Query 044541
Match_columns 237
No_of_seqs 95 out of 97
Neff 3.1
Searched_HMMs 46136
Date Fri Mar 29 04:16:24 2013
Command hhsearch -i /work/01045/syshi/csienesis_hhblits_a3m/044541.a3m -d /work/01045/syshi/HHdatabase/Cdd.hhm -o /work/01045/syshi/hhsearch_cdd/044541hhsearch_cdd -cpu 12 -v 0
No Hit Prob E-value P-value Score SS Cols Query HMM Template HMM
1 PHA00616 hypothetical protein 97.8 3.9E-06 8.4E-11 58.6 -0.1 29 209-237 1-29 (44)
2 PF00096 zf-C2H2: Zinc finger, 97.7 5.8E-06 1.2E-10 48.0 -0.5 23 210-232 1-23 (23)
3 PHA02768 hypothetical protein; 97.7 1.2E-05 2.5E-10 58.5 0.7 25 209-233 5-29 (55)
4 PF13912 zf-C2H2_6: C2H2-type 97.6 1.2E-05 2.5E-10 48.3 -0.3 26 209-234 1-26 (27)
5 PF13894 zf-C2H2_4: C2H2-type 97.6 1.5E-05 3.3E-10 45.1 0.1 24 210-233 1-24 (24)
6 KOG2462 C2H2-type Zn-finger pr 97.4 5.5E-05 1.2E-09 69.8 1.0 29 209-237 187-215 (279)
7 smart00355 ZnF_C2H2 zinc finge 97.2 0.00014 3E-09 41.1 0.7 25 210-234 1-25 (26)
8 KOG1074 Transcriptional repres 97.1 0.00022 4.8E-09 74.0 2.2 38 200-237 344-381 (958)
9 PF12171 zf-C2H2_jaz: Zinc-fin 97.0 0.00022 4.7E-09 43.5 0.3 24 209-232 1-24 (27)
10 KOG2462 C2H2-type Zn-finger pr 96.8 0.00052 1.1E-08 63.5 1.2 31 207-237 213-243 (279)
11 PF12874 zf-met: Zinc-finger o 96.7 0.00031 6.8E-09 41.4 -0.7 24 210-233 1-24 (25)
12 PHA00732 hypothetical protein 96.4 0.0012 2.7E-08 50.2 1.0 26 209-234 1-27 (79)
13 KOG3623 Homeobox transcription 96.3 0.0011 2.3E-08 68.7 0.3 31 207-237 279-309 (1007)
14 smart00451 ZnF_U1 U1-like zinc 96.2 0.0017 3.7E-08 40.5 0.7 27 207-233 1-27 (35)
15 KOG1074 Transcriptional repres 96.2 0.0015 3.3E-08 68.0 0.7 30 208-237 878-907 (958)
16 PF09237 GAGA: GAGA factor; I 95.3 0.0064 1.4E-07 44.5 0.6 33 205-237 20-52 (54)
17 PHA00733 hypothetical protein 94.8 0.012 2.7E-07 47.9 1.2 27 208-234 98-124 (128)
18 PF13909 zf-H2C2_5: C2H2-type 94.7 0.008 1.7E-07 35.3 -0.1 24 210-234 1-24 (24)
19 PHA00733 hypothetical protein 94.4 0.018 3.8E-07 47.1 1.1 27 207-233 71-97 (128)
20 PF12756 zf-C2H2_2: C2H2 type 94.3 0.017 3.7E-07 41.7 0.7 27 208-234 49-75 (100)
21 KOG3623 Homeobox transcription 94.2 0.015 3.2E-07 60.6 0.5 31 207-237 920-950 (1007)
22 PF13913 zf-C2HC_2: zinc-finge 94.1 0.017 3.7E-07 35.4 0.4 21 210-231 3-23 (25)
23 KOG3576 Ovo and related transc 93.6 0.022 4.7E-07 52.2 0.3 30 208-237 144-173 (267)
24 KOG3993 Transcription factor ( 92.3 0.053 1.1E-06 53.6 0.9 26 209-234 295-320 (500)
25 PF13465 zf-H2C2_2: Zinc-finge 91.1 0.067 1.5E-06 32.6 0.1 14 208-221 13-26 (26)
26 PF13465 zf-H2C2_2: Zinc-finge 90.3 0.11 2.4E-06 31.7 0.6 14 224-237 1-14 (26)
27 KOG3408 U1-like Zn-finger-cont 89.8 0.083 1.8E-06 44.5 -0.4 27 207-233 55-81 (129)
28 KOG3576 Ovo and related transc 89.6 0.09 1.9E-06 48.2 -0.4 29 207-235 171-199 (267)
29 KOG3993 Transcription factor ( 87.1 0.14 3E-06 50.7 -0.9 30 206-235 353-382 (500)
30 PF02892 zf-BED: BED zinc fing 84.0 0.27 5.9E-06 32.4 -0.4 26 208-233 15-44 (45)
31 PHA00732 hypothetical protein 83.8 0.46 1E-05 36.3 0.8 22 209-233 27-48 (79)
32 PF05443 ROS_MUCR: ROS/MUCR tr 83.5 0.41 8.8E-06 40.1 0.4 26 207-235 70-95 (132)
33 PF05605 zf-Di19: Drought indu 83.1 0.65 1.4E-05 32.3 1.2 24 209-234 31-54 (54)
34 PRK04860 hypothetical protein; 81.9 0.67 1.5E-05 39.6 1.1 26 208-237 118-143 (160)
35 PF05605 zf-Di19: Drought indu 81.7 0.65 1.4E-05 32.3 0.8 26 209-235 2-27 (54)
36 PF03066 Nucleoplasmin: Nucleo 77.9 0.7 1.5E-05 38.9 0.0 9 134-142 139-147 (149)
37 smart00614 ZnF_BED BED zinc fi 77.9 0.97 2.1E-05 31.0 0.7 24 209-232 18-46 (50)
38 PF12013 DUF3505: Protein of u 73.3 1.3 2.9E-05 34.3 0.4 27 208-234 79-109 (109)
39 KOG4167 Predicted DNA-binding 71.7 1.5 3.3E-05 46.1 0.6 27 207-233 790-816 (907)
40 PF14353 CpXC: CpXC protein 69.6 1.9 4E-05 34.2 0.5 28 206-233 35-62 (128)
41 COG5112 UFD2 U1-like Zn-finger 69.1 0.89 1.9E-05 38.0 -1.4 26 207-232 53-78 (126)
42 PHA02768 hypothetical protein; 65.8 2.9 6.3E-05 30.6 0.8 20 208-227 30-49 (55)
43 PTZ00448 hypothetical protein; 65.4 3.5 7.6E-05 40.1 1.6 27 206-232 311-337 (373)
44 KOG3608 Zn finger proteins [Ge 65.0 2.5 5.3E-05 41.7 0.5 29 208-236 351-379 (467)
45 KOG0717 Molecular chaperone (D 64.4 2.4 5.3E-05 42.5 0.3 26 208-233 290-316 (508)
46 KOG0717 Molecular chaperone (D 64.4 6.7 0.00015 39.5 3.3 31 200-232 453-483 (508)
47 COG4957 Predicted transcriptio 64.4 2.5 5.4E-05 36.5 0.3 25 208-235 75-99 (148)
48 PF04959 ARS2: Arsenite-resist 64.2 1.3 2.8E-05 39.7 -1.5 29 207-235 75-103 (214)
49 PF04147 Nop14: Nop14-like fam 63.8 13 0.00028 39.0 5.4 11 219-229 489-499 (840)
50 COG5048 FOG: Zn-finger [Genera 62.0 4.4 9.5E-05 34.7 1.4 27 209-235 289-317 (467)
51 PLN03086 PRLI-interacting fact 61.5 4.1 9E-05 41.4 1.3 25 208-233 452-476 (567)
52 PLN03086 PRLI-interacting fact 60.5 3.9 8.5E-05 41.5 0.9 25 211-237 480-504 (567)
53 COG3677 Transposase and inacti 60.4 3.8 8.2E-05 33.8 0.7 16 208-223 52-67 (129)
54 KOG3608 Zn finger proteins [Ge 56.1 1.6 3.4E-05 43.0 -2.5 25 209-233 237-261 (467)
55 COG4049 Uncharacterized protei 56.0 2.7 5.9E-05 31.8 -0.7 27 208-234 16-42 (65)
56 KOG4124 Putative transcription 53.2 7.5 0.00016 38.3 1.5 50 179-229 178-232 (442)
57 PF02724 CDC45: CDC45-like pro 48.1 19 0.00042 36.5 3.5 16 27-42 96-111 (622)
58 KOG2038 CAATT-binding transcri 46.7 28 0.00061 37.5 4.5 8 169-176 978-985 (988)
59 COG5189 SFP1 Putative transcri 46.5 7.8 0.00017 37.9 0.5 23 208-230 397-419 (423)
60 PF14812 PBP1_TM: Transmembran 45.8 6.9 0.00015 30.8 0.0 8 135-142 50-57 (81)
61 COG5048 FOG: Zn-finger [Genera 45.3 10 0.00022 32.5 1.0 29 208-236 320-350 (467)
62 PF09538 FYDLN_acid: Protein o 44.0 12 0.00026 30.3 1.2 17 208-224 25-41 (108)
63 KOG1146 Homeobox protein [Gene 43.4 7.4 0.00016 43.3 -0.2 29 209-237 1328-1356(1406)
64 PRK00464 nrdR transcriptional 41.9 10 0.00022 32.4 0.4 15 209-223 28-42 (154)
65 PF03153 TFIIA: Transcription 41.2 9.6 0.00021 35.3 0.2 7 72-78 273-279 (375)
66 smart00154 ZnF_AN1 AN1-like Zi 41.1 13 0.00028 25.0 0.8 15 208-222 11-25 (39)
67 PF08790 zf-LYAR: LYAR-type C2 39.3 8.6 0.00019 24.9 -0.3 20 210-230 1-20 (28)
68 smart00834 CxxC_CXXC_SSSS Puta 37.3 13 0.00029 23.6 0.4 14 209-222 5-18 (41)
69 TIGR02605 CxxC_CxxC_SSSS putat 36.6 13 0.00029 25.1 0.3 14 209-222 5-18 (52)
70 PF01428 zf-AN1: AN1-like Zinc 34.7 12 0.00026 25.1 -0.2 14 208-221 12-25 (43)
71 smart00734 ZnF_Rad18 Rad18-lik 34.1 18 0.00038 22.4 0.5 20 210-230 2-21 (26)
72 KOG2071 mRNA cleavage and poly 33.3 20 0.00042 36.9 1.0 27 207-233 416-442 (579)
73 PF09723 Zn-ribbon_8: Zinc rib 32.4 16 0.00035 24.5 0.2 17 209-225 5-21 (42)
74 KOG3456 NADH:ubiquinone oxidor 32.3 16 0.00035 30.6 0.2 16 206-221 101-116 (120)
75 KOG0127 Nucleolar protein fibr 31.9 41 0.00089 35.0 3.0 7 179-185 327-333 (678)
76 COG5593 Nucleic-acid-binding p 31.1 41 0.00089 35.3 2.8 12 74-85 702-713 (821)
77 KOG2141 Protein involved in hi 30.3 88 0.0019 33.5 5.0 7 182-188 300-306 (822)
78 PF10276 zf-CHCC: Zinc-finger 29.6 15 0.00033 25.2 -0.3 12 208-219 28-39 (40)
79 COG5189 SFP1 Putative transcri 29.5 25 0.00055 34.5 1.0 25 207-231 347-373 (423)
80 KOG3130 Uncharacterized conser 28.3 54 0.0012 33.1 3.0 14 136-149 317-330 (514)
81 KOG0943 Predicted ubiquitin-pr 27.9 40 0.00086 38.7 2.2 13 218-230 1926-1938(3015)
82 COG4547 CobT Cobalamin biosynt 26.5 94 0.002 32.1 4.3 10 130-139 289-298 (620)
83 PF13717 zinc_ribbon_4: zinc-r 26.2 36 0.00078 22.4 1.0 18 203-220 19-36 (36)
84 PF12907 zf-met2: Zinc-binding 25.5 14 0.00029 25.6 -1.2 26 210-235 2-30 (40)
85 PF03966 Trm112p: Trm112p-like 25.3 19 0.00042 26.0 -0.5 15 207-221 51-65 (68)
86 KOG4727 U1-like Zn-finger prot 23.4 32 0.00068 31.0 0.4 29 203-231 68-97 (193)
87 KOG4364 Chromatin assembly fac 22.9 63 0.0014 34.4 2.5 8 199-206 639-646 (811)
88 KOG1999 RNA polymerase II tran 22.7 93 0.002 34.2 3.7 12 138-149 102-113 (1024)
89 PF10013 DUF2256: Uncharacteri 22.5 41 0.00089 23.7 0.8 13 209-221 8-20 (42)
90 KOG2593 Transcription initiati 21.8 32 0.0007 34.3 0.2 19 208-226 127-145 (436)
91 KOG2236 Uncharacterized conser 21.7 1.3E+02 0.0028 30.6 4.3 19 207-225 254-272 (483)
92 COG4391 Uncharacterized protei 21.1 38 0.00083 25.7 0.4 14 207-220 46-59 (62)
93 PRK00398 rpoP DNA-directed RNA 21.0 39 0.00085 22.7 0.4 16 209-224 3-18 (46)
94 PF04780 DUF629: Protein of un 20.9 37 0.0008 34.0 0.4 31 205-235 53-83 (466)
95 KOG2482 Predicted C2H2-type Zn 20.5 42 0.00091 33.2 0.6 30 207-236 193-222 (423)
96 smart00659 RPOLCX RNA polymera 20.3 44 0.00095 23.1 0.5 14 209-222 2-15 (44)
97 PLN02748 tRNA dimethylallyltra 20.3 44 0.00095 33.2 0.7 26 208-233 417-443 (468)
98 PF13878 zf-C2H2_3: zinc-finge 20.2 72 0.0016 21.5 1.6 27 207-233 11-39 (41)
No 1
>PHA00616 hypothetical protein
Probab=97.82 E-value=3.9e-06 Score=58.62 Aligned_cols=29 Identities=17% Similarity=0.386 Sum_probs=27.3
Q ss_pred cccCCcCCCCccCcccchhhhhhhcCCCC
Q 044541 209 SFPCKSCNRSFTTEGGLQSHTKAKHGAPA 237 (237)
Q Consensus 209 py~CKsCgKtFsSesaLqsH~RahhGek~ 237 (237)
||.|..||+.|...++|..|.|.|||+.+
T Consensus 1 pYqC~~CG~~F~~~s~l~~H~r~~hg~~~ 29 (44)
T PHA00616 1 MYQCLRCGGIFRKKKEVIEHLLSVHKQNK 29 (44)
T ss_pred CCccchhhHHHhhHHHHHHHHHHhcCCCc
Confidence 69999999999999999999999999863
No 2
>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=97.71 E-value=5.8e-06 Score=47.99 Aligned_cols=23 Identities=26% Similarity=0.808 Sum_probs=21.9
Q ss_pred ccCCcCCCCccCcccchhhhhhh
Q 044541 210 FPCKSCNRSFTTEGGLQSHTKAK 232 (237)
Q Consensus 210 y~CKsCgKtFsSesaLqsH~Rah 232 (237)
|.|..|++.|.....|+.|++.|
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 78999999999999999999985
No 3
>PHA02768 hypothetical protein; Provisional
Probab=97.69 E-value=1.2e-05 Score=58.51 Aligned_cols=25 Identities=12% Similarity=0.535 Sum_probs=24.3
Q ss_pred cccCCcCCCCccCcccchhhhhhhc
Q 044541 209 SFPCKSCNRSFTTEGGLQSHTKAKH 233 (237)
Q Consensus 209 py~CKsCgKtFsSesaLqsH~Rahh 233 (237)
.|.|..|||.|+..++|+.|+|+|+
T Consensus 5 ~y~C~~CGK~Fs~~~~L~~H~r~H~ 29 (55)
T PHA02768 5 GYECPICGEIYIKRKSMITHLRKHN 29 (55)
T ss_pred ccCcchhCCeeccHHHHHHHHHhcC
Confidence 6899999999999999999999999
No 4
>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=97.60 E-value=1.2e-05 Score=48.34 Aligned_cols=26 Identities=23% Similarity=0.751 Sum_probs=24.7
Q ss_pred cccCCcCCCCccCcccchhhhhhhcC
Q 044541 209 SFPCKSCNRSFTTEGGLQSHTKAKHG 234 (237)
Q Consensus 209 py~CKsCgKtFsSesaLqsH~RahhG 234 (237)
+|.|..|++.|.+..+|..|+|.|++
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 69999999999999999999999986
No 5
>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=97.59 E-value=1.5e-05 Score=45.09 Aligned_cols=24 Identities=33% Similarity=0.872 Sum_probs=21.1
Q ss_pred ccCCcCCCCccCcccchhhhhhhc
Q 044541 210 FPCKSCNRSFTTEGGLQSHTKAKH 233 (237)
Q Consensus 210 y~CKsCgKtFsSesaLqsH~Rahh 233 (237)
|.|..|++.|.+...|..|+++||
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 789999999999999999999987
No 6
>KOG2462 consensus C2H2-type Zn-finger protein [Transcription]
Probab=97.39 E-value=5.5e-05 Score=69.85 Aligned_cols=29 Identities=24% Similarity=0.520 Sum_probs=25.4
Q ss_pred cccCCcCCCCccCcccchhhhhhhcCCCC
Q 044541 209 SFPCKSCNRSFTTEGGLQSHTKAKHGAPA 237 (237)
Q Consensus 209 py~CKsCgKtFsSesaLqsH~RahhGek~ 237 (237)
++.|..|||.|+..--||.|.|+|||||+
T Consensus 187 ~c~C~iCGKaFSRPWLLQGHiRTHTGEKP 215 (279)
T KOG2462|consen 187 PCECGICGKAFSRPWLLQGHIRTHTGEKP 215 (279)
T ss_pred CcccccccccccchHHhhcccccccCCCC
Confidence 88888899999888889999999998885
No 7
>smart00355 ZnF_C2H2 zinc finger.
Probab=97.17 E-value=0.00014 Score=41.14 Aligned_cols=25 Identities=20% Similarity=0.707 Sum_probs=22.8
Q ss_pred ccCCcCCCCccCcccchhhhhhhcC
Q 044541 210 FPCKSCNRSFTTEGGLQSHTKAKHG 234 (237)
Q Consensus 210 y~CKsCgKtFsSesaLqsH~RahhG 234 (237)
|.|..|+++|.....|+.|++.|..
T Consensus 1 ~~C~~C~~~f~~~~~l~~H~~~H~~ 25 (26)
T smart00355 1 YRCPECGKVFKSKSALKEHMRTHXX 25 (26)
T ss_pred CCCCCCcchhCCHHHHHHHHHHhcc
Confidence 7899999999999999999997753
No 8
>KOG1074 consensus Transcriptional repressor SALM [Transcription]
Probab=97.12 E-value=0.00022 Score=73.95 Aligned_cols=38 Identities=21% Similarity=0.426 Sum_probs=33.7
Q ss_pred CCCCCCCCCcccCCcCCCCccCcccchhhhhhhcCCCC
Q 044541 200 KQQPHKSGGSFPCKSCNRSFTTEGGLQSHTKAKHGAPA 237 (237)
Q Consensus 200 K~qTPkSgGpy~CKsCgKtFsSesaLqsH~RahhGek~ 237 (237)
....++-...|.|..|.|.|++.++||+|.|.|||||+
T Consensus 344 ~~~~~~~~~khkCr~CakvfgS~SaLqiHlRSHTGERP 381 (958)
T KOG1074|consen 344 EGPSEKPFFKHKCRFCAKVFGSDSALQIHLRSHTGERP 381 (958)
T ss_pred ccCCccccccchhhhhHhhcCchhhhhhhhhccCCCCC
Confidence 34456667899999999999999999999999999985
No 9
>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=96.96 E-value=0.00022 Score=43.47 Aligned_cols=24 Identities=38% Similarity=0.879 Sum_probs=21.9
Q ss_pred cccCCcCCCCccCcccchhhhhhh
Q 044541 209 SFPCKSCNRSFTTEGGLQSHTKAK 232 (237)
Q Consensus 209 py~CKsCgKtFsSesaLqsH~Rah 232 (237)
+|.|..|+|.|+++.+|.+|++.+
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 589999999999999999999875
No 10
>KOG2462 consensus C2H2-type Zn-finger protein [Transcription]
Probab=96.77 E-value=0.00052 Score=63.52 Aligned_cols=31 Identities=19% Similarity=0.590 Sum_probs=28.7
Q ss_pred CCcccCCcCCCCccCcccchhhhhhhcCCCC
Q 044541 207 GGSFPCKSCNRSFTTEGGLQSHTKAKHGAPA 237 (237)
Q Consensus 207 gGpy~CKsCgKtFsSesaLqsH~RahhGek~ 237 (237)
..||.|.+|+|+|.-.+||..|+++|.+-|+
T Consensus 213 EKPF~C~hC~kAFADRSNLRAHmQTHS~~K~ 243 (279)
T KOG2462|consen 213 EKPFSCPHCGKAFADRSNLRAHMQTHSDVKK 243 (279)
T ss_pred CCCccCCcccchhcchHHHHHHHHhhcCCcc
Confidence 5799999999999999999999999998764
No 11
>PF12874 zf-met: Zinc-finger of C2H2 type; PDB: 1ZU1_A 2KVG_A.
Probab=96.66 E-value=0.00031 Score=41.35 Aligned_cols=24 Identities=42% Similarity=0.926 Sum_probs=22.3
Q ss_pred ccCCcCCCCccCcccchhhhhhhc
Q 044541 210 FPCKSCNRSFTTEGGLQSHTKAKH 233 (237)
Q Consensus 210 y~CKsCgKtFsSesaLqsH~Rahh 233 (237)
|.|..|++.|++..+|++|.+.|.
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 789999999999999999999874
No 12
>PHA00732 hypothetical protein
Probab=96.40 E-value=0.0012 Score=50.22 Aligned_cols=26 Identities=23% Similarity=0.352 Sum_probs=23.0
Q ss_pred cccCCcCCCCccCcccchhhhhh-hcC
Q 044541 209 SFPCKSCNRSFTTEGGLQSHTKA-KHG 234 (237)
Q Consensus 209 py~CKsCgKtFsSesaLqsH~Ra-hhG 234 (237)
||.|..|++.|.+..+|+.|+++ |++
T Consensus 1 py~C~~Cgk~F~s~s~Lk~H~r~~H~~ 27 (79)
T PHA00732 1 MFKCPICGFTTVTLFALKQHARRNHTL 27 (79)
T ss_pred CccCCCCCCccCCHHHHHHHhhcccCC
Confidence 68999999999999999999996 554
No 13
>KOG3623 consensus Homeobox transcription factor SIP1 [Transcription]
Probab=96.32 E-value=0.0011 Score=68.66 Aligned_cols=31 Identities=23% Similarity=0.548 Sum_probs=29.4
Q ss_pred CCcccCCcCCCCccCcccchhhhhhhcCCCC
Q 044541 207 GGSFPCKSCNRSFTTEGGLQSHTKAKHGAPA 237 (237)
Q Consensus 207 gGpy~CKsCgKtFsSesaLqsH~RahhGek~ 237 (237)
.+-|.|+.|||+|...-.|+.|.|||.|||+
T Consensus 279 lRKFKCtECgKAFKfKHHLKEHlRIHSGEKP 309 (1007)
T KOG3623|consen 279 LRKFKCTECGKAFKFKHHLKEHLRIHSGEKP 309 (1007)
T ss_pred hccccccccchhhhhHHHHHhhheeecCCCC
Confidence 4789999999999999999999999999985
No 14
>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=96.22 E-value=0.0017 Score=40.55 Aligned_cols=27 Identities=44% Similarity=0.778 Sum_probs=23.8
Q ss_pred CCcccCCcCCCCccCcccchhhhhhhc
Q 044541 207 GGSFPCKSCNRSFTTEGGLQSHTKAKH 233 (237)
Q Consensus 207 gGpy~CKsCgKtFsSesaLqsH~Rahh 233 (237)
.|+|.|..|++.|.+..+|..|.+.+.
T Consensus 1 ~~~~~C~~C~~~~~~~~~~~~H~~gk~ 27 (35)
T smart00451 1 TGGFYCKLCNVTFTDEISVEAHLKGKK 27 (35)
T ss_pred CcCeEccccCCccCCHHHHHHHHChHH
Confidence 378999999999999999999988653
No 15
>KOG1074 consensus Transcriptional repressor SALM [Transcription]
Probab=96.21 E-value=0.0015 Score=68.00 Aligned_cols=30 Identities=20% Similarity=0.627 Sum_probs=27.7
Q ss_pred CcccCCcCCCCccCcccchhhhhhhcCCCC
Q 044541 208 GSFPCKSCNRSFTTEGGLQSHTKAKHGAPA 237 (237)
Q Consensus 208 Gpy~CKsCgKtFsSesaLqsH~RahhGek~ 237 (237)
.-+.|+.|||.|++.++|+.|+|+|+|+|+
T Consensus 878 n~h~C~vCgk~FsSSsALqiH~rTHtg~KP 907 (958)
T KOG1074|consen 878 NAHVCNVCGKQFSSSAALEIHMRTHTGPKP 907 (958)
T ss_pred chhhhccchhcccchHHHHHhhhcCCCCCC
Confidence 468899999999999999999999999974
No 16
>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=95.27 E-value=0.0064 Score=44.50 Aligned_cols=33 Identities=18% Similarity=0.336 Sum_probs=24.7
Q ss_pred CCCCcccCCcCCCCccCcccchhhhhhhcCCCC
Q 044541 205 KSGGSFPCKSCNRSFTTEGGLQSHTKAKHGAPA 237 (237)
Q Consensus 205 kSgGpy~CKsCgKtFsSesaLqsH~RahhGek~ 237 (237)
.|--|..|+.|+..|.+.-+|.+|..++|+.++
T Consensus 20 ~S~~PatCP~C~a~~~~srnLrRHle~~H~~k~ 52 (54)
T PF09237_consen 20 QSEQPATCPICGAVIRQSRNLRRHLEIRHFKKP 52 (54)
T ss_dssp TTS--EE-TTT--EESSHHHHHHHHHHHTTTS-
T ss_pred ccCCCCCCCcchhhccchhhHHHHHHHHhcccC
Confidence 355699999999999999999999999999874
No 17
>PHA00733 hypothetical protein
Probab=94.80 E-value=0.012 Score=47.92 Aligned_cols=27 Identities=26% Similarity=0.471 Sum_probs=20.1
Q ss_pred CcccCCcCCCCccCcccchhhhhhhcC
Q 044541 208 GSFPCKSCNRSFTTEGGLQSHTKAKHG 234 (237)
Q Consensus 208 Gpy~CKsCgKtFsSesaLqsH~RahhG 234 (237)
.+|.|..|++.|....+|..|++.+|+
T Consensus 98 ~~~~C~~CgK~F~~~~sL~~H~~~~h~ 124 (128)
T PHA00733 98 HSKVCPVCGKEFRNTDSTLDHVCKKHN 124 (128)
T ss_pred cCccCCCCCCccCCHHHHHHHHHHhcC
Confidence 467777777777777777777777775
No 18
>PF13909 zf-H2C2_5: C2H2-type zinc-finger domain; PDB: 1X5W_A.
Probab=94.72 E-value=0.008 Score=35.32 Aligned_cols=24 Identities=29% Similarity=0.652 Sum_probs=19.3
Q ss_pred ccCCcCCCCccCcccchhhhhhhcC
Q 044541 210 FPCKSCNRSFTTEGGLQSHTKAKHG 234 (237)
Q Consensus 210 y~CKsCgKtFsSesaLqsH~RahhG 234 (237)
|.|..|+=+.+ ...|..|.+.||+
T Consensus 1 y~C~~C~y~t~-~~~l~~H~~~~H~ 24 (24)
T PF13909_consen 1 YKCPHCSYSTS-KSNLKRHLKRHHP 24 (24)
T ss_dssp EE-SSSS-EES-HHHHHHHHHHHHS
T ss_pred CCCCCCCCcCC-HHHHHHHHHhhCc
Confidence 78999996666 8899999999986
No 19
>PHA00733 hypothetical protein
Probab=94.39 E-value=0.018 Score=47.07 Aligned_cols=27 Identities=19% Similarity=0.448 Sum_probs=24.7
Q ss_pred CCcccCCcCCCCccCcccchhhhhhhc
Q 044541 207 GGSFPCKSCNRSFTTEGGLQSHTKAKH 233 (237)
Q Consensus 207 gGpy~CKsCgKtFsSesaLqsH~Rahh 233 (237)
..||.|..|++.|.+..+|.+|+++|+
T Consensus 71 ~kPy~C~~Cgk~Fss~s~L~~H~r~h~ 97 (128)
T PHA00733 71 VSPYVCPLCLMPFSSSVSLKQHIRYTE 97 (128)
T ss_pred CCCccCCCCCCcCCCHHHHHHHHhcCC
Confidence 579999999999999999999999763
No 20
>PF12756 zf-C2H2_2: C2H2 type zinc-finger (2 copies); PDB: 2DMI_A.
Probab=94.27 E-value=0.017 Score=41.74 Aligned_cols=27 Identities=41% Similarity=0.843 Sum_probs=23.3
Q ss_pred CcccCCcCCCCccCcccchhhhhhhcC
Q 044541 208 GSFPCKSCNRSFTTEGGLQSHTKAKHG 234 (237)
Q Consensus 208 Gpy~CKsCgKtFsSesaLqsH~RahhG 234 (237)
..|.|..|++.|.+..+|+.|++.|+.
T Consensus 49 ~~~~C~~C~~~f~s~~~l~~Hm~~~~H 75 (100)
T PF12756_consen 49 ESFRCPYCNKTFRSREALQEHMRSKHH 75 (100)
T ss_dssp SSEEBSSSS-EESSHHHHHHHHHHTTT
T ss_pred CCCCCCccCCCCcCHHHHHHHHcCccC
Confidence 369999999999999999999998643
No 21
>KOG3623 consensus Homeobox transcription factor SIP1 [Transcription]
Probab=94.22 E-value=0.015 Score=60.56 Aligned_cols=31 Identities=19% Similarity=0.546 Sum_probs=24.9
Q ss_pred CCcccCCcCCCCccCcccchhhhhhhcCCCC
Q 044541 207 GGSFPCKSCNRSFTTEGGLQSHTKAKHGAPA 237 (237)
Q Consensus 207 gGpy~CKsCgKtFsSesaLqsH~RahhGek~ 237 (237)
.+||.|-.|.|+|.+.-.|+.|.|-|.|||+
T Consensus 920 qRPyqC~iCkKAFKHKHHLtEHkRLHSGEKP 950 (1007)
T KOG3623|consen 920 QRPYQCIICKKAFKHKHHLTEHKRLHSGEKP 950 (1007)
T ss_pred CCCcccchhhHhhhhhhhhhhhhhhccCCCc
Confidence 3788888888888888888888888888874
No 22
>PF13913 zf-C2HC_2: zinc-finger of a C2HC-type
Probab=94.13 E-value=0.017 Score=35.43 Aligned_cols=21 Identities=38% Similarity=0.852 Sum_probs=18.1
Q ss_pred ccCCcCCCCccCcccchhhhhh
Q 044541 210 FPCKSCNRSFTTEGGLQSHTKA 231 (237)
Q Consensus 210 y~CKsCgKtFsSesaLqsH~Ra 231 (237)
..|..|||.| ....|..|+++
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 77889999875
No 23
>KOG3576 consensus Ovo and related transcription factors [Transcription]
Probab=93.63 E-value=0.022 Score=52.15 Aligned_cols=30 Identities=23% Similarity=0.511 Sum_probs=23.1
Q ss_pred CcccCCcCCCCccCcccchhhhhhhcCCCC
Q 044541 208 GSFPCKSCNRSFTTEGGLQSHTKAKHGAPA 237 (237)
Q Consensus 208 Gpy~CKsCgKtFsSesaLqsH~RahhGek~ 237 (237)
.-|.|..|||.|+---.|.+|.|+|||-|+
T Consensus 144 kr~lct~cgkgfndtfdlkrh~rthtgvrp 173 (267)
T KOG3576|consen 144 KRHLCTFCGKGFNDTFDLKRHTRTHTGVRP 173 (267)
T ss_pred HHHHHhhccCcccchhhhhhhhccccCccc
Confidence 456777777878877888888888888764
No 24
>KOG3993 consensus Transcription factor (contains Zn finger) [Transcription]
Probab=92.32 E-value=0.053 Score=53.58 Aligned_cols=26 Identities=23% Similarity=0.639 Sum_probs=23.8
Q ss_pred cccCCcCCCCccCcccchhhhhhhcC
Q 044541 209 SFPCKSCNRSFTTEGGLQSHTKAKHG 234 (237)
Q Consensus 209 py~CKsCgKtFsSesaLqsH~RahhG 234 (237)
-|.|..|+|.|+...||-+|.|-|.-
T Consensus 295 EYrCPEC~KVFsCPANLASHRRWHKP 320 (500)
T KOG3993|consen 295 EYRCPECDKVFSCPANLASHRRWHKP 320 (500)
T ss_pred eecCCcccccccCchhhhhhhcccCC
Confidence 58899999999999999999999864
No 25
>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=91.09 E-value=0.067 Score=32.62 Aligned_cols=14 Identities=29% Similarity=0.918 Sum_probs=12.3
Q ss_pred CcccCCcCCCCccC
Q 044541 208 GSFPCKSCNRSFTT 221 (237)
Q Consensus 208 Gpy~CKsCgKtFsS 221 (237)
.||.|..|+++|.+
T Consensus 13 k~~~C~~C~k~F~~ 26 (26)
T PF13465_consen 13 KPYKCPYCGKSFSN 26 (26)
T ss_dssp SSEEESSSSEEESS
T ss_pred CCCCCCCCcCeeCc
Confidence 58999999999964
No 26
>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=90.33 E-value=0.11 Score=31.67 Aligned_cols=14 Identities=21% Similarity=0.501 Sum_probs=12.5
Q ss_pred cchhhhhhhcCCCC
Q 044541 224 GLQSHTKAKHGAPA 237 (237)
Q Consensus 224 aLqsH~RahhGek~ 237 (237)
+|+.|+|+|+|+++
T Consensus 1 ~l~~H~~~H~~~k~ 14 (26)
T PF13465_consen 1 NLRRHMRTHTGEKP 14 (26)
T ss_dssp HHHHHHHHHSSSSS
T ss_pred CHHHHhhhcCCCCC
Confidence 58999999999985
No 27
>KOG3408 consensus U1-like Zn-finger-containing protein, probabl erole in RNA processing/splicing [RNA processing and modification]
Probab=89.84 E-value=0.083 Score=44.51 Aligned_cols=27 Identities=41% Similarity=0.771 Sum_probs=25.3
Q ss_pred CCcccCCcCCCCccCcccchhhhhhhc
Q 044541 207 GGSFPCKSCNRSFTTEGGLQSHTKAKH 233 (237)
Q Consensus 207 gGpy~CKsCgKtFsSesaLqsH~Rahh 233 (237)
+|+|-|-.|-|.|....+|+-|.|++-
T Consensus 55 ~GqfyCi~CaRyFi~~~~l~~H~ktK~ 81 (129)
T KOG3408|consen 55 GGQFYCIECARYFIDAKALKTHFKTKV 81 (129)
T ss_pred CceeehhhhhhhhcchHHHHHHHhccH
Confidence 699999999999999999999999864
No 28
>KOG3576 consensus Ovo and related transcription factors [Transcription]
Probab=89.60 E-value=0.09 Score=48.24 Aligned_cols=29 Identities=34% Similarity=0.701 Sum_probs=26.8
Q ss_pred CCcccCCcCCCCccCcccchhhhhhhcCC
Q 044541 207 GGSFPCKSCNRSFTTEGGLQSHTKAKHGA 235 (237)
Q Consensus 207 gGpy~CKsCgKtFsSesaLqsH~RahhGe 235 (237)
.+||.|..|+|+|.+...|.+|.+.=||-
T Consensus 171 vrpykc~~c~kaftqrcsleshl~kvhgv 199 (267)
T KOG3576|consen 171 VRPYKCSLCEKAFTQRCSLESHLKKVHGV 199 (267)
T ss_pred ccccchhhhhHHHHhhccHHHHHHHHcCc
Confidence 58999999999999999999999988874
No 29
>KOG3993 consensus Transcription factor (contains Zn finger) [Transcription]
Probab=87.07 E-value=0.14 Score=50.71 Aligned_cols=30 Identities=30% Similarity=0.680 Sum_probs=27.2
Q ss_pred CCCcccCCcCCCCccCcccchhhhhhhcCC
Q 044541 206 SGGSFPCKSCNRSFTTEGGLQSHTKAKHGA 235 (237)
Q Consensus 206 SgGpy~CKsCgKtFsSesaLqsH~RahhGe 235 (237)
+.|-|.|.+|+|.|....-|..|+-+||-.
T Consensus 353 s~gi~~C~~C~KkFrRqAYLrKHqlthq~~ 382 (500)
T KOG3993|consen 353 SSGIFSCHTCGKKFRRQAYLRKHQLTHQRA 382 (500)
T ss_pred cCceeecHHhhhhhHHHHHHHHhHHhhhcc
Confidence 468999999999999999999999999853
No 30
>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=83.98 E-value=0.27 Score=32.38 Aligned_cols=26 Identities=31% Similarity=0.574 Sum_probs=17.2
Q ss_pred CcccCCcCCCCccCc----ccchhhhhhhc
Q 044541 208 GSFPCKSCNRSFTTE----GGLQSHTKAKH 233 (237)
Q Consensus 208 Gpy~CKsCgKtFsSe----saLqsH~Rahh 233 (237)
....|+.|++.|... ++|..|.+.+|
T Consensus 15 ~~a~C~~C~~~~~~~~~~ts~l~~HL~~~h 44 (45)
T PF02892_consen 15 KKAKCKYCGKVIKYSSGGTSNLKRHLKKKH 44 (45)
T ss_dssp S-EEETTTTEE-----SSTHHHHHHHHHTT
T ss_pred CeEEeCCCCeEEeeCCCcHHHHHHhhhhhC
Confidence 578999999987765 78899986554
No 31
>PHA00732 hypothetical protein
Probab=83.79 E-value=0.46 Score=36.26 Aligned_cols=22 Identities=27% Similarity=0.547 Sum_probs=18.8
Q ss_pred cccCCcCCCCccCcccchhhhhhhc
Q 044541 209 SFPCKSCNRSFTTEGGLQSHTKAKH 233 (237)
Q Consensus 209 py~CKsCgKtFsSesaLqsH~Rahh 233 (237)
+|.|..|+++|. .|..|.++|-
T Consensus 27 ~~~C~~CgKsF~---~l~~H~~~~~ 48 (79)
T PHA00732 27 LTKCPVCNKSYR---RLNQHFYSQY 48 (79)
T ss_pred CCccCCCCCEeC---ChhhhhcccC
Confidence 468999999997 6999998764
No 32
>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=83.51 E-value=0.41 Score=40.10 Aligned_cols=26 Identities=27% Similarity=0.634 Sum_probs=17.8
Q ss_pred CCcccCCcCCCCccCcccchhhhhhhcCC
Q 044541 207 GGSFPCKSCNRSFTTEGGLQSHTKAKHGA 235 (237)
Q Consensus 207 gGpy~CKsCgKtFsSesaLqsH~RahhGe 235 (237)
....+|=.|||.| ..|.+|.+.|||=
T Consensus 70 ~d~i~clecGk~~---k~LkrHL~~~~gl 95 (132)
T PF05443_consen 70 PDYIICLECGKKF---KTLKRHLRTHHGL 95 (132)
T ss_dssp SS-EE-TBT--EE---SBHHHHHHHTT-S
T ss_pred cCeeEEccCCccc---chHHHHHHHccCC
Confidence 4578999999999 5679999999984
No 33
>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=83.14 E-value=0.65 Score=32.26 Aligned_cols=24 Identities=25% Similarity=0.534 Sum_probs=15.4
Q ss_pred cccCCcCCCCccCcccchhhhhhhcC
Q 044541 209 SFPCKSCNRSFTTEGGLQSHTKAKHG 234 (237)
Q Consensus 209 py~CKsCgKtFsSesaLqsH~RahhG 234 (237)
.|.|+.|...|. .+|+.|.+.+|+
T Consensus 31 ~v~CPiC~~~~~--~~l~~Hl~~~H~ 54 (54)
T PF05605_consen 31 NVVCPICSSRVT--DNLIRHLNSQHR 54 (54)
T ss_pred CccCCCchhhhh--hHHHHHHHHhcC
Confidence 466777766544 377777776664
No 34
>PRK04860 hypothetical protein; Provisional
Probab=81.88 E-value=0.67 Score=39.58 Aligned_cols=26 Identities=19% Similarity=0.525 Sum_probs=22.5
Q ss_pred CcccCCcCCCCccCcccchhhhhhhcCCCC
Q 044541 208 GSFPCKSCNRSFTTEGGLQSHTKAKHGAPA 237 (237)
Q Consensus 208 Gpy~CKsCgKtFsSesaLqsH~RahhGek~ 237 (237)
=+|.|. |++ ....+..|+|+|+|+++
T Consensus 118 ~~Y~C~-C~~---~~~~~rrH~ri~~g~~~ 143 (160)
T PRK04860 118 FPYRCK-CQE---HQLTVRRHNRVVRGEAV 143 (160)
T ss_pred EEEEcC-CCC---eeCHHHHHHHHhcCCcc
Confidence 379998 997 77889999999999863
No 35
>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=81.68 E-value=0.65 Score=32.26 Aligned_cols=26 Identities=35% Similarity=0.802 Sum_probs=21.4
Q ss_pred cccCCcCCCCccCcccchhhhhhhcCC
Q 044541 209 SFPCKSCNRSFTTEGGLQSHTKAKHGA 235 (237)
Q Consensus 209 py~CKsCgKtFsSesaLqsH~RahhGe 235 (237)
.|.|+.|++.|+ ..+|..|....|..
T Consensus 2 ~f~CP~C~~~~~-~~~L~~H~~~~H~~ 27 (54)
T PF05605_consen 2 SFTCPYCGKGFS-ESSLVEHCEDEHRS 27 (54)
T ss_pred CcCCCCCCCccC-HHHHHHHHHhHCcC
Confidence 599999999766 57899998887754
No 36
>PF03066 Nucleoplasmin: Nucleoplasmin; InterPro: IPR004301 The nucleophosmin/nucleoplasmin family of chaperones includes nucleophosmin, nucleoplasmin and nucleoplasmin-like proteins. They function as nuclear chaperones which are needed for the proper assembly of nucleosomes and the attainment of proper higher order chromatin structures [].; GO: 0003676 nucleic acid binding; PDB: 2P1B_E 1XB9_I 1XE0_C 1NLQ_A 2VTX_E 1K5J_D 1EJY_N 1EE5_B 3T30_J.
Probab=77.93 E-value=0.7 Score=38.92 Aligned_cols=9 Identities=56% Similarity=0.877 Sum_probs=0.0
Q ss_pred CCCCCcccc
Q 044541 134 EDEETPKKA 142 (237)
Q Consensus 134 eEEeTPkK~ 142 (237)
+++.+|+|.
T Consensus 139 ~ee~~p~K~ 147 (149)
T PF03066_consen 139 EEEESPVKK 147 (149)
T ss_dssp ---------
T ss_pred ccccCCCcc
Confidence 355677653
No 37
>smart00614 ZnF_BED BED zinc finger. DNA-binding domain in chromatin-boundary-element-binding proteins and transposases
Probab=77.88 E-value=0.97 Score=30.99 Aligned_cols=24 Identities=25% Similarity=0.612 Sum_probs=19.3
Q ss_pred cccCCcCCCCccCc-----ccchhhhhhh
Q 044541 209 SFPCKSCNRSFTTE-----GGLQSHTKAK 232 (237)
Q Consensus 209 py~CKsCgKtFsSe-----saLqsH~Rah 232 (237)
--.|+.|++.++.. ++|.+|.+..
T Consensus 18 ~a~C~~C~~~l~~~~~~gTs~L~rHl~~~ 46 (50)
T smart00614 18 RAKCKYCGKKLSRSSKGGTSNLRRHLRRK 46 (50)
T ss_pred EEEecCCCCEeeeCCCCCcHHHHHHHHhH
Confidence 46799999988776 5899999843
No 38
>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=73.30 E-value=1.3 Score=34.34 Aligned_cols=27 Identities=19% Similarity=0.554 Sum_probs=25.5
Q ss_pred CcccC----CcCCCCccCcccchhhhhhhcC
Q 044541 208 GSFPC----KSCNRSFTTEGGLQSHTKAKHG 234 (237)
Q Consensus 208 Gpy~C----KsCgKtFsSesaLqsH~RahhG 234 (237)
..|.| ..|+-.+.+...|+.|.|.+||
T Consensus 79 ~G~~C~~~~~~C~y~~~~~~~m~~H~~~~Hg 109 (109)
T PF12013_consen 79 DGYRCQCDPPHCGYITRSKKTMRKHWRKEHG 109 (109)
T ss_pred CCeeeecCCCCCCcEeccHHHHHHHHHHhcC
Confidence 56999 9999999999999999999997
No 39
>KOG4167 consensus Predicted DNA-binding protein, contains SANT and ELM2 domains [Transcription]
Probab=71.72 E-value=1.5 Score=46.15 Aligned_cols=27 Identities=30% Similarity=0.714 Sum_probs=25.0
Q ss_pred CCcccCCcCCCCccCcccchhhhhhhc
Q 044541 207 GGSFPCKSCNRSFTTEGGLQSHTKAKH 233 (237)
Q Consensus 207 gGpy~CKsCgKtFsSesaLqsH~Rahh 233 (237)
-|.|.|..|+|.|-.=..+-.|+|+|.
T Consensus 790 ~giFpCreC~kvF~KiKSrNAHMK~Hr 816 (907)
T KOG4167|consen 790 TGIFPCRECGKVFFKIKSRNAHMKTHR 816 (907)
T ss_pred CceeehHHHHHHHHHHhhhhHHHHHHH
Confidence 589999999999999999999999984
No 40
>PF14353 CpXC: CpXC protein
Probab=69.57 E-value=1.9 Score=34.24 Aligned_cols=28 Identities=39% Similarity=0.486 Sum_probs=23.7
Q ss_pred CCCcccCCcCCCCccCcccchhhhhhhc
Q 044541 206 SGGSFPCKSCNRSFTTEGGLQSHTKAKH 233 (237)
Q Consensus 206 SgGpy~CKsCgKtFsSesaLqsH~Rahh 233 (237)
+.-.|.|++||..|.....|.-|-..|+
T Consensus 35 ~l~~~~CP~Cg~~~~~~~p~lY~D~~~~ 62 (128)
T PF14353_consen 35 SLFSFTCPSCGHKFRLEYPLLYHDPEKK 62 (128)
T ss_pred CcCEEECCCCCCceecCCCEEEEcCCCC
Confidence 3568999999999999999998877663
No 41
>COG5112 UFD2 U1-like Zn-finger-containing protein [General function prediction only]
Probab=69.10 E-value=0.89 Score=38.03 Aligned_cols=26 Identities=42% Similarity=0.653 Sum_probs=24.1
Q ss_pred CCcccCCcCCCCccCcccchhhhhhh
Q 044541 207 GGSFPCKSCNRSFTTEGGLQSHTKAK 232 (237)
Q Consensus 207 gGpy~CKsCgKtFsSesaLqsH~Rah 232 (237)
+|+|-|-.|-|-|.++.+|..|.|-+
T Consensus 53 lGqhYCieCaryf~t~~aL~~Hkkgk 78 (126)
T COG5112 53 LGQHYCIECARYFITEKALMEHKKGK 78 (126)
T ss_pred CceeeeehhHHHHHHHHHHHHHhccc
Confidence 68999999999999999999998765
No 42
>PHA02768 hypothetical protein; Provisional
Probab=65.79 E-value=2.9 Score=30.63 Aligned_cols=20 Identities=15% Similarity=0.262 Sum_probs=17.8
Q ss_pred CcccCCcCCCCccCcccchh
Q 044541 208 GSFPCKSCNRSFTTEGGLQS 227 (237)
Q Consensus 208 Gpy~CKsCgKtFsSesaLqs 227 (237)
.+|.|..|+|.|+..+.|+.
T Consensus 30 k~~kc~~C~k~f~~~s~l~~ 49 (55)
T PHA02768 30 TNLKLSNCKRISLRTGEYIE 49 (55)
T ss_pred CcccCCcccceecccceeEE
Confidence 38999999999999998874
No 43
>PTZ00448 hypothetical protein; Provisional
Probab=65.45 E-value=3.5 Score=40.10 Aligned_cols=27 Identities=15% Similarity=0.520 Sum_probs=23.4
Q ss_pred CCCcccCCcCCCCccCcccchhhhhhh
Q 044541 206 SGGSFPCKSCNRSFTTEGGLQSHTKAK 232 (237)
Q Consensus 206 SgGpy~CKsCgKtFsSesaLqsH~Rah 232 (237)
+.+.|.|..|+..|.+......|.|+-
T Consensus 311 ~~~~~tC~~C~v~F~~~~~qR~H~KSD 337 (373)
T PTZ00448 311 KSNMLLCRKCNIQLMDHNAFKQHYRSE 337 (373)
T ss_pred ccCCccccccccccCCHHHHHHHhhhh
Confidence 447899999999999888889999874
No 44
>KOG3608 consensus Zn finger proteins [General function prediction only]
Probab=65.03 E-value=2.5 Score=41.69 Aligned_cols=29 Identities=34% Similarity=0.654 Sum_probs=26.7
Q ss_pred CcccCCcCCCCccCcccchhhhhhhcCCC
Q 044541 208 GSFPCKSCNRSFTTEGGLQSHTKAKHGAP 236 (237)
Q Consensus 208 Gpy~CKsCgKtFsSesaLqsH~RahhGek 236 (237)
-+|.|.-|.|.|.+..+|..|.+.+||=+
T Consensus 351 ~~Y~CH~Cdr~ft~G~~L~~HL~kkH~f~ 379 (467)
T KOG3608|consen 351 ILYACHCCDRFFTSGKSLSAHLMKKHGFR 379 (467)
T ss_pred CceeeecchhhhccchhHHHHHHHhhccc
Confidence 58999999999999999999999999843
No 45
>KOG0717 consensus Molecular chaperone (DnaJ superfamily) [Posttranslational modification, protein turnover, chaperones]
Probab=64.45 E-value=2.4 Score=42.53 Aligned_cols=26 Identities=38% Similarity=0.805 Sum_probs=23.0
Q ss_pred Cc-ccCCcCCCCccCcccchhhhhhhc
Q 044541 208 GS-FPCKSCNRSFTTEGGLQSHTKAKH 233 (237)
Q Consensus 208 Gp-y~CKsCgKtFsSesaLqsH~Rahh 233 (237)
|. +-|--|+|+|.++.+|..|...+.
T Consensus 290 ge~lyC~vCnKsFKseKq~kNHEnSKK 316 (508)
T KOG0717|consen 290 GEVLYCVVCNKSFKSEKQLKNHENSKK 316 (508)
T ss_pred CCceEEeeccccccchHHHHhhHHHHH
Confidence 44 899999999999999999988764
No 46
>KOG0717 consensus Molecular chaperone (DnaJ superfamily) [Posttranslational modification, protein turnover, chaperones]
Probab=64.43 E-value=6.7 Score=39.53 Aligned_cols=31 Identities=26% Similarity=0.514 Sum_probs=25.8
Q ss_pred CCCCCCCCCcccCCcCCCCccCcccchhhhhhh
Q 044541 200 KQQPHKSGGSFPCKSCNRSFTTEGGLQSHTKAK 232 (237)
Q Consensus 200 K~qTPkSgGpy~CKsCgKtFsSesaLqsH~Rah 232 (237)
+.++|. ...+|-.|...|.+.+-|-.|.++-
T Consensus 453 ~~~~ps--a~~~C~tCr~~FdSRnkLF~Hlk~t 483 (508)
T KOG0717|consen 453 SSQTPS--ALISCTTCRESFDSRNKLFAHLKKT 483 (508)
T ss_pred CCCCcc--hhHhhhhhhhhccchhHHHHHhhhc
Confidence 446773 4799999999999999999998753
No 47
>COG4957 Predicted transcriptional regulator [Transcription]
Probab=64.41 E-value=2.5 Score=36.48 Aligned_cols=25 Identities=20% Similarity=0.361 Sum_probs=21.9
Q ss_pred CcccCCcCCCCccCcccchhhhhhhcCC
Q 044541 208 GSFPCKSCNRSFTTEGGLQSHTKAKHGA 235 (237)
Q Consensus 208 Gpy~CKsCgKtFsSesaLqsH~RahhGe 235 (237)
-..+|=.|||.| ..|++|.++|+|=
T Consensus 75 D~IicLEDGkkf---KSLKRHL~t~~gm 99 (148)
T COG4957 75 DYIICLEDGKKF---KSLKRHLTTHYGL 99 (148)
T ss_pred CeEEEeccCcch---HHHHHHHhcccCC
Confidence 468999999999 5699999999984
No 48
>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=64.17 E-value=1.3 Score=39.71 Aligned_cols=29 Identities=21% Similarity=0.411 Sum_probs=23.5
Q ss_pred CCcccCCcCCCCccCcccchhhhhhhcCC
Q 044541 207 GGSFPCKSCNRSFTTEGGLQSHTKAKHGA 235 (237)
Q Consensus 207 gGpy~CKsCgKtFsSesaLqsH~RahhGe 235 (237)
..-|.|..|+|.|...-=...|++.+|.+
T Consensus 75 ~~K~~C~lc~KlFkg~eFV~KHI~nKH~e 103 (214)
T PF04959_consen 75 EDKWRCPLCGKLFKGPEFVRKHIFNKHPE 103 (214)
T ss_dssp SEEEEE-SSS-EESSHHHHHHHHHHH-HH
T ss_pred CCEECCCCCCcccCChHHHHHHHhhcCHH
Confidence 35699999999999999999999999975
No 49
>PF04147 Nop14: Nop14-like family ; InterPro: IPR007276 Emg1 and Nop14 are novel proteins whose interaction is required for the maturation of the 18S rRNA and for 40S ribosome production [].
Probab=63.83 E-value=13 Score=38.95 Aligned_cols=11 Identities=27% Similarity=0.359 Sum_probs=4.8
Q ss_pred ccCcccchhhh
Q 044541 219 FTTEGGLQSHT 229 (237)
Q Consensus 219 FsSesaLqsH~ 229 (237)
|..-..|+.|.
T Consensus 489 ~~~ld~L~~~L 499 (840)
T PF04147_consen 489 FEVLDSLIPHL 499 (840)
T ss_pred HHHHHHHHHHH
Confidence 44444444443
No 50
>COG5048 FOG: Zn-finger [General function prediction only]
Probab=61.95 E-value=4.4 Score=34.72 Aligned_cols=27 Identities=30% Similarity=0.551 Sum_probs=21.7
Q ss_pred cccCCcCCCCccCcccchhhhh--hhcCC
Q 044541 209 SFPCKSCNRSFTTEGGLQSHTK--AKHGA 235 (237)
Q Consensus 209 py~CKsCgKtFsSesaLqsH~R--ahhGe 235 (237)
+|.|..|...|+....|..|.+ .|+++
T Consensus 289 ~~~~~~~~~~~s~~~~l~~~~~~~~h~~~ 317 (467)
T COG5048 289 PIKSKQCNISFSRSSPLTRHLRSVNHSGE 317 (467)
T ss_pred CCCCccccCCccccccccccccccccccc
Confidence 6888888888888888888888 67776
No 51
>PLN03086 PRLI-interacting factor K; Provisional
Probab=61.52 E-value=4.1 Score=41.36 Aligned_cols=25 Identities=28% Similarity=0.760 Sum_probs=15.4
Q ss_pred CcccCCcCCCCccCcccchhhhhhhc
Q 044541 208 GSFPCKSCNRSFTTEGGLQSHTKAKH 233 (237)
Q Consensus 208 Gpy~CKsCgKtFsSesaLqsH~Rahh 233 (237)
..+.|..|++.|. ...|..|.++||
T Consensus 452 ~H~~C~~Cgk~f~-~s~LekH~~~~H 476 (567)
T PLN03086 452 NHVHCEKCGQAFQ-QGEMEKHMKVFH 476 (567)
T ss_pred cCccCCCCCCccc-hHHHHHHHHhcC
Confidence 3556666666664 455666666655
No 52
>PLN03086 PRLI-interacting factor K; Provisional
Probab=60.47 E-value=3.9 Score=41.54 Aligned_cols=25 Identities=12% Similarity=0.308 Sum_probs=20.6
Q ss_pred cCCcCCCCccCcccchhhhhhhcCCCC
Q 044541 211 PCKSCNRSFTTEGGLQSHTKAKHGAPA 237 (237)
Q Consensus 211 ~CKsCgKtFsSesaLqsH~RahhGek~ 237 (237)
.|+ ||+.| ....|..|.+.|.+.|.
T Consensus 480 ~Cp-Cg~~~-~R~~L~~H~~thCp~Kp 504 (567)
T PLN03086 480 QCP-CGVVL-EKEQMVQHQASTCPLRL 504 (567)
T ss_pred cCC-CCCCc-chhHHHhhhhccCCCCc
Confidence 598 99866 56899999999988763
No 53
>COG3677 Transposase and inactivated derivatives [DNA replication, recombination, and repair]
Probab=60.41 E-value=3.8 Score=33.81 Aligned_cols=16 Identities=44% Similarity=0.945 Sum_probs=13.5
Q ss_pred CcccCCcCCCCccCcc
Q 044541 208 GSFPCKSCNRSFTTEG 223 (237)
Q Consensus 208 Gpy~CKsCgKtFsSes 223 (237)
--|.|+.|+++|.-..
T Consensus 52 qRyrC~~C~~tf~~~~ 67 (129)
T COG3677 52 QRYKCKSCGSTFTVET 67 (129)
T ss_pred cccccCCcCcceeeec
Confidence 4799999999997654
No 54
>KOG3608 consensus Zn finger proteins [General function prediction only]
Probab=56.13 E-value=1.6 Score=42.98 Aligned_cols=25 Identities=40% Similarity=0.659 Sum_probs=23.5
Q ss_pred cccCCcCCCCccCcccchhhhhhhc
Q 044541 209 SFPCKSCNRSFTTEGGLQSHTKAKH 233 (237)
Q Consensus 209 py~CKsCgKtFsSesaLqsH~Rahh 233 (237)
+|.|+.|.|.|.++..|..|++.|-
T Consensus 237 ~fqC~~C~KrFaTeklL~~Hv~rHv 261 (467)
T KOG3608|consen 237 SFQCAQCFKRFATEKLLKSHVVRHV 261 (467)
T ss_pred chHHHHHHHHHhHHHHHHHHHHHhh
Confidence 9999999999999999999999884
No 55
>COG4049 Uncharacterized protein containing archaeal-type C2H2 Zn-finger [General function prediction only]
Probab=56.02 E-value=2.7 Score=31.76 Aligned_cols=27 Identities=22% Similarity=0.493 Sum_probs=23.6
Q ss_pred CcccCCcCCCCccCcccchhhhhhhcC
Q 044541 208 GSFPCKSCNRSFTTEGGLQSHTKAKHG 234 (237)
Q Consensus 208 Gpy~CKsCgKtFsSesaLqsH~RahhG 234 (237)
-.+.|+.|+..|......+.|...-||
T Consensus 16 ~~lrCPRC~~~FR~~K~Y~RHVNKaH~ 42 (65)
T COG4049 16 EFLRCPRCGMVFRRRKDYIRHVNKAHG 42 (65)
T ss_pred eeeeCCchhHHHHHhHHHHHHhhHHhh
Confidence 478999999999999999999876665
No 56
>KOG4124 consensus Putative transcriptional repressor regulating G2/M transition [Transcription; Cell cycle control, cell division, chromosome partitioning]
Probab=53.18 E-value=7.5 Score=38.29 Aligned_cols=50 Identities=16% Similarity=0.261 Sum_probs=35.5
Q ss_pred ccccCCCCCCCCCCCCCCCC--CCC--CC-CCCCCcccCCcCCCCccCcccchhhh
Q 044541 179 HIATPHPSKKSAKTPANNDQ--TKQ--QP-HKSGGSFPCKSCNRSFTTEGGLQSHT 229 (237)
Q Consensus 179 HvATPhPaKKaGKTP~n~~g--~K~--qT-PkSgGpy~CKsCgKtFsSesaLqsH~ 229 (237)
||++|-|+-+...-++|..+ ++. .| --++.||.| .||++..+.++|+-|.
T Consensus 178 ~~S~~vp~~~~~~~~~Ns~~~~S~~~~~T~~t~~~p~k~-~~~~~~~T~~~l~~HS 232 (442)
T KOG4124|consen 178 RVSVVVPAAAAAAAAANSSDMSSDEASSTAETTGTPKKM-PESLVMDTSSPLSDHS 232 (442)
T ss_pred cccccCchhhhhhhccccccccccccccccccccCCccC-cccccccccchhhhcc
Confidence 88888887666666666543 111 11 124789999 6999999999999885
No 57
>PF02724 CDC45: CDC45-like protein; InterPro: IPR003874 CDC45 is an essential gene required for initiation of DNA replication in Saccharomyces cerevisiae (cell division control protein 45), forming a complex with MCM5/CDC46. Homologs of CDC45 have been identified in human [], mouse and the smut fungus, Melampsora spp., (tsd2 protein) among others.; GO: 0006270 DNA-dependent DNA replication initiation
Probab=48.12 E-value=19 Score=36.52 Aligned_cols=16 Identities=13% Similarity=0.206 Sum_probs=11.1
Q ss_pred ccceeeccCCcccccc
Q 044541 27 KMDIRLVSNGKPELQA 42 (237)
Q Consensus 27 ~~~~~~~~ngk~e~k~ 42 (237)
...|++...|..+...
T Consensus 96 ~~~v~v~ddg~~~~~l 111 (622)
T PF02724_consen 96 NDQVIVFDDGDIEEEL 111 (622)
T ss_pred CCcEEEEECCChhhhc
Confidence 4467778888776664
No 58
>KOG2038 consensus CAATT-binding transcription factor/60S ribosomal subunit biogenesis protein [Translation, ribosomal structure and biogenesis; Transcription]
Probab=46.66 E-value=28 Score=37.52 Aligned_cols=8 Identities=50% Similarity=0.684 Sum_probs=3.4
Q ss_pred CccCCCcc
Q 044541 169 QKTEEKKG 176 (237)
Q Consensus 169 qKTggKKg 176 (237)
|..|.|+|
T Consensus 978 ~d~~~k~~ 985 (988)
T KOG2038|consen 978 QDRGKKKG 985 (988)
T ss_pred cccccccc
Confidence 34444443
No 59
>COG5189 SFP1 Putative transcriptional repressor regulating G2/M transition [Transcription / Cell division and chromosome partitioning]
Probab=46.51 E-value=7.8 Score=37.86 Aligned_cols=23 Identities=26% Similarity=0.781 Sum_probs=21.6
Q ss_pred CcccCCcCCCCccCcccchhhhh
Q 044541 208 GSFPCKSCNRSFTTEGGLQSHTK 230 (237)
Q Consensus 208 Gpy~CKsCgKtFsSesaLqsH~R 230 (237)
.||.|..|+|.+..-++|+-|.+
T Consensus 397 KPYrCevC~KRYKNlNGLKYHr~ 419 (423)
T COG5189 397 KPYRCEVCDKRYKNLNGLKYHRK 419 (423)
T ss_pred CceeccccchhhccCccceeccc
Confidence 69999999999999999999965
No 60
>PF14812 PBP1_TM: Transmembrane domain of transglycosylase PBP1 at N-terminal; PDB: 3FWL_A 3VMA_A.
Probab=45.76 E-value=6.9 Score=30.76 Aligned_cols=8 Identities=38% Similarity=0.800 Sum_probs=0.0
Q ss_pred CCCCcccc
Q 044541 135 DEETPKKA 142 (237)
Q Consensus 135 EEeTPkK~ 142 (237)
|+..|+|.
T Consensus 50 ee~m~rK~ 57 (81)
T PF14812_consen 50 EEPMPRKG 57 (81)
T ss_dssp --------
T ss_pred cccccccc
Confidence 55667664
No 61
>COG5048 FOG: Zn-finger [General function prediction only]
Probab=45.26 E-value=10 Score=32.52 Aligned_cols=29 Identities=21% Similarity=0.524 Sum_probs=26.6
Q ss_pred CcccCC--cCCCCccCcccchhhhhhhcCCC
Q 044541 208 GSFPCK--SCNRSFTTEGGLQSHTKAKHGAP 236 (237)
Q Consensus 208 Gpy~CK--sCgKtFsSesaLqsH~RahhGek 236 (237)
.+|.|. .|++.|.....|..|...|++-+
T Consensus 320 ~~~~~p~~~~~~~~~~~~~~~~~~~~~~~~~ 350 (467)
T COG5048 320 KPFSCPYSLCGKLFSRNDALKRHILLHTSIS 350 (467)
T ss_pred CceeeeccCCCccccccccccCCcccccCCC
Confidence 599999 89999999999999999998754
No 62
>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=44.01 E-value=12 Score=30.31 Aligned_cols=17 Identities=24% Similarity=0.593 Sum_probs=11.5
Q ss_pred CcccCCcCCCCccCccc
Q 044541 208 GSFPCKSCNRSFTTEGG 224 (237)
Q Consensus 208 Gpy~CKsCgKtFsSesa 224 (237)
.|.+|+.||..|.-...
T Consensus 25 ~PivCP~CG~~~~~~~~ 41 (108)
T PF09538_consen 25 DPIVCPKCGTEFPPEPP 41 (108)
T ss_pred CCccCCCCCCccCcccc
Confidence 46678888877776633
No 63
>KOG1146 consensus Homeobox protein [General function prediction only]
Probab=43.42 E-value=7.4 Score=43.34 Aligned_cols=29 Identities=17% Similarity=0.425 Sum_probs=25.1
Q ss_pred cccCCcCCCCccCcccchhhhhhhcCCCC
Q 044541 209 SFPCKSCNRSFTTEGGLQSHTKAKHGAPA 237 (237)
Q Consensus 209 py~CKsCgKtFsSesaLqsH~RahhGek~ 237 (237)
.|-|..|.+.|+...+|++|+|+-+++++
T Consensus 1328 ~~~c~~c~~~~~~~~alqihm~~~~~~~k 1356 (1406)
T KOG1146|consen 1328 TYHCLACEVLLSGREALQIHMRSSAHRRK 1356 (1406)
T ss_pred cccchHHHhhcchhHHHHHHHHHhhhccc
Confidence 34499999999999999999998877654
No 64
>PRK00464 nrdR transcriptional regulator NrdR; Validated
Probab=41.87 E-value=10 Score=32.45 Aligned_cols=15 Identities=33% Similarity=0.629 Sum_probs=12.9
Q ss_pred cccCCcCCCCccCcc
Q 044541 209 SFPCKSCNRSFTTEG 223 (237)
Q Consensus 209 py~CKsCgKtFsSes 223 (237)
.|.|..||++|++.-
T Consensus 28 ~~~c~~c~~~f~~~e 42 (154)
T PRK00464 28 RRECLACGKRFTTFE 42 (154)
T ss_pred eeeccccCCcceEeE
Confidence 599999999998754
No 65
>PF03153 TFIIA: Transcription factor IIA, alpha/beta subunit; InterPro: IPR004855 Transcription factor IIA (TFIIA) is one of several factors that form part of a transcription pre-initiation complex along with RNA polymerase II, the TATA-box-binding protein (TBP) and TBP-associated factors, on the TATA-box sequence upstream of the initiation start site. After initiation, some components of the pre-initiation complex (including TFIIA) remain attached and re-initiate a subsequent round of transcription. TFIIA binds to TBP to stabilise TBP binding to the TATA element. TFIIA also inhibits the cytokine HMGB1 (high mobility group 1 protein) binding to TBP [], and can dissociate HMGB1 already bound to TBP/TATA-box. Human and Drosophila TFIIA have three subunits: two large subunits, LN/alpha and LC/beta, derived from the same gene, and a small subunit, S/gamma. Yeast TFIIA has two subunits: a large TOA1 subunit that shows sequence similarity to the N-terminal of LN/alpha and the C-terminal of LC/beta, and a small subunit, TOA2 that is highly homologous with S/gamma. The conserved regions of the large and small subunits of TFIIA combine to form two domains: a four-helix bundle (helical domain) composed of two helices from each of the N-terminal regions of TOA1 and TOA2 in yeast; and a beta-barrel (beta-barrel domain) composed of beta-sheets from the C-terminal regions of TOA1 and TOA2 []. This entry represents the precursor that yields both the alpha and beta subunits of TFIIA. The TFIIA heterotrimer is an essential general transcription initiation factor for the expression of genes transcribed by RNA polymerase II []. ; GO: 0006367 transcription initiation from RNA polymerase II promoter, 0005672 transcription factor TFIIA complex; PDB: 1NVP_B 1YTF_B 1RM1_C 1NH2_B.
Probab=41.22 E-value=9.6 Score=35.26 Aligned_cols=7 Identities=43% Similarity=0.786 Sum_probs=0.0
Q ss_pred cCCCCCC
Q 044541 72 ADGSDSD 78 (237)
Q Consensus 72 ~~~~~~d 78 (237)
.|+..++
T Consensus 273 ~DG~~d~ 279 (375)
T PF03153_consen 273 LDGAGDD 279 (375)
T ss_dssp -------
T ss_pred ccCCCCC
Confidence 3444333
No 66
>smart00154 ZnF_AN1 AN1-like Zinc finger. Zinc finger at the C-terminus of An1, a ubiquitin-like protein in Xenopus laevis.
Probab=41.10 E-value=13 Score=24.96 Aligned_cols=15 Identities=33% Similarity=0.862 Sum_probs=12.3
Q ss_pred CcccCCcCCCCccCc
Q 044541 208 GSFPCKSCNRSFTTE 222 (237)
Q Consensus 208 Gpy~CKsCgKtFsSe 222 (237)
.||.|..|++.|=..
T Consensus 11 ~~f~C~~C~~~FC~~ 25 (39)
T smart00154 11 TGFKCRHCGNLFCGE 25 (39)
T ss_pred cCeECCccCCccccc
Confidence 389999999999543
No 67
>PF08790 zf-LYAR: LYAR-type C2HC zinc finger ; InterPro: IPR014898 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 C2HC zinc finger domain is found in LYAR proteins such as Q08288 from SWISSPROT, which are involved in cell growth regulation. More information about these proteins can be found at Protein of the Month: Zinc Fingers [].; PDB: 1WJV_A.
Probab=39.26 E-value=8.6 Score=24.92 Aligned_cols=20 Identities=35% Similarity=0.865 Sum_probs=13.8
Q ss_pred ccCCcCCCCccCcccchhhhh
Q 044541 210 FPCKSCNRSFTTEGGLQSHTK 230 (237)
Q Consensus 210 y~CKsCgKtFsSesaLqsH~R 230 (237)
|.|-.|++.| .....+.|..
T Consensus 1 ~sCiDC~~~F-~~~~y~~Ht~ 20 (28)
T PF08790_consen 1 FSCIDCSKDF-DGDSYKSHTS 20 (28)
T ss_dssp EEETTTTEEE-EGGGTTT---
T ss_pred CeeecCCCCc-CcCCcCCCCc
Confidence 6899999999 5566677754
No 68
>smart00834 CxxC_CXXC_SSSS Putative regulatory protein. CxxC_CXXC_SSSS represents a region of about 41 amino acids found in a number of small proteins in a wide range of bacteria. The region usually begins with the initiator Met and contains two CxxC motifs separated by 17 amino acids. One protein in this entry has been noted as a putative regulatory protein, designated FmdB. Most proteins in this entry have a C-terminal region containing highly degenerate sequence.
Probab=37.29 E-value=13 Score=23.63 Aligned_cols=14 Identities=21% Similarity=0.850 Sum_probs=11.1
Q ss_pred cccCCcCCCCccCc
Q 044541 209 SFPCKSCNRSFTTE 222 (237)
Q Consensus 209 py~CKsCgKtFsSe 222 (237)
-|.|..||..|...
T Consensus 5 ~y~C~~Cg~~fe~~ 18 (41)
T smart00834 5 EYRCEDCGHTFEVL 18 (41)
T ss_pred EEEcCCCCCEEEEE
Confidence 48999999988643
No 69
>TIGR02605 CxxC_CxxC_SSSS putative regulatory protein, FmdB family. This model represents a region of about 50 amino acids found in a number of small proteins in a wide range of bacteria. The region begins usually with the initiator Met and contains two CxxC motifs separated by 17 amino acids. One member of this family is has been noted as a putative regulatory protein, designated FmdB (PubMed:8841393). Most members of this family have a C-terminal region containing highly degenerate sequence, such as SSTSESTKSSGSSGSSGSSESKASGSTEKSTSSTTAAAAV in Mycobacterium tuberculosis and VAVGGSAPAPSPAPRAGGGGGGCCGGGCCG in Streptomyces avermitilis. These low complexity regions, which are not included in the model, resemble low-complexity C-terminal regions of some heterocycle-containing bacteriocin precursors.
Probab=36.59 E-value=13 Score=25.12 Aligned_cols=14 Identities=21% Similarity=0.797 Sum_probs=11.1
Q ss_pred cccCCcCCCCccCc
Q 044541 209 SFPCKSCNRSFTTE 222 (237)
Q Consensus 209 py~CKsCgKtFsSe 222 (237)
-|.|..||..|...
T Consensus 5 ey~C~~Cg~~fe~~ 18 (52)
T TIGR02605 5 EYRCTACGHRFEVL 18 (52)
T ss_pred EEEeCCCCCEeEEE
Confidence 48999999888654
No 70
>PF01428 zf-AN1: AN1-like Zinc finger; InterPro: IPR000058 Zinc finger (Znf) domains are relatively small protein motifs which contain multiple finger-like protrusions that make tandem contacts with their target molecule. Some of these domains bind zinc, but many do not; instead binding other metals such as iron, or no metal at all. For example, some family members form salt bridges to stabilise the finger-like folds. They were first identified as a DNA-binding motif in transcription factor TFIIIA from Xenopus laevis (African clawed frog), however they are now recognised to bind DNA, RNA, protein and/or lipid substrates [, , , , ]. Their binding properties depend on the amino acid sequence of the finger domains and of the linker between fingers, as well as on the higher-order structures and the number of fingers. Znf domains are often found in clusters, where fingers can have different binding specificities. There are many superfamilies of Znf motifs, varying in both sequence and structure. They display considerable versatility in binding modes, even between members of the same class (e.g. some bind DNA, others protein), suggesting that Znf motifs are stable scaffolds that have evolved specialised functions. For example, Znf-containing proteins function in gene transcription, translation, mRNA trafficking, cytoskeleton organisation, epithelial development, cell adhesion, protein folding, chromatin remodelling and zinc sensing, to name but a few []. Zinc-binding motifs are stable structures, and they rarely undergo conformational changes upon binding their target. This entry represents the AN1-type zinc finger domain, which has a dimetal (zinc)-bound alpha/beta fold. This domain was first identified as a zinc finger at the C terminus of AN1 Q91889 from SWISSPROT, a ubiquitin-like protein in Xenopus laevis []. The AN1-type zinc finger contains six conserved cysteines and two histidines that could potentially coordinate 2 zinc atoms. Certain stress-associated proteins (SAP) contain AN1 domain, often in combination with A20 zinc finger domains (SAP8) or C2H2 domains (SAP16) []. For example, the human protein Znf216 has an A20 zinc-finger at the N terminus and an AN1 zinc-finger at the C terminus, acting to negatively regulate the NFkappaB activation pathway and to interact with components of the immune response like RIP, IKKgamma and TRAF6. The interact of Znf216 with IKK-gamma and RIP is mediated by the A20 zinc-finger domain, while its interaction with TRAF6 is mediated by the AN1 zinc-finger domain; therefore, both zinc-finger domains are involved in regulating the immune response []. The AN1 zinc finger domain is also found in proteins containing a ubiquitin-like domain, which are involved in the ubiquitination pathway []. Proteins containing an AN1-type zinc finger include: Ascidian posterior end mark 6 (pem-6) protein []. Human AWP1 protein (associated with PRK1), which is expressed during early embryogenesis []. Human immunoglobulin mu binding protein 2 (SMUBP-2), mutations in which cause muscular atrophy with respiratory distress type 1 []. More information about these proteins can be found at Protein of the Month: Zinc Fingers [].; GO: 0008270 zinc ion binding; PDB: 1WFP_A 1WYS_A 1WG2_A 1WFH_A 1X4W_A 1WFE_A 1WFL_A 1X4V_A.
Probab=34.70 E-value=12 Score=25.15 Aligned_cols=14 Identities=43% Similarity=0.925 Sum_probs=9.3
Q ss_pred CcccCCcCCCCccC
Q 044541 208 GSFPCKSCNRSFTT 221 (237)
Q Consensus 208 Gpy~CKsCgKtFsS 221 (237)
=+|.|..|++.|=.
T Consensus 12 ~~~~C~~C~~~FC~ 25 (43)
T PF01428_consen 12 LPFKCKHCGKSFCL 25 (43)
T ss_dssp SHEE-TTTS-EE-T
T ss_pred CCeECCCCCcccCc
Confidence 48999999998843
No 71
>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=34.10 E-value=18 Score=22.43 Aligned_cols=20 Identities=30% Similarity=0.564 Sum_probs=16.3
Q ss_pred ccCCcCCCCccCcccchhhhh
Q 044541 210 FPCKSCNRSFTTEGGLQSHTK 230 (237)
Q Consensus 210 y~CKsCgKtFsSesaLqsH~R 230 (237)
..|+.|++.| ....+.+|..
T Consensus 2 v~CPiC~~~v-~~~~in~HLD 21 (26)
T smart00734 2 VQCPVCFREV-PENLINSHLD 21 (26)
T ss_pred CcCCCCcCcc-cHHHHHHHHH
Confidence 4799999998 6678888865
No 72
>KOG2071 consensus mRNA cleavage and polyadenylation factor I/II complex, subunit Pcf11 [RNA processing and modification]
Probab=33.30 E-value=20 Score=36.93 Aligned_cols=27 Identities=22% Similarity=0.418 Sum_probs=22.9
Q ss_pred CCcccCCcCCCCccCcccchhhhhhhc
Q 044541 207 GGSFPCKSCNRSFTTEGGLQSHTKAKH 233 (237)
Q Consensus 207 gGpy~CKsCgKtFsSesaLqsH~Rahh 233 (237)
-.+..|+.||+.|........|+-.|-
T Consensus 416 ~~pnqC~~CG~R~~~~ee~sk~md~H~ 442 (579)
T KOG2071|consen 416 DSPNQCKSCGLRFDDSEERSKHMDIHD 442 (579)
T ss_pred CCcchhcccccccccchhhhhHhhhhh
Confidence 367999999999999988888887773
No 73
>PF09723 Zn-ribbon_8: Zinc ribbon domain; InterPro: IPR013429 This entry represents a region of about 41 amino acids found in a number of small proteins in a wide range of bacteria. The region usually begins with the initiator Met and contains two CxxC motifs separated by 17 amino acids. One protein in this entry has been noted as a putative regulatory protein, designated FmdB []. Most proteins in this entry have a C-terminal region containing highly degenerate sequence.
Probab=32.41 E-value=16 Score=24.48 Aligned_cols=17 Identities=18% Similarity=0.712 Sum_probs=12.8
Q ss_pred cccCCcCCCCccCcccc
Q 044541 209 SFPCKSCNRSFTTEGGL 225 (237)
Q Consensus 209 py~CKsCgKtFsSesaL 225 (237)
-|.|..||..|.....+
T Consensus 5 ey~C~~Cg~~fe~~~~~ 21 (42)
T PF09723_consen 5 EYRCEECGHEFEVLQSI 21 (42)
T ss_pred EEEeCCCCCEEEEEEEc
Confidence 48999999888655443
No 74
>KOG3456 consensus NADH:ubiquinone oxidoreductase, NDUFS6/13 kDa subunit [Energy production and conversion]
Probab=32.33 E-value=16 Score=30.62 Aligned_cols=16 Identities=25% Similarity=0.580 Sum_probs=13.5
Q ss_pred CCCcccCCcCCCCccC
Q 044541 206 SGGSFPCKSCNRSFTT 221 (237)
Q Consensus 206 SgGpy~CKsCgKtFsS 221 (237)
..|+++|.+||-.|..
T Consensus 101 k~~~~~CgYCGlrf~~ 116 (120)
T KOG3456|consen 101 KPGPHICGYCGLRFVQ 116 (120)
T ss_pred CCCCcccccchhhhhh
Confidence 3589999999998865
No 75
>KOG0127 consensus Nucleolar protein fibrillarin NOP77 (RRM superfamily) [RNA processing and modification]
Probab=31.86 E-value=41 Score=35.02 Aligned_cols=7 Identities=29% Similarity=0.254 Sum_probs=3.1
Q ss_pred ccccCCC
Q 044541 179 HIATPHP 185 (237)
Q Consensus 179 HvATPhP 185 (237)
|-+|-|+
T Consensus 327 ~k~T~~s 333 (678)
T KOG0127|consen 327 DKDTGHS 333 (678)
T ss_pred ccCCCCc
Confidence 4444444
No 76
>COG5593 Nucleic-acid-binding protein possibly involved in ribosomal biogenesis [Translation, ribosomal structure and biogenesis]
Probab=31.13 E-value=41 Score=35.26 Aligned_cols=12 Identities=50% Similarity=0.722 Sum_probs=5.4
Q ss_pred CCCCCCCCCCCC
Q 044541 74 GSDSDDSDLNTS 85 (237)
Q Consensus 74 ~~~~d~~~~~~d 85 (237)
+.|+++|+++..
T Consensus 702 e~d~ddse~d~~ 713 (821)
T COG5593 702 EDDSDDSELDFA 713 (821)
T ss_pred ccCccccccchh
Confidence 344444555443
No 77
>KOG2141 consensus Protein involved in high osmolarity signaling pathway [Signal transduction mechanisms]
Probab=30.30 E-value=88 Score=33.55 Aligned_cols=7 Identities=43% Similarity=0.543 Sum_probs=3.0
Q ss_pred cCCCCCC
Q 044541 182 TPHPSKK 188 (237)
Q Consensus 182 TPhPaKK 188 (237)
.||--||
T Consensus 300 PPslRkk 306 (822)
T KOG2141|consen 300 PPSLRKK 306 (822)
T ss_pred CHHHHHH
Confidence 4444333
No 78
>PF10276 zf-CHCC: Zinc-finger domain; InterPro: IPR019401 Zinc finger (Znf) domains are relatively small protein motifs which contain multiple finger-like protrusions that make tandem contacts with their target molecule. Some of these domains bind zinc, but many do not; instead binding other metals such as iron, or no metal at all. For example, some family members form salt bridges to stabilise the finger-like folds. They were first identified as a DNA-binding motif in transcription factor TFIIIA from Xenopus laevis (African clawed frog), however they are now recognised to bind DNA, RNA, protein and/or lipid substrates [, , , , ]. Their binding properties depend on the amino acid sequence of the finger domains and of the linker between fingers, as well as on the higher-order structures and the number of fingers. Znf domains are often found in clusters, where fingers can have different binding specificities. There are many superfamilies of Znf motifs, varying in both sequence and structure. They display considerable versatility in binding modes, even between members of the same class (e.g. some bind DNA, others protein), suggesting that Znf motifs are stable scaffolds that have evolved specialised functions. For example, Znf-containing proteins function in gene transcription, translation, mRNA trafficking, cytoskeleton organisation, epithelial development, cell adhesion, protein folding, chromatin remodelling and zinc sensing, to name but a few []. Zinc-binding motifs are stable structures, and they rarely undergo conformational changes upon binding their target. This entry represents a short conserved zinc-finger domain. It contains the sequence motif Cx8Hx14Cx2C. ; PDB: 2JVM_A 2JRR_A 2JZ8_A.
Probab=29.58 E-value=15 Score=25.21 Aligned_cols=12 Identities=25% Similarity=0.858 Sum_probs=10.5
Q ss_pred CcccCCcCCCCc
Q 044541 208 GSFPCKSCNRSF 219 (237)
Q Consensus 208 Gpy~CKsCgKtF 219 (237)
++..|++||+.|
T Consensus 28 ~~~~CpYCg~~y 39 (40)
T PF10276_consen 28 GPVVCPYCGTRY 39 (40)
T ss_dssp CEEEETTTTEEE
T ss_pred CeEECCCCCCEE
Confidence 578999999887
No 79
>COG5189 SFP1 Putative transcriptional repressor regulating G2/M transition [Transcription / Cell division and chromosome partitioning]
Probab=29.46 E-value=25 Score=34.49 Aligned_cols=25 Identities=28% Similarity=0.828 Sum_probs=22.2
Q ss_pred CCcccC--CcCCCCccCcccchhhhhh
Q 044541 207 GGSFPC--KSCNRSFTTEGGLQSHTKA 231 (237)
Q Consensus 207 gGpy~C--KsCgKtFsSesaLqsH~Ra 231 (237)
+.||.| ..|+|++...++|+-|+.-
T Consensus 347 ~KpykCpV~gC~K~YknqnGLKYH~lh 373 (423)
T COG5189 347 GKPYKCPVEGCNKKYKNQNGLKYHMLH 373 (423)
T ss_pred CceecCCCCCchhhhccccchhhhhhc
Confidence 589999 6899999999999999753
No 80
>KOG3130 consensus Uncharacterized conserved protein [Function unknown]
Probab=28.29 E-value=54 Score=33.08 Aligned_cols=14 Identities=14% Similarity=0.221 Sum_probs=7.5
Q ss_pred CCCcccccccCCCC
Q 044541 136 EETPKKAESSKKRP 149 (237)
Q Consensus 136 EeTPkK~e~GKKR~ 149 (237)
++.++++..|+...
T Consensus 317 ep~~~~I~T~~~tt 330 (514)
T KOG3130|consen 317 EPKRVRINTGKNTT 330 (514)
T ss_pred CcccceeeccchhH
Confidence 35566665555444
No 81
>KOG0943 consensus Predicted ubiquitin-protein ligase/hyperplastic discs protein, HECT superfamily [Posttranslational modification, protein turnover, chaperones]
Probab=27.85 E-value=40 Score=38.74 Aligned_cols=13 Identities=15% Similarity=0.416 Sum_probs=7.7
Q ss_pred CccCcccchhhhh
Q 044541 218 SFTTEGGLQSHTK 230 (237)
Q Consensus 218 tFsSesaLqsH~R 230 (237)
.|++.+.|.+..|
T Consensus 1926 rfssrssflSN~R 1938 (3015)
T KOG0943|consen 1926 RFSSRSSFLSNLR 1938 (3015)
T ss_pred cccchhhhhhhcc
Confidence 4666666655544
No 82
>COG4547 CobT Cobalamin biosynthesis protein CobT (nicotinate-mononucleotide:5, 6-dimethylbenzimidazole phosphoribosyltransferase) [Coenzyme metabolism]
Probab=26.52 E-value=94 Score=32.10 Aligned_cols=10 Identities=60% Similarity=0.999 Sum_probs=4.3
Q ss_pred CCCCCCCCCc
Q 044541 130 ESDDEDEETP 139 (237)
Q Consensus 130 d~~~eEEeTP 139 (237)
|+.+++.+||
T Consensus 289 de~de~~et~ 298 (620)
T COG4547 289 DESDEDTETP 298 (620)
T ss_pred cccccCccCc
Confidence 3333344454
No 83
>PF13717 zinc_ribbon_4: zinc-ribbon domain
Probab=26.15 E-value=36 Score=22.37 Aligned_cols=18 Identities=22% Similarity=0.532 Sum_probs=14.8
Q ss_pred CCCCCCcccCCcCCCCcc
Q 044541 203 PHKSGGSFPCKSCNRSFT 220 (237)
Q Consensus 203 TPkSgGpy~CKsCgKtFs 220 (237)
-|..++...|..|+..|.
T Consensus 19 ip~~g~~v~C~~C~~~f~ 36 (36)
T PF13717_consen 19 IPPKGRKVRCSKCGHVFF 36 (36)
T ss_pred CCCCCcEEECCCCCCEeC
Confidence 466778999999998873
No 84
>PF12907 zf-met2: Zinc-binding
Probab=25.48 E-value=14 Score=25.57 Aligned_cols=26 Identities=35% Similarity=0.691 Sum_probs=20.4
Q ss_pred ccCCcCCCCccC---cccchhhhhhhcCC
Q 044541 210 FPCKSCNRSFTT---EGGLQSHTKAKHGA 235 (237)
Q Consensus 210 y~CKsCgKtFsS---esaLqsH~RahhGe 235 (237)
|+|+.|--+|-. ..+|..|.-.+|.-
T Consensus 2 i~C~iC~qtF~~t~~~~~L~eH~enKHpK 30 (40)
T PF12907_consen 2 IICKICRQTFMQTTNEPQLKEHAENKHPK 30 (40)
T ss_pred cCcHHhhHHHHhcCCHHHHHHHHHccCCC
Confidence 789999766654 46799999988864
No 85
>PF03966 Trm112p: Trm112p-like protein; InterPro: IPR005651 This family of short proteins have no known function. The bacterial members are about 60-70 amino acids in length and the eukaryotic examples are about 120 amino acids in length. The C terminus contains the strongest conservation. The function of this family is uncertain. The bacterial members are about 60-70 amino acids in length and the eukaryotic examples are about 120 amino acids in length. The C terminus contains the strongest conservation. The entry contains 2 families: Trm112, which is required for tRNA methylation in Saccharomyces cerevisiae (Baker's yeast) and is found in complexes with 2 tRNA methylases (TRM9 and TRM11) also with putative methyltransferase YDR140W []. The zinc-finger protein Ynr046w is plurifunctional and a component of the eRF1 methyltransferase in yeast []. The crystal structure of Ynr046w has been determined to 1.7 A resolution. It comprises a zinc-binding domain built from both the N- and C-terminal sequences and an inserted domain, absent from bacterial and archaeal orthologs of the protein, composed of three alpha-helices []. UPF0434, which are proteins that are functionally uncharacterised. ; PDB: 3Q87_A 2KPI_A 2K5R_A 2HF1_A 2JS4_A 2J6A_A 2JR6_A 2PK7_A 2JNY_A.
Probab=25.28 E-value=19 Score=26.04 Aligned_cols=15 Identities=27% Similarity=0.842 Sum_probs=12.6
Q ss_pred CCcccCCcCCCCccC
Q 044541 207 GGSFPCKSCNRSFTT 221 (237)
Q Consensus 207 gGpy~CKsCgKtFsS 221 (237)
.|..+|..|+|.|--
T Consensus 51 eg~L~Cp~c~r~YPI 65 (68)
T PF03966_consen 51 EGELICPECGREYPI 65 (68)
T ss_dssp TTEEEETTTTEEEEE
T ss_pred CCEEEcCCCCCEEeC
Confidence 489999999998854
No 86
>KOG4727 consensus U1-like Zn-finger protein [General function prediction only]
Probab=23.40 E-value=32 Score=30.99 Aligned_cols=29 Identities=17% Similarity=0.429 Sum_probs=22.6
Q ss_pred CCCC-CCcccCCcCCCCccCcccchhhhhh
Q 044541 203 PHKS-GGSFPCKSCNRSFTTEGGLQSHTKA 231 (237)
Q Consensus 203 TPkS-gGpy~CKsCgKtFsSesaLqsH~Ra 231 (237)
+|.+ .|.|-|..|+-.|.-.-++.-|+.-
T Consensus 68 tp~sq~~GyyCdVCdcvvKDSinflDHiNg 97 (193)
T KOG4727|consen 68 TPRSQKGGYYCDVCDCVVKDSINFLDHING 97 (193)
T ss_pred CcccccCceeeeecceeehhhHHHHHHhcc
Confidence 4443 4788899999999999888888653
No 87
>KOG4364 consensus Chromatin assembly factor-I [Chromatin structure and dynamics]
Probab=22.89 E-value=63 Score=34.41 Aligned_cols=8 Identities=25% Similarity=0.281 Sum_probs=3.9
Q ss_pred CCCCCCCC
Q 044541 199 TKQQPHKS 206 (237)
Q Consensus 199 ~K~qTPkS 206 (237)
...|+|..
T Consensus 639 ~~dqtp~q 646 (811)
T KOG4364|consen 639 AKDQTPTQ 646 (811)
T ss_pred hhccCCCc
Confidence 34455553
No 88
>KOG1999 consensus RNA polymerase II transcription elongation factor DSIF/SUPT5H/SPT5 [Transcription]
Probab=22.72 E-value=93 Score=34.21 Aligned_cols=12 Identities=17% Similarity=0.158 Sum_probs=5.9
Q ss_pred CcccccccCCCC
Q 044541 138 TPKKAESSKKRP 149 (237)
Q Consensus 138 TPkK~e~GKKR~ 149 (237)
.--+-+.|..|.
T Consensus 102 ~~~~d~~~~~R~ 113 (1024)
T KOG1999|consen 102 EDLPDERGDRRL 113 (1024)
T ss_pred cccccccccccc
Confidence 334445566553
No 89
>PF10013 DUF2256: Uncharacterized protein conserved in bacteria (DUF2256); InterPro: IPR017136 There is currently no experimental data for members of this group or their homologues, nor do they exhibit features indicative of any function.
Probab=22.52 E-value=41 Score=23.73 Aligned_cols=13 Identities=46% Similarity=0.749 Sum_probs=10.6
Q ss_pred cccCCcCCCCccC
Q 044541 209 SFPCKSCNRSFTT 221 (237)
Q Consensus 209 py~CKsCgKtFsS 221 (237)
+=+|..|+|.|+-
T Consensus 8 ~K~C~~C~rpf~W 20 (42)
T PF10013_consen 8 SKICPVCGRPFTW 20 (42)
T ss_pred CCcCcccCCcchH
Confidence 3479999999974
No 90
>KOG2593 consensus Transcription initiation factor IIE, alpha subunit [Transcription]
Probab=21.82 E-value=32 Score=34.33 Aligned_cols=19 Identities=26% Similarity=0.767 Sum_probs=16.2
Q ss_pred CcccCCcCCCCccCcccch
Q 044541 208 GSFPCKSCNRSFTTEGGLQ 226 (237)
Q Consensus 208 Gpy~CKsCgKtFsSesaLq 226 (237)
..|.|+.|+|.|++--+|+
T Consensus 127 ~~Y~Cp~C~kkyt~Lea~~ 145 (436)
T KOG2593|consen 127 AGYVCPNCQKKYTSLEALQ 145 (436)
T ss_pred ccccCCccccchhhhHHHH
Confidence 4899999999998877665
No 91
>KOG2236 consensus Uncharacterized conserved protein [Function unknown]
Probab=21.66 E-value=1.3e+02 Score=30.60 Aligned_cols=19 Identities=16% Similarity=0.106 Sum_probs=11.0
Q ss_pred CCcccCCcCCCCccCcccc
Q 044541 207 GGSFPCKSCNRSFTTEGGL 225 (237)
Q Consensus 207 gGpy~CKsCgKtFsSesaL 225 (237)
.||..|.+-=..|++....
T Consensus 254 FGpV~~P~YvvRFnS~~e~ 272 (483)
T KOG2236|consen 254 FGPVKNPYYVVRFNSEEEI 272 (483)
T ss_pred hcccCCceEEEecCchhhh
Confidence 4677775443457766543
No 92
>COG4391 Uncharacterized protein conserved in bacteria [Function unknown]
Probab=21.09 E-value=38 Score=25.66 Aligned_cols=14 Identities=21% Similarity=0.719 Sum_probs=12.2
Q ss_pred CCcccCCcCCCCcc
Q 044541 207 GGSFPCKSCNRSFT 220 (237)
Q Consensus 207 gGpy~CKsCgKtFs 220 (237)
.|...|.+|++.|.
T Consensus 46 ~gev~CPYC~t~y~ 59 (62)
T COG4391 46 EGEVVCPYCSTRYR 59 (62)
T ss_pred CCcEecCccccEEE
Confidence 47899999999885
No 93
>PRK00398 rpoP DNA-directed RNA polymerase subunit P; Provisional
Probab=20.99 E-value=39 Score=22.68 Aligned_cols=16 Identities=19% Similarity=0.605 Sum_probs=11.8
Q ss_pred cccCCcCCCCccCccc
Q 044541 209 SFPCKSCNRSFTTEGG 224 (237)
Q Consensus 209 py~CKsCgKtFsSesa 224 (237)
.|.|..||..|.....
T Consensus 3 ~y~C~~CG~~~~~~~~ 18 (46)
T PRK00398 3 EYKCARCGREVELDEY 18 (46)
T ss_pred EEECCCCCCEEEECCC
Confidence 6899999987755433
No 94
>PF04780 DUF629: Protein of unknown function (DUF629); InterPro: IPR006865 This domain represents a region of several plant proteins of unknown function. A C2H2 zinc finger is predicted in this region in some family members, but the spacing between the cysteine residues is not conserved throughout the family.
Probab=20.93 E-value=37 Score=34.02 Aligned_cols=31 Identities=29% Similarity=0.497 Sum_probs=26.8
Q ss_pred CCCCcccCCcCCCCccCcccchhhhhhhcCC
Q 044541 205 KSGGSFPCKSCNRSFTTEGGLQSHTKAKHGA 235 (237)
Q Consensus 205 kSgGpy~CKsCgKtFsSesaLqsH~RahhGe 235 (237)
.+=...+|..|.+.|.....|..|+...|-+
T Consensus 53 ~sWrFWiCp~CskkF~d~~~~~~H~~~eH~~ 83 (466)
T PF04780_consen 53 KSWRFWICPRCSKKFSDAESCLSHMEQEHPA 83 (466)
T ss_pred CceeEeeCCcccceeCCHHHHHHHHHHhhhh
Confidence 3456889999999999999999999987754
No 95
>KOG2482 consensus Predicted C2H2-type Zn-finger protein [Transcription]
Probab=20.51 E-value=42 Score=33.20 Aligned_cols=30 Identities=20% Similarity=0.424 Sum_probs=26.2
Q ss_pred CCcccCCcCCCCccCcccchhhhhhhcCCC
Q 044541 207 GGSFPCKSCNRSFTTEGGLQSHTKAKHGAP 236 (237)
Q Consensus 207 gGpy~CKsCgKtFsSesaLqsH~RahhGek 236 (237)
.-.+.|=+|-|.|.-.+.|..|+|.+...|
T Consensus 193 L~r~~CLyCekifrdkntLkeHMrkK~Hrr 222 (423)
T KOG2482|consen 193 LERLRCLYCEKIFRDKNTLKEHMRKKRHRR 222 (423)
T ss_pred HhhheeeeeccccCCcHHHHHHHHhccCcc
Confidence 567899999999999999999999876543
No 96
>smart00659 RPOLCX RNA polymerase subunit CX. present in RNA polymerase I, II and III
Probab=20.30 E-value=44 Score=23.08 Aligned_cols=14 Identities=21% Similarity=0.608 Sum_probs=11.9
Q ss_pred cccCCcCCCCccCc
Q 044541 209 SFPCKSCNRSFTTE 222 (237)
Q Consensus 209 py~CKsCgKtFsSe 222 (237)
-|+|..||..|...
T Consensus 2 ~Y~C~~Cg~~~~~~ 15 (44)
T smart00659 2 IYICGECGRENEIK 15 (44)
T ss_pred EEECCCCCCEeecC
Confidence 49999999988765
No 97
>PLN02748 tRNA dimethylallyltransferase
Probab=20.27 E-value=44 Score=33.21 Aligned_cols=26 Identities=12% Similarity=0.469 Sum_probs=22.7
Q ss_pred CcccCCcCCC-CccCcccchhhhhhhc
Q 044541 208 GSFPCKSCNR-SFTTEGGLQSHTKAKH 233 (237)
Q Consensus 208 Gpy~CKsCgK-tFsSesaLqsH~Rahh 233 (237)
..|.|..|++ +|..+.+-+.|.+.+.
T Consensus 417 ~~~~Ce~C~~~~~~G~~eW~~Hlksr~ 443 (468)
T PLN02748 417 TQYVCEACGNKVLRGAHEWEQHKQGRG 443 (468)
T ss_pred ccccccCCCCcccCCHHHHHHHhcchH
Confidence 6899999997 8999999999987653
No 98
>PF13878 zf-C2H2_3: zinc-finger of acetyl-transferase ESCO
Probab=20.16 E-value=72 Score=21.49 Aligned_cols=27 Identities=19% Similarity=0.396 Sum_probs=18.0
Q ss_pred CCcccCCcCCCCccCcc--cchhhhhhhc
Q 044541 207 GGSFPCKSCNRSFTTEG--GLQSHTKAKH 233 (237)
Q Consensus 207 gGpy~CKsCgKtFsSes--aLqsH~Rahh 233 (237)
.|.-.|+.||-.|+... --..|.|-|.
T Consensus 11 ~~~~~C~~CgM~Y~~~~~eD~~~H~~yH~ 39 (41)
T PF13878_consen 11 FGATTCPTCGMLYSPGSPEDEKLHKKYHD 39 (41)
T ss_pred cCCcCCCCCCCEECCCCHHHHHHHHHHHh
Confidence 46789999998665443 3455666553
Done!