-------------ccC------------CCCCcCCCCCC
Confidence 37999999863 455 67888998873
No 108
>KOG0978 consensus E3 ubiquitin ligase involved in syntaxin degradation [Posttranslational modification, protein turnover, chaperones]
Probab=23.58 E-value=43 Score=37.55 Aligned_cols=21 Identities=24% Similarity=0.599 Sum_probs=16.9
Q ss_pred ccccCCCCCCCCCCchhhhhh
Q 038961 369 KKHECPICLKVFPSGQALGGH 389 (457)
Q Consensus 369 Kp~~C~~Cgk~F~~~~~L~~H 389 (457)
|.-+||.|+..|....-+..|
T Consensus 677 RqRKCP~Cn~aFganDv~~I~ 697 (698)
T KOG0978|consen 677 RQRKCPKCNAAFGANDVHRIH 697 (698)
T ss_pred hcCCCCCCCCCCCcccccccC
Confidence 556899999999988776554
No 109
>PF13719 zinc_ribbon_5: zinc-ribbon domain
Probab=23.50 E-value=48 Score=22.39 Aligned_cols=14 Identities=43% Similarity=0.890 Sum_probs=11.3
Q ss_pred CccccCCCCCCCCC
Q 038961 368 KKKHECPICLKVFP 381 (457)
Q Consensus 368 eKp~~C~~Cgk~F~ 381 (457)
.+..+|+.|+..|.
T Consensus 23 ~~~vrC~~C~~~f~ 36 (37)
T PF13719_consen 23 GRKVRCPKCGHVFR 36 (37)
T ss_pred CcEEECCCCCcEee
Confidence 45689999998884
No 110
>PF04810 zf-Sec23_Sec24: Sec23/Sec24 zinc finger; InterPro: IPR006895 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. COPII (coat protein complex II)-coated vesicles carry proteins from the endoplasmic reticulum (ER) to the Golgi complex []. COPII-coated vesicles form on the ER by the stepwise recruitment of three cytosolic components: Sar1-GTP to initiate coat formation, Sec23/24 heterodimer to select SNARE and cargo molecules, and Sec13/31 to induce coat polymerisation and membrane deformation []. Sec23 p and Sec24p are structurally related, folding into five distinct domains: a beta-barrel, a zinc-finger, an alpha/beta trunk domain (IPR006896 from INTERPRO), an all-helical region (IPR006900 from INTERPRO), and a C-terminal gelsolin-like domain (IPR007123 from INTERPRO). This entry describes an approximately 55-residue Sec23/24 zinc-binding domain, which lies against the beta-barrel at the periphery of the complex. More information about these proteins can be found at Protein of the Month: Zinc Fingers [].; GO: 0008270 zinc ion binding, 0006886 intracellular protein transport, 0006888 ER to Golgi vesicle-mediated transport, 0030127 COPII vesicle coat; PDB: 3EFO_B 3EG9_B 3EGD_A 2YRC_A 2NUP_A 2YRD_A 3EGX_A 2NUT_A 3EH1_A 1PD0_A ....
Probab=22.49 E-value=49 Score=22.76 Aligned_cols=15 Identities=20% Similarity=0.295 Sum_probs=9.9
Q ss_pred cCCCccccCCCCCCC
Q 038961 365 CGAKKKHECPICLKV 379 (457)
Q Consensus 365 H~geKp~~C~~Cgk~ 379 (457)
..+.+.+.|.+|+..
T Consensus 19 ~~~~~~w~C~~C~~~ 33 (40)
T PF04810_consen 19 DDGGKTWICNFCGTK 33 (40)
T ss_dssp ETTTTEEEETTT--E
T ss_pred cCCCCEEECcCCCCc
Confidence 445678999999864
No 111
>TIGR00373 conserved hypothetical protein TIGR00373. This family of proteins is, so far, restricted to archaeal genomes. The family appears to be distantly related to the N-terminal region of the eukaryotic transcription initiation factor IIE alpha chain.
Probab=22.25 E-value=50 Score=29.98 Aligned_cols=24 Identities=17% Similarity=0.148 Sum_probs=19.4
Q ss_pred hcCCCCccccCCCCCccCCchhhh
Q 038961 277 DSQKRSKFECATCNKIFHSYQALG 300 (457)
Q Consensus 277 ~h~~ekpy~C~~C~K~F~s~~~L~ 300 (457)
..+...-|.|+.|+..|+.-.++.
T Consensus 103 ~e~~~~~Y~Cp~c~~r~tf~eA~~ 126 (158)
T TIGR00373 103 FETNNMFFICPNMCVRFTFNEAME 126 (158)
T ss_pred hccCCCeEECCCCCcEeeHHHHHH
Confidence 345566799999999999988884
No 112
>PHA00626 hypothetical protein
Probab=22.02 E-value=43 Score=25.14 Aligned_cols=14 Identities=21% Similarity=0.126 Sum_probs=11.9
Q ss_pred cccccCCCCcccCC
Q 038961 4 FKHVCKFCSKSFPC 17 (457)
Q Consensus 4 k~~~Ck~C~K~F~~ 17 (457)
-+|+|+.||..|..
T Consensus 22 nrYkCkdCGY~ft~ 35 (59)
T PHA00626 22 DDYVCCDCGYNDSK 35 (59)
T ss_pred cceEcCCCCCeech
Confidence 46999999999864
No 113
>PRK05580 primosome assembly protein PriA; Validated
Probab=21.29 E-value=53 Score=36.98 Aligned_cols=49 Identities=12% Similarity=0.073 Sum_probs=31.6
Q ss_pred cccCCCCCCccCCCCCCCCcchhhhhccCcchhhhhhccccCCCCccccccCCCccccCCCCCCC
Q 038961 315 TKIDSSENSIEAEHSPDPTADSKLIKSINNENSADHFFVADCDDHRAETSCGAKKKHECPICLKV 379 (457)
Q Consensus 315 ~~c~~cekp~~C~~C~k~f~~~k~f~~~~~~~L~~H~~~~~~~~~~~~~~H~geKp~~C~~Cgk~ 379 (457)
..|..|+....|..|+-+..-.+ . ...|..|.-. ++...|..|+.||..
T Consensus 382 ~~C~~Cg~~~~C~~C~~~l~~h~---~--~~~l~Ch~Cg-----------~~~~~~~~Cp~Cg~~ 430 (679)
T PRK05580 382 LLCRDCGWVAECPHCDASLTLHR---F--QRRLRCHHCG-----------YQEPIPKACPECGST 430 (679)
T ss_pred eEhhhCcCccCCCCCCCceeEEC---C--CCeEECCCCc-----------CCCCCCCCCCCCcCC
Confidence 56999999999999874432111 0 1334555444 555668899999765
No 114
>cd00065 FYVE FYVE domain; Zinc-binding domain; targets proteins to membrane lipids via interaction with phosphatidylinositol-3-phosphate, PI3P; present in Fab1, YOTB, Vac1, and EEA1;
Probab=21.12 E-value=58 Score=23.61 Aligned_cols=13 Identities=31% Similarity=0.526 Sum_probs=9.4
Q ss_pred cccccccCCccCC
Q 038961 82 QQQQLCGKGFVSW 94 (457)
Q Consensus 82 ~~C~~CgK~F~s~ 94 (457)
+.|..||+.|-..
T Consensus 19 ~~Cr~Cg~~~C~~ 31 (57)
T cd00065 19 HHCRNCGRIFCSK 31 (57)
T ss_pred cccCcCcCCcChH
Confidence 4588888887753
No 115
>PRK14890 putative Zn-ribbon RNA-binding protein; Provisional
Probab=20.93 E-value=53 Score=24.92 Aligned_cols=10 Identities=30% Similarity=0.623 Sum_probs=7.6
Q ss_pred ccccCCCCCC
Q 038961 369 KKHECPICLK 378 (457)
Q Consensus 369 Kp~~C~~Cgk 378 (457)
.+|.|+.||.
T Consensus 47 ~~Y~CP~CGF 56 (59)
T PRK14890 47 NPYTCPKCGF 56 (59)
T ss_pred CceECCCCCC
Confidence 4688888874
No 116
>COG4888 Uncharacterized Zn ribbon-containing protein [General function prediction only]
Probab=20.82 E-value=29 Score=29.12 Aligned_cols=12 Identities=25% Similarity=0.376 Sum_probs=9.7
Q ss_pred cccccccCCccC
Q 038961 82 QQQQLCGKGFVS 93 (457)
Q Consensus 82 ~~C~~CgK~F~s 93 (457)
..|..||-.|.-
T Consensus 47 ~~Cg~CGls~e~ 58 (104)
T COG4888 47 AVCGNCGLSFEC 58 (104)
T ss_pred EEcccCcceEEE
Confidence 479999998873
No 117
>PF14279 HNH_5: HNH endonuclease
Probab=20.72 E-value=31 Score=27.10 Aligned_cols=12 Identities=25% Similarity=0.249 Sum_probs=9.3
Q ss_pred ccccccCCccCC
Q 038961 83 QQQLCGKGFVSW 94 (457)
Q Consensus 83 ~C~~CgK~F~s~ 94 (457)
.|+.|.-.|.+.
T Consensus 32 vC~~CN~~~g~~ 43 (71)
T PF14279_consen 32 VCDKCNNKFGSK 43 (71)
T ss_pred hhHHHhHHHhHH
Confidence 699998887754
No 118
>PF04959 ARS2: Arsenite-resistance protein 2; InterPro: IPR007042 This entry represents Arsenite-resistance protein 2 (also known as Serrate RNA effector molecule homolog) which is thought to play a role in arsenite resistance [], although does not directly confer arsenite resistance but rather modulates arsenic sensitivity []. Arsenite is a carcinogenic compound which can act as a comutagen by inhibiting DNA repair. It is also involved in cell cycle progression at S phase. ; PDB: 3AX1_A.
Probab=20.72 E-value=34 Score=32.86 Aligned_cols=28 Identities=29% Similarity=0.408 Sum_probs=21.9
Q ss_pred CCcccccCCCCcccCCCCchhhHhh-hcc
Q 038961 2 REFKHVCKFCSKSFPCGRSLGGHMR-SHM 29 (457)
Q Consensus 2 ~ek~~~Ck~C~K~F~~~~~L~~HmR-~H~ 29 (457)
.+-+|.|.+|+|-|.-......|+. -|.
T Consensus 74 ~~~K~~C~lc~KlFkg~eFV~KHI~nKH~ 102 (214)
T PF04959_consen 74 DEDKWRCPLCGKLFKGPEFVRKHIFNKHP 102 (214)
T ss_dssp SSEEEEE-SSS-EESSHHHHHHHHHHH-H
T ss_pred cCCEECCCCCCcccCChHHHHHHHhhcCH
Confidence 3567999999999999999999986 666
No 119
>COG4391 Uncharacterized protein conserved in bacteria [Function unknown]
Probab=20.58 E-value=58 Score=24.89 Aligned_cols=13 Identities=23% Similarity=0.674 Sum_probs=10.0
Q ss_pred ccccCCCCCCCCC
Q 038961 369 KKHECPICLKVFP 381 (457)
Q Consensus 369 Kp~~C~~Cgk~F~ 381 (457)
.--.|+.|++.|.
T Consensus 47 gev~CPYC~t~y~ 59 (62)
T COG4391 47 GEVVCPYCSTRYR 59 (62)
T ss_pred CcEecCccccEEE
Confidence 3457999999885
No 120
>COG4957 Predicted transcriptional regulator [Transcription]
Probab=20.24 E-value=47 Score=29.44 Aligned_cols=23 Identities=26% Similarity=0.108 Sum_probs=19.4
Q ss_pred ccCCCCCCCCCCchhhhhhhhhccCC
Q 038961 371 HECPICLKVFPSGQALGGHKRSHLLG 396 (457)
Q Consensus 371 ~~C~~Cgk~F~~~~~L~~H~r~H~~~ 396 (457)
-.|-.|||.|. .|++|+.+|.+=
T Consensus 77 IicLEDGkkfK---SLKRHL~t~~gm 99 (148)
T COG4957 77 IICLEDGKKFK---SLKRHLTTHYGL 99 (148)
T ss_pred EEEeccCcchH---HHHHHHhcccCC
Confidence 46889999996 689999999873
Done!