Query 020994
Match_columns 319
No_of_seqs 260 out of 1099
Neff 4.4
Searched_HMMs 46136
Date Fri Mar 29 06:46:47 2013
Command hhsearch -i /work/01045/syshi/csienesis_hhblits_a3m/020994.a3m -d /work/01045/syshi/HHdatabase/Cdd.hhm -o /work/01045/syshi/hhsearch_cdd/020994hhsearch_cdd -cpu 12 -v 0
No Hit Prob E-value P-value Score SS Cols Query HMM Template HMM
1 KOG1677 CCCH-type Zn-finger pr 99.7 3.6E-18 7.8E-23 162.3 7.8 79 147-227 125-204 (332)
2 KOG1677 CCCH-type Zn-finger pr 99.4 7.7E-13 1.7E-17 125.9 10.9 159 2-220 174-332 (332)
3 PF00642 zf-CCCH: Zinc finger 98.6 1.4E-08 3E-13 65.2 0.4 27 152-178 1-27 (27)
4 PF00642 zf-CCCH: Zinc finger 98.4 8E-08 1.7E-12 61.7 0.0 27 3-29 1-27 (27)
5 KOG1763 Uncharacterized conser 98.2 3.4E-07 7.3E-12 88.3 -0.6 77 148-225 86-191 (343)
6 COG5063 CTH1 CCCH-type Zn-fing 98.1 6.5E-06 1.4E-10 79.9 7.7 64 155-226 231-300 (351)
7 KOG1040 Polyadenylation factor 98.1 1.7E-06 3.6E-11 84.7 2.6 76 150-228 73-161 (325)
8 KOG2494 C3H1-type Zn-finger pr 98.1 1.8E-06 4E-11 84.1 2.4 58 154-226 37-95 (331)
9 smart00356 ZnF_C3H1 zinc finge 98.0 4.2E-06 9.2E-11 52.2 2.3 26 152-178 2-27 (27)
10 KOG2333 Uncharacterized conser 97.8 9.2E-06 2E-10 83.1 2.7 62 153-224 75-138 (614)
11 KOG1492 C3H1-type Zn-finger pr 97.8 1.3E-05 2.7E-10 75.8 2.8 81 149-229 201-317 (377)
12 smart00356 ZnF_C3H1 zinc finge 97.8 2E-05 4.3E-10 49.1 2.5 25 199-224 3-27 (27)
13 COG5252 Uncharacterized conser 97.6 2.2E-05 4.8E-10 74.2 0.8 76 149-225 80-176 (299)
14 KOG1040 Polyadenylation factor 97.1 0.00035 7.5E-09 68.6 2.8 82 145-229 97-187 (325)
15 KOG4791 Uncharacterized conser 97.0 0.00054 1.2E-08 70.3 3.4 96 155-262 4-113 (667)
16 COG5063 CTH1 CCCH-type Zn-fing 97.0 0.00069 1.5E-08 66.2 3.9 70 152-228 272-342 (351)
17 KOG1595 CCCH-type Zn-finger pr 96.9 0.00082 1.8E-08 69.4 4.2 59 154-227 236-294 (528)
18 COG5084 YTH1 Cleavage and poly 96.7 0.0014 3E-08 63.4 3.9 79 152-232 102-197 (285)
19 KOG2185 Predicted RNA-processi 96.7 0.00076 1.6E-08 68.0 2.1 57 168-225 98-164 (486)
20 KOG2185 Predicted RNA-processi 96.5 0.0011 2.4E-08 66.8 1.4 32 148-180 134-165 (486)
21 PF14608 zf-CCCH_2: Zinc finge 96.4 0.0018 4E-08 38.6 1.6 19 156-177 1-19 (19)
22 COG5084 YTH1 Cleavage and poly 96.3 0.0042 9.1E-08 60.2 3.9 34 145-178 124-158 (285)
23 PF14608 zf-CCCH_2: Zinc finge 95.7 0.0067 1.5E-07 36.2 1.7 19 202-223 1-19 (19)
24 KOG1595 CCCH-type Zn-finger pr 95.6 0.0097 2.1E-07 61.7 3.5 55 164-226 207-261 (528)
25 COG5152 Uncharacterized conser 94.5 0.013 2.8E-07 54.8 0.7 28 154-181 141-168 (259)
26 COG5152 Uncharacterized conser 93.9 0.019 4E-07 53.7 0.4 29 200-228 141-169 (259)
27 KOG2494 C3H1-type Zn-finger pr 93.7 0.019 4.2E-07 56.6 0.2 26 200-226 37-63 (331)
28 KOG2202 U2 snRNP splicing fact 93.7 0.019 4.2E-07 54.9 0.1 28 197-225 149-176 (260)
29 KOG1039 Predicted E3 ubiquitin 93.4 0.026 5.6E-07 56.1 0.4 24 155-179 9-32 (344)
30 KOG1039 Predicted E3 ubiquitin 92.2 0.057 1.2E-06 53.7 1.0 24 201-225 9-32 (344)
31 KOG1813 Predicted E3 ubiquitin 90.7 0.076 1.6E-06 52.0 0.1 29 153-181 185-213 (313)
32 KOG1763 Uncharacterized conser 90.6 0.07 1.5E-06 52.3 -0.2 29 197-226 89-117 (343)
33 KOG2333 Uncharacterized conser 90.1 0.12 2.5E-06 53.9 0.9 21 156-176 116-136 (614)
34 KOG1813 Predicted E3 ubiquitin 89.9 0.1 2.2E-06 51.1 0.2 28 200-227 186-213 (313)
35 KOG2202 U2 snRNP splicing fact 87.8 0.17 3.6E-06 48.7 0.1 34 4-37 14-47 (260)
36 KOG3702 Nuclear polyadenylated 87.1 0.82 1.8E-05 49.0 4.7 23 200-226 625-647 (681)
37 KOG1492 C3H1-type Zn-finger pr 80.0 1 2.2E-05 43.2 1.8 26 4-29 205-230 (377)
38 KOG0153 Predicted RNA-binding 77.8 1.4 3E-05 44.3 2.0 34 145-179 152-185 (377)
39 PF10650 zf-C3H1: Putative zin 72.3 2.5 5.4E-05 26.8 1.4 21 155-176 1-21 (23)
40 KOG4791 Uncharacterized conser 68.5 3.9 8.5E-05 43.0 2.7 72 153-226 60-143 (667)
41 KOG3454 U1 snRNP-specific prot 62.5 39 0.00085 30.8 7.5 57 10-72 57-116 (165)
42 COG5252 Uncharacterized conser 59.4 2.7 5.8E-05 40.6 -0.4 28 197-225 82-109 (299)
43 KOG3702 Nuclear polyadenylated 57.9 7.4 0.00016 42.1 2.5 22 155-180 545-566 (681)
44 KOG0153 Predicted RNA-binding 46.0 12 0.00027 37.8 1.8 25 200-225 161-185 (377)
45 KOG2135 Proteins containing th 25.0 26 0.00056 36.8 0.2 33 149-181 207-239 (526)
46 PF10283 zf-CCHH: Zinc-finger 22.9 32 0.0007 22.4 0.3 11 16-26 2-12 (26)
No 1
>KOG1677 consensus CCCH-type Zn-finger protein [General function prediction only]
Probab=99.74 E-value=3.6e-18 Score=162.29 Aligned_cols=79 Identities=34% Similarity=0.777 Sum_probs=67.7
Q ss_pred CCCCCCCCcccccccccCcCCC-CCCCCCCCcchhhhccccccCCCCCCCCCCCCcccccccccccCCCCCCCCCCCCCC
Q 020994 147 NLPERPDQPDCRYYMNTGTCKY-GADCKFHHPKERIAQSAASNIGPLGLPSRPGQAICSNYSMYGICKFGPTCRFDHPYA 225 (319)
Q Consensus 147 ~fPerpgq~lCryF~ktG~CKf-G~~CrFsH~~~~~~~~~~~~ls~~glP~r~~~~~C~~y~r~G~CkfG~~CkF~Hp~~ 225 (319)
..+++.++++|++|.++|.|+| |++|+|+|..++.+... .+...+++.+.++++|.+|.++|.|+||.+|+|.|+..
T Consensus 125 ~~p~~~kt~lc~~~~~~g~c~y~ge~crfah~~~e~r~~~--~~~~~~~~~~~kt~lC~~f~~tG~C~yG~rC~F~H~~~ 202 (332)
T KOG1677|consen 125 RKPERYKTPLCRSFRKSGTCKYRGEQCRFAHGLEELRLPS--SENQVGNPPKYKTKLCPKFQKTGLCKYGSRCRFIHGEP 202 (332)
T ss_pred cCcccccCCcceeeecCccccccCchhhhcCCcccccccc--cchhhcCCCCCCCcCCCccccCCCCCCCCcCeecCCCc
Confidence 3478899999999999999999 99999999998876321 23345677889999999999999999999999999987
Q ss_pred CC
Q 020994 226 GY 227 (319)
Q Consensus 226 ~l 227 (319)
..
T Consensus 203 ~~ 204 (332)
T KOG1677|consen 203 ED 204 (332)
T ss_pred cc
Confidence 43
No 2
>KOG1677 consensus CCCH-type Zn-finger protein [General function prediction only]
Probab=99.43 E-value=7.7e-13 Score=125.95 Aligned_cols=159 Identities=31% Similarity=0.634 Sum_probs=87.9
Q ss_pred CCCCCCcccccccCCCCCCCCCccCCCCCCCcCcccccCCCCCCCCCCCCCCCCCCCCCCCCCCcccccCCCCCCCCCCC
Q 020994 2 RQDEKSCPYYMRTGSCKFGVACKFHHPQPSSLGTALPLTGNASLGSMGSSVLPSSGLQYAGSLPTWSLQRAPYLSSRLQG 81 (319)
Q Consensus 2 R~~e~~C~~y~~tg~C~fG~~Ckf~Hp~~~~~~~~~~~~~~~~y~~~~s~~~p~~~~~y~~~~~~w~~~R~p~~~~~~q~ 81 (319)
+.++++|.+|++||.||||.+|+|+|+........ .. . + .+.. .+ ..++|+ -.|. |.-++......
T Consensus 174 ~~kt~lC~~f~~tG~C~yG~rC~F~H~~~~~~~~~--~~--~-~-~~~~--~~-~~~~~~---~~~~--~~~~~~~~~~~ 239 (332)
T KOG1677|consen 174 KYKTKLCPKFQKTGLCKYGSRCRFIHGEPEDRASN--RH--P-Y-PVSR--NP-QPQSYG---LTAS--RSSLLNQQSKL 239 (332)
T ss_pred CCCCcCCCccccCCCCCCCCcCeecCCCccccccc--cC--C-c-cccc--cc-cccccc---hhhc--chhhccccccc
Confidence 67899999999999999999999999988543211 10 1 1 1111 11 223443 1232 22222210011
Q ss_pred CCCCccceeCCCCCccCCCCCCCccccCCCCCCCccCCCCccccccCCCCCccchhhccccccccCCCCCCCCccccccc
Q 020994 82 TQSYMPLIVSPSQGIVPAPGWNTYMGNIGPLSPTSIAGSNLIYSSRNQGDLGAGAQMHILSASSQNLPERPDQPDCRYYM 161 (319)
Q Consensus 82 p~~y~p~~~~ps~g~~p~~gw~~Y~~~~~~~~p~~~~~~~~~Y~~~~~~~~~~~~~~~~~~~~~~~fPerpgq~lCryF~ 161 (319)
...|.+..++ ++++|... .+.+....++........ + .......+.|++++.+++|++ +
T Consensus 240 ~~~~~~~~~~--~~~~p~~~-------------~~~~~~~~~~~~~~~~~~---~--~~~~~~~~~~~~~p~~~~~~~-~ 298 (332)
T KOG1677|consen 240 QQPFAPSGLS--ESVLPRSS-------------QQNLLPQGLRSSSSSHPS---G--SQENVNENGFRARPEQPECRS-M 298 (332)
T ss_pred cccccccccc--cccCcCCc-------------cccccccccccccccccc---c--chhccccccCcCCCCCCccch-h
Confidence 1112222222 55555111 111111111111100000 0 011224677899999999999 9
Q ss_pred ccCcCCCCCCCCCCCcchhhhccccccCCCCCCCCCCCCcccccccccccCCCCCCCCC
Q 020994 162 NTGTCKYGADCKFHHPKERIAQSAASNIGPLGLPSRPGQAICSNYSMYGICKFGPTCRF 220 (319)
Q Consensus 162 ktG~CKfG~~CrFsH~~~~~~~~~~~~ls~~glP~r~~~~~C~~y~r~G~CkfG~~CkF 220 (319)
++| .++ | ++.+++...|..|.++|+|+||..|+|
T Consensus 299 ~~~-------------~~~--------l----~~~~~~~~~~~~~~~~~~~~~~~~~~~ 332 (332)
T KOG1677|consen 299 KSG-------------ENR--------L----LPLRPGPGACTLFSRYGSCKFGPLCKF 332 (332)
T ss_pred ccc-------------ccc--------c----cCCCCCcccccccccccccCCCCcCCC
Confidence 988 111 1 567888999999999999999999997
No 3
>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=98.56 E-value=1.4e-08 Score=65.19 Aligned_cols=27 Identities=41% Similarity=1.038 Sum_probs=21.8
Q ss_pred CCCcccccccccCcCCCCCCCCCCCcc
Q 020994 152 PDQPDCRYYMNTGTCKYGADCKFHHPK 178 (319)
Q Consensus 152 pgq~lCryF~ktG~CKfG~~CrFsH~~ 178 (319)
+++.+|++|+++|.|++|++|+|+|++
T Consensus 1 ~k~~~C~~f~~~g~C~~G~~C~f~H~~ 27 (27)
T PF00642_consen 1 YKTKLCRFFMRTGTCPFGDKCRFAHGE 27 (27)
T ss_dssp TTSSB-HHHHHTS--TTGGGSSSBSSG
T ss_pred CccccChhhccCCccCCCCCcCccCCC
Confidence 467899999999999999999999974
No 4
>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=98.36 E-value=8e-08 Score=61.65 Aligned_cols=27 Identities=44% Similarity=1.084 Sum_probs=21.6
Q ss_pred CCCCCcccccccCCCCCCCCCccCCCC
Q 020994 3 QDEKSCPYYMRTGSCKFGVACKFHHPQ 29 (319)
Q Consensus 3 ~~e~~C~~y~~tg~C~fG~~Ckf~Hp~ 29 (319)
++.+.|.+|+++|.|+||++|+|.|++
T Consensus 1 ~k~~~C~~f~~~g~C~~G~~C~f~H~~ 27 (27)
T PF00642_consen 1 YKTKLCRFFMRTGTCPFGDKCRFAHGE 27 (27)
T ss_dssp TTSSB-HHHHHTS--TTGGGSSSBSSG
T ss_pred CccccChhhccCCccCCCCCcCccCCC
Confidence 367899999999999999999999973
No 5
>KOG1763 consensus Uncharacterized conserved protein, contains CCCH-type Zn-finger [General function prediction only]
Probab=98.15 E-value=3.4e-07 Score=88.31 Aligned_cols=77 Identities=25% Similarity=0.579 Sum_probs=56.0
Q ss_pred CCCCCCCcccccccccCcCCCCCCCCCCCcchhhhccccccC-------------------CCCCCCCCCCCcccccccc
Q 020994 148 LPERPDQPDCRYYMNTGTCKYGADCKFHHPKERIAQSAASNI-------------------GPLGLPSRPGQAICSNYSM 208 (319)
Q Consensus 148 fPerpgq~lCryF~ktG~CKfG~~CrFsH~~~~~~~~~~~~l-------------------s~~glP~r~~~~~C~~y~r 208 (319)
--+.|+..+|-||.. |.|..|+.|+|+|+....+....-.| +..+-+......+|+||+.
T Consensus 86 ~gvDPKSvvCafFk~-g~C~KG~kCKFsHdl~~~~k~eK~dly~d~rdemWD~~kl~~vv~~K~~k~k~~tdiVCKfFLe 164 (343)
T KOG1763|consen 86 KGVDPKSVVCAFFKQ-GTCTKGDKCKFSHDLAVERKKEKIDLYPDTRDEMWDEEKLEEVVLKKHGKPKPTTDIVCKFFLE 164 (343)
T ss_pred cCCCchHHHHHHHhc-cCCCCCCcccccchHHHhhhccchhccccchhhhhhHHHHHHHHHhhccCCCCchhHHHHHHHH
Confidence 356788999999998 99999999999999887765432111 1112222223469999985
Q ss_pred ------ccc---CCCC-CCCCCCCCCC
Q 020994 209 ------YGI---CKFG-PTCRFDHPYA 225 (319)
Q Consensus 209 ------~G~---CkfG-~~CkF~Hp~~ 225 (319)
||+ |++| +.|.|.|-+.
T Consensus 165 AvE~~kYGWfW~CPnGg~~C~YrHaLP 191 (343)
T KOG1763|consen 165 AVENGKYGWFWECPNGGDKCIYRHALP 191 (343)
T ss_pred HHhcCCccceeECCCCCCeeeeeecCC
Confidence 666 9997 6999999864
No 6
>COG5063 CTH1 CCCH-type Zn-finger protein [General function prediction only]
Probab=98.13 E-value=6.5e-06 Score=79.93 Aligned_cols=64 Identities=27% Similarity=0.625 Sum_probs=54.0
Q ss_pred cccccccccCcCCC---CCCCCCC---CcchhhhccccccCCCCCCCCCCCCcccccccccccCCCCCCCCCCCCCCC
Q 020994 155 PDCRYYMNTGTCKY---GADCKFH---HPKERIAQSAASNIGPLGLPSRPGQAICSNYSMYGICKFGPTCRFDHPYAG 226 (319)
Q Consensus 155 ~lCryF~ktG~CKf---G~~CrFs---H~~~~~~~~~~~~ls~~glP~r~~~~~C~~y~r~G~CkfG~~CkF~Hp~~~ 226 (319)
.+|.-|...|.|++ |++|-|+ |+..++.... .-..+++..|.+|.+-|.|+||.+|.|.|....
T Consensus 231 ~lc~~ft~kg~~p~~~sG~~~q~a~~~HGlN~l~~k~--------k~~~frTePcinwe~sGyc~yg~Rc~F~hgd~~ 300 (351)
T COG5063 231 ELCESFTRKGTCPYWISGVKCQFACRGHGLNELKSKK--------KKQNFRTEPCINWEKSGYCPYGLRCCFKHGDDS 300 (351)
T ss_pred HHhhccCcCCCCccccccccccccccccccccccccc--------cccccccCCccchhhcccCccccccccccCChh
Confidence 79999999999999 9999999 9977664322 223467899999999999999999999999764
No 7
>KOG1040 consensus Polyadenylation factor I complex, subunit, Yth1 (CPSF subunit) [RNA processing and modification]
Probab=98.08 E-value=1.7e-06 Score=84.67 Aligned_cols=76 Identities=22% Similarity=0.542 Sum_probs=55.5
Q ss_pred CCCCCcccccccccCcCCCCCCCCCCCcchhhhcccccc-CCCCCC------------CCCCCCcccccccccccCCCCC
Q 020994 150 ERPDQPDCRYYMNTGTCKYGADCKFHHPKERIAQSAASN-IGPLGL------------PSRPGQAICSNYSMYGICKFGP 216 (319)
Q Consensus 150 erpgq~lCryF~ktG~CKfG~~CrFsH~~~~~~~~~~~~-ls~~gl------------P~r~~~~~C~~y~r~G~CkfG~ 216 (319)
+..++.+|+||++ |.|++|+.|-|+|.. ++.+.+.|. +...|. .-....+.|.+|.+ |+|+-|+
T Consensus 73 ~~~~~~vcK~~l~-glC~kgD~C~Flhe~-~~~k~rec~ff~~~g~c~~~~~c~y~h~dpqt~~k~c~~~~~-g~c~~g~ 149 (325)
T KOG1040|consen 73 DSRGKVVCKHWLR-GLCKKGDQCEFLHEY-DLTKMRECKFFSLFGECTNGKDCPYLHGDPQTAIKKCKWYKE-GFCRGGP 149 (325)
T ss_pred ccCCceeehhhhh-hhhhccCcCcchhhh-hhcccccccccccccccccccCCcccCCChhhhhhccchhhh-ccCCCcc
Confidence 3567889999999 999999999999987 443333222 111111 10124578999999 9999999
Q ss_pred CCCCCCCCCCCC
Q 020994 217 TCRFDHPYAGYP 228 (319)
Q Consensus 217 ~CkF~Hp~~~l~ 228 (319)
.|++.|....+-
T Consensus 150 ~c~~~h~~~~~c 161 (325)
T KOG1040|consen 150 SCKKRHERKVLC 161 (325)
T ss_pred hhhhhhhcccCC
Confidence 999999987653
No 8
>KOG2494 consensus C3H1-type Zn-finger protein [Transcription]
Probab=98.06 E-value=1.8e-06 Score=84.06 Aligned_cols=58 Identities=29% Similarity=0.629 Sum_probs=46.4
Q ss_pred CcccccccccCcCCCCCC-CCCCCcchhhhccccccCCCCCCCCCCCCcccccccccccCCCCCCCCCCCCCCC
Q 020994 154 QPDCRYYMNTGTCKYGAD-CKFHHPKERIAQSAASNIGPLGLPSRPGQAICSNYSMYGICKFGPTCRFDHPYAG 226 (319)
Q Consensus 154 q~lCryF~ktG~CKfG~~-CrFsH~~~~~~~~~~~~ls~~glP~r~~~~~C~~y~r~G~CkfG~~CkF~Hp~~~ 226 (319)
..+||-|++ |.|+.|+. |||+|+...... ++-+-..|.-|.+ |.|.. ++|||.|+...
T Consensus 37 ~eVCReF~r-n~C~R~d~~CkfaHP~~~~~V------------~~g~v~aC~Ds~k-grCsR-~nCkylHpp~h 95 (331)
T KOG2494|consen 37 LEVCREFLR-NTCSRGDRECKFAHPPKNCQV------------SNGRVIACFDSQK-GRCSR-ENCKYLHPPQH 95 (331)
T ss_pred HHHHHHHHh-ccccCCCccccccCCCCCCCc------------cCCeEEEEecccc-CccCc-ccceecCCChh
Confidence 369999999 99999999 999998764311 1223478999999 99995 66999999754
No 9
>smart00356 ZnF_C3H1 zinc finger.
Probab=97.99 E-value=4.2e-06 Score=52.20 Aligned_cols=26 Identities=38% Similarity=1.021 Sum_probs=22.2
Q ss_pred CCCcccccccccCcCCCCCCCCCCCcc
Q 020994 152 PDQPDCRYYMNTGTCKYGADCKFHHPK 178 (319)
Q Consensus 152 pgq~lCryF~ktG~CKfG~~CrFsH~~ 178 (319)
.++.+|++| ++|.|++|++|+|+|+.
T Consensus 2 ~k~~~C~~~-~~g~C~~g~~C~~~H~~ 27 (27)
T smart00356 2 YKTELCKFF-KRGYCPYGDRCKFAHPL 27 (27)
T ss_pred CCCCcCcCc-cCCCCCCCCCcCCCCcC
Confidence 356789999 55999999999999963
No 10
>KOG2333 consensus Uncharacterized conserved protein [General function prediction only]
Probab=97.82 E-value=9.2e-06 Score=83.14 Aligned_cols=62 Identities=24% Similarity=0.597 Sum_probs=49.6
Q ss_pred CCccccccccc--CcCCCCCCCCCCCcchhhhccccccCCCCCCCCCCCCcccccccccccCCCCCCCCCCCCC
Q 020994 153 DQPDCRYYMNT--GTCKYGADCKFHHPKERIAQSAASNIGPLGLPSRPGQAICSNYSMYGICKFGPTCRFDHPY 224 (319)
Q Consensus 153 gq~lCryF~kt--G~CKfG~~CrFsH~~~~~~~~~~~~ls~~glP~r~~~~~C~~y~r~G~CkfG~~CkF~Hp~ 224 (319)
...+|.-.+.. ..|.||++|||.||.+........ .. ...|.+|..+|.|.||-+|||.-.+
T Consensus 75 ~n~LCPsli~g~~~~C~f~d~Crf~HDi~ayLatK~~---------Di-g~~Cp~f~s~G~Cp~G~~CRFl~aH 138 (614)
T KOG2333|consen 75 QNRLCPSLIQGDISKCSFGDNCRFVHDIEAYLATKAP---------DI-GPSCPVFESLGFCPYGFKCRFLGAH 138 (614)
T ss_pred hhccChHhhcCCCccCcccccccccccHHHHHhccCc---------cc-CCccceeeccccCCccceeehhhcc
Confidence 35799999985 479999999999999987433211 11 3789999999999999999998554
No 11
>KOG1492 consensus C3H1-type Zn-finger protein [General function prediction only]
Probab=97.79 E-value=1.3e-05 Score=75.84 Aligned_cols=81 Identities=30% Similarity=0.633 Sum_probs=59.0
Q ss_pred CCCCCCcccccccccCcCCCCCCCCCCCcchhhhcc-----------ccccCCCCCCCCC--------------------
Q 020994 149 PERPDQPDCRYYMNTGTCKYGADCKFHHPKERIAQS-----------AASNIGPLGLPSR-------------------- 197 (319)
Q Consensus 149 Perpgq~lCryF~ktG~CKfG~~CrFsH~~~~~~~~-----------~~~~ls~~glP~r-------------------- 197 (319)
-..+...-||||..+|.|..|..|||.|...+.... .+|+|+..--|.|
T Consensus 201 gnspsavycryynangicgkgaacrfvheptrkticpkflngrcnkaedcnlsheldprripacryfllgkcnnpncryv 280 (377)
T KOG1492|consen 201 GNSPSAVYCRYYNANGICGKGAACRFVHEPTRKTICPKFLNGRCNKAEDCNLSHELDPRRIPACRYFLLGKCNNPNCRYV 280 (377)
T ss_pred CCCCceeEEEEecCCCcccCCceeeeeccccccccChHHhcCccCchhcCCcccccCccccchhhhhhhccCCCCCceEE
Confidence 345667789999999999999999999987665432 3455442211211
Q ss_pred -----CCCcccccccccccCCCCCCCCCCCCCCCCCC
Q 020994 198 -----PGQAICSNYSMYGICKFGPTCRFDHPYAGYPI 229 (319)
Q Consensus 198 -----~~~~~C~~y~r~G~CkfG~~CkF~Hp~~~l~y 229 (319)
...++|..|+++|+|..|..|+-.|-..-..|
T Consensus 281 hihysenapicfefakygfcelgtscknqhilqctdy 317 (377)
T KOG1492|consen 281 HIHYSENAPICFEFAKYGFCELGTSCKNQHILQCTDY 317 (377)
T ss_pred EEeecCCCceeeeehhcceeccccccccceeeeecch
Confidence 13578888999999999999999998875544
No 12
>smart00356 ZnF_C3H1 zinc finger.
Probab=97.76 E-value=2e-05 Score=49.11 Aligned_cols=25 Identities=32% Similarity=1.008 Sum_probs=21.7
Q ss_pred CCcccccccccccCCCCCCCCCCCCC
Q 020994 199 GQAICSNYSMYGICKFGPTCRFDHPY 224 (319)
Q Consensus 199 ~~~~C~~y~r~G~CkfG~~CkF~Hp~ 224 (319)
++.+|++|. .|.|++|++|+|.|..
T Consensus 3 k~~~C~~~~-~g~C~~g~~C~~~H~~ 27 (27)
T smart00356 3 KTELCKFFK-RGYCPYGDRCKFAHPL 27 (27)
T ss_pred CCCcCcCcc-CCCCCCCCCcCCCCcC
Confidence 467999995 5999999999999973
No 13
>COG5252 Uncharacterized conserved protein, contains CCCH-type Zn-finger protein [General function prediction only]
Probab=97.56 E-value=2.2e-05 Score=74.22 Aligned_cols=76 Identities=29% Similarity=0.649 Sum_probs=54.8
Q ss_pred CCCCCCcccccccccCcCCCCCCCCCCCcchhhhccccccC------CCCCCCC--CC---CCcccccccc------ccc
Q 020994 149 PERPDQPDCRYYMNTGTCKYGADCKFHHPKERIAQSAASNI------GPLGLPS--RP---GQAICSNYSM------YGI 211 (319)
Q Consensus 149 Perpgq~lCryF~ktG~CKfG~~CrFsH~~~~~~~~~~~~l------s~~glP~--r~---~~~~C~~y~r------~G~ 211 (319)
-+.+++.+|-.|.. +.|-.|+.|+|+|+.++.+......| ....+|+ ++ ...+|+||.. ||+
T Consensus 80 gvdpK~~vcalF~~-~~c~kg~~ckF~h~~ee~r~~eK~DLYsDvRd~~ed~pl~krP~intd~VCkffieA~e~GkYgw 158 (299)
T COG5252 80 GVDPKTVVCALFLN-KTCAKGDACKFAHGKEEARKTEKPDLYSDVRDKEEDVPLGKRPWINTDRVCKFFIEAMESGKYGW 158 (299)
T ss_pred ccCchhHHHHHhcc-CccccCchhhhhcchHHHhhhcccchhhhhhhhhccCCcccCCCCChhHHHHHHHHHHhcCCccc
Confidence 45688999999997 99999999999999887765432211 1111222 22 3468999975 554
Q ss_pred ---CCCC-CCCCCCCCCC
Q 020994 212 ---CKFG-PTCRFDHPYA 225 (319)
Q Consensus 212 ---CkfG-~~CkF~Hp~~ 225 (319)
|++| .+|.|.|...
T Consensus 159 ~W~CPng~~~C~y~H~Lp 176 (299)
T COG5252 159 GWTCPNGNMRCSYIHKLP 176 (299)
T ss_pred eeeCCCCCceeeeeeccC
Confidence 9997 8999999865
No 14
>KOG1040 consensus Polyadenylation factor I complex, subunit, Yth1 (CPSF subunit) [RNA processing and modification]
Probab=97.06 E-value=0.00035 Score=68.63 Aligned_cols=82 Identities=23% Similarity=0.562 Sum_probs=57.3
Q ss_pred ccCCCCCCCCcccccccccCcCCCCCCCCCCCcchhhhccccccCCCCCC--------CCCCCCcccccccccccCCCCC
Q 020994 145 SQNLPERPDQPDCRYYMNTGTCKYGADCKFHHPKERIAQSAASNIGPLGL--------PSRPGQAICSNYSMYGICKFGP 216 (319)
Q Consensus 145 ~~~fPerpgq~lCryF~ktG~CKfG~~CrFsH~~~~~~~~~~~~ls~~gl--------P~r~~~~~C~~y~r~G~CkfG~ 216 (319)
.++| +-.+.++|.||...|.|..|.+|-|.|..-..... .|.+-..|. -......+|..|.. |+|.-|.
T Consensus 97 lhe~-~~~k~rec~ff~~~g~c~~~~~c~y~h~dpqt~~k-~c~~~~~g~c~~g~~c~~~h~~~~~c~~y~~-gfC~~g~ 173 (325)
T KOG1040|consen 97 LHEY-DLTKMRECKFFSLFGECTNGKDCPYLHGDPQTAIK-KCKWYKEGFCRGGPSCKKRHERKVLCPPYNA-GFCPKGP 173 (325)
T ss_pred hhhh-hhcccccccccccccccccccCCcccCCChhhhhh-ccchhhhccCCCcchhhhhhhcccCCCchhh-hhccCCC
Confidence 4555 45667899999999999999999999977322211 121111111 01122479999998 9999998
Q ss_pred C-CCCCCCCCCCCC
Q 020994 217 T-CRFDHPYAGYPI 229 (319)
Q Consensus 217 ~-CkF~Hp~~~l~y 229 (319)
. |.+.|+...+.-
T Consensus 174 q~c~~~hp~~~~~~ 187 (325)
T KOG1040|consen 174 QRCDMLHPEFQQPP 187 (325)
T ss_pred CcccccCCCCCCCh
Confidence 8 999999987653
No 15
>KOG4791 consensus Uncharacterized conserved protein [Function unknown]
Probab=96.97 E-value=0.00054 Score=70.29 Aligned_cols=96 Identities=17% Similarity=0.339 Sum_probs=61.4
Q ss_pred cccccccccCcCCCCCCCCCCCcchhhhccccccCCCCCCC-------------CCCCCccccccccccc-CCCCCCCCC
Q 020994 155 PDCRYYMNTGTCKYGADCKFHHPKERIAQSAASNIGPLGLP-------------SRPGQAICSNYSMYGI-CKFGPTCRF 220 (319)
Q Consensus 155 ~lCryF~ktG~CKfG~~CrFsH~~~~~~~~~~~~ls~~glP-------------~r~~~~~C~~y~r~G~-CkfG~~CkF 220 (319)
..|.||.. -.|||++.|.|.|..+.+....+|.+=..+++ +......|-++.+ +. |. -++|-|
T Consensus 4 ~dcyff~y-s~cKk~d~c~~rh~E~al~n~t~C~~w~~~~~C~k~C~YRHSe~~~kr~e~~CYwe~~-p~gC~-k~~Cgf 80 (667)
T KOG4791|consen 4 EDCYFFFY-STCKKGDSCPFRHCEAALGNETVCTLWQEGRCCRKVCRYRHSEIDKKRSEIPCYWENQ-PTGCQ-KLNCGF 80 (667)
T ss_pred ccchhhhh-hhhhccCcCcchhhHHHhcCcchhhhhhhcCcccccccchhhHHhhhcCcccceeecC-CCccC-CCcccc
Confidence 46999987 88999999999998877765555543211221 1113578999998 77 87 699999
Q ss_pred CCCCCCCCCCCCCCCCCCCCCCCCCCCccccccCCcCCCCCC
Q 020994 221 DHPYAGYPINYGLSLPPLSILDSSLMNHQAISATHSIETSPD 262 (319)
Q Consensus 221 ~Hp~~~l~y~~~~S~p~~S~~d~p~~py~~~s~~~~~~~~~~ 262 (319)
.|....|. -.+-.||.+|--..+....+|+.++
T Consensus 81 RH~~pPLk---------g~l~~~p~~pe~ev~~~~~SAq~~s 113 (667)
T KOG4791|consen 81 RHNRPPLK---------GVLPTVPESPEEEVKASQLSAQQNS 113 (667)
T ss_pred ccCCCchh---------hhccCCCCCcccccccccccCCCcc
Confidence 99554331 1345566665444444444555544
No 16
>COG5063 CTH1 CCCH-type Zn-finger protein [General function prediction only]
Probab=96.97 E-value=0.00069 Score=66.19 Aligned_cols=70 Identities=16% Similarity=0.204 Sum_probs=55.0
Q ss_pred CCCcccccccccCcCCCCCCCCCCCcchhhhccccccCCCCCCC-CCCCCcccccccccccCCCCCCCCCCCCCCCCC
Q 020994 152 PDQPDCRYYMNTGTCKYGADCKFHHPKERIAQSAASNIGPLGLP-SRPGQAICSNYSMYGICKFGPTCRFDHPYAGYP 228 (319)
Q Consensus 152 pgq~lCryF~ktG~CKfG~~CrFsH~~~~~~~~~~~~ls~~glP-~r~~~~~C~~y~r~G~CkfG~~CkF~Hp~~~l~ 228 (319)
.+++.|..|.+.|.|++|.+|-|.|+.++...... .+ +......|+-++++|.|+.|.+|.|.|....+.
T Consensus 272 frTePcinwe~sGyc~yg~Rc~F~hgd~~~ie~~~-------~~~~~y~~~~crt~~~~g~~p~g~~~c~~~dkkn~~ 342 (351)
T COG5063 272 FRTEPCINWEKSGYCPYGLRCCFKHGDDSDIEMYE-------EASLGYLDGPCRTRAKGGAFPSGGAVCKSFDKKNLD 342 (351)
T ss_pred cccCCccchhhcccCccccccccccCChhhccccc-------cccccccccccccccccCccCCCCchhhccccchhh
Confidence 45678999999999999999999998776532110 01 123457899999999999999999999987654
No 17
>KOG1595 consensus CCCH-type Zn-finger protein [General function prediction only]
Probab=96.92 E-value=0.00082 Score=69.43 Aligned_cols=59 Identities=24% Similarity=0.520 Sum_probs=50.5
Q ss_pred CcccccccccCcCCCCCCCCCCCcchhhhccccccCCCCCCCCCCCCcccccccccccCCCCCCCCCCCCCCCC
Q 020994 154 QPDCRYYMNTGTCKYGADCKFHHPKERIAQSAASNIGPLGLPSRPGQAICSNYSMYGICKFGPTCRFDHPYAGY 227 (319)
Q Consensus 154 q~lCryF~ktG~CKfG~~CrFsH~~~~~~~~~~~~ls~~glP~r~~~~~C~~y~r~G~CkfG~~CkF~Hp~~~l 227 (319)
-..|.-|.| |.|+.||.|-|+|+.-|. .-+|.++++..|+-- |.|+. .-|-|+|....|
T Consensus 236 ~tpCPefrk-G~C~rGD~CEyaHgvfEc----------wLHPa~YRT~~CkDg---~~C~R-rvCfFAH~~eqL 294 (528)
T KOG1595|consen 236 STPCPEFRK-GSCERGDSCEYAHGVFEC----------WLHPARYRTRKCKDG---GYCPR-RVCFFAHSPEQL 294 (528)
T ss_pred CccCccccc-CCCCCCCccccccceehh----------hcCHHHhccccccCC---CCCcc-ceEeeecChHHh
Confidence 457999999 999999999999988654 235678899999986 89998 999999998766
No 18
>COG5084 YTH1 Cleavage and polyadenylation specificity factor (CPSF) Clipper subunit and related makorin family Zn-finger proteins [General function prediction only]
Probab=96.73 E-value=0.0014 Score=63.44 Aligned_cols=79 Identities=27% Similarity=0.634 Sum_probs=56.6
Q ss_pred CCCcccccccccCcCCCCCCCCCCCcchhhh--cccc--------ccCCC-----CCCCCCCCCcccccccc--cccCCC
Q 020994 152 PDQPDCRYYMNTGTCKYGADCKFHHPKERIA--QSAA--------SNIGP-----LGLPSRPGQAICSNYSM--YGICKF 214 (319)
Q Consensus 152 pgq~lCryF~ktG~CKfG~~CrFsH~~~~~~--~~~~--------~~ls~-----~glP~r~~~~~C~~y~r--~G~Ckf 214 (319)
.....|++|.. |.|+.|..|-|.|..+... ..+. |.+.+ ..+| ......|.+|.+ +|+|..
T Consensus 102 ~s~V~c~~~~~-g~c~s~~~c~~lh~~d~~~s~~~~c~~Fs~~G~cs~g~~c~~~h~dp-~~~~~~~~~~~~~~~~f~p~ 179 (285)
T COG5084 102 SSSVVCKFFLR-GLCKSGFSCEFLHEYDLRSSQGPPCRSFSLKGSCSSGPSCGYSHIDP-DSFAGNCDQYSGATYGFCPL 179 (285)
T ss_pred cCCcccchhcc-ccCcCCCccccccCCCcccccCCCcccccccceeccCCCCCccccCc-ccccccccccCcccccccCC
Confidence 34568999998 9999999999999887654 1111 11211 1112 223567999985 699999
Q ss_pred CCCCCCCCCCCCCCCCCC
Q 020994 215 GPTCRFDHPYAGYPINYG 232 (319)
Q Consensus 215 G~~CkF~Hp~~~l~y~~~ 232 (319)
|..|+|.|.....+|+.+
T Consensus 180 g~~c~~~H~~~~~~~~~~ 197 (285)
T COG5084 180 GASCKFSHTLKRVSYGSS 197 (285)
T ss_pred CCcccccccccccccccc
Confidence 999999999988877755
No 19
>KOG2185 consensus Predicted RNA-processing protein, contains G-patch domain [RNA processing and modification]
Probab=96.72 E-value=0.00076 Score=68.02 Aligned_cols=57 Identities=26% Similarity=0.555 Sum_probs=37.0
Q ss_pred CCCCCCCCCcchhhhc---cccccC-CC------CCCCCCCCCcccccccccccCCCCCCCCCCCCCC
Q 020994 168 YGADCKFHHPKERIAQ---SAASNI-GP------LGLPSRPGQAICSNYSMYGICKFGPTCRFDHPYA 225 (319)
Q Consensus 168 fG~~CrFsH~~~~~~~---~~~~~l-s~------~glP~r~~~~~C~~y~r~G~CkfG~~CkF~Hp~~ 225 (319)
-|.+|.+-|.-.+..- .--+.+ .. +-.|-....++|+||+. |.|+||.+|||.|...
T Consensus 98 ~GsKcsaph~ss~gl~yHna~I~g~E~sarvRVlfl~PTh~sMkpC~ffLe-g~CRF~enCRfSHG~~ 164 (486)
T KOG2185|consen 98 DGSKCSAPHTSSRGLYYHNARIIGFEGSARVRVLFLTPTHESMKPCKFFLE-GRCRFGENCRFSHGLD 164 (486)
T ss_pred cCCcccccccCCccceecceeEEeeccccceEEEeecCcchhhccchHhhc-cccccCcccccccCcc
Confidence 4888988886554311 000000 00 11233345689999999 9999999999999875
No 20
>KOG2185 consensus Predicted RNA-processing protein, contains G-patch domain [RNA processing and modification]
Probab=96.46 E-value=0.0011 Score=66.82 Aligned_cols=32 Identities=25% Similarity=0.948 Sum_probs=26.4
Q ss_pred CCCCCCCcccccccccCcCCCCCCCCCCCcchh
Q 020994 148 LPERPDQPDCRYYMNTGTCKYGADCKFHHPKER 180 (319)
Q Consensus 148 fPerpgq~lCryF~ktG~CKfG~~CrFsH~~~~ 180 (319)
+|.-.....|.||+. |.||||++|||+|+.+-
T Consensus 134 ~PTh~sMkpC~ffLe-g~CRF~enCRfSHG~~V 165 (486)
T KOG2185|consen 134 TPTHESMKPCKFFLE-GRCRFGENCRFSHGLDV 165 (486)
T ss_pred cCcchhhccchHhhc-cccccCcccccccCccc
Confidence 355555668999998 99999999999998653
No 21
>PF14608 zf-CCCH_2: Zinc finger C-x8-C-x5-C-x3-H type
Probab=96.43 E-value=0.0018 Score=38.62 Aligned_cols=19 Identities=42% Similarity=1.156 Sum_probs=17.1
Q ss_pred ccccccccCcCCCCCCCCCCCc
Q 020994 156 DCRYYMNTGTCKYGADCKFHHP 177 (319)
Q Consensus 156 lCryF~ktG~CKfG~~CrFsH~ 177 (319)
.|+||.. |++|++|.|.|+
T Consensus 1 ~Ck~~~~---C~~~~~C~f~HP 19 (19)
T PF14608_consen 1 PCKFGPN---CTNGDNCPFSHP 19 (19)
T ss_pred CCcCcCC---CCCCCcCccCCc
Confidence 4998886 999999999996
No 22
>COG5084 YTH1 Cleavage and polyadenylation specificity factor (CPSF) Clipper subunit and related makorin family Zn-finger proteins [General function prediction only]
Probab=96.25 E-value=0.0042 Score=60.18 Aligned_cols=34 Identities=26% Similarity=0.666 Sum_probs=25.0
Q ss_pred ccCCCCCC-CCcccccccccCcCCCCCCCCCCCcc
Q 020994 145 SQNLPERP-DQPDCRYYMNTGTCKYGADCKFHHPK 178 (319)
Q Consensus 145 ~~~fPerp-gq~lCryF~ktG~CKfG~~CrFsH~~ 178 (319)
.+++..+. -...|++|-..|.|..|..|.|.|..
T Consensus 124 lh~~d~~~s~~~~c~~Fs~~G~cs~g~~c~~~h~d 158 (285)
T COG5084 124 LHEYDLRSSQGPPCRSFSLKGSCSSGPSCGYSHID 158 (285)
T ss_pred ccCCCcccccCCCcccccccceeccCCCCCccccC
Confidence 44443332 34789999666999999999999963
No 23
>PF14608 zf-CCCH_2: Zinc finger C-x8-C-x5-C-x3-H type
Probab=95.74 E-value=0.0067 Score=36.20 Aligned_cols=19 Identities=37% Similarity=0.819 Sum_probs=16.5
Q ss_pred ccccccccccCCCCCCCCCCCC
Q 020994 202 ICSNYSMYGICKFGPTCRFDHP 223 (319)
Q Consensus 202 ~C~~y~r~G~CkfG~~CkF~Hp 223 (319)
.|+||.. |++|+.|.|.|+
T Consensus 1 ~Ck~~~~---C~~~~~C~f~HP 19 (19)
T PF14608_consen 1 PCKFGPN---CTNGDNCPFSHP 19 (19)
T ss_pred CCcCcCC---CCCCCcCccCCc
Confidence 5888764 999999999997
No 24
>KOG1595 consensus CCCH-type Zn-finger protein [General function prediction only]
Probab=95.62 E-value=0.0097 Score=61.73 Aligned_cols=55 Identities=22% Similarity=0.523 Sum_probs=41.2
Q ss_pred CcCCCCCCCCCCCcchhhhccccccCCCCCCCCCCCCcccccccccccCCCCCCCCCCCCCCC
Q 020994 164 GTCKYGADCKFHHPKERIAQSAASNIGPLGLPSRPGQAICSNYSMYGICKFGPTCRFDHPYAG 226 (319)
Q Consensus 164 G~CKfG~~CrFsH~~~~~~~~~~~~ls~~glP~r~~~~~C~~y~r~G~CkfG~~CkF~Hp~~~ 226 (319)
+.|.-+-.|-|.|+.+..+... |... .+...+|..|.+ |.|+-|+.|.|.|...+
T Consensus 207 ~~shDwteCPf~HpgEkARRRD-----PRky--hYs~tpCPefrk-G~C~rGD~CEyaHgvfE 261 (528)
T KOG1595|consen 207 PRSHDWTECPFAHPGEKARRRD-----PRKY--HYSSTPCPEFRK-GSCERGDSCEYAHGVFE 261 (528)
T ss_pred ccCCCcccCCccCCCcccccCC-----cccc--cccCccCccccc-CCCCCCCccccccceeh
Confidence 4677789999999776654322 1111 134689999999 99999999999999754
No 25
>COG5152 Uncharacterized conserved protein, contains RING and CCCH-type Zn-fingers [General function prediction only]
Probab=94.52 E-value=0.013 Score=54.78 Aligned_cols=28 Identities=39% Similarity=0.902 Sum_probs=25.4
Q ss_pred CcccccccccCcCCCCCCCCCCCcchhh
Q 020994 154 QPDCRYYMNTGTCKYGADCKFHHPKERI 181 (319)
Q Consensus 154 q~lCryF~ktG~CKfG~~CrFsH~~~~~ 181 (319)
..+|+-|..||.|.||+.|+|.|+++..
T Consensus 141 pdVCKdyk~TGYCGYGDsCKflH~R~D~ 168 (259)
T COG5152 141 PDVCKDYKETGYCGYGDSCKFLHDRSDF 168 (259)
T ss_pred cccccchhhcccccCCchhhhhhhhhhh
Confidence 3589999999999999999999998855
No 26
>COG5152 Uncharacterized conserved protein, contains RING and CCCH-type Zn-fingers [General function prediction only]
Probab=93.91 E-value=0.019 Score=53.72 Aligned_cols=29 Identities=28% Similarity=0.868 Sum_probs=25.9
Q ss_pred CcccccccccccCCCCCCCCCCCCCCCCC
Q 020994 200 QAICSNYSMYGICKFGPTCRFDHPYAGYP 228 (319)
Q Consensus 200 ~~~C~~y~r~G~CkfG~~CkF~Hp~~~l~ 228 (319)
..+|+-|..+|+|-||+.|+|.|....+.
T Consensus 141 pdVCKdyk~TGYCGYGDsCKflH~R~D~K 169 (259)
T COG5152 141 PDVCKDYKETGYCGYGDSCKFLHDRSDFK 169 (259)
T ss_pred cccccchhhcccccCCchhhhhhhhhhhh
Confidence 46899999999999999999999987543
No 27
>KOG2494 consensus C3H1-type Zn-finger protein [Transcription]
Probab=93.75 E-value=0.019 Score=56.55 Aligned_cols=26 Identities=27% Similarity=0.773 Sum_probs=23.7
Q ss_pred CcccccccccccCCCCCC-CCCCCCCCC
Q 020994 200 QAICSNYSMYGICKFGPT-CRFDHPYAG 226 (319)
Q Consensus 200 ~~~C~~y~r~G~CkfG~~-CkF~Hp~~~ 226 (319)
..+||-|+| |.|+.|++ |||.||...
T Consensus 37 ~eVCReF~r-n~C~R~d~~CkfaHP~~~ 63 (331)
T KOG2494|consen 37 LEVCREFLR-NTCSRGDRECKFAHPPKN 63 (331)
T ss_pred HHHHHHHHh-ccccCCCccccccCCCCC
Confidence 469999999 99999999 999999864
No 28
>KOG2202 consensus U2 snRNP splicing factor, small subunit, and related proteins [RNA processing and modification]
Probab=93.71 E-value=0.019 Score=54.93 Aligned_cols=28 Identities=29% Similarity=0.557 Sum_probs=24.8
Q ss_pred CCCCcccccccccccCCCCCCCCCCCCCC
Q 020994 197 RPGQAICSNYSMYGICKFGPTCRFDHPYA 225 (319)
Q Consensus 197 r~~~~~C~~y~r~G~CkfG~~CkF~Hp~~ 225 (319)
+++..+|..|.+ +.|..|..|-|.|...
T Consensus 149 ~~rea~C~~~e~-~~C~rG~~CnFmH~k~ 176 (260)
T KOG2202|consen 149 DFREAICGQFER-TECSRGGACNFMHVKR 176 (260)
T ss_pred chhhhhhccccc-ccCCCCCcCcchhhhh
Confidence 446779999999 7999999999999984
No 29
>KOG1039 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=93.42 E-value=0.026 Score=56.11 Aligned_cols=24 Identities=38% Similarity=1.039 Sum_probs=22.7
Q ss_pred cccccccccCcCCCCCCCCCCCcch
Q 020994 155 PDCRYYMNTGTCKYGADCKFHHPKE 179 (319)
Q Consensus 155 ~lCryF~ktG~CKfG~~CrFsH~~~ 179 (319)
.+|+||.+ |.|+||+.|||.|.+.
T Consensus 9 tic~~~~~-g~c~~g~~cr~~h~~~ 32 (344)
T KOG1039|consen 9 TICKYYQK-GNCKFGDLCRLSHSLP 32 (344)
T ss_pred hhhhhccc-ccccccceeeeeccCc
Confidence 69999999 9999999999999876
No 30
>KOG1039 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=92.25 E-value=0.057 Score=53.71 Aligned_cols=24 Identities=46% Similarity=1.067 Sum_probs=23.2
Q ss_pred cccccccccccCCCCCCCCCCCCCC
Q 020994 201 AICSNYSMYGICKFGPTCRFDHPYA 225 (319)
Q Consensus 201 ~~C~~y~r~G~CkfG~~CkF~Hp~~ 225 (319)
.+|+||.+ |.|+||+.|||.|...
T Consensus 9 tic~~~~~-g~c~~g~~cr~~h~~~ 32 (344)
T KOG1039|consen 9 TICKYYQK-GNCKFGDLCRLSHSLP 32 (344)
T ss_pred hhhhhccc-ccccccceeeeeccCc
Confidence 89999999 9999999999999987
No 31
>KOG1813 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=90.67 E-value=0.076 Score=51.96 Aligned_cols=29 Identities=38% Similarity=0.851 Sum_probs=25.7
Q ss_pred CCcccccccccCcCCCCCCCCCCCcchhh
Q 020994 153 DQPDCRYYMNTGTCKYGADCKFHHPKERI 181 (319)
Q Consensus 153 gq~lCryF~ktG~CKfG~~CrFsH~~~~~ 181 (319)
-.-+|+-|..||.|-||+.|+|.|++...
T Consensus 185 qpDicKdykeTgycg~gdSckFlh~r~Dy 213 (313)
T KOG1813|consen 185 QPDICKDYKETGYCGYGDSCKFLHDRSDY 213 (313)
T ss_pred CchhhhhhHhhCcccccchhhhhhhhhhc
Confidence 34589999999999999999999998744
No 32
>KOG1763 consensus Uncharacterized conserved protein, contains CCCH-type Zn-finger [General function prediction only]
Probab=90.62 E-value=0.07 Score=52.32 Aligned_cols=29 Identities=31% Similarity=0.801 Sum_probs=26.3
Q ss_pred CCCCcccccccccccCCCCCCCCCCCCCCC
Q 020994 197 RPGQAICSNYSMYGICKFGPTCRFDHPYAG 226 (319)
Q Consensus 197 r~~~~~C~~y~r~G~CkfG~~CkF~Hp~~~ 226 (319)
.+++.+|.||.+ |.|.-|+.|+|.|....
T Consensus 89 DPKSvvCafFk~-g~C~KG~kCKFsHdl~~ 117 (343)
T KOG1763|consen 89 DPKSVVCAFFKQ-GTCTKGDKCKFSHDLAV 117 (343)
T ss_pred CchHHHHHHHhc-cCCCCCCcccccchHHH
Confidence 567889999999 99999999999999864
No 33
>KOG2333 consensus Uncharacterized conserved protein [General function prediction only]
Probab=90.09 E-value=0.12 Score=53.93 Aligned_cols=21 Identities=33% Similarity=0.928 Sum_probs=19.3
Q ss_pred ccccccccCcCCCCCCCCCCC
Q 020994 156 DCRYYMNTGTCKYGADCKFHH 176 (319)
Q Consensus 156 lCryF~ktG~CKfG~~CrFsH 176 (319)
.|..|...|.|.+|-+|||.-
T Consensus 116 ~Cp~f~s~G~Cp~G~~CRFl~ 136 (614)
T KOG2333|consen 116 SCPVFESLGFCPYGFKCRFLG 136 (614)
T ss_pred ccceeeccccCCccceeehhh
Confidence 599999999999999999963
No 34
>KOG1813 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=89.85 E-value=0.1 Score=51.10 Aligned_cols=28 Identities=36% Similarity=0.949 Sum_probs=25.3
Q ss_pred CcccccccccccCCCCCCCCCCCCCCCC
Q 020994 200 QAICSNYSMYGICKFGPTCRFDHPYAGY 227 (319)
Q Consensus 200 ~~~C~~y~r~G~CkfG~~CkF~Hp~~~l 227 (319)
..+|+-|..||+|-||+.|+|.|....+
T Consensus 186 pDicKdykeTgycg~gdSckFlh~r~Dy 213 (313)
T KOG1813|consen 186 PDICKDYKETGYCGYGDSCKFLHDRSDY 213 (313)
T ss_pred chhhhhhHhhCcccccchhhhhhhhhhc
Confidence 3589999999999999999999998754
No 35
>KOG2202 consensus U2 snRNP splicing factor, small subunit, and related proteins [RNA processing and modification]
Probab=87.79 E-value=0.17 Score=48.66 Aligned_cols=34 Identities=32% Similarity=0.802 Sum_probs=29.2
Q ss_pred CCCCcccccccCCCCCCCCCccCCCCCCCcCccc
Q 020994 4 DEKSCPYYMRTGSCKFGVACKFHHPQPSSLGTAL 37 (319)
Q Consensus 4 ~e~~C~~y~~tg~C~fG~~Ckf~Hp~~~~~~~~~ 37 (319)
++..|.||+|||-|++|+.|.-.|-.|.-..+++
T Consensus 14 dKv~c~fy~k~gacR~gdrcsR~h~kpt~s~t~l 47 (260)
T KOG2202|consen 14 DKVNCSFYFKIGACRHGDRCSRLHEKPTFSQTVL 47 (260)
T ss_pred cccccchHHhhcccccccHHHHhhcccccchHHH
Confidence 4568999999999999999999999998665443
No 36
>KOG3702 consensus Nuclear polyadenylated RNA binding protein [RNA processing and modification]
Probab=87.05 E-value=0.82 Score=48.99 Aligned_cols=23 Identities=26% Similarity=0.713 Sum_probs=17.2
Q ss_pred CcccccccccccCCCCCCCCCCCCCCC
Q 020994 200 QAICSNYSMYGICKFGPTCRFDHPYAG 226 (319)
Q Consensus 200 ~~~C~~y~r~G~CkfG~~CkF~Hp~~~ 226 (319)
..+|+|+ |.|+ -..|+|.||...
T Consensus 625 ~~~CrY~---pnCr-nm~C~F~HPk~c 647 (681)
T KOG3702|consen 625 RGLCRYR---PNCR-NMQCKFYHPKTC 647 (681)
T ss_pred cccceec---cCcC-CccccccCCccc
Confidence 4577776 5677 478999999864
No 37
>KOG1492 consensus C3H1-type Zn-finger protein [General function prediction only]
Probab=80.05 E-value=1 Score=43.18 Aligned_cols=26 Identities=38% Similarity=0.850 Sum_probs=22.4
Q ss_pred CCCCcccccccCCCCCCCCCccCCCC
Q 020994 4 DEKSCPYYMRTGSCKFGVACKFHHPQ 29 (319)
Q Consensus 4 ~e~~C~~y~~tg~C~fG~~Ckf~Hp~ 29 (319)
...-|.||--+|-|.-|..|||-|-.
T Consensus 205 savycryynangicgkgaacrfvhep 230 (377)
T KOG1492|consen 205 SAVYCRYYNANGICGKGAACRFVHEP 230 (377)
T ss_pred ceeEEEEecCCCcccCCceeeeeccc
Confidence 34569999999999999999999853
No 38
>KOG0153 consensus Predicted RNA-binding protein (RRM superfamily) [General function prediction only]
Probab=77.80 E-value=1.4 Score=44.33 Aligned_cols=34 Identities=29% Similarity=0.754 Sum_probs=28.7
Q ss_pred ccCCCCCCCCcccccccccCcCCCCCCCCCCCcch
Q 020994 145 SQNLPERPDQPDCRYYMNTGTCKYGADCKFHHPKE 179 (319)
Q Consensus 145 ~~~fPerpgq~lCryF~ktG~CKfG~~CrFsH~~~ 179 (319)
...|-.|..-.+|-||++ |.||.|+.|-|.|.+-
T Consensus 152 t~p~ykrn~p~Icsf~v~-geckRG~ec~yrhEkp 185 (377)
T KOG0153|consen 152 TTPYYKRNRPHICSFFVK-GECKRGAECPYRHEKP 185 (377)
T ss_pred cCccccCCCCccccceee-ccccccccccccccCC
Confidence 455556667789999999 8999999999999765
No 39
>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=72.26 E-value=2.5 Score=26.78 Aligned_cols=21 Identities=43% Similarity=1.148 Sum_probs=17.4
Q ss_pred cccccccccCcCCCCCCCCCCC
Q 020994 155 PDCRYYMNTGTCKYGADCKFHH 176 (319)
Q Consensus 155 ~lCryF~ktG~CKfG~~CrFsH 176 (319)
++|.|-+..|.|. -+.|.|.|
T Consensus 1 ~lC~yEl~Gg~Cn-d~~C~~QH 21 (23)
T PF10650_consen 1 PLCPYELTGGVCN-DPDCEFQH 21 (23)
T ss_pred CCCccccCCCeeC-CCCCCccc
Confidence 4799999856997 46799999
No 40
>KOG4791 consensus Uncharacterized conserved protein [Function unknown]
Probab=68.50 E-value=3.9 Score=42.95 Aligned_cols=72 Identities=13% Similarity=0.166 Sum_probs=45.1
Q ss_pred CCcccccccccCcCCCCCCCCCCCc---chhhhcc----ccccCCCCCC----CC-CCCCcccccccccccCCCCCCCCC
Q 020994 153 DQPDCRYYMNTGTCKYGADCKFHHP---KERIAQS----AASNIGPLGL----PS-RPGQAICSNYSMYGICKFGPTCRF 220 (319)
Q Consensus 153 gq~lCryF~ktG~CKfG~~CrFsH~---~~~~~~~----~~~~ls~~gl----P~-r~~~~~C~~y~r~G~CkfG~~CkF 220 (319)
....|.|+.+...|.. .+|-|.|. ...+... +........+ +. ...-..|-+|.+ |.|--|+.|.|
T Consensus 60 ~e~~CYwe~~p~gC~k-~~CgfRH~~pPLkg~l~~~p~~pe~ev~~~~~SAq~~sV~~~p~P~l~~~K-~~e~~~D~~s~ 137 (667)
T KOG4791|consen 60 SEIPCYWENQPTGCQK-LNCGFRHNRPPLKGVLPTVPESPEEEVKASQLSAQQNSVQSNPSPQLRSVK-KVESSEDVPSP 137 (667)
T ss_pred CcccceeecCCCccCC-CccccccCCCchhhhccCCCCCcccccccccccCCCcccccCCchHHHHhh-hhhhhcccccc
Confidence 4568999999444984 88999993 3322110 0001111110 00 011257999999 99999999999
Q ss_pred CCCCCC
Q 020994 221 DHPYAG 226 (319)
Q Consensus 221 ~Hp~~~ 226 (319)
.|+..+
T Consensus 138 Lh~P~A 143 (667)
T KOG4791|consen 138 LHPPVA 143 (667)
T ss_pred CCCCcc
Confidence 999854
No 41
>KOG3454 consensus U1 snRNP-specific protein C [RNA processing and modification]
Probab=62.48 E-value=39 Score=30.83 Aligned_cols=57 Identities=19% Similarity=0.272 Sum_probs=36.3
Q ss_pred cccccCCCCCCCCCccCCCCCCCcCccc-c--cCCCCCCCCCCCCCCCCCCCCCCCCCCcccccCC
Q 020994 10 YYMRTGSCKFGVACKFHHPQPSSLGTAL-P--LTGNASLGSMGSSVLPSSGLQYAGSLPTWSLQRA 72 (319)
Q Consensus 10 ~y~~tg~C~fG~~Ckf~Hp~~~~~~~~~-~--~~~~~~y~~~~s~~~p~~~~~y~~~~~~w~~~R~ 72 (319)
+..+-|+|.++++|+|.|+.-...+... + +..++-+++.+.+..| .+.+.+|..-|+
T Consensus 57 ~~~~~g~~~~~~~~~~~~~~~~~~~~~~pp~~~~~~~~~~~~~~P~mP------~~~l~~p~~~~~ 116 (165)
T KOG3454|consen 57 FIGKKGQKVPFSNARFSAPPEPVKASIPPPPEMEAPARPGPLGMPMMP------PGPLMNPMGFRP 116 (165)
T ss_pred hhcccccCCccccccccCCcccccccCCCCcccCCCCCCCCcCCccCC------CCCCCCccccCC
Confidence 4456689999999999999755443222 2 2234455566665555 347778886554
No 42
>COG5252 Uncharacterized conserved protein, contains CCCH-type Zn-finger protein [General function prediction only]
Probab=59.40 E-value=2.7 Score=40.57 Aligned_cols=28 Identities=25% Similarity=0.662 Sum_probs=25.1
Q ss_pred CCCCcccccccccccCCCCCCCCCCCCCC
Q 020994 197 RPGQAICSNYSMYGICKFGPTCRFDHPYA 225 (319)
Q Consensus 197 r~~~~~C~~y~r~G~CkfG~~CkF~Hp~~ 225 (319)
.+++.+|..|.. +.|--|+.|+|.|...
T Consensus 82 dpK~~vcalF~~-~~c~kg~~ckF~h~~e 109 (299)
T COG5252 82 DPKTVVCALFLN-KTCAKGDACKFAHGKE 109 (299)
T ss_pred CchhHHHHHhcc-CccccCchhhhhcchH
Confidence 567889999998 9999999999999954
No 43
>KOG3702 consensus Nuclear polyadenylated RNA binding protein [RNA processing and modification]
Probab=57.90 E-value=7.4 Score=42.06 Aligned_cols=22 Identities=36% Similarity=0.972 Sum_probs=17.7
Q ss_pred cccccccccCcCCCCCCCCCCCcchh
Q 020994 155 PDCRYYMNTGTCKYGADCKFHHPKER 180 (319)
Q Consensus 155 ~lCryF~ktG~CKfG~~CrFsH~~~~ 180 (319)
..|.|+.. |. +..|.|+|+...
T Consensus 545 ~~Cky~~~---Ct-~a~Ce~~HPtaa 566 (681)
T KOG3702|consen 545 TRCKYGPA---CT-SAECEFAHPTAA 566 (681)
T ss_pred ccccCCCc---CC-chhhhhcCCcch
Confidence 57888887 88 888999997654
No 44
>KOG0153 consensus Predicted RNA-binding protein (RRM superfamily) [General function prediction only]
Probab=45.96 E-value=12 Score=37.77 Aligned_cols=25 Identities=36% Similarity=0.768 Sum_probs=23.3
Q ss_pred CcccccccccccCCCCCCCCCCCCCC
Q 020994 200 QAICSNYSMYGICKFGPTCRFDHPYA 225 (319)
Q Consensus 200 ~~~C~~y~r~G~CkfG~~CkF~Hp~~ 225 (319)
-.+|.||.+ |.||.|..|-|.|.+.
T Consensus 161 p~Icsf~v~-geckRG~ec~yrhEkp 185 (377)
T KOG0153|consen 161 PHICSFFVK-GECKRGAECPYRHEKP 185 (377)
T ss_pred Cccccceee-ccccccccccccccCC
Confidence 469999999 8999999999999986
No 45
>KOG2135 consensus Proteins containing the RNA recognition motif [General function prediction only]
Probab=24.96 E-value=26 Score=36.85 Aligned_cols=33 Identities=18% Similarity=0.360 Sum_probs=27.7
Q ss_pred CCCCCCcccccccccCcCCCCCCCCCCCcchhh
Q 020994 149 PERPDQPDCRYYMNTGTCKYGADCKFHHPKERI 181 (319)
Q Consensus 149 Perpgq~lCryF~ktG~CKfG~~CrFsH~~~~~ 181 (319)
..+.....|.+|.++|.|+.|+.|.++|..+..
T Consensus 207 ks~~s~~r~k~fee~g~~~r~el~p~~hg~~~v 239 (526)
T KOG2135|consen 207 KSRNSENRRKFFEEFGVLERGELCPTHHGCVPV 239 (526)
T ss_pred cccccHHhhhhhHhhceeeecccccccccccee
Confidence 344556789999999999999999999987654
No 46
>PF10283 zf-CCHH: Zinc-finger (CX5CX6HX5H) motif; InterPro: IPR019406 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. C2H2-type (classical) zinc fingers (Znf) were the first class to be characterised. They contain a short beta hairpin and an alpha helix (beta/beta/alpha structure), where a single zinc atom is held in place by Cys(2)His(2) (C2H2) residues in a tetrahedral array. C2H2 Znf's can be divided into three groups based on the number and pattern of fingers: triple-C2H2 (binds single ligand), multiple-adjacent-C2H2 (binds multiple ligands), and separated paired-C2H2 []. C2H2 Znf's are the most common DNA-binding motifs found in eukaryotic transcription factors, and have also been identified in prokaryotes []. Transcription factors usually contain several Znf's (each with a conserved beta/beta/alpha structure) capable of making multiple contacts along the DNA, where the C2H2 Znf motifs recognise DNA sequences by binding to the major groove of DNA via a short alpha-helix in the Znf, the Znf spanning 3-4 bases of the DNA []. C2H2 Znf's can also bind to RNA and protein targets []. This entry represents a C2H2-type Znf motif that in humans is part of the APLF (aprataxin- and PNK-like) forkead association domain-containing protein []. The Znf is highly conserved both in primary sequence and in the spacing between the putative zinc coordinating residues, and is configured CX5CX6HX5H. Many of the proteins containing this Znf are involved in DNA strand break repair and/or contain domains implicated in DNA metabolism. This Znf motif appears to be specialised for the non-covalent binding of poly ADP-ribose; Aprataxin also appears to covalently bind poly ADP-ribose, but not through its Znf motif [].; PDB: 2KQC_A 2KUO_A 2KQE_A 2KQD_A 2KQB_A.
Probab=22.94 E-value=32 Score=22.35 Aligned_cols=11 Identities=36% Similarity=1.008 Sum_probs=5.9
Q ss_pred CCCCCCCCccC
Q 020994 16 SCKFGVACKFH 26 (319)
Q Consensus 16 ~C~fG~~Ckf~ 26 (319)
.|+||.+|-..
T Consensus 2 ~C~YG~~CYRk 12 (26)
T PF10283_consen 2 PCKYGAKCYRK 12 (26)
T ss_dssp E-TTGGG-S--
T ss_pred CCCcchhhhcC
Confidence 49999999643
Done!