Query 045532
Match_columns 173
No_of_seqs 117 out of 132
Neff 3.8
Searched_HMMs 46136
Date Fri Mar 29 03:02:27 2013
Command hhsearch -i /work/01045/syshi/csienesis_hhblits_a3m/045532.a3m -d /work/01045/syshi/HHdatabase/Cdd.hhm -o /work/01045/syshi/hhsearch_cdd/045532hhsearch_cdd -cpu 12 -v 0
No Hit Prob E-value P-value Score SS Cols Query HMM Template HMM
1 PF00397 WW: WW domain; Inter 96.8 0.0008 1.7E-08 40.7 2.0 29 32-63 1-30 (31)
2 smart00456 WW Domain with 2 co 95.9 0.007 1.5E-07 35.8 2.5 29 32-64 1-30 (32)
3 cd00201 WW Two conserved trypt 95.1 0.022 4.8E-07 33.1 2.4 28 33-64 1-29 (31)
4 PRK08351 DNA-directed RNA poly 87.9 0.24 5.2E-06 35.1 0.9 25 123-151 1-25 (61)
5 PRK06393 rpoE DNA-directed RNA 81.1 0.59 1.3E-05 33.5 0.4 24 124-151 4-27 (64)
6 KOG3259 Peptidyl-prolyl cis-tr 79.4 1.3 2.8E-05 36.9 1.9 34 29-65 4-38 (163)
7 PRK00398 rpoP DNA-directed RNA 79.2 1.8 3.9E-05 27.9 2.2 31 123-153 1-33 (46)
8 PF12172 DUF35_N: Rubredoxin-l 64.7 5 0.00011 24.6 1.7 29 120-150 6-34 (37)
9 TIGR02098 MJ0042_CXXC MJ0042 f 64.5 4.6 0.0001 24.7 1.5 26 126-151 3-35 (38)
10 PF09538 FYDLN_acid: Protein o 59.0 5.7 0.00012 30.7 1.4 27 127-154 11-39 (108)
11 COG3357 Predicted transcriptio 57.7 4.2 9.1E-05 31.4 0.5 32 120-151 53-86 (97)
12 smart00391 MBD Methyl-CpG bind 57.0 8.5 0.00019 27.8 2.0 17 28-47 4-20 (77)
13 PF14369 zf-RING_3: zinc-finge 52.9 14 0.0003 23.2 2.2 23 128-150 5-30 (35)
14 smart00659 RPOLCX RNA polymera 52.8 11 0.00023 24.8 1.7 28 126-153 3-31 (44)
15 PF11023 DUF2614: Protein of u 51.7 6.7 0.00015 31.1 0.8 32 124-156 68-100 (114)
16 PF07295 DUF1451: Protein of u 51.7 17 0.00037 29.4 3.1 33 119-151 106-140 (146)
17 cd00122 MBD MeCP2, MBD1, MBD2, 49.9 15 0.00034 25.0 2.3 17 28-47 2-18 (62)
18 TIGR00155 pqiA_fam integral me 49.7 8.4 0.00018 35.5 1.2 26 125-151 215-240 (403)
19 PF10164 DUF2367: Uncharacteri 49.4 19 0.0004 28.0 2.9 18 119-136 43-60 (98)
20 TIGR00100 hypA hydrogenase nic 49.1 15 0.00032 28.2 2.3 28 124-151 69-96 (115)
21 COG1096 Predicted RNA-binding 47.5 12 0.00025 32.0 1.6 32 119-150 143-174 (188)
22 PRK12380 hydrogenase nickel in 47.4 16 0.00035 27.9 2.3 27 124-150 69-95 (113)
23 PRK03681 hypA hydrogenase nick 45.9 17 0.00036 27.9 2.1 28 124-151 69-97 (114)
24 PF13248 zf-ribbon_3: zinc-rib 43.1 11 0.00024 21.8 0.6 22 127-150 4-25 (26)
25 PF13719 zinc_ribbon_5: zinc-r 43.0 11 0.00024 23.5 0.7 26 125-150 2-34 (37)
26 COG5104 PRP40 Splicing factor 43.0 6.4 0.00014 38.1 -0.7 28 34-65 15-43 (590)
27 COG1867 TRM1 N2,N2-dimethylgua 42.9 14 0.00031 34.5 1.6 31 121-151 236-267 (380)
28 cd01397 HAT_MBD Methyl-CpG bin 42.4 23 0.00051 25.8 2.3 28 28-58 2-36 (73)
29 cd04482 RPA2_OBF_like RPA2_OBF 42.1 13 0.00028 27.2 1.0 10 139-148 82-91 (91)
30 PRK00420 hypothetical protein; 42.1 14 0.0003 29.0 1.2 34 120-153 18-52 (112)
31 PF08274 PhnA_Zn_Ribbon: PhnA 41.2 11 0.00023 23.2 0.4 12 141-152 2-13 (30)
32 cd00350 rubredoxin_like Rubred 40.9 21 0.00046 21.6 1.6 23 128-150 4-26 (33)
33 PF10571 UPF0547: Uncharacteri 39.9 13 0.00029 22.0 0.6 20 128-149 3-22 (26)
34 PF01155 HypA: Hydrogenase exp 39.5 12 0.00025 28.5 0.4 29 123-151 68-96 (113)
35 PF14205 Cys_rich_KTR: Cystein 37.2 18 0.00038 25.5 1.0 16 142-157 29-44 (55)
36 TIGR00373 conserved hypothetic 36.9 14 0.0003 29.8 0.5 28 124-151 108-138 (158)
37 PRK15103 paraquat-inducible me 36.6 17 0.00037 33.7 1.1 25 125-151 221-245 (419)
38 cd07973 Spt4 Transcription elo 36.3 18 0.00039 27.6 1.0 23 126-148 4-27 (98)
39 PRK03824 hypA hydrogenase nick 34.7 38 0.00083 26.6 2.7 27 124-150 69-116 (135)
40 PRK06266 transcription initiat 33.6 19 0.00042 29.6 0.8 28 124-151 116-146 (178)
41 TIGR02300 FYDLN_acid conserved 33.3 26 0.00056 28.3 1.5 30 127-156 11-41 (129)
42 PRK11032 hypothetical protein; 33.1 54 0.0012 27.1 3.4 37 119-158 118-156 (160)
43 COG1675 TFA1 Transcription ini 32.6 12 0.00025 31.4 -0.6 27 125-151 113-142 (176)
44 PF04074 DUF386: Domain of unk 32.6 18 0.00039 28.3 0.5 16 35-50 62-80 (153)
45 PRK00564 hypA hydrogenase nick 31.2 27 0.00059 26.8 1.3 28 124-151 70-98 (117)
46 PF14169 YdjO: Cold-inducible 30.2 29 0.00063 24.5 1.2 15 137-151 35-49 (59)
47 PF06582 DUF1136: Repeat of un 30.0 15 0.00032 22.3 -0.3 15 27-41 2-16 (28)
48 PF03811 Zn_Tnp_IS1: InsA N-te 29.8 35 0.00075 21.6 1.4 14 138-151 2-15 (36)
49 PF01429 MBD: Methyl-CpG bindi 28.8 39 0.00084 24.0 1.6 10 28-37 7-16 (77)
50 PRK12496 hypothetical protein; 28.3 31 0.00067 28.0 1.2 26 126-151 128-153 (164)
51 PRK10202 ebgC cryptic beta-D-g 28.3 26 0.00056 28.0 0.7 20 33-52 56-78 (149)
52 COG0375 HybF Zn finger protein 27.6 28 0.00061 27.4 0.8 28 124-151 69-96 (115)
53 TIGR00155 pqiA_fam integral me 27.2 43 0.00093 30.9 2.0 27 125-151 13-43 (403)
54 COG2995 PqiA Uncharacterized p 27.2 27 0.00059 33.1 0.8 27 124-151 219-245 (418)
55 COG4416 Com Mu-like prophage p 27.1 26 0.00056 24.9 0.5 11 141-151 24-34 (60)
56 COG2093 DNA-directed RNA polym 26.1 21 0.00046 25.8 -0.1 26 123-150 2-27 (64)
57 TIGR00022 uncharacterized prot 25.9 28 0.00061 27.2 0.5 20 35-54 62-84 (142)
58 PF03682 UPF0158: Uncharacteri 25.8 42 0.00091 27.3 1.6 13 40-52 23-35 (163)
59 PRK13130 H/ACA RNA-protein com 25.6 49 0.0011 23.0 1.6 24 124-151 4-27 (56)
60 COG1998 RPS31 Ribosomal protei 24.6 42 0.00092 23.3 1.1 13 139-151 17-29 (51)
61 PRK15103 paraquat-inducible me 24.6 53 0.0012 30.5 2.1 26 126-151 11-40 (419)
62 COG2260 Predicted Zn-ribbon RN 24.5 56 0.0012 23.3 1.8 25 125-153 5-29 (59)
63 PF10122 Mu-like_Com: Mu-like 24.1 50 0.0011 22.9 1.4 31 127-157 6-40 (51)
64 PF03604 DNA_RNApol_7kD: DNA d 23.9 36 0.00079 21.1 0.7 25 128-152 3-28 (32)
65 TIGR02605 CxxC_CxxC_SSSS putat 23.8 70 0.0015 20.5 2.0 27 124-150 4-35 (52)
66 PF09723 Zn-ribbon_8: Zinc rib 23.6 96 0.0021 19.6 2.6 25 125-149 5-34 (42)
67 PF08271 TF_Zn_Ribbon: TFIIB z 22.9 53 0.0012 20.7 1.3 9 143-151 2-10 (43)
68 KOG3352 Cytochrome c oxidase, 22.5 1.5E+02 0.0032 24.8 4.1 36 123-159 109-151 (153)
69 PRK02935 hypothetical protein; 22.1 57 0.0012 25.8 1.6 37 121-158 66-103 (110)
70 smart00834 CxxC_CXXC_SSSS Puta 21.8 1.6E+02 0.0034 17.6 3.3 28 123-150 3-35 (41)
71 COG1592 Rubrerythrin [Energy p 21.7 52 0.0011 27.4 1.3 25 125-150 134-158 (166)
72 cd04476 RPA1_DBD_C RPA1_DBD_C: 21.5 62 0.0013 25.3 1.7 30 122-151 31-61 (166)
73 cd00729 rubredoxin_SM Rubredox 21.5 84 0.0018 19.3 2.0 23 127-150 4-27 (34)
74 TIGR00375 conserved hypothetic 21.1 33 0.00071 31.7 0.1 28 123-151 238-268 (374)
75 COG5242 TFB4 RNA polymerase II 20.9 69 0.0015 28.8 2.0 27 123-151 258-284 (296)
76 TIGR00627 tfb4 transcription f 20.6 43 0.00093 29.7 0.7 28 121-150 251-278 (279)
77 COG1579 Zn-ribbon protein, pos 20.5 30 0.00064 30.3 -0.3 30 123-152 195-232 (239)
78 COG1379 PHP family phosphoeste 20.3 22 0.00049 33.3 -1.2 29 123-151 244-275 (403)
No 1
>PF00397 WW: WW domain; InterPro: IPR001202 Synonym(s): Rsp5 or WWP domain The WW domain is a short conserved region in a number of unrelated proteins, which folds as a stable, triple stranded beta-sheet. This short domain of approximately 40 amino acids, may be repeated up to four times in some proteins [, , , ]. The name WW or WWP derives from the presence of two signature tryptophan residues that are spaced 20-23 amino acids apart and are present in most WW domains known to date, as well as that of a conserved Pro. The WW domain binds to proteins with particular proline-motifs, [AP]-P-P-[AP]-Y, and/or phosphoserine- phosphothreonine-containing motifs [, ]. It is frequently associated with other domains typical for proteins in signal transduction processes. A large variety of proteins containing the WW domain are known. These include; dystrophin, a multidomain cytoskeletal protein; utrophin, a dystrophin-like protein of unknown function; vertebrate YAP protein, substrate of an unknown serine kinase; Mus musculus (Mouse) NEDD-4, involved in the embryonic development and differentiation of the central nervous system; Saccharomyces cerevisiae (Baker's yeast) RSP5, similar to NEDD-4 in its molecular organisation; Rattus norvegicus (Rat) FE65, a transcription-factor activator expressed preferentially in liver; Nicotiana tabacum (Common tobacco) DB10 protein, amongst others.; GO: 0005515 protein binding; PDB: 2JXW_A 2DK1_A 2JOC_A 2JO9_A 1YIU_A 1O6W_A 2JMF_A 1TK7_A 2KYK_A 2L5F_A ....
Probab=96.83 E-value=0.0008 Score=40.71 Aligned_cols=29 Identities=14% Similarity=0.136 Sum_probs=23.4
Q ss_pred CCcchhccceeeeeccccE-EEeeccCcccCCC
Q 045532 32 HPRLAKALFSFYLKAGGGI-YRCVHTAKMSRRN 63 (173)
Q Consensus 32 lP~~WE~~~q~LDlqSGki-yln~rt~kmS~~~ 63 (173)
||.+|+ .+.|-.+|++ |+|..|.+.+|..
T Consensus 1 LP~gW~---~~~~~~~g~~YY~N~~t~~s~W~~ 30 (31)
T PF00397_consen 1 LPPGWE---EYFDPDSGRPYYYNHETGESQWER 30 (31)
T ss_dssp SSTTEE---EEEETTTSEEEEEETTTTEEESSS
T ss_pred CCcCCE---EEEcCCCCCEEEEeCCCCCEEeCC
Confidence 789996 8888668999 7799998766643
No 2
>smart00456 WW Domain with 2 conserved Trp (W) residues. Also known as the WWP or rsp5 domain. Binds proline-rich polypeptides.
Probab=95.95 E-value=0.007 Score=35.84 Aligned_cols=29 Identities=14% Similarity=-0.060 Sum_probs=23.5
Q ss_pred CCcchhccceeeeeccccE-EEeeccCcccCCCC
Q 045532 32 HPRLAKALFSFYLKAGGGI-YRCVHTAKMSRRNG 64 (173)
Q Consensus 32 lP~~WE~~~q~LDlqSGki-yln~rt~kmS~~~~ 64 (173)
||.+|+ ++.|-. |++ |+|..|...+|..|
T Consensus 1 lp~gW~---~~~~~~-g~~yy~n~~t~~s~W~~P 30 (32)
T smart00456 1 LPPGWE---ERKDPD-GRPYYYNHETKETQWEKP 30 (32)
T ss_pred CCCCCE---EEECCC-CCEEEEECCCCCEEcCCC
Confidence 689997 888988 999 77999877666554
No 3
>cd00201 WW Two conserved tryptophans domain; also known as the WWP or rsp5 domain; around 40 amino acids; functions as an interaction module in a diverse set of signalling proteins; binds specific proline-rich sequences but at low affinities compared to other peptide recognition proteins such as antibodies and receptors; WW domains have a single groove formed by a conserved Trp and Tyr which recognizes a pair of residues of the sequence X-Pro; variable loops and neighboring domains confer specificity in this domain; there are five distinct groups based on binding: 1) PPXY motifs 2) the PPLP motif; 3) PGM motifs; 4) PSP or PTP motifs; 5) PR motifs.
Probab=95.06 E-value=0.022 Score=33.06 Aligned_cols=28 Identities=14% Similarity=0.127 Sum_probs=22.3
Q ss_pred CcchhccceeeeeccccE-EEeeccCcccCCCC
Q 045532 33 PRLAKALFSFYLKAGGGI-YRCVHTAKMSRRNG 64 (173)
Q Consensus 33 P~~WE~~~q~LDlqSGki-yln~rt~kmS~~~~ 64 (173)
|.+|+ .+.|.. |++ |+|..|.+.+|..|
T Consensus 1 p~~W~---~~~~~~-g~~yy~n~~t~~s~W~~P 29 (31)
T cd00201 1 PPGWE---ERWDPD-GRVYYYNHNTKETQWEDP 29 (31)
T ss_pred CCCCE---EEECCC-CCEEEEECCCCCEeCCCC
Confidence 67897 888988 999 77998877666544
No 4
>PRK08351 DNA-directed RNA polymerase subunit E''; Validated
Probab=87.86 E-value=0.24 Score=35.13 Aligned_cols=25 Identities=28% Similarity=0.691 Sum_probs=19.6
Q ss_pred eEEeeCccceEEEEeeCCCCCCCCCCCcc
Q 045532 123 MVLVGCPRCLMYVMLSEDDPKCPKCKSTV 151 (173)
Q Consensus 123 mV~~gC~~ClmYVMl~k~~P~CP~Cks~v 151 (173)
|..-+|.+|+..+ ....||+|.+.-
T Consensus 1 M~~kAC~~C~~i~----~~~~CP~Cgs~~ 25 (61)
T PRK08351 1 MTEKACRHCHYIT----TEDRCPVCGSRD 25 (61)
T ss_pred CchhhhhhCCccc----CCCcCCCCcCCc
Confidence 4455899999877 455899999875
No 5
>PRK06393 rpoE DNA-directed RNA polymerase subunit E''; Validated
Probab=81.08 E-value=0.59 Score=33.53 Aligned_cols=24 Identities=17% Similarity=0.466 Sum_probs=19.7
Q ss_pred EEeeCccceEEEEeeCCCCCCCCCCCcc
Q 045532 124 VLVGCPRCLMYVMLSEDDPKCPKCKSTV 151 (173)
Q Consensus 124 V~~gC~~ClmYVMl~k~~P~CP~Cks~v 151 (173)
.+.+|.+|+..+ .+..||.|++.-
T Consensus 4 ~~~AC~~C~~i~----~~~~Cp~Cgs~~ 27 (64)
T PRK06393 4 QYRACKKCKRLT----PEKTCPVHGDEK 27 (64)
T ss_pred hhhhHhhCCccc----CCCcCCCCCCCc
Confidence 456899999877 466999999875
No 6
>KOG3259 consensus Peptidyl-prolyl cis-trans isomerase [Posttranslational modification, protein turnover, chaperones]
Probab=79.41 E-value=1.3 Score=36.91 Aligned_cols=34 Identities=12% Similarity=-0.011 Sum_probs=27.1
Q ss_pred CCCCCcchhccceeeeeccccE-EEeeccCcccCCCCC
Q 045532 29 PFPHPRLAKALFSFYLKAGGGI-YRCVHTAKMSRRNGN 65 (173)
Q Consensus 29 ~~plP~~WE~~~q~LDlqSGki-yln~rt~kmS~~~~~ 65 (173)
+..||.+|| ++.+--+|+. |+|+-|...-|..|.
T Consensus 4 ~~~LP~~We---kr~Srs~gr~YyfN~~T~~SqWe~P~ 38 (163)
T KOG3259|consen 4 EEKLPPGWE---KRMSRSSGRPYYFNTETNESQWERPS 38 (163)
T ss_pred cccCCchhh---eeccccCCCcceeccccchhhccCCC
Confidence 457999999 8889999999 779998765565543
No 7
>PRK00398 rpoP DNA-directed RNA polymerase subunit P; Provisional
Probab=79.24 E-value=1.8 Score=27.88 Aligned_cols=31 Identities=35% Similarity=0.653 Sum_probs=23.4
Q ss_pred eEEeeCccceEEEEeeCC--CCCCCCCCCccee
Q 045532 123 MVLVGCPRCLMYVMLSED--DPKCPKCKSTVLL 153 (173)
Q Consensus 123 mV~~gC~~ClmYVMl~k~--~P~CP~Cks~vll 153 (173)
|+..-|+.|.--+-+... ..+||.|.+.+.+
T Consensus 1 ~~~y~C~~CG~~~~~~~~~~~~~Cp~CG~~~~~ 33 (46)
T PRK00398 1 MAEYKCARCGREVELDEYGTGVRCPYCGYRILF 33 (46)
T ss_pred CCEEECCCCCCEEEECCCCCceECCCCCCeEEE
Confidence 567789999986555443 5899999988743
No 8
>PF12172 DUF35_N: Rubredoxin-like zinc ribbon domain (DUF35_N); InterPro: IPR022002 This domain has no known function and is found in conserved hypothetical archaeal and bacterial proteins. The domain is duplicated in O53566 from SWISSPROT. The structure of a DUF35 representative reveals two long N-terminal helices followed by a rubredoxin-like zinc ribbon domain represented in this family and a C-terminal OB fold domain. Zinc is chelated by the four conserved cysteines in the alignment. ; PDB: 3IRB_A.
Probab=64.66 E-value=5 Score=24.65 Aligned_cols=29 Identities=24% Similarity=0.550 Sum_probs=18.6
Q ss_pred CcceEEeeCccceEEEEeeCCCCCCCCCCCc
Q 045532 120 ATSMVLVGCPRCLMYVMLSEDDPKCPKCKST 150 (173)
Q Consensus 120 ~~~mV~~gC~~ClmYVMl~k~~P~CP~Cks~ 150 (173)
...+++.-|..|-.+++-++ +.||+|.+.
T Consensus 6 ~~~l~~~rC~~Cg~~~~pPr--~~Cp~C~s~ 34 (37)
T PF12172_consen 6 EGRLLGQRCRDCGRVQFPPR--PVCPHCGSD 34 (37)
T ss_dssp TT-EEEEE-TTT--EEES----SEETTTT--
T ss_pred CCEEEEEEcCCCCCEecCCC--cCCCCcCcc
Confidence 35688999999999999887 899999865
No 9
>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=64.53 E-value=4.6 Score=24.69 Aligned_cols=26 Identities=23% Similarity=0.678 Sum_probs=19.8
Q ss_pred eeCccceEEEEeeCC-------CCCCCCCCCcc
Q 045532 126 VGCPRCLMYVMLSED-------DPKCPKCKSTV 151 (173)
Q Consensus 126 ~gC~~ClmYVMl~k~-------~P~CP~Cks~v 151 (173)
+-||+|.--+.+... ..+||+|+..+
T Consensus 3 ~~CP~C~~~~~v~~~~~~~~~~~v~C~~C~~~~ 35 (38)
T TIGR02098 3 IQCPNCKTSFRVVDSQLGANGGKVRCGKCGHVW 35 (38)
T ss_pred EECCCCCCEEEeCHHHcCCCCCEEECCCCCCEE
Confidence 679999997777732 25899999764
No 10
>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=58.97 E-value=5.7 Score=30.70 Aligned_cols=27 Identities=37% Similarity=0.910 Sum_probs=20.0
Q ss_pred eCccceE-EEEeeCCCCC-CCCCCCcceec
Q 045532 127 GCPRCLM-YVMLSEDDPK-CPKCKSTVLLD 154 (173)
Q Consensus 127 gC~~Clm-YVMl~k~~P~-CP~Cks~vll~ 154 (173)
.|+.|-. |.=|.| +|. ||+|...+.+.
T Consensus 11 ~Cp~CG~kFYDLnk-~PivCP~CG~~~~~~ 39 (108)
T PF09538_consen 11 TCPSCGAKFYDLNK-DPIVCPKCGTEFPPE 39 (108)
T ss_pred cCCCCcchhccCCC-CCccCCCCCCccCcc
Confidence 5899977 333566 665 99999988776
No 11
>COG3357 Predicted transcriptional regulator containing an HTH domain fused to a Zn-ribbon [Transcription]
Probab=57.71 E-value=4.2 Score=31.41 Aligned_cols=32 Identities=25% Similarity=0.463 Sum_probs=22.6
Q ss_pred CcceEEeeCccceEEEEeeCCC--CCCCCCCCcc
Q 045532 120 ATSMVLVGCPRCLMYVMLSEDD--PKCPKCKSTV 151 (173)
Q Consensus 120 ~~~mV~~gC~~ClmYVMl~k~~--P~CP~Cks~v 151 (173)
.=.|+-+.|..|-+-+-=-+.. -+||+|||.-
T Consensus 53 ~Llv~Pa~CkkCGfef~~~~ik~pSRCP~CKSE~ 86 (97)
T COG3357 53 RLLVRPARCKKCGFEFRDDKIKKPSRCPKCKSEW 86 (97)
T ss_pred eEEecChhhcccCccccccccCCcccCCcchhhc
Confidence 3456668899998755543444 5999999873
No 12
>smart00391 MBD Methyl-CpG binding domain. Methyl-CpG binding domain, also known as the TAM (TTF-IIP5, ARBP, MeCP1) domain
Probab=57.01 E-value=8.5 Score=27.80 Aligned_cols=17 Identities=18% Similarity=0.053 Sum_probs=12.1
Q ss_pred CCCCCCcchhccceeeeecc
Q 045532 28 LPFPHPRLAKALFSFYLKAG 47 (173)
Q Consensus 28 l~~plP~~WE~~~q~LDlqS 47 (173)
+++|||.||+ |.+-+..
T Consensus 4 ~~~Plp~GW~---R~~~~r~ 20 (77)
T smart00391 4 LRLPLPCGWR---RETKQRK 20 (77)
T ss_pred ccCCCCCCcE---EEEEEec
Confidence 6789999995 6655443
No 13
>PF14369 zf-RING_3: zinc-finger
Probab=52.87 E-value=14 Score=23.15 Aligned_cols=23 Identities=30% Similarity=0.940 Sum_probs=15.8
Q ss_pred CccceEEEEee--CCCCC-CCCCCCc
Q 045532 128 CPRCLMYVMLS--EDDPK-CPKCKST 150 (173)
Q Consensus 128 C~~ClmYVMl~--k~~P~-CP~Cks~ 150 (173)
|-.|-..|=+. ..+.. ||.|.+.
T Consensus 5 Ch~C~~~V~~~~~~~~~~~CP~C~~g 30 (35)
T PF14369_consen 5 CHQCNRFVRIAPSPDSDVACPRCHGG 30 (35)
T ss_pred CccCCCEeEeCcCCCCCcCCcCCCCc
Confidence 66677777764 34444 9999976
No 14
>smart00659 RPOLCX RNA polymerase subunit CX. present in RNA polymerase I, II and III
Probab=52.81 E-value=11 Score=24.82 Aligned_cols=28 Identities=21% Similarity=0.432 Sum_probs=21.5
Q ss_pred eeCccceEEEEeeC-CCCCCCCCCCccee
Q 045532 126 VGCPRCLMYVMLSE-DDPKCPKCKSTVLL 153 (173)
Q Consensus 126 ~gC~~ClmYVMl~k-~~P~CP~Cks~vll 153 (173)
--|..|..-|-+.. ..-+||.|...++.
T Consensus 3 Y~C~~Cg~~~~~~~~~~irC~~CG~rIly 31 (44)
T smart00659 3 YICGECGRENEIKSKDVVRCRECGYRILY 31 (44)
T ss_pred EECCCCCCEeecCCCCceECCCCCceEEE
Confidence 45889998777664 44799999998864
No 15
>PF11023 DUF2614: Protein of unknown function (DUF2614); InterPro: IPR020912 This entry describes proteins of unknown function, which are thought to be membrane proteins.; GO: 0005887 integral to plasma membrane
Probab=51.70 E-value=6.7 Score=31.09 Aligned_cols=32 Identities=41% Similarity=0.671 Sum_probs=26.3
Q ss_pred EEeeCccceE-EEEeeCCCCCCCCCCCcceeccc
Q 045532 124 VLVGCPRCLM-YVMLSEDDPKCPKCKSTVLLDFL 156 (173)
Q Consensus 124 V~~gC~~Clm-YVMl~k~~P~CP~Cks~vll~f~ 156 (173)
|.+-||.|.= .=|+-+.| .|+.|+.++.||=.
T Consensus 68 v~V~CP~C~K~TKmLGr~D-~CM~C~~pLTLd~~ 100 (114)
T PF11023_consen 68 VQVECPNCGKQTKMLGRVD-ACMHCKEPLTLDPS 100 (114)
T ss_pred eeeECCCCCChHhhhchhh-ccCcCCCcCccCch
Confidence 6777999998 55888887 99999999877733
No 16
>PF07295 DUF1451: Protein of unknown function (DUF1451); InterPro: IPR009912 This family consists of several hypothetical bacterial proteins of around 160 residues in length. Members of this family contain four highly conserved cysteine resides toward the C-terminal region of the protein. The function of this family is unknown.
Probab=51.68 E-value=17 Score=29.41 Aligned_cols=33 Identities=33% Similarity=0.600 Sum_probs=22.9
Q ss_pred CCcceEEeeCccceEEEEeeCCC--CCCCCCCCcc
Q 045532 119 EATSMVLVGCPRCLMYVMLSEDD--PKCPKCKSTV 151 (173)
Q Consensus 119 ~~~~mV~~gC~~ClmYVMl~k~~--P~CP~Cks~v 151 (173)
+...+=.-.|..|---+-+...+ |.||+|....
T Consensus 106 E~~g~G~l~C~~Cg~~~~~~~~~~l~~Cp~C~~~~ 140 (146)
T PF07295_consen 106 EVVGPGTLVCENCGHEVELTHPERLPPCPKCGHTE 140 (146)
T ss_pred cEecCceEecccCCCEEEecCCCcCCCCCCCCCCe
Confidence 43444455699998766555444 9999999776
No 17
>cd00122 MBD MeCP2, MBD1, MBD2, MBD3, MBD4, CLLD8-like, and BAZ2A-like proteins constitute a family of proteins that share the methyl-CpG-binding domain (MBD). The MBD consists of about 70 residues and is defined as the minimal region required for binding to methylated DNA by a methyl-CpG-binding protein which binds specifically to methylated DNA. The MBD can recognize a single symmetrically methylated CpG either as naked DNA or within chromatin. MeCP2, MBD1 and MBD2 (and likely MBD3) form complexes with histone deacetylase and are involved in histone deacetylase-dependent repression of transcription. MBD4 is an endonuclease that forms a complex with the DNA mismatch-repair protein MLH1. The MBDs present in putative chromatin remodelling subunit, BAZ2A, and putative histone methyltransferase, CLLD8, represent two phylogenetically distinct groups within the MBD protein family.
Probab=49.88 E-value=15 Score=24.98 Aligned_cols=17 Identities=24% Similarity=0.004 Sum_probs=12.4
Q ss_pred CCCCCCcchhccceeeeecc
Q 045532 28 LPFPHPRLAKALFSFYLKAG 47 (173)
Q Consensus 28 l~~plP~~WE~~~q~LDlqS 47 (173)
+++|+|.||+ +.+.+..
T Consensus 2 l~~P~p~GW~---R~~~~r~ 18 (62)
T cd00122 2 LRDPLPPGWK---RELVIRK 18 (62)
T ss_pred CCCCCCCCeE---EEEEEcC
Confidence 5678999995 6666543
No 18
>TIGR00155 pqiA_fam integral membrane protein, PqiA family. This family consists of uncharacterized predicted integral membrane proteins found, so far, only in the Proteobacteria. Of two members in E. coli, one is induced by paraquat and is designated PqiA, paraquat-inducible protein A.
Probab=49.72 E-value=8.4 Score=35.47 Aligned_cols=26 Identities=31% Similarity=0.956 Sum_probs=19.4
Q ss_pred EeeCccceEEEEeeCCCCCCCCCCCcc
Q 045532 125 LVGCPRCLMYVMLSEDDPKCPKCKSTV 151 (173)
Q Consensus 125 ~~gC~~ClmYVMl~k~~P~CP~Cks~v 151 (173)
..+|+.|...+ -......||||+.+.
T Consensus 215 ~~~C~~Cd~~~-~~~~~a~CpRC~~~L 240 (403)
T TIGR00155 215 LRSCSACHTTI-LPAQEPVCPRCSTPL 240 (403)
T ss_pred CCcCCCCCCcc-CCCCCcCCcCCCCcc
Confidence 45799999844 334557899999875
No 19
>PF10164 DUF2367: Uncharacterized conserved protein (DUF2367); InterPro: IPR019317 This is a highly conserved set of proteins which contains three pairs of cysteine residues within a length of 42 amino acids and is rich in proline residues towards the N terminus. It includes a membrane protein that has been found to be highly expressed in the mouse brain and consequently, several members have been assigned as brain protein i3 (Bri3). Their function is unknown.
Probab=49.45 E-value=19 Score=27.96 Aligned_cols=18 Identities=33% Similarity=0.724 Sum_probs=14.0
Q ss_pred CCcceEEeeCccceEEEE
Q 045532 119 EATSMVLVGCPRCLMYVM 136 (173)
Q Consensus 119 ~~~~mV~~gC~~ClmYVM 136 (173)
.....|+.||++|+.-++
T Consensus 43 ~~~vvvvggCp~CrvG~l 60 (98)
T PF10164_consen 43 VPQVVVVGGCPACRVGVL 60 (98)
T ss_pred CCceEEecCCCCCceeee
Confidence 345788999999987555
No 20
>TIGR00100 hypA hydrogenase nickel insertion protein HypA. In Hpylori, hypA mutant abolished hydrogenase activity and decrease in urease activity. Nickel supplementation in media restored urease activity and partial hydrogenase activity. HypA probably involved in inserting Ni in enzymes.
Probab=49.14 E-value=15 Score=28.16 Aligned_cols=28 Identities=32% Similarity=0.578 Sum_probs=22.2
Q ss_pred EEeeCccceEEEEeeCCCCCCCCCCCcc
Q 045532 124 VLVGCPRCLMYVMLSEDDPKCPKCKSTV 151 (173)
Q Consensus 124 V~~gC~~ClmYVMl~k~~P~CP~Cks~v 151 (173)
+.+-|..|--++=+....-.||+|++.-
T Consensus 69 ~~~~C~~Cg~~~~~~~~~~~CP~Cgs~~ 96 (115)
T TIGR00100 69 VECECEDCSEEVSPEIDLYRCPKCHGIM 96 (115)
T ss_pred cEEEcccCCCEEecCCcCccCcCCcCCC
Confidence 5688999997776666677799999863
No 21
>COG1096 Predicted RNA-binding protein (consists of S1 domain and a Zn-ribbon domain) [Translation, ribosomal structure and biogenesis]
Probab=47.50 E-value=12 Score=31.96 Aligned_cols=32 Identities=25% Similarity=0.625 Sum_probs=24.8
Q ss_pred CCcceEEeeCccceEEEEeeCCCCCCCCCCCc
Q 045532 119 EATSMVLVGCPRCLMYVMLSEDDPKCPKCKST 150 (173)
Q Consensus 119 ~~~~mV~~gC~~ClmYVMl~k~~P~CP~Cks~ 150 (173)
..-..|.|-|.+|.--.+.....-+||+|..+
T Consensus 143 ~dlGVI~A~CsrC~~~L~~~~~~l~Cp~Cg~t 174 (188)
T COG1096 143 NDLGVIYARCSRCRAPLVKKGNMLKCPNCGNT 174 (188)
T ss_pred CcceEEEEEccCCCcceEEcCcEEECCCCCCE
Confidence 34567899999999755555566899999965
No 22
>PRK12380 hydrogenase nickel incorporation protein HybF; Provisional
Probab=47.42 E-value=16 Score=27.91 Aligned_cols=27 Identities=26% Similarity=0.652 Sum_probs=21.2
Q ss_pred EEeeCccceEEEEeeCCCCCCCCCCCc
Q 045532 124 VLVGCPRCLMYVMLSEDDPKCPKCKST 150 (173)
Q Consensus 124 V~~gC~~ClmYVMl~k~~P~CP~Cks~ 150 (173)
+.+-|..|--++=+....-.||+|++.
T Consensus 69 ~~~~C~~Cg~~~~~~~~~~~CP~Cgs~ 95 (113)
T PRK12380 69 AQAWCWDCSQVVEIHQHDAQCPHCHGE 95 (113)
T ss_pred cEEEcccCCCEEecCCcCccCcCCCCC
Confidence 567899999766665666679999976
No 23
>PRK03681 hypA hydrogenase nickel incorporation protein; Validated
Probab=45.90 E-value=17 Score=27.90 Aligned_cols=28 Identities=29% Similarity=0.744 Sum_probs=21.4
Q ss_pred EEeeCccceEEEEeeCCC-CCCCCCCCcc
Q 045532 124 VLVGCPRCLMYVMLSEDD-PKCPKCKSTV 151 (173)
Q Consensus 124 V~~gC~~ClmYVMl~k~~-P~CP~Cks~v 151 (173)
+.+-|..|--++=+.... -.||+|++.-
T Consensus 69 ~~~~C~~Cg~~~~~~~~~~~~CP~Cgs~~ 97 (114)
T PRK03681 69 AECWCETCQQYVTLLTQRVRRCPQCHGDM 97 (114)
T ss_pred cEEEcccCCCeeecCCccCCcCcCcCCCC
Confidence 578899999777665554 6699999763
No 24
>PF13248 zf-ribbon_3: zinc-ribbon domain
Probab=43.06 E-value=11 Score=21.83 Aligned_cols=22 Identities=32% Similarity=0.809 Sum_probs=14.4
Q ss_pred eCccceEEEEeeCCCCCCCCCCCc
Q 045532 127 GCPRCLMYVMLSEDDPKCPKCKST 150 (173)
Q Consensus 127 gC~~ClmYVMl~k~~P~CP~Cks~ 150 (173)
-|+.|-- .+....--||+|...
T Consensus 4 ~Cp~Cg~--~~~~~~~fC~~CG~~ 25 (26)
T PF13248_consen 4 FCPNCGA--EIDPDAKFCPNCGAK 25 (26)
T ss_pred CCcccCC--cCCcccccChhhCCC
Confidence 4677766 356666777777654
No 25
>PF13719 zinc_ribbon_5: zinc-ribbon domain
Probab=43.01 E-value=11 Score=23.50 Aligned_cols=26 Identities=31% Similarity=0.943 Sum_probs=18.2
Q ss_pred EeeCccceEEEEeeCC-------CCCCCCCCCc
Q 045532 125 LVGCPRCLMYVMLSED-------DPKCPKCKST 150 (173)
Q Consensus 125 ~~gC~~ClmYVMl~k~-------~P~CP~Cks~ 150 (173)
.+-||.|...+-|... .-+||+|+..
T Consensus 2 ~i~CP~C~~~f~v~~~~l~~~~~~vrC~~C~~~ 34 (37)
T PF13719_consen 2 IITCPNCQTRFRVPDDKLPAGGRKVRCPKCGHV 34 (37)
T ss_pred EEECCCCCceEEcCHHHcccCCcEEECCCCCcE
Confidence 3568999886666643 3579999854
No 26
>COG5104 PRP40 Splicing factor [RNA processing and modification]
Probab=42.95 E-value=6.4 Score=38.05 Aligned_cols=28 Identities=21% Similarity=0.087 Sum_probs=22.2
Q ss_pred cchhccceeeeeccccE-EEeeccCcccCCCCC
Q 045532 34 RLAKALFSFYLKAGGGI-YRCVHTAKMSRRNGN 65 (173)
Q Consensus 34 ~~WE~~~q~LDlqSGki-yln~rt~kmS~~~~~ 65 (173)
++|| -+--.+|+| |||++|.|.+|..|+
T Consensus 15 s~w~----e~k~~dgRiYYYN~~T~kS~weKPk 43 (590)
T COG5104 15 SEWE----ELKAPDGRIYYYNKRTGKSSWEKPK 43 (590)
T ss_pred HHHH----HhhCCCCceEEEecccccccccChH
Confidence 4785 456678999 889999998887764
No 27
>COG1867 TRM1 N2,N2-dimethylguanosine tRNA methyltransferase [Translation, ribosomal structure and biogenesis]
Probab=42.86 E-value=14 Score=34.50 Aligned_cols=31 Identities=32% Similarity=0.628 Sum_probs=25.5
Q ss_pred cceEEeeCccce-EEEEeeCCCCCCCCCCCcc
Q 045532 121 TSMVLVGCPRCL-MYVMLSEDDPKCPKCKSTV 151 (173)
Q Consensus 121 ~~mV~~gC~~Cl-mYVMl~k~~P~CP~Cks~v 151 (173)
....+.-|.+|. .|-+....+.+||.|...+
T Consensus 236 ~~g~~~~c~~cg~~~~~~~~~~~~c~~Cg~~~ 267 (380)
T COG1867 236 NLGYIYHCSRCGEIVGSFREVDEKCPHCGGKV 267 (380)
T ss_pred hcCcEEEcccccceecccccccccCCcccccc
Confidence 445568899995 6888999999999999754
No 28
>cd01397 HAT_MBD Methyl-CpG binding domains (MBD) present in putative chromatin remodelling factor such as BAZ2A; BAZ2A contains a MBD, DDT, PHD-type zinc finger and Bromo domain suggesting that BAZ2A might be associated with histone acetyltransferase (HAT) activity. The Drosophila melanogaster toutatis protein, a putative subunit of the chromatin-remodeling complex, and other such proteins in this group share a similar domain architecture with BAZ2A, as does the Caenorhabditis elegans flectin homolog.
Probab=42.37 E-value=23 Score=25.80 Aligned_cols=28 Identities=18% Similarity=0.038 Sum_probs=17.3
Q ss_pred CCCCCCcchhccceeeeec------cccE-EEeeccCc
Q 045532 28 LPFPHPRLAKALFSFYLKA------GGGI-YRCVHTAK 58 (173)
Q Consensus 28 l~~plP~~WE~~~q~LDlq------SGki-yln~rt~k 58 (173)
+-+|||.||+ |-+-+. .|.| |+..+=.|
T Consensus 2 ~r~Pl~~GW~---Re~vir~~~~~~~~dV~Y~aPcGKk 36 (73)
T cd01397 2 LRVPLELGWR---RETRIRGLGGRIQGEVAYYAPCGKK 36 (73)
T ss_pred ccCCCCCCce---eEEEeccCCCCccceEEEECCCCcc
Confidence 3468999996 666663 3457 55554433
No 29
>cd04482 RPA2_OBF_like RPA2_OBF_like: A subgroup of uncharacterized archaeal OB folds with similarity to the OB fold of the central ssDNA-binding domain (DBD)-D of human RPA2 (also called RPA32). RPA2 is a subunit of Replication protein A (RPA). RPA is a nuclear ssDNA-binding protein (SSB) which appears to be involved in all aspects of DNA metabolism including replication, recombination, and repair. RPA also mediates specific interactions of various nuclear proteins. In animals, plants, and fungi, RPA is a heterotrimer with subunits of 70KDa (RPA1), 32kDa (RPA2), and 14 KDa (RPA3). The major DNA binding activity of RPA is associated with RPA1 DBD-A and DBD-B; RPA2 DBD-D is a weak ssDNA-binding domain. RPA2 DBD-D is also involved in trimerization. The ssDNA binding mechanism is believed to be multistep and to involve conformational change. N-terminal to human RPA2 DBD-D is a domain containing all the known phosphorylation sites of RPA. Human RPA2 is phosphorylated in a cell cycle depende
Probab=42.13 E-value=13 Score=27.16 Aligned_cols=10 Identities=50% Similarity=1.461 Sum_probs=8.3
Q ss_pred CCCCCCCCCC
Q 045532 139 EDDPKCPKCK 148 (173)
Q Consensus 139 k~~P~CP~Ck 148 (173)
..+|+||+|+
T Consensus 82 ~~np~C~~C~ 91 (91)
T cd04482 82 RENPVCPKCG 91 (91)
T ss_pred EcCCcCCCCC
Confidence 3689999995
No 30
>PRK00420 hypothetical protein; Validated
Probab=42.10 E-value=14 Score=28.98 Aligned_cols=34 Identities=21% Similarity=0.531 Sum_probs=26.3
Q ss_pred CcceEEeeCccceEEEE-eeCCCCCCCCCCCccee
Q 045532 120 ATSMVLVGCPRCLMYVM-LSEDDPKCPKCKSTVLL 153 (173)
Q Consensus 120 ~~~mV~~gC~~ClmYVM-l~k~~P~CP~Cks~vll 153 (173)
+.-|....||.|-+-.| +....-.||.|+..+.+
T Consensus 18 Ga~ml~~~CP~Cg~pLf~lk~g~~~Cp~Cg~~~~v 52 (112)
T PRK00420 18 GAKMLSKHCPVCGLPLFELKDGEVVCPVHGKVYIV 52 (112)
T ss_pred HHHHccCCCCCCCCcceecCCCceECCCCCCeeee
Confidence 45678899999997444 46778999999986643
No 31
>PF08274 PhnA_Zn_Ribbon: PhnA Zinc-Ribbon ; InterPro: IPR013987 The PhnA protein family includes the uncharacterised Escherichia coli protein PhnA and its homologues. The E. coli phnA gene is part of a large operon associated with alkylphosphonate uptake and carbon-phosphorus bond cleavage []. The protein is not related to the characterised phosphonoacetate hydrolase designated PhnA []. This entry represents the N-terminal domain of PhnA, which is predicted to form a zinc-ribbon.; PDB: 2AKL_A.
Probab=41.21 E-value=11 Score=23.24 Aligned_cols=12 Identities=50% Similarity=0.941 Sum_probs=3.4
Q ss_pred CCCCCCCCCcce
Q 045532 141 DPKCPKCKSTVL 152 (173)
Q Consensus 141 ~P~CP~Cks~vl 152 (173)
-|+||+|.+..-
T Consensus 2 ~p~Cp~C~se~~ 13 (30)
T PF08274_consen 2 LPKCPLCGSEYT 13 (30)
T ss_dssp S---TTT-----
T ss_pred CCCCCCCCCcce
Confidence 489999998753
No 32
>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=40.86 E-value=21 Score=21.65 Aligned_cols=23 Identities=30% Similarity=0.579 Sum_probs=15.8
Q ss_pred CccceEEEEeeCCCCCCCCCCCc
Q 045532 128 CPRCLMYVMLSEDDPKCPKCKST 150 (173)
Q Consensus 128 C~~ClmYVMl~k~~P~CP~Cks~ 150 (173)
|.-|-...-..+.+.+||.|+..
T Consensus 4 C~~CGy~y~~~~~~~~CP~Cg~~ 26 (33)
T cd00350 4 CPVCGYIYDGEEAPWVCPVCGAP 26 (33)
T ss_pred CCCCCCEECCCcCCCcCcCCCCc
Confidence 66676544444567799999864
No 33
>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=39.87 E-value=13 Score=21.96 Aligned_cols=20 Identities=40% Similarity=0.918 Sum_probs=13.4
Q ss_pred CccceEEEEeeCCCCCCCCCCC
Q 045532 128 CPRCLMYVMLSEDDPKCPKCKS 149 (173)
Q Consensus 128 C~~ClmYVMl~k~~P~CP~Cks 149 (173)
||.|..-| +...-.||.|..
T Consensus 3 CP~C~~~V--~~~~~~Cp~CG~ 22 (26)
T PF10571_consen 3 CPECGAEV--PESAKFCPHCGY 22 (26)
T ss_pred CCCCcCCc--hhhcCcCCCCCC
Confidence 67776654 556677888873
No 34
>PF01155 HypA: Hydrogenase expression/synthesis hypA family; InterPro: IPR000688 Bacterial membrane-bound nickel-dependent hydrogenases requires a number of accessory proteins which are involved in their maturation. The exact role of these proteins is not yet clear, but some seem to be required for the incorporation of the nickel ions []. One of these proteins is generally known as hypA. It is a protein of about 12 to 14 kDa that contains, in its C-terminal region, four conserved cysteines that form a zinc-finger like motif. Escherichia coli has two proteins that belong to this family, hypA and hybF. A homologue, MJ0214, has also been found in a number of archaeal species, including the genome of Methanocaldococcus jannaschii (Methanococcus jannaschii).; GO: 0016151 nickel ion binding, 0006464 protein modification process; PDB: 2KDX_A 3A44_D 3A43_B.
Probab=39.50 E-value=12 Score=28.54 Aligned_cols=29 Identities=28% Similarity=0.415 Sum_probs=21.4
Q ss_pred eEEeeCccceEEEEeeCCCCCCCCCCCcc
Q 045532 123 MVLVGCPRCLMYVMLSEDDPKCPKCKSTV 151 (173)
Q Consensus 123 mV~~gC~~ClmYVMl~k~~P~CP~Cks~v 151 (173)
-+.+-|..|-..+-+....-.||+|++..
T Consensus 68 p~~~~C~~Cg~~~~~~~~~~~CP~Cgs~~ 96 (113)
T PF01155_consen 68 PARARCRDCGHEFEPDEFDFSCPRCGSPD 96 (113)
T ss_dssp --EEEETTTS-EEECHHCCHH-SSSSSS-
T ss_pred CCcEECCCCCCEEecCCCCCCCcCCcCCC
Confidence 35788999999888888888899999874
No 35
>PF14205 Cys_rich_KTR: Cysteine-rich KTR
Probab=37.20 E-value=18 Score=25.45 Aligned_cols=16 Identities=44% Similarity=0.904 Sum_probs=13.4
Q ss_pred CCCCCCCCcceecccc
Q 045532 142 PKCPKCKSTVLLDFLH 157 (173)
Q Consensus 142 P~CP~Cks~vll~f~~ 157 (173)
--||+|+...+|+.-+
T Consensus 29 lyCpKCK~EtlI~v~~ 44 (55)
T PF14205_consen 29 LYCPKCKQETLIDVKQ 44 (55)
T ss_pred ccCCCCCceEEEEeec
Confidence 4799999999988654
No 36
>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=36.92 E-value=14 Score=29.75 Aligned_cols=28 Identities=21% Similarity=0.607 Sum_probs=19.9
Q ss_pred EEeeCccceEEEEee---CCCCCCCCCCCcc
Q 045532 124 VLVGCPRCLMYVMLS---EDDPKCPKCKSTV 151 (173)
Q Consensus 124 V~~gC~~ClmYVMl~---k~~P~CP~Cks~v 151 (173)
..-.||+|..-+-.- ..+-.||+|+.+.
T Consensus 108 ~~Y~Cp~c~~r~tf~eA~~~~F~Cp~Cg~~L 138 (158)
T TIGR00373 108 MFFICPNMCVRFTFNEAMELNFTCPRCGAML 138 (158)
T ss_pred CeEECCCCCcEeeHHHHHHcCCcCCCCCCEe
Confidence 356799999733221 4579999999773
No 37
>PRK15103 paraquat-inducible membrane protein A; Provisional
Probab=36.57 E-value=17 Score=33.71 Aligned_cols=25 Identities=32% Similarity=0.890 Sum_probs=18.9
Q ss_pred EeeCccceEEEEeeCCCCCCCCCCCcc
Q 045532 125 LVGCPRCLMYVMLSEDDPKCPKCKSTV 151 (173)
Q Consensus 125 ~~gC~~ClmYVMl~k~~P~CP~Cks~v 151 (173)
..+|+.|...+ ....-.||||+...
T Consensus 221 l~~C~~Cd~l~--~~~~a~CpRC~~~L 245 (419)
T PRK15103 221 LRSCSCCTAIL--PADQPVCPRCHTKG 245 (419)
T ss_pred CCcCCCCCCCC--CCCCCCCCCCCCcC
Confidence 55799999853 44556899999875
No 38
>cd07973 Spt4 Transcription elongation factor Spt4. Spt4 is a transcription elongation factor. Three transcription-elongation factors Spt4, Spt5, and Spt6, are conserved among eukaryotes and are essential for transcription via the modulation of chromatin structure. It is known that Spt4, Spt5, and Spt6 are general transcription-elongation factors, controlling transcription both positively and negatively in important regulatory and developmental roles. Spt4 functions entirely in the context of the Spt4-Spt5 heterodimer and it has been found only as a complex to Spt5 in Yeast and Human. Spt4 is a small protein that has zinc finger at the N-terminus. Spt5 is a large protein that has several interesting structural features of an acidic N-terminus, a single NGN domain, five or six KOW domains, and a set of simple C-termianl repeats. Spt4 binds to Spt5 NGN domain. Unlike Spt5, Spt4 is not essential for viability in yeast, however Spt4 is critical for normal function of the Spt4-Spt5 compl
Probab=36.25 E-value=18 Score=27.61 Aligned_cols=23 Identities=22% Similarity=0.605 Sum_probs=16.0
Q ss_pred eeCccceEEEEee-CCCCCCCCCC
Q 045532 126 VGCPRCLMYVMLS-EDDPKCPKCK 148 (173)
Q Consensus 126 ~gC~~ClmYVMl~-k~~P~CP~Ck 148 (173)
-+|..|.+-+=.. .....||+|.
T Consensus 4 rAC~~C~~I~~~~qf~~~gCpnC~ 27 (98)
T cd07973 4 RACLLCSLIKTEDQFERDGCPNCE 27 (98)
T ss_pred chhccCCcccccccccCCCCCCCc
Confidence 3799999755222 2347999996
No 39
>PRK03824 hypA hydrogenase nickel incorporation protein; Provisional
Probab=34.72 E-value=38 Score=26.62 Aligned_cols=27 Identities=33% Similarity=0.581 Sum_probs=19.9
Q ss_pred EEeeCccceEEEEee---------------------CCCCCCCCCCCc
Q 045532 124 VLVGCPRCLMYVMLS---------------------EDDPKCPKCKST 150 (173)
Q Consensus 124 V~~gC~~ClmYVMl~---------------------k~~P~CP~Cks~ 150 (173)
+..-|+.|--.+=+. ...-.||+|++.
T Consensus 69 ~~~~C~~CG~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~CP~Cgs~ 116 (135)
T PRK03824 69 AVLKCRNCGNEWSLKEVKESLDEEIREAIHFIPEVVHAFLKCPKCGSR 116 (135)
T ss_pred eEEECCCCCCEEecccccccccccccccccccccccccCcCCcCCCCC
Confidence 678899998655444 345679999976
No 40
>PRK06266 transcription initiation factor E subunit alpha; Validated
Probab=33.58 E-value=19 Score=29.62 Aligned_cols=28 Identities=25% Similarity=0.756 Sum_probs=20.1
Q ss_pred EEeeCccceE-EEEe--eCCCCCCCCCCCcc
Q 045532 124 VLVGCPRCLM-YVML--SEDDPKCPKCKSTV 151 (173)
Q Consensus 124 V~~gC~~Clm-YVMl--~k~~P~CP~Cks~v 151 (173)
..-.|++|.. |-+. ...+-.||.|+..+
T Consensus 116 ~~Y~Cp~C~~rytf~eA~~~~F~Cp~Cg~~L 146 (178)
T PRK06266 116 MFFFCPNCHIRFTFDEAMEYGFRCPQCGEML 146 (178)
T ss_pred CEEECCCCCcEEeHHHHhhcCCcCCCCCCCC
Confidence 4667999987 4332 14579999999774
No 41
>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=33.33 E-value=26 Score=28.35 Aligned_cols=30 Identities=13% Similarity=0.111 Sum_probs=23.0
Q ss_pred eCccceE-EEEeeCCCCCCCCCCCcceeccc
Q 045532 127 GCPRCLM-YVMLSEDDPKCPKCKSTVLLDFL 156 (173)
Q Consensus 127 gC~~Clm-YVMl~k~~P~CP~Cks~vll~f~ 156 (173)
.|+.|-- ++=|.|.-..||+|+..+.+.++
T Consensus 11 ~Cp~cg~kFYDLnk~p~vcP~cg~~~~~~~~ 41 (129)
T TIGR02300 11 ICPNTGSKFYDLNRRPAVSPYTGEQFPPEEA 41 (129)
T ss_pred cCCCcCccccccCCCCccCCCcCCccCcchh
Confidence 5999977 33467777899999998877744
No 42
>PRK11032 hypothetical protein; Provisional
Probab=33.12 E-value=54 Score=27.08 Aligned_cols=37 Identities=27% Similarity=0.532 Sum_probs=23.7
Q ss_pred CCcceEEeeCccceEEEEee--CCCCCCCCCCCcceeccccC
Q 045532 119 EATSMVLVGCPRCLMYVMLS--EDDPKCPKCKSTVLLDFLHD 158 (173)
Q Consensus 119 ~~~~mV~~gC~~ClmYVMl~--k~~P~CP~Cks~vll~f~~~ 158 (173)
+...+=...|..|.--.-+- ..-|.||+|+..- |.+.
T Consensus 118 Evvg~G~LvC~~Cg~~~~~~~p~~i~pCp~C~~~~---F~R~ 156 (160)
T PRK11032 118 EVVGLGNLVCEKCHHHLAFYTPEVLPLCPKCGHDQ---FQRR 156 (160)
T ss_pred eeeecceEEecCCCCEEEecCCCcCCCCCCCCCCe---eeeC
Confidence 33334445699997644333 4559999999876 5544
No 43
>COG1675 TFA1 Transcription initiation factor IIE, alpha subunit [Transcription]
Probab=32.57 E-value=12 Score=31.43 Aligned_cols=27 Identities=30% Similarity=0.677 Sum_probs=20.9
Q ss_pred EeeCccceEEEEeeC---CCCCCCCCCCcc
Q 045532 125 LVGCPRCLMYVMLSE---DDPKCPKCKSTV 151 (173)
Q Consensus 125 ~~gC~~ClmYVMl~k---~~P~CP~Cks~v 151 (173)
.-.|+.|++++=+-+ ..-.||+|++.+
T Consensus 113 ~y~C~~~~~r~sfdeA~~~~F~Cp~Cg~~L 142 (176)
T COG1675 113 YYVCPNCHVKYSFDEAMELGFTCPKCGEDL 142 (176)
T ss_pred ceeCCCCCCcccHHHHHHhCCCCCCCCchh
Confidence 445799999876653 458999999875
No 44
>PF04074 DUF386: Domain of unknown function (DUF386); InterPro: IPR004375 This family consists of conserved hypothetical proteins, about 150 amino acids in length, with no known function. The family is restricted to the bacteria. It includes three members in Escherichia coli (strain K12) and three in Streptococcus pneumoniae.; PDB: 1S4C_B 1JOP_B.
Probab=32.55 E-value=18 Score=28.34 Aligned_cols=16 Identities=6% Similarity=-0.139 Sum_probs=11.4
Q ss_pred chhccceeeeec---cccE
Q 045532 35 LAKALFSFYLKA---GGGI 50 (173)
Q Consensus 35 ~WE~~~q~LDlq---SGki 50 (173)
.||.|++++||| +|+-
T Consensus 62 ~~E~HrkyiDiq~~l~G~E 80 (153)
T PF04074_consen 62 RFESHRKYIDIQYVLEGEE 80 (153)
T ss_dssp -EEE-SSEEEEEEEEES-E
T ss_pred ceeeeccEEEEEeeccccE
Confidence 699999999998 4655
No 45
>PRK00564 hypA hydrogenase nickel incorporation protein; Provisional
Probab=31.16 E-value=27 Score=26.83 Aligned_cols=28 Identities=29% Similarity=0.495 Sum_probs=20.6
Q ss_pred EEeeCccceEEEEeeC-CCCCCCCCCCcc
Q 045532 124 VLVGCPRCLMYVMLSE-DDPKCPKCKSTV 151 (173)
Q Consensus 124 V~~gC~~ClmYVMl~k-~~P~CP~Cks~v 151 (173)
+.+-|..|--++=+.. ...+||+|++.-
T Consensus 70 ~~~~C~~Cg~~~~~~~~~~~~CP~Cgs~~ 98 (117)
T PRK00564 70 VELECKDCSHVFKPNALDYGVCEKCHSKN 98 (117)
T ss_pred CEEEhhhCCCccccCCccCCcCcCCCCCc
Confidence 5778999996655544 345799999863
No 46
>PF14169 YdjO: Cold-inducible protein YdjO
Probab=30.15 E-value=29 Score=24.53 Aligned_cols=15 Identities=47% Similarity=1.012 Sum_probs=11.8
Q ss_pred eeCCCCCCCCCCCcc
Q 045532 137 LSEDDPKCPKCKSTV 151 (173)
Q Consensus 137 l~k~~P~CP~Cks~v 151 (173)
-....|.||.|++..
T Consensus 35 s~~~~p~CPlC~s~M 49 (59)
T PF14169_consen 35 SFEEEPVCPLCKSPM 49 (59)
T ss_pred ccCCCccCCCcCCcc
Confidence 346679999999874
No 47
>PF06582 DUF1136: Repeat of unknown function (DUF1136); InterPro: IPR010939 This family consists of several eukaryote specific repeats of unknown function. This repeat seems to always be found with IPR007110 from INTERPRO.
Probab=30.02 E-value=15 Score=22.29 Aligned_cols=15 Identities=20% Similarity=0.308 Sum_probs=11.7
Q ss_pred CCCCCCCcchhccce
Q 045532 27 FLPFPHPRLAKALFS 41 (173)
Q Consensus 27 ~l~~plP~~WE~~~q 41 (173)
.+|.+.|.+||++|+
T Consensus 2 ~~dTQhp~~lekIq~ 16 (28)
T PF06582_consen 2 ILDTQHPESLEKIQE 16 (28)
T ss_pred cccccCHHHHHHHHH
Confidence 468889999986654
No 48
>PF03811 Zn_Tnp_IS1: InsA N-terminal domain; InterPro: IPR003220 Insertion elements are mobile elements in DNA, usually encoding proteins required for transposition, for example transposases. Protein InsA is absolutely required for transposition of insertion element 1. This entry represents a short zinc binding domain found in IS1 InsA family protein. It is found at the N terminus of the protein and may be a DNA-binding domain.; GO: 0006313 transposition, DNA-mediated
Probab=29.78 E-value=35 Score=21.63 Aligned_cols=14 Identities=43% Similarity=0.942 Sum_probs=11.3
Q ss_pred eCCCCCCCCCCCcc
Q 045532 138 SEDDPKCPKCKSTV 151 (173)
Q Consensus 138 ~k~~P~CP~Cks~v 151 (173)
.+++-.||+|.++-
T Consensus 2 a~i~v~CP~C~s~~ 15 (36)
T PF03811_consen 2 AKIDVHCPRCQSTE 15 (36)
T ss_pred CcEeeeCCCCCCCC
Confidence 46778999999775
No 49
>PF01429 MBD: Methyl-CpG binding domain; InterPro: IPR001739 Methylation at CpG dinucleotide, the most common DNA modification in eukaryotes, has been correlated with gene silencing associated with various phenomena such as genomic imprinting, transposon and chromosome X inactivation, differentiation, and cancer. Effects of DNA methylation are mediated through proteins which bind to symmetrically methylated CpGs. Such proteins contain a specific domain of ~70 residues, the methyl-CpG-binding domain (MBD), which is linked to additional domains associated with chromatin, such as the bromodomain, the AT hook motif,the SET domain, or the PHD finger. MBD-containing proteins appear to act as structural proteins, which recruit a variety of histone deacetylase (HDAC) complexes and chromatin remodelling factors, leading to chromatin compaction and, consequently, to transcriptional repression. The MBD of MeCP2, MBD1, MBD2, MBD4 and BAZ2 mediates binding to DNA, in case of MeCP2, MBD1 and MBD2 preferentially to methylated CpG. In case of human MBD3 and SETDB1 the MBD has been shown to mediate protein-protein interactions [, ]. The MBD folds into an alpha/beta sandwich structure comprising a layer of twisted beta sheet, backed by another layer formed by the alpha1 helix and a hairpin loop at the C terminus. These layers are both amphipathic, with the alpha1 helix and the beta sheet lying parallel and the hydrophobic faces tightly packed against each other. The beta sheet is composed of two long inner strands (beta2 and beta3) sandwiched by two shorter outer strands (beta1 and beta4) [].; GO: 0003677 DNA binding, 0005634 nucleus; PDB: 2KY8_A 1UB1_A 1D9N_A 1IG4_A 1QK9_A 3C2I_A.
Probab=28.84 E-value=39 Score=23.97 Aligned_cols=10 Identities=40% Similarity=0.258 Sum_probs=7.5
Q ss_pred CCCCCCcchh
Q 045532 28 LPFPHPRLAK 37 (173)
Q Consensus 28 l~~plP~~WE 37 (173)
++.|||.||.
T Consensus 7 ~~~~Lp~GW~ 16 (77)
T PF01429_consen 7 LDPPLPDGWK 16 (77)
T ss_dssp EBTTSTTT-E
T ss_pred ccCCCCCCCE
Confidence 5779999995
No 50
>PRK12496 hypothetical protein; Provisional
Probab=28.31 E-value=31 Score=28.03 Aligned_cols=26 Identities=27% Similarity=0.372 Sum_probs=18.9
Q ss_pred eeCccceEEEEeeCCCCCCCCCCCcc
Q 045532 126 VGCPRCLMYVMLSEDDPKCPKCKSTV 151 (173)
Q Consensus 126 ~gC~~ClmYVMl~k~~P~CP~Cks~v 151 (173)
--|+.|.=++-.....-.||.|.+++
T Consensus 128 ~~C~gC~~~~~~~~~~~~C~~CG~~~ 153 (164)
T PRK12496 128 KVCKGCKKKYPEDYPDDVCEICGSPV 153 (164)
T ss_pred EECCCCCccccCCCCCCcCCCCCChh
Confidence 45999986554444445799999876
No 51
>PRK10202 ebgC cryptic beta-D-galactosidase subunit beta; Reviewed
Probab=28.30 E-value=26 Score=27.95 Aligned_cols=20 Identities=10% Similarity=-0.017 Sum_probs=15.8
Q ss_pred Ccchhccceeeeec---cccEEE
Q 045532 33 PRLAKALFSFYLKA---GGGIYR 52 (173)
Q Consensus 33 P~~WE~~~q~LDlq---SGkiyl 52 (173)
|..||.|++++||| +|+-++
T Consensus 56 ~~~~E~Hr~YiDIq~~l~G~E~i 78 (149)
T PRK10202 56 DALFTGHRRYFEVHYYLQGQQKI 78 (149)
T ss_pred cccccccccEEEEEEEEeCeEEE
Confidence 35899999999998 576643
No 52
>COG0375 HybF Zn finger protein HypA/HybF (possibly regulating hydrogenase expression) [General function prediction only]
Probab=27.58 E-value=28 Score=27.44 Aligned_cols=28 Identities=39% Similarity=0.562 Sum_probs=22.7
Q ss_pred EEeeCccceEEEEeeCCCCCCCCCCCcc
Q 045532 124 VLVGCPRCLMYVMLSEDDPKCPKCKSTV 151 (173)
Q Consensus 124 V~~gC~~ClmYVMl~k~~P~CP~Cks~v 151 (173)
+..=|..|--++-+-..+-.||+|++..
T Consensus 69 ~~~~C~~C~~~~~~e~~~~~CP~C~s~~ 96 (115)
T COG0375 69 AECWCLDCGQEVELEELDYRCPKCGSIN 96 (115)
T ss_pred cEEEeccCCCeecchhheeECCCCCCCc
Confidence 4567999987887777788899999764
No 53
>TIGR00155 pqiA_fam integral membrane protein, PqiA family. This family consists of uncharacterized predicted integral membrane proteins found, so far, only in the Proteobacteria. Of two members in E. coli, one is induced by paraquat and is designated PqiA, paraquat-inducible protein A.
Probab=27.20 E-value=43 Score=30.92 Aligned_cols=27 Identities=33% Similarity=0.849 Sum_probs=19.7
Q ss_pred EeeCccceEEEEeeC----CCCCCCCCCCcc
Q 045532 125 LVGCPRCLMYVMLSE----DDPKCPKCKSTV 151 (173)
Q Consensus 125 ~~gC~~ClmYVMl~k----~~P~CP~Cks~v 151 (173)
...|+.|-..+=++. ..-.||||+...
T Consensus 13 ~~~C~~Cd~l~~~~~l~~g~~a~CpRCg~~L 43 (403)
T TIGR00155 13 HILCSQCDMLVALPRIESGQKAACPRCGTTL 43 (403)
T ss_pred eeeCCCCCCcccccCCCCCCeeECCCCCCCC
Confidence 457999998665543 335699999875
No 54
>COG2995 PqiA Uncharacterized paraquat-inducible protein A [Function unknown]
Probab=27.18 E-value=27 Score=33.07 Aligned_cols=27 Identities=30% Similarity=0.790 Sum_probs=20.6
Q ss_pred EEeeCccceEEEEeeCCCCCCCCCCCcc
Q 045532 124 VLVGCPRCLMYVMLSEDDPKCPKCKSTV 151 (173)
Q Consensus 124 V~~gC~~ClmYVMl~k~~P~CP~Cks~v 151 (173)
=...|..|+..-.- +..+.||||.+..
T Consensus 219 ~~~~C~~C~~~~~~-~~~~~CpRC~~~L 245 (418)
T COG2995 219 GLRSCLCCHYILPH-DAEPRCPRCGSKL 245 (418)
T ss_pred cceecccccccCCH-hhCCCCCCCCChh
Confidence 35689999875443 3789999999875
No 55
>COG4416 Com Mu-like prophage protein Com [General function prediction only]
Probab=27.15 E-value=26 Score=24.91 Aligned_cols=11 Identities=45% Similarity=1.204 Sum_probs=8.3
Q ss_pred CCCCCCCCCcc
Q 045532 141 DPKCPKCKSTV 151 (173)
Q Consensus 141 ~P~CP~Cks~v 151 (173)
.-+||+||...
T Consensus 24 e~KCPrCK~vN 34 (60)
T COG4416 24 EKKCPRCKEVN 34 (60)
T ss_pred eecCCccceee
Confidence 46999999543
No 56
>COG2093 DNA-directed RNA polymerase, subunit E'' [Transcription]
Probab=26.12 E-value=21 Score=25.75 Aligned_cols=26 Identities=35% Similarity=0.652 Sum_probs=19.1
Q ss_pred eEEeeCccceEEEEeeCCCCCCCCCCCc
Q 045532 123 MVLVGCPRCLMYVMLSEDDPKCPKCKST 150 (173)
Q Consensus 123 mV~~gC~~ClmYVMl~k~~P~CP~Cks~ 150 (173)
|..-+|.+|+-. +....--||.|.++
T Consensus 2 ~~~kAC~~Ck~l--~~~d~e~CP~Cgs~ 27 (64)
T COG2093 2 STEKACKNCKRL--TPEDTEICPVCGST 27 (64)
T ss_pred chhHHHhhcccc--CCCCCccCCCCCCc
Confidence 345689999753 35556679999998
No 57
>TIGR00022 uncharacterized protein, YhcH/YjgK/YiaL family. This family consists of conserved hypothetical proteins, about 150 amino acids in length. Members with limited information include YhcH, a possible sugar isomerase of sialic acid catabolism, and YjgK.
Probab=25.94 E-value=28 Score=27.17 Aligned_cols=20 Identities=15% Similarity=-0.071 Sum_probs=15.6
Q ss_pred chhccceeeeec---cccEEEee
Q 045532 35 LAKALFSFYLKA---GGGIYRCV 54 (173)
Q Consensus 35 ~WE~~~q~LDlq---SGkiyln~ 54 (173)
.||.|++++||| +|+-++..
T Consensus 62 ~~E~Hr~YiDIq~~l~G~E~i~~ 84 (142)
T TIGR00022 62 KAELHHRYLDIQLLLRGEENIEV 84 (142)
T ss_pred chhhhhheEEEEEeecceEEEEE
Confidence 699999999998 57664433
No 58
>PF03682 UPF0158: Uncharacterised protein family (UPF0158); InterPro: IPR005361 This is a small family of hypothetical bacterial proteins of unknown function.
Probab=25.78 E-value=42 Score=27.31 Aligned_cols=13 Identities=15% Similarity=0.135 Sum_probs=11.0
Q ss_pred ceeeeeccccEEE
Q 045532 40 FSFYLKAGGGIYR 52 (173)
Q Consensus 40 ~q~LDlqSGkiyl 52 (173)
+-+||+++|+||+
T Consensus 23 ~~yLD~~TGeI~~ 35 (163)
T PF03682_consen 23 EYYLDLETGEIFY 35 (163)
T ss_pred eEEEECCCCeEEE
Confidence 4899999999953
No 59
>PRK13130 H/ACA RNA-protein complex component Nop10p; Reviewed
Probab=25.59 E-value=49 Score=23.00 Aligned_cols=24 Identities=29% Similarity=0.906 Sum_probs=20.1
Q ss_pred EEeeCccceEEEEeeCCCCCCCCCCCcc
Q 045532 124 VLVGCPRCLMYVMLSEDDPKCPKCKSTV 151 (173)
Q Consensus 124 V~~gC~~ClmYVMl~k~~P~CP~Cks~v 151 (173)
-+--|+.|-.|-+ ...||.|+...
T Consensus 4 ~mr~C~~CgvYTL----k~~CP~CG~~t 27 (56)
T PRK13130 4 KIRKCPKCGVYTL----KEICPVCGGKT 27 (56)
T ss_pred cceECCCCCCEEc----cccCcCCCCCC
Confidence 3567999999998 67899999875
No 60
>COG1998 RPS31 Ribosomal protein S27AE [Translation, ribosomal structure and biogenesis]
Probab=24.59 E-value=42 Score=23.27 Aligned_cols=13 Identities=31% Similarity=0.866 Sum_probs=9.4
Q ss_pred CCCCCCCCCCCcc
Q 045532 139 EDDPKCPKCKSTV 151 (173)
Q Consensus 139 k~~P~CP~Cks~v 151 (173)
+.++.||||...|
T Consensus 17 rk~~~CPrCG~gv 29 (51)
T COG1998 17 RKNRFCPRCGPGV 29 (51)
T ss_pred EccccCCCCCCcc
Confidence 4567888888666
No 61
>PRK15103 paraquat-inducible membrane protein A; Provisional
Probab=24.57 E-value=53 Score=30.51 Aligned_cols=26 Identities=38% Similarity=0.998 Sum_probs=18.9
Q ss_pred eeCccceEEEEeeC----CCCCCCCCCCcc
Q 045532 126 VGCPRCLMYVMLSE----DDPKCPKCKSTV 151 (173)
Q Consensus 126 ~gC~~ClmYVMl~k----~~P~CP~Cks~v 151 (173)
..|+.|-..+=+.. ..-.||||....
T Consensus 11 ~~C~~Cd~l~~~~~l~~g~~a~CpRCg~~L 40 (419)
T PRK15103 11 ILCPQCDMLVALPRLEHGQKAACPRCGTTL 40 (419)
T ss_pred ccCCCCCceeecCCCCCCCeeECCCCCCCC
Confidence 55999998665443 235699999876
No 62
>COG2260 Predicted Zn-ribbon RNA-binding protein [Translation, ribosomal structure and biogenesis]
Probab=24.51 E-value=56 Score=23.27 Aligned_cols=25 Identities=32% Similarity=0.879 Sum_probs=19.9
Q ss_pred EeeCccceEEEEeeCCCCCCCCCCCccee
Q 045532 125 LVGCPRCLMYVMLSEDDPKCPKCKSTVLL 153 (173)
Q Consensus 125 ~~gC~~ClmYVMl~k~~P~CP~Cks~vll 153 (173)
.--|+.|.-|-|= .+||.|...+.+
T Consensus 5 ~rkC~~cg~YTLk----e~Cp~CG~~t~~ 29 (59)
T COG2260 5 IRKCPKCGRYTLK----EKCPVCGGDTKV 29 (59)
T ss_pred hhcCcCCCceeec----ccCCCCCCcccc
Confidence 4569999999874 789999987643
No 63
>PF10122 Mu-like_Com: Mu-like prophage protein Com; InterPro: IPR019294 Members of this entry belong to the Com family of proteins that act as translational regulators of mom [, ].
Probab=24.08 E-value=50 Score=22.86 Aligned_cols=31 Identities=26% Similarity=0.555 Sum_probs=18.2
Q ss_pred eCccceEEEE----eeCCCCCCCCCCCcceecccc
Q 045532 127 GCPRCLMYVM----LSEDDPKCPKCKSTVLLDFLH 157 (173)
Q Consensus 127 gC~~ClmYVM----l~k~~P~CP~Cks~vll~f~~ 157 (173)
-|..|.=..+ +....-|||||+....|.-..
T Consensus 6 RC~~CnklLa~~g~~~~leIKCpRC~tiN~~~a~~ 40 (51)
T PF10122_consen 6 RCGHCNKLLAKAGEVIELEIKCPRCKTINHVRATS 40 (51)
T ss_pred eccchhHHHhhhcCccEEEEECCCCCccceEeccC
Confidence 4666643222 224568999999776555443
No 64
>PF03604 DNA_RNApol_7kD: DNA directed RNA polymerase, 7 kDa subunit; InterPro: IPR006591 DNA-dependent RNA polymerase catalyzes the transcription of DNA into RNA using the four ribonucleoside triphosphates as substrates. Each class of RNA polymerase is assembled from 9 to 15 different polypeptides. Rbp10 (RNA polymerase CX) is a domain found in RNA polymerase subunit 10; present in RNA polymerase I, II and III.; GO: 0003677 DNA binding, 0003899 DNA-directed RNA polymerase activity, 0006351 transcription, DNA-dependent; PDB: 2PMZ_Z 3HKZ_X 2NVX_L 3S1Q_L 2JA6_L 3S17_L 3HOW_L 3HOV_L 3PO2_L 3HOZ_L ....
Probab=23.92 E-value=36 Score=21.07 Aligned_cols=25 Identities=36% Similarity=0.817 Sum_probs=16.6
Q ss_pred CccceEEEEeeCCC-CCCCCCCCcce
Q 045532 128 CPRCLMYVMLSEDD-PKCPKCKSTVL 152 (173)
Q Consensus 128 C~~ClmYVMl~k~~-P~CP~Cks~vl 152 (173)
|..|-..|-+...+ -+||.|...++
T Consensus 3 C~~Cg~~~~~~~~~~irC~~CG~RIl 28 (32)
T PF03604_consen 3 CGECGAEVELKPGDPIRCPECGHRIL 28 (32)
T ss_dssp ESSSSSSE-BSTSSTSSBSSSS-SEE
T ss_pred CCcCCCeeEcCCCCcEECCcCCCeEE
Confidence 66777777666555 48999987764
No 65
>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=23.75 E-value=70 Score=20.49 Aligned_cols=27 Identities=22% Similarity=0.589 Sum_probs=17.2
Q ss_pred EEeeCccceE-EEEeeC----CCCCCCCCCCc
Q 045532 124 VLVGCPRCLM-YVMLSE----DDPKCPKCKST 150 (173)
Q Consensus 124 V~~gC~~Clm-YVMl~k----~~P~CP~Cks~ 150 (173)
..--|..|-- +..+.. ....||.|.+.
T Consensus 4 Yey~C~~Cg~~fe~~~~~~~~~~~~CP~Cg~~ 35 (52)
T TIGR02605 4 YEYRCTACGHRFEVLQKMSDDPLATCPECGGE 35 (52)
T ss_pred EEEEeCCCCCEeEEEEecCCCCCCCCCCCCCC
Confidence 3456888876 444432 23589999984
No 66
>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=23.61 E-value=96 Score=19.65 Aligned_cols=25 Identities=40% Similarity=0.765 Sum_probs=16.1
Q ss_pred EeeCccce--EEEEee--C-CCCCCCCCCC
Q 045532 125 LVGCPRCL--MYVMLS--E-DDPKCPKCKS 149 (173)
Q Consensus 125 ~~gC~~Cl--mYVMl~--k-~~P~CP~Cks 149 (173)
---|..|- +-++.+ + ....||.|++
T Consensus 5 ey~C~~Cg~~fe~~~~~~~~~~~~CP~Cg~ 34 (42)
T PF09723_consen 5 EYRCEECGHEFEVLQSISEDDPVPCPECGS 34 (42)
T ss_pred EEEeCCCCCEEEEEEEcCCCCCCcCCCCCC
Confidence 34578887 234433 2 3479999997
No 67
>PF08271 TF_Zn_Ribbon: TFIIB zinc-binding; InterPro: IPR013137 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 zinc finger motif found in transcription factor IIB (TFIIB). In eukaryotes the initiation of transcription of protein encoding genes by the polymerase II complexe (Pol II) is modulated by general and specific transcription factors. The general transcription factors operate through common promoters elements (such as the TATA box). At least seven different proteins associate to form the general transcription factors: TFIIA, -IIB, -IID, -IIE, -IIF, -IIG, and -IIH []. TFIIB and TFIID are responsible for promoter recognition and interaction with pol II; together with Pol II, they form a minimal initiation complex capable of transcription under certain conditions. The TATA box of a Pol II promoter is bound in the initiation complex by the TBP subunit of TFIID, which bends the DNA around the C-terminal domain of TFIIB whereas the N-terminal zinc finger of TFIIB interacts with Pol II [, ]. The TFIIB zinc finger adopts a zinc ribbon fold characterised by two beta-hairpins forming two structurally similar zinc-binding sub-sites []. The zinc finger contacts the rbp1 subunit of Pol II through its dock domain, a conserved region of about 70 amino acids located close to the polymerase active site []. In the Pol II complex this surface is located near the RNA exit groove. Interestingly this sequence is best conserved in the three polymerases that utilise a TFIIB-like general transcription factor (Pol II, Pol III, and archaeal RNA polymerase) but not in Pol I []. More information about these proteins can be found at Protein of the Month: Zinc Fingers [].; GO: 0008270 zinc ion binding, 0006355 regulation of transcription, DNA-dependent; PDB: 1VD4_A 1PFT_A 3K1F_M 3K7A_M 1RO4_A 1RLY_A 1DL6_A.
Probab=22.85 E-value=53 Score=20.70 Aligned_cols=9 Identities=56% Similarity=1.254 Sum_probs=6.2
Q ss_pred CCCCCCCcc
Q 045532 143 KCPKCKSTV 151 (173)
Q Consensus 143 ~CP~Cks~v 151 (173)
+||+|++..
T Consensus 2 ~Cp~Cg~~~ 10 (43)
T PF08271_consen 2 KCPNCGSKE 10 (43)
T ss_dssp SBTTTSSSE
T ss_pred CCcCCcCCc
Confidence 477777765
No 68
>KOG3352 consensus Cytochrome c oxidase, subunit Vb/COX4 [Energy production and conversion]
Probab=22.46 E-value=1.5e+02 Score=24.76 Aligned_cols=36 Identities=25% Similarity=0.625 Sum_probs=24.6
Q ss_pred eEEeeCccce------EEEEeeCCC-CCCCCCCCcceeccccCC
Q 045532 123 MVLVGCPRCL------MYVMLSEDD-PKCPKCKSTVLLDFLHDK 159 (173)
Q Consensus 123 mV~~gC~~Cl------mYVMl~k~~-P~CP~Cks~vll~f~~~~ 159 (173)
+..+|| .|. +.+-|-|.+ ++||.|....-|-+..+.
T Consensus 109 ~RiVGC-~c~eD~~~V~Wmwl~Kge~~rc~eCG~~fkL~~v~~~ 151 (153)
T KOG3352|consen 109 KRIVGC-GCEEDSHAVVWMWLEKGETQRCPECGHYFKLVPVGPV 151 (153)
T ss_pred ceEEee-cccCCCcceEEEEEEcCCcccCCcccceEEeeecCCC
Confidence 458999 775 334466655 899999988766655443
No 69
>PRK02935 hypothetical protein; Provisional
Probab=22.07 E-value=57 Score=25.80 Aligned_cols=37 Identities=35% Similarity=0.565 Sum_probs=28.0
Q ss_pred cceEEeeCccceE-EEEeeCCCCCCCCCCCcceeccccC
Q 045532 121 TSMVLVGCPRCLM-YVMLSEDDPKCPKCKSTVLLDFLHD 158 (173)
Q Consensus 121 ~~mV~~gC~~Clm-YVMl~k~~P~CP~Cks~vll~f~~~ 158 (173)
..-|.+-||.|.= .=|+-+.| .|.-|+.++-||=.++
T Consensus 66 tkavqV~CP~C~K~TKmLGrvD-~CM~C~~PLTLd~~le 103 (110)
T PRK02935 66 TKAVQVICPSCEKPTKMLGRVD-ACMHCNQPLTLDRSLE 103 (110)
T ss_pred ccceeeECCCCCchhhhcccee-ecCcCCCcCCcCcccc
Confidence 3446779999998 55777766 8999999987774443
No 70
>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=21.77 E-value=1.6e+02 Score=17.62 Aligned_cols=28 Identities=21% Similarity=0.613 Sum_probs=17.7
Q ss_pred eEEeeCccceE-EEEee----CCCCCCCCCCCc
Q 045532 123 MVLVGCPRCLM-YVMLS----EDDPKCPKCKST 150 (173)
Q Consensus 123 mV~~gC~~Clm-YVMl~----k~~P~CP~Cks~ 150 (173)
+..--|+.|-- +..+. .....||.|.+.
T Consensus 3 ~Y~y~C~~Cg~~fe~~~~~~~~~~~~CP~Cg~~ 35 (41)
T smart00834 3 IYEYRCEDCGHTFEVLQKISDDPLATCPECGGD 35 (41)
T ss_pred CEEEEcCCCCCEEEEEEecCCCCCCCCCCCCCc
Confidence 34557888876 43333 234789999974
No 71
>COG1592 Rubrerythrin [Energy production and conversion]
Probab=21.67 E-value=52 Score=27.39 Aligned_cols=25 Identities=28% Similarity=0.515 Sum_probs=21.3
Q ss_pred EeeCccceEEEEeeCCCCCCCCCCCc
Q 045532 125 LVGCPRCLMYVMLSEDDPKCPKCKST 150 (173)
Q Consensus 125 ~~gC~~ClmYVMl~k~~P~CP~Cks~ 150 (173)
+-.|+.|-..+-. +..-+||-|+.+
T Consensus 134 ~~vC~vCGy~~~g-e~P~~CPiCga~ 158 (166)
T COG1592 134 VWVCPVCGYTHEG-EAPEVCPICGAP 158 (166)
T ss_pred EEEcCCCCCcccC-CCCCcCCCCCCh
Confidence 7789999887777 888899999954
No 72
>cd04476 RPA1_DBD_C RPA1_DBD_C: A subfamily of OB folds corresponding to the C-terminal OB fold, the ssDNA-binding domain (DBD)-C, of human RPA1 (also called RPA70). RPA1 is the large subunit of Replication protein A (RPA). RPA is a nuclear ssDNA-binding protein (SSB) which appears to be involved in all aspects of DNA metabolism including replication, recombination, and repair. RPA also mediates specific interactions of various nuclear proteins. In animals, plants, and fungi, RPA is a heterotrimer with subunits of 70KDa (RPA1), 32kDa (RPA2), and 14 KDa (RPA3). In addition to DBD-C, RPA1 contains three other OB folds: DBD-A, DBD-B, and RPA1N. The major DNA binding activity of RPA is associated with RPA1 DBD-A and DBD-B. RPA1 DBD-C is involved in DNA binding and trimerization. It contains two structural insertions not found to date in other OB-folds: a zinc ribbon and a three-helix bundle. RPA1 DBD-C also contains a Cys4-type zinc-binding motif, which plays a role in the ssDNA binding fun
Probab=21.53 E-value=62 Score=25.35 Aligned_cols=30 Identities=27% Similarity=0.577 Sum_probs=23.4
Q ss_pred ceEEeeCccceEEEEeeC-CCCCCCCCCCcc
Q 045532 122 SMVLVGCPRCLMYVMLSE-DDPKCPKCKSTV 151 (173)
Q Consensus 122 ~mV~~gC~~ClmYVMl~k-~~P~CP~Cks~v 151 (173)
.++-.+|+.|.=-|.-.. ....|++|...+
T Consensus 31 ~~~Y~aC~~C~kkv~~~~~~~~~C~~C~~~~ 61 (166)
T cd04476 31 NWWYPACPGCNKKVVEEGNGTYRCEKCNKSV 61 (166)
T ss_pred CeEEccccccCcccEeCCCCcEECCCCCCcC
Confidence 699999999988754333 568999999763
No 73
>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=21.45 E-value=84 Score=19.32 Aligned_cols=23 Identities=39% Similarity=0.898 Sum_probs=14.9
Q ss_pred eCccceEEEEee-CCCCCCCCCCCc
Q 045532 127 GCPRCLMYVMLS-EDDPKCPKCKST 150 (173)
Q Consensus 127 gC~~ClmYVMl~-k~~P~CP~Cks~ 150 (173)
-|..|- |++.. +.-.+||.|+..
T Consensus 4 ~C~~CG-~i~~g~~~p~~CP~Cg~~ 27 (34)
T cd00729 4 VCPVCG-YIHEGEEAPEKCPICGAP 27 (34)
T ss_pred ECCCCC-CEeECCcCCCcCcCCCCc
Confidence 477777 44433 344699999964
No 74
>TIGR00375 conserved hypothetical protein TIGR00375. The member of this family from Methanococcus jannaschii, MJ0043, is considerably longer and appears to contain an intein N-terminal to the region of homology.
Probab=21.10 E-value=33 Score=31.73 Aligned_cols=28 Identities=18% Similarity=0.501 Sum_probs=18.3
Q ss_pred eEEeeCccceEEEEeeC---CCCCCCCCCCcc
Q 045532 123 MVLVGCPRCLMYVMLSE---DDPKCPKCKSTV 151 (173)
Q Consensus 123 mV~~gC~~ClmYVMl~k---~~P~CP~Cks~v 151 (173)
--.+||.+|..-+-... ..-+|| |+.++
T Consensus 238 Yh~~~c~~C~~~~~~~~~~~~~~~Cp-CG~~i 268 (374)
T TIGR00375 238 YHQTACEACGEPAVSEDAETACANCP-CGGRI 268 (374)
T ss_pred cchhhhcccCCcCCchhhhhcCCCCC-CCCcc
Confidence 34789999964222222 137899 99985
No 75
>COG5242 TFB4 RNA polymerase II transcription initiation/nucleotide excision repair factor TFIIH, subunit TFB4 [Transcription / DNA replication, recombination, and repair]
Probab=20.92 E-value=69 Score=28.83 Aligned_cols=27 Identities=33% Similarity=0.667 Sum_probs=21.2
Q ss_pred eEEeeCccceEEEEeeCCCCCCCCCCCcc
Q 045532 123 MVLVGCPRCLMYVMLSEDDPKCPKCKSTV 151 (173)
Q Consensus 123 mV~~gC~~ClmYVMl~k~~P~CP~Cks~v 151 (173)
.+--.|.-||--+ ++-.|+||.|+++.
T Consensus 258 ~~GfvCsVCLsvf--c~p~~~C~~C~skF 284 (296)
T COG5242 258 LLGFVCSVCLSVF--CRPVPVCKKCKSKF 284 (296)
T ss_pred EEeeehhhhheee--cCCcCcCccccccc
Confidence 3445699998644 88889999999885
No 76
>TIGR00627 tfb4 transcription factor tfb4. This family is based on the phylogenomic analysis of JA Eisen (1999, Ph.D. Thesis, Stanford University).
Probab=20.63 E-value=43 Score=29.74 Aligned_cols=28 Identities=29% Similarity=0.640 Sum_probs=19.8
Q ss_pred cceEEeeCccceEEEEeeCCCCCCCCCCCc
Q 045532 121 TSMVLVGCPRCLMYVMLSEDDPKCPKCKST 150 (173)
Q Consensus 121 ~~mV~~gC~~ClmYVMl~k~~P~CP~Cks~ 150 (173)
...+.-.|+.|+- ++++--+.||-|++.
T Consensus 251 ~v~~GyvCs~Cls--i~C~~p~~C~~Cgt~ 278 (279)
T TIGR00627 251 LVSIGFVCSVCLS--VLCQYTPICKTCKTA 278 (279)
T ss_pred cccceEECCCccC--CcCCCCCCCCCCCCC
Confidence 3445567999997 234555899999965
No 77
>COG1579 Zn-ribbon protein, possibly nucleic acid-binding [General function prediction only]
Probab=20.50 E-value=30 Score=30.33 Aligned_cols=30 Identities=23% Similarity=0.448 Sum_probs=19.9
Q ss_pred eEEeeCccceE--EEE----eeCCC--CCCCCCCCcce
Q 045532 123 MVLVGCPRCLM--YVM----LSEDD--PKCPKCKSTVL 152 (173)
Q Consensus 123 mV~~gC~~Clm--YVM----l~k~~--P~CP~Cks~vl 152 (173)
+.--.|-+|+| +.+ |.+.| ..||.|...+.
T Consensus 195 l~g~~C~GC~m~l~~~~~~~V~~~d~iv~CP~CgRILy 232 (239)
T COG1579 195 LEGRVCGGCHMKLPSQTLSKVRKKDEIVFCPYCGRILY 232 (239)
T ss_pred ecCCcccCCeeeecHHHHHHHhcCCCCccCCccchHHH
Confidence 33457999999 333 22333 79999997653
No 78
>COG1379 PHP family phosphoesterase with a Zn ribbon [General function prediction only]
Probab=20.27 E-value=22 Score=33.26 Aligned_cols=29 Identities=31% Similarity=0.685 Sum_probs=20.5
Q ss_pred eEEeeCccceEEEEee---CCCCCCCCCCCcc
Q 045532 123 MVLVGCPRCLMYVMLS---EDDPKCPKCKSTV 151 (173)
Q Consensus 123 mV~~gC~~ClmYVMl~---k~~P~CP~Cks~v 151 (173)
--.++|.+|..-+-+. ..+-+||+|...+
T Consensus 244 Y~~TAC~rC~t~y~le~A~~~~wrCpkCGg~i 275 (403)
T COG1379 244 YHLTACSRCYTRYSLEEAKSLRWRCPKCGGKI 275 (403)
T ss_pred hhHHHHHHhhhccCcchhhhhcccCcccccch
Confidence 3458999999733333 2458999999864
Done!