Query psy12393
Match_columns 155
No_of_seqs 63 out of 65
Neff 3.4
Searched_HMMs 46136
Date Fri Aug 16 18:00:08 2013
Command hhsearch -i /work/01045/syshi/Psyhhblits/psy12393.a3m -d /work/01045/syshi/HHdatabase/Cdd.hhm -o /work/01045/syshi/hhsearch_cdd/12393hhsearch_cdd -cpu 12 -v 0
No Hit Prob E-value P-value Score SS Cols Query HMM Template HMM
1 PF13695 zf-3CxxC: Zinc-bindin 99.6 1.2E-15 2.5E-20 111.6 4.4 68 72-139 1-97 (98)
2 PF13696 zf-CCHC_2: Zinc knuck 99.5 8.2E-15 1.8E-19 90.7 2.4 26 15-40 1-26 (32)
3 COG5222 Uncharacterized conser 98.5 5.7E-08 1.2E-12 86.6 2.2 40 13-52 167-206 (427)
4 PF00098 zf-CCHC: Zinc knuckle 96.5 0.001 2.2E-08 36.1 0.9 16 24-39 2-17 (18)
5 KOG0314|consensus 96.1 0.0027 5.9E-08 58.5 1.5 34 18-51 154-187 (448)
6 PF13917 zf-CCHC_3: Zinc knuck 95.7 0.0058 1.3E-07 39.8 1.4 32 22-62 4-35 (42)
7 PF15135 UPF0515: Uncharacteri 95.3 0.0092 2E-07 52.1 1.7 40 73-115 152-193 (278)
8 smart00343 ZnF_C2HC zinc finge 85.8 0.35 7.6E-06 27.3 0.7 17 24-40 1-17 (26)
9 smart00834 CxxC_CXXC_SSSS Puta 83.2 1 2.3E-05 27.1 2.0 30 76-105 5-35 (41)
10 COG5082 AIR1 Arginine methyltr 75.4 1.2 2.6E-05 37.3 0.7 22 18-39 56-77 (190)
11 TIGR02605 CxxC_CxxC_SSSS putat 72.2 3.6 7.8E-05 26.2 2.2 29 76-104 5-34 (52)
12 KOG4400|consensus 69.6 3.6 7.7E-05 34.3 2.2 21 21-41 91-111 (261)
13 smart00659 RPOLCX RNA polymera 68.6 4.9 0.00011 26.0 2.3 33 76-112 2-34 (44)
14 KOG0314|consensus 63.9 4.5 9.7E-05 37.8 1.9 35 17-51 128-162 (448)
15 PF09723 Zn-ribbon_8: Zinc rib 63.0 6.8 0.00015 24.7 2.1 29 76-104 5-34 (42)
16 PTZ00368 universal minicircle 57.4 4.7 0.0001 30.7 0.7 19 22-40 103-121 (148)
17 PF05741 zf-nanos: Nanos RNA b 56.8 4.3 9.4E-05 27.9 0.4 20 22-41 33-55 (55)
18 PTZ00368 universal minicircle 50.8 7.4 0.00016 29.6 0.9 18 24-41 2-19 (148)
19 PF11682 DUF3279: Protein of u 48.0 23 0.00051 27.9 3.3 78 13-110 19-124 (128)
20 PF14392 zf-CCHC_4: Zinc knuck 47.0 7.6 0.00017 25.0 0.4 17 23-39 32-48 (49)
21 PF13894 zf-C2H2_4: C2H2-type 46.7 4.7 0.0001 20.7 -0.6 17 77-93 1-17 (24)
22 PF12171 zf-C2H2_jaz: Zinc-fin 46.4 4.3 9.4E-05 22.8 -0.8 18 77-94 2-19 (27)
23 PRK00398 rpoP DNA-directed RNA 46.1 13 0.00028 23.4 1.3 30 76-107 3-32 (46)
24 COG5082 AIR1 Arginine methyltr 45.3 9.3 0.0002 32.1 0.7 17 23-39 98-115 (190)
25 PF01096 TFIIS_C: Transcriptio 43.2 11 0.00025 23.4 0.7 13 75-87 27-39 (39)
26 smart00451 ZnF_U1 U1-like zinc 41.6 7.1 0.00015 22.5 -0.4 20 75-94 2-21 (35)
27 PF00220 Hormone_4: Neurohypop 37.9 13 0.00029 17.5 0.3 7 34-40 2-8 (9)
28 PF00096 zf-C2H2: Zinc finger, 37.6 7 0.00015 20.7 -0.8 16 77-92 1-16 (23)
29 TIGR00100 hypA hydrogenase nic 37.5 22 0.00047 26.8 1.6 49 50-105 43-95 (115)
30 PF13240 zinc_ribbon_2: zinc-r 37.1 19 0.00041 20.4 0.9 22 79-106 2-23 (23)
31 TIGR00373 conserved hypothetic 36.8 13 0.00028 29.4 0.3 34 76-110 109-142 (158)
32 smart00440 ZnF_C2C2 C2C2 Zinc 35.6 21 0.00045 22.4 1.0 24 55-87 16-39 (40)
33 PF12874 zf-met: Zinc-finger o 34.8 8.3 0.00018 20.8 -0.8 17 77-93 1-17 (25)
34 PRK06266 transcription initiat 34.4 16 0.00036 29.5 0.5 34 76-110 117-150 (178)
35 PRK00481 NAD-dependent deacety 33.3 26 0.00056 28.9 1.5 39 73-111 119-157 (242)
36 PF13717 zinc_ribbon_4: zinc-r 33.2 24 0.00052 21.7 1.0 12 76-87 25-36 (36)
37 PRK00736 hypothetical protein; 33.0 30 0.00066 24.0 1.6 22 2-23 45-68 (68)
38 PF13912 zf-C2H2_6: C2H2-type 32.2 9.8 0.00021 20.9 -0.8 17 77-93 2-18 (27)
39 PRK12496 hypothetical protein; 31.7 34 0.00073 27.3 1.9 27 76-106 127-153 (164)
40 PF11827 DUF3347: Protein of u 29.9 37 0.00081 27.2 1.9 30 32-70 133-164 (174)
41 PRK00564 hypA hydrogenase nick 29.8 38 0.00081 25.6 1.8 31 72-105 67-97 (117)
42 PRK12380 hydrogenase nickel in 29.6 31 0.00068 25.9 1.3 49 50-105 43-95 (113)
43 PF13719 zinc_ribbon_5: zinc-r 29.1 31 0.00067 21.2 1.0 13 75-87 24-36 (37)
44 COG3791 Uncharacterized conser 28.6 19 0.00042 27.5 0.0 14 97-110 70-83 (133)
45 COG1594 RPB9 DNA-directed RNA 28.6 29 0.00062 26.3 1.0 27 53-88 86-112 (113)
46 KOG4400|consensus 27.8 41 0.00088 28.0 1.8 18 23-40 144-161 (261)
47 PF14311 DUF4379: Domain of un 26.3 38 0.00082 22.0 1.1 27 76-102 28-55 (55)
48 PF14787 zf-CCHC_5: GAG-polypr 26.1 29 0.00062 22.3 0.5 18 23-40 3-20 (36)
49 TIGR02098 MJ0042_CXXC MJ0042 f 26.1 38 0.00081 20.2 1.0 13 75-87 24-36 (38)
50 cd02336 ZZ_RSC8 Zinc finger, Z 25.0 21 0.00046 23.3 -0.3 16 21-36 22-37 (45)
51 PF09538 FYDLN_acid: Protein o 24.0 38 0.00083 25.7 0.9 23 95-117 8-30 (108)
52 COG4332 Uncharacterized protei 24.0 51 0.0011 28.1 1.7 52 13-87 8-60 (203)
53 PF04828 GFA: Glutathione-depe 23.3 30 0.00065 23.0 0.2 13 97-109 49-61 (92)
54 PRK00295 hypothetical protein; 23.1 53 0.0012 22.8 1.4 22 2-23 45-68 (68)
55 PHA00732 hypothetical protein 22.6 22 0.00049 25.4 -0.5 31 77-107 2-38 (79)
56 KOG4602|consensus 22.5 42 0.00092 30.1 1.0 22 22-43 268-292 (318)
57 smart00531 TFIIE Transcription 22.2 32 0.00068 26.6 0.2 35 76-110 99-137 (147)
58 PF06836 DUF1240: Protein of u 21.3 61 0.0013 24.3 1.5 27 72-100 69-95 (95)
59 PF01155 HypA: Hydrogenase exp 20.1 41 0.00088 25.1 0.4 49 50-105 43-95 (113)
60 smart00291 ZnF_ZZ Zinc-binding 20.1 1.2E+02 0.0025 19.0 2.5 34 96-141 4-37 (44)
No 1
>PF13695 zf-3CxxC: Zinc-binding domain
Probab=99.58 E-value=1.2e-15 Score=111.60 Aligned_cols=68 Identities=37% Similarity=0.719 Sum_probs=55.0
Q ss_pred cceeeeecccCcCccccceEEec-------------ccccccccCccccceeeec---cc-------------CCCCCCC
Q psy12393 72 RCFGEYKCSKCKRKWMSGNSWAN-------------MGQECIKCNINVYPHKQRP---LE-------------KPDGLDV 122 (155)
Q Consensus 72 R~fG~F~Ck~C~~~WsSaNsWan-------------~gQ~C~kC~~~vyPyrq~~---l~-------------~~~k~~~ 122 (155)
+.||.|+|+.|++.|+|++||.+ .+|.|++|+...+|+..++ ++ .+.....
T Consensus 1 ~~~grF~C~~C~~~W~S~~v~i~f~~~~~g~v~~rv~~Q~C~~C~~~~~P~~~e~~~lv~ri~~~~y~~~~~~~~~~~~~ 80 (98)
T PF13695_consen 1 NAFGRFQCSKCSRGWTSAKVWILFHMYRGGQVNMRVFGQRCKKCNPLERPYFSEEQNLVERIRYRCYGWAGIQVEEPRIS 80 (98)
T ss_pred CcEEEEECCCCCCCCccCEEEEEEEEcCCCeEEEEEECCCCCCCCCCCCccCcccccHHHHHHHHHhcccCCccCcCccc
Confidence 47999999999999999999999 7999999999999999543 21 1111223
Q ss_pred CCCCCCChhhhhHHHhh
Q psy12393 123 SDQSKVHPMYLCEKCKQ 139 (155)
Q Consensus 123 ~d~krPHpQ~LCgkCK~ 139 (155)
.+..+||.++|||.|++
T Consensus 81 ~~~~~pH~~~lCE~C~~ 97 (98)
T PF13695_consen 81 GKSTGPHESELCEACKQ 97 (98)
T ss_pred CCCCCCCChhhChhhcC
Confidence 34479999999999986
No 2
>PF13696 zf-CCHC_2: Zinc knuckle
Probab=99.50 E-value=8.2e-15 Score=90.75 Aligned_cols=26 Identities=50% Similarity=1.150 Sum_probs=24.8
Q ss_pred cCCCCCCceeeeeccCCCcccccCCC
Q psy12393 15 SFKQPPSAYLCHLCFVGGHYITDCPL 40 (155)
Q Consensus 15 ~~~~pp~~y~ch~c~~~ghyi~dcp~ 40 (155)
|+++||++|+||+|+++||||+|||+
T Consensus 1 ~~k~pP~~Y~C~~C~~~GH~i~dCP~ 26 (32)
T PF13696_consen 1 PRKKPPPGYVCHRCGQKGHWIQDCPT 26 (32)
T ss_pred CCCCCCCCCEeecCCCCCccHhHCCC
Confidence 57899999999999999999999997
No 3
>COG5222 Uncharacterized conserved protein, contains RING Zn-finger [General function prediction only]
Probab=98.48 E-value=5.7e-08 Score=86.57 Aligned_cols=40 Identities=35% Similarity=0.672 Sum_probs=36.2
Q ss_pred cccCCCCCCceeeeeccCCCcccccCCCCCCCchhhHhhh
Q psy12393 13 KKSFKQPPSAYLCHLCFVGGHYITDCPLFNMSPFSKYRQL 52 (155)
Q Consensus 13 ~~~~~~pp~~y~ch~c~~~ghyi~dcp~~~~~~~~~~r~~ 52 (155)
.+.-++|||+|+|-+|+++||||+.||||.++-||-+|-+
T Consensus 167 q~~~kppPpgY~CyRCGqkgHwIqnCpTN~DpnfdgkRir 206 (427)
T COG5222 167 QKHNKPPPPGYVCYRCGQKGHWIQNCPTNQDPNFDGKRIR 206 (427)
T ss_pred ccCCCCCCCceeEEecCCCCchhhcCCCCCCCCccceeee
Confidence 4567899999999999999999999999999999988743
No 4
>PF00098 zf-CCHC: Zinc knuckle; InterPro: IPR001878 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 CysCysHisCys (CCHC) type zinc finger domains, and have the sequence: C-X2-C-X4-H-X4-C where X can be any amino acid, and number indicates the number of residues. These 18 residues CCHC zinc finger domains are mainly found in the nucleocapsid protein of retroviruses. It is required for viral genome packaging and for early infection process [, , ]. It is also found in eukaryotic proteins involved in RNA binding or single-stranded DNA binding []. More information about these proteins can be found at Protein of the Month: Zinc Fingers [].; GO: 0003676 nucleic acid binding, 0008270 zinc ion binding; PDB: 2L44_A 1A1T_A 1WWG_A 1U6P_A 1WWD_A 1WWE_A 1A6B_B 1F6U_A 1MFS_A 1NCP_C ....
Probab=96.52 E-value=0.001 Score=36.11 Aligned_cols=16 Identities=44% Similarity=0.912 Sum_probs=15.2
Q ss_pred eeeeccCCCcccccCC
Q psy12393 24 LCHLCFVGGHYITDCP 39 (155)
Q Consensus 24 ~ch~c~~~ghyi~dcp 39 (155)
.|..|.+.||+..|||
T Consensus 2 ~C~~C~~~GH~~~~Cp 17 (18)
T PF00098_consen 2 KCFNCGEPGHIARDCP 17 (18)
T ss_dssp BCTTTSCSSSCGCTSS
T ss_pred cCcCCCCcCcccccCc
Confidence 5899999999999999
No 5
>KOG0314|consensus
Probab=96.06 E-value=0.0027 Score=58.47 Aligned_cols=34 Identities=29% Similarity=0.545 Sum_probs=30.1
Q ss_pred CCCCceeeeeccCCCcccccCCCCCCCchhhHhh
Q psy12393 18 QPPSAYLCHLCFVGGHYITDCPLFNMSPFSKYRQ 51 (155)
Q Consensus 18 ~pp~~y~ch~c~~~ghyi~dcp~~~~~~~~~~r~ 51 (155)
.|||.|.|-+|-++||+|+-|||+....++..+-
T Consensus 154 ~Pppsy~c~rc~~~g~wikacptv~~~~~~~~~~ 187 (448)
T KOG0314|consen 154 SPPPSYKCVKCPTPGPWIKACPTVSGSYSLPSGT 187 (448)
T ss_pred CCCCCcceecCCCCCccceeccccCCcccccCCc
Confidence 4999999999999999999999988888865553
No 6
>PF13917 zf-CCHC_3: Zinc knuckle
Probab=95.68 E-value=0.0058 Score=39.83 Aligned_cols=32 Identities=28% Similarity=0.611 Sum_probs=26.0
Q ss_pred ceeeeeccCCCcccccCCCCCCCchhhHhhhhhhhcCCCCC
Q psy12393 22 AYLCHLCFVGGHYITDCPLFNMSPFSKYRQLFLFQARPKGE 62 (155)
Q Consensus 22 ~y~ch~c~~~ghyi~dcp~~~~~~~~~~r~~~~~~~rp~~~ 62 (155)
.-+|..|++.||+..+||..+.-+| .+||.+.
T Consensus 4 ~~~CqkC~~~GH~tyeC~~~~~r~y---------~~RpSrt 35 (42)
T PF13917_consen 4 RVRCQKCGQKGHWTYECPNKNERKY---------TSRPSRT 35 (42)
T ss_pred CCcCcccCCCCcchhhCCCCCCccc---------ccCCCHH
Confidence 4579999999999999997556666 7787654
No 7
>PF15135 UPF0515: Uncharacterised protein UPF0515
Probab=95.26 E-value=0.0092 Score=52.14 Aligned_cols=40 Identities=30% Similarity=0.764 Sum_probs=34.0
Q ss_pred ceeeeecccCcCccccceEEecc--cccccccCccccceeeeccc
Q psy12393 73 CFGEYKCSKCKRKWMSGNSWANM--GQECIKCNINVYPHKQRPLE 115 (155)
Q Consensus 73 ~fG~F~Ck~C~~~WsSaNsWan~--gQ~C~kC~~~vyPyrq~~l~ 115 (155)
-+|+|+|.+|++.|. .|+-+ .+-|..|+..|||+++.|-.
T Consensus 152 G~aef~C~~C~h~F~---G~~qm~v~sPCy~C~~~v~P~~IlPPr 193 (278)
T PF15135_consen 152 GIAEFHCPKCRHNFR---GFAQMGVPSPCYGCGNPVYPSRILPPR 193 (278)
T ss_pred ceeeeecccccccch---hhhhcCCCCCccCCCCccCcccccCCC
Confidence 467999999999998 45555 58999999999999998743
No 8
>smart00343 ZnF_C2HC zinc finger.
Probab=85.76 E-value=0.35 Score=27.34 Aligned_cols=17 Identities=41% Similarity=0.796 Sum_probs=15.1
Q ss_pred eeeeccCCCcccccCCC
Q psy12393 24 LCHLCFVGGHYITDCPL 40 (155)
Q Consensus 24 ~ch~c~~~ghyi~dcp~ 40 (155)
.|-.|.+.||+..+||.
T Consensus 1 ~C~~CG~~GH~~~~C~~ 17 (26)
T smart00343 1 KCYNCGKEGHIARDCPK 17 (26)
T ss_pred CCccCCCCCcchhhCCc
Confidence 47889999999999993
No 9
>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=83.23 E-value=1 Score=27.06 Aligned_cols=30 Identities=20% Similarity=0.540 Sum_probs=22.3
Q ss_pred eeecccCcCccccceEEe-cccccccccCcc
Q psy12393 76 EYKCSKCKRKWMSGNSWA-NMGQECIKCNIN 105 (155)
Q Consensus 76 ~F~Ck~C~~~WsSaNsWa-n~gQ~C~kC~~~ 105 (155)
+|+|..|+..|+-.-+.. ...-.|-.|+..
T Consensus 5 ~y~C~~Cg~~fe~~~~~~~~~~~~CP~Cg~~ 35 (41)
T smart00834 5 EYRCEDCGHTFEVLQKISDDPLATCPECGGD 35 (41)
T ss_pred EEEcCCCCCEEEEEEecCCCCCCCCCCCCCc
Confidence 589999999998544443 445679999873
No 10
>COG5082 AIR1 Arginine methyltransferase-interacting protein, contains RING Zn-finger [Posttranslational modification, protein turnover, chaperones / Intracellular trafficking and secretion]
Probab=75.42 E-value=1.2 Score=37.32 Aligned_cols=22 Identities=32% Similarity=0.647 Sum_probs=18.4
Q ss_pred CCCCceeeeeccCCCcccccCC
Q psy12393 18 QPPSAYLCHLCFVGGHYITDCP 39 (155)
Q Consensus 18 ~pp~~y~ch~c~~~ghyi~dcp 39 (155)
..=.+=.|+.|.+.||.+.|||
T Consensus 56 ~~~~~~~C~nCg~~GH~~~DCP 77 (190)
T COG5082 56 IREENPVCFNCGQNGHLRRDCP 77 (190)
T ss_pred ccccccccchhcccCcccccCC
Confidence 3344557999999999999999
No 11
>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=72.23 E-value=3.6 Score=26.20 Aligned_cols=29 Identities=21% Similarity=0.576 Sum_probs=19.1
Q ss_pred eeecccCcCccccceEEe-cccccccccCc
Q psy12393 76 EYKCSKCKRKWMSGNSWA-NMGQECIKCNI 104 (155)
Q Consensus 76 ~F~Ck~C~~~WsSaNsWa-n~gQ~C~kC~~ 104 (155)
+|+|.+|+.+++.-.+.. ...-.|-.|+.
T Consensus 5 ey~C~~Cg~~fe~~~~~~~~~~~~CP~Cg~ 34 (52)
T TIGR02605 5 EYRCTACGHRFEVLQKMSDDPLATCPECGG 34 (52)
T ss_pred EEEeCCCCCEeEEEEecCCCCCCCCCCCCC
Confidence 689999999776221111 12347999996
No 12
>KOG4400|consensus
Probab=69.64 E-value=3.6 Score=34.28 Aligned_cols=21 Identities=43% Similarity=0.703 Sum_probs=17.2
Q ss_pred CceeeeeccCCCcccccCCCC
Q psy12393 21 SAYLCHLCFVGGHYITDCPLF 41 (155)
Q Consensus 21 ~~y~ch~c~~~ghyi~dcp~~ 41 (155)
..=.|-.|.+.||++.|||.-
T Consensus 91 ~~~~c~~C~~~gH~~~~c~~~ 111 (261)
T KOG4400|consen 91 IAAACFNCGEGGHIERDCPEA 111 (261)
T ss_pred cchhhhhCCCCccchhhCCcc
Confidence 455788899999999999953
No 13
>smart00659 RPOLCX RNA polymerase subunit CX. present in RNA polymerase I, II and III
Probab=68.59 E-value=4.9 Score=26.03 Aligned_cols=33 Identities=24% Similarity=0.511 Sum_probs=26.6
Q ss_pred eeecccCcCccccceEEecccccccccCccccceeee
Q psy12393 76 EYKCSKCKRKWMSGNSWANMGQECIKCNINVYPHKQR 112 (155)
Q Consensus 76 ~F~Ck~C~~~WsSaNsWan~gQ~C~kC~~~vyPyrq~ 112 (155)
.|.|..|+.+++.. ....-.|..|+..|. |+.+
T Consensus 2 ~Y~C~~Cg~~~~~~---~~~~irC~~CG~rIl-yK~R 34 (44)
T smart00659 2 IYICGECGRENEIK---SKDVVRCRECGYRIL-YKKR 34 (44)
T ss_pred EEECCCCCCEeecC---CCCceECCCCCceEE-EEeC
Confidence 58999999999865 467899999998776 5554
No 14
>KOG0314|consensus
Probab=63.90 E-value=4.5 Score=37.79 Aligned_cols=35 Identities=34% Similarity=0.718 Sum_probs=31.5
Q ss_pred CCCCCceeeeeccCCCcccccCCCCCCCchhhHhh
Q psy12393 17 KQPPSAYLCHLCFVGGHYITDCPLFNMSPFSKYRQ 51 (155)
Q Consensus 17 ~~pp~~y~ch~c~~~ghyi~dcp~~~~~~~~~~r~ 51 (155)
.++++.|.||+|-.+||.|+-|.++-.+|++..+-
T Consensus 128 ~t~~~~~~~~~~~~~~~~iq~~~~~g~Pppsy~c~ 162 (448)
T KOG0314|consen 128 QTPPPGYVCHRCNSPGHFIQHCSTNGSPPPSYKCV 162 (448)
T ss_pred CCCcccceeeecccCccccccccccCCCCCCccee
Confidence 38999999999999999999999999999877653
No 15
>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=63.03 E-value=6.8 Score=24.67 Aligned_cols=29 Identities=24% Similarity=0.614 Sum_probs=20.6
Q ss_pred eeecccCcCccccceEEe-cccccccccCc
Q psy12393 76 EYKCSKCKRKWMSGNSWA-NMGQECIKCNI 104 (155)
Q Consensus 76 ~F~Ck~C~~~WsSaNsWa-n~gQ~C~kC~~ 104 (155)
+|+|.+|+..++---+-+ .....|-.|+.
T Consensus 5 ey~C~~Cg~~fe~~~~~~~~~~~~CP~Cg~ 34 (42)
T PF09723_consen 5 EYRCEECGHEFEVLQSISEDDPVPCPECGS 34 (42)
T ss_pred EEEeCCCCCEEEEEEEcCCCCCCcCCCCCC
Confidence 699999998776332222 24678999986
No 16
>PTZ00368 universal minicircle sequence binding protein (UMSBP); Provisional
Probab=57.43 E-value=4.7 Score=30.73 Aligned_cols=19 Identities=37% Similarity=0.625 Sum_probs=16.6
Q ss_pred ceeeeeccCCCcccccCCC
Q psy12393 22 AYLCHLCFVGGHYITDCPL 40 (155)
Q Consensus 22 ~y~ch~c~~~ghyi~dcp~ 40 (155)
.-.|.+|.+.|||-.|||.
T Consensus 103 ~~~C~~Cg~~gH~~~~C~~ 121 (148)
T PTZ00368 103 RRACYNCGGEGHISRDCPN 121 (148)
T ss_pred chhhcccCcCCcchhcCCC
Confidence 3479999999999999994
No 17
>PF05741 zf-nanos: Nanos RNA binding domain; InterPro: IPR024161 Nanos is a highly conserved RNA-binding protein in higher eukaryotes and functions as a key regulatory protein in translational control using a 3' untranslated region during the development and maintenance of germ cells. Nanos comprises a non-conserved amino-terminus and highly conserved carboxy- terminal regions. The C-terminal region has two conserved Cys-Cys-His-Cys (CCHC)-type zinc-finger motifs that are indispensable for nanos function [, , ]. The structure of the nanos-type zinc finger is composed of two independent zinc-finger (ZF) lobes, the N-terminal ZF1 and the C-terminal ZF2, which are connected by a linker helix []. These lobes create a large cleft. Zinc ions in ZF1 and ZF2 are bound to the CCHC motif by tetrahedral coordination.; PDB: 3ALR_B.
Probab=56.82 E-value=4.3 Score=27.86 Aligned_cols=20 Identities=40% Similarity=0.889 Sum_probs=8.7
Q ss_pred ceeeeeccCCC---cccccCCCC
Q psy12393 22 AYLCHLCFVGG---HYITDCPLF 41 (155)
Q Consensus 22 ~y~ch~c~~~g---hyi~dcp~~ 41 (155)
.|.|.+|+..| |-|+-||++
T Consensus 33 ~y~Cp~CgAtGd~AHT~~yCP~k 55 (55)
T PF05741_consen 33 KYVCPICGATGDNAHTIKYCPKK 55 (55)
T ss_dssp G---TTT---GGG---GGG-TT-
T ss_pred cCcCCCCcCcCccccccccCcCC
Confidence 69999999965 799999963
No 18
>PTZ00368 universal minicircle sequence binding protein (UMSBP); Provisional
Probab=50.84 E-value=7.4 Score=29.63 Aligned_cols=18 Identities=33% Similarity=0.621 Sum_probs=15.8
Q ss_pred eeeeccCCCcccccCCCC
Q psy12393 24 LCHLCFVGGHYITDCPLF 41 (155)
Q Consensus 24 ~ch~c~~~ghyi~dcp~~ 41 (155)
+|..|.+.||+-.|||+.
T Consensus 2 ~C~~C~~~GH~~~~c~~~ 19 (148)
T PTZ00368 2 VCYRCGGVGHQSRECPNS 19 (148)
T ss_pred cCCCCCCCCcCcccCcCC
Confidence 689999999999999963
No 19
>PF11682 DUF3279: Protein of unknown function (DUF3279); InterPro: IPR021696 This family of proteins with unknown function appears to be restricted to Enterobacteriaceae.
Probab=48.04 E-value=23 Score=27.92 Aligned_cols=78 Identities=21% Similarity=0.497 Sum_probs=50.3
Q ss_pred cccCCCCCCceeeeeccCCC----------------------cccccCCCCCCCchhhHh------hhhhhhcCCCCCCC
Q psy12393 13 KKSFKQPPSAYLCHLCFVGG----------------------HYITDCPLFNMSPFSKYR------QLFLFQARPKGEGL 64 (155)
Q Consensus 13 ~~~~~~pp~~y~ch~c~~~g----------------------hyi~dcp~~~~~~~~~~r------~~~~~~~rp~~~~~ 64 (155)
+..+..|=-.|-||.|.-+= |-...|| .-+|-+|.+ ++++-.+.|..
T Consensus 19 ~~a~~~~~~~~tC~~Cg~~L~lh~~~~~~~pWFEH~~~~~~~~~l~~C~--yl~pe~k~~~ri~~L~~~i~~~~pv~--- 93 (128)
T PF11682_consen 19 RTAASAPYDHWTCHSCGCPLILHPGTDTEPPWFEHDQHSLAENGLMQCP--YLDPEEKERRRIKRLRRMIADLDPVP--- 93 (128)
T ss_pred hhhhhCCCCeEEEecCCceEEEecCCcCCCCccccCccccChhhcccCc--eECcccchHHHHHHHHHhccccCCCC---
Confidence 33445566789999996442 3345577 455555555 33444444332
Q ss_pred CCCCCcccceeeeecccCcCccccceEEecccccccccCcccccee
Q psy12393 65 TPYQGKKRCFGEYKCSKCKRKWMSGNSWANMGQECIKCNINVYPHK 110 (155)
Q Consensus 65 TPyQg~kR~fG~F~Ck~C~~~WsSaNsWan~gQ~C~kC~~~vyPyr 110 (155)
.--..+|-.|++.|..- ..|.+|++.||.--
T Consensus 94 --------~~~~W~Cv~C~~~Y~Ge-------K~C~~C~tGiYS~e 124 (128)
T PF11682_consen 94 --------RKTDWHCVMCGNHYHGE-------KYCPKCGTGIYSIE 124 (128)
T ss_pred --------cCceEEEecCCCccCcC-------EecCCCCCccccee
Confidence 22468999999999842 68999999998643
No 20
>PF14392 zf-CCHC_4: Zinc knuckle
Probab=46.97 E-value=7.6 Score=25.01 Aligned_cols=17 Identities=35% Similarity=0.751 Sum_probs=15.7
Q ss_pred eeeeeccCCCcccccCC
Q psy12393 23 YLCHLCFVGGHYITDCP 39 (155)
Q Consensus 23 y~ch~c~~~ghyi~dcp 39 (155)
..|-.|..-||-..+||
T Consensus 32 ~~C~~C~~~gH~~~~C~ 48 (49)
T PF14392_consen 32 RFCFHCGRIGHSDKECP 48 (49)
T ss_pred hhhcCCCCcCcCHhHcC
Confidence 35999999999999998
No 21
>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=46.72 E-value=4.7 Score=20.69 Aligned_cols=17 Identities=18% Similarity=0.636 Sum_probs=11.3
Q ss_pred eecccCcCccccceEEe
Q psy12393 77 YKCSKCKRKWMSGNSWA 93 (155)
Q Consensus 77 F~Ck~C~~~WsSaNsWa 93 (155)
|.|..|+....+..+|.
T Consensus 1 ~~C~~C~~~~~~~~~l~ 17 (24)
T PF13894_consen 1 FQCPICGKSFRSKSELR 17 (24)
T ss_dssp EE-SSTS-EESSHHHHH
T ss_pred CCCcCCCCcCCcHHHHH
Confidence 78999998888766543
No 22
>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=46.44 E-value=4.3 Score=22.82 Aligned_cols=18 Identities=22% Similarity=0.637 Sum_probs=16.1
Q ss_pred eecccCcCccccceEEec
Q psy12393 77 YKCSKCKRKWMSGNSWAN 94 (155)
Q Consensus 77 F~Ck~C~~~WsSaNsWan 94 (155)
|.|..|++...+.++|..
T Consensus 2 ~~C~~C~k~f~~~~~~~~ 19 (27)
T PF12171_consen 2 FYCDACDKYFSSENQLKQ 19 (27)
T ss_dssp CBBTTTTBBBSSHHHHHC
T ss_pred CCcccCCCCcCCHHHHHH
Confidence 789999999999998865
No 23
>PRK00398 rpoP DNA-directed RNA polymerase subunit P; Provisional
Probab=46.12 E-value=13 Score=23.44 Aligned_cols=30 Identities=30% Similarity=0.726 Sum_probs=21.9
Q ss_pred eeecccCcCccccceEEecccccccccCcccc
Q psy12393 76 EYKCSKCKRKWMSGNSWANMGQECIKCNINVY 107 (155)
Q Consensus 76 ~F~Ck~C~~~WsSaNsWan~gQ~C~kC~~~vy 107 (155)
+|+|+.|+..-+.... .+...|..|+..+.
T Consensus 3 ~y~C~~CG~~~~~~~~--~~~~~Cp~CG~~~~ 32 (46)
T PRK00398 3 EYKCARCGREVELDEY--GTGVRCPYCGYRIL 32 (46)
T ss_pred EEECCCCCCEEEECCC--CCceECCCCCCeEE
Confidence 6899999998764322 12789999997665
No 24
>COG5082 AIR1 Arginine methyltransferase-interacting protein, contains RING Zn-finger [Posttranslational modification, protein turnover, chaperones / Intracellular trafficking and secretion]
Probab=45.32 E-value=9.3 Score=32.09 Aligned_cols=17 Identities=41% Similarity=0.780 Sum_probs=15.9
Q ss_pred eeeeeccCCCcccccC-C
Q psy12393 23 YLCHLCFVGGHYITDC-P 39 (155)
Q Consensus 23 y~ch~c~~~ghyi~dc-p 39 (155)
-+|-+|++.|||-.|| |
T Consensus 98 ~~C~~Cg~~GH~~~dC~P 115 (190)
T COG5082 98 KKCYNCGETGHLSRDCNP 115 (190)
T ss_pred cccccccccCccccccCc
Confidence 6899999999999999 5
No 25
>PF01096 TFIIS_C: Transcription factor S-II (TFIIS); InterPro: IPR001222 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 IIs (TFIIS). In eukaryotes the initiation of transcription of protein encoding genes by polymerase II (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 eight different proteins associate to form the general transcription factors: TFIIA, -IIB, -IID, -IIE, -IIF, -IIG, -IIH and -IIS []. During mRNA elongation, Pol II can encounter DNA sequences that cause reverse movement of the enzyme. Such backtracking involves extrusion of the RNA 3'-end into the pore, and can lead to transcriptional arrest. Escape from arrest requires cleavage of the extruded RNA with the help of TFIIS, which induces mRNA cleavage by enhancing the intrinsic nuclease activity of RNA polymerase (Pol) II, past template-encoded pause sites []. TFIIS extends from the polymerase surface via a pore to the internal active site. Two essential and invariant acidic residues in a TFIIS loop complement the Pol II active site and could position a metal ion and a water molecule for hydrolytic RNA cleavage. TFIIS also induces extensive structural changes in Pol II that would realign nucleic acids in the active centre. TFIIS is a protein of about 300 amino acids. It contains three regions: a variable N-terminal domain not required for TFIIS activity; a conserved central domain required for Pol II binding; and a conserved C-terminal C4-type zinc finger essential for RNA cleavage. The zinc finger folds in a conformation termed a zinc ribbon [] characterised by a three-stranded antiparallel beta-sheet and two beta-hairpins. A backbone model for Pol II-TFIIS complex was obtained from X-ray analysis. It shows that a beta hairpin protrudes from the zinc finger and complements the pol II active site []. Some viral proteins also contain the TFIIS zinc ribbon C-terminal domain. The Vaccinia virus protein, unlike its eukaryotic homologue, is an integral RNA polymerase subunit rather than a readily separable transcription factor []. More information about these proteins can be found at Protein of the Month: Zinc Fingers [].; GO: 0003676 nucleic acid binding, 0008270 zinc ion binding, 0006351 transcription, DNA-dependent; PDB: 3M4O_I 3S14_I 2E2J_I 4A3J_I 3HOZ_I 1TWA_I 3S1Q_I 3S1N_I 1TWG_I 3I4M_I ....
Probab=43.22 E-value=11 Score=23.42 Aligned_cols=13 Identities=31% Similarity=0.933 Sum_probs=10.9
Q ss_pred eeeecccCcCccc
Q psy12393 75 GEYKCSKCKRKWM 87 (155)
Q Consensus 75 G~F~Ck~C~~~Ws 87 (155)
-.|.|.+|+.+|.
T Consensus 27 ~fy~C~~C~~~wr 39 (39)
T PF01096_consen 27 LFYVCCNCGHRWR 39 (39)
T ss_dssp EEEEESSSTEEEE
T ss_pred EEEEeCCCCCeeC
Confidence 4689999999994
No 26
>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=41.55 E-value=7.1 Score=22.47 Aligned_cols=20 Identities=20% Similarity=0.466 Sum_probs=15.9
Q ss_pred eeeecccCcCccccceEEec
Q psy12393 75 GEYKCSKCKRKWMSGNSWAN 94 (155)
Q Consensus 75 G~F~Ck~C~~~WsSaNsWan 94 (155)
|.|.|..|+....|..+|..
T Consensus 2 ~~~~C~~C~~~~~~~~~~~~ 21 (35)
T smart00451 2 GGFYCKLCNVTFTDEISVEA 21 (35)
T ss_pred cCeEccccCCccCCHHHHHH
Confidence 56889999998887777743
No 27
>PF00220 Hormone_4: Neurohypophysial hormones, N-terminal Domain; InterPro: IPR022423 Oxytocin (or ocytocin) and vasopressin [] are small (nine amino acid residues), structurally and functionally related neurohypophysial peptide hormones. Oxytocin causes contraction of the smooth muscle of the uterus and of the mammary gland while vasopressin has a direct antidiuretic action on the kidney and also causes vasoconstriction of the peripheral vessels. Like the majority of active peptides, both hormones are synthesized as larger protein precursors that are enzymatically converted to their mature forms. Peptides belonging to this family are also found in birds, fish, reptiles and amphibians (mesotocin, isotocin, valitocin, glumitocin, aspargtocin, vasotocin, seritocin, asvatocin, phasvatocin), in worms (annetocin), octopi (cephalotocin), locust (locupressin or neuropeptide F1/F2) and in molluscs (conopressins G and S) []. The pattern developed to detect this category of peptides spans their entire sequence and includes four invariant amino acid residues. .; GO: 0005185 neurohypophyseal hormone activity, 0005576 extracellular region
Probab=37.93 E-value=13 Score=17.46 Aligned_cols=7 Identities=57% Similarity=1.697 Sum_probs=5.9
Q ss_pred ccccCCC
Q psy12393 34 YITDCPL 40 (155)
Q Consensus 34 yi~dcp~ 40 (155)
||..||.
T Consensus 2 ~i~nCP~ 8 (9)
T PF00220_consen 2 YIRNCPI 8 (9)
T ss_pred ccccCCC
Confidence 7999994
No 28
>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=37.59 E-value=7 Score=20.67 Aligned_cols=16 Identities=31% Similarity=0.800 Sum_probs=11.8
Q ss_pred eecccCcCccccceEE
Q psy12393 77 YKCSKCKRKWMSGNSW 92 (155)
Q Consensus 77 F~Ck~C~~~WsSaNsW 92 (155)
|.|+.|++...+...+
T Consensus 1 y~C~~C~~~f~~~~~l 16 (23)
T PF00096_consen 1 YKCPICGKSFSSKSNL 16 (23)
T ss_dssp EEETTTTEEESSHHHH
T ss_pred CCCCCCCCccCCHHHH
Confidence 7899999888765443
No 29
>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=37.49 E-value=22 Score=26.76 Aligned_cols=49 Identities=22% Similarity=0.274 Sum_probs=31.7
Q ss_pred hhhhhhhcCCCCCCCCCCCCcc----cceeeeecccCcCccccceEEecccccccccCcc
Q psy12393 50 RQLFLFQARPKGEGLTPYQGKK----RCFGEYKCSKCKRKWMSGNSWANMGQECIKCNIN 105 (155)
Q Consensus 50 r~~~~~~~rp~~~~~TPyQg~k----R~fG~F~Ck~C~~~WsSaNsWan~gQ~C~kC~~~ 105 (155)
-++|.|-+- .--|+..|-+ ..-+.++|+.|+..|..... .-.|-+|+..
T Consensus 43 ~L~faf~~~---~~~t~~ega~L~I~~~p~~~~C~~Cg~~~~~~~~----~~~CP~Cgs~ 95 (115)
T TIGR00100 43 QLQFAFEVV---REGTVAEGAKLNIEDEPVECECEDCSEEVSPEID----LYRCPKCHGI 95 (115)
T ss_pred HHHHHHHHH---hCCCccCCCEEEEEeeCcEEEcccCCCEEecCCc----CccCcCCcCC
Confidence 455666552 1136665532 45688999999998887532 3459999954
No 30
>PF13240 zinc_ribbon_2: zinc-ribbon domain
Probab=37.07 E-value=19 Score=20.38 Aligned_cols=22 Identities=18% Similarity=0.593 Sum_probs=14.0
Q ss_pred cccCcCccccceEEecccccccccCccc
Q psy12393 79 CSKCKRKWMSGNSWANMGQECIKCNINV 106 (155)
Q Consensus 79 Ck~C~~~WsSaNsWan~gQ~C~kC~~~v 106 (155)
|+.|+++=. ...++|..|+..+
T Consensus 2 Cp~CG~~~~------~~~~fC~~CG~~l 23 (23)
T PF13240_consen 2 CPNCGAEIE------DDAKFCPNCGTPL 23 (23)
T ss_pred CcccCCCCC------CcCcchhhhCCcC
Confidence 666765543 4467788887653
No 31
>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=36.80 E-value=13 Score=29.41 Aligned_cols=34 Identities=9% Similarity=0.256 Sum_probs=27.3
Q ss_pred eeecccCcCccccceEEecccccccccCcccccee
Q psy12393 76 EYKCSKCKRKWMSGNSWANMGQECIKCNINVYPHK 110 (155)
Q Consensus 76 ~F~Ck~C~~~WsSaNsWan~gQ~C~kC~~~vyPyr 110 (155)
+|.|+.|+.+|+.--|-. .+=.|..|+.....+-
T Consensus 109 ~Y~Cp~c~~r~tf~eA~~-~~F~Cp~Cg~~L~~~d 142 (158)
T TIGR00373 109 FFICPNMCVRFTFNEAME-LNFTCPRCGAMLDYLD 142 (158)
T ss_pred eEECCCCCcEeeHHHHHH-cCCcCCCCCCEeeecc
Confidence 589999999999877765 4788999998865543
No 32
>smart00440 ZnF_C2C2 C2C2 Zinc finger. Nucleic-acid-binding motif in transcriptional elongation factor TFIIS and RNA polymerases.
Probab=35.61 E-value=21 Score=22.41 Aligned_cols=24 Identities=38% Similarity=0.836 Sum_probs=17.4
Q ss_pred hhcCCCCCCCCCCCCcccceeeeecccCcCccc
Q psy12393 55 FQARPKGEGLTPYQGKKRCFGEYKCSKCKRKWM 87 (155)
Q Consensus 55 ~~~rp~~~~~TPyQg~kR~fG~F~Ck~C~~~Ws 87 (155)
++.|..-|+.|- .|.|.+|+.+|.
T Consensus 16 ~Q~RsaDE~mT~---------fy~C~~C~~~w~ 39 (40)
T smart00440 16 LQTRSADEPMTV---------FYVCTKCGHRWR 39 (40)
T ss_pred EcccCCCCCCeE---------EEEeCCCCCEeC
Confidence 455666665554 578999999996
No 33
>PF12874 zf-met: Zinc-finger of C2H2 type; PDB: 1ZU1_A 2KVG_A.
Probab=34.85 E-value=8.3 Score=20.79 Aligned_cols=17 Identities=29% Similarity=0.712 Sum_probs=13.3
Q ss_pred eecccCcCccccceEEe
Q psy12393 77 YKCSKCKRKWMSGNSWA 93 (155)
Q Consensus 77 F~Ck~C~~~WsSaNsWa 93 (155)
|.|..|+....|.+++.
T Consensus 1 ~~C~~C~~~f~s~~~~~ 17 (25)
T PF12874_consen 1 FYCDICNKSFSSENSLR 17 (25)
T ss_dssp EEETTTTEEESSHHHHH
T ss_pred CCCCCCCCCcCCHHHHH
Confidence 78999998888776654
No 34
>PRK06266 transcription initiation factor E subunit alpha; Validated
Probab=34.40 E-value=16 Score=29.50 Aligned_cols=34 Identities=15% Similarity=0.421 Sum_probs=27.8
Q ss_pred eeecccCcCccccceEEecccccccccCcccccee
Q psy12393 76 EYKCSKCKRKWMSGNSWANMGQECIKCNINVYPHK 110 (155)
Q Consensus 76 ~F~Ck~C~~~WsSaNsWan~gQ~C~kC~~~vyPyr 110 (155)
+|.|+.|+.+|+.--|-. .+-.|..|+.....+-
T Consensus 117 ~Y~Cp~C~~rytf~eA~~-~~F~Cp~Cg~~L~~~d 150 (178)
T PRK06266 117 FFFCPNCHIRFTFDEAME-YGFRCPQCGEMLEEYD 150 (178)
T ss_pred EEECCCCCcEEeHHHHhh-cCCcCCCCCCCCeecc
Confidence 689999999999877653 4678999998877664
No 35
>PRK00481 NAD-dependent deacetylase; Provisional
Probab=33.30 E-value=26 Score=28.86 Aligned_cols=39 Identities=18% Similarity=0.352 Sum_probs=29.2
Q ss_pred ceeeeecccCcCccccceEEecccccccccCccccceee
Q psy12393 73 CFGEYKCSKCKRKWMSGNSWANMGQECIKCNINVYPHKQ 111 (155)
Q Consensus 73 ~fG~F~Ck~C~~~WsSaNsWan~gQ~C~kC~~~vyPyrq 111 (155)
.+...+|.+|+..|..........-.|..|+..+.|.-+
T Consensus 119 ~~~~~~C~~C~~~~~~~~~~~~~~p~C~~Cgg~lrP~Vv 157 (242)
T PRK00481 119 SLLRARCTKCGQTYDLDEYLKPEPPRCPKCGGILRPDVV 157 (242)
T ss_pred CcCceeeCCCCCCcChhhhccCCCCCCCCCCCccCCCeE
Confidence 567789999999887666654444459999888877766
No 36
>PF13717 zinc_ribbon_4: zinc-ribbon domain
Probab=33.24 E-value=24 Score=21.68 Aligned_cols=12 Identities=33% Similarity=0.949 Sum_probs=10.7
Q ss_pred eeecccCcCccc
Q psy12393 76 EYKCSKCKRKWM 87 (155)
Q Consensus 76 ~F~Ck~C~~~Ws 87 (155)
..+|+.|+..|.
T Consensus 25 ~v~C~~C~~~f~ 36 (36)
T PF13717_consen 25 KVRCSKCGHVFF 36 (36)
T ss_pred EEECCCCCCEeC
Confidence 689999999994
No 37
>PRK00736 hypothetical protein; Provisional
Probab=33.05 E-value=30 Score=24.02 Aligned_cols=22 Identities=9% Similarity=0.208 Sum_probs=12.4
Q ss_pred hhhhhhhcc--cccccCCCCCCce
Q psy12393 2 IVDSLCDLH--LEKKSFKQPPSAY 23 (155)
Q Consensus 2 ~~~~~~~~~--~~~~~~~~pp~~y 23 (155)
|++.+.++. ....+.-.|||+|
T Consensus 45 L~~rl~~~~~~~~~~~~~~~PPHY 68 (68)
T PRK00736 45 LTERFLSLEEQAAPDVPVTKPPHW 68 (68)
T ss_pred HHHHHHHhccccCCCCCCCCcCCC
Confidence 344555443 2334456789988
No 38
>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=32.23 E-value=9.8 Score=20.87 Aligned_cols=17 Identities=18% Similarity=0.655 Sum_probs=13.3
Q ss_pred eecccCcCccccceEEe
Q psy12393 77 YKCSKCKRKWMSGNSWA 93 (155)
Q Consensus 77 F~Ck~C~~~WsSaNsWa 93 (155)
|.|..|++.+.+..+|.
T Consensus 2 ~~C~~C~~~F~~~~~l~ 18 (27)
T PF13912_consen 2 FECDECGKTFSSLSALR 18 (27)
T ss_dssp EEETTTTEEESSHHHHH
T ss_pred CCCCccCCccCChhHHH
Confidence 78999999888766553
No 39
>PRK12496 hypothetical protein; Provisional
Probab=31.72 E-value=34 Score=27.30 Aligned_cols=27 Identities=26% Similarity=0.548 Sum_probs=21.2
Q ss_pred eeecccCcCccccceEEecccccccccCccc
Q psy12393 76 EYKCSKCKRKWMSGNSWANMGQECIKCNINV 106 (155)
Q Consensus 76 ~F~Ck~C~~~WsSaNsWan~gQ~C~kC~~~v 106 (155)
.|+|+-|++.+.+.. ..++|..|+..+
T Consensus 127 ~~~C~gC~~~~~~~~----~~~~C~~CG~~~ 153 (164)
T PRK12496 127 RKVCKGCKKKYPEDY----PDDVCEICGSPV 153 (164)
T ss_pred eEECCCCCccccCCC----CCCcCCCCCChh
Confidence 478999999987432 357999999776
No 40
>PF11827 DUF3347: Protein of unknown function (DUF3347); InterPro: IPR021782 This family of proteins are functionally uncharacterised. This protein is found in bacteria. Proteins in this family are typically between 169 to 570 amino acids in length.
Probab=29.89 E-value=37 Score=27.19 Aligned_cols=30 Identities=23% Similarity=0.416 Sum_probs=25.9
Q ss_pred CcccccCCCCCCC--chhhHhhhhhhhcCCCCCCCCCCCCc
Q psy12393 32 GHYITDCPLFNMS--PFSKYRQLFLFQARPKGEGLTPYQGK 70 (155)
Q Consensus 32 ghyi~dcp~~~~~--~~~~~r~~~~~~~rp~~~~~TPyQg~ 70 (155)
.=|+.-|||-||. .| |+....+-.-||-|.
T Consensus 133 ~ly~~~CPMa~~~kGa~---------WLs~~~~I~NPYfG~ 164 (174)
T PF11827_consen 133 TLYVQYCPMAFNNKGAY---------WLSDSKEIKNPYFGD 164 (174)
T ss_pred cEEEEECCCccCCCCCe---------eCCCCCcCcCCCCch
Confidence 4599999998877 78 999999999999885
No 41
>PRK00564 hypA hydrogenase nickel incorporation protein; Provisional
Probab=29.82 E-value=38 Score=25.60 Aligned_cols=31 Identities=19% Similarity=0.344 Sum_probs=22.1
Q ss_pred cceeeeecccCcCccccceEEecccccccccCcc
Q psy12393 72 RCFGEYKCSKCKRKWMSGNSWANMGQECIKCNIN 105 (155)
Q Consensus 72 R~fG~F~Ck~C~~~WsSaNsWan~gQ~C~kC~~~ 105 (155)
..-+.++|..|++.|+.... ....|-+|+..
T Consensus 67 ~vp~~~~C~~Cg~~~~~~~~---~~~~CP~Cgs~ 97 (117)
T PRK00564 67 DEKVELECKDCSHVFKPNAL---DYGVCEKCHSK 97 (117)
T ss_pred ecCCEEEhhhCCCccccCCc---cCCcCcCCCCC
Confidence 45688999999998886421 12349999964
No 42
>PRK12380 hydrogenase nickel incorporation protein HybF; Provisional
Probab=29.57 E-value=31 Score=25.88 Aligned_cols=49 Identities=18% Similarity=0.152 Sum_probs=31.7
Q ss_pred hhhhhhhcCCCCCCCCCCCCc----ccceeeeecccCcCccccceEEecccccccccCcc
Q psy12393 50 RQLFLFQARPKGEGLTPYQGK----KRCFGEYKCSKCKRKWMSGNSWANMGQECIKCNIN 105 (155)
Q Consensus 50 r~~~~~~~rp~~~~~TPyQg~----kR~fG~F~Ck~C~~~WsSaNsWan~gQ~C~kC~~~ 105 (155)
-++|.|-+= ..-|+.+|- +..-+.++|..|+..|..... .-.|-+|+..
T Consensus 43 ~L~f~f~~~---~~~T~~egA~L~I~~vp~~~~C~~Cg~~~~~~~~----~~~CP~Cgs~ 95 (113)
T PRK12380 43 AVRFSFEIV---CHGTVAQGCDLHIVYKPAQAWCWDCSQVVEIHQH----DAQCPHCHGE 95 (113)
T ss_pred HHHHHHHHH---hCCCccCCCEEEEEeeCcEEEcccCCCEEecCCc----CccCcCCCCC
Confidence 456666542 123677664 346789999999988886531 1239999953
No 43
>PF13719 zinc_ribbon_5: zinc-ribbon domain
Probab=29.13 E-value=31 Score=21.18 Aligned_cols=13 Identities=23% Similarity=0.721 Sum_probs=11.3
Q ss_pred eeeecccCcCccc
Q psy12393 75 GEYKCSKCKRKWM 87 (155)
Q Consensus 75 G~F~Ck~C~~~Ws 87 (155)
+..+|+.|+..|.
T Consensus 24 ~~vrC~~C~~~f~ 36 (37)
T PF13719_consen 24 RKVRCPKCGHVFR 36 (37)
T ss_pred cEEECCCCCcEee
Confidence 5789999999985
No 44
>COG3791 Uncharacterized conserved protein [Function unknown]
Probab=28.62 E-value=19 Score=27.46 Aligned_cols=14 Identities=14% Similarity=0.351 Sum_probs=10.8
Q ss_pred ccccccCcccccee
Q psy12393 97 QECIKCNINVYPHK 110 (155)
Q Consensus 97 Q~C~kC~~~vyPyr 110 (155)
.+|..|++.++=..
T Consensus 70 ~FC~~CGs~l~~~~ 83 (133)
T COG3791 70 GFCPTCGSPLFWRG 83 (133)
T ss_pred eecccCCCceEEec
Confidence 79999997776443
No 45
>COG1594 RPB9 DNA-directed RNA polymerase, subunit M/Transcription elongation factor TFIIS [Transcription]
Probab=28.57 E-value=29 Score=26.35 Aligned_cols=27 Identities=33% Similarity=0.737 Sum_probs=21.3
Q ss_pred hhhhcCCCCCCCCCCCCcccceeeeecccCcCcccc
Q psy12393 53 FLFQARPKGEGLTPYQGKKRCFGEYKCSKCKRKWMS 88 (155)
Q Consensus 53 ~~~~~rp~~~~~TPyQg~kR~fG~F~Ck~C~~~WsS 88 (155)
|+++.|---|+.|- .|.|..|+++|..
T Consensus 86 ~~~QtRsaDEp~T~---------Fy~C~~Cg~~wre 112 (113)
T COG1594 86 WQLQTRSADEPETR---------FYKCTRCGYRWRE 112 (113)
T ss_pred EeeehhccCCCceE---------EEEecccCCEeec
Confidence 66777877777776 3789999999963
No 46
>KOG4400|consensus
Probab=27.85 E-value=41 Score=28.02 Aligned_cols=18 Identities=39% Similarity=0.693 Sum_probs=15.9
Q ss_pred eeeeeccCCCcccccCCC
Q psy12393 23 YLCHLCFVGGHYITDCPL 40 (155)
Q Consensus 23 y~ch~c~~~ghyi~dcp~ 40 (155)
=.|=.|++.||+..|||.
T Consensus 144 ~~Cy~Cg~~GH~s~~C~~ 161 (261)
T KOG4400|consen 144 AKCYSCGEQGHISDDCPE 161 (261)
T ss_pred CccCCCCcCCcchhhCCC
Confidence 449999999999999995
No 47
>PF14311 DUF4379: Domain of unknown function (DUF4379)
Probab=26.35 E-value=38 Score=21.95 Aligned_cols=27 Identities=30% Similarity=0.762 Sum_probs=17.6
Q ss_pred eeecccCcCccccceEEe-ccccccccc
Q psy12393 76 EYKCSKCKRKWMSGNSWA-NMGQECIKC 102 (155)
Q Consensus 76 ~F~Ck~C~~~WsSaNsWa-n~gQ~C~kC 102 (155)
.++|+.|+.+|.+.=+-- ..+..|-.|
T Consensus 28 ~W~C~~Cgh~w~~~v~~R~~~~~~CP~C 55 (55)
T PF14311_consen 28 WWKCPKCGHEWKASVNDRTRRGKGCPYC 55 (55)
T ss_pred EEECCCCCCeeEccHhhhccCCCCCCCC
Confidence 589999999998643222 345556544
No 48
>PF14787 zf-CCHC_5: GAG-polyprotein viral zinc-finger; PDB: 1CL4_A 1DSV_A.
Probab=26.13 E-value=29 Score=22.28 Aligned_cols=18 Identities=33% Similarity=0.670 Sum_probs=11.6
Q ss_pred eeeeeccCCCcccccCCC
Q psy12393 23 YLCHLCFVGGHYITDCPL 40 (155)
Q Consensus 23 y~ch~c~~~ghyi~dcp~ 40 (155)
=+|.+|.+..|.-+||=.
T Consensus 3 ~~CprC~kg~Hwa~~C~s 20 (36)
T PF14787_consen 3 GLCPRCGKGFHWASECRS 20 (36)
T ss_dssp -C-TTTSSSCS-TTT---
T ss_pred ccCcccCCCcchhhhhhh
Confidence 379999999999999974
No 49
>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=26.07 E-value=38 Score=20.21 Aligned_cols=13 Identities=38% Similarity=1.224 Sum_probs=11.0
Q ss_pred eeeecccCcCccc
Q psy12393 75 GEYKCSKCKRKWM 87 (155)
Q Consensus 75 G~F~Ck~C~~~Ws 87 (155)
+.++|+.|+..|.
T Consensus 24 ~~v~C~~C~~~~~ 36 (38)
T TIGR02098 24 GKVRCGKCGHVWY 36 (38)
T ss_pred CEEECCCCCCEEE
Confidence 3789999999885
No 50
>cd02336 ZZ_RSC8 Zinc finger, ZZ type. Zinc finger present in RSC8 and related proteins. RSC8 is a component of the RSC complex, which is closely related to the SWI/SNF complex and is involved in remodeling chromatin structure. The ZZ motif coordinates a zinc ion and most likely participates in ligand binding or molecular scaffolding.
Probab=25.00 E-value=21 Score=23.27 Aligned_cols=16 Identities=25% Similarity=0.686 Sum_probs=13.2
Q ss_pred CceeeeeccCCCcccc
Q psy12393 21 SAYLCHLCFVGGHYIT 36 (155)
Q Consensus 21 ~~y~ch~c~~~ghyi~ 36 (155)
-.=+|..||..|++..
T Consensus 22 ~~dLC~~CF~~G~f~~ 37 (45)
T cd02336 22 KYDLCPSCYQEGRFPS 37 (45)
T ss_pred ccccChHHHhCcCCCC
Confidence 4568999999999854
No 51
>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=24.05 E-value=38 Score=25.71 Aligned_cols=23 Identities=22% Similarity=0.598 Sum_probs=11.5
Q ss_pred ccccccccCccccceeeecccCC
Q psy12393 95 MGQECIKCNINVYPHKQRPLEKP 117 (155)
Q Consensus 95 ~gQ~C~kC~~~vyPyrq~~l~~~ 117 (155)
+++.|.+|++.+|=-...||.||
T Consensus 8 tKR~Cp~CG~kFYDLnk~PivCP 30 (108)
T PF09538_consen 8 TKRTCPSCGAKFYDLNKDPIVCP 30 (108)
T ss_pred CcccCCCCcchhccCCCCCccCC
Confidence 34555555555555544554443
No 52
>COG4332 Uncharacterized protein conserved in bacteria [Function unknown]
Probab=23.98 E-value=51 Score=28.12 Aligned_cols=52 Identities=29% Similarity=0.565 Sum_probs=37.2
Q ss_pred cccCCCCCCceeeeeccCCCcccccCCCCCCCchhhHhhhhhhhcCCCCCCCCCCCCcc-cceeeeecccCcCccc
Q psy12393 13 KKSFKQPPSAYLCHLCFVGGHYITDCPLFNMSPFSKYRQLFLFQARPKGEGLTPYQGKK-RCFGEYKCSKCKRKWM 87 (155)
Q Consensus 13 ~~~~~~pp~~y~ch~c~~~ghyi~dcp~~~~~~~~~~r~~~~~~~rp~~~~~TPyQg~k-R~fG~F~Ck~C~~~Ws 87 (155)
-.|-..|||.-.|..|+.+--|+ |- +.-...=||+. -.+--|+|..|+++|.
T Consensus 8 Itp~~~pq~~k~C~~Cg~kr~f~--cS---------------------g~fRvNAq~K~LDvWlIYkC~~Cd~tWN 60 (203)
T COG4332 8 ITPVGAPQPAKRCNSCGVKRAFT--CS---------------------GKFRVNAQGKVLDVWLIYKCTHCDYTWN 60 (203)
T ss_pred eccccCChhhhhCcccCCcceee--ec---------------------CcEEEcCCCcEEEEEEEEEeeccCCccc
Confidence 35778899999999999887765 22 12123345433 2788999999999995
No 53
>PF04828 GFA: Glutathione-dependent formaldehyde-activating enzyme; InterPro: IPR006913 The GFA family consists mainly of glutathione-dependent formaldehyde-activating enzymes, but also includes centromere protein V and a fission yeast protein described as uncharacterised lyase. Glutathione-dependent formaldehyde-activating enzyme catalyse the condensation of formaldehyde and glutathione to S-hydroxymethylglutathione. All known members of this family contain 5 strongly conserved cysteine residues.; GO: 0016846 carbon-sulfur lyase activity, 0008152 metabolic process; PDB: 3FAC_B 1XA8_A 1X6M_B.
Probab=23.31 E-value=30 Score=23.01 Aligned_cols=13 Identities=15% Similarity=0.521 Sum_probs=9.3
Q ss_pred ccccccCccccce
Q psy12393 97 QECIKCNINVYPH 109 (155)
Q Consensus 97 Q~C~kC~~~vyPy 109 (155)
.+|.+|++.++=.
T Consensus 49 ~FC~~CGs~l~~~ 61 (92)
T PF04828_consen 49 YFCPTCGSPLFSE 61 (92)
T ss_dssp EEETTT--EEEEE
T ss_pred cccCCCCCeeecc
Confidence 7999999999855
No 54
>PRK00295 hypothetical protein; Provisional
Probab=23.10 E-value=53 Score=22.79 Aligned_cols=22 Identities=14% Similarity=0.350 Sum_probs=12.2
Q ss_pred hhhhhhhcc--cccccCCCCCCce
Q psy12393 2 IVDSLCDLH--LEKKSFKQPPSAY 23 (155)
Q Consensus 2 ~~~~~~~~~--~~~~~~~~pp~~y 23 (155)
|++++.++. +.....-.|||+|
T Consensus 45 L~~rl~~~~~~~~~~~~e~~PPHY 68 (68)
T PRK00295 45 LIKRQEEMVGQFGSFEEEAPPPHY 68 (68)
T ss_pred HHHHHHHhhccCCCCCCCCCcCCC
Confidence 344555543 1233445799988
No 55
>PHA00732 hypothetical protein
Probab=22.62 E-value=22 Score=25.37 Aligned_cols=31 Identities=19% Similarity=0.354 Sum_probs=21.4
Q ss_pred eecccCcCccccceEEec------ccccccccCcccc
Q psy12393 77 YKCSKCKRKWMSGNSWAN------MGQECIKCNINVY 107 (155)
Q Consensus 77 F~Ck~C~~~WsSaNsWan------~gQ~C~kC~~~vy 107 (155)
|.|..|++.+.+..+... .+..|..|++...
T Consensus 2 y~C~~Cgk~F~s~s~Lk~H~r~~H~~~~C~~CgKsF~ 38 (79)
T PHA00732 2 FKCPICGFTTVTLFALKQHARRNHTLTKCPVCNKSYR 38 (79)
T ss_pred ccCCCCCCccCCHHHHHHHhhcccCCCccCCCCCEeC
Confidence 679999999887554433 1357888887654
No 56
>KOG4602|consensus
Probab=22.50 E-value=42 Score=30.14 Aligned_cols=22 Identities=41% Similarity=0.839 Sum_probs=18.7
Q ss_pred ceeeeeccCCC---cccccCCCCCC
Q psy12393 22 AYLCHLCFVGG---HYITDCPLFNM 43 (155)
Q Consensus 22 ~y~ch~c~~~g---hyi~dcp~~~~ 43 (155)
.|.|.+|+..| |-|+-||.-+.
T Consensus 268 ~YVCPiCGATgDnAHTiKyCPl~~~ 292 (318)
T KOG4602|consen 268 SYVCPICGATGDNAHTIKYCPLAFG 292 (318)
T ss_pred hhcCccccccCCcccceecccccCC
Confidence 59999999988 89999996443
No 57
>smart00531 TFIIE Transcription initiation factor IIE.
Probab=22.16 E-value=32 Score=26.59 Aligned_cols=35 Identities=23% Similarity=0.483 Sum_probs=25.0
Q ss_pred eeecccCcCccccceEEec---cc-ccccccCcccccee
Q psy12393 76 EYKCSKCKRKWMSGNSWAN---MG-QECIKCNINVYPHK 110 (155)
Q Consensus 76 ~F~Ck~C~~~WsSaNsWan---~g-Q~C~kC~~~vyPyr 110 (155)
.|.|+.|+.+|+..-+=.. .+ -.|..|+..+..+-
T Consensus 99 ~Y~Cp~C~~~y~~~ea~~~~d~~~~f~Cp~Cg~~l~~~d 137 (147)
T smart00531 99 YYKCPNCQSKYTFLEANQLLDMDGTFTCPRCGEELEEDD 137 (147)
T ss_pred EEECcCCCCEeeHHHHHHhcCCCCcEECCCCCCEEEEcC
Confidence 6999999999996432211 12 67999998887654
No 58
>PF06836 DUF1240: Protein of unknown function (DUF1240); InterPro: IPR010665 This family consists of a number of hypothetical putative membrane proteins which seem to be specific to Yersinia pestis. The function of this family is unknown.
Probab=21.31 E-value=61 Score=24.26 Aligned_cols=27 Identities=30% Similarity=0.543 Sum_probs=21.5
Q ss_pred cceeeeecccCcCccccceEEeccccccc
Q psy12393 72 RCFGEYKCSKCKRKWMSGNSWANMGQECI 100 (155)
Q Consensus 72 R~fG~F~Ck~C~~~WsSaNsWan~gQ~C~ 100 (155)
+..|+..|.+= .|+|.|.|+-..-.|+
T Consensus 69 ~~~gY~~C~k~--Swmspn~YVKdi~LCk 95 (95)
T PF06836_consen 69 KSEGYLVCPKI--SWMSPNTYVKDISLCK 95 (95)
T ss_pred ccCCcEECCcc--cccCCceEECchhhcC
Confidence 46899999764 7999999988766663
No 59
>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=20.11 E-value=41 Score=25.08 Aligned_cols=49 Identities=16% Similarity=0.338 Sum_probs=27.0
Q ss_pred hhhhhhhcCCCCCCCCCCCCc----ccceeeeecccCcCccccceEEecccccccccCcc
Q psy12393 50 RQLFLFQARPKGEGLTPYQGK----KRCFGEYKCSKCKRKWMSGNSWANMGQECIKCNIN 105 (155)
Q Consensus 50 r~~~~~~~rp~~~~~TPyQg~----kR~fG~F~Ck~C~~~WsSaNsWan~gQ~C~kC~~~ 105 (155)
.++|.|.+--+ -|+..|- ...-+.++|..|+..|.....- -.|-.|+..
T Consensus 43 ~L~f~f~~~~~---~T~~e~a~L~Ie~~p~~~~C~~Cg~~~~~~~~~----~~CP~Cgs~ 95 (113)
T PF01155_consen 43 ALRFAFEVLAE---GTILEGAELEIEEVPARARCRDCGHEFEPDEFD----FSCPRCGSP 95 (113)
T ss_dssp HHHHHHHHHHC---CSTTTT-EEEEEEE--EEEETTTS-EEECHHCC----HH-SSSSSS
T ss_pred HHHHHHHHHhC---CCCccCCEEEEEecCCcEECCCCCCEEecCCCC----CCCcCCcCC
Confidence 34455543322 2566553 2456789999999999754332 449999865
No 60
>smart00291 ZnF_ZZ Zinc-binding domain, present in Dystrophin, CREB-binding protein. Putative zinc-binding domain present in dystrophin-like proteins, and CREB-binding protein/p300 homologues. The ZZ in dystrophin appears to bind calmodulin. A missense mutation of one of the conserved cysteines in dystrophin results in a patient with Duchenne muscular dystrophy [3].
Probab=20.06 E-value=1.2e+02 Score=18.98 Aligned_cols=34 Identities=26% Similarity=0.500 Sum_probs=22.1
Q ss_pred cccccccCccccceeeecccCCCCCCCCCCCCCChhhhhHHHhhcc
Q psy12393 96 GQECIKCNINVYPHKQRPLEKPDGLDVSDQSKVHPMYLCEKCKQLG 141 (155)
Q Consensus 96 gQ~C~kC~~~vyPyrq~~l~~~~k~~~~d~krPHpQ~LCgkCK~lg 141 (155)
+..|..|+..|.-.+.+-+.+++ -+||..|-..|
T Consensus 4 ~~~C~~C~~~i~g~ry~C~~C~d------------~dlC~~Cf~~~ 37 (44)
T smart00291 4 SYSCDTCGKPIVGVRYHCLVCPD------------YDLCQSCFAKG 37 (44)
T ss_pred CcCCCCCCCCCcCCEEECCCCCC------------ccchHHHHhCc
Confidence 34577777777666666444443 47888887755
Done!