Query psy4296
Match_columns 103
No_of_seqs 141 out of 621
Neff 6.2
Searched_HMMs 46136
Date Fri Aug 16 21:55:30 2013
Command hhsearch -i /work/01045/syshi/Psyhhblits/psy4296.a3m -d /work/01045/syshi/HHdatabase/Cdd.hhm -o /work/01045/syshi/hhsearch_cdd/4296hhsearch_cdd -cpu 12 -v 0
No Hit Prob E-value P-value Score SS Cols Query HMM Template HMM
1 KOG1492|consensus 99.6 3.3E-16 7.2E-21 119.1 1.8 80 16-97 217-296 (377)
2 KOG1040|consensus 99.6 1E-15 2.2E-20 120.1 4.0 83 18-100 59-145 (325)
3 COG5084 YTH1 Cleavage and poly 98.9 1.1E-09 2.3E-14 85.0 5.0 76 21-96 90-170 (285)
4 KOG1492|consensus 98.8 2E-09 4.4E-14 82.2 2.3 68 16-84 240-312 (377)
5 KOG1040|consensus 98.7 1.4E-08 3E-13 80.0 2.9 82 14-100 82-169 (325)
6 KOG2494|consensus 98.4 8.8E-08 1.9E-12 75.3 1.4 55 31-86 35-95 (331)
7 smart00356 ZnF_C3H1 zinc finge 98.2 7.8E-07 1.7E-11 45.2 2.2 24 32-55 3-26 (27)
8 PF00642 zf-CCCH: Zinc finger 98.2 2.1E-07 4.6E-12 48.3 -0.3 24 32-55 2-26 (27)
9 COG5084 YTH1 Cleavage and poly 98.2 2.6E-06 5.7E-11 66.2 4.7 73 13-85 108-190 (285)
10 KOG4791|consensus 98.1 8.4E-07 1.8E-11 73.3 1.5 68 17-85 14-85 (667)
11 KOG1677|consensus 98.0 3.5E-06 7.6E-11 65.3 3.1 55 32-86 131-203 (332)
12 KOG1763|consensus 97.9 2E-06 4.3E-11 67.3 -0.2 57 31-87 90-193 (343)
13 KOG1595|consensus 97.4 0.00013 2.9E-09 60.7 3.2 64 20-86 212-293 (528)
14 PF00642 zf-CCCH: Zinc finger 97.2 6.2E-05 1.3E-09 38.9 -0.3 24 60-83 2-26 (27)
15 PF14608 zf-CCCH_2: Zinc finge 97.2 0.0002 4.4E-09 34.3 1.6 18 35-54 1-18 (19)
16 KOG4791|consensus 97.2 8.2E-05 1.8E-09 61.8 -0.0 51 33-84 3-54 (667)
17 smart00356 ZnF_C3H1 zinc finge 97.0 0.00065 1.4E-08 34.1 2.3 23 60-83 3-26 (27)
18 KOG2185|consensus 96.7 0.00067 1.5E-08 55.4 1.2 26 32-57 139-164 (486)
19 COG5252 Uncharacterized conser 96.6 0.0004 8.6E-09 53.3 -0.9 56 31-86 83-177 (299)
20 PF10650 zf-C3H1: Putative zin 96.4 0.0021 4.5E-08 32.4 1.5 21 63-83 2-22 (23)
21 KOG2494|consensus 96.3 0.0039 8.4E-08 49.5 3.4 43 15-58 43-95 (331)
22 KOG2333|consensus 95.4 0.0074 1.6E-07 50.6 1.6 51 33-83 76-137 (614)
23 PF14608 zf-CCCH_2: Zinc finge 95.2 0.014 3.1E-07 27.8 1.5 17 63-82 1-18 (19)
24 PF10650 zf-C3H1: Putative zin 95.0 0.013 2.9E-07 29.4 1.2 21 34-55 1-22 (23)
25 KOG1039|consensus 94.8 0.012 2.6E-07 47.0 1.0 25 34-58 9-33 (344)
26 KOG1677|consensus 94.1 0.03 6.5E-07 43.3 1.9 39 19-57 147-202 (332)
27 KOG1595|consensus 94.1 0.055 1.2E-06 45.4 3.4 49 32-84 200-259 (528)
28 COG5063 CTH1 CCCH-type Zn-fing 93.2 0.076 1.7E-06 42.2 2.6 51 34-84 231-298 (351)
29 KOG1039|consensus 92.7 0.046 9.9E-07 43.8 0.9 32 54-86 1-33 (344)
30 COG5063 CTH1 CCCH-type Zn-fing 91.5 0.31 6.8E-06 38.8 4.2 56 31-86 272-340 (351)
31 COG5152 Uncharacterized conser 90.7 0.092 2E-06 39.7 0.5 27 32-58 140-167 (259)
32 KOG0153|consensus 90.5 0.13 2.9E-06 41.4 1.3 27 31-57 159-185 (377)
33 KOG2185|consensus 90.3 0.12 2.7E-06 42.5 1.0 61 20-84 99-163 (486)
34 KOG3702|consensus 90.3 0.55 1.2E-05 40.6 4.9 74 8-85 543-646 (681)
35 KOG0153|consensus 81.0 1 2.2E-05 36.5 1.7 25 61-86 161-186 (377)
36 KOG3702|consensus 79.9 2.1 4.5E-05 37.2 3.4 60 21-86 525-607 (681)
37 KOG1813|consensus 78.8 0.67 1.4E-05 36.7 0.1 26 32-57 185-211 (313)
38 KOG2333|consensus 71.7 2.4 5.3E-05 36.0 1.6 35 20-54 93-136 (614)
39 COG5175 MOT2 Transcriptional r 71.5 1.6 3.5E-05 35.5 0.6 25 62-86 203-227 (480)
40 KOG2202|consensus 70.1 2.4 5.3E-05 32.8 1.3 49 9-59 130-178 (260)
41 COG5152 Uncharacterized conser 68.5 1.9 4E-05 32.8 0.3 25 62-86 142-167 (259)
42 KOG1763|consensus 66.8 2 4.3E-05 34.2 0.2 24 60-84 91-115 (343)
43 COG5175 MOT2 Transcriptional r 64.6 2.5 5.3E-05 34.5 0.3 28 32-60 201-229 (480)
44 PRK13666 hypothetical protein; 50.8 5.2 0.00011 26.4 0.0 16 88-103 35-50 (92)
45 KOG1813|consensus 40.6 9.6 0.00021 30.3 0.1 26 63-88 188-214 (313)
46 KOG2202|consensus 37.8 15 0.00033 28.5 0.8 23 62-85 153-176 (260)
47 PF07408 DUF1507: Protein of u 29.8 5.4 0.00012 26.3 -2.4 15 89-103 34-48 (90)
48 KOG2068|consensus 26.7 34 0.00074 27.5 1.1 27 61-87 162-188 (327)
49 COG4838 Uncharacterized protei 22.9 28 0.0006 22.7 -0.0 17 87-103 34-50 (92)
50 PF03194 LUC7: LUC7 N_terminus 21.2 32 0.00068 26.3 -0.0 16 31-46 28-43 (254)
No 1
>KOG1492|consensus
Probab=99.59 E-value=3.3e-16 Score=119.13 Aligned_cols=80 Identities=24% Similarity=0.593 Sum_probs=75.1
Q ss_pred CCCCCCCCCCCCCCCCCcccccccccCCCCCCCCCCCCccCCCCcccccccccccccCCCCCCCCCCCCCCCCCcCcHHH
Q psy4296 16 APGVLVPFPLRHITGDRSVVCKHWLRGLCKKGDQCEFLHEYDMTKMPECYFYSRFNACHNKECPFLHIDPDSMIEASVGM 95 (103)
Q Consensus 16 ~~g~g~~C~f~H~~~~~~~vC~~fl~G~C~~Gd~C~f~H~~~~~~~p~C~~f~~~G~C~~~~C~y~H~~~~~~~~~C~~f 95 (103)
..|+|.+|+|.|++ .+..+|..||+|.|.+.+.|.++|++++++.|.|+||+- |.|.+++|+|.|+.-++.+++|.+|
T Consensus 217 icgkgaacrfvhep-trkticpkflngrcnkaedcnlsheldprripacryfll-gkcnnpncryvhihysenapicfef 294 (377)
T KOG1492|consen 217 ICGKGAACRFVHEP-TRKTICPKFLNGRCNKAEDCNLSHELDPRRIPACRYFLL-GKCNNPNCRYVHIHYSENAPICFEF 294 (377)
T ss_pred cccCCceeeeeccc-cccccChHHhcCccCchhcCCcccccCccccchhhhhhh-ccCCCCCceEEEEeecCCCceeeee
Confidence 35678999999996 789999999999999999999999999999999999998 9999999999999999999999988
Q ss_pred Hh
Q psy4296 96 VH 97 (103)
Q Consensus 96 ~~ 97 (103)
+.
T Consensus 295 ak 296 (377)
T KOG1492|consen 295 AK 296 (377)
T ss_pred hh
Confidence 75
No 2
>KOG1040|consensus
Probab=99.58 E-value=1e-15 Score=120.13 Aligned_cols=83 Identities=53% Similarity=0.959 Sum_probs=75.5
Q ss_pred CCCCCCCCCCCC---CCCcccccccccCCCCCCCCCCCCccCCCCcccccccccccccCCC-CCCCCCCCCCCCCCcCcH
Q psy4296 18 GVLVPFPLRHIT---GDRSVVCKHWLRGLCKKGDQCEFLHEYDMTKMPECYFYSRFNACHN-KECPFLHIDPDSMIEASV 93 (103)
Q Consensus 18 g~g~~C~f~H~~---~~~~~vC~~fl~G~C~~Gd~C~f~H~~~~~~~p~C~~f~~~G~C~~-~~C~y~H~~~~~~~~~C~ 93 (103)
+++..|+.+|.. +++..||+|||+|.|++||.|.|+|++++.++++|.||...|.|++ .+|+|.|+.|++..++|.
T Consensus 59 ~~~~~~~~~~~~~~~~~~~~vcK~~l~glC~kgD~C~Flhe~~~~k~rec~ff~~~g~c~~~~~c~y~h~dpqt~~k~c~ 138 (325)
T KOG1040|consen 59 ERGPICPKSHNDVSDSRGKVVCKHWLRGLCKKGDQCEFLHEYDLTKMRECKFFSLFGECTNGKDCPYLHGDPQTAIKKCK 138 (325)
T ss_pred cCCCCCccccCCccccCCceeehhhhhhhhhccCcCcchhhhhhcccccccccccccccccccCCcccCCChhhhhhccc
Confidence 345889999997 6789999999999999999999999999999999999999999999 699999999999999998
Q ss_pred HHHhhhc
Q psy4296 94 GMVHRVD 100 (103)
Q Consensus 94 ~f~~~~~ 100 (103)
.+..+..
T Consensus 139 ~~~~g~c 145 (325)
T KOG1040|consen 139 WYKEGFC 145 (325)
T ss_pred hhhhccC
Confidence 7766654
No 3
>COG5084 YTH1 Cleavage and polyadenylation specificity factor (CPSF) Clipper subunit and related makorin family Zn-finger proteins [General function prediction only]
Probab=98.94 E-value=1.1e-09 Score=84.99 Aligned_cols=76 Identities=43% Similarity=0.821 Sum_probs=68.5
Q ss_pred CCCCCCCCC--CCCcccccccccCCCCCCCCCCCCccCCCCc--ccccccccccccCCC-CCCCCCCCCCCCCCcCcHHH
Q psy4296 21 VPFPLRHIT--GDRSVVCKHWLRGLCKKGDQCEFLHEYDMTK--MPECYFYSRFNACHN-KECPFLHIDPDSMIEASVGM 95 (103)
Q Consensus 21 ~~C~f~H~~--~~~~~vC~~fl~G~C~~Gd~C~f~H~~~~~~--~p~C~~f~~~G~C~~-~~C~y~H~~~~~~~~~C~~f 95 (103)
.++++.|.. ..+..+|++|+.|.|..+..|.|+|+++..+ ++.|++|...|.|+. ..|.|.|+.|+.....|..+
T Consensus 90 ~s~~~~~~~~~~~s~V~c~~~~~g~c~s~~~c~~lh~~d~~~s~~~~c~~Fs~~G~cs~g~~c~~~h~dp~~~~~~~~~~ 169 (285)
T COG5084 90 LSTPNNHVNPVLSSSVVCKFFLRGLCKSGFSCEFLHEYDLRSSQGPPCRSFSLKGSCSSGPSCGYSHIDPDSFAGNCDQY 169 (285)
T ss_pred ccCCccccCccccCCcccchhccccCcCCCccccccCCCcccccCCCcccccccceeccCCCCCccccCccccccccccc
Confidence 478999986 3688899999999999999999999999888 999999955599999 49999999999999999877
Q ss_pred H
Q psy4296 96 V 96 (103)
Q Consensus 96 ~ 96 (103)
.
T Consensus 170 ~ 170 (285)
T COG5084 170 S 170 (285)
T ss_pred C
Confidence 6
No 4
>KOG1492|consensus
Probab=98.81 E-value=2e-09 Score=82.21 Aligned_cols=68 Identities=24% Similarity=0.498 Sum_probs=60.8
Q ss_pred CCCCC---CCCCCCCCC-CCCcccccccccCCCCCCCCCCCCccCCCCcccccccccccccCCCC-CCCCCCCC
Q psy4296 16 APGVL---VPFPLRHIT-GDRSVVCKHWLRGLCKKGDQCEFLHEYDMTKMPECYFYSRFNACHNK-ECPFLHID 84 (103)
Q Consensus 16 ~~g~g---~~C~f~H~~-~~~~~vC~~fl~G~C~~Gd~C~f~H~~~~~~~p~C~~f~~~G~C~~~-~C~y~H~~ 84 (103)
..|++ +.|.++|+- +++.+.|||||.|.|.+. +|+|.|.--.++.|+|.-|.++|+|..+ .|.-.|+.
T Consensus 240 lngrcnkaedcnlsheldprripacryfllgkcnnp-ncryvhihysenapicfefakygfcelgtscknqhil 312 (377)
T KOG1492|consen 240 LNGRCNKAEDCNLSHELDPRRIPACRYFLLGKCNNP-NCRYVHIHYSENAPICFEFAKYGFCELGTSCKNQHIL 312 (377)
T ss_pred hcCccCchhcCCcccccCccccchhhhhhhccCCCC-CceEEEEeecCCCceeeeehhcceeccccccccceee
Confidence 45555 899999995 689999999999999986 7999999888999999999999999996 99999974
No 5
>KOG1040|consensus
Probab=98.66 E-value=1.4e-08 Score=80.05 Aligned_cols=82 Identities=20% Similarity=0.347 Sum_probs=67.0
Q ss_pred CcCCCCC---CCCCCCCCCC-CCcccccccc-cCCCCCCCCCCCCccCCCCcccccccccccccCCC-CCCCCCCCCCCC
Q psy4296 14 FQAPGVL---VPFPLRHITG-DRSVVCKHWL-RGLCKKGDQCEFLHEYDMTKMPECYFYSRFNACHN-KECPFLHIDPDS 87 (103)
Q Consensus 14 f~~~g~g---~~C~f~H~~~-~~~~vC~~fl-~G~C~~Gd~C~f~H~~~~~~~p~C~~f~~~G~C~~-~~C~y~H~~~~~ 87 (103)
|+..|.+ +.|.|+|+.. .+.+.|.||. .|.|.++.+|+|.|....+....|.+|.+ |.|.. +.|++.|+..
T Consensus 82 ~~l~glC~kgD~C~Flhe~~~~k~rec~ff~~~g~c~~~~~c~y~h~dpqt~~k~c~~~~~-g~c~~g~~c~~~h~~~-- 158 (325)
T KOG1040|consen 82 HWLRGLCKKGDQCEFLHEYDLTKMRECKFFSLFGECTNGKDCPYLHGDPQTAIKKCKWYKE-GFCRGGPSCKKRHERK-- 158 (325)
T ss_pred hhhhhhhhccCcCcchhhhhhcccccccccccccccccccCCcccCCChhhhhhccchhhh-ccCCCcchhhhhhhcc--
Confidence 6666664 9999999863 4677886666 59999999999999876677888999999 99999 4999999976
Q ss_pred CCcCcHHHHhhhc
Q psy4296 88 MIEASVGMVHRVD 100 (103)
Q Consensus 88 ~~~~C~~f~~~~~ 100 (103)
..|...+.++.
T Consensus 159 --~~c~~y~~gfC 169 (325)
T KOG1040|consen 159 --VLCPPYNAGFC 169 (325)
T ss_pred --cCCCchhhhhc
Confidence 57777766654
No 6
>KOG2494|consensus
Probab=98.41 E-value=8.8e-08 Score=75.33 Aligned_cols=55 Identities=27% Similarity=0.716 Sum_probs=46.0
Q ss_pred CCcccccccccCCCCCCCC-CCCCccCCCC-----cccccccccccccCCCCCCCCCCCCCC
Q psy4296 31 DRSVVCKHWLRGLCKKGDQ-CEFLHEYDMT-----KMPECYFYSRFNACHNKECPFLHIDPD 86 (103)
Q Consensus 31 ~~~~vC~~fl~G~C~~Gd~-C~f~H~~~~~-----~~p~C~~f~~~G~C~~~~C~y~H~~~~ 86 (103)
....|||-||+|.|.+||. |.|.|....- +...|..+++ |.|++++|+|.|-...
T Consensus 35 l~~eVCReF~rn~C~R~d~~CkfaHP~~~~~V~~g~v~aC~Ds~k-grCsR~nCkylHpp~h 95 (331)
T KOG2494|consen 35 LTLEVCREFLRNTCSRGDRECKFAHPPKNCQVSNGRVIACFDSQK-GRCSRENCKYLHPPQH 95 (331)
T ss_pred hHHHHHHHHHhccccCCCccccccCCCCCCCccCCeEEEEecccc-CccCcccceecCCChh
Confidence 3677999999999999997 9999975432 2455999999 9999999999997543
No 7
>smart00356 ZnF_C3H1 zinc finger.
Probab=98.24 E-value=7.8e-07 Score=45.24 Aligned_cols=24 Identities=42% Similarity=1.070 Sum_probs=21.6
Q ss_pred CcccccccccCCCCCCCCCCCCcc
Q psy4296 32 RSVVCKHWLRGLCKKGDQCEFLHE 55 (103)
Q Consensus 32 ~~~vC~~fl~G~C~~Gd~C~f~H~ 55 (103)
+..+|++|++|.|.+|++|+|+|+
T Consensus 3 k~~~C~~~~~g~C~~g~~C~~~H~ 26 (27)
T smart00356 3 KTELCKFFKRGYCPYGDRCKFAHP 26 (27)
T ss_pred CCCcCcCccCCCCCCCCCcCCCCc
Confidence 567899999999999999999996
No 8
>PF00642 zf-CCCH: Zinc finger C-x8-C-x5-C-x3-H type (and similar); InterPro: IPR000571 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 C-x8-C-x5-C-x3-H (CCCH) type Zinc finger (Znf) domains. Proteins containing CCCH Znf domains include Znf proteins from eukaryotes involved in cell cycle or growth phase-related regulation, e.g. human TIS11B (butyrate response factor 1), a probable regulatory protein involved in regulating the response to growth factors, and the mouse TTP growth factor-inducible nuclear protein, which has the same function. The mouse TTP protein is induced by growth factors. Another protein containing this domain is the human splicing factor U2AF 35kDa subunit, which plays a critical role in both constitutive and enhancer-dependent splicing by mediating essential protein-protein interactions and protein-RNA interactions required for 3' splice site selection. It has been shown that different CCCH-type Znf proteins interact with the 3'-untranslated region of various mRNA [, ]. This type of Znf is very often present in two copies. 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: 1M9O_A 1RGO_A 2CQE_A 2FC6_A 2D9M_A 2E5S_A 2RHK_C 2D9N_A 3D2S_A 3D2Q_C ....
Probab=98.22 E-value=2.1e-07 Score=48.34 Aligned_cols=24 Identities=38% Similarity=1.083 Sum_probs=18.8
Q ss_pred Cccccccccc-CCCCCCCCCCCCcc
Q psy4296 32 RSVVCKHWLR-GLCKKGDQCEFLHE 55 (103)
Q Consensus 32 ~~~vC~~fl~-G~C~~Gd~C~f~H~ 55 (103)
++++|++|++ |.|..|++|.|+|+
T Consensus 2 k~~~C~~f~~~g~C~~G~~C~f~H~ 26 (27)
T PF00642_consen 2 KTKLCRFFMRTGTCPFGDKCRFAHG 26 (27)
T ss_dssp TSSB-HHHHHTS--TTGGGSSSBSS
T ss_pred ccccChhhccCCccCCCCCcCccCC
Confidence 5789999998 99999999999996
No 9
>COG5084 YTH1 Cleavage and polyadenylation specificity factor (CPSF) Clipper subunit and related makorin family Zn-finger proteins [General function prediction only]
Probab=98.16 E-value=2.6e-06 Score=66.20 Aligned_cols=73 Identities=23% Similarity=0.464 Sum_probs=62.6
Q ss_pred CCcCCCCC---CCCCCCCCCC-CC--ccccccc-ccCCCCCCCCCCCCccCCCCcccccccccc--cccCCCC-CCCCCC
Q psy4296 13 SFQAPGVL---VPFPLRHITG-DR--SVVCKHW-LRGLCKKGDQCEFLHEYDMTKMPECYFYSR--FNACHNK-ECPFLH 82 (103)
Q Consensus 13 ~f~~~g~g---~~C~f~H~~~-~~--~~vC~~f-l~G~C~~Gd~C~f~H~~~~~~~p~C~~f~~--~G~C~~~-~C~y~H 82 (103)
+|+..|++ ..|.|.|+.. .+ ...|++| +.|.|..|..|.++|....+..++|.+|.+ .+.|.++ .|++.|
T Consensus 108 ~~~~~g~c~s~~~c~~lh~~d~~~s~~~~c~~Fs~~G~cs~g~~c~~~h~dp~~~~~~~~~~~~~~~~f~p~g~~c~~~H 187 (285)
T COG5084 108 KFFLRGLCKSGFSCEFLHEYDLRSSQGPPCRSFSLKGSCSSGPSCGYSHIDPDSFAGNCDQYSGATYGFCPLGASCKFSH 187 (285)
T ss_pred chhccccCcCCCccccccCCCcccccCCCcccccccceeccCCCCCccccCcccccccccccCcccccccCCCCcccccc
Confidence 36666765 8999999973 34 7889999 889999999999999988888999999994 5999996 999999
Q ss_pred CCC
Q psy4296 83 IDP 85 (103)
Q Consensus 83 ~~~ 85 (103)
+.-
T Consensus 188 ~~~ 190 (285)
T COG5084 188 TLK 190 (285)
T ss_pred ccc
Confidence 964
No 10
>KOG4791|consensus
Probab=98.14 E-value=8.4e-07 Score=73.31 Aligned_cols=68 Identities=26% Similarity=0.554 Sum_probs=52.2
Q ss_pred CCCCCCCCCCCCCC--CCcccccccccCCCCCCCCCCCCccCCCCc--ccccccccccccCCCCCCCCCCCCC
Q psy4296 17 PGVLVPFPLRHITG--DRSVVCKHWLRGLCKKGDQCEFLHEYDMTK--MPECYFYSRFNACHNKECPFLHIDP 85 (103)
Q Consensus 17 ~g~g~~C~f~H~~~--~~~~vC~~fl~G~C~~Gd~C~f~H~~~~~~--~p~C~~f~~~G~C~~~~C~y~H~~~ 85 (103)
.-+++.|+|+|... ....+|++|+.+.|-+. .|+|+|.--..+ -..|.|+.++..|.+.+|-|+|..|
T Consensus 14 cKk~d~c~~rh~E~al~n~t~C~~w~~~~~C~k-~C~YRHSe~~~kr~e~~CYwe~~p~gC~k~~CgfRH~~p 85 (667)
T KOG4791|consen 14 CKKGDSCPFRHCEAALGNETVCTLWQEGRCCRK-VCRYRHSEIDKKRSEIPCYWENQPTGCQKLNCGFRHNRP 85 (667)
T ss_pred hhccCcCcchhhHHHhcCcchhhhhhhcCcccc-cccchhhHHhhhcCcccceeecCCCccCCCccccccCCC
Confidence 34469999999963 57789999999875543 699999754433 3349999984459999999999764
No 11
>KOG1677|consensus
Probab=98.04 E-value=3.5e-06 Score=65.25 Aligned_cols=55 Identities=27% Similarity=0.777 Sum_probs=46.8
Q ss_pred Cccccccccc-CCCCC-CCCCCCCccCCCCc---------------ccccccccccccCCCC-CCCCCCCCCC
Q psy4296 32 RSVVCKHWLR-GLCKK-GDQCEFLHEYDMTK---------------MPECYFYSRFNACHNK-ECPFLHIDPD 86 (103)
Q Consensus 32 ~~~vC~~fl~-G~C~~-Gd~C~f~H~~~~~~---------------~p~C~~f~~~G~C~~~-~C~y~H~~~~ 86 (103)
++++|++|.+ |.|.+ |++|.|.|.....+ ..+|.+|+++|.|..| +|.|.|..++
T Consensus 131 kt~lc~~~~~~g~c~y~ge~crfah~~~e~r~~~~~~~~~~~~~~kt~lC~~f~~tG~C~yG~rC~F~H~~~~ 203 (332)
T KOG1677|consen 131 KTPLCRSFRKSGTCKYRGEQCRFAHGLEELRLPSSENQVGNPPKYKTKLCPKFQKTGLCKYGSRCRFIHGEPE 203 (332)
T ss_pred cCCcceeeecCccccccCchhhhcCCcccccccccchhhcCCCCCCCcCCCccccCCCCCCCCcCeecCCCcc
Confidence 6778999997 99999 99999998755332 4569999999999996 9999998763
No 12
>KOG1763|consensus
Probab=97.92 E-value=2e-06 Score=67.34 Aligned_cols=57 Identities=33% Similarity=0.841 Sum_probs=45.7
Q ss_pred CCcccccccccCCCCCCCCCCCCccCCCCc------------------------------------ccccccccc-----
Q psy4296 31 DRSVVCKHWLRGLCKKGDQCEFLHEYDMTK------------------------------------MPECYFYSR----- 69 (103)
Q Consensus 31 ~~~~vC~~fl~G~C~~Gd~C~f~H~~~~~~------------------------------------~p~C~~f~~----- 69 (103)
.+..+|-||.+|.|.+|+.|.|||++...+ ..||+||+.
T Consensus 90 PKSvvCafFk~g~C~KG~kCKFsHdl~~~~k~eK~dly~d~rdemWD~~kl~~vv~~K~~k~k~~tdiVCKfFLeAvE~~ 169 (343)
T KOG1763|consen 90 PKSVVCAFFKQGTCTKGDKCKFSHDLAVERKKEKIDLYPDTRDEMWDEEKLEEVVLKKHGKPKPTTDIVCKFFLEAVENG 169 (343)
T ss_pred chHHHHHHHhccCCCCCCcccccchHHHhhhccchhccccchhhhhhHHHHHHHHHhhccCCCCchhHHHHHHHHHHhcC
Confidence 478899999999999999999999866321 127999964
Q ss_pred -cc---cCCCC--CCCCCCCCCCC
Q psy4296 70 -FN---ACHNK--ECPFLHIDPDS 87 (103)
Q Consensus 70 -~G---~C~~~--~C~y~H~~~~~ 87 (103)
+| .|.+| .|.|+|..|.-
T Consensus 170 kYGWfW~CPnGg~~C~YrHaLP~G 193 (343)
T KOG1763|consen 170 KYGWFWECPNGGDKCIYRHALPEG 193 (343)
T ss_pred CccceeECCCCCCeeeeeecCCcc
Confidence 34 49996 69999998863
No 13
>KOG1595|consensus
Probab=97.39 E-value=0.00013 Score=60.65 Aligned_cols=64 Identities=25% Similarity=0.516 Sum_probs=48.3
Q ss_pred CCCCCCCCCC-C----------CCcccccccccCCCCCCCCCCCCccCCCC-------cccccccccccccCCCCCCCCC
Q psy4296 20 LVPFPLRHIT-G----------DRSVVCKHWLRGLCKKGDQCEFLHEYDMT-------KMPECYFYSRFNACHNKECPFL 81 (103)
Q Consensus 20 g~~C~f~H~~-~----------~~~~vC~~fl~G~C~~Gd~C~f~H~~~~~-------~~p~C~~f~~~G~C~~~~C~y~ 81 (103)
+..|||.|.. + .+-..|.-|-+|.|.+||+|.|.|..-.. ++..|+-- |.|.+.-|-|.
T Consensus 212 wteCPf~HpgEkARRRDPRkyhYs~tpCPefrkG~C~rGD~CEyaHgvfEcwLHPa~YRT~~CkDg---~~C~RrvCfFA 288 (528)
T KOG1595|consen 212 WTECPFAHPGEKARRRDPRKYHYSSTPCPEFRKGSCERGDSCEYAHGVFECWLHPARYRTRKCKDG---GYCPRRVCFFA 288 (528)
T ss_pred cccCCccCCCcccccCCcccccccCccCcccccCCCCCCCccccccceehhhcCHHHhccccccCC---CCCccceEeee
Confidence 4899999942 1 25668999999999999999999974321 23446655 67888899999
Q ss_pred CCCCC
Q psy4296 82 HIDPD 86 (103)
Q Consensus 82 H~~~~ 86 (103)
|+..+
T Consensus 289 H~~eq 293 (528)
T KOG1595|consen 289 HSPEQ 293 (528)
T ss_pred cChHH
Confidence 98543
No 14
>PF00642 zf-CCCH: Zinc finger C-x8-C-x5-C-x3-H type (and similar); InterPro: IPR000571 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 C-x8-C-x5-C-x3-H (CCCH) type Zinc finger (Znf) domains. Proteins containing CCCH Znf domains include Znf proteins from eukaryotes involved in cell cycle or growth phase-related regulation, e.g. human TIS11B (butyrate response factor 1), a probable regulatory protein involved in regulating the response to growth factors, and the mouse TTP growth factor-inducible nuclear protein, which has the same function. The mouse TTP protein is induced by growth factors. Another protein containing this domain is the human splicing factor U2AF 35kDa subunit, which plays a critical role in both constitutive and enhancer-dependent splicing by mediating essential protein-protein interactions and protein-RNA interactions required for 3' splice site selection. It has been shown that different CCCH-type Znf proteins interact with the 3'-untranslated region of various mRNA [, ]. This type of Znf is very often present in two copies. 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: 1M9O_A 1RGO_A 2CQE_A 2FC6_A 2D9M_A 2E5S_A 2RHK_C 2D9N_A 3D2S_A 3D2Q_C ....
Probab=97.23 E-value=6.2e-05 Score=38.91 Aligned_cols=24 Identities=33% Similarity=0.672 Sum_probs=18.2
Q ss_pred cccccccccccccCCCC-CCCCCCC
Q psy4296 60 KMPECYFYSRFNACHNK-ECPFLHI 83 (103)
Q Consensus 60 ~~p~C~~f~~~G~C~~~-~C~y~H~ 83 (103)
++++|++|++.|.|..+ +|+|.|.
T Consensus 2 k~~~C~~f~~~g~C~~G~~C~f~H~ 26 (27)
T PF00642_consen 2 KTKLCRFFMRTGTCPFGDKCRFAHG 26 (27)
T ss_dssp TSSB-HHHHHTS--TTGGGSSSBSS
T ss_pred ccccChhhccCCccCCCCCcCccCC
Confidence 35689999999999995 9999996
No 15
>PF14608 zf-CCCH_2: Zinc finger C-x8-C-x5-C-x3-H type
Probab=97.23 E-value=0.0002 Score=34.31 Aligned_cols=18 Identities=44% Similarity=0.982 Sum_probs=11.7
Q ss_pred cccccccCCCCCCCCCCCCc
Q psy4296 35 VCKHWLRGLCKKGDQCEFLH 54 (103)
Q Consensus 35 vC~~fl~G~C~~Gd~C~f~H 54 (103)
+|+||.. |+++++|+|+|
T Consensus 1 ~Ck~~~~--C~~~~~C~f~H 18 (19)
T PF14608_consen 1 PCKFGPN--CTNGDNCPFSH 18 (19)
T ss_pred CCcCcCC--CCCCCcCccCC
Confidence 3666654 77776677776
No 16
>KOG4791|consensus
Probab=97.20 E-value=8.2e-05 Score=61.80 Aligned_cols=51 Identities=27% Similarity=0.630 Sum_probs=42.9
Q ss_pred cccccccccCCCCCCCCCCCCccCCCC-cccccccccccccCCCCCCCCCCCC
Q psy4296 33 SVVCKHWLRGLCKKGDQCEFLHEYDMT-KMPECYFYSRFNACHNKECPFLHID 84 (103)
Q Consensus 33 ~~vC~~fl~G~C~~Gd~C~f~H~~~~~-~~p~C~~f~~~G~C~~~~C~y~H~~ 84 (103)
...|.||+...|+++|.|+|+|.-+.. +..+|++|+. +.|-+..|+|+|..
T Consensus 3 ~~dcyff~ys~cKk~d~c~~rh~E~al~n~t~C~~w~~-~~~C~k~C~YRHSe 54 (667)
T KOG4791|consen 3 GEDCYFFFYSTCKKGDSCPFRHCEAALGNETVCTLWQE-GRCCRKVCRYRHSE 54 (667)
T ss_pred cccchhhhhhhhhccCcCcchhhHHHhcCcchhhhhhh-cCcccccccchhhH
Confidence 457999999999999999999986643 4677999999 66666699999974
No 17
>smart00356 ZnF_C3H1 zinc finger.
Probab=97.00 E-value=0.00065 Score=34.14 Aligned_cols=23 Identities=35% Similarity=0.756 Sum_probs=19.3
Q ss_pred cccccccccccccCCCC-CCCCCCC
Q psy4296 60 KMPECYFYSRFNACHNK-ECPFLHI 83 (103)
Q Consensus 60 ~~p~C~~f~~~G~C~~~-~C~y~H~ 83 (103)
+.++|++|.. |.|..+ +|+|+|.
T Consensus 3 k~~~C~~~~~-g~C~~g~~C~~~H~ 26 (27)
T smart00356 3 KTELCKFFKR-GYCPYGDRCKFAHP 26 (27)
T ss_pred CCCcCcCccC-CCCCCCCCcCCCCc
Confidence 4567999965 999995 9999996
No 18
>KOG2185|consensus
Probab=96.70 E-value=0.00067 Score=55.37 Aligned_cols=26 Identities=38% Similarity=0.890 Sum_probs=20.4
Q ss_pred CcccccccccCCCCCCCCCCCCccCC
Q psy4296 32 RSVVCKHWLRGLCKKGDQCEFLHEYD 57 (103)
Q Consensus 32 ~~~vC~~fl~G~C~~Gd~C~f~H~~~ 57 (103)
.+.+|.|||.|.|+-+.+|+|||.+.
T Consensus 139 sMkpC~ffLeg~CRF~enCRfSHG~~ 164 (486)
T KOG2185|consen 139 SMKPCKFFLEGRCRFGENCRFSHGLD 164 (486)
T ss_pred hhccchHhhccccccCcccccccCcc
Confidence 45678888888888888888888755
No 19
>COG5252 Uncharacterized conserved protein, contains CCCH-type Zn-finger protein [General function prediction only]
Probab=96.55 E-value=0.0004 Score=53.33 Aligned_cols=56 Identities=34% Similarity=0.844 Sum_probs=44.1
Q ss_pred CCcccccccccCCCCCCCCCCCCccCCCCc----------------------------ccccccccc------cc---cC
Q psy4296 31 DRSVVCKHWLRGLCKKGDQCEFLHEYDMTK----------------------------MPECYFYSR------FN---AC 73 (103)
Q Consensus 31 ~~~~vC~~fl~G~C~~Gd~C~f~H~~~~~~----------------------------~p~C~~f~~------~G---~C 73 (103)
.++.+|-.|+++.|.+|+.|.|+|.....+ -.||+||+. +| .|
T Consensus 83 pK~~vcalF~~~~c~kg~~ckF~h~~ee~r~~eK~DLYsDvRd~~ed~pl~krP~intd~VCkffieA~e~GkYgw~W~C 162 (299)
T COG5252 83 PKTVVCALFLNKTCAKGDACKFAHGKEEARKTEKPDLYSDVRDKEEDVPLGKRPWINTDRVCKFFIEAMESGKYGWGWTC 162 (299)
T ss_pred chhHHHHHhccCccccCchhhhhcchHHHhhhcccchhhhhhhhhccCCcccCCCCChhHHHHHHHHHHhcCCccceeeC
Confidence 477899999999999999999999843210 236999954 23 49
Q ss_pred CCC--CCCCCCCCCC
Q psy4296 74 HNK--ECPFLHIDPD 86 (103)
Q Consensus 74 ~~~--~C~y~H~~~~ 86 (103)
.++ .|.|.|..|.
T Consensus 163 Png~~~C~y~H~Lp~ 177 (299)
T COG5252 163 PNGNMRCSYIHKLPD 177 (299)
T ss_pred CCCCceeeeeeccCc
Confidence 996 9999999876
No 20
>PF10650 zf-C3H1: Putative zinc-finger domain; InterPro: IPR019607 This domain is conserved in fungi and might be a zinc-finger domain as it contains three conserved Cs and an H in the C-x8-C-x5-C-x3-H conformation typical of a zinc-finger.
Probab=96.41 E-value=0.0021 Score=32.38 Aligned_cols=21 Identities=24% Similarity=0.657 Sum_probs=13.2
Q ss_pred ccccccccccCCCCCCCCCCC
Q psy4296 63 ECYFYSRFNACHNKECPFLHI 83 (103)
Q Consensus 63 ~C~~f~~~G~C~~~~C~y~H~ 83 (103)
.|.|.++.|.|.+++|.|.|.
T Consensus 2 lC~yEl~Gg~Cnd~~C~~QHf 22 (23)
T PF10650_consen 2 LCPYELTGGVCNDPDCEFQHF 22 (23)
T ss_pred CCccccCCCeeCCCCCCcccc
Confidence 466666633666666666664
No 21
>KOG2494|consensus
Probab=96.34 E-value=0.0039 Score=49.48 Aligned_cols=43 Identities=19% Similarity=0.405 Sum_probs=32.9
Q ss_pred cCCCCC---CC-CCCCCCCC------CCcccccccccCCCCCCCCCCCCccCCC
Q psy4296 15 QAPGVL---VP-FPLRHITG------DRSVVCKHWLRGLCKKGDQCEFLHEYDM 58 (103)
Q Consensus 15 ~~~g~g---~~-C~f~H~~~------~~~~vC~~fl~G~C~~Gd~C~f~H~~~~ 58 (103)
|++|.| +. |+|.|-+. .+...|-.|++|.|.+ ++|+|.|....
T Consensus 43 F~rn~C~R~d~~CkfaHP~~~~~V~~g~v~aC~Ds~kgrCsR-~nCkylHpp~h 95 (331)
T KOG2494|consen 43 FLRNTCSRGDRECKFAHPPKNCQVSNGRVIACFDSQKGRCSR-ENCKYLHPPQH 95 (331)
T ss_pred HHhccccCCCccccccCCCCCCCccCCeEEEEeccccCccCc-ccceecCCChh
Confidence 345554 45 99999963 3566799999999999 47999998553
No 22
>KOG2333|consensus
Probab=95.45 E-value=0.0074 Score=50.58 Aligned_cols=51 Identities=31% Similarity=0.802 Sum_probs=42.2
Q ss_pred cccccccccC---CCCCCCCCCCCccCCC---Cc----ccccccccccccCCCC-CCCCCCC
Q psy4296 33 SVVCKHWLRG---LCKKGDQCEFLHEYDM---TK----MPECYFYSRFNACHNK-ECPFLHI 83 (103)
Q Consensus 33 ~~vC~~fl~G---~C~~Gd~C~f~H~~~~---~~----~p~C~~f~~~G~C~~~-~C~y~H~ 83 (103)
..+|.-.++| .|..||+|+|.|+.+. .+ -|.|.+|.+.|.|..+ .|+|+=.
T Consensus 76 n~LCPsli~g~~~~C~f~d~Crf~HDi~ayLatK~~Dig~~Cp~f~s~G~Cp~G~~CRFl~a 137 (614)
T KOG2333|consen 76 NRLCPSLIQGDISKCSFGDNCRFVHDIEAYLATKAPDIGPSCPVFESLGFCPYGFKCRFLGA 137 (614)
T ss_pred hccChHhhcCCCccCcccccccccccHHHHHhccCcccCCccceeeccccCCccceeehhhc
Confidence 5689888887 6999999999999763 11 4679999999999998 9999744
No 23
>PF14608 zf-CCCH_2: Zinc finger C-x8-C-x5-C-x3-H type
Probab=95.20 E-value=0.014 Score=27.79 Aligned_cols=17 Identities=47% Similarity=1.112 Sum_probs=14.4
Q ss_pred ccccccccccCCCC-CCCCCC
Q psy4296 63 ECYFYSRFNACHNK-ECPFLH 82 (103)
Q Consensus 63 ~C~~f~~~G~C~~~-~C~y~H 82 (103)
+|+||. .|+++ +|+|.|
T Consensus 1 ~Ck~~~---~C~~~~~C~f~H 18 (19)
T PF14608_consen 1 PCKFGP---NCTNGDNCPFSH 18 (19)
T ss_pred CCcCcC---CCCCCCcCccCC
Confidence 488885 49997 999999
No 24
>PF10650 zf-C3H1: Putative zinc-finger domain; InterPro: IPR019607 This domain is conserved in fungi and might be a zinc-finger domain as it contains three conserved Cs and an H in the C-x8-C-x5-C-x3-H conformation typical of a zinc-finger.
Probab=95.01 E-value=0.013 Score=29.42 Aligned_cols=21 Identities=38% Similarity=0.814 Sum_probs=17.7
Q ss_pred ccccccccC-CCCCCCCCCCCcc
Q psy4296 34 VVCKHWLRG-LCKKGDQCEFLHE 55 (103)
Q Consensus 34 ~vC~~fl~G-~C~~Gd~C~f~H~ 55 (103)
++|.|-+.| .|... +|.|.|-
T Consensus 1 ~lC~yEl~Gg~Cnd~-~C~~QHf 22 (23)
T PF10650_consen 1 PLCPYELTGGVCNDP-DCEFQHF 22 (23)
T ss_pred CCCccccCCCeeCCC-CCCcccc
Confidence 479999998 99875 6999994
No 25
>KOG1039|consensus
Probab=94.77 E-value=0.012 Score=47.03 Aligned_cols=25 Identities=36% Similarity=0.797 Sum_probs=23.3
Q ss_pred ccccccccCCCCCCCCCCCCccCCC
Q psy4296 34 VVCKHWLRGLCKKGDQCEFLHEYDM 58 (103)
Q Consensus 34 ~vC~~fl~G~C~~Gd~C~f~H~~~~ 58 (103)
.||+||++|.|..|+.|+|+|....
T Consensus 9 tic~~~~~g~c~~g~~cr~~h~~~~ 33 (344)
T KOG1039|consen 9 TICKYYQKGNCKFGDLCRLSHSLPD 33 (344)
T ss_pred hhhhhcccccccccceeeeeccCch
Confidence 8999999999999999999998773
No 26
>KOG1677|consensus
Probab=94.11 E-value=0.03 Score=43.33 Aligned_cols=39 Identities=26% Similarity=0.544 Sum_probs=31.1
Q ss_pred CCCCCCCCCCCC----------------CCccccccccc-CCCCCCCCCCCCccCC
Q psy4296 19 VLVPFPLRHITG----------------DRSVVCKHWLR-GLCKKGDQCEFLHEYD 57 (103)
Q Consensus 19 ~g~~C~f~H~~~----------------~~~~vC~~fl~-G~C~~Gd~C~f~H~~~ 57 (103)
.|+.|.|-|... .++++|.+|++ |.|.+|..|.|.|...
T Consensus 147 ~ge~crfah~~~e~r~~~~~~~~~~~~~~kt~lC~~f~~tG~C~yG~rC~F~H~~~ 202 (332)
T KOG1677|consen 147 RGEQCRFAHGLEELRLPSSENQVGNPPKYKTKLCPKFQKTGLCKYGSRCRFIHGEP 202 (332)
T ss_pred cCchhhhcCCcccccccccchhhcCCCCCCCcCCCccccCCCCCCCCcCeecCCCc
Confidence 356787766531 36789999997 9999999999999865
No 27
>KOG1595|consensus
Probab=94.08 E-value=0.055 Score=45.44 Aligned_cols=49 Identities=18% Similarity=0.461 Sum_probs=37.7
Q ss_pred CcccccccccCCCCCCCCCCCCccCC-CCc---------ccccccccccccCCCC-CCCCCCCC
Q psy4296 32 RSVVCKHWLRGLCKKGDQCEFLHEYD-MTK---------MPECYFYSRFNACHNK-ECPFLHID 84 (103)
Q Consensus 32 ~~~vC~~fl~G~C~~Gd~C~f~H~~~-~~~---------~p~C~~f~~~G~C~~~-~C~y~H~~ 84 (103)
|+.-|. ++.|..+-.|||.|.-. +++ -.+|.-|.+ |.|.+| .|-|.|..
T Consensus 200 Kir~C~---R~~shDwteCPf~HpgEkARRRDPRkyhYs~tpCPefrk-G~C~rGD~CEyaHgv 259 (528)
T KOG1595|consen 200 KIRRCS---RPRSHDWTECPFAHPGEKARRRDPRKYHYSSTPCPEFRK-GSCERGDSCEYAHGV 259 (528)
T ss_pred eecccC---CccCCCcccCCccCCCcccccCCcccccccCccCccccc-CCCCCCCccccccce
Confidence 666675 45888898999999332 222 345999999 999995 99999974
No 28
>COG5063 CTH1 CCCH-type Zn-finger protein [General function prediction only]
Probab=93.15 E-value=0.076 Score=42.20 Aligned_cols=51 Identities=27% Similarity=0.649 Sum_probs=37.5
Q ss_pred ccccccc-cCCCCC---CCCCCCC---ccCCCCc---------ccccccccccccCCCC-CCCCCCCC
Q psy4296 34 VVCKHWL-RGLCKK---GDQCEFL---HEYDMTK---------MPECYFYSRFNACHNK-ECPFLHID 84 (103)
Q Consensus 34 ~vC~~fl-~G~C~~---Gd~C~f~---H~~~~~~---------~p~C~~f~~~G~C~~~-~C~y~H~~ 84 (103)
.+|.-|- .|.|.. |+.|.|+ |.++..+ +.+|..|.+.|.|..+ +|.|.|..
T Consensus 231 ~lc~~ft~kg~~p~~~sG~~~q~a~~~HGlN~l~~k~k~~~frTePcinwe~sGyc~yg~Rc~F~hgd 298 (351)
T COG5063 231 ELCESFTRKGTCPYWISGVKCQFACRGHGLNELKSKKKKQNFRTEPCINWEKSGYCPYGLRCCFKHGD 298 (351)
T ss_pred HHhhccCcCCCCccccccccccccccccccccccccccccccccCCccchhhcccCccccccccccCC
Confidence 5785554 588888 8888888 8755322 4568888888888886 88888864
No 29
>KOG1039|consensus
Probab=92.73 E-value=0.046 Score=43.76 Aligned_cols=32 Identities=25% Similarity=0.665 Sum_probs=27.3
Q ss_pred ccCCCCcccccccccccccCCCC-CCCCCCCCCC
Q psy4296 54 HEYDMTKMPECYFYSRFNACHNK-ECPFLHIDPD 86 (103)
Q Consensus 54 H~~~~~~~p~C~~f~~~G~C~~~-~C~y~H~~~~ 86 (103)
|++..+...+|+||++ |.|..+ .|+|.|+.|.
T Consensus 1 ~d~~~~~~tic~~~~~-g~c~~g~~cr~~h~~~~ 33 (344)
T KOG1039|consen 1 HDLSLSQETICKYYQK-GNCKFGDLCRLSHSLPD 33 (344)
T ss_pred Cccccccchhhhhccc-ccccccceeeeeccCch
Confidence 5666666688999999 999995 9999999985
No 30
>COG5063 CTH1 CCCH-type Zn-finger protein [General function prediction only]
Probab=91.49 E-value=0.31 Score=38.79 Aligned_cols=56 Identities=21% Similarity=0.292 Sum_probs=43.8
Q ss_pred CCccccccccc-CCCCCCCCCCCCccCCCCc-----------ccccccccccccCCC-CCCCCCCCCCC
Q psy4296 31 DRSVVCKHWLR-GLCKKGDQCEFLHEYDMTK-----------MPECYFYSRFNACHN-KECPFLHIDPD 86 (103)
Q Consensus 31 ~~~~vC~~fl~-G~C~~Gd~C~f~H~~~~~~-----------~p~C~~f~~~G~C~~-~~C~y~H~~~~ 86 (103)
-+++.|.-|.. |.|..|..|.|.|...... -.+|+-++.+|.|.. ++|.++|..-.
T Consensus 272 frTePcinwe~sGyc~yg~Rc~F~hgd~~~ie~~~~~~~~y~~~~crt~~~~g~~p~g~~~c~~~dkkn 340 (351)
T COG5063 272 FRTEPCINWEKSGYCPYGLRCCFKHGDDSDIEMYEEASLGYLDGPCRTRAKGGAFPSGGAVCKSFDKKN 340 (351)
T ss_pred cccCCccchhhcccCccccccccccCChhhccccccccccccccccccccccCccCCCCchhhccccch
Confidence 37789999986 9999999999999744211 235998988888988 48999987543
No 31
>COG5152 Uncharacterized conserved protein, contains RING and CCCH-type Zn-fingers [General function prediction only]
Probab=90.66 E-value=0.092 Score=39.71 Aligned_cols=27 Identities=41% Similarity=0.910 Sum_probs=22.6
Q ss_pred Ccccccccc-cCCCCCCCCCCCCccCCC
Q psy4296 32 RSVVCKHWL-RGLCKKGDQCEFLHEYDM 58 (103)
Q Consensus 32 ~~~vC~~fl-~G~C~~Gd~C~f~H~~~~ 58 (103)
...||+-|. .|.|-+||+|.|+|+.++
T Consensus 140 qpdVCKdyk~TGYCGYGDsCKflH~R~D 167 (259)
T COG5152 140 QPDVCKDYKETGYCGYGDSCKFLHDRSD 167 (259)
T ss_pred CcccccchhhcccccCCchhhhhhhhhh
Confidence 556897776 599999999999999773
No 32
>KOG0153|consensus
Probab=90.49 E-value=0.13 Score=41.38 Aligned_cols=27 Identities=33% Similarity=0.961 Sum_probs=24.1
Q ss_pred CCcccccccccCCCCCCCCCCCCccCC
Q psy4296 31 DRSVVCKHWLRGLCKKGDQCEFLHEYD 57 (103)
Q Consensus 31 ~~~~vC~~fl~G~C~~Gd~C~f~H~~~ 57 (103)
.+..||-||..|.|++|++|+|.|+..
T Consensus 159 n~p~Icsf~v~geckRG~ec~yrhEkp 185 (377)
T KOG0153|consen 159 NRPHICSFFVKGECKRGAECPYRHEKP 185 (377)
T ss_pred CCCccccceeeccccccccccccccCC
Confidence 356689999999999999999999966
No 33
>KOG2185|consensus
Probab=90.31 E-value=0.12 Score=42.48 Aligned_cols=61 Identities=21% Similarity=0.316 Sum_probs=36.1
Q ss_pred CCCCCCCCCCCCCccccccccc--CC-CCCCCCCCCCccCCCCcccccccccccccCCC-CCCCCCCCC
Q psy4296 20 LVPFPLRHITGDRSVVCKHWLR--GL-CKKGDQCEFLHEYDMTKMPECYFYSRFNACHN-KECPFLHID 84 (103)
Q Consensus 20 g~~C~f~H~~~~~~~vC~~fl~--G~-C~~Gd~C~f~H~~~~~~~p~C~~f~~~G~C~~-~~C~y~H~~ 84 (103)
|..|.+.|+.... +|-|-.. |. =..+..=.|+|.. -+.|.+|.||+. |.|.. .+|+|+|-.
T Consensus 99 GsKcsaph~ss~g--l~yHna~I~g~E~sarvRVlfl~PT-h~sMkpC~ffLe-g~CRF~enCRfSHG~ 163 (486)
T KOG2185|consen 99 GSKCSAPHTSSRG--LYYHNARIIGFEGSARVRVLFLTPT-HESMKPCKFFLE-GRCRFGENCRFSHGL 163 (486)
T ss_pred CCcccccccCCcc--ceecceeEEeeccccceEEEeecCc-chhhccchHhhc-cccccCcccccccCc
Confidence 5678888875322 2211110 10 0122234566642 334777999999 99999 499999974
No 34
>KOG3702|consensus
Probab=90.31 E-value=0.55 Score=40.58 Aligned_cols=74 Identities=20% Similarity=0.425 Sum_probs=39.6
Q ss_pred cccCCCCcCCCCCCCCCCCCCCCC----C------cccccccccC-----CCCCCCCCCCCccCCCC-----c-------
Q psy4296 8 IIQDPSFQAPGVLVPFPLRHITGD----R------SVVCKHWLRG-----LCKKGDQCEFLHEYDMT-----K------- 60 (103)
Q Consensus 8 ~~~~p~f~~~g~g~~C~f~H~~~~----~------~~vC~~fl~G-----~C~~Gd~C~f~H~~~~~-----~------- 60 (103)
++.+|++..+-..+.|.|-|.... . ...|.+-+-| .|.+-| |.|+|....- .
T Consensus 543 ~l~~Cky~~~Ct~a~Ce~~HPtaa~~~~s~p~k~fa~~~~ks~p~Ck~~~kCtasD-C~~sH~~~~~pvq~t~ip~~~~~ 621 (681)
T KOG3702|consen 543 ILTRCKYGPACTSAECEFAHPTAAENAKSLPNKKFASKCLKSHPGCKFGKKCTASD-CNYSHAGRRIPVQPTRIPPPFPG 621 (681)
T ss_pred eeccccCCCcCCchhhhhcCCcchhhhhccccccccccceeccccccccccccccc-CcccccCCCCCCccccCCCCCCC
Confidence 455666665555677777776521 1 1122222221 366554 7777754331 0
Q ss_pred ---ccccccccccccCCCCCCCCCCCCC
Q psy4296 61 ---MPECYFYSRFNACHNKECPFLHIDP 85 (103)
Q Consensus 61 ---~p~C~~f~~~G~C~~~~C~y~H~~~ 85 (103)
+..|+|+ +.|.+..|+|.|-..
T Consensus 622 ~ti~~~CrY~---pnCrnm~C~F~HPk~ 646 (681)
T KOG3702|consen 622 GTIRGLCRYR---PNCRNMQCKFYHPKT 646 (681)
T ss_pred CCccccceec---cCcCCccccccCCcc
Confidence 1237776 567777777777543
No 35
>KOG0153|consensus
Probab=80.97 E-value=1 Score=36.47 Aligned_cols=25 Identities=32% Similarity=0.869 Sum_probs=21.7
Q ss_pred ccccccccccccCCCC-CCCCCCCCCC
Q psy4296 61 MPECYFYSRFNACHNK-ECPFLHIDPD 86 (103)
Q Consensus 61 ~p~C~~f~~~G~C~~~-~C~y~H~~~~ 86 (103)
..+|.||.+ |.|+++ +|+|.|..|.
T Consensus 161 p~Icsf~v~-geckRG~ec~yrhEkp~ 186 (377)
T KOG0153|consen 161 PHICSFFVK-GECKRGAECPYRHEKPP 186 (377)
T ss_pred Cccccceee-ccccccccccccccCCC
Confidence 347999999 999985 9999999983
No 36
>KOG3702|consensus
Probab=79.91 E-value=2.1 Score=37.16 Aligned_cols=60 Identities=25% Similarity=0.469 Sum_probs=41.9
Q ss_pred CCCCCCCCCC-------CCcccccccccCCCCCCCCCCCCccCCCCc----------------ccccccccccccCCCCC
Q psy4296 21 VPFPLRHITG-------DRSVVCKHWLRGLCKKGDQCEFLHEYDMTK----------------MPECYFYSRFNACHNKE 77 (103)
Q Consensus 21 ~~C~f~H~~~-------~~~~vC~~fl~G~C~~Gd~C~f~H~~~~~~----------------~p~C~~f~~~G~C~~~~ 77 (103)
..+++.|... .-..+|.||+ .|. ++.|.|.|...... .|-|+|- -.|++.+
T Consensus 525 ~~s~s~~s~~~~~ltk~k~l~~Cky~~--~Ct-~a~Ce~~HPtaa~~~~s~p~k~fa~~~~ks~p~Ck~~---~kCtasD 598 (681)
T KOG3702|consen 525 PDSLSRHSEKKNELTKAKILTRCKYGP--ACT-SAECEFAHPTAAENAKSLPNKKFASKCLKSHPGCKFG---KKCTASD 598 (681)
T ss_pred CcchhhCcccccccccceeeccccCCC--cCC-chhhhhcCCcchhhhhccccccccccceecccccccc---ccccccc
Confidence 6777777752 2455799998 677 57899999876521 1235443 2688999
Q ss_pred CCCCCCCCC
Q psy4296 78 CPFLHIDPD 86 (103)
Q Consensus 78 C~y~H~~~~ 86 (103)
|.|.|....
T Consensus 599 C~~sH~~~~ 607 (681)
T KOG3702|consen 599 CNYSHAGRR 607 (681)
T ss_pred CcccccCCC
Confidence 999997544
No 37
>KOG1813|consensus
Probab=78.78 E-value=0.67 Score=36.69 Aligned_cols=26 Identities=38% Similarity=0.980 Sum_probs=22.0
Q ss_pred Ccccccccc-cCCCCCCCCCCCCccCC
Q psy4296 32 RSVVCKHWL-RGLCKKGDQCEFLHEYD 57 (103)
Q Consensus 32 ~~~vC~~fl-~G~C~~Gd~C~f~H~~~ 57 (103)
..-||+-|- .|.|-+||+|.|+|+..
T Consensus 185 qpDicKdykeTgycg~gdSckFlh~r~ 211 (313)
T KOG1813|consen 185 QPDICKDYKETGYCGYGDSCKFLHDRS 211 (313)
T ss_pred CchhhhhhHhhCcccccchhhhhhhhh
Confidence 345797776 59999999999999977
No 38
>KOG2333|consensus
Probab=71.69 E-value=2.4 Score=36.01 Aligned_cols=35 Identities=26% Similarity=0.409 Sum_probs=28.0
Q ss_pred CCCCCCCCCCC--------CCccccccccc-CCCCCCCCCCCCc
Q psy4296 20 LVPFPLRHITG--------DRSVVCKHWLR-GLCKKGDQCEFLH 54 (103)
Q Consensus 20 g~~C~f~H~~~--------~~~~vC~~fl~-G~C~~Gd~C~f~H 54 (103)
++.|+|.||.+ +--+.|..|-. |.|..|-+|+|+-
T Consensus 93 ~d~Crf~HDi~ayLatK~~Dig~~Cp~f~s~G~Cp~G~~CRFl~ 136 (614)
T KOG2333|consen 93 GDNCRFVHDIEAYLATKAPDIGPSCPVFESLGFCPYGFKCRFLG 136 (614)
T ss_pred cccccccccHHHHHhccCcccCCccceeeccccCCccceeehhh
Confidence 47899999962 23456988886 9999999999963
No 39
>COG5175 MOT2 Transcriptional repressor [Transcription]
Probab=71.55 E-value=1.6 Score=35.54 Aligned_cols=25 Identities=32% Similarity=0.606 Sum_probs=17.5
Q ss_pred cccccccccccCCCCCCCCCCCCCC
Q psy4296 62 PECYFYSRFNACHNKECPFLHIDPD 86 (103)
Q Consensus 62 p~C~~f~~~G~C~~~~C~y~H~~~~ 86 (103)
.-|.+|+|+..|.+++|.|+|..-+
T Consensus 203 KYCtsYLRn~~CpNp~CMyLHEpg~ 227 (480)
T COG5175 203 KYCTSYLRNAVCPNPDCMYLHEPGP 227 (480)
T ss_pred HHHHHHHcCCCCCCCCeeeecCCCc
Confidence 3477777766777777777777543
No 40
>KOG2202|consensus
Probab=70.14 E-value=2.4 Score=32.83 Aligned_cols=49 Identities=20% Similarity=0.536 Sum_probs=32.5
Q ss_pred ccCCCCcCCCCCCCCCCCCCCCCCcccccccccCCCCCCCCCCCCccCCCC
Q psy4296 9 IQDPSFQAPGVLVPFPLRHITGDRSVVCKHWLRGLCKKGDQCEFLHEYDMT 59 (103)
Q Consensus 9 ~~~p~f~~~g~g~~C~f~H~~~~~~~vC~~fl~G~C~~Gd~C~f~H~~~~~ 59 (103)
++.+-|..+-. .|-|+=.+.-+..+|..|-.+.|.+|..|.|.|....+
T Consensus 130 lnnRw~~G~pi--~ae~~pvT~~rea~C~~~e~~~C~rG~~CnFmH~k~~s 178 (260)
T KOG2202|consen 130 LNNRWYNGRPI--HAELSPVTDFREAICGQFERTECSRGGACNFMHVKRLS 178 (260)
T ss_pred HcCccccCCcc--eeeecCcCchhhhhhcccccccCCCCCcCcchhhhhhh
Confidence 44444443333 33333332237789999999999999999999986543
No 41
>COG5152 Uncharacterized conserved protein, contains RING and CCCH-type Zn-fingers [General function prediction only]
Probab=68.47 E-value=1.9 Score=32.77 Aligned_cols=25 Identities=32% Similarity=0.578 Sum_probs=21.8
Q ss_pred cccccccccccCCCC-CCCCCCCCCC
Q psy4296 62 PECYFYSRFNACHNK-ECPFLHIDPD 86 (103)
Q Consensus 62 p~C~~f~~~G~C~~~-~C~y~H~~~~ 86 (103)
-||+-|..+|+|-.+ .|.|+|.+..
T Consensus 142 dVCKdyk~TGYCGYGDsCKflH~R~D 167 (259)
T COG5152 142 DVCKDYKETGYCGYGDSCKFLHDRSD 167 (259)
T ss_pred ccccchhhcccccCCchhhhhhhhhh
Confidence 469999999999995 9999998763
No 42
>KOG1763|consensus
Probab=66.78 E-value=2 Score=34.22 Aligned_cols=24 Identities=29% Similarity=0.670 Sum_probs=20.5
Q ss_pred cccccccccccccCCCC-CCCCCCCC
Q psy4296 60 KMPECYFYSRFNACHNK-ECPFLHID 84 (103)
Q Consensus 60 ~~p~C~~f~~~G~C~~~-~C~y~H~~ 84 (103)
+..+|.||.. |.|.++ .|.|+|..
T Consensus 91 KSvvCafFk~-g~C~KG~kCKFsHdl 115 (343)
T KOG1763|consen 91 KSVVCAFFKQ-GTCTKGDKCKFSHDL 115 (343)
T ss_pred hHHHHHHHhc-cCCCCCCcccccchH
Confidence 4567999998 999996 99999963
No 43
>COG5175 MOT2 Transcriptional repressor [Transcription]
Probab=64.56 E-value=2.5 Score=34.53 Aligned_cols=28 Identities=36% Similarity=0.745 Sum_probs=22.9
Q ss_pred CcccccccccCC-CCCCCCCCCCccCCCCc
Q psy4296 32 RSVVCKHWLRGL-CKKGDQCEFLHEYDMTK 60 (103)
Q Consensus 32 ~~~vC~~fl~G~-C~~Gd~C~f~H~~~~~~ 60 (103)
.++-|.+||++. |.+++ |-|+|+..++.
T Consensus 201 TTKYCtsYLRn~~CpNp~-CMyLHEpg~e~ 229 (480)
T COG5175 201 TTKYCTSYLRNAVCPNPD-CMYLHEPGPEK 229 (480)
T ss_pred chHHHHHHHcCCCCCCCC-eeeecCCCccc
Confidence 567799999975 99985 99999977653
No 44
>PRK13666 hypothetical protein; Provisional
Probab=50.80 E-value=5.2 Score=26.42 Aligned_cols=16 Identities=19% Similarity=0.079 Sum_probs=14.2
Q ss_pred CCcCcHHHHhhhccCC
Q psy4296 88 MIEASVGMVHRVDTGM 103 (103)
Q Consensus 88 ~~~~C~~f~~~~~~~~ 103 (103)
-++.|+.|...|||+|
T Consensus 35 ~~~qCPlyEEVlDTQm 50 (92)
T PRK13666 35 TMPQCPLYEEVLDTQM 50 (92)
T ss_pred ccccCchHHHHHHHHH
Confidence 4689999999999997
No 45
>KOG1813|consensus
Probab=40.61 E-value=9.6 Score=30.30 Aligned_cols=26 Identities=31% Similarity=0.512 Sum_probs=22.2
Q ss_pred ccccccccccCCCC-CCCCCCCCCCCC
Q psy4296 63 ECYFYSRFNACHNK-ECPFLHIDPDSM 88 (103)
Q Consensus 63 ~C~~f~~~G~C~~~-~C~y~H~~~~~~ 88 (103)
+|+-|..+|+|..+ .|.|+|.+...+
T Consensus 188 icKdykeTgycg~gdSckFlh~r~DyK 214 (313)
T KOG1813|consen 188 ICKDYKETGYCGYGDSCKFLHDRSDYK 214 (313)
T ss_pred hhhhhHhhCcccccchhhhhhhhhhcc
Confidence 59999999999995 999999876443
No 46
>KOG2202|consensus
Probab=37.77 E-value=15 Score=28.49 Aligned_cols=23 Identities=26% Similarity=0.762 Sum_probs=19.9
Q ss_pred cccccccccccCCCC-CCCCCCCCC
Q psy4296 62 PECYFYSRFNACHNK-ECPFLHIDP 85 (103)
Q Consensus 62 p~C~~f~~~G~C~~~-~C~y~H~~~ 85 (103)
.+|..|.+ +.|+++ .|.|.|+..
T Consensus 153 a~C~~~e~-~~C~rG~~CnFmH~k~ 176 (260)
T KOG2202|consen 153 AICGQFER-TECSRGGACNFMHVKR 176 (260)
T ss_pred hhhccccc-ccCCCCCcCcchhhhh
Confidence 35999999 799995 999999874
No 47
>PF07408 DUF1507: Protein of unknown function (DUF1507); InterPro: IPR009983 This family consists of several hypothetical bacterial proteins of around 90 residues in length. The function of this family is unknown.; however they form alpha helical bundles and are thought to be involved in control of cell shape [].; PDB: 2ODM_B 2GBO_B.
Probab=29.82 E-value=5.4 Score=26.30 Aligned_cols=15 Identities=20% Similarity=0.098 Sum_probs=13.1
Q ss_pred CcCcHHHHhhhccCC
Q psy4296 89 IEASVGMVHRVDTGM 103 (103)
Q Consensus 89 ~~~C~~f~~~~~~~~ 103 (103)
++.|+.|...|||+|
T Consensus 34 ~~qCPlyEEVlDTQm 48 (90)
T PF07408_consen 34 MPQCPLYEEVLDTQM 48 (90)
T ss_dssp HHHHHCHHHHHHHHH
T ss_pred ccCCchHHHHHHhHH
Confidence 578999999999986
No 48
>KOG2068|consensus
Probab=26.74 E-value=34 Score=27.46 Aligned_cols=27 Identities=37% Similarity=0.753 Sum_probs=21.9
Q ss_pred ccccccccccccCCCCCCCCCCCCCCC
Q psy4296 61 MPECYFYSRFNACHNKECPFLHIDPDS 87 (103)
Q Consensus 61 ~p~C~~f~~~G~C~~~~C~y~H~~~~~ 87 (103)
++.|.+|++.-.|.+++|.|+|..-+.
T Consensus 162 tkycs~~l~~~~c~~~~cmylhe~~~~ 188 (327)
T KOG2068|consen 162 TKYCSFYLRNDICQNPDCMYLHEIGDQ 188 (327)
T ss_pred CcchhHHhhhhcccCcccccccccccc
Confidence 566999999888999999999986443
No 49
>COG4838 Uncharacterized protein conserved in bacteria [Function unknown]
Probab=22.95 E-value=28 Score=22.71 Aligned_cols=17 Identities=18% Similarity=0.040 Sum_probs=14.1
Q ss_pred CCCcCcHHHHhhhccCC
Q psy4296 87 SMIEASVGMVHRVDTGM 103 (103)
Q Consensus 87 ~~~~~C~~f~~~~~~~~ 103 (103)
-.+|.|+-+..-+||+|
T Consensus 34 LTlPqCPlYEEVLDTQM 50 (92)
T COG4838 34 LTLPQCPLYEEVLDTQM 50 (92)
T ss_pred CCCCCCccHHHHHHHHH
Confidence 35788999999999987
No 50
>PF03194 LUC7: LUC7 N_terminus; InterPro: IPR004882 This family consists of several LUC7 protein homologues that are restricted to eukaryotes. LUC7 has been shown to be a U1 snRNA associated protein [] with a role in splice site recognition []. The entry contains human and mouse LUC7 like (LUC7L) proteins [] and human cisplatin resistance-associated overexpressed protein (CROP) [].
Probab=21.24 E-value=32 Score=26.31 Aligned_cols=16 Identities=38% Similarity=0.808 Sum_probs=13.3
Q ss_pred CCcccccccccCCCCC
Q psy4296 31 DRSVVCKHWLRGLCKK 46 (103)
Q Consensus 31 ~~~~vC~~fl~G~C~~ 46 (103)
....||++||-|.|..
T Consensus 28 ~D~~VCk~~L~g~CPh 43 (254)
T PF03194_consen 28 TDPDVCKYFLVGFCPH 43 (254)
T ss_pred CCcccCHHHHhCCCcH
Confidence 3567999999999965
Done!