Query 023488
Match_columns 281
No_of_seqs 266 out of 1656
Neff 6.1
Searched_HMMs 46136
Date Fri Mar 29 04:25:30 2013
Command hhsearch -i /work/01045/syshi/csienesis_hhblits_a3m/023488.a3m -d /work/01045/syshi/HHdatabase/Cdd.hhm -o /work/01045/syshi/hhsearch_cdd/023488hhsearch_cdd -cpu 12 -v 0
No Hit Prob E-value P-value Score SS Cols Query HMM Template HMM
1 PTZ00368 universal minicircle 99.9 4.8E-24 1E-28 180.0 10.4 123 76-201 26-148 (148)
2 PTZ00368 universal minicircle 99.9 1.1E-22 2.4E-27 171.7 9.4 121 78-202 1-123 (148)
3 COG5082 AIR1 Arginine methyltr 99.9 2.6E-22 5.7E-27 174.5 7.1 115 74-207 57-179 (190)
4 COG5082 AIR1 Arginine methyltr 99.7 3.7E-17 8.1E-22 142.4 4.8 87 101-208 59-146 (190)
5 KOG4400 E3 ubiquitin ligase in 99.6 1.1E-15 2.3E-20 140.3 10.0 121 71-204 66-186 (261)
6 KOG4400 E3 ubiquitin ligase in 99.5 6.3E-14 1.4E-18 128.6 9.0 142 56-207 72-221 (261)
7 PF00098 zf-CCHC: Zinc knuckle 97.9 7.5E-06 1.6E-10 45.5 1.8 17 79-95 2-18 (18)
8 PF00098 zf-CCHC: Zinc knuckle 97.7 2.3E-05 5E-10 43.6 1.4 16 184-199 2-17 (18)
9 PF13696 zf-CCHC_2: Zinc knuck 96.9 0.00035 7.6E-09 44.4 1.0 22 75-96 6-27 (32)
10 PF13696 zf-CCHC_2: Zinc knuck 96.3 0.0022 4.7E-08 40.8 1.6 17 184-200 10-26 (32)
11 KOG0119 Splicing factor 1/bran 95.2 0.012 2.7E-07 58.4 2.7 43 103-147 262-304 (554)
12 KOG0119 Splicing factor 1/bran 94.7 0.022 4.7E-07 56.7 2.7 44 77-121 261-304 (554)
13 COG5222 Uncharacterized conser 94.0 0.036 7.7E-07 52.2 2.4 49 46-97 148-196 (427)
14 PF13917 zf-CCHC_3: Zinc knuck 93.0 0.052 1.1E-06 36.7 1.3 18 77-94 4-21 (42)
15 smart00343 ZnF_C2HC zinc finge 92.4 0.065 1.4E-06 31.9 1.0 15 80-94 2-16 (26)
16 smart00343 ZnF_C2HC zinc finge 91.2 0.095 2.1E-06 31.2 0.9 19 184-202 1-19 (26)
17 PF13917 zf-CCHC_3: Zinc knuck 90.9 0.15 3.2E-06 34.5 1.7 18 183-200 5-22 (42)
18 PF14392 zf-CCHC_4: Zinc knuck 89.3 0.13 2.8E-06 35.5 0.3 25 68-94 24-48 (49)
19 KOG0314 Predicted E3 ubiquitin 89.2 0.59 1.3E-05 46.5 4.9 69 129-205 113-181 (448)
20 KOG0314 Predicted E3 ubiquitin 88.7 0.7 1.5E-05 46.0 5.1 67 77-148 112-178 (448)
21 PF15288 zf-CCHC_6: Zinc knuck 88.3 0.52 1.1E-05 31.5 2.7 20 184-203 3-24 (40)
22 KOG0109 RNA-binding protein LA 85.4 0.48 1E-05 44.7 1.8 29 69-97 152-180 (346)
23 PF14392 zf-CCHC_4: Zinc knuck 85.0 0.31 6.8E-06 33.6 0.3 18 182-199 31-48 (49)
24 COG5222 Uncharacterized conser 84.6 0.54 1.2E-05 44.5 1.8 23 182-204 176-198 (427)
25 PF15288 zf-CCHC_6: Zinc knuck 84.4 0.57 1.2E-05 31.3 1.3 19 78-96 2-22 (40)
26 KOG0109 RNA-binding protein LA 76.2 1.5 3.3E-05 41.4 1.7 92 78-176 85-181 (346)
27 PF14787 zf-CCHC_5: GAG-polypr 74.1 2.1 4.5E-05 28.0 1.4 20 78-97 3-22 (36)
28 PF14787 zf-CCHC_5: GAG-polypr 70.3 3.6 7.8E-05 26.9 1.9 20 184-203 4-23 (36)
29 KOG2813 Predicted molecular ch 64.1 10 0.00022 36.5 4.3 34 156-194 235-268 (406)
30 PF12353 eIF3g: Eukaryotic tra 37.5 17 0.00037 30.2 1.1 21 76-97 105-125 (128)
31 KOG2673 Uncharacterized conser 32.9 23 0.0005 35.5 1.4 20 130-149 130-149 (485)
32 KOG2560 RNA splicing factor - 31.2 16 0.00034 36.7 -0.1 36 183-218 113-148 (529)
33 PF09779 Ima1_N: Ima1 N-termin 29.1 50 0.0011 27.3 2.6 33 157-196 2-34 (131)
34 COG2888 Predicted Zn-ribbon RN 28.7 25 0.00054 25.6 0.6 8 78-85 10-17 (61)
35 TIGR01562 FdhE formate dehydro 27.7 45 0.00099 31.7 2.4 37 79-115 186-223 (305)
36 PRK14298 chaperone protein Dna 27.3 45 0.00098 32.4 2.4 9 14-22 31-39 (377)
37 PRK14296 chaperone protein Dna 26.8 41 0.0009 32.6 2.0 58 101-168 148-205 (372)
38 PF12353 eIF3g: Eukaryotic tra 26.7 36 0.00079 28.2 1.4 20 154-174 105-124 (128)
39 PRK03564 formate dehydrogenase 26.5 54 0.0012 31.3 2.6 50 77-138 187-236 (309)
40 PF05741 zf-nanos: Nanos RNA b 26.3 29 0.00063 24.8 0.6 10 77-86 33-42 (55)
41 PF04216 FdhE: Protein involve 25.9 7.4 0.00016 36.3 -3.3 52 78-141 173-224 (290)
42 KOG3116 Predicted C3H1-type Zn 25.7 18 0.00039 31.1 -0.6 24 74-97 24-47 (177)
43 KOG2673 Uncharacterized conser 25.1 39 0.00084 34.0 1.4 21 104-124 130-150 (485)
44 PRK14278 chaperone protein Dna 23.3 45 0.00098 32.4 1.5 13 10-22 25-37 (378)
45 TIGR02349 DnaJ_bact chaperone 21.6 67 0.0015 30.7 2.3 57 101-167 142-198 (354)
46 KOG2044 5'-3' exonuclease HKE1 20.6 56 0.0012 35.1 1.6 19 129-147 261-279 (931)
47 PRK14298 chaperone protein Dna 20.6 57 0.0012 31.7 1.6 57 102-168 141-197 (377)
48 PRK14289 chaperone protein Dna 20.6 65 0.0014 31.3 2.0 10 13-22 30-39 (386)
49 KOG0341 DEAD-box protein abstr 20.6 49 0.0011 33.0 1.2 23 182-204 570-592 (610)
50 PF10083 DUF2321: Uncharacteri 20.3 24 0.00052 30.5 -0.9 11 181-191 67-77 (158)
51 PRK14287 chaperone protein Dna 20.1 62 0.0013 31.4 1.7 9 14-22 30-38 (371)
No 1
>PTZ00368 universal minicircle sequence binding protein (UMSBP); Provisional
Probab=99.91 E-value=4.8e-24 Score=179.97 Aligned_cols=123 Identities=32% Similarity=0.841 Sum_probs=97.1
Q ss_pred CCccccccCCCCccCCCCCCccccccCccccccCCCCCCCCCCCCCCcCcccccccccccccCCCCCCCCCCCCCCCCCc
Q 023488 76 PGESCFICKAKEHIAKHCPMKAEWEKNKICLVCRRRGHTLKNCPSKNDETESTKLCYNCGQAGHSLAQCPQPLQDGGTKF 155 (281)
Q Consensus 76 ~~~~Cf~Cg~~GH~a~~Cp~~~~~~~~~~C~~Cg~~GH~~~~CP~~~~~~~~~~~C~~Cg~~GH~~~~Cp~~~~~~~~~~ 155 (281)
....||+|++.||++++||..........|++|++.||++++||...... ....||+|++.||++++|++.... +...
T Consensus 26 ~~~~C~~Cg~~GH~~~~Cp~~~~~~~~~~C~~Cg~~GH~~~~Cp~~~~~~-~~~~C~~Cg~~GH~~~~C~~~~~~-~~~~ 103 (148)
T PTZ00368 26 KARPCYKCGEPGHLSRECPSAPGGRGERSCYNCGKTGHLSRECPEAPPGS-GPRSCYNCGQTGHISRECPNRAKG-GAAR 103 (148)
T ss_pred CCccCccCCCCCcCcccCcCCCCCCCCcccCCCCCcCcCcccCCCcccCC-CCcccCcCCCCCcccccCCCcccc-cccc
Confidence 45689999999999999998654444568999999999999998864221 246899999999999999986533 2344
Q ss_pred eeeeecCCCCcCCCCCCCCCCCCCccccccccccccCcCCCCCCCC
Q 023488 156 ASCFICKEQGHLSKNCPQNAHGIYPKGGCCKICGGVTHLARDCPNK 201 (281)
Q Consensus 156 ~~C~~Cg~~GH~a~dCp~~~~g~~~~~~~C~~Cg~~GH~a~dCp~~ 201 (281)
..||+|++.||++++||+.+.. ......||+|++.|||+.|||+.
T Consensus 104 ~~C~~Cg~~gH~~~~C~~~~~~-~~~~~~C~~Cg~~gH~~~dCp~~ 148 (148)
T PTZ00368 104 RACYNCGGEGHISRDCPNAGKR-PGGDKTCYNCGQTGHLSRDCPDK 148 (148)
T ss_pred hhhcccCcCCcchhcCCCcccc-CCCCCccccCCCcCcccccCCCC
Confidence 6799999999999999997432 23456899999999999999963
No 2
>PTZ00368 universal minicircle sequence binding protein (UMSBP); Provisional
Probab=99.88 E-value=1.1e-22 Score=171.67 Aligned_cols=121 Identities=36% Similarity=0.870 Sum_probs=99.6
Q ss_pred ccccccCCCCccCCCCCCccc--cccCccccccCCCCCCCCCCCCCCcCcccccccccccccCCCCCCCCCCCCCCCCCc
Q 023488 78 ESCFICKAKEHIAKHCPMKAE--WEKNKICLVCRRRGHTLKNCPSKNDETESTKLCYNCGQAGHSLAQCPQPLQDGGTKF 155 (281)
Q Consensus 78 ~~Cf~Cg~~GH~a~~Cp~~~~--~~~~~~C~~Cg~~GH~~~~CP~~~~~~~~~~~C~~Cg~~GH~~~~Cp~~~~~~~~~~ 155 (281)
++||+|++.||++++||.... ......||+|+..||++++||..... .....||+|++.||++.+||...... ..
T Consensus 1 ~~C~~C~~~GH~~~~c~~~~~~~~~~~~~C~~Cg~~GH~~~~Cp~~~~~-~~~~~C~~Cg~~GH~~~~Cp~~~~~~--~~ 77 (148)
T PTZ00368 1 MVCYRCGGVGHQSRECPNSAPAGAAKARPCYKCGEPGHLSRECPSAPGG-RGERSCYNCGKTGHLSRECPEAPPGS--GP 77 (148)
T ss_pred CcCCCCCCCCcCcccCcCCCCCCCCCCccCccCCCCCcCcccCcCCCCC-CCCcccCCCCCcCcCcccCCCcccCC--CC
Confidence 379999999999999998421 23467999999999999999986532 12468999999999999999865332 34
Q ss_pred eeeeecCCCCcCCCCCCCCCCCCCccccccccccccCcCCCCCCCCC
Q 023488 156 ASCFICKEQGHLSKNCPQNAHGIYPKGGCCKICGGVTHLARDCPNKG 202 (281)
Q Consensus 156 ~~C~~Cg~~GH~a~dCp~~~~g~~~~~~~C~~Cg~~GH~a~dCp~~~ 202 (281)
..|++|++.||++++|++.+.+ ......||+|++.||++++||+.+
T Consensus 78 ~~C~~Cg~~GH~~~~C~~~~~~-~~~~~~C~~Cg~~gH~~~~C~~~~ 123 (148)
T PTZ00368 78 RSCYNCGQTGHISRECPNRAKG-GAARRACYNCGGEGHISRDCPNAG 123 (148)
T ss_pred cccCcCCCCCcccccCCCcccc-cccchhhcccCcCCcchhcCCCcc
Confidence 6799999999999999997754 234568999999999999999874
No 3
>COG5082 AIR1 Arginine methyltransferase-interacting protein, contains RING Zn-finger [Posttranslational modification, protein turnover, chaperones / Intracellular trafficking and secretion]
Probab=99.86 E-value=2.6e-22 Score=174.48 Aligned_cols=115 Identities=33% Similarity=0.756 Sum_probs=101.2
Q ss_pred CCCCccccccCCCCccCCCCCCccccccCccccccCCCCCCCCCCCCCCcCcccccccccccccCCCCCCC-CCCCCCCC
Q 023488 74 MKPGESCFICKAKEHIAKHCPMKAEWEKNKICLVCRRRGHTLKNCPSKNDETESTKLCYNCGQAGHSLAQC-PQPLQDGG 152 (281)
Q Consensus 74 ~~~~~~Cf~Cg~~GH~a~~Cp~~~~~~~~~~C~~Cg~~GH~~~~CP~~~~~~~~~~~C~~Cg~~GH~~~~C-p~~~~~~~ 152 (281)
+.++..||+||+.||++++||. .+|++|...||.+..||.. ..||+||+.||++++| |..+.
T Consensus 57 ~~~~~~C~nCg~~GH~~~DCP~-------~iC~~C~~~~H~s~~C~~~-------~~C~~Cg~~GH~~~dC~P~~~~--- 119 (190)
T COG5082 57 REENPVCFNCGQNGHLRRDCPH-------SICYNCSWDGHRSNHCPKP-------KKCYNCGETGHLSRDCNPSKDQ--- 119 (190)
T ss_pred cccccccchhcccCcccccCCh-------hHhhhcCCCCcccccCCcc-------cccccccccCccccccCccccc---
Confidence 3467899999999999999994 6999998899999999994 7899999999999999 55543
Q ss_pred CCceeeeecCCCCcCCCCCCCCCCCCCc-------cccccccccccCcCCCCCCCCCCCCCC
Q 023488 153 TKFASCFICKEQGHLSKNCPQNAHGIYP-------KGGCCKICGGVTHLARDCPNKGIQGFT 207 (281)
Q Consensus 153 ~~~~~C~~Cg~~GH~a~dCp~~~~g~~~-------~~~~C~~Cg~~GH~a~dCp~~~~~~~~ 207 (281)
.+.|+.|+..+|++++||.+|+.+.. ....||.|+..+|+..||+.++.....
T Consensus 120 --~~~C~~C~s~~H~s~~Cp~~~k~y~~~~~~~~~~~~~cy~c~~~~H~~~dc~~~~~s~~~ 179 (190)
T COG5082 120 --QKSCFDCNSTRHSSEDCPSIWKHYVLNNGDGHPIKKFCYSCGSAGHFGDDCKEPRSSRVP 179 (190)
T ss_pred --CcceeccCCCccccccCcccccccccccCCCcceeeeccccCCccccCCCCCCCcccccc
Confidence 36899999999999999999987643 367999999999999999999876554
No 4
>COG5082 AIR1 Arginine methyltransferase-interacting protein, contains RING Zn-finger [Posttranslational modification, protein turnover, chaperones / Intracellular trafficking and secretion]
Probab=99.67 E-value=3.7e-17 Score=142.38 Aligned_cols=87 Identities=36% Similarity=0.929 Sum_probs=78.7
Q ss_pred cCccccccCCCCCCCCCCCCCCcCcccccccccccccCCCCCCCCCCCCCCCCCceeeeecCCCCcCCCCC-CCCCCCCC
Q 023488 101 KNKICLVCRRRGHTLKNCPSKNDETESTKLCYNCGQAGHSLAQCPQPLQDGGTKFASCFICKEQGHLSKNC-PQNAHGIY 179 (281)
Q Consensus 101 ~~~~C~~Cg~~GH~~~~CP~~~~~~~~~~~C~~Cg~~GH~~~~Cp~~~~~~~~~~~~C~~Cg~~GH~a~dC-p~~~~g~~ 179 (281)
.+..|++||+.||.+++||. .+||+|...||.+..||.. ..|++||+.||++++| |..|.
T Consensus 59 ~~~~C~nCg~~GH~~~DCP~--------~iC~~C~~~~H~s~~C~~~--------~~C~~Cg~~GH~~~dC~P~~~~--- 119 (190)
T COG5082 59 ENPVCFNCGQNGHLRRDCPH--------SICYNCSWDGHRSNHCPKP--------KKCYNCGETGHLSRDCNPSKDQ--- 119 (190)
T ss_pred cccccchhcccCcccccCCh--------hHhhhcCCCCcccccCCcc--------cccccccccCccccccCccccc---
Confidence 46899999999999999994 7999998899999999986 5799999999999999 67764
Q ss_pred ccccccccccccCcCCCCCCCCCCCCCCC
Q 023488 180 PKGGCCKICGGVTHLARDCPNKGIQGFTA 208 (281)
Q Consensus 180 ~~~~~C~~Cg~~GH~a~dCp~~~~~~~~~ 208 (281)
...|+.|...+|++.+||..|+.|...
T Consensus 120 --~~~C~~C~s~~H~s~~Cp~~~k~y~~~ 146 (190)
T COG5082 120 --QKSCFDCNSTRHSSEDCPSIWKHYVLN 146 (190)
T ss_pred --CcceeccCCCccccccCcccccccccc
Confidence 358999999999999999999987766
No 5
>KOG4400 consensus E3 ubiquitin ligase interacting with arginine methyltransferase [Posttranslational modification, protein turnover, chaperones]
Probab=99.63 E-value=1.1e-15 Score=140.28 Aligned_cols=121 Identities=41% Similarity=0.920 Sum_probs=99.4
Q ss_pred CCCCCCCccccccCCCCccCCCCCCccccccCccccccCCCCCCCCCCCCCCcCcccccccccccccCCCCCCCCCCCCC
Q 023488 71 VPGMKPGESCFICKAKEHIAKHCPMKAEWEKNKICLVCRRRGHTLKNCPSKNDETESTKLCYNCGQAGHSLAQCPQPLQD 150 (281)
Q Consensus 71 ~~~~~~~~~Cf~Cg~~GH~a~~Cp~~~~~~~~~~C~~Cg~~GH~~~~CP~~~~~~~~~~~C~~Cg~~GH~~~~Cp~~~~~ 150 (281)
+....+.+.|+.|++.||++..|+.. ...|++|++.||+.++||...........||.|+..||.. |+.....
T Consensus 66 ~~~~~~~~~c~~~g~~~~~~~~~~~~-----~~~c~~C~~~gH~~~~c~~~~~~~~~~~~~~~c~~~gh~~--~~~~~~~ 138 (261)
T KOG4400|consen 66 LKSECPEVSCYICGEKGHLGRRCTRI-----AAACFNCGEGGHIERDCPEAGKEGSSETSCYSCGKTGHRG--CPDADPV 138 (261)
T ss_pred cCCCCCCceeeecCCCCchhhcCccc-----chhhhhCCCCccchhhCCcccCcccccceeeccCCCcccc--Ccccccc
Confidence 33345678999999999999999972 4799999999999999999876543456899999999999 4443322
Q ss_pred CCCCceeeeecCCCCcCCCCCCCCCCCCCccccccccccccCcCCCCCCCCCCC
Q 023488 151 GGTKFASCFICKEQGHLSKNCPQNAHGIYPKGGCCKICGGVTHLARDCPNKGIQ 204 (281)
Q Consensus 151 ~~~~~~~C~~Cg~~GH~a~dCp~~~~g~~~~~~~C~~Cg~~GH~a~dCp~~~~~ 204 (281)
.....+.||.|++.||+..+||+. ....||.|+..||++.|||..+..
T Consensus 139 ~~~~~~~Cy~Cg~~GH~s~~C~~~------~~~~c~~c~~~~h~~~~C~~~~~~ 186 (261)
T KOG4400|consen 139 DGPKPAKCYSCGEQGHISDDCPEN------KGGTCFRCGKVGHGSRDCPSKQKS 186 (261)
T ss_pred cCCCCCccCCCCcCCcchhhCCCC------CCCccccCCCcceecccCCccccc
Confidence 222227899999999999999987 235899999999999999999876
No 6
>KOG4400 consensus E3 ubiquitin ligase interacting with arginine methyltransferase [Posttranslational modification, protein turnover, chaperones]
Probab=99.50 E-value=6.3e-14 Score=128.60 Aligned_cols=142 Identities=27% Similarity=0.524 Sum_probs=100.9
Q ss_pred chhhccccCCCCcCCCCCCCCCccccccCCCCccCCCCCCccccc-cCccccccCCCCCCCCCCCCCCcCccc-cccccc
Q 023488 56 NEKSMKRVFTRHPLRVPGMKPGESCFICKAKEHIAKHCPMKAEWE-KNKICLVCRRRGHTLKNCPSKNDETES-TKLCYN 133 (281)
Q Consensus 56 ~~~~~~~g~~~~~~r~~~~~~~~~Cf~Cg~~GH~a~~Cp~~~~~~-~~~~C~~Cg~~GH~~~~CP~~~~~~~~-~~~C~~ 133 (281)
...+..+|...+..+-... ....|++|++.||++++||...... ....|+.|+..||.. |+........ ...||+
T Consensus 72 ~~~c~~~g~~~~~~~~~~~-~~~~c~~C~~~gH~~~~c~~~~~~~~~~~~~~~c~~~gh~~--~~~~~~~~~~~~~~Cy~ 148 (261)
T KOG4400|consen 72 EVSCYICGEKGHLGRRCTR-IAAACFNCGEGGHIERDCPEAGKEGSSETSCYSCGKTGHRG--CPDADPVDGPKPAKCYS 148 (261)
T ss_pred CceeeecCCCCchhhcCcc-cchhhhhCCCCccchhhCCcccCcccccceeeccCCCcccc--CcccccccCCCCCccCC
Confidence 3445555655544433322 4679999999999999999986433 355799999999999 4333221111 157999
Q ss_pred ccccCCCCCCCCCCCCCCCCCceeeeecCCCCcCCCCCCCCCCCCCc------cccccccccccCcCCCCCCCCCCCCCC
Q 023488 134 CGQAGHSLAQCPQPLQDGGTKFASCFICKEQGHLSKNCPQNAHGIYP------KGGCCKICGGVTHLARDCPNKGIQGFT 207 (281)
Q Consensus 134 Cg~~GH~~~~Cp~~~~~~~~~~~~C~~Cg~~GH~a~dCp~~~~g~~~------~~~~C~~Cg~~GH~a~dCp~~~~~~~~ 207 (281)
||+.||+..+||++ ....||+|++.||++++||..+..... ....|+ +...+|+.++|...+.....
T Consensus 149 Cg~~GH~s~~C~~~------~~~~c~~c~~~~h~~~~C~~~~~~~~~~~~~~~~~~~~~-~~~~~~~~~~~~~~~~~~~~ 221 (261)
T KOG4400|consen 149 CGEQGHISDDCPEN------KGGTCFRCGKVGHGSRDCPSKQKSKSKQGGQRKGFGACY-DYPQGHKQRACGGSGPDDNF 221 (261)
T ss_pred CCcCCcchhhCCCC------CCCccccCCCcceecccCCccccccccCcccccccccCc-cccccccccccCCCCccccc
Confidence 99999999999976 126799999999999999998764322 122344 55788888888877764433
No 7
>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=97.88 E-value=7.5e-06 Score=45.53 Aligned_cols=17 Identities=47% Similarity=1.136 Sum_probs=11.7
Q ss_pred cccccCCCCccCCCCCC
Q 023488 79 SCFICKAKEHIAKHCPM 95 (281)
Q Consensus 79 ~Cf~Cg~~GH~a~~Cp~ 95 (281)
+||+|++.||++++||+
T Consensus 2 ~C~~C~~~GH~~~~Cp~ 18 (18)
T PF00098_consen 2 KCFNCGEPGHIARDCPK 18 (18)
T ss_dssp BCTTTSCSSSCGCTSSS
T ss_pred cCcCCCCcCcccccCcc
Confidence 57777777777777763
No 8
>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=97.66 E-value=2.3e-05 Score=43.57 Aligned_cols=16 Identities=56% Similarity=1.180 Sum_probs=9.4
Q ss_pred ccccccccCcCCCCCC
Q 023488 184 CCKICGGVTHLARDCP 199 (281)
Q Consensus 184 ~C~~Cg~~GH~a~dCp 199 (281)
.||+|++.||++++||
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 3556666666666665
No 9
>PF13696 zf-CCHC_2: Zinc knuckle
Probab=96.93 E-value=0.00035 Score=44.41 Aligned_cols=22 Identities=36% Similarity=0.850 Sum_probs=18.0
Q ss_pred CCCccccccCCCCccCCCCCCc
Q 023488 75 KPGESCFICKAKEHIAKHCPMK 96 (281)
Q Consensus 75 ~~~~~Cf~Cg~~GH~a~~Cp~~ 96 (281)
+++.+|+.|++.||+.++||+.
T Consensus 6 P~~Y~C~~C~~~GH~i~dCP~~ 27 (32)
T PF13696_consen 6 PPGYVCHRCGQKGHWIQDCPTN 27 (32)
T ss_pred CCCCEeecCCCCCccHhHCCCC
Confidence 4578888888888888888874
No 10
>PF13696 zf-CCHC_2: Zinc knuckle
Probab=96.33 E-value=0.0022 Score=40.83 Aligned_cols=17 Identities=41% Similarity=1.064 Sum_probs=8.9
Q ss_pred ccccccccCcCCCCCCC
Q 023488 184 CCKICGGVTHLARDCPN 200 (281)
Q Consensus 184 ~C~~Cg~~GH~a~dCp~ 200 (281)
.|++|+..||+..|||+
T Consensus 10 ~C~~C~~~GH~i~dCP~ 26 (32)
T PF13696_consen 10 VCHRCGQKGHWIQDCPT 26 (32)
T ss_pred EeecCCCCCccHhHCCC
Confidence 45555555555555554
No 11
>KOG0119 consensus Splicing factor 1/branch point binding protein (RRM superfamily) [RNA processing and modification]
Probab=95.23 E-value=0.012 Score=58.41 Aligned_cols=43 Identities=30% Similarity=0.753 Sum_probs=20.9
Q ss_pred ccccccCCCCCCCCCCCCCCcCcccccccccccccCCCCCCCCCC
Q 023488 103 KICLVCRRRGHTLKNCPSKNDETESTKLCYNCGQAGHSLAQCPQP 147 (281)
Q Consensus 103 ~~C~~Cg~~GH~~~~CP~~~~~~~~~~~C~~Cg~~GH~~~~Cp~~ 147 (281)
.+|.+|+..||...+||..... ...+|+.||..||++.+|...
T Consensus 262 ~~c~~cg~~~H~q~~cp~r~~~--~~n~c~~cg~~gH~~~dc~~~ 304 (554)
T KOG0119|consen 262 RACRNCGSTGHKQYDCPGRIPN--TTNVCKICGPLGHISIDCKVN 304 (554)
T ss_pred ccccccCCCccccccCCccccc--ccccccccCCcccccccCCCc
Confidence 4555555555555555554211 012555555555555555443
No 12
>KOG0119 consensus Splicing factor 1/branch point binding protein (RRM superfamily) [RNA processing and modification]
Probab=94.67 E-value=0.022 Score=56.71 Aligned_cols=44 Identities=25% Similarity=0.615 Sum_probs=37.3
Q ss_pred CccccccCCCCccCCCCCCccccccCccccccCCCCCCCCCCCCC
Q 023488 77 GESCFICKAKEHIAKHCPMKAEWEKNKICLVCRRRGHTLKNCPSK 121 (281)
Q Consensus 77 ~~~Cf~Cg~~GH~a~~Cp~~~~~~~~~~C~~Cg~~GH~~~~CP~~ 121 (281)
...|.+||..||-..+||...-...+ +|++|+..||++.+|+..
T Consensus 261 ~~~c~~cg~~~H~q~~cp~r~~~~~n-~c~~cg~~gH~~~dc~~~ 304 (554)
T KOG0119|consen 261 NRACRNCGSTGHKQYDCPGRIPNTTN-VCKICGPLGHISIDCKVN 304 (554)
T ss_pred cccccccCCCccccccCCcccccccc-cccccCCcccccccCCCc
Confidence 45999999999999999997322223 999999999999999887
No 13
>COG5222 Uncharacterized conserved protein, contains RING Zn-finger [General function prediction only]
Probab=93.97 E-value=0.036 Score=52.23 Aligned_cols=49 Identities=24% Similarity=0.457 Sum_probs=34.7
Q ss_pred cCCCCCCCCcchhhccccCCCCcCCCCCCCCCccccccCCCCccCCCCCCcc
Q 023488 46 KKAESKDPNRNEKSMKRVFTRHPLRVPGMKPGESCFICKAKEHIAKHCPMKA 97 (281)
Q Consensus 46 ~~~~~~~~~~~~~~~~~g~~~~~~r~~~~~~~~~Cf~Cg~~GH~a~~Cp~~~ 97 (281)
++..+.+|+-..+..+.+...+..- .+++++||+||+.||+..+||...
T Consensus 148 d~mssatpi~~~~q~r~~aq~~~kp---pPpgY~CyRCGqkgHwIqnCpTN~ 196 (427)
T COG5222 148 DKMSSATPIYKPNQHRIGAQKHNKP---PPPGYVCYRCGQKGHWIQNCPTNQ 196 (427)
T ss_pred hhccccCccccccccccccccCCCC---CCCceeEEecCCCCchhhcCCCCC
Confidence 4566677765555555554444432 357899999999999999999864
No 14
>PF13917 zf-CCHC_3: Zinc knuckle
Probab=93.01 E-value=0.052 Score=36.65 Aligned_cols=18 Identities=33% Similarity=0.713 Sum_probs=11.3
Q ss_pred CccccccCCCCccCCCCC
Q 023488 77 GESCFICKAKEHIAKHCP 94 (281)
Q Consensus 77 ~~~Cf~Cg~~GH~a~~Cp 94 (281)
...|.+|++.||+..+|+
T Consensus 4 ~~~CqkC~~~GH~tyeC~ 21 (42)
T PF13917_consen 4 RVRCQKCGQKGHWTYECP 21 (42)
T ss_pred CCcCcccCCCCcchhhCC
Confidence 345666666666666666
No 15
>smart00343 ZnF_C2HC zinc finger.
Probab=92.37 E-value=0.065 Score=31.94 Aligned_cols=15 Identities=47% Similarity=1.305 Sum_probs=9.4
Q ss_pred ccccCCCCccCCCCC
Q 023488 80 CFICKAKEHIAKHCP 94 (281)
Q Consensus 80 Cf~Cg~~GH~a~~Cp 94 (281)
|++|++.||++++||
T Consensus 2 C~~CG~~GH~~~~C~ 16 (26)
T smart00343 2 CYNCGKEGHIARDCP 16 (26)
T ss_pred CccCCCCCcchhhCC
Confidence 566666666666665
No 16
>smart00343 ZnF_C2HC zinc finger.
Probab=91.24 E-value=0.095 Score=31.22 Aligned_cols=19 Identities=47% Similarity=0.996 Sum_probs=15.7
Q ss_pred ccccccccCcCCCCCCCCC
Q 023488 184 CCKICGGVTHLARDCPNKG 202 (281)
Q Consensus 184 ~C~~Cg~~GH~a~dCp~~~ 202 (281)
.|++|+..||++.+||+..
T Consensus 1 ~C~~CG~~GH~~~~C~~~~ 19 (26)
T smart00343 1 KCYNCGKEGHIARDCPKXX 19 (26)
T ss_pred CCccCCCCCcchhhCCccc
Confidence 3899999999999998443
No 17
>PF13917 zf-CCHC_3: Zinc knuckle
Probab=90.94 E-value=0.15 Score=34.45 Aligned_cols=18 Identities=39% Similarity=0.914 Sum_probs=14.3
Q ss_pred cccccccccCcCCCCCCC
Q 023488 183 GCCKICGGVTHLARDCPN 200 (281)
Q Consensus 183 ~~C~~Cg~~GH~a~dCp~ 200 (281)
..|.+|++.||+..+|+.
T Consensus 5 ~~CqkC~~~GH~tyeC~~ 22 (42)
T PF13917_consen 5 VRCQKCGQKGHWTYECPN 22 (42)
T ss_pred CcCcccCCCCcchhhCCC
Confidence 468888888888888885
No 18
>PF14392 zf-CCHC_4: Zinc knuckle
Probab=89.31 E-value=0.13 Score=35.51 Aligned_cols=25 Identities=28% Similarity=0.679 Sum_probs=18.6
Q ss_pred cCCCCCCCCCccccccCCCCccCCCCC
Q 023488 68 PLRVPGMKPGESCFICKAKEHIAKHCP 94 (281)
Q Consensus 68 ~~r~~~~~~~~~Cf~Cg~~GH~a~~Cp 94 (281)
..+|+.++ ..|+.||..||...+||
T Consensus 24 ~v~YE~lp--~~C~~C~~~gH~~~~C~ 48 (49)
T PF14392_consen 24 KVKYERLP--RFCFHCGRIGHSDKECP 48 (49)
T ss_pred EEEECCcC--hhhcCCCCcCcCHhHcC
Confidence 34445444 67999999999999887
No 19
>KOG0314 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=89.20 E-value=0.59 Score=46.49 Aligned_cols=69 Identities=20% Similarity=0.395 Sum_probs=44.1
Q ss_pred cccccccccCCCCCCCCCCCCCCCCCceeeeecCCCCcCCCCCCCCCCCCCccccccccccccCcCCCCCCCCCCCC
Q 023488 129 KLCYNCGQAGHSLAQCPQPLQDGGTKFASCFICKEQGHLSKNCPQNAHGIYPKGGCCKICGGVTHLARDCPNKGIQG 205 (281)
Q Consensus 129 ~~C~~Cg~~GH~~~~Cp~~~~~~~~~~~~C~~Cg~~GH~a~dCp~~~~g~~~~~~~C~~Cg~~GH~a~dCp~~~~~~ 205 (281)
..+..++..||..+.+.... ...|..|...+|+...|..... -+-...|+.|+..||+...||.....+
T Consensus 113 q~~~~~~~~~~~~~~~t~~~------~~~~~~~~~~~~~iq~~~~~g~--Pppsy~c~rc~~~g~wikacptv~~~~ 181 (448)
T KOG0314|consen 113 QMNGRMGGRGFGMRRQTPPP------GYVCHRCNSPGHFIQHCSTNGS--PPPSYKCVKCPTPGPWIKACPTVSGSY 181 (448)
T ss_pred hhccccccCCcccccCCCcc------cceeeecccCccccccccccCC--CCCCcceecCCCCCccceeccccCCcc
Confidence 35677777777777664432 2467777777777777766543 233456777777777777777665443
No 20
>KOG0314 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=88.69 E-value=0.7 Score=45.96 Aligned_cols=67 Identities=15% Similarity=0.341 Sum_probs=55.3
Q ss_pred CccccccCCCCccCCCCCCccccccCccccccCCCCCCCCCCCCCCcCcccccccccccccCCCCCCCCCCC
Q 023488 77 GESCFICKAKEHIAKHCPMKAEWEKNKICLVCRRRGHTLKNCPSKNDETESTKLCYNCGQAGHSLAQCPQPL 148 (281)
Q Consensus 77 ~~~Cf~Cg~~GH~a~~Cp~~~~~~~~~~C~~Cg~~GH~~~~CP~~~~~~~~~~~C~~Cg~~GH~~~~Cp~~~ 148 (281)
-..++.++..||..+.+.... ..+|..|...+|+...|...... -....|++|+..||+...||...
T Consensus 112 ~q~~~~~~~~~~~~~~~t~~~----~~~~~~~~~~~~~iq~~~~~g~P-ppsy~c~rc~~~g~wikacptv~ 178 (448)
T KOG0314|consen 112 IQMNGRMGGRGFGMRRQTPPP----GYVCHRCNSPGHFIQHCSTNGSP-PPSYKCVKCPTPGPWIKACPTVS 178 (448)
T ss_pred hhhccccccCCcccccCCCcc----cceeeecccCccccccccccCCC-CCCcceecCCCCCccceeccccC
Confidence 358999999999999996644 57899999999999999775442 23578999999999999999764
No 21
>PF15288 zf-CCHC_6: Zinc knuckle
Probab=88.35 E-value=0.52 Score=31.49 Aligned_cols=20 Identities=35% Similarity=0.805 Sum_probs=13.9
Q ss_pred ccccccccCcCC--CCCCCCCC
Q 023488 184 CCKICGGVTHLA--RDCPNKGI 203 (281)
Q Consensus 184 ~C~~Cg~~GH~a--~dCp~~~~ 203 (281)
.|.+||..||+. +.||....
T Consensus 3 kC~~CG~~GH~~t~k~CP~~~~ 24 (40)
T PF15288_consen 3 KCKNCGAFGHMRTNKRCPMYCW 24 (40)
T ss_pred cccccccccccccCccCCCCCC
Confidence 577777777765 57776654
No 22
>KOG0109 consensus RNA-binding protein LARK, contains RRM and retroviral-type Zn-finger domains [RNA processing and modification; General function prediction only]
Probab=85.37 E-value=0.48 Score=44.70 Aligned_cols=29 Identities=31% Similarity=0.783 Sum_probs=23.0
Q ss_pred CCCCCCCCCccccccCCCCccCCCCCCcc
Q 023488 69 LRVPGMKPGESCFICKAKEHIAKHCPMKA 97 (281)
Q Consensus 69 ~r~~~~~~~~~Cf~Cg~~GH~a~~Cp~~~ 97 (281)
..-|+|-+...|+.||.+||++++||...
T Consensus 152 rtapgmgDq~~cyrcGkeghwskEcP~~~ 180 (346)
T KOG0109|consen 152 RTAPGMGDQSGCYRCGKEGHWSKECPVDR 180 (346)
T ss_pred ccCCCCCCHHHheeccccccccccCCccC
Confidence 33577877788999999999999998864
No 23
>PF14392 zf-CCHC_4: Zinc knuckle
Probab=85.01 E-value=0.31 Score=33.56 Aligned_cols=18 Identities=33% Similarity=0.922 Sum_probs=12.9
Q ss_pred ccccccccccCcCCCCCC
Q 023488 182 GGCCKICGGVTHLARDCP 199 (281)
Q Consensus 182 ~~~C~~Cg~~GH~a~dCp 199 (281)
+..|+.||..||...+||
T Consensus 31 p~~C~~C~~~gH~~~~C~ 48 (49)
T PF14392_consen 31 PRFCFHCGRIGHSDKECP 48 (49)
T ss_pred ChhhcCCCCcCcCHhHcC
Confidence 346777777777777776
No 24
>COG5222 Uncharacterized conserved protein, contains RING Zn-finger [General function prediction only]
Probab=84.63 E-value=0.54 Score=44.49 Aligned_cols=23 Identities=30% Similarity=0.689 Sum_probs=14.8
Q ss_pred ccccccccccCcCCCCCCCCCCC
Q 023488 182 GGCCKICGGVTHLARDCPNKGIQ 204 (281)
Q Consensus 182 ~~~C~~Cg~~GH~a~dCp~~~~~ 204 (281)
+..||+||+.||+..+||.....
T Consensus 176 gY~CyRCGqkgHwIqnCpTN~Dp 198 (427)
T COG5222 176 GYVCYRCGQKGHWIQNCPTNQDP 198 (427)
T ss_pred ceeEEecCCCCchhhcCCCCCCC
Confidence 44677777777777777665543
No 25
>PF15288 zf-CCHC_6: Zinc knuckle
Probab=84.42 E-value=0.57 Score=31.31 Aligned_cols=19 Identities=42% Similarity=0.794 Sum_probs=11.8
Q ss_pred ccccccCCCCccC--CCCCCc
Q 023488 78 ESCFICKAKEHIA--KHCPMK 96 (281)
Q Consensus 78 ~~Cf~Cg~~GH~a--~~Cp~~ 96 (281)
..|.+||+.||+. +.||..
T Consensus 2 ~kC~~CG~~GH~~t~k~CP~~ 22 (40)
T PF15288_consen 2 VKCKNCGAFGHMRTNKRCPMY 22 (40)
T ss_pred ccccccccccccccCccCCCC
Confidence 3567777777766 446653
No 26
>KOG0109 consensus RNA-binding protein LARK, contains RRM and retroviral-type Zn-finger domains [RNA processing and modification; General function prediction only]
Probab=76.18 E-value=1.5 Score=41.40 Aligned_cols=92 Identities=18% Similarity=0.286 Sum_probs=46.0
Q ss_pred ccccccCCCCccCCCCCCccccccCccccccCCCC--CC--CCCCCCCCcCcccccccccccccCCCCCCCCCCCC-CCC
Q 023488 78 ESCFICKAKEHIAKHCPMKAEWEKNKICLVCRRRG--HT--LKNCPSKNDETESTKLCYNCGQAGHSLAQCPQPLQ-DGG 152 (281)
Q Consensus 78 ~~Cf~Cg~~GH~a~~Cp~~~~~~~~~~C~~Cg~~G--H~--~~~CP~~~~~~~~~~~C~~Cg~~GH~~~~Cp~~~~-~~~ 152 (281)
-+|+.|....|-+..|+... .+-|-.=...+ |+ +.+|.....+ ++ ..=| =|+.-|..-.=...+. .+-
T Consensus 85 Nis~tctn~ElRa~fe~ygp----viecdivkdy~fvh~d~~eda~~air~-l~-~~~~-~gk~m~vq~stsrlrtapgm 157 (346)
T KOG0109|consen 85 NISPTCTNQELRAKFEKYGP----VIECDIVKDYAFVHFDRAEDAVEAIRG-LD-NTEF-QGKRMHVQLSTSRLRTAPGM 157 (346)
T ss_pred CCCccccCHHHhhhhcccCC----ceeeeeecceeEEEEeeccchHHHHhc-cc-cccc-ccceeeeeeeccccccCCCC
Confidence 57889999999999988754 23343333332 22 1222222211 00 0000 0222233222111111 111
Q ss_pred CCceeeeecCCCCcCCCCCCCCCC
Q 023488 153 TKFASCFICKEQGHLSKNCPQNAH 176 (281)
Q Consensus 153 ~~~~~C~~Cg~~GH~a~dCp~~~~ 176 (281)
.....||+||..|||+++||....
T Consensus 158 gDq~~cyrcGkeghwskEcP~~~~ 181 (346)
T KOG0109|consen 158 GDQSGCYRCGKEGHWSKECPVDRT 181 (346)
T ss_pred CCHHHheeccccccccccCCccCC
Confidence 224569999999999999988764
No 27
>PF14787 zf-CCHC_5: GAG-polyprotein viral zinc-finger; PDB: 1CL4_A 1DSV_A.
Probab=74.07 E-value=2.1 Score=27.98 Aligned_cols=20 Identities=30% Similarity=0.459 Sum_probs=9.6
Q ss_pred ccccccCCCCccCCCCCCcc
Q 023488 78 ESCFICKAKEHIAKHCPMKA 97 (281)
Q Consensus 78 ~~Cf~Cg~~GH~a~~Cp~~~ 97 (281)
..|++|+...|++.+|....
T Consensus 3 ~~CprC~kg~Hwa~~C~sk~ 22 (36)
T PF14787_consen 3 GLCPRCGKGFHWASECRSKT 22 (36)
T ss_dssp -C-TTTSSSCS-TTT---TC
T ss_pred ccCcccCCCcchhhhhhhhh
Confidence 35777777777777776643
No 28
>PF14787 zf-CCHC_5: GAG-polyprotein viral zinc-finger; PDB: 1CL4_A 1DSV_A.
Probab=70.31 E-value=3.6 Score=26.88 Aligned_cols=20 Identities=35% Similarity=0.642 Sum_probs=10.9
Q ss_pred ccccccccCcCCCCCCCCCC
Q 023488 184 CCKICGGVTHLARDCPNKGI 203 (281)
Q Consensus 184 ~C~~Cg~~GH~a~dCp~~~~ 203 (281)
.|.+|+.-.|++.+|.....
T Consensus 4 ~CprC~kg~Hwa~~C~sk~d 23 (36)
T PF14787_consen 4 LCPRCGKGFHWASECRSKTD 23 (36)
T ss_dssp C-TTTSSSCS-TTT---TCC
T ss_pred cCcccCCCcchhhhhhhhhc
Confidence 57778888888888876554
No 29
>KOG2813 consensus Predicted molecular chaperone, contains DnaJ domain [Posttranslational modification, protein turnover, chaperones]
Probab=64.11 E-value=10 Score=36.51 Aligned_cols=34 Identities=24% Similarity=0.598 Sum_probs=17.6
Q ss_pred eeeeecCCCCcCCCCCCCCCCCCCccccccccccccCcC
Q 023488 156 ASCFICKEQGHLSKNCPQNAHGIYPKGGCCKICGGVTHL 194 (281)
Q Consensus 156 ~~C~~Cg~~GH~a~dCp~~~~g~~~~~~~C~~Cg~~GH~ 194 (281)
..|+.|+..|-. .|+.-..++ ...|..|...|-+
T Consensus 235 ~~C~~C~G~G~~--~C~tC~grG---~k~C~TC~gtgsl 268 (406)
T KOG2813|consen 235 DLCYMCHGRGIK--ECHTCKGRG---KKPCTTCSGTGSL 268 (406)
T ss_pred chhhhccCCCcc--cCCcccCCC---CcccccccCccce
Confidence 456666665533 455543221 2356666666643
No 30
>PF12353 eIF3g: Eukaryotic translation initiation factor 3 subunit G ; InterPro: IPR024675 At least eleven different protein factors are involved in initiation of protein synthesis in eukaryotes. Binding of initiator tRNA and mRNA to the 40S subunit requires the presence of the translation initiation factors eIF-2 and eIF-3, with eIF-3 being particularly important for 80S ribosome dissociation and mRNA binding []. eIF-3 is the most complex translation inititation factor, consisting of about 13 putative subunits and having a molecular weight of between 550 - 700 kDa in mammalian cells. Subunits are designated eIF-3a - eIF-3m; the large number of subunits means that the interactions between the individual subunits that make up the eIF-3 complex are complex and varied. Subunit G is required for eIF3 integrity. This entry represents a domain of approximately 130 amino acids in length found at the N terminus of eukaryotic translation initiation factor 3 subunit G. This domain is commonly found in association with the RNA recognition domain PF00076 from PFAM.
Probab=37.51 E-value=17 Score=30.15 Aligned_cols=21 Identities=38% Similarity=0.847 Sum_probs=17.3
Q ss_pred CCccccccCCCCccCCCCCCcc
Q 023488 76 PGESCFICKAKEHIAKHCPMKA 97 (281)
Q Consensus 76 ~~~~Cf~Cg~~GH~a~~Cp~~~ 97 (281)
..+.|++|+ -.|+...||.+.
T Consensus 105 ~~v~CR~Ck-GdH~T~~CPyKd 125 (128)
T PF12353_consen 105 SKVKCRICK-GDHWTSKCPYKD 125 (128)
T ss_pred ceEEeCCCC-CCcccccCCccc
Confidence 357899997 789999999853
No 31
>KOG2673 consensus Uncharacterized conserved protein, contains PSP domain [Function unknown]
Probab=32.94 E-value=23 Score=35.53 Aligned_cols=20 Identities=50% Similarity=1.295 Sum_probs=17.3
Q ss_pred ccccccccCCCCCCCCCCCC
Q 023488 130 LCYNCGQAGHSLAQCPQPLQ 149 (281)
Q Consensus 130 ~C~~Cg~~GH~~~~Cp~~~~ 149 (281)
.||+|+..-|..++||.+..
T Consensus 130 ~CFNC~g~~hsLrdC~rp~d 149 (485)
T KOG2673|consen 130 PCFNCGGTPHSLRDCPRPFD 149 (485)
T ss_pred cccccCCCCCccccCCCccc
Confidence 38999999999999998764
No 32
>KOG2560 consensus RNA splicing factor - Slu7p [RNA processing and modification]
Probab=31.18 E-value=16 Score=36.74 Aligned_cols=36 Identities=28% Similarity=0.540 Sum_probs=21.6
Q ss_pred cccccccccCcCCCCCCCCCCCCCCCCcccccCCCC
Q 023488 183 GCCKICGGVTHLARDCPNKGIQGFTASSKQAMAGGE 218 (281)
Q Consensus 183 ~~C~~Cg~~GH~a~dCp~~~~~~~~~~~~~~~~~~~ 218 (281)
+.|-+||..||-..||=++.+.-.+......|.+.+
T Consensus 113 GACeNCGAmtHk~KDCmERPRK~gAk~t~~Nia~De 148 (529)
T KOG2560|consen 113 GACENCGAMTHKVKDCMERPRKVGAKYTDLNIAPDE 148 (529)
T ss_pred hhhhhhhhhhcchHHHhhcchhhcccCCCcccCccc
Confidence 467777777777777766655544444444444444
No 33
>PF09779 Ima1_N: Ima1 N-terminal domain; InterPro: IPR018617 Members of this family of uncharacterised novel proteins have no known function.
Probab=29.08 E-value=50 Score=27.34 Aligned_cols=33 Identities=12% Similarity=0.470 Sum_probs=18.7
Q ss_pred eeeecCCCCcCCCCCCCCCCCCCccccccccccccCcCCC
Q 023488 157 SCFICKEQGHLSKNCPQNAHGIYPKGGCCKICGGVTHLAR 196 (281)
Q Consensus 157 ~C~~Cg~~GH~a~dCp~~~~g~~~~~~~C~~Cg~~GH~a~ 196 (281)
.||.||+...+..+-... ...|..|....+|..
T Consensus 2 ~C~fC~~~s~~~~~~~~~-------~w~C~~C~q~N~f~e 34 (131)
T PF09779_consen 2 NCWFCGQNSKVPYDNRNS-------NWTCPHCEQYNGFDE 34 (131)
T ss_pred eeccCCCCCCCCCCCCCC-------eeECCCCCCccCccc
Confidence 467777666555444333 125777766666544
No 34
>COG2888 Predicted Zn-ribbon RNA-binding protein with a function in translation [Translation, ribosomal structure and biogenesis]
Probab=28.72 E-value=25 Score=25.59 Aligned_cols=8 Identities=25% Similarity=0.659 Sum_probs=4.5
Q ss_pred ccccccCC
Q 023488 78 ESCFICKA 85 (281)
Q Consensus 78 ~~Cf~Cg~ 85 (281)
.+|..||.
T Consensus 10 ~~CtSCg~ 17 (61)
T COG2888 10 PVCTSCGR 17 (61)
T ss_pred ceeccCCC
Confidence 35666654
No 35
>TIGR01562 FdhE formate dehydrogenase accessory protein FdhE. The only sequence scoring between trusted and noise is that from Aquifex aeolicus, which shows certain structural differences from the proteobacterial forms in the alignment. However it is notable that A. aeolicus also has a sequence scoring above trusted to the alpha subunit of formate dehydrogenase (TIGR01553).
Probab=27.69 E-value=45 Score=31.74 Aligned_cols=37 Identities=16% Similarity=0.201 Sum_probs=17.3
Q ss_pred cccccCCCCccCCCCCC-ccccccCccccccCCCCCCC
Q 023488 79 SCFICKAKEHIAKHCPM-KAEWEKNKICLVCRRRGHTL 115 (281)
Q Consensus 79 ~Cf~Cg~~GH~a~~Cp~-~~~~~~~~~C~~Cg~~GH~~ 115 (281)
.|-.||..-+++..=.. ..++.+-..|..|+..=|+.
T Consensus 186 ~CPvCGs~P~~s~~~~~~~~~G~RyL~CslC~teW~~~ 223 (305)
T TIGR01562 186 LCPACGSPPVASMVRQGGKETGLRYLSCSLCATEWHYV 223 (305)
T ss_pred cCCCCCChhhhhhhcccCCCCCceEEEcCCCCCccccc
Confidence 67777765443321110 01122345566666555554
No 36
>PRK14298 chaperone protein DnaJ; Provisional
Probab=27.29 E-value=45 Score=32.40 Aligned_cols=9 Identities=22% Similarity=0.342 Sum_probs=6.8
Q ss_pred hhhCCCCCC
Q 023488 14 KEVHPELFP 22 (281)
Q Consensus 14 ~~~~~~~~~ 22 (281)
+.-|||+++
T Consensus 31 ~~~HPD~~~ 39 (377)
T PRK14298 31 MKYHPDKNK 39 (377)
T ss_pred HHhCccccC
Confidence 456999986
No 37
>PRK14296 chaperone protein DnaJ; Provisional
Probab=26.79 E-value=41 Score=32.63 Aligned_cols=58 Identities=22% Similarity=0.378 Sum_probs=27.4
Q ss_pred cCccccccCCCCCCCCCCCCCCcCcccccccccccccCCCCCCCCCCCCCCCCCceeeeecCCCCcCC
Q 023488 101 KNKICLVCRRRGHTLKNCPSKNDETESTKLCYNCGQAGHSLAQCPQPLQDGGTKFASCFICKEQGHLS 168 (281)
Q Consensus 101 ~~~~C~~Cg~~GH~~~~CP~~~~~~~~~~~C~~Cg~~GH~~~~Cp~~~~~~~~~~~~C~~Cg~~GH~a 168 (281)
+...|-.|...|=..... ...|..|+..|.....-.... ..-.....|..|+..|-+.
T Consensus 148 ~~~~C~~C~G~G~~~~~~---------~~~C~~C~G~G~~~~~~~~g~-~~~q~~~~C~~C~G~G~~~ 205 (372)
T PRK14296 148 LLTNCSKCFGSGAESNSD---------IHICNNCHGTGEVLVQKNMGF-FQFQQSAKCNVCNGAGKII 205 (372)
T ss_pred eeeccCCCCCCccCCCCC---------CccCCCCCCCceEEEEEeccc-eEEEEEecCCCcCCcceee
Confidence 345677777666332211 245777777775532210000 0000123577777766553
No 38
>PF12353 eIF3g: Eukaryotic translation initiation factor 3 subunit G ; InterPro: IPR024675 At least eleven different protein factors are involved in initiation of protein synthesis in eukaryotes. Binding of initiator tRNA and mRNA to the 40S subunit requires the presence of the translation initiation factors eIF-2 and eIF-3, with eIF-3 being particularly important for 80S ribosome dissociation and mRNA binding []. eIF-3 is the most complex translation inititation factor, consisting of about 13 putative subunits and having a molecular weight of between 550 - 700 kDa in mammalian cells. Subunits are designated eIF-3a - eIF-3m; the large number of subunits means that the interactions between the individual subunits that make up the eIF-3 complex are complex and varied. Subunit G is required for eIF3 integrity. This entry represents a domain of approximately 130 amino acids in length found at the N terminus of eukaryotic translation initiation factor 3 subunit G. This domain is commonly found in association with the RNA recognition domain PF00076 from PFAM.
Probab=26.67 E-value=36 Score=28.17 Aligned_cols=20 Identities=35% Similarity=0.816 Sum_probs=14.7
Q ss_pred CceeeeecCCCCcCCCCCCCC
Q 023488 154 KFASCFICKEQGHLSKNCPQN 174 (281)
Q Consensus 154 ~~~~C~~Cg~~GH~a~dCp~~ 174 (281)
..+.|.+|+ ..||...||..
T Consensus 105 ~~v~CR~Ck-GdH~T~~CPyK 124 (128)
T PF12353_consen 105 SKVKCRICK-GDHWTSKCPYK 124 (128)
T ss_pred ceEEeCCCC-CCcccccCCcc
Confidence 346788885 77888888864
No 39
>PRK03564 formate dehydrogenase accessory protein FdhE; Provisional
Probab=26.47 E-value=54 Score=31.34 Aligned_cols=50 Identities=20% Similarity=0.372 Sum_probs=26.4
Q ss_pred CccccccCCCCccCCCCCCccccccCccccccCCCCCCCCCCCCCCcCcccccccccccccC
Q 023488 77 GESCFICKAKEHIAKHCPMKAEWEKNKICLVCRRRGHTLKNCPSKNDETESTKLCYNCGQAG 138 (281)
Q Consensus 77 ~~~Cf~Cg~~GH~a~~Cp~~~~~~~~~~C~~Cg~~GH~~~~CP~~~~~~~~~~~C~~Cg~~G 138 (281)
...|-.||..-.++-.=....++.+-..|..|+..=|+.+ ..|..||+.+
T Consensus 187 ~~~CPvCGs~P~~s~v~~~~~~G~RyL~CslC~teW~~~R------------~~C~~Cg~~~ 236 (309)
T PRK03564 187 RQFCPVCGSMPVSSVVQIGTTQGLRYLHCNLCESEWHVVR------------VKCSNCEQSG 236 (309)
T ss_pred CCCCCCCCCcchhheeeccCCCCceEEEcCCCCCcccccC------------ccCCCCCCCC
Confidence 3578888876444311001112234456777766666643 4566676543
No 40
>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=26.28 E-value=29 Score=24.78 Aligned_cols=10 Identities=40% Similarity=0.660 Sum_probs=2.0
Q ss_pred CccccccCCC
Q 023488 77 GESCFICKAK 86 (281)
Q Consensus 77 ~~~Cf~Cg~~ 86 (281)
..+|-.||+.
T Consensus 33 ~y~Cp~CgAt 42 (55)
T PF05741_consen 33 KYVCPICGAT 42 (55)
T ss_dssp G---TTT---
T ss_pred cCcCCCCcCc
Confidence 3455555553
No 41
>PF04216 FdhE: Protein involved in formate dehydrogenase formation; InterPro: IPR006452 This family of sequences describe an accessory protein required for the assembly of formate dehydrogenase of certain proteobacteria although not present in the final complex []. The exact nature of the function of FdhE in the assembly of the complex is unknown, but considering the presence of selenocysteine, molybdopterin, iron-sulphur clusters and cytochrome b556, it is likely to be involved in the insertion of cofactors. ; GO: 0005737 cytoplasm; PDB: 2FIY_B.
Probab=25.86 E-value=7.4 Score=36.27 Aligned_cols=52 Identities=17% Similarity=0.354 Sum_probs=19.8
Q ss_pred ccccccCCCCccCCCCCCccccccCccccccCCCCCCCCCCCCCCcCcccccccccccccCCCC
Q 023488 78 ESCFICKAKEHIAKHCPMKAEWEKNKICLVCRRRGHTLKNCPSKNDETESTKLCYNCGQAGHSL 141 (281)
Q Consensus 78 ~~Cf~Cg~~GH~a~~Cp~~~~~~~~~~C~~Cg~~GH~~~~CP~~~~~~~~~~~C~~Cg~~GH~~ 141 (281)
..|-.||..-.++..-....++.+-..|..|+..=|+.+ ..|..||...|..
T Consensus 173 g~CPvCGs~P~~s~l~~~~~~G~R~L~Cs~C~t~W~~~R------------~~Cp~Cg~~~~~~ 224 (290)
T PF04216_consen 173 GYCPVCGSPPVLSVLRGGEREGKRYLHCSLCGTEWRFVR------------IKCPYCGNTDHEK 224 (290)
T ss_dssp SS-TTT---EEEEEEE------EEEEEETTT--EEE--T------------TS-TTT---SS-E
T ss_pred CcCCCCCCcCceEEEecCCCCccEEEEcCCCCCeeeecC------------CCCcCCCCCCCcc
Confidence 588888887555544443211224566777766555432 4577777766653
No 42
>KOG3116 consensus Predicted C3H1-type Zn-finger protein [General function prediction only]
Probab=25.69 E-value=18 Score=31.08 Aligned_cols=24 Identities=21% Similarity=0.422 Sum_probs=18.2
Q ss_pred CCCCccccccCCCCccCCCCCCcc
Q 023488 74 MKPGESCFICKAKEHIAKHCPMKA 97 (281)
Q Consensus 74 ~~~~~~Cf~Cg~~GH~a~~Cp~~~ 97 (281)
+..++.|..|.+.||+...|..+.
T Consensus 24 ~~~~~rCQKClq~GHWtYECk~kR 47 (177)
T KOG3116|consen 24 VGSSARCQKCLQAGHWTYECKNKR 47 (177)
T ss_pred cccchhHHHHHhhccceeeecCce
Confidence 445678888888888888887753
No 43
>KOG2673 consensus Uncharacterized conserved protein, contains PSP domain [Function unknown]
Probab=25.13 E-value=39 Score=33.96 Aligned_cols=21 Identities=33% Similarity=0.774 Sum_probs=17.6
Q ss_pred cccccCCCCCCCCCCCCCCcC
Q 023488 104 ICLVCRRRGHTLKNCPSKNDE 124 (281)
Q Consensus 104 ~C~~Cg~~GH~~~~CP~~~~~ 124 (281)
.||+|+..-|..++||.+.+.
T Consensus 130 ~CFNC~g~~hsLrdC~rp~d~ 150 (485)
T KOG2673|consen 130 PCFNCGGTPHSLRDCPRPFDF 150 (485)
T ss_pred cccccCCCCCccccCCCcccc
Confidence 489999999999999987653
No 44
>PRK14278 chaperone protein DnaJ; Provisional
Probab=23.32 E-value=45 Score=32.40 Aligned_cols=13 Identities=46% Similarity=0.874 Sum_probs=8.5
Q ss_pred HHhhhhhCCCCCC
Q 023488 10 RKRFKEVHPELFP 22 (281)
Q Consensus 10 ~~~~~~~~~~~~~ 22 (281)
|+.-+.-|||..|
T Consensus 25 r~la~~~hpD~~~ 37 (378)
T PRK14278 25 RKLARELHPDVNP 37 (378)
T ss_pred HHHHHHHCCCCCC
Confidence 3344566899876
No 45
>TIGR02349 DnaJ_bact chaperone protein DnaJ. This model represents bacterial forms of DnaJ, part of the DnaK-DnaJ-GrpE chaperone system. The three components typically are encoded by consecutive genes. DnaJ homologs occur in many genomes, typically not near DnaK and GrpE-like genes; most such genes are not included by this family. Eukaryotic (mitochondrial and chloroplast) forms are not included in the scope of this family.
Probab=21.57 E-value=67 Score=30.72 Aligned_cols=57 Identities=23% Similarity=0.471 Sum_probs=26.4
Q ss_pred cCccccccCCCCCCCCCCCCCCcCcccccccccccccCCCCCCCCCCCCCCCCCceeeeecCCCCcC
Q 023488 101 KNKICLVCRRRGHTLKNCPSKNDETESTKLCYNCGQAGHSLAQCPQPLQDGGTKFASCFICKEQGHL 167 (281)
Q Consensus 101 ~~~~C~~Cg~~GH~~~~CP~~~~~~~~~~~C~~Cg~~GH~~~~Cp~~~~~~~~~~~~C~~Cg~~GH~ 167 (281)
+...|-.|...|-..... ...|..|+..|.....-..... .......|..|+..|-+
T Consensus 142 r~~~C~~C~G~G~~~~~~---------~~~C~~C~G~G~~~~~~~~~~g-~~~~~~~C~~C~G~G~~ 198 (354)
T TIGR02349 142 RKESCETCHGTGAKPGTD---------PKTCPTCGGTGQVRRQQGTPFG-FFQQQQTCPTCGGEGKI 198 (354)
T ss_pred cCCcCCCCCCCCCCCCCC---------CccCCCCCCeeEEEEEEeccCC-ceEEEEecCCCCCccee
Confidence 456677776666332111 2457777776654322110000 00012456677666654
No 46
>KOG2044 consensus 5'-3' exonuclease HKE1/RAT1 [Replication, recombination and repair; RNA processing and modification]
Probab=20.63 E-value=56 Score=35.14 Aligned_cols=19 Identities=37% Similarity=0.999 Sum_probs=12.6
Q ss_pred cccccccccCCCCCCCCCC
Q 023488 129 KLCYNCGQAGHSLAQCPQP 147 (281)
Q Consensus 129 ~~C~~Cg~~GH~~~~Cp~~ 147 (281)
..|+.||++||.+.+|...
T Consensus 261 ~~C~~cgq~gh~~~dc~g~ 279 (931)
T KOG2044|consen 261 RRCFLCGQTGHEAKDCEGK 279 (931)
T ss_pred ccchhhcccCCcHhhcCCc
Confidence 4577777777777777654
No 47
>PRK14298 chaperone protein DnaJ; Provisional
Probab=20.63 E-value=57 Score=31.72 Aligned_cols=57 Identities=25% Similarity=0.524 Sum_probs=27.6
Q ss_pred CccccccCCCCCCCCCCCCCCcCcccccccccccccCCCCCCCCCCCCCCCCCceeeeecCCCCcCC
Q 023488 102 NKICLVCRRRGHTLKNCPSKNDETESTKLCYNCGQAGHSLAQCPQPLQDGGTKFASCFICKEQGHLS 168 (281)
Q Consensus 102 ~~~C~~Cg~~GH~~~~CP~~~~~~~~~~~C~~Cg~~GH~~~~Cp~~~~~~~~~~~~C~~Cg~~GH~a 168 (281)
...|..|...|=.... ....|..|+..|.....-..+. ........|..|+..|.+.
T Consensus 141 ~~~C~~C~G~G~~~~~---------~~~~C~~C~G~G~~~~~~~~~~-g~~~~~~~C~~C~G~G~~~ 197 (377)
T PRK14298 141 AERCSTCSGTGAKPGT---------SPKRCPTCGGTGQVTTTRSTPL-GQFVTTTTCSTCHGRGQVI 197 (377)
T ss_pred eccCCCCCCCcccCCC---------CCCcCCCCCCccEEEEEEecCc-eeEEEEEeCCCCCCCCccc
Confidence 4567777766532211 1245777777775432211000 0001134577777777653
No 48
>PRK14289 chaperone protein DnaJ; Provisional
Probab=20.59 E-value=65 Score=31.30 Aligned_cols=10 Identities=30% Similarity=0.497 Sum_probs=7.4
Q ss_pred hhhhCCCCCC
Q 023488 13 FKEVHPELFP 22 (281)
Q Consensus 13 ~~~~~~~~~~ 22 (281)
-+.-|||+.|
T Consensus 30 a~~~HpD~~~ 39 (386)
T PRK14289 30 AIQYHPDKNP 39 (386)
T ss_pred HHHHCCCCCC
Confidence 3456999986
No 49
>KOG0341 consensus DEAD-box protein abstrakt [RNA processing and modification]
Probab=20.57 E-value=49 Score=33.05 Aligned_cols=23 Identities=39% Similarity=0.845 Sum_probs=19.5
Q ss_pred ccccccccccCcCCCCCCCCCCC
Q 023488 182 GGCCKICGGVTHLARDCPNKGIQ 204 (281)
Q Consensus 182 ~~~C~~Cg~~GH~a~dCp~~~~~ 204 (281)
...|.+||..||...|||.....
T Consensus 570 ~kGCayCgGLGHRItdCPKle~~ 592 (610)
T KOG0341|consen 570 EKGCAYCGGLGHRITDCPKLEAQ 592 (610)
T ss_pred ccccccccCCCcccccCchhhhh
Confidence 45799999999999999987643
No 50
>PF10083 DUF2321: Uncharacterized protein conserved in bacteria (DUF2321); InterPro: IPR016891 This entry is represented by Bacteriophage 'Lactobacillus prophage Lj928', Orf-Ljo1454. The characteristics of the protein distribution suggest prophage matches in addition to the phage matches. There is currently no experimental data for members of this group or their homologues, nor do they exhibit features indicative of any function.
Probab=20.34 E-value=24 Score=30.45 Aligned_cols=11 Identities=27% Similarity=0.679 Sum_probs=8.2
Q ss_pred ccccccccccc
Q 023488 181 KGGCCKICGGV 191 (281)
Q Consensus 181 ~~~~C~~Cg~~ 191 (281)
.+.+|++||..
T Consensus 67 ~PsYC~~CGkp 77 (158)
T PF10083_consen 67 APSYCHNCGKP 77 (158)
T ss_pred CChhHHhCCCC
Confidence 34589999984
No 51
>PRK14287 chaperone protein DnaJ; Provisional
Probab=20.12 E-value=62 Score=31.38 Aligned_cols=9 Identities=22% Similarity=0.637 Sum_probs=6.7
Q ss_pred hhhCCCCCC
Q 023488 14 KEVHPELFP 22 (281)
Q Consensus 14 ~~~~~~~~~ 22 (281)
+.-|||..+
T Consensus 30 ~~~HpD~~~ 38 (371)
T PRK14287 30 RKYHPDVNK 38 (371)
T ss_pred HHHCcCCCC
Confidence 466999865
Done!