Query 005338
Match_columns 701
No_of_seqs 396 out of 1488
Neff 4.7
Searched_HMMs 46136
Date Thu Mar 28 21:53:19 2013
Command hhsearch -i /work/01045/syshi/csienesis_hhblits_a3m/005338.a3m -d /work/01045/syshi/HHdatabase/Cdd.hhm -o /work/01045/syshi/hhsearch_cdd/005338hhsearch_cdd -cpu 12 -v 0
No Hit Prob E-value P-value Score SS Cols Query HMM Template HMM
1 KOG1902 Putative signal transd 100.0 1E-83 2.2E-88 667.2 24.7 368 257-688 67-441 (441)
2 PF04146 YTH: YT521-B-like dom 100.0 4.8E-48 1E-52 366.6 10.6 140 261-400 1-140 (140)
3 KOG1901 Uncharacterized high-g 100.0 2.1E-42 4.5E-47 378.4 12.4 173 247-424 284-464 (487)
4 KOG1040 Polyadenylation factor 99.8 7.7E-21 1.7E-25 202.2 9.1 164 3-174 13-179 (325)
5 KOG1902 Putative signal transd 99.5 1.9E-13 4.1E-18 144.3 11.6 187 434-662 246-441 (441)
6 KOG1492 C3H1-type Zn-finger pr 99.5 1.5E-14 3.1E-19 146.0 2.1 107 35-153 204-313 (377)
7 COG5084 YTH1 Cleavage and poly 99.0 3.5E-10 7.6E-15 119.1 8.1 94 60-154 90-191 (285)
8 KOG1040 Polyadenylation factor 99.0 8.8E-11 1.9E-15 125.8 3.3 110 33-155 73-185 (325)
9 KOG1492 C3H1-type Zn-finger pr 98.9 5.6E-10 1.2E-14 113.2 1.8 86 74-163 205-294 (377)
10 KOG1677 CCCH-type Zn-finger pr 98.7 1.2E-08 2.7E-13 108.7 5.8 89 54-153 96-202 (332)
11 KOG2494 C3H1-type Zn-finger pr 98.5 5.8E-08 1.3E-12 103.3 4.4 61 65-126 27-93 (331)
12 COG5084 YTH1 Cleavage and poly 98.5 2.8E-07 6.1E-12 97.5 7.3 112 34-153 101-234 (285)
13 KOG4791 Uncharacterized conser 98.5 4.6E-08 1E-12 107.6 1.1 105 38-153 4-142 (667)
14 KOG4791 Uncharacterized conser 98.3 1.8E-07 4E-12 103.0 1.6 76 76-153 4-85 (667)
15 KOG1763 Uncharacterized conser 98.0 1.2E-06 2.5E-11 92.2 0.3 82 74-155 91-193 (343)
16 KOG1924 RhoA GTPase effector D 97.7 0.00019 4.2E-09 83.6 11.3 13 345-357 385-397 (1102)
17 PF00642 zf-CCCH: Zinc finger 97.7 8.2E-06 1.8E-10 57.6 -0.1 25 73-97 1-26 (27)
18 KOG1924 RhoA GTPase effector D 97.5 0.00033 7E-09 81.8 9.5 15 522-536 556-570 (1102)
19 smart00356 ZnF_C3H1 zinc finge 97.5 6.2E-05 1.3E-09 52.0 2.3 25 73-97 2-26 (27)
20 KOG1595 CCCH-type Zn-finger pr 97.4 0.00013 2.8E-09 82.5 4.3 76 55-153 208-292 (528)
21 COG5252 Uncharacterized conser 97.2 5.4E-05 1.2E-09 78.0 -1.2 81 73-154 83-177 (299)
22 KOG1677 CCCH-type Zn-finger pr 97.2 0.00017 3.6E-09 77.3 2.2 48 52-99 140-202 (332)
23 KOG0132 RNA polymerase II C-te 97.0 0.036 7.9E-07 65.5 18.6 40 283-327 424-469 (894)
24 smart00356 ZnF_C3H1 zinc finge 96.9 0.00062 1.3E-08 46.9 2.3 25 128-152 3-27 (27)
25 PF00642 zf-CCCH: Zinc finger 96.8 0.00023 5E-09 50.2 -0.4 24 128-151 2-26 (27)
26 KOG1595 CCCH-type Zn-finger pr 96.8 0.0016 3.4E-08 73.9 5.7 100 53-153 86-260 (528)
27 COG5063 CTH1 CCCH-type Zn-fing 96.7 0.0013 2.8E-08 70.2 4.1 83 71-153 224-339 (351)
28 KOG3702 Nuclear polyadenylated 96.7 0.0024 5.2E-08 73.9 6.2 100 34-154 552-667 (681)
29 KOG2494 C3H1-type Zn-finger pr 96.4 0.0011 2.4E-08 71.3 1.4 50 102-153 36-94 (331)
30 COG5063 CTH1 CCCH-type Zn-fing 96.3 0.0045 9.7E-08 66.2 4.7 76 52-127 238-339 (351)
31 PRK00809 hypothetical protein; 96.3 0.037 8.1E-07 53.8 10.5 126 263-394 2-142 (144)
32 KOG1763 Uncharacterized conser 96.0 0.0023 4.9E-08 68.1 0.8 31 32-70 87-117 (343)
33 KOG3702 Nuclear polyadenylated 95.4 0.012 2.6E-07 68.4 3.8 45 76-126 545-605 (681)
34 KOG2185 Predicted RNA-processi 95.3 0.008 1.7E-07 66.4 1.9 34 120-153 130-164 (486)
35 KOG2333 Uncharacterized conser 95.1 0.0078 1.7E-07 68.0 0.8 58 74-152 75-138 (614)
36 KOG2185 Predicted RNA-processi 94.6 0.019 4.2E-07 63.6 2.4 24 76-99 141-164 (486)
37 PF14608 zf-CCCH_2: Zinc finge 94.2 0.029 6.3E-07 36.8 1.6 19 77-97 1-19 (19)
38 KOG2893 Zn finger protein [Gen 93.8 0.86 1.9E-05 48.0 12.2 8 470-477 110-117 (341)
39 COG5252 Uncharacterized conser 93.3 0.027 5.8E-07 58.7 0.3 26 34-67 82-107 (299)
40 PF14608 zf-CCCH_2: Zinc finge 92.6 0.075 1.6E-06 34.9 1.6 18 131-150 1-18 (19)
41 KOG2893 Zn finger protein [Gen 92.6 1.4 3.1E-05 46.4 11.6 6 488-493 140-145 (341)
42 KOG0132 RNA polymerase II C-te 92.3 6.1 0.00013 47.7 17.5 11 584-595 720-730 (894)
43 KOG4672 Uncharacterized conser 90.3 2.5 5.4E-05 47.5 11.3 22 431-452 269-290 (487)
44 KOG1039 Predicted E3 ubiquitin 86.7 0.27 5.8E-06 54.3 0.9 24 76-99 9-32 (344)
45 PF10650 zf-C3H1: Putative zin 86.0 0.45 9.7E-06 33.0 1.4 20 131-151 2-22 (23)
46 COG5152 Uncharacterized conser 84.3 0.41 8.8E-06 49.1 0.9 27 73-99 139-166 (259)
47 KOG1039 Predicted E3 ubiquitin 83.3 0.44 9.6E-06 52.6 0.7 25 130-154 9-33 (344)
48 COG5152 Uncharacterized conser 82.0 0.53 1.2E-05 48.3 0.6 24 130-153 142-166 (259)
49 KOG4849 mRNA cleavage factor I 79.8 20 0.00044 39.9 11.6 39 283-324 89-131 (498)
50 KOG1813 Predicted E3 ubiquitin 78.3 1.7 3.8E-05 47.0 3.0 27 73-99 184-211 (313)
51 PF01878 EVE: EVE domain; Int 77.6 6.7 0.00015 37.3 6.5 100 263-365 1-112 (143)
52 KOG4849 mRNA cleavage factor I 77.4 15 0.00033 40.9 9.8 13 579-591 343-355 (498)
53 PF10650 zf-C3H1: Putative zin 76.2 1.6 3.4E-05 30.4 1.3 20 105-124 2-21 (23)
54 KOG1984 Vesicle coat complex C 75.8 17 0.00038 44.6 10.5 40 510-549 38-81 (1007)
55 KOG0153 Predicted RNA-binding 75.1 0.88 1.9E-05 50.1 -0.2 26 130-155 162-187 (377)
56 PRK02268 hypothetical protein; 68.9 29 0.00062 34.1 8.6 123 263-398 3-137 (141)
57 KOG1813 Predicted E3 ubiquitin 62.9 2.5 5.4E-05 45.8 0.1 24 130-153 187-211 (313)
58 KOG2333 Uncharacterized conser 60.9 3.3 7.1E-05 47.7 0.6 43 53-95 87-135 (614)
59 COG5222 Uncharacterized conser 54.3 9.9 0.00021 41.5 2.7 25 471-496 389-415 (427)
60 COG5180 PBP1 Protein interacti 52.6 64 0.0014 37.5 8.8 10 141-150 160-169 (654)
61 KOG2202 U2 snRNP splicing fact 51.9 6.3 0.00014 42.1 0.8 25 74-98 151-175 (260)
62 KOG4672 Uncharacterized conser 51.5 76 0.0016 36.3 9.0 19 443-461 278-296 (487)
63 KOG4594 Sequence-specific sing 50.9 3.5E+02 0.0076 29.9 13.5 12 525-536 225-236 (354)
64 KOG0153 Predicted RNA-binding 50.5 9.3 0.0002 42.4 1.9 25 74-98 160-184 (377)
65 COG1614 CdhC CO dehydrogenase/ 49.4 12 0.00026 41.5 2.5 10 420-429 391-400 (470)
66 KOG2192 PolyC-binding hnRNP-K 45.9 40 0.00086 36.5 5.6 12 289-300 68-79 (390)
67 KOG3168 U1 snRNP component [Tr 43.4 1.3E+02 0.0029 30.5 8.4 27 402-428 28-55 (177)
68 KOG4032 Uncharacterized conser 41.0 36 0.00077 34.9 4.2 27 440-466 137-163 (184)
69 COG5180 PBP1 Protein interacti 40.7 1.4E+02 0.003 34.9 9.0 6 477-482 522-527 (654)
70 KOG4761 Proteasome formation i 39.2 5.3E+02 0.012 27.9 13.4 17 306-323 29-45 (266)
71 KOG2202 U2 snRNP splicing fact 35.9 16 0.00035 39.1 0.9 26 129-154 152-177 (260)
72 TIGR01628 PABP-1234 polyadenyl 33.4 2E+02 0.0044 33.3 9.4 30 291-320 192-222 (562)
73 KOG1984 Vesicle coat complex C 33.3 9E+02 0.02 30.7 14.6 12 471-482 76-87 (1007)
74 COG5175 MOT2 Transcriptional r 30.7 29 0.00063 38.6 1.8 24 75-99 202-226 (480)
75 PRK04019 rplP0 acidic ribosoma 30.2 18 0.00039 39.8 0.2 39 262-309 49-87 (330)
76 KOG1308 Hsp70-interacting prot 28.9 72 0.0016 35.9 4.4 18 557-574 303-320 (377)
77 TIGR03685 L21P_arch 50S riboso 25.2 83 0.0018 29.5 3.6 18 381-398 29-46 (105)
78 COG1614 CdhC CO dehydrogenase/ 24.5 57 0.0012 36.5 2.6 8 346-353 347-354 (470)
79 KOG3168 U1 snRNP component [Tr 23.8 4E+02 0.0086 27.3 8.1 17 567-583 150-166 (177)
80 PF03194 LUC7: LUC7 N_terminus 22.9 25 0.00055 37.4 -0.3 19 70-88 25-43 (254)
81 KOG0117 Heterogeneous nuclear 21.8 9.3E+02 0.02 28.3 11.4 50 349-398 258-311 (506)
82 PF12782 Innate_immun: Inverte 21.2 2.3E+02 0.0051 29.9 6.2 17 515-531 42-58 (311)
83 PF06199 Phage_tail_2: Phage m 21.0 1.8E+02 0.0039 27.1 5.0 44 282-325 67-110 (134)
No 1
>KOG1902 consensus Putative signal transduction protein involved in RNA splicing [Signal transduction mechanisms; RNA processing and modification]
Probab=100.00 E-value=1e-83 Score=667.15 Aligned_cols=368 Identities=33% Similarity=0.395 Sum_probs=313.0
Q ss_pred CCCCccEEEEEeeCChhhHHHHHHcCeeeeccccHHHHHHHhccCCcEEEEEEeCCCCceeEEEEeccCCCCCcCCCCcc
Q 005338 257 LPQGISRYFIVKSCNRENLELSVQQGVWATQRSNEAKLNEAFDSAENVILIFSVNRTRHFQGCAKMTSKIGGSVGGGNWK 336 (701)
Q Consensus 257 ~p~~~aRFFIIKS~n~enI~~Sik~gVWaTt~~ne~kLn~AF~~~~~V~LfFSVN~Sg~FqG~ArM~S~~~~~~~~~~W~ 336 (701)
.+-..+|||||||+|++||.+|+++|||+||+.||+|||.||.++..||||||||.|+||||||+|+|.|+..+...+|+
T Consensus 67 ~~~~~~rYFIiKS~N~eN~elSvqkGiWaTq~sNE~kLn~AF~~s~~ViLIFSVn~SghFQG~ArMsS~IG~~~~q~~W~ 146 (441)
T KOG1902|consen 67 YVLQDARYFIIKSNNHENVELSVQKGVWSTQPSNEKKLNLAFRSSRSVILIFSVNESGHFQGFARMSSEIGHGGSQIHWV 146 (441)
T ss_pred ccCCceEEEEEecCCccceeeehhcceeccccccHHHHHHHHhhcCcEEEEEEecccccchhhhhhcchhccCCCCcccc
Confidence 34456899999999999999999999999999999999999999999999999999999999999999999999888999
Q ss_pred ccCCC-CCcCCcceeeeEEeeecCccccccccCCCCCCCccccCCCCcccChHHHHHHHHHhhcCCCchhhhhhHHHHHH
Q 005338 337 YAHGT-AHYGRNFSVKWLKLCELSFHKTRHLRNPYNENLPVKISRDCQELEPSIGEQLAALLYLEPDSELMAISVAAEAK 415 (701)
Q Consensus 337 ~~~~~-~~~gg~F~VeWl~v~~LpF~~~~HL~Np~NenkPV~~sRDGQEIe~~~G~qL~~Lf~~~p~s~l~~~~~~~E~~ 415 (701)
...++ +.|+++|+|+||++++|||+++.||+|||||||||+||||||||++++|+|||.||+..+.++|.+++..+++|
T Consensus 147 ~~~G~~a~~G~~FkVkWiRl~eLpFqkt~hL~NP~NdnkpVKISRD~QELep~VGEqL~~Ll~~~p~~el~~~s~~~~~k 226 (441)
T KOG1902|consen 147 LPAGMSAMLGGVFKVKWIRLRELPFQKTAHLTNPWNENKPVKISRDGQELEPEVGEQLCLLLPPDPSIDLYQVSHKMRHK 226 (441)
T ss_pred ccCCcccccCceeeEeEEeeccccchhhhhcCCcccccCceeecccccccChhHHHHHHHhcCCCcchhhhhhhHHHHHh
Confidence 97777 89999999999999999999999999999999999999999999999999999999999999999999999999
Q ss_pred HHHHHhcCCCCCCCCCCCCCccCCCCchhhhhhhHHHHhhccCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCccc
Q 005338 416 REEEKAKGVNPDNGGDNPDIVPFEDNEEEEEEESEEEEESLGTASQGRGRGRGMMWPGPMPLARGARPVPGMRGFPPMMI 495 (701)
Q Consensus 416 ~~~~~~~g~~~~~~~~~~~~~~~~~~~~~~eee~e~~~~~~~~~~~grg~~~~~~~~~~~p~~~~~~p~~g~~~~~~~~~ 495 (701)
++++++ +.+.++ ++++++++++++.++|+|+++++-++ +||+++.+.+|||+.|+..|+..+|++|.||+...|
T Consensus 227 r~~~~A----p~sr~E-p~~~~p~~~~~~~~ped~d~~~~~~~-p~G~~p~~~h~~Pg~~~~~r~q~~~~rf~g~~L~v~ 300 (441)
T KOG1902|consen 227 RRMHSA----PRSRGE-PSRREPVRDVGRRRPEDYDIHNSRKK-PRGDYPPEFHQRPGYLKDPRYQEVDRRFSGVRLDVF 300 (441)
T ss_pred hhhhcC----CccCCC-cccCCcccCccccCcccchhhhhhhC-CCCCCCcccccCCCcCCCccccccccccCceecccc
Confidence 999999 466666 99999999999988888887776666 999999999999999999999999999999999999
Q ss_pred CC-CCCCCCCCCCCC-CCCCCCCCCCCCCCCCCCCCCCCCCCC-CCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCC
Q 005338 496 GA-DGFSYGVTPDGF-PMPDLFGVAPRPFAPYGPRFSGDFTGP-GGMMFPGRPPQPGSVFPPNGFGGMMMGPGRPPFMGG 572 (701)
Q Consensus 496 ~~-~~~~~g~~p~~f-~~~d~~g~~~~~~~p~~~~~~g~f~g~-~~~m~~g~~~~~g~~~~~~~~g~~~~~~~~~~~~~g 572 (701)
+| +-|+|+ ++++ .|||.|+++ ++| ++||+||+||+ .||+||.| ||+|++|+.|||
T Consensus 301 ~Pg~~~~y~--~~f~nm~p~p~~~g---------------~~p~pgm~~p~~p~~---q~~~~~~~--~~~~~~g~h~~~ 358 (441)
T KOG1902|consen 301 LPGSYNDYV--REFHNMGPPPPWQG---------------MPPYPGMEQPPHPYY---QHHAPPPQ--AHPPYSGHHPVP 358 (441)
T ss_pred cCccccccc--chhhhcCCCccccC---------------cCCcCCcccCCCCcc---ccCCCCcc--cCCCCCCCCCCc
Confidence 85 556888 4555 448888875 244 89999999998 78999887 558899999999
Q ss_pred CCCCCCCCCCCCCCCCCCCCCCCCCCccCCcccccccccCCCCCCCCcccCCCcccccccCCCCCCCCCchhhHhhhccc
Q 005338 573 MGPAATNPRGGRPVGVPPPFPNQPQSSQNSSRAAKRDVRGSINDRNDRYSAGSDQGRAQEMGGPGRGPDDEVQYQQEGSK 652 (701)
Q Consensus 573 m~~~~~~~~~~~~~~~~p~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 652 (701)
|+- .+|+.|+.-.. ....+..++++..+. +.|..+...|+.| -+
T Consensus 359 ~~~---~~r~~r~~~y~---~~~~~~~~~~~~~~~---------~~~~r~~~~d~~~---------------------~~ 402 (441)
T KOG1902|consen 359 HEA---RYRDKRVHDYD---MRVDDFLRRTQAVVS---------GRRSRPRERDRER---------------------ER 402 (441)
T ss_pred ccc---ccCCCCccccc---ccccccccccccccc---------cccccccccchhh---------------------cc
Confidence 873 36888776551 122222222222222 1122222223333 23
Q ss_pred cccccccCCc-ccCCCCCCCCcc--ccccccCCCCcccc
Q 005338 653 ANQEDQYGSR-NFRNDESESEDE--APRRSRHGEGKKKR 688 (701)
Q Consensus 653 ~~~~~~~~~~-~~~~~~~~~~~~--~~~~~~~~~~~~~~ 688 (701)
++..|+|..+ ++|+.|+|+|+| ||||++||||||.|
T Consensus 403 ~~~~~~~~~~~~~r~~~~e~e~e~~~~r~~~~ge~~~~r 441 (441)
T KOG1902|consen 403 DRPRDNRRDRERDRGRDRERERERLCDRDRDRGERGRYR 441 (441)
T ss_pred ccchhhhhhhhhhcccchhhhhhhhcccccccccccccC
Confidence 6778888888 999999999888 99999999999876
No 2
>PF04146 YTH: YT521-B-like domain; InterPro: IPR007275 A protein of the YTH family has been shown to selectively remove transcripts of meiosis-specific genes expressed in mitotic cells []. It has been speculated that in higher eukaryotic YTH-family members may be involved in similar mechanaisms to suppress gene regulation during gametogenesis or general silencing. The rat protein YT521-B, Q9QY02 from SWISSPROT, is a tyrosine-phosphorylated nuclear protein, that interacts with the nuclear transcriptosomal component scaffold attachment factor B, and the 68kDa Src substrate associated during mitosis, Sam68. In vivo splicing assays demonstrated that YT521-B modulates alternative splice site selection in a concentration-dependent manner []. The domain is predicted to have four alpha helices and six beta strands []. In plant cells environmental stimuli, which light, pathogens, hormones, and abiotic stresses, elicit changes in the cytosolic Ca levels but little is known of the cytosolic-nuclear Ca-signaling pathway; where gene regulation occurs to respond appropriately to the stress. It has been demonstrated that two novel Arabidopsis thaliana (Mouse-ear cress) proteins, (ECT1 and ECT2), specifically associated with Calcineurin B-Like-Interacting Protein Kinase1 (CIPK1), a member of Ser/Thr protein kinases that interact with the calcineurin B-like Ca-binding proteins. These two proteins contain a very similar C-terminal region (180 amino acids in length, 81% similarity), which is required and sufficient for both interaction with CIPK1 and translocation to the nucleus. This domain, the YTH-domain, is conserved across all eukaryotes and suggests that the conserved C-terminal region plays a critical role in relaying the cytosolic Ca-signals to the nucleus, thereby regulating gene expression [].; PDB: 2YUD_A 2YU6_A.
Probab=100.00 E-value=4.8e-48 Score=366.60 Aligned_cols=140 Identities=53% Similarity=0.841 Sum_probs=116.5
Q ss_pred ccEEEEEeeCChhhHHHHHHcCeeeeccccHHHHHHHhccCCcEEEEEEeCCCCceeEEEEeccCCCCCcCCCCccccCC
Q 005338 261 ISRYFIVKSCNRENLELSVQQGVWATQRSNEAKLNEAFDSAENVILIFSVNRTRHFQGCAKMTSKIGGSVGGGNWKYAHG 340 (701)
Q Consensus 261 ~aRFFIIKS~n~enI~~Sik~gVWaTt~~ne~kLn~AF~~~~~V~LfFSVN~Sg~FqG~ArM~S~~~~~~~~~~W~~~~~ 340 (701)
++|||||||+|++||++|++||||+|+++|+++|++||+++++||||||||+|++|||||+|+|+++.......|...+.
T Consensus 1 ~~rfFiiKS~~~~ni~~s~~~gvW~t~~~~~~~L~~Af~~~~~V~L~FSvn~S~~F~G~A~M~s~~~~~~~~~~w~~~~~ 80 (140)
T PF04146_consen 1 NARFFIIKSFNEENIHLSIKYGVWATQPKNEKKLNEAFKESRNVYLFFSVNGSGHFQGYARMTSPIDPDSPKPFWQQDSS 80 (140)
T ss_dssp --EEEEEEESSCHHHHHHHHCTEEE--CCCHHHHHHHHHHSS-EEEEEEETTTSEEEEEEEEECECCSSS------SS-S
T ss_pred CcEEEEEEECCHHHHHHHHhCCEEcccccchHHHHHHHHhCCCEEEEEeecCcceEEEEEEEccCCCCcccCcccccccc
Confidence 37999999999999999999999999999999999999999999999999999999999999999998877788976555
Q ss_pred CCCcCCcceeeeEEeeecCccccccccCCCCCCCccccCCCCcccChHHHHHHHHHhhcC
Q 005338 341 TAHYGRNFSVKWLKLCELSFHKTRHLRNPYNENLPVKISRDCQELEPSIGEQLAALLYLE 400 (701)
Q Consensus 341 ~~~~gg~F~VeWl~v~~LpF~~~~HL~Np~NenkPV~~sRDGQEIe~~~G~qL~~Lf~~~ 400 (701)
..+|++.|+|+||++++|||+.++||+||||+|+||+++||||||++++|++||+||.++
T Consensus 81 ~~~~~g~F~v~Wl~~~~lpf~~~~hl~n~~n~~~pV~~~rDgqEi~~~~G~~l~~~f~~~ 140 (140)
T PF04146_consen 81 SSKWGGPFRVEWLRVKDLPFSKLRHLRNPLNENKPVKISRDGQEIEPEIGEQLLKIFDNQ 140 (140)
T ss_dssp GCGG-SEEEEEEEE-S-EEHHHHTT-EETTTTTEETTS--TTEEE-CCHHHHHHHHCGT-
T ss_pred ccccCCceEEEEEECCcCChHHhcccccccCCCcEEEECCCCEEeCHHHHHHHHHHHhhC
Confidence 679999999999999999999999999999999999999999999999999999999753
No 3
>KOG1901 consensus Uncharacterized high-glucose-regulated protein [General function prediction only]
Probab=100.00 E-value=2.1e-42 Score=378.39 Aligned_cols=173 Identities=25% Similarity=0.392 Sum_probs=161.1
Q ss_pred CCCCCCCCCCCCCCccEEEEEeeCChhhHHHHHHcCeeeeccccHHHHHHHhccCC------cEEEEEEeCCCCceeEEE
Q 005338 247 PNQTNRNATPLPQGISRYFIVKSCNRENLELSVQQGVWATQRSNEAKLNEAFDSAE------NVILIFSVNRTRHFQGCA 320 (701)
Q Consensus 247 ~~~~nr~~~~~p~~~aRFFIIKS~n~enI~~Sik~gVWaTt~~ne~kLn~AF~~~~------~V~LfFSVN~Sg~FqG~A 320 (701)
.++||...|.+.+.++|||||||++++|||+||+|+||++|.+.|+||++||++++ +||||||||.||+|||+|
T Consensus 284 ~~~yn~~~f~~~~~nAkfFVIKSySEDdVHkSIKY~vWsST~~GNKkLdaAYreak~~~~~cPvfLfFSVNaSGqFCGvA 363 (487)
T KOG1901|consen 284 RDRYNPPDFLTDYSNAKFFVIKSYSEDDVHKSIKYNVWSSTLNGNKKLDAAYREAKKKSGKCPVFLFFSVNASGQFCGVA 363 (487)
T ss_pred hhhcCccccccccccceEEEEeccChhhhhhhcccceeecccCCchhhHHHHHHhhhccCCCCceEEEEEcCCcccccee
Confidence 57899999999999999999999999999999999999999999999999998765 899999999999999999
Q ss_pred EeccCCCCCcCCCCccccCCCCCcCCcceeeeEEeeecCccccccccCCCCCCCccccCCCCcccChHHHHHHHHHhh--
Q 005338 321 KMTSKIGGSVGGGNWKYAHGTAHYGRNFSVKWLKLCELSFHKTRHLRNPYNENLPVKISRDCQELEPSIGEQLAALLY-- 398 (701)
Q Consensus 321 rM~S~~~~~~~~~~W~~~~~~~~~gg~F~VeWl~v~~LpF~~~~HL~Np~NenkPV~~sRDGQEIe~~~G~qL~~Lf~-- 398 (701)
+|+++++......+|+++ +|.|.|.|+||.|+|||+..|+||+...||||||+.+||+|||..+.|.++|+||.
T Consensus 364 EMvgPVdfn~~~~~WqQD----KW~G~FpVKWhiVKDVPNs~lrHI~LeNNeNKPVTnSRDTQEV~leqGievlkIfk~y 439 (487)
T KOG1901|consen 364 EMVGPVDFNKDMEYWQQD----KWSGSFPVKWHIVKDVPNSQLRHIILENNENKPVTNSRDTQEVPLEQGIEVLKIFKSY 439 (487)
T ss_pred eeccceecccccchhhhc----ccceecceeeEEEeeCCccceeEEEeecCCCCCcccccccceecHHHHHHHHHHHHhh
Confidence 999999999999999986 99999999999999999999999999999999999999999999999999999996
Q ss_pred cCCCchhhhhhHHHHHHHHHHHhcCC
Q 005338 399 LEPDSELMAISVAAEAKREEEKAKGV 424 (701)
Q Consensus 399 ~~p~s~l~~~~~~~E~~~~~~~~~g~ 424 (701)
.+.+++|+++.+| |.+++....+++
T Consensus 440 ~~~TSiLDDf~~Y-e~rq~~~~~~k~ 464 (487)
T KOG1901|consen 440 AAKTSILDDFGFY-EERQKIIQDKKA 464 (487)
T ss_pred cceeeecccccch-HHHHHHhhhccc
Confidence 5668899999999 555555544443
No 4
>KOG1040 consensus Polyadenylation factor I complex, subunit, Yth1 (CPSF subunit) [RNA processing and modification]
Probab=99.83 E-value=7.7e-21 Score=202.17 Aligned_cols=164 Identities=37% Similarity=0.707 Sum_probs=139.5
Q ss_pred CCCCCccccccccccCCCCCCCCCCCCCCCchhHHHHhhhhhhcCCCCCCCCCCCCCCCCCCCCCCCCCCcccccccccc
Q 005338 3 DSEGGLSFDFEGGLDAGPGMPTASNPAIQSDSTAAAAAAAANANHAAPSSSGAAPDHASAPVPHHSGRRSFRQTVCRHWL 82 (701)
Q Consensus 3 d~~~~~~fd~e~~l~~~~g~~~as~P~~~~dks~aa~C~ff~ass~a~t~sg~C~~G~sC~f~H~r~~~~~Kt~VCrfFl 82 (701)
+++..+.||||.+++++++... .|+...+.++.+.|.++. +- .-.|.++..|..+|...+...+++|||||+
T Consensus 13 ~~~~~~~~~~e~~~~~e~~~~~--~~~~~~d~~~~~~~~~~~-~~-----~~~~~~~~~~~~~~~~~~~~~~~~vcK~~l 84 (325)
T KOG1040|consen 13 LDDDSLKTDFEKSLDREPGASL--APFRVRDESGRATCEFNE-SR-----EKPCERGPICPKSHNDVSDSRGKVVCKHWL 84 (325)
T ss_pred ccccccccccchhhhhcccccc--cccccccccccchhcccc-cC-----CCCccCCCCCccccCCccccCCceeehhhh
Confidence 4556799999999999999987 789999999999999998 11 145899999999998865567899999999
Q ss_pred cCCCCCCCCCCCCCCCCCCCCcccccccccCccCC-CCCCCCCcc--cCccccccCccCCCCCCCCCCCCCCCCCCCCCC
Q 005338 83 RSLCMKGDACGFLHQYDKSRMPVCRFFRLFGECRE-QDCVYKHTN--EDIKECNMYKLGFCPNGPDCRYRHVKLPGPPPS 159 (701)
Q Consensus 83 rG~C~kGd~C~FaH~~~~~r~p~C~~F~~~G~C~~-~dC~FsH~~--~~~~iC~~F~~G~C~~G~~Crf~H~~~p~~~p~ 159 (701)
+|.|++||.|.|+|+++..+++.|+||.+.|.|++ .+|+|.|.. ..++.|+||..|+|..|++|+++|.........
T Consensus 85 ~glC~kgD~C~Flhe~~~~k~rec~ff~~~g~c~~~~~c~y~h~dpqt~~k~c~~~~~g~c~~g~~c~~~h~~~~~c~~y 164 (325)
T KOG1040|consen 85 RGLCKKGDQCEFLHEYDLTKMRECKFFSLFGECTNGKDCPYLHGDPQTAIKKCKWYKEGFCRGGPSCKKRHERKVLCPPY 164 (325)
T ss_pred hhhhhccCcCcchhhhhhcccccccccccccccccccCCcccCCChhhhhhccchhhhccCCCcchhhhhhhcccCCCch
Confidence 99999999999999999999999999999999999 799999998 567899999999999999999999988554444
Q ss_pred hHHHHHhhhhccccC
Q 005338 160 VEEVLQKIQQISSYN 174 (701)
Q Consensus 160 v~e~lqki~~l~s~~ 174 (701)
+..+..+..+.-.+.
T Consensus 165 ~~gfC~~g~q~c~~~ 179 (325)
T KOG1040|consen 165 NAGFCPKGPQRCDML 179 (325)
T ss_pred hhhhccCCCCccccc
Confidence 444444444433333
No 5
>KOG1902 consensus Putative signal transduction protein involved in RNA splicing [Signal transduction mechanisms; RNA processing and modification]
Probab=99.47 E-value=1.9e-13 Score=144.26 Aligned_cols=187 Identities=14% Similarity=-0.020 Sum_probs=126.9
Q ss_pred CCccCCCCchhhhhhhHHHHhhccCCCCCCCCCCCCCCC-----CCCCCCCCCCC-CCC-CCCCCCcccCCCCCCCCCCC
Q 005338 434 DIVPFEDNEEEEEEESEEEEESLGTASQGRGRGRGMMWP-----GPMPLARGARP-VPG-MRGFPPMMIGADGFSYGVTP 506 (701)
Q Consensus 434 ~~~~~~~~~~~~eee~e~~~~~~~~~~~grg~~~~~~~~-----~~~p~~~~~~p-~~g-~~~~~~~~~~~~~~~~g~~p 506 (701)
+-++.+++|++++++++ ...+|.+++++++||..++ .+|+.+.|++- +++ .++|+|. +|++--+ |
T Consensus 246 ~~~~~~~ped~d~~~~~---~~p~G~~p~~~h~~Pg~~~~~r~q~~~~rf~g~~L~v~~Pg~~~~y~---~~f~nm~--p 317 (441)
T KOG1902|consen 246 RDVGRRRPEDYDIHNSR---KKPRGDYPPEFHQRPGYLKDPRYQEVDRRFSGVRLDVFLPGSYNDYV---REFHNMG--P 317 (441)
T ss_pred cCccccCcccchhhhhh---hCCCCCCCcccccCCCcCCCccccccccccCceecccccCccccccc---chhhhcC--C
Confidence 44555554444444443 5599999999999999999 89999999986 443 4788887 3333333 5
Q ss_pred CCCCCCCCCCCCCCCCCCCCCCCCCCC-CCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCC
Q 005338 507 DGFPMPDLFGVAPRPFAPYGPRFSGDF-TGPGGMMFPGRPPQPGSVFPPNGFGGMMMGPGRPPFMGGMGPAATNPRGGRP 585 (701)
Q Consensus 507 ~~f~~~d~~g~~~~~~~p~~~~~~g~f-~g~~~~m~~g~~~~~g~~~~~~~~g~~~~~~~~~~~~~gm~~~~~~~~~~~~ 585 (701)
+-|.|. ++.-|+|++|+.|.+ +| .|+.+||+|+++|.|| ||| +..|+.++---.. +--
T Consensus 318 ~p~~~g--~~p~pgm~~p~~p~~--q~~~~~~~~~~~~~g~h~~------~~~----~~~r~~r~~~y~~-----~~~-- 376 (441)
T KOG1902|consen 318 PPPWQG--MPPYPGMEQPPHPYY--QHHAPPPQAHPPYSGHHPV------PHE----ARYRDKRVHDYDM-----RVD-- 376 (441)
T ss_pred CccccC--cCCcCCcccCCCCcc--ccCCCCcccCCCCCCCCCC------ccc----cccCCCCcccccc-----ccc--
Confidence 556565 667799999988877 78 7788999999999998 666 4556653322211 111
Q ss_pred CCCCCCCCCCCCCccCCcccccccccCCCCCCCCcccCCCcccccccCCCCCCCCCchhhHhhhcc-ccccccccCCc
Q 005338 586 VGVPPPFPNQPQSSQNSSRAAKRDVRGSINDRNDRYSAGSDQGRAQEMGGPGRGPDDEVQYQQEGS-KANQEDQYGSR 662 (701)
Q Consensus 586 ~~~~p~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~-~~~~~~~~~~~ 662 (701)
.|-+-...-..-++.|.+.+|+.+......|+|.++++.++ .|-|+|.|++++ +++|||+++.+
T Consensus 377 ---~~~~~~~~~~~~~~~r~~~~d~~~~~~~~~~~~~~~~~~r~----------~~~e~e~e~~~~r~~~~ge~~~~r 441 (441)
T KOG1902|consen 377 ---DFLRRTQAVVSGRRSRPRERDRERERDRPRDNRRDRERDRG----------RDRERERERLCDRDRDRGERGRYR 441 (441)
T ss_pred ---ccccccccccccccccccccchhhccccchhhhhhhhhhcc----------cchhhhhhhhcccccccccccccC
Confidence 11111222222477788888877666666688999988887 334566677788 89999997653
No 6
>KOG1492 consensus C3H1-type Zn-finger protein [General function prediction only]
Probab=99.46 E-value=1.5e-14 Score=145.99 Aligned_cols=107 Identities=31% Similarity=0.734 Sum_probs=96.1
Q ss_pred hHHHHhhhhhhcCCCCCCCCCCCCCCCCCCCCCCCCCCcccccccccccCCCCCCCCCCCCCCCCCCCCcccccccccCc
Q 005338 35 TAAAAAAAANANHAAPSSSGAAPDHASAPVPHHSGRRSFRQTVCRHWLRSLCMKGDACGFLHQYDKSRMPVCRFFRLFGE 114 (701)
Q Consensus 35 s~aa~C~ff~ass~a~t~sg~C~~G~sC~f~H~r~~~~~Kt~VCrfFlrG~C~kGd~C~FaH~~~~~r~p~C~~F~~~G~ 114 (701)
..++.|.+|+ ..|.|-+|..|.|.| .+.+..||..|+.|+|.+.+.|.++|.+++++.|.|++| +.|+
T Consensus 204 psavycryyn-------angicgkgaacrfvh----eptrkticpkflngrcnkaedcnlsheldprripacryf-llgk 271 (377)
T KOG1492|consen 204 PSAVYCRYYN-------ANGICGKGAACRFVH----EPTRKTICPKFLNGRCNKAEDCNLSHELDPRRIPACRYF-LLGK 271 (377)
T ss_pred CceeEEEEec-------CCCcccCCceeeeec----cccccccChHHhcCccCchhcCCcccccCccccchhhhh-hhcc
Confidence 3577899998 247899999999999 455678999999999999999999999999999999999 7899
Q ss_pred cCCCCCCCCCcc--cCccccccCc-cCCCCCCCCCCCCCCCC
Q 005338 115 CREQDCVYKHTN--EDIKECNMYK-LGFCPNGPDCRYRHVKL 153 (701)
Q Consensus 115 C~~~dC~FsH~~--~~~~iC~~F~-~G~C~~G~~Crf~H~~~ 153 (701)
|.+.+|+|.|.. +..++|.-|. .|+|..|..|+-.|+..
T Consensus 272 cnnpncryvhihysenapicfefakygfcelgtscknqhilq 313 (377)
T KOG1492|consen 272 CNNPNCRYVHIHYSENAPICFEFAKYGFCELGTSCKNQHILQ 313 (377)
T ss_pred CCCCCceEEEEeecCCCceeeeehhcceeccccccccceeee
Confidence 999999999976 6678999987 99999999999999763
No 7
>COG5084 YTH1 Cleavage and polyadenylation specificity factor (CPSF) Clipper subunit and related makorin family Zn-finger proteins [General function prediction only]
Probab=99.05 E-value=3.5e-10 Score=119.09 Aligned_cols=94 Identities=37% Similarity=0.806 Sum_probs=82.8
Q ss_pred CCCCCCCCCCCCCcccccccccccCCCCCCCCCCCCCCCCCCC--CcccccccccCccCC-CCCCCCCcc--cCcccccc
Q 005338 60 ASAPVPHHSGRRSFRQTVCRHWLRSLCMKGDACGFLHQYDKSR--MPVCRFFRLFGECRE-QDCVYKHTN--EDIKECNM 134 (701)
Q Consensus 60 ~sC~f~H~r~~~~~Kt~VCrfFlrG~C~kGd~C~FaH~~~~~r--~p~C~~F~~~G~C~~-~dC~FsH~~--~~~~iC~~ 134 (701)
..|++.|.--+ .+..++|++|++|+|.++..|.|+|.++..+ ++.|++|++.|.|.. ..|.|.|.. .....|.+
T Consensus 90 ~s~~~~~~~~~-~~s~V~c~~~~~g~c~s~~~c~~lh~~d~~~s~~~~c~~Fs~~G~cs~g~~c~~~h~dp~~~~~~~~~ 168 (285)
T COG5084 90 LSTPNNHVNPV-LSSSVVCKFFLRGLCKSGFSCEFLHEYDLRSSQGPPCRSFSLKGSCSSGPSCGYSHIDPDSFAGNCDQ 168 (285)
T ss_pred ccCCccccCcc-ccCCcccchhccccCcCCCccccccCCCcccccCCCcccccccceeccCCCCCccccCcccccccccc
Confidence 36777775544 5678999999999999999999999999888 999999999999999 689999986 34569999
Q ss_pred Cc---cCCCCCCCCCCCCCCCCC
Q 005338 135 YK---LGFCPNGPDCRYRHVKLP 154 (701)
Q Consensus 135 F~---~G~C~~G~~Crf~H~~~p 154 (701)
|. .++|++|..|++.|+...
T Consensus 169 ~~~~~~~f~p~g~~c~~~H~~~~ 191 (285)
T COG5084 169 YSGATYGFCPLGASCKFSHTLKR 191 (285)
T ss_pred cCcccccccCCCCcccccccccc
Confidence 99 799999999999999874
No 8
>KOG1040 consensus Polyadenylation factor I complex, subunit, Yth1 (CPSF subunit) [RNA processing and modification]
Probab=99.04 E-value=8.8e-11 Score=125.84 Aligned_cols=110 Identities=24% Similarity=0.551 Sum_probs=96.3
Q ss_pred chhHHHHhhhhhhcCCCCCCCCCCCCCCCCCCCCCCCCCCccccccccccc-CCCCCCCCCCCCCCCCCCCCcccccccc
Q 005338 33 DSTAAAAAAAANANHAAPSSSGAAPDHASAPVPHHSGRRSFRQTVCRHWLR-SLCMKGDACGFLHQYDKSRMPVCRFFRL 111 (701)
Q Consensus 33 dks~aa~C~ff~ass~a~t~sg~C~~G~sC~f~H~r~~~~~Kt~VCrfFlr-G~C~kGd~C~FaH~~~~~r~p~C~~F~~ 111 (701)
+.....+|++|. .+.|++|+.|.|.|.- ...+...|.||.. |.|.++.+|.|.|..-......|.+| .
T Consensus 73 ~~~~~~vcK~~l--------~glC~kgD~C~Flhe~--~~~k~rec~ff~~~g~c~~~~~c~y~h~dpqt~~k~c~~~-~ 141 (325)
T KOG1040|consen 73 DSRGKVVCKHWL--------RGLCKKGDQCEFLHEY--DLTKMRECKFFSLFGECTNGKDCPYLHGDPQTAIKKCKWY-K 141 (325)
T ss_pred ccCCceeehhhh--------hhhhhccCcCcchhhh--hhcccccccccccccccccccCCcccCCChhhhhhccchh-h
Confidence 478899999999 7899999999999976 4456777776665 99999999999998756788899999 8
Q ss_pred cCccCC-CCCCCCCcccCccccccCccCCCCCCCC-CCCCCCCCCC
Q 005338 112 FGECRE-QDCVYKHTNEDIKECNMYKLGFCPNGPD-CRYRHVKLPG 155 (701)
Q Consensus 112 ~G~C~~-~dC~FsH~~~~~~iC~~F~~G~C~~G~~-Crf~H~~~p~ 155 (701)
.|.|.. .+|++.|... .+|..|..|+|+.|.. |.+.|...+.
T Consensus 142 ~g~c~~g~~c~~~h~~~--~~c~~y~~gfC~~g~q~c~~~hp~~~~ 185 (325)
T KOG1040|consen 142 EGFCRGGPSCKKRHERK--VLCPPYNAGFCPKGPQRCDMLHPEFQQ 185 (325)
T ss_pred hccCCCcchhhhhhhcc--cCCCchhhhhccCCCCcccccCCCCCC
Confidence 899999 5899999875 6999999999999999 9999987653
No 9
>KOG1492 consensus C3H1-type Zn-finger protein [General function prediction only]
Probab=98.88 E-value=5.6e-10 Score=113.16 Aligned_cols=86 Identities=36% Similarity=0.799 Sum_probs=73.6
Q ss_pred cccccccccc-CCCCCCCCCCCCCCCCCCCCcccccccccCccCC-CCCCCCCcc--cCccccccCccCCCCCCCCCCCC
Q 005338 74 RQTVCRHWLR-SLCMKGDACGFLHQYDKSRMPVCRFFRLFGECRE-QDCVYKHTN--EDIKECNMYKLGFCPNGPDCRYR 149 (701)
Q Consensus 74 Kt~VCrfFlr-G~C~kGd~C~FaH~~~~~r~p~C~~F~~~G~C~~-~dC~FsH~~--~~~~iC~~F~~G~C~~G~~Crf~ 149 (701)
..+.|+||.. |.|-+|..|+|.|.+. +..+|..| ++|.|.+ .+|.++|.. ..++.|++|+.|.|.+ ++|||.
T Consensus 205 savycryynangicgkgaacrfvhept--rkticpkf-lngrcnkaedcnlsheldprripacryfllgkcnn-pncryv 280 (377)
T KOG1492|consen 205 SAVYCRYYNANGICGKGAACRFVHEPT--RKTICPKF-LNGRCNKAEDCNLSHELDPRRIPACRYFLLGKCNN-PNCRYV 280 (377)
T ss_pred ceeEEEEecCCCcccCCceeeeecccc--ccccChHH-hcCccCchhcCCcccccCccccchhhhhhhccCCC-CCceEE
Confidence 3467999977 9999999999999765 77789999 8999999 689999976 4678999999999999 999999
Q ss_pred CCCCCCCCCChHHH
Q 005338 150 HVKLPGPPPSVEEV 163 (701)
Q Consensus 150 H~~~p~~~p~v~e~ 163 (701)
|+......|.+-++
T Consensus 281 hihysenapicfef 294 (377)
T KOG1492|consen 281 HIHYSENAPICFEF 294 (377)
T ss_pred EEeecCCCceeeee
Confidence 99887666665433
No 10
>KOG1677 consensus CCCH-type Zn-finger protein [General function prediction only]
Probab=98.72 E-value=1.2e-08 Score=108.75 Aligned_cols=89 Identities=24% Similarity=0.556 Sum_probs=68.5
Q ss_pred CCCCCCCCCCCCCCC---------------CCCCccccccccccc-CCCCC-CCCCCCCCCCCCCCCcccccccccCccC
Q 005338 54 GAAPDHASAPVPHHS---------------GRRSFRQTVCRHWLR-SLCMK-GDACGFLHQYDKSRMPVCRFFRLFGECR 116 (701)
Q Consensus 54 g~C~~G~sC~f~H~r---------------~~~~~Kt~VCrfFlr-G~C~k-Gd~C~FaH~~~~~r~p~C~~F~~~G~C~ 116 (701)
+.|..+..|++.|.. ....+|+.+|++|.+ |.|++ |++|+|+|.....+.+.
T Consensus 96 ~~~~~~s~~~~~~p~~~~~~~~~~~~~~~~~p~~~kt~lc~~~~~~g~c~y~ge~crfah~~~e~r~~~----------- 164 (332)
T KOG1677|consen 96 GVCGYGSSCRYNHPDLRLRPRPVRRSRGERKPERYKTPLCRSFRKSGTCKYRGEQCRFAHGLEELRLPS----------- 164 (332)
T ss_pred CCCCCCCCCCccCcccccccCCccccccccCcccccCCcceeeecCccccccCchhhhcCCcccccccc-----------
Confidence 446655566665542 234577899999999 99999 99999999877666442
Q ss_pred CCCCCCCCcccCccccccCc-cCCCCCCCCCCCCCCCC
Q 005338 117 EQDCVYKHTNEDIKECNMYK-LGFCPNGPDCRYRHVKL 153 (701)
Q Consensus 117 ~~dC~FsH~~~~~~iC~~F~-~G~C~~G~~Crf~H~~~ 153 (701)
.......|...++++|..|. .|.|++|.+|+|.|...
T Consensus 165 ~~~~~~~~~~~kt~lC~~f~~tG~C~yG~rC~F~H~~~ 202 (332)
T KOG1677|consen 165 SENQVGNPPKYKTKLCPKFQKTGLCKYGSRCRFIHGEP 202 (332)
T ss_pred cchhhcCCCCCCCcCCCccccCCCCCCCCcCeecCCCc
Confidence 11235578888899999998 59999999999999875
No 11
>KOG2494 consensus C3H1-type Zn-finger protein [Transcription]
Probab=98.54 E-value=5.8e-08 Score=103.27 Aligned_cols=61 Identities=30% Similarity=0.642 Sum_probs=53.1
Q ss_pred CCCCCCCCcccccccccccCCCCCCCC-CCCCCCCC-----CCCCcccccccccCccCCCCCCCCCcc
Q 005338 65 PHHSGRRSFRQTVCRHWLRSLCMKGDA-CGFLHQYD-----KSRMPVCRFFRLFGECREQDCVYKHTN 126 (701)
Q Consensus 65 ~H~r~~~~~Kt~VCrfFlrG~C~kGd~-C~FaH~~~-----~~r~p~C~~F~~~G~C~~~dC~FsH~~ 126 (701)
.|.+..+|...+|||.|++|.|.+||. |+|+|... ..++..|..| ++|.|++++|+|+|..
T Consensus 27 ~~~kd~~wl~~eVCReF~rn~C~R~d~~CkfaHP~~~~~V~~g~v~aC~Ds-~kgrCsR~nCkylHpp 93 (331)
T KOG2494|consen 27 ENVKDTKWLTLEVCREFLRNTCSRGDRECKFAHPPKNCQVSNGRVIACFDS-QKGRCSRENCKYLHPP 93 (331)
T ss_pred ccccccchhHHHHHHHHHhccccCCCccccccCCCCCCCccCCeEEEEecc-ccCccCcccceecCCC
Confidence 567788898999999999999999997 99999754 3355679988 8999999999999976
No 12
>COG5084 YTH1 Cleavage and polyadenylation specificity factor (CPSF) Clipper subunit and related makorin family Zn-finger proteins [General function prediction only]
Probab=98.46 E-value=2.8e-07 Score=97.46 Aligned_cols=112 Identities=25% Similarity=0.466 Sum_probs=95.3
Q ss_pred hhHHHHhhhhhhcCCCCCCCCCCCCCCCCCCCCCCCCCCccccccccc-ccCCCCCCCCCCCCCCCCCCCCcccccccc-
Q 005338 34 STAAAAAAAANANHAAPSSSGAAPDHASAPVPHHSGRRSFRQTVCRHW-LRSLCMKGDACGFLHQYDKSRMPVCRFFRL- 111 (701)
Q Consensus 34 ks~aa~C~ff~ass~a~t~sg~C~~G~sC~f~H~r~~~~~Kt~VCrfF-lrG~C~kGd~C~FaH~~~~~r~p~C~~F~~- 111 (701)
...+++|++|. .+.|..+..|.|.|+..........|++| +.|.|..|..|.|+|..-......|.+|..
T Consensus 101 ~~s~V~c~~~~--------~g~c~s~~~c~~lh~~d~~~s~~~~c~~Fs~~G~cs~g~~c~~~h~dp~~~~~~~~~~~~~ 172 (285)
T COG5084 101 LSSSVVCKFFL--------RGLCKSGFSCEFLHEYDLRSSQGPPCRSFSLKGSCSSGPSCGYSHIDPDSFAGNCDQYSGA 172 (285)
T ss_pred ccCCcccchhc--------cccCcCCCccccccCCCcccccCCCcccccccceeccCCCCCccccCcccccccccccCcc
Confidence 57889999999 78999999999999876544347899999 889999999999999876677889999964
Q ss_pred -cCccCCC-CCCCCCcccC----ccccccCccCCCCCCCC--------------CCCCCCCC
Q 005338 112 -FGECREQ-DCVYKHTNED----IKECNMYKLGFCPNGPD--------------CRYRHVKL 153 (701)
Q Consensus 112 -~G~C~~~-dC~FsH~~~~----~~iC~~F~~G~C~~G~~--------------Crf~H~~~ 153 (701)
.+.|.++ .|.+.|+... ...|..|..++|++|.. |.+.|...
T Consensus 173 ~~~f~p~g~~c~~~H~~~~~~~~~~p~~~y~~~fsP~g~~~~~~~~~~~~~~~~~~~~~ps~ 234 (285)
T COG5084 173 TYGFCPLGASCKFSHTLKRVSYGSSPCGNYTPPFSPPGTPSESVSSWGYGKGTSCSLSHPSL 234 (285)
T ss_pred cccccCCCCccccccccccccccccccccCcCCcCCCCCCccccccccccccccccCCCccc
Confidence 7899995 7999998743 23799999999999988 88888665
No 13
>KOG4791 consensus Uncharacterized conserved protein [Function unknown]
Probab=98.45 E-value=4.6e-08 Score=107.62 Aligned_cols=105 Identities=14% Similarity=0.215 Sum_probs=81.6
Q ss_pred HHhhhhhhcCCCCCCCCCCCCCCCCCCCCCCCCCCcccccccccccCCCCCCCCCCCCCCCCCCC-C-cccccccccCc-
Q 005338 38 AAAAAANANHAAPSSSGAAPDHASAPVPHHSGRRSFRQTVCRHWLRSLCMKGDACGFLHQYDKSR-M-PVCRFFRLFGE- 114 (701)
Q Consensus 38 a~C~ff~ass~a~t~sg~C~~G~sC~f~H~r~~~~~Kt~VCrfFlrG~C~kGd~C~FaH~~~~~r-~-p~C~~F~~~G~- 114 (701)
..|.||. ...|++++.|.|+|.-.-.. ..++|++|+.+.|-+ +.|.|.|..-..+ . ..|+|. +++.
T Consensus 4 ~dcyff~--------ys~cKk~d~c~~rh~E~al~-n~t~C~~w~~~~~C~-k~C~YRHSe~~~kr~e~~CYwe-~~p~g 72 (667)
T KOG4791|consen 4 EDCYFFF--------YSTCKKGDSCPFRHCEAALG-NETVCTLWQEGRCCR-KVCRYRHSEIDKKRSEIPCYWE-NQPTG 72 (667)
T ss_pred ccchhhh--------hhhhhccCcCcchhhHHHhc-CcchhhhhhhcCccc-ccccchhhHHhhhcCcccceee-cCCCc
Confidence 4688888 45699999999999766433 468999999987766 3799999743322 3 357766 5665
Q ss_pred cCCCCCCCCCccc--C-----------------------------ccccccCccCCCCCCCCCCCCCCCC
Q 005338 115 CREQDCVYKHTNE--D-----------------------------IKECNMYKLGFCPNGPDCRYRHVKL 153 (701)
Q Consensus 115 C~~~dC~FsH~~~--~-----------------------------~~iC~~F~~G~C~~G~~Crf~H~~~ 153 (701)
|.+..|-|.|... + ..+|-+|++++|..++-|-|.|...
T Consensus 73 C~k~~CgfRH~~pPLkg~l~~~p~~pe~ev~~~~~SAq~~sV~~~p~P~l~~~K~~e~~~D~~s~Lh~P~ 142 (667)
T KOG4791|consen 73 CQKLNCGFRHNRPPLKGVLPTVPESPEEEVKASQLSAQQNSVQSNPSPQLRSVKKVESSEDVPSPLHPPV 142 (667)
T ss_pred cCCCccccccCCCchhhhccCCCCCcccccccccccCCCcccccCCchHHHHhhhhhhhccccccCCCCc
Confidence 9999999999431 0 1489999999999999999999874
No 14
>KOG4791 consensus Uncharacterized conserved protein [Function unknown]
Probab=98.32 E-value=1.8e-07 Score=103.02 Aligned_cols=76 Identities=28% Similarity=0.603 Sum_probs=63.5
Q ss_pred ccccccccCCCCCCCCCCCCCCCCCC-CCcccccccccCccCCCCCCCCCccc----CccccccCccCC-CCCCCCCCCC
Q 005338 76 TVCRHWLRSLCMKGDACGFLHQYDKS-RMPVCRFFRLFGECREQDCVYKHTNE----DIKECNMYKLGF-CPNGPDCRYR 149 (701)
Q Consensus 76 ~VCrfFlrG~C~kGd~C~FaH~~~~~-r~p~C~~F~~~G~C~~~dC~FsH~~~----~~~iC~~F~~G~-C~~G~~Crf~ 149 (701)
.-|.||+...|++++.|.|.|..+.. ....|.+| +.+.|-+..|+|.|+.. ....|.|++++. |.+ ++|-|+
T Consensus 4 ~dcyff~ys~cKk~d~c~~rh~E~al~n~t~C~~w-~~~~~C~k~C~YRHSe~~~kr~e~~CYwe~~p~gC~k-~~CgfR 81 (667)
T KOG4791|consen 4 EDCYFFFYSTCKKGDSCPFRHCEAALGNETVCTLW-QEGRCCRKVCRYRHSEIDKKRSEIPCYWENQPTGCQK-LNCGFR 81 (667)
T ss_pred ccchhhhhhhhhccCcCcchhhHHHhcCcchhhhh-hhcCcccccccchhhHHhhhcCcccceeecCCCccCC-Cccccc
Confidence 56999999999999999999986644 45689999 55677777999999873 235899999998 999 999999
Q ss_pred CCCC
Q 005338 150 HVKL 153 (701)
Q Consensus 150 H~~~ 153 (701)
|...
T Consensus 82 H~~p 85 (667)
T KOG4791|consen 82 HNRP 85 (667)
T ss_pred cCCC
Confidence 9763
No 15
>KOG1763 consensus Uncharacterized conserved protein, contains CCCH-type Zn-finger [General function prediction only]
Probab=98.02 E-value=1.2e-06 Score=92.24 Aligned_cols=82 Identities=28% Similarity=0.542 Sum_probs=48.3
Q ss_pred ccccccccccCCCCCCCCCCCCCCCCCCCC-cccccccccCccCCCCCC------CCCcc---cCccccccCc-------
Q 005338 74 RQTVCRHWLRSLCMKGDACGFLHQYDKSRM-PVCRFFRLFGECREQDCV------YKHTN---EDIKECNMYK------- 136 (701)
Q Consensus 74 Kt~VCrfFlrG~C~kGd~C~FaH~~~~~r~-p~C~~F~~~G~C~~~dC~------FsH~~---~~~~iC~~F~------- 136 (701)
|++||-||..|+|.+|+.|+|+|++...+. .---.|...-.=.-++-. -.|.. ....+|+||+
T Consensus 91 KSvvCafFk~g~C~KG~kCKFsHdl~~~~k~eK~dly~d~rdemWD~~kl~~vv~~K~~k~k~~tdiVCKfFLeAvE~~k 170 (343)
T KOG1763|consen 91 KSVVCAFFKQGTCTKGDKCKFSHDLAVERKKEKIDLYPDTRDEMWDEEKLEEVVLKKHGKPKPTTDIVCKFFLEAVENGK 170 (343)
T ss_pred hHHHHHHHhccCCCCCCcccccchHHHhhhccchhccccchhhhhhHHHHHHHHHhhccCCCCchhHHHHHHHHHHhcCC
Confidence 889999999999999999999999753221 100111100000000000 00101 1124899985
Q ss_pred cC---CCCCC-CCCCCCCCCCCC
Q 005338 137 LG---FCPNG-PDCRYRHVKLPG 155 (701)
Q Consensus 137 ~G---~C~~G-~~Crf~H~~~p~ 155 (701)
+| .|++| ..|.|+|.++++
T Consensus 171 YGWfW~CPnGg~~C~YrHaLP~G 193 (343)
T KOG1763|consen 171 YGWFWECPNGGDKCIYRHALPEG 193 (343)
T ss_pred ccceeECCCCCCeeeeeecCCcc
Confidence 23 39996 599999998754
No 16
>KOG1924 consensus RhoA GTPase effector DIA/Diaphanous [Signal transduction mechanisms; Cytoskeleton]
Probab=97.71 E-value=0.00019 Score=83.62 Aligned_cols=13 Identities=8% Similarity=0.020 Sum_probs=6.8
Q ss_pred CCcceeeeEEeee
Q 005338 345 GRNFSVKWLKLCE 357 (701)
Q Consensus 345 gg~F~VeWl~v~~ 357 (701)
.+.|.|=|-.+++
T Consensus 385 ~~~f~lL~n~vkd 397 (1102)
T KOG1924|consen 385 NEVFELLANTVKD 397 (1102)
T ss_pred HHHHHHHHHhhhh
Confidence 3455555555444
No 17
>PF00642 zf-CCCH: Zinc finger C-x8-C-x5-C-x3-H type (and similar); InterPro: IPR000571 Zinc finger (Znf) domains are relatively small protein motifs which contain multiple finger-like protrusions that make tandem contacts with their target molecule. Some of these domains bind zinc, but many do not; instead binding other metals such as iron, or no metal at all. For example, some family members form salt bridges to stabilise the finger-like folds. They were first identified as a DNA-binding motif in transcription factor TFIIIA from Xenopus laevis (African clawed frog), however they are now recognised to bind DNA, RNA, protein and/or lipid substrates [, , , , ]. Their binding properties depend on the amino acid sequence of the finger domains and of the linker between fingers, as well as on the higher-order structures and the number of fingers. Znf domains are often found in clusters, where fingers can have different binding specificities. There are many superfamilies of Znf motifs, varying in both sequence and structure. They display considerable versatility in binding modes, even between members of the same class (e.g. some bind DNA, others protein), suggesting that Znf motifs are stable scaffolds that have evolved specialised functions. For example, Znf-containing proteins function in gene transcription, translation, mRNA trafficking, cytoskeleton organisation, epithelial development, cell adhesion, protein folding, chromatin remodelling and zinc sensing, to name but a few []. Zinc-binding motifs are stable structures, and they rarely undergo conformational changes upon binding their target. This entry represents C-x8-C-x5-C-x3-H (CCCH) type Zinc finger (Znf) domains. Proteins containing CCCH Znf domains include Znf proteins from eukaryotes involved in cell cycle or growth phase-related regulation, e.g. human TIS11B (butyrate response factor 1), a probable regulatory protein involved in regulating the response to growth factors, and the mouse TTP growth factor-inducible nuclear protein, which has the same function. The mouse TTP protein is induced by growth factors. Another protein containing this domain is the human splicing factor U2AF 35kDa subunit, which plays a critical role in both constitutive and enhancer-dependent splicing by mediating essential protein-protein interactions and protein-RNA interactions required for 3' splice site selection. It has been shown that different CCCH-type Znf proteins interact with the 3'-untranslated region of various mRNA [, ]. This type of Znf is very often present in two copies. More information about these proteins can be found at Protein of the Month: Zinc Fingers [].; GO: 0003676 nucleic acid binding, 0008270 zinc ion binding; PDB: 1M9O_A 1RGO_A 2CQE_A 2FC6_A 2D9M_A 2E5S_A 2RHK_C 2D9N_A 3D2S_A 3D2Q_C ....
Probab=97.69 E-value=8.2e-06 Score=57.58 Aligned_cols=25 Identities=36% Similarity=0.986 Sum_probs=20.2
Q ss_pred ccccccccccc-CCCCCCCCCCCCCC
Q 005338 73 FRQTVCRHWLR-SLCMKGDACGFLHQ 97 (701)
Q Consensus 73 ~Kt~VCrfFlr-G~C~kGd~C~FaH~ 97 (701)
+|+++|++|++ |.|.+|++|+|+|+
T Consensus 1 ~k~~~C~~f~~~g~C~~G~~C~f~H~ 26 (27)
T PF00642_consen 1 YKTKLCRFFMRTGTCPFGDKCRFAHG 26 (27)
T ss_dssp TTSSB-HHHHHTS--TTGGGSSSBSS
T ss_pred CccccChhhccCCccCCCCCcCccCC
Confidence 47899999999 99999999999996
No 18
>KOG1924 consensus RhoA GTPase effector DIA/Diaphanous [Signal transduction mechanisms; Cytoskeleton]
Probab=97.52 E-value=0.00033 Score=81.84 Aligned_cols=15 Identities=33% Similarity=0.492 Sum_probs=6.7
Q ss_pred CCCCCCCCCCCCCCC
Q 005338 522 FAPYGPRFSGDFTGP 536 (701)
Q Consensus 522 ~~p~~~~~~g~f~g~ 536 (701)
.||.+|+.||.-|||
T Consensus 556 ~PPPPpplPg~aG~P 570 (1102)
T KOG1924|consen 556 PPPPPPPLPGIAGGP 570 (1102)
T ss_pred CCccCCCCCcccCCC
Confidence 344444444444443
No 19
>smart00356 ZnF_C3H1 zinc finger.
Probab=97.51 E-value=6.2e-05 Score=51.96 Aligned_cols=25 Identities=32% Similarity=0.931 Sum_probs=22.9
Q ss_pred cccccccccccCCCCCCCCCCCCCC
Q 005338 73 FRQTVCRHWLRSLCMKGDACGFLHQ 97 (701)
Q Consensus 73 ~Kt~VCrfFlrG~C~kGd~C~FaH~ 97 (701)
+|+.+|++|+.|.|.+|+.|+|+|+
T Consensus 2 ~k~~~C~~~~~g~C~~g~~C~~~H~ 26 (27)
T smart00356 2 YKTELCKFFKRGYCPYGDRCKFAHP 26 (27)
T ss_pred CCCCcCcCccCCCCCCCCCcCCCCc
Confidence 4778999999999999999999996
No 20
>KOG1595 consensus CCCH-type Zn-finger protein [General function prediction only]
Probab=97.40 E-value=0.00013 Score=82.49 Aligned_cols=76 Identities=25% Similarity=0.610 Sum_probs=52.5
Q ss_pred CCCCCCCCCCCC----CCCCCC----cccccccccccCCCCCCCCCCCCCCCCCCCCcccccccccCccCCCCCCCCCcc
Q 005338 55 AAPDHASAPVPH----HSGRRS----FRQTVCRHWLRSLCMKGDACGFLHQYDKSRMPVCRFFRLFGECREQDCVYKHTN 126 (701)
Q Consensus 55 ~C~~G~sC~f~H----~r~~~~----~Kt~VCrfFlrG~C~kGd~C~FaH~~~~~r~p~C~~F~~~G~C~~~dC~FsH~~ 126 (701)
.|-.+..|+|.| .|.+.+ |..+.|.-|.+|.|.+||.|.|+|.. ..|+ +|..
T Consensus 208 ~shDwteCPf~HpgEkARRRDPRkyhYs~tpCPefrkG~C~rGD~CEyaHgv-----fEcw---------------LHPa 267 (528)
T KOG1595|consen 208 RSHDWTECPFAHPGEKARRRDPRKYHYSSTPCPEFRKGSCERGDSCEYAHGV-----FECW---------------LHPA 267 (528)
T ss_pred cCCCcccCCccCCCcccccCCcccccccCccCcccccCCCCCCCccccccce-----ehhh---------------cCHH
Confidence 566678899988 222222 45778999999999999999999953 2333 2332
Q ss_pred -cCccccccCccCCCCCCCCCCCCCCCC
Q 005338 127 -EDIKECNMYKLGFCPNGPDCRYRHVKL 153 (701)
Q Consensus 127 -~~~~iC~~F~~G~C~~G~~Crf~H~~~ 153 (701)
+++..|+.- |+|+. .-|-|+|+..
T Consensus 268 ~YRT~~CkDg--~~C~R-rvCfFAH~~e 292 (528)
T KOG1595|consen 268 RYRTRKCKDG--GYCPR-RVCFFAHSPE 292 (528)
T ss_pred HhccccccCC--CCCcc-ceEeeecChH
Confidence 556677775 77888 8888888763
No 21
>COG5252 Uncharacterized conserved protein, contains CCCH-type Zn-finger protein [General function prediction only]
Probab=97.21 E-value=5.4e-05 Score=77.97 Aligned_cols=81 Identities=28% Similarity=0.561 Sum_probs=49.3
Q ss_pred cccccccccccCCCCCCCCCCCCCCCCCCC-CcccccccccCccCCCCCCCCCcc--cCccccccCc----cC------C
Q 005338 73 FRQTVCRHWLRSLCMKGDACGFLHQYDKSR-MPVCRFFRLFGECREQDCVYKHTN--EDIKECNMYK----LG------F 139 (701)
Q Consensus 73 ~Kt~VCrfFlrG~C~kGd~C~FaH~~~~~r-~p~C~~F~~~G~C~~~dC~FsH~~--~~~~iC~~F~----~G------~ 139 (701)
-|++||-.|+.+.|.+|+.|+|+|+....+ +.---.|+..- -...+-++-..+ ....+|+||+ .| .
T Consensus 83 pK~~vcalF~~~~c~kg~~ckF~h~~ee~r~~eK~DLYsDvR-d~~ed~pl~krP~intd~VCkffieA~e~GkYgw~W~ 161 (299)
T COG5252 83 PKTVVCALFLNKTCAKGDACKFAHGKEEARKTEKPDLYSDVR-DKEEDVPLGKRPWINTDRVCKFFIEAMESGKYGWGWT 161 (299)
T ss_pred chhHHHHHhccCccccCchhhhhcchHHHhhhcccchhhhhh-hhhccCCcccCCCCChhHHHHHHHHHHhcCCccceee
Confidence 378999999999999999999999855322 11111221100 000122222111 1125899985 23 4
Q ss_pred CCCC-CCCCCCCCCCC
Q 005338 140 CPNG-PDCRYRHVKLP 154 (701)
Q Consensus 140 C~~G-~~Crf~H~~~p 154 (701)
|++| ..|-|+|....
T Consensus 162 CPng~~~C~y~H~Lp~ 177 (299)
T COG5252 162 CPNGNMRCSYIHKLPD 177 (299)
T ss_pred CCCCCceeeeeeccCc
Confidence 9996 79999998754
No 22
>KOG1677 consensus CCCH-type Zn-finger protein [General function prediction only]
Probab=97.19 E-value=0.00017 Score=77.35 Aligned_cols=48 Identities=21% Similarity=0.499 Sum_probs=40.0
Q ss_pred CCCCCCC-CCCCCCCCCCCCC-------------Cccccccccccc-CCCCCCCCCCCCCCCC
Q 005338 52 SSGAAPD-HASAPVPHHSGRR-------------SFRQTVCRHWLR-SLCMKGDACGFLHQYD 99 (701)
Q Consensus 52 ~sg~C~~-G~sC~f~H~r~~~-------------~~Kt~VCrfFlr-G~C~kGd~C~FaH~~~ 99 (701)
.++.|.. |..|.|.|..... .+||++|.+|.+ |.|++|..|.|.|...
T Consensus 140 ~~g~c~y~ge~crfah~~~e~r~~~~~~~~~~~~~~kt~lC~~f~~tG~C~yG~rC~F~H~~~ 202 (332)
T KOG1677|consen 140 KSGTCKYRGEQCRFAHGLEELRLPSSENQVGNPPKYKTKLCPKFQKTGLCKYGSRCRFIHGEP 202 (332)
T ss_pred cCccccccCchhhhcCCcccccccccchhhcCCCCCCCcCCCccccCCCCCCCCcCeecCCCc
Confidence 3678999 9999998766543 378999999999 9999999999999754
No 23
>KOG0132 consensus RNA polymerase II C-terminal domain-binding protein RA4, contains RPR and RRM domains [RNA processing and modification; Transcription]
Probab=97.00 E-value=0.036 Score=65.46 Aligned_cols=40 Identities=23% Similarity=0.360 Sum_probs=25.8
Q ss_pred eee---eccccHHHHHHHhccCCc---EEEEEEeCCCCceeEEEEeccCCC
Q 005338 283 VWA---TQRSNEAKLNEAFDSAEN---VILIFSVNRTRHFQGCAKMTSKIG 327 (701)
Q Consensus 283 VWa---Tt~~ne~kLn~AF~~~~~---V~LfFSVN~Sg~FqG~ArM~S~~~ 327 (701)
+|- ++.-.+.-|..+|++... |+||= ..=|+|-+|..+-+
T Consensus 424 LwvG~i~k~v~e~dL~~~feefGeiqSi~li~-----~R~cAfI~M~~Rqd 469 (894)
T KOG0132|consen 424 LWVGGIPKNVTEQDLANLFEEFGEIQSIILIP-----PRGCAFIKMVRRQD 469 (894)
T ss_pred eeeccccchhhHHHHHHHHHhcccceeEeecc-----CCceeEEEEeehhH
Confidence 454 344557788999987654 44542 24478888987644
No 24
>smart00356 ZnF_C3H1 zinc finger.
Probab=96.92 E-value=0.00062 Score=46.94 Aligned_cols=25 Identities=32% Similarity=0.987 Sum_probs=21.6
Q ss_pred CccccccCccCCCCCCCCCCCCCCC
Q 005338 128 DIKECNMYKLGFCPNGPDCRYRHVK 152 (701)
Q Consensus 128 ~~~iC~~F~~G~C~~G~~Crf~H~~ 152 (701)
+..+|++|..|.|.+|++|+|+|..
T Consensus 3 k~~~C~~~~~g~C~~g~~C~~~H~~ 27 (27)
T smart00356 3 KTELCKFFKRGYCPYGDRCKFAHPL 27 (27)
T ss_pred CCCcCcCccCCCCCCCCCcCCCCcC
Confidence 3458999999999999999999963
No 25
>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=96.83 E-value=0.00023 Score=50.24 Aligned_cols=24 Identities=38% Similarity=0.920 Sum_probs=17.6
Q ss_pred CccccccCc-cCCCCCCCCCCCCCC
Q 005338 128 DIKECNMYK-LGFCPNGPDCRYRHV 151 (701)
Q Consensus 128 ~~~iC~~F~-~G~C~~G~~Crf~H~ 151 (701)
+.++|++|. .|.|++|++|+|+|.
T Consensus 2 k~~~C~~f~~~g~C~~G~~C~f~H~ 26 (27)
T PF00642_consen 2 KTKLCRFFMRTGTCPFGDKCRFAHG 26 (27)
T ss_dssp TSSB-HHHHHTS--TTGGGSSSBSS
T ss_pred ccccChhhccCCccCCCCCcCccCC
Confidence 356899888 499999999999996
No 26
>KOG1595 consensus CCCH-type Zn-finger protein [General function prediction only]
Probab=96.81 E-value=0.0016 Score=73.94 Aligned_cols=100 Identities=26% Similarity=0.533 Sum_probs=68.0
Q ss_pred CCCCCCCCC-CCCCCCCCCCC--------cccccccccccCCCCC-CCCCCCCCCCCCCCC-------------------
Q 005338 53 SGAAPDHAS-APVPHHSGRRS--------FRQTVCRHWLRSLCMK-GDACGFLHQYDKSRM------------------- 103 (701)
Q Consensus 53 sg~C~~G~s-C~f~H~r~~~~--------~Kt~VCrfFlrG~C~k-Gd~C~FaH~~~~~r~------------------- 103 (701)
++.|..++. |.+.|...... +|+-.|..-.+|.|.+ +..|.|+|.....+.
T Consensus 86 ~~~C~~~~~~C~~~g~s~~~~e~~~hL~~~k~~~~~tda~g~~~~~v~~~~~~~~~~~~r~~~~~l~e~~~~~~~~~~e~ 165 (528)
T KOG1595|consen 86 TGICPDGDEHCAVLGRSVGDTERTYHLRYYKTLPCVTDARGNCVKNVLHCAFAHGPNDLRPPVEDLLELQGGSGLPDDEP 165 (528)
T ss_pred cccCCCCcccchhcccccCCcceeEeccccccccCccccCCCcccCcccccccCCccccccHHHHHHhcccccCccCCCc
Confidence 578999888 99988765433 4455565455577754 468999997441110
Q ss_pred -----------------c-----------ccccccccCccCC------CCCCCCCcccC------------ccccccCcc
Q 005338 104 -----------------P-----------VCRFFRLFGECRE------QDCVYKHTNED------------IKECNMYKL 137 (701)
Q Consensus 104 -----------------p-----------~C~~F~~~G~C~~------~dC~FsH~~~~------------~~iC~~F~~ 137 (701)
+ ..+.| +.-.|.+ .+|+|.|..++ -.+|..|.+
T Consensus 166 ~~~~~~~~~~y~~Dp~~pdi~~~ys~DeFrMy~f-Kir~C~R~~shDwteCPf~HpgEkARRRDPRkyhYs~tpCPefrk 244 (528)
T KOG1595|consen 166 EVESKLDVTEYPEDPSWPDINGIYSSDEFRMYSF-KIRRCSRPRSHDWTECPFAHPGEKARRRDPRKYHYSSTPCPEFRK 244 (528)
T ss_pred ccccccccccccCCCCcccccccccccceEEEee-eecccCCccCCCcccCCccCCCcccccCCcccccccCccCccccc
Confidence 0 01112 2334655 47999996644 259999999
Q ss_pred CCCCCCCCCCCCCCCC
Q 005338 138 GFCPNGPDCRYRHVKL 153 (701)
Q Consensus 138 G~C~~G~~Crf~H~~~ 153 (701)
|.|..|+.|-|.|...
T Consensus 245 G~C~rGD~CEyaHgvf 260 (528)
T KOG1595|consen 245 GSCERGDSCEYAHGVF 260 (528)
T ss_pred CCCCCCCcccccccee
Confidence 9999999999999875
No 27
>COG5063 CTH1 CCCH-type Zn-finger protein [General function prediction only]
Probab=96.74 E-value=0.0013 Score=70.19 Aligned_cols=83 Identities=23% Similarity=0.460 Sum_probs=61.0
Q ss_pred CCccc--cccccccc-CCCCC---CCCCCCC---CCCCCC---------CCcccccccccCccCCC-CCCCCCcccC---
Q 005338 71 RSFRQ--TVCRHWLR-SLCMK---GDACGFL---HQYDKS---------RMPVCRFFRLFGECREQ-DCVYKHTNED--- 128 (701)
Q Consensus 71 ~~~Kt--~VCrfFlr-G~C~k---Gd~C~Fa---H~~~~~---------r~p~C~~F~~~G~C~~~-dC~FsH~~~~--- 128 (701)
..+++ .+|.-|.+ |+|.. |+.|.|+ |.+... +...|..+...|.|..+ .|.|.|...+
T Consensus 224 ~L~kt~~~lc~~ft~kg~~p~~~sG~~~q~a~~~HGlN~l~~k~k~~~frTePcinwe~sGyc~yg~Rc~F~hgd~~~ie 303 (351)
T COG5063 224 PLYKTNPELCESFTRKGTCPYWISGVKCQFACRGHGLNELKSKKKKQNFRTEPCINWEKSGYCPYGLRCCFKHGDDSDIE 303 (351)
T ss_pred hhhcCCHHHhhccCcCCCCccccccccccccccccccccccccccccccccCCccchhhcccCccccccccccCChhhcc
Confidence 44566 78997776 99999 9999999 987643 34567777777888884 6888886521
Q ss_pred ----------ccccccCc-cCCCCCCCCCCCCCCCC
Q 005338 129 ----------IKECNMYK-LGFCPNGPDCRYRHVKL 153 (701)
Q Consensus 129 ----------~~iC~~F~-~G~C~~G~~Crf~H~~~ 153 (701)
...|+.+. .|.|+.|-+|.+.|.+.
T Consensus 304 ~~~~~~~~y~~~~crt~~~~g~~p~g~~~c~~~dkk 339 (351)
T COG5063 304 MYEEASLGYLDGPCRTRAKGGAFPSGGAVCKSFDKK 339 (351)
T ss_pred ccccccccccccccccccccCccCCCCchhhccccc
Confidence 13677776 67888888888888764
No 28
>KOG3702 consensus Nuclear polyadenylated RNA binding protein [RNA processing and modification]
Probab=96.71 E-value=0.0024 Score=73.88 Aligned_cols=100 Identities=23% Similarity=0.517 Sum_probs=59.6
Q ss_pred hhHHHHhhhhhhcCC-CCCCCCCCCCCCCCCCCCCCCCCCcccccccccccCCCCCCCCCCCCCCCCC-----C------
Q 005338 34 STAAAAAAAANANHA-APSSSGAAPDHASAPVPHHSGRRSFRQTVCRHWLRSLCMKGDACGFLHQYDK-----S------ 101 (701)
Q Consensus 34 ks~aa~C~ff~ass~-a~t~sg~C~~G~sC~f~H~r~~~~~Kt~VCrfFlrG~C~kGd~C~FaH~~~~-----~------ 101 (701)
....+.|.|++.++. +-..--+|.....|.++| .-|+|= -.|++-| |.|+|.-.. .
T Consensus 552 ~Ct~a~Ce~~HPtaa~~~~s~p~k~fa~~~~ks~---------p~Ck~~--~kCtasD-C~~sH~~~~~pvq~t~ip~~~ 619 (681)
T KOG3702|consen 552 ACTSAECEFAHPTAAENAKSLPNKKFASKCLKSH---------PGCKFG--KKCTASD-CNYSHAGRRIPVQPTRIPPPF 619 (681)
T ss_pred cCCchhhhhcCCcchhhhhccccccccccceecc---------cccccc--ccccccc-CcccccCCCCCCccccCCCCC
Confidence 344666766662111 011122345555555555 446665 3477744 888886332 1
Q ss_pred ----CCcccccccccCccCCCCCCCCCcccCccccccCccCCCCCCCCCCCCCCCCC
Q 005338 102 ----RMPVCRFFRLFGECREQDCVYKHTNEDIKECNMYKLGFCPNGPDCRYRHVKLP 154 (701)
Q Consensus 102 ----r~p~C~~F~~~G~C~~~dC~FsH~~~~~~iC~~F~~G~C~~G~~Crf~H~~~p 154 (701)
-+..|+|+ +.|.+-.|.|.|.+ .|+|-. .|++-+.|-|.|....
T Consensus 620 ~~~ti~~~CrY~---pnCrnm~C~F~HPk----~cRf~~--~c~~~~sc~fYh~r~n 667 (681)
T KOG3702|consen 620 PGGTIRGLCRYR---PNCRNMQCKFYHPK----TCRFNT--NCPNNPSCTFYHERPN 667 (681)
T ss_pred CCCCccccceec---cCcCCccccccCCc----cccccc--cCCCCcccccccCCcc
Confidence 12368887 88888888888854 677744 4886688888887653
No 29
>KOG2494 consensus C3H1-type Zn-finger protein [Transcription]
Probab=96.45 E-value=0.0011 Score=71.28 Aligned_cols=50 Identities=28% Similarity=0.703 Sum_probs=42.3
Q ss_pred CCcccccccccCccCCC--CCCCCCcccC-------ccccccCccCCCCCCCCCCCCCCCC
Q 005338 102 RMPVCRFFRLFGECREQ--DCVYKHTNED-------IKECNMYKLGFCPNGPDCRYRHVKL 153 (701)
Q Consensus 102 r~p~C~~F~~~G~C~~~--dC~FsH~~~~-------~~iC~~F~~G~C~~G~~Crf~H~~~ 153 (701)
...+|+.| +.+.|.+. +|+|.|.... ...|..|++|.|.. ++|||.|...
T Consensus 36 ~~eVCReF-~rn~C~R~d~~CkfaHP~~~~~V~~g~v~aC~Ds~kgrCsR-~nCkylHpp~ 94 (331)
T KOG2494|consen 36 TLEVCREF-LRNTCSRGDRECKFAHPPKNCQVSNGRVIACFDSQKGRCSR-ENCKYLHPPQ 94 (331)
T ss_pred HHHHHHHH-HhccccCCCccccccCCCCCCCccCCeEEEEeccccCccCc-ccceecCCCh
Confidence 45699999 89999994 5999998742 45899999999999 9999999653
No 30
>COG5063 CTH1 CCCH-type Zn-finger protein [General function prediction only]
Probab=96.29 E-value=0.0045 Score=66.25 Aligned_cols=76 Identities=21% Similarity=0.367 Sum_probs=60.0
Q ss_pred CCCCCCC---CCCCCCC---CCCC-------CCCccccccccccc-CCCCCCCCCCCCCCCCCC-----------CCccc
Q 005338 52 SSGAAPD---HASAPVP---HHSG-------RRSFRQTVCRHWLR-SLCMKGDACGFLHQYDKS-----------RMPVC 106 (701)
Q Consensus 52 ~sg~C~~---G~sC~f~---H~r~-------~~~~Kt~VCrfFlr-G~C~kGd~C~FaH~~~~~-----------r~p~C 106 (701)
..|+|.. |+.|-|. |+.. +..+||+.|+-|.. |+|.+|..|.|.|..+.. ....|
T Consensus 238 ~kg~~p~~~sG~~~q~a~~~HGlN~l~~k~k~~~frTePcinwe~sGyc~yg~Rc~F~hgd~~~ie~~~~~~~~y~~~~c 317 (351)
T COG5063 238 RKGTCPYWISGVKCQFACRGHGLNELKSKKKKQNFRTEPCINWEKSGYCPYGLRCCFKHGDDSDIEMYEEASLGYLDGPC 317 (351)
T ss_pred cCCCCccccccccccccccccccccccccccccccccCCccchhhcccCccccccccccCChhhcccccccccccccccc
Confidence 4677888 9999888 7643 35678999999988 999999999999985421 23379
Q ss_pred ccccccCccCC-CCCCCCCccc
Q 005338 107 RFFRLFGECRE-QDCVYKHTNE 127 (701)
Q Consensus 107 ~~F~~~G~C~~-~dC~FsH~~~ 127 (701)
+.+...|.|.. ..|.++|...
T Consensus 318 rt~~~~g~~p~g~~~c~~~dkk 339 (351)
T COG5063 318 RTRAKGGAFPSGGAVCKSFDKK 339 (351)
T ss_pred ccccccCccCCCCchhhccccc
Confidence 98888999988 4789999763
No 31
>PRK00809 hypothetical protein; Provisional
Probab=96.26 E-value=0.037 Score=53.79 Aligned_cols=126 Identities=12% Similarity=0.182 Sum_probs=80.1
Q ss_pred EEEEEeeCChhhHHHHHHcCeeeeccccHHHHHHHhccCCcEEEEEEeC------CCCceeEEEEeccCCCCCcCCCCcc
Q 005338 263 RYFIVKSCNRENLELSVQQGVWATQRSNEAKLNEAFDSAENVILIFSVN------RTRHFQGCAKMTSKIGGSVGGGNWK 336 (701)
Q Consensus 263 RFFIIKS~n~enI~~Sik~gVWaTt~~ne~kLn~AF~~~~~V~LfFSVN------~Sg~FqG~ArM~S~~~~~~~~~~W~ 336 (701)
+|+|+=+ |++|+.+++++|||-+....-.-|.+ -+....+|||+-+ ....|.|+|++++..-.+. +..|.
T Consensus 2 ~yWi~~~-~~~~~~~~~~~gv~g~~~~~rn~lr~--Mk~GD~v~fYhs~~~~~~~~~~~ivgi~eV~~~~y~D~-t~~~p 77 (144)
T PRK00809 2 TYWLCIT-NEDNWEVIKDKNVWGVPERYKNTIEK--VKPGDKLIIYVSQEYGAERLPGKIVGIYEVVSEWYEDS-TPIFP 77 (144)
T ss_pred ceEEEec-CHHHHHHHHhCCEeecchhhhhHHhh--CCCCCEEEEEECCccCCCCCCceEEEEEEEecCcccCC-ccCCC
Confidence 5777766 99999999999999997665455554 4446788888877 5799999999998753322 23342
Q ss_pred cc--CCCCCcCCcceeeeEEeee--cCccccc----cccCCCCCCCcc-ccCCCCcccChHHHHHHH
Q 005338 337 YA--HGTAHYGRNFSVKWLKLCE--LSFHKTR----HLRNPYNENLPV-KISRDCQELEPSIGEQLA 394 (701)
Q Consensus 337 ~~--~~~~~~gg~F~VeWl~v~~--LpF~~~~----HL~Np~NenkPV-~~sRDGQEIe~~~G~qL~ 394 (701)
.. .....+--.++|+++.+.+ |++..+. -|+|.-.=...+ ..++ .||+.+--+.|+
T Consensus 78 ~~~~~~~~~~p~rvdV~~~~~~~~~v~l~~L~~~L~fik~~~~w~~~l~R~~~--~~I~~~d~~~I~ 142 (144)
T PRK00809 78 AEPVRPKEIYPYRVKLKPVKIFEEPIDFKPLIPKLKFIENKKQWSGHLRNRAM--RPIPEEDYKLIE 142 (144)
T ss_pred ccccCCCCCceEEEEEEEeeecCCcccHHHHHhhhhhhhcccccchhhhcCCC--ccCCHHHHHHHh
Confidence 11 1122334567899998877 7766661 113321111222 4555 777776655443
No 32
>KOG1763 consensus Uncharacterized conserved protein, contains CCCH-type Zn-finger [General function prediction only]
Probab=96.00 E-value=0.0023 Score=68.11 Aligned_cols=31 Identities=10% Similarity=0.090 Sum_probs=26.4
Q ss_pred CchhHHHHhhhhhhcCCCCCCCCCCCCCCCCCCCCCCCC
Q 005338 32 SDSTAAAAAAAANANHAAPSSSGAAPDHASAPVPHHSGR 70 (701)
Q Consensus 32 ~dks~aa~C~ff~ass~a~t~sg~C~~G~sC~f~H~r~~ 70 (701)
-.+..+.+|.||. .+.|..|+.|.|+|+...
T Consensus 87 gvDPKSvvCafFk--------~g~C~KG~kCKFsHdl~~ 117 (343)
T KOG1763|consen 87 GVDPKSVVCAFFK--------QGTCTKGDKCKFSHDLAV 117 (343)
T ss_pred CCCchHHHHHHHh--------ccCCCCCCcccccchHHH
Confidence 3455889999999 788999999999997654
No 33
>KOG3702 consensus Nuclear polyadenylated RNA binding protein [RNA processing and modification]
Probab=95.43 E-value=0.012 Score=68.38 Aligned_cols=45 Identities=31% Similarity=0.716 Sum_probs=26.3
Q ss_pred ccccccccCCCCCCCCCCCCCCCCC--C-C-------------CcccccccccCccCCCCCCCCCcc
Q 005338 76 TVCRHWLRSLCMKGDACGFLHQYDK--S-R-------------MPVCRFFRLFGECREQDCVYKHTN 126 (701)
Q Consensus 76 ~VCrfFlrG~C~kGd~C~FaH~~~~--~-r-------------~p~C~~F~~~G~C~~~dC~FsH~~ 126 (701)
.+|+||+. |. +..|.|.|.... . . .+-|+|- ..|++.+|.|+|..
T Consensus 545 ~~Cky~~~--Ct-~a~Ce~~HPtaa~~~~s~p~k~fa~~~~ks~p~Ck~~---~kCtasDC~~sH~~ 605 (681)
T KOG3702|consen 545 TRCKYGPA--CT-SAECEFAHPTAAENAKSLPNKKFASKCLKSHPGCKFG---KKCTASDCNYSHAG 605 (681)
T ss_pred ccccCCCc--CC-chhhhhcCCcchhhhhccccccccccceecccccccc---cccccccCcccccC
Confidence 46777754 66 466777776432 0 1 1234443 46777777777754
No 34
>KOG2185 consensus Predicted RNA-processing protein, contains G-patch domain [RNA processing and modification]
Probab=95.34 E-value=0.008 Score=66.44 Aligned_cols=34 Identities=26% Similarity=0.641 Sum_probs=28.9
Q ss_pred CCCCCcc-cCccccccCccCCCCCCCCCCCCCCCC
Q 005338 120 CVYKHTN-EDIKECNMYKLGFCPNGPDCRYRHVKL 153 (701)
Q Consensus 120 C~FsH~~-~~~~iC~~F~~G~C~~G~~Crf~H~~~ 153 (701)
-.|+|.. ...++|+||+.|.|.++.+|||+|...
T Consensus 130 Vlfl~PTh~sMkpC~ffLeg~CRF~enCRfSHG~~ 164 (486)
T KOG2185|consen 130 VLFLTPTHESMKPCKFFLEGRCRFGENCRFSHGLD 164 (486)
T ss_pred EEeecCcchhhccchHhhccccccCcccccccCcc
Confidence 4577765 456899999999999999999999874
No 35
>KOG2333 consensus Uncharacterized conserved protein [General function prediction only]
Probab=95.05 E-value=0.0078 Score=67.98 Aligned_cols=58 Identities=33% Similarity=0.831 Sum_probs=41.3
Q ss_pred ccccccccccC---CCCCCCCCCCCCCCCCCCCcccccccccCccCCCCCCCCCcc-cC-ccccccCc-cCCCCCCCCCC
Q 005338 74 RQTVCRHWLRS---LCMKGDACGFLHQYDKSRMPVCRFFRLFGECREQDCVYKHTN-ED-IKECNMYK-LGFCPNGPDCR 147 (701)
Q Consensus 74 Kt~VCrfFlrG---~C~kGd~C~FaH~~~~~r~p~C~~F~~~G~C~~~dC~FsH~~-~~-~~iC~~F~-~G~C~~G~~Cr 147 (701)
+..+|.-.+.| .|.+||+|+|.|+.+. |+-.+ .+ -+-|..|. .|+|++|-.||
T Consensus 75 ~n~LCPsli~g~~~~C~f~d~Crf~HDi~a---------------------yLatK~~Dig~~Cp~f~s~G~Cp~G~~CR 133 (614)
T KOG2333|consen 75 QNRLCPSLIQGDISKCSFGDNCRFVHDIEA---------------------YLATKAPDIGPSCPVFESLGFCPYGFKCR 133 (614)
T ss_pred hhccChHhhcCCCccCcccccccccccHHH---------------------HHhccCcccCCccceeeccccCCccceee
Confidence 35689999886 7999999999998652 11111 11 13677776 89999999999
Q ss_pred CCCCC
Q 005338 148 YRHVK 152 (701)
Q Consensus 148 f~H~~ 152 (701)
|.-..
T Consensus 134 Fl~aH 138 (614)
T KOG2333|consen 134 FLGAH 138 (614)
T ss_pred hhhcc
Confidence 96443
No 36
>KOG2185 consensus Predicted RNA-processing protein, contains G-patch domain [RNA processing and modification]
Probab=94.62 E-value=0.019 Score=63.56 Aligned_cols=24 Identities=33% Similarity=0.822 Sum_probs=21.2
Q ss_pred ccccccccCCCCCCCCCCCCCCCC
Q 005338 76 TVCRHWLRSLCMKGDACGFLHQYD 99 (701)
Q Consensus 76 ~VCrfFlrG~C~kGd~C~FaH~~~ 99 (701)
.+|+||+.|.|+.+++|+|+|.++
T Consensus 141 kpC~ffLeg~CRF~enCRfSHG~~ 164 (486)
T KOG2185|consen 141 KPCKFFLEGRCRFGENCRFSHGLD 164 (486)
T ss_pred ccchHhhccccccCcccccccCcc
Confidence 479999999999999999999865
No 37
>PF14608 zf-CCCH_2: Zinc finger C-x8-C-x5-C-x3-H type
Probab=94.17 E-value=0.029 Score=36.81 Aligned_cols=19 Identities=37% Similarity=0.870 Sum_probs=14.7
Q ss_pred cccccccCCCCCCCCCCCCCC
Q 005338 77 VCRHWLRSLCMKGDACGFLHQ 97 (701)
Q Consensus 77 VCrfFlrG~C~kGd~C~FaH~ 97 (701)
+|+||.. |+++++|.|+|.
T Consensus 1 ~Ck~~~~--C~~~~~C~f~HP 19 (19)
T PF14608_consen 1 PCKFGPN--CTNGDNCPFSHP 19 (19)
T ss_pred CCcCcCC--CCCCCcCccCCc
Confidence 4888755 888888888883
No 38
>KOG2893 consensus Zn finger protein [General function prediction only]
Probab=93.83 E-value=0.86 Score=47.98 Aligned_cols=8 Identities=50% Similarity=1.024 Sum_probs=3.4
Q ss_pred CCCCCCCC
Q 005338 470 MWPGPMPL 477 (701)
Q Consensus 470 ~~~~~~p~ 477 (701)
-||-+||.
T Consensus 110 ~~~~~~p~ 117 (341)
T KOG2893|consen 110 PMPTPMPF 117 (341)
T ss_pred CCCCCCCC
Confidence 34444443
No 39
>COG5252 Uncharacterized conserved protein, contains CCCH-type Zn-finger protein [General function prediction only]
Probab=93.26 E-value=0.027 Score=58.68 Aligned_cols=26 Identities=8% Similarity=0.046 Sum_probs=22.9
Q ss_pred hhHHHHhhhhhhcCCCCCCCCCCCCCCCCCCCCC
Q 005338 34 STAAAAAAAANANHAAPSSSGAAPDHASAPVPHH 67 (701)
Q Consensus 34 ks~aa~C~ff~ass~a~t~sg~C~~G~sC~f~H~ 67 (701)
+..+.+|+.|. ..+|..|+.|.|.|+
T Consensus 82 dpK~~vcalF~--------~~~c~kg~~ckF~h~ 107 (299)
T COG5252 82 DPKTVVCALFL--------NKTCAKGDACKFAHG 107 (299)
T ss_pred CchhHHHHHhc--------cCccccCchhhhhcc
Confidence 44788999999 678999999999997
No 40
>PF14608 zf-CCCH_2: Zinc finger C-x8-C-x5-C-x3-H type
Probab=92.64 E-value=0.075 Score=34.89 Aligned_cols=18 Identities=33% Similarity=0.940 Sum_probs=14.1
Q ss_pred ccccCccCCCCCCCCCCCCC
Q 005338 131 ECNMYKLGFCPNGPDCRYRH 150 (701)
Q Consensus 131 iC~~F~~G~C~~G~~Crf~H 150 (701)
+|+||.. |+++++|.|+|
T Consensus 1 ~Ck~~~~--C~~~~~C~f~H 18 (19)
T PF14608_consen 1 PCKFGPN--CTNGDNCPFSH 18 (19)
T ss_pred CCcCcCC--CCCCCcCccCC
Confidence 4777665 88888888888
No 41
>KOG2893 consensus Zn finger protein [General function prediction only]
Probab=92.58 E-value=1.4 Score=46.41 Aligned_cols=6 Identities=67% Similarity=1.436 Sum_probs=2.6
Q ss_pred CCCCCc
Q 005338 488 RGFPPM 493 (701)
Q Consensus 488 ~~~~~~ 493 (701)
-|+|||
T Consensus 140 ~gmpp~ 145 (341)
T KOG2893|consen 140 YGMPPM 145 (341)
T ss_pred cCCCCC
Confidence 444444
No 42
>KOG0132 consensus RNA polymerase II C-terminal domain-binding protein RA4, contains RPR and RRM domains [RNA processing and modification; Transcription]
Probab=92.30 E-value=6.1 Score=47.69 Aligned_cols=11 Identities=36% Similarity=0.525 Sum_probs=4.8
Q ss_pred CCCCCCCCCCCC
Q 005338 584 RPVGVPPPFPNQ 595 (701)
Q Consensus 584 ~~~~~~p~~~~~ 595 (701)
.|+|. +|+|-+
T Consensus 720 gpgG~-~f~P~~ 730 (894)
T KOG0132|consen 720 GPGGP-PFPPEN 730 (894)
T ss_pred CCCCC-CCCCCC
Confidence 34443 455533
No 43
>KOG4672 consensus Uncharacterized conserved low complexity protein [Function unknown]
Probab=90.35 E-value=2.5 Score=47.54 Aligned_cols=22 Identities=23% Similarity=0.376 Sum_probs=9.6
Q ss_pred CCCCCccCCCCchhhhhhhHHH
Q 005338 431 DNPDIVPFEDNEEEEEEESEEE 452 (701)
Q Consensus 431 ~~~~~~~~~~~~~~~eee~e~~ 452 (701)
+.+-+.+..+..+|+|++.|+|
T Consensus 269 ~v~~~~~~~~~d~~dds~~ede 290 (487)
T KOG4672|consen 269 SVPLLPPPGIPDNEDDSRPEDE 290 (487)
T ss_pred cccccCCCCCCccccccchhhh
Confidence 3334555444444444444333
No 44
>KOG1039 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=86.67 E-value=0.27 Score=54.28 Aligned_cols=24 Identities=29% Similarity=0.736 Sum_probs=22.8
Q ss_pred ccccccccCCCCCCCCCCCCCCCC
Q 005338 76 TVCRHWLRSLCMKGDACGFLHQYD 99 (701)
Q Consensus 76 ~VCrfFlrG~C~kGd~C~FaH~~~ 99 (701)
.||+||++|.|++|+.|+|.|...
T Consensus 9 tic~~~~~g~c~~g~~cr~~h~~~ 32 (344)
T KOG1039|consen 9 TICKYYQKGNCKFGDLCRLSHSLP 32 (344)
T ss_pred hhhhhcccccccccceeeeeccCc
Confidence 899999999999999999999865
No 45
>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=86.01 E-value=0.45 Score=33.03 Aligned_cols=20 Identities=35% Similarity=0.964 Sum_probs=10.6
Q ss_pred ccccCccC-CCCCCCCCCCCCC
Q 005338 131 ECNMYKLG-FCPNGPDCRYRHV 151 (701)
Q Consensus 131 iC~~F~~G-~C~~G~~Crf~H~ 151 (701)
+|.|.+.| .|.. ++|.|.|.
T Consensus 2 lC~yEl~Gg~Cnd-~~C~~QHf 22 (23)
T PF10650_consen 2 LCPYELTGGVCND-PDCEFQHF 22 (23)
T ss_pred CCccccCCCeeCC-CCCCcccc
Confidence 45555544 5554 55555554
No 46
>COG5152 Uncharacterized conserved protein, contains RING and CCCH-type Zn-fingers [General function prediction only]
Probab=84.32 E-value=0.41 Score=49.10 Aligned_cols=27 Identities=33% Similarity=0.805 Sum_probs=22.7
Q ss_pred ccccccccccc-CCCCCCCCCCCCCCCC
Q 005338 73 FRQTVCRHWLR-SLCMKGDACGFLHQYD 99 (701)
Q Consensus 73 ~Kt~VCrfFlr-G~C~kGd~C~FaH~~~ 99 (701)
+...||+.|.. |+|-+||.|+|+|.-+
T Consensus 139 ~qpdVCKdyk~TGYCGYGDsCKflH~R~ 166 (259)
T COG5152 139 TQPDVCKDYKETGYCGYGDSCKFLHDRS 166 (259)
T ss_pred cCcccccchhhcccccCCchhhhhhhhh
Confidence 34568998876 9999999999999854
No 47
>KOG1039 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=83.33 E-value=0.44 Score=52.57 Aligned_cols=25 Identities=32% Similarity=0.611 Sum_probs=23.2
Q ss_pred cccccCccCCCCCCCCCCCCCCCCC
Q 005338 130 KECNMYKLGFCPNGPDCRYRHVKLP 154 (701)
Q Consensus 130 ~iC~~F~~G~C~~G~~Crf~H~~~p 154 (701)
.||++|+.|+|.+|..|||.|++..
T Consensus 9 tic~~~~~g~c~~g~~cr~~h~~~~ 33 (344)
T KOG1039|consen 9 TICKYYQKGNCKFGDLCRLSHSLPD 33 (344)
T ss_pred hhhhhcccccccccceeeeeccCch
Confidence 5999999999999999999999863
No 48
>COG5152 Uncharacterized conserved protein, contains RING and CCCH-type Zn-fingers [General function prediction only]
Probab=81.96 E-value=0.53 Score=48.27 Aligned_cols=24 Identities=33% Similarity=0.902 Sum_probs=21.9
Q ss_pred cccccCc-cCCCCCCCCCCCCCCCC
Q 005338 130 KECNMYK-LGFCPNGPDCRYRHVKL 153 (701)
Q Consensus 130 ~iC~~F~-~G~C~~G~~Crf~H~~~ 153 (701)
.+|+.|. .|+|-+|+.|+|.|.+.
T Consensus 142 dVCKdyk~TGYCGYGDsCKflH~R~ 166 (259)
T COG5152 142 DVCKDYKETGYCGYGDSCKFLHDRS 166 (259)
T ss_pred ccccchhhcccccCCchhhhhhhhh
Confidence 5999997 99999999999999874
No 49
>KOG4849 consensus mRNA cleavage factor I subunit/CPSF subunit [RNA processing and modification]
Probab=79.77 E-value=20 Score=39.92 Aligned_cols=39 Identities=23% Similarity=0.328 Sum_probs=22.7
Q ss_pred eeeeccccHHHHHHHhccCC----cEEEEEEeCCCCceeEEEEecc
Q 005338 283 VWATQRSNEAKLNEAFDSAE----NVILIFSVNRTRHFQGCAKMTS 324 (701)
Q Consensus 283 VWaTt~~ne~kLn~AF~~~~----~V~LfFSVN~Sg~FqG~ArM~S 324 (701)
+|.||. .-|.+|..+.. --+-||--...|+=-|||.+.-
T Consensus 89 ~W~TTD---~DL~~A~~S~G~~~~~dmKFFENR~NGQSKG~AL~~~ 131 (498)
T KOG4849|consen 89 LWYTTD---ADLLKALQSTGLAQFADMKFFENRTNGQSKGYALLVL 131 (498)
T ss_pred eEEecc---HHHHHHHHhhhHHHHhhhhhhhcccCCcccceEEEEe
Confidence 466663 35666665432 1134666566677778888753
No 50
>KOG1813 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=78.33 E-value=1.7 Score=46.98 Aligned_cols=27 Identities=30% Similarity=0.891 Sum_probs=22.5
Q ss_pred ccccccccccc-CCCCCCCCCCCCCCCC
Q 005338 73 FRQTVCRHWLR-SLCMKGDACGFLHQYD 99 (701)
Q Consensus 73 ~Kt~VCrfFlr-G~C~kGd~C~FaH~~~ 99 (701)
+...||+.|.. |.|-+|+.|+|+|+..
T Consensus 184 ~qpDicKdykeTgycg~gdSckFlh~r~ 211 (313)
T KOG1813|consen 184 YQPDICKDYKETGYCGYGDSCKFLHDRS 211 (313)
T ss_pred cCchhhhhhHhhCcccccchhhhhhhhh
Confidence 34568998876 9999999999999844
No 51
>PF01878 EVE: EVE domain; InterPro: IPR002740 The EVE domain is part of the wider PUA domain superfamily. The function of this domain is not known but, given the structural similarities to PUA, is likely to involve RNA binding []. ; PDB: 2G2X_B 2AR1_A 3EOP_A 2EVE_A 2HD9_A 2ZBN_A 1WMM_A 2P5D_A 2GBS_A 1ZCE_A.
Probab=77.56 E-value=6.7 Score=37.35 Aligned_cols=100 Identities=13% Similarity=0.255 Sum_probs=51.4
Q ss_pred EEEEEeeC----ChhhHHHHHHcCeeeeccc-cHHHHHHHhccCCcEEEEEEeC-CCCceeEEEEeccCCCCCcCC----
Q 005338 263 RYFIVKSC----NRENLELSVQQGVWATQRS-NEAKLNEAFDSAENVILIFSVN-RTRHFQGCAKMTSKIGGSVGG---- 332 (701)
Q Consensus 263 RFFIIKS~----n~enI~~Sik~gVWaTt~~-ne~kLn~AF~~~~~V~LfFSVN-~Sg~FqG~ArM~S~~~~~~~~---- 332 (701)
+|+|+|+. +.+++ .-....+|.-..+ ...+.-+..+.. ..+|||.-+ +.+.|.|+|+.++..-...+.
T Consensus 1 ~YWl~~~~P~~~~~~~~-~~~~~~~~~gv~~~~~~~~l~~mk~G-D~vifY~s~~~~~~ivai~~V~~~~~~d~~~~~~~ 78 (143)
T PF01878_consen 1 RYWLLKANPENFSIDDL-EHWGVTVWDGVRNYQARKNLKRMKPG-DKVIFYHSGCKERGIVAIGEVVSEPYPDPTAFDPD 78 (143)
T ss_dssp -EEEEEEBTTTSHHHHH-HHHSEEECHTEEEHHHHHHHHC--TT--EEEEEETSSSS-EEEEEEEEEEEEEE-GGGTSTT
T ss_pred CEEEEEeCCcccCHHHh-cccceEEEcCEeehhhhhhhhcCCCC-CEEEEEEcCCCCCEEEEEEEEeccccCCCcccccc
Confidence 69999999 77777 4555556653322 222222233444 555666655 779999999998864222111
Q ss_pred CCccccCCCCCcCCcceeeeEEeee--cCcccccc
Q 005338 333 GNWKYAHGTAHYGRNFSVKWLKLCE--LSFHKTRH 365 (701)
Q Consensus 333 ~~W~~~~~~~~~gg~F~VeWl~v~~--LpF~~~~H 365 (701)
..|... ........++|+++..-+ |+...|+.
T Consensus 79 ~~~~~~-~~~~~~~~v~v~~~~~~~~pi~l~~Lk~ 112 (143)
T PF01878_consen 79 SPYYDP-KSNPKPYRVDVEYVKIFEKPIPLKELKA 112 (143)
T ss_dssp STTBTT-TSCSSSEEEEEEEEEEEEEEEEHHHHHC
T ss_pred ccCcCC-ccCCCeeEEEEEEEEecCCCcCHHHHhc
Confidence 011110 001123466788886544 55466653
No 52
>KOG4849 consensus mRNA cleavage factor I subunit/CPSF subunit [RNA processing and modification]
Probab=77.37 E-value=15 Score=40.88 Aligned_cols=13 Identities=23% Similarity=-0.100 Sum_probs=6.0
Q ss_pred CCCCCCCCCCCCC
Q 005338 579 NPRGGRPVGVPPP 591 (701)
Q Consensus 579 ~~~~~~~~~~~p~ 591 (701)
|..+++-++.+++
T Consensus 343 n~~~~r~~~p~~~ 355 (498)
T KOG4849|consen 343 NGLPPRHVNPQMF 355 (498)
T ss_pred CCCCcccCCCCCc
Confidence 4444455544333
No 53
>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=76.20 E-value=1.6 Score=30.39 Aligned_cols=20 Identities=30% Similarity=0.846 Sum_probs=10.6
Q ss_pred ccccccccCccCCCCCCCCC
Q 005338 105 VCRFFRLFGECREQDCVYKH 124 (701)
Q Consensus 105 ~C~~F~~~G~C~~~dC~FsH 124 (701)
+|.|-...|.|...+|.|.|
T Consensus 2 lC~yEl~Gg~Cnd~~C~~QH 21 (23)
T PF10650_consen 2 LCPYELTGGVCNDPDCEFQH 21 (23)
T ss_pred CCccccCCCeeCCCCCCccc
Confidence 34444333366666666666
No 54
>KOG1984 consensus Vesicle coat complex COPII, subunit SFB3 [Intracellular trafficking, secretion, and vesicular transport]
Probab=75.83 E-value=17 Score=44.57 Aligned_cols=40 Identities=30% Similarity=0.472 Sum_probs=27.5
Q ss_pred CCCCCCCCCCCCCCCCCCCCCCCC-CCC---CCCCCCCCCCCCC
Q 005338 510 PMPDLFGVAPRPFAPYGPRFSGDF-TGP---GGMMFPGRPPQPG 549 (701)
Q Consensus 510 ~~~d~~g~~~~~~~p~~~~~~g~f-~g~---~~~m~~g~~~~~g 549 (701)
++|-.-|.+|++++|+.|++.+++ -+| ++|-.||.+|++-
T Consensus 38 p~p~~~~~~p~~~ppg~~p~~~q~~~~~~~~p~~~~pg~~p~~s 81 (1007)
T KOG1984|consen 38 PPPPMQGTGPRGPPPGAPPQQPQSGQSPMARPPQRRPGPPPGVS 81 (1007)
T ss_pred CCCCCCCCCCCCCCCCCCCCCCCCCCCccCCCcccCCCCCCCCC
Confidence 344555888999999888887777 223 5677777666543
No 55
>KOG0153 consensus Predicted RNA-binding protein (RRM superfamily) [General function prediction only]
Probab=75.12 E-value=0.88 Score=50.08 Aligned_cols=26 Identities=38% Similarity=0.929 Sum_probs=23.6
Q ss_pred cccccCccCCCCCCCCCCCCCCCCCC
Q 005338 130 KECNMYKLGFCPNGPDCRYRHVKLPG 155 (701)
Q Consensus 130 ~iC~~F~~G~C~~G~~Crf~H~~~p~ 155 (701)
.+|.||..|.|+.|..|.|+|...+.
T Consensus 162 ~Icsf~v~geckRG~ec~yrhEkp~d 187 (377)
T KOG0153|consen 162 HICSFFVKGECKRGAECPYRHEKPPD 187 (377)
T ss_pred ccccceeeccccccccccccccCCCC
Confidence 49999999999999999999998743
No 56
>PRK02268 hypothetical protein; Provisional
Probab=68.86 E-value=29 Score=34.15 Aligned_cols=123 Identities=15% Similarity=0.162 Sum_probs=74.6
Q ss_pred EEEEEeeCChhhHHHHHHcCeeeeccccHHHHHHHhccCCcEEEEEEeC-------CCCceeEEEEeccCCCCCcCCCCc
Q 005338 263 RYFIVKSCNRENLELSVQQGVWATQRSNEAKLNEAFDSAENVILIFSVN-------RTRHFQGCAKMTSKIGGSVGGGNW 335 (701)
Q Consensus 263 RFFIIKS~n~enI~~Sik~gVWaTt~~ne~kLn~AF~~~~~V~LfFSVN-------~Sg~FqG~ArM~S~~~~~~~~~~W 335 (701)
+|.|+ ..|.+|+.+.+..|+|-+-.....-|.+- +..+.+|+||-. .=..|.+++++++.--.
T Consensus 3 ~yWI~-v~s~~hv~~g~~~gf~qv~hgK~apl~Rm--kpGD~ivyYsp~~~~~~~~~~qaftAig~V~~~~~Y------- 72 (141)
T PRK02268 3 RYWIG-VVSAEHVRRGVEGGFMQVCHGKAAPLRRM--KPGDWIIYYSPKTTFGGKDKLQAFTAIGKVKDDEPY------- 72 (141)
T ss_pred ceEEE-EccHHHHHHHHhCCEEEeCCCccchhhcC--CCCCEEEEEeceEecCCCcccceEEEEEEEcCCceE-------
Confidence 45543 56779999999999998754444444332 224677778733 34789999999876211
Q ss_pred cccCCCCCcCCcceeeeEEeeecCcccc----ccccCCCCCCCccccCCCC-cccChHHHHHHHHHhh
Q 005338 336 KYAHGTAHYGRNFSVKWLKLCELSFHKT----RHLRNPYNENLPVKISRDC-QELEPSIGEQLAALLY 398 (701)
Q Consensus 336 ~~~~~~~~~gg~F~VeWl~v~~LpF~~~----~HL~Np~NenkPV~~sRDG-QEIe~~~G~qL~~Lf~ 398 (701)
+..-+...+--.++|+|+.+.++|+.-+ +.|+|.-+=.. +. |=| -||+.+-.+.|.+.+.
T Consensus 73 q~~m~~~f~P~Rr~v~~~~~~e~pi~pLi~~L~Fi~~k~~Wg~--~f-r~g~~eI~e~Df~~I~~am~ 137 (141)
T PRK02268 73 QVEMAPGFIPWRRDVDYYPCAETPIRPLLDHLDFTEDRKNWGY--QF-RFGHFEISKHDFETIASAMT 137 (141)
T ss_pred ecccCCCceeEEEEeeEeecCccchHHhhcccceeeCcchhhH--hh-cCCcEecCHHHHHHHHHHhc
Confidence 1111111222356799999999998765 44444333222 22 334 6787777666666553
No 57
>KOG1813 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=62.89 E-value=2.5 Score=45.80 Aligned_cols=24 Identities=33% Similarity=0.891 Sum_probs=22.0
Q ss_pred cccccCc-cCCCCCCCCCCCCCCCC
Q 005338 130 KECNMYK-LGFCPNGPDCRYRHVKL 153 (701)
Q Consensus 130 ~iC~~F~-~G~C~~G~~Crf~H~~~ 153 (701)
.+|+.|. .|+|-+|+.|+|.|.+.
T Consensus 187 DicKdykeTgycg~gdSckFlh~r~ 211 (313)
T KOG1813|consen 187 DICKDYKETGYCGYGDSCKFLHDRS 211 (313)
T ss_pred hhhhhhHhhCcccccchhhhhhhhh
Confidence 4999998 99999999999999874
No 58
>KOG2333 consensus Uncharacterized conserved protein [General function prediction only]
Probab=60.95 E-value=3.3 Score=47.74 Aligned_cols=43 Identities=16% Similarity=0.222 Sum_probs=32.5
Q ss_pred CCCCCCCCCCCCCCCCCCCCcc-----ccccccccc-CCCCCCCCCCCC
Q 005338 53 SGAAPDHASAPVPHHSGRRSFR-----QTVCRHWLR-SLCMKGDACGFL 95 (701)
Q Consensus 53 sg~C~~G~sC~f~H~r~~~~~K-----t~VCrfFlr-G~C~kGd~C~Fa 95 (701)
...|..++.|.|.|+...=... -.-|..|-. |.|.+|-+|+|+
T Consensus 87 ~~~C~f~d~Crf~HDi~ayLatK~~Dig~~Cp~f~s~G~Cp~G~~CRFl 135 (614)
T KOG2333|consen 87 ISKCSFGDNCRFVHDIEAYLATKAPDIGPSCPVFESLGFCPYGFKCRFL 135 (614)
T ss_pred CccCcccccccccccHHHHHhccCcccCCccceeeccccCCccceeehh
Confidence 3579999999999987541111 135998877 899999999995
No 59
>COG5222 Uncharacterized conserved protein, contains RING Zn-finger [General function prediction only]
Probab=54.29 E-value=9.9 Score=41.49 Aligned_cols=25 Identities=36% Similarity=0.687 Sum_probs=20.0
Q ss_pred CCCCCCCCCCCCC--CCCCCCCCCcccC
Q 005338 471 WPGPMPLARGARP--VPGMRGFPPMMIG 496 (701)
Q Consensus 471 ~~~~~p~~~~~~p--~~g~~~~~~~~~~ 496 (701)
|| +||...|||| ||-|.-||||||=
T Consensus 389 ~p-~~p~~~g~ppfpm~plp~mpp~~~i 415 (427)
T COG5222 389 MP-SMPHVQGFPPFPMMPLPQMPPMMMI 415 (427)
T ss_pred CC-CCCccCCCCCCCCCCCCCCCcceee
Confidence 45 8999999998 6668888888873
No 60
>COG5180 PBP1 Protein interacting with poly(A)-binding protein [RNA processing and modification]
Probab=52.57 E-value=64 Score=37.45 Aligned_cols=10 Identities=20% Similarity=0.331 Sum_probs=4.7
Q ss_pred CCCCCCCCCC
Q 005338 141 PNGPDCRYRH 150 (701)
Q Consensus 141 ~~G~~Crf~H 150 (701)
.+|-+-+|-.
T Consensus 160 lFgVkS~FDE 169 (654)
T COG5180 160 LFGVKSRFDE 169 (654)
T ss_pred hcCccccccH
Confidence 3455555543
No 61
>KOG2202 consensus U2 snRNP splicing factor, small subunit, and related proteins [RNA processing and modification]
Probab=51.86 E-value=6.3 Score=42.05 Aligned_cols=25 Identities=36% Similarity=0.959 Sum_probs=22.7
Q ss_pred ccccccccccCCCCCCCCCCCCCCC
Q 005338 74 RQTVCRHWLRSLCMKGDACGFLHQY 98 (701)
Q Consensus 74 Kt~VCrfFlrG~C~kGd~C~FaH~~ 98 (701)
+..+|..|-++.|.+|..|.|.|-.
T Consensus 151 rea~C~~~e~~~C~rG~~CnFmH~k 175 (260)
T KOG2202|consen 151 REAICGQFERTECSRGGACNFMHVK 175 (260)
T ss_pred hhhhhcccccccCCCCCcCcchhhh
Confidence 6689999999999999999999963
No 62
>KOG4672 consensus Uncharacterized conserved low complexity protein [Function unknown]
Probab=51.49 E-value=76 Score=36.32 Aligned_cols=19 Identities=16% Similarity=0.244 Sum_probs=7.9
Q ss_pred hhhhhhhHHHHhhccCCCC
Q 005338 443 EEEEEESEEEEESLGTASQ 461 (701)
Q Consensus 443 ~~~eee~e~~~~~~~~~~~ 461 (701)
.+++|+++++|+++...-+
T Consensus 278 ~~d~~dds~~eden~~~~~ 296 (487)
T KOG4672|consen 278 IPDNEDDSRPEDENASSFQ 296 (487)
T ss_pred CCccccccchhhhcccccc
Confidence 3344444444444444333
No 63
>KOG4594 consensus Sequence-specific single-stranded-DNA-binding protein [Replication, recombination and repair; Transcription; General function prediction only]
Probab=50.86 E-value=3.5e+02 Score=29.92 Aligned_cols=12 Identities=33% Similarity=0.899 Sum_probs=6.6
Q ss_pred CCCCCCCCCCCC
Q 005338 525 YGPRFSGDFTGP 536 (701)
Q Consensus 525 ~~~~~~g~f~g~ 536 (701)
|-..-+|.|.|+
T Consensus 225 ysssspgsy~~~ 236 (354)
T KOG4594|consen 225 YSSSSPGSYVGP 236 (354)
T ss_pred ccCCCCccccCC
Confidence 555556666444
No 64
>KOG0153 consensus Predicted RNA-binding protein (RRM superfamily) [General function prediction only]
Probab=50.53 E-value=9.3 Score=42.41 Aligned_cols=25 Identities=24% Similarity=0.822 Sum_probs=22.1
Q ss_pred ccccccccccCCCCCCCCCCCCCCC
Q 005338 74 RQTVCRHWLRSLCMKGDACGFLHQY 98 (701)
Q Consensus 74 Kt~VCrfFlrG~C~kGd~C~FaH~~ 98 (701)
+--||-||..|.|++|..|.|.|+.
T Consensus 160 ~p~Icsf~v~geckRG~ec~yrhEk 184 (377)
T KOG0153|consen 160 RPHICSFFVKGECKRGAECPYRHEK 184 (377)
T ss_pred CCccccceeeccccccccccccccC
Confidence 3468999999999999999999974
No 65
>COG1614 CdhC CO dehydrogenase/acetyl-CoA synthase beta subunit [Energy production and conversion]
Probab=49.38 E-value=12 Score=41.50 Aligned_cols=10 Identities=30% Similarity=0.179 Sum_probs=4.3
Q ss_pred HhcCCCCCCC
Q 005338 420 KAKGVNPDNG 429 (701)
Q Consensus 420 ~~~g~~~~~~ 429 (701)
+.+|...-..
T Consensus 391 k~~~HPvv~~ 400 (470)
T COG1614 391 KEKGHPVVER 400 (470)
T ss_pred HhcCCchhhh
Confidence 3444444333
No 66
>KOG2192 consensus PolyC-binding hnRNP-K protein HRB57A/hnRNP, contains KH domain [RNA processing and modification; General function prediction only]
Probab=45.95 E-value=40 Score=36.54 Aligned_cols=12 Identities=17% Similarity=0.354 Sum_probs=6.1
Q ss_pred ccHHHHHHHhcc
Q 005338 289 SNEAKLNEAFDS 300 (701)
Q Consensus 289 ~ne~kLn~AF~~ 300 (701)
+|.+.|..-|..
T Consensus 68 ~nik~lr~d~na 79 (390)
T KOG2192|consen 68 KNIKALRTDYNA 79 (390)
T ss_pred ccHHHHhhhccc
Confidence 455555555544
No 67
>KOG3168 consensus U1 snRNP component [Transcription]
Probab=43.44 E-value=1.3e+02 Score=30.51 Aligned_cols=27 Identities=15% Similarity=0.175 Sum_probs=14.4
Q ss_pred CchhhhhhHHHHHHHH-HHHhcCCCCCC
Q 005338 402 DSELMAISVAAEAKRE-EEKAKGVNPDN 428 (701)
Q Consensus 402 ~s~l~~~~~~~E~~~~-~~~~~g~~~~~ 428 (701)
.+++.+++-+++.-+. -|.-+.+.+..
T Consensus 28 ig~~~afDkhmNlvl~dceE~r~~k~k~ 55 (177)
T KOG3168|consen 28 IGQFKAFDKHMNLVLQDCEEFRKIKPKN 55 (177)
T ss_pred echhhhhHHHHHHHHHHHHHHhcccccc
Confidence 4577888877764332 23334444433
No 68
>KOG4032 consensus Uncharacterized conserved protein [Function unknown]
Probab=40.96 E-value=36 Score=34.89 Aligned_cols=27 Identities=33% Similarity=0.436 Sum_probs=13.5
Q ss_pred CCchhhhhhhHHHHhhccCCCCCCCCC
Q 005338 440 DNEEEEEEESEEEEESLGTASQGRGRG 466 (701)
Q Consensus 440 ~~~~~~eee~e~~~~~~~~~~~grg~~ 466 (701)
|+|+-++++++++.++.+.+.+|-+++
T Consensus 137 Ddedvd~~dd~evdae~~~~~~~~~~~ 163 (184)
T KOG4032|consen 137 DDEDVDEEDDEEVDAEDDEAPSGPVRM 163 (184)
T ss_pred cccccccchhhhhcccCCCCCCCCCCC
Confidence 333334444444444555666665554
No 69
>COG5180 PBP1 Protein interacting with poly(A)-binding protein [RNA processing and modification]
Probab=40.66 E-value=1.4e+02 Score=34.90 Aligned_cols=6 Identities=17% Similarity=-0.186 Sum_probs=2.3
Q ss_pred CCCCCC
Q 005338 477 LARGAR 482 (701)
Q Consensus 477 ~~~~~~ 482 (701)
+|-|||
T Consensus 522 ~~m~~P 527 (654)
T COG5180 522 GMMGFP 527 (654)
T ss_pred ceeecc
Confidence 333443
No 70
>KOG4761 consensus Proteasome formation inhibitor PI31 [Posttranslational modification, protein turnover, chaperones]
Probab=39.19 E-value=5.3e+02 Score=27.92 Aligned_cols=17 Identities=6% Similarity=0.151 Sum_probs=12.9
Q ss_pred EEEEeCCCCceeEEEEec
Q 005338 306 LIFSVNRTRHFQGCAKMT 323 (701)
Q Consensus 306 LfFSVN~Sg~FqG~ArM~ 323 (701)
+.|++..++ |++.+.=.
T Consensus 29 vH~~ltk~g-~~~~~~G~ 45 (266)
T KOG4761|consen 29 VHFLLTKHG-YRCTGVGD 45 (266)
T ss_pred hhHHHhhhe-eEEeeccC
Confidence 456888888 88887655
No 71
>KOG2202 consensus U2 snRNP splicing factor, small subunit, and related proteins [RNA processing and modification]
Probab=35.92 E-value=16 Score=39.06 Aligned_cols=26 Identities=27% Similarity=0.570 Sum_probs=23.3
Q ss_pred ccccccCccCCCCCCCCCCCCCCCCC
Q 005338 129 IKECNMYKLGFCPNGPDCRYRHVKLP 154 (701)
Q Consensus 129 ~~iC~~F~~G~C~~G~~Crf~H~~~p 154 (701)
..+|..|..+.|.+|..|.|.|++..
T Consensus 152 ea~C~~~e~~~C~rG~~CnFmH~k~~ 177 (260)
T KOG2202|consen 152 EAICGQFERTECSRGGACNFMHVKRL 177 (260)
T ss_pred hhhhcccccccCCCCCcCcchhhhhh
Confidence 35899999999999999999999853
No 72
>TIGR01628 PABP-1234 polyadenylate binding protein, human types 1, 2, 3, 4 family. There are four paralogs in Homo sapiens which are expressed in testis, platelets, broadly expressed, or of unknown tissue range.
Probab=33.35 E-value=2e+02 Score=33.34 Aligned_cols=30 Identities=23% Similarity=0.274 Sum_probs=14.8
Q ss_pred HHHHHHHhccCCcEE-EEEEeCCCCceeEEE
Q 005338 291 EAKLNEAFDSAENVI-LIFSVNRTRHFQGCA 320 (701)
Q Consensus 291 e~kLn~AF~~~~~V~-LfFSVN~Sg~FqG~A 320 (701)
+..|.+.|.....|. +.+....+++--|||
T Consensus 192 ee~L~~~F~~fG~i~~~~i~~~~~g~~~G~a 222 (562)
T TIGR01628 192 EDKLRELFAKFGEITSAAVMKDGSGRSRGFA 222 (562)
T ss_pred HHHHHHHHHhcCCEEEEEEEECCCCCcccEE
Confidence 456677776644432 223334455553433
No 73
>KOG1984 consensus Vesicle coat complex COPII, subunit SFB3 [Intracellular trafficking, secretion, and vesicular transport]
Probab=33.35 E-value=9e+02 Score=30.72 Aligned_cols=12 Identities=17% Similarity=0.116 Sum_probs=5.4
Q ss_pred CCCCCCCCCCCC
Q 005338 471 WPGPMPLARGAR 482 (701)
Q Consensus 471 ~~~~~p~~~~~~ 482 (701)
=|+.|+-+.++.
T Consensus 76 ~~p~~sq~~~~a 87 (1007)
T KOG1984|consen 76 PPPGVSQPNGFA 87 (1007)
T ss_pred CCCCCCcccccC
Confidence 334454444443
No 74
>COG5175 MOT2 Transcriptional repressor [Transcription]
Probab=30.69 E-value=29 Score=38.64 Aligned_cols=24 Identities=33% Similarity=0.838 Sum_probs=15.0
Q ss_pred cccccccccC-CCCCCCCCCCCCCCC
Q 005338 75 QTVCRHWLRS-LCMKGDACGFLHQYD 99 (701)
Q Consensus 75 t~VCrfFlrG-~C~kGd~C~FaH~~~ 99 (701)
|..|.+|||+ .|.+++ |-|+|...
T Consensus 202 TKYCtsYLRn~~CpNp~-CMyLHEpg 226 (480)
T COG5175 202 TKYCTSYLRNAVCPNPD-CMYLHEPG 226 (480)
T ss_pred hHHHHHHHcCCCCCCCC-eeeecCCC
Confidence 4567777774 466644 77777644
No 75
>PRK04019 rplP0 acidic ribosomal protein P0; Validated
Probab=30.20 E-value=18 Score=39.79 Aligned_cols=39 Identities=18% Similarity=0.304 Sum_probs=19.9
Q ss_pred cEEEEEeeCChhhHHHHHHcCeeeeccccHHHHHHHhccCCcEEEEEE
Q 005338 262 SRYFIVKSCNRENLELSVQQGVWATQRSNEAKLNEAFDSAENVILIFS 309 (701)
Q Consensus 262 aRFFIIKS~n~enI~~Sik~gVWaTt~~ne~kLn~AF~~~~~V~LfFS 309 (701)
++|||+|- .=+.+|++.--+ .+-..|.+.++. ++.|||+
T Consensus 49 ~~~~v~KN---tL~~~Al~~~~~----~~~~~L~~~l~G--~~alift 87 (330)
T PRK04019 49 AELKVSKN---TLIKRALEEAGE----EDLEKLEDYLEG--QVALIFT 87 (330)
T ss_pred CEEEEEeh---HHHHHHHHhcCc----ccHHHHHhhccC--CEEEEEE
Confidence 46666663 245566655332 223445554433 5666665
No 76
>KOG1308 consensus Hsp70-interacting protein Hip/Transient component of progesterone receptor complexes and an Hsp70-binding protein [Posttranslational modification, protein turnover, chaperones; Signal transduction mechanisms]
Probab=28.89 E-value=72 Score=35.88 Aligned_cols=18 Identities=11% Similarity=0.041 Sum_probs=8.3
Q ss_pred CCCCCCCCCCCCCCCCCC
Q 005338 557 FGGMMMGPGRPPFMGGMG 574 (701)
Q Consensus 557 ~g~~~~~~~~~~~~~gm~ 574 (701)
|.++.++++.+..+++||
T Consensus 303 m~~~~~n~~~~~~p~~~g 320 (377)
T KOG1308|consen 303 MKGFDGNSPVKQQPNQIG 320 (377)
T ss_pred cccCCCCCccccCCCccc
Confidence 443333444444555555
No 77
>TIGR03685 L21P_arch 50S ribosomal protein L12P. This model represents the L12P protein of the large (50S) subunit of the archaeal ribosome.
Probab=25.24 E-value=83 Score=29.45 Aligned_cols=18 Identities=22% Similarity=0.128 Sum_probs=10.2
Q ss_pred CCcccChHHHHHHHHHhh
Q 005338 381 DCQELEPSIGEQLAALLY 398 (701)
Q Consensus 381 DGQEIe~~~G~qL~~Lf~ 398 (701)
=|-+|+...-..|++.|.
T Consensus 29 AGv~ve~~~~~~la~~L~ 46 (105)
T TIGR03685 29 AGVEVDEARVKALVAALE 46 (105)
T ss_pred hCCcccHHHHHHHHHHHc
Confidence 345566666666666553
No 78
>COG1614 CdhC CO dehydrogenase/acetyl-CoA synthase beta subunit [Energy production and conversion]
Probab=24.50 E-value=57 Score=36.54 Aligned_cols=8 Identities=38% Similarity=0.468 Sum_probs=3.5
Q ss_pred CcceeeeE
Q 005338 346 RNFSVKWL 353 (701)
Q Consensus 346 g~F~VeWl 353 (701)
|--+|-|+
T Consensus 347 Gw~RvvW~ 354 (470)
T COG1614 347 GWERVVWL 354 (470)
T ss_pred CeeEEEEc
Confidence 33345553
No 79
>KOG3168 consensus U1 snRNP component [Transcription]
Probab=23.76 E-value=4e+02 Score=27.27 Aligned_cols=17 Identities=29% Similarity=0.288 Sum_probs=7.9
Q ss_pred CCCCCCCCCCCCCCCCC
Q 005338 567 PPFMGGMGPAATNPRGG 583 (701)
Q Consensus 567 ~~~~~gm~~~~~~~~~~ 583 (701)
++-++|++|++.+.+++
T Consensus 150 ~~~p~g~~~~~~~~~~~ 166 (177)
T KOG3168|consen 150 GNDPGGRPPPPPNGRAP 166 (177)
T ss_pred CCCCCCCCCCCCCCCCC
Confidence 34455555444444443
No 80
>PF03194 LUC7: LUC7 N_terminus; InterPro: IPR004882 This family consists of several LUC7 protein homologues that are restricted to eukaryotes. LUC7 has been shown to be a U1 snRNA associated protein [] with a role in splice site recognition []. The entry contains human and mouse LUC7 like (LUC7L) proteins [] and human cisplatin resistance-associated overexpressed protein (CROP) [].
Probab=22.88 E-value=25 Score=37.42 Aligned_cols=19 Identities=21% Similarity=0.460 Sum_probs=15.8
Q ss_pred CCCcccccccccccCCCCC
Q 005338 70 RRSFRQTVCRHWLRSLCMK 88 (701)
Q Consensus 70 ~~~~Kt~VCrfFlrG~C~k 88 (701)
..+....||+|||-|.|.+
T Consensus 25 ~~f~D~~VCk~~L~g~CPh 43 (254)
T PF03194_consen 25 VHFTDPDVCKYFLVGFCPH 43 (254)
T ss_pred CCCCCcccCHHHHhCCCcH
Confidence 3566678999999999987
No 81
>KOG0117 consensus Heterogeneous nuclear ribonucleoprotein R (RRM superfamily) [RNA processing and modification]
Probab=21.79 E-value=9.3e+02 Score=28.33 Aligned_cols=50 Identities=20% Similarity=0.095 Sum_probs=26.5
Q ss_pred eeeeEEeeecCccccccccCC----CCCCCccccCCCCcccChHHHHHHHHHhh
Q 005338 349 SVKWLKLCELSFHKTRHLRNP----YNENLPVKISRDCQELEPSIGEQLAALLY 398 (701)
Q Consensus 349 ~VeWl~v~~LpF~~~~HL~Np----~NenkPV~~sRDGQEIe~~~G~qL~~Lf~ 398 (701)
+|+-|+|+.|+...+..+.+. +-.-.-|++-||--=|.+.-=...++.+.
T Consensus 258 ~VKvLYVRNL~~~tTeE~lk~~F~~~G~veRVkk~rDYaFVHf~eR~davkAm~ 311 (506)
T KOG0117|consen 258 KVKVLYVRNLMESTTEETLKKLFNEFGKVERVKKPRDYAFVHFAEREDAVKAMK 311 (506)
T ss_pred heeeeeeeccchhhhHHHHHHHHHhccceEEeecccceeEEeecchHHHHHHHH
Confidence 466688888887766553332 22223355557755554443333344443
No 82
>PF12782 Innate_immun: Invertebrate innate immunity transcript family
Probab=21.23 E-value=2.3e+02 Score=29.90 Aligned_cols=17 Identities=41% Similarity=0.649 Sum_probs=11.6
Q ss_pred CCCCCCCCCCCCCCCCC
Q 005338 515 FGVAPRPFAPYGPRFSG 531 (701)
Q Consensus 515 ~g~~~~~~~p~~~~~~g 531 (701)
||--|++|+-++|++-|
T Consensus 42 ~~grpggm~mgg~rqdg 58 (311)
T PF12782_consen 42 FGGRPGGMQMGGPRQDG 58 (311)
T ss_pred cCCCCCcccCCCccccC
Confidence 34447788877877755
No 83
>PF06199 Phage_tail_2: Phage major tail protein 2; InterPro: IPR011855 This entry describes the major tail protein (MTP) of the Siphoviridae and MTP genes in prophage regions of bacterial genomes. Homologues are also found in Gene Transfer Agents (GTA) [], including ORFg9 (RCAP_rcc01691) of the GTA of Rhodobacter capsulatus (Rhodopseudomonas capsulata) [see Fig.1, in ].
Probab=21.04 E-value=1.8e+02 Score=27.08 Aligned_cols=44 Identities=23% Similarity=0.311 Sum_probs=36.7
Q ss_pred CeeeeccccHHHHHHHhccCCcEEEEEEeCCCCceeEEEEeccC
Q 005338 282 GVWATQRSNEAKLNEAFDSAENVILIFSVNRTRHFQGCAKMTSK 325 (701)
Q Consensus 282 gVWaTt~~ne~kLn~AF~~~~~V~LfFSVN~Sg~FqG~ArM~S~ 325 (701)
++|.........|.+||.....|.+-+.+...+.|.|.+.+++-
T Consensus 67 g~~~~~d~~~~~l~~a~~~~~~~~~~v~~~~~~~~~g~~~vts~ 110 (134)
T PF06199_consen 67 GLFDPDDASYDALEDAFDNGEPVEWRVTKPDGGKYEGKFFVTSL 110 (134)
T ss_pred EEEecCchHHHHHHHHHHCCCcEEEEEEECCCCEEEEEEEEEEC
Confidence 45665667778999999999888888888899999999998764
Done!