Query 014614
Match_columns 421
No_of_seqs 239 out of 405
Neff 5.8
Searched_HMMs 46136
Date Fri Mar 29 06:51:13 2013
Command hhsearch -i /work/01045/syshi/csienesis_hhblits_a3m/014614.a3m -d /work/01045/syshi/HHdatabase/Cdd.hhm -o /work/01045/syshi/hhsearch_cdd/014614hhsearch_cdd -cpu 12 -v 0
No Hit Prob E-value P-value Score SS Cols Query HMM Template HMM
1 KOG0796 Spliceosome subunit [R 100.0 3.6E-80 7.8E-85 603.9 17.8 237 1-322 1-239 (319)
2 PF03194 LUC7: LUC7 N_terminus 100.0 2.3E-74 5.1E-79 559.5 16.9 235 1-316 1-237 (254)
3 COG5200 LUC7 U1 snRNP componen 100.0 2E-51 4.4E-56 379.1 11.7 233 2-319 3-235 (258)
4 KOG0796 Spliceosome subunit [R 99.8 7.6E-20 1.7E-24 180.0 15.5 121 26-165 35-162 (319)
5 PF03194 LUC7: LUC7 N_terminus 99.6 1.3E-15 2.9E-20 148.5 7.4 130 26-172 34-170 (254)
6 KOG4676 Splicing factor, argin 97.7 1.3E-05 2.7E-10 81.7 1.9 9 43-51 68-76 (479)
7 KOG4676 Splicing factor, argin 97.6 2.2E-05 4.7E-10 80.0 1.2 9 295-303 215-223 (479)
8 COG5200 LUC7 U1 snRNP componen 97.5 0.0002 4.4E-09 67.8 5.7 125 26-170 35-166 (258)
9 KOG2888 Putative RNA binding p 96.6 0.00077 1.7E-08 67.7 1.0 8 209-216 226-233 (453)
10 KOG2888 Putative RNA binding p 96.5 0.0011 2.3E-08 66.7 1.4 7 208-214 229-235 (453)
11 KOG0151 Predicted splicing reg 96.3 0.0028 6.1E-08 69.1 3.5 8 4-11 432-439 (877)
12 KOG4368 Predicted RNA binding 96.2 0.0081 1.8E-07 64.3 6.1 15 86-100 166-180 (757)
13 KOG4368 Predicted RNA binding 95.7 0.0092 2E-07 63.9 4.0 10 156-165 259-268 (757)
14 KOG0835 Cyclin L [General func 93.8 0.24 5.1E-06 50.3 8.0 20 299-318 235-254 (367)
15 KOG2548 SWAP mRNA splicing reg 93.1 0.031 6.8E-07 59.3 0.5 12 231-242 242-253 (653)
16 KOG1847 mRNA splicing factor [ 91.5 0.26 5.6E-06 53.8 5.1 7 293-299 692-698 (878)
17 KOG0113 U1 small nuclear ribon 90.9 0.26 5.7E-06 49.4 4.0 9 287-295 190-198 (335)
18 KOG0835 Cyclin L [General func 90.4 0.41 9E-06 48.6 5.0 34 209-243 215-248 (367)
19 TIGR02302 aProt_lowcomp conser 84.0 7.2 0.00016 44.8 10.6 33 209-241 567-599 (851)
20 PF13779 DUF4175: Domain of un 80.2 12 0.00025 43.1 10.5 34 209-242 537-570 (820)
21 PF12171 zf-C2H2_jaz: Zinc-fin 79.8 0.87 1.9E-05 29.1 0.9 25 270-297 2-26 (27)
22 smart00451 ZnF_U1 U1-like zinc 78.7 0.91 2E-05 30.3 0.7 28 270-300 4-31 (35)
23 PF12874 zf-met: Zinc-finger o 78.1 0.83 1.8E-05 28.2 0.4 24 271-297 2-25 (25)
24 KOG0415 Predicted peptidyl pro 72.2 1.8 3.8E-05 44.7 1.1 14 29-42 21-41 (479)
25 KOG0132 RNA polymerase II C-te 68.9 5.6 0.00012 44.8 4.1 12 133-144 127-138 (894)
26 COG5136 U1 snRNP-specific prot 65.9 5.3 0.00011 36.9 2.7 46 270-316 4-55 (188)
27 KOG4207 Predicted splicing fac 65.6 12 0.00025 36.3 5.0 9 220-228 35-43 (256)
28 KOG3454 U1 snRNP-specific prot 64.0 7.2 0.00016 36.1 3.2 29 270-299 4-32 (165)
29 PF06220 zf-U1: U1 zinc finger 61.8 3.6 7.9E-05 28.9 0.7 32 269-301 3-34 (38)
30 COG3783 CybC Soluble cytochrom 60.0 36 0.00079 28.9 6.4 28 216-243 66-93 (100)
31 PF11931 DUF3449: Domain of un 59.6 3 6.5E-05 39.7 0.0 28 268-298 100-128 (196)
32 KOG0415 Predicted peptidyl pro 58.5 3.9 8.4E-05 42.2 0.5 15 148-162 127-141 (479)
33 PLN03229 acetyl-coenzyme A car 58.4 82 0.0018 35.8 10.7 98 61-167 573-682 (762)
34 KOG4246 Predicted DNA-binding 56.1 7.6 0.00016 44.1 2.3 12 145-156 158-169 (1194)
35 KOG4246 Predicted DNA-binding 55.6 6.1 0.00013 44.8 1.5 13 222-234 157-169 (1194)
36 KOG4080 Mitochondrial ribosoma 55.5 7.7 0.00017 36.0 1.9 35 269-307 93-127 (176)
37 PF04012 PspA_IM30: PspA/IM30 53.2 2E+02 0.0044 27.1 12.3 79 85-171 26-104 (221)
38 PRK15058 cytochrome b562; Prov 52.5 23 0.0005 31.6 4.3 28 216-243 94-121 (128)
39 PF00642 zf-CCCH: Zinc finger 51.4 8.5 0.00018 24.7 1.1 16 29-44 2-18 (27)
40 COG1579 Zn-ribbon protein, pos 50.9 1.9E+02 0.0042 28.4 10.9 22 152-173 111-132 (239)
41 PF07361 Cytochrom_B562: Cytoc 49.5 24 0.00051 30.1 3.8 28 216-243 69-96 (103)
42 PF11781 RRN7: RNA polymerase 49.4 5.7 0.00012 27.6 0.0 26 270-295 9-34 (36)
43 KOG2146 Splicing coactivator S 48.0 47 0.001 33.6 6.1 7 222-228 57-63 (354)
44 PRK09720 cybC cytochrome b562; 47.8 32 0.0007 29.4 4.3 28 216-243 66-93 (100)
45 COG1675 TFA1 Transcription ini 47.3 16 0.00035 34.3 2.7 38 269-318 132-169 (176)
46 PRK10564 maltose regulon perip 46.9 42 0.00091 34.2 5.7 28 217-244 262-289 (303)
47 KOG0132 RNA polymerase II C-te 46.3 19 0.0004 40.8 3.4 13 222-234 191-203 (894)
48 PF06160 EzrA: Septation ring 46.1 4.4E+02 0.0096 28.9 15.5 32 210-241 171-202 (560)
49 PF12325 TMF_TATA_bd: TATA ele 45.5 2.1E+02 0.0046 25.1 10.9 68 81-172 15-82 (120)
50 KOG1049 Polyadenylation factor 45.1 17 0.00037 39.4 2.8 15 77-91 181-196 (538)
51 PF15070 GOLGA2L5: Putative go 42.9 1.4E+02 0.0031 33.4 9.6 50 268-317 166-221 (617)
52 KOG0717 Molecular chaperone (D 40.7 5.1E+02 0.011 28.2 14.8 27 270-299 293-319 (508)
53 PF06248 Zw10: Centromere/kine 40.6 5.3E+02 0.012 28.3 15.3 32 210-241 106-137 (593)
54 smart00356 ZnF_C3H1 zinc finge 40.2 13 0.00027 23.1 0.6 14 30-43 4-17 (27)
55 PF09862 DUF2089: Protein of u 39.2 19 0.0004 31.5 1.7 20 297-316 60-79 (113)
56 cd02681 MIT_calpain7_1 MIT: do 39.0 1.1E+02 0.0024 24.7 6.0 61 136-224 8-69 (76)
57 COG1592 Rubrerythrin [Energy p 38.8 12 0.00027 34.7 0.6 26 269-295 134-161 (166)
58 PRK04778 septation ring format 38.4 5.7E+02 0.012 28.1 14.8 93 127-241 114-206 (569)
59 PRK03918 chromosome segregatio 37.1 6.1E+02 0.013 28.9 13.9 12 60-71 449-460 (880)
60 PLN00204 CP12 gene family prot 36.9 45 0.00098 29.6 3.7 44 205-248 54-98 (126)
61 KOG2801 Probable Rab-GAPs [Int 36.1 12 0.00026 37.9 -0.0 22 272-296 401-422 (559)
62 PRK06266 transcription initiat 35.6 32 0.00069 32.2 2.8 34 270-315 137-170 (178)
63 KOG0107 Alternative splicing f 35.2 51 0.0011 31.2 3.9 12 289-300 103-114 (195)
64 COG2178 Predicted RNA-binding 34.1 3E+02 0.0064 26.6 8.9 40 206-245 115-154 (204)
65 cd02682 MIT_AAA_Arch MIT: doma 34.0 1.7E+02 0.0037 23.7 6.3 62 136-225 8-69 (75)
66 COG2260 Predicted Zn-ribbon RN 32.4 32 0.00069 26.7 1.8 37 268-309 4-50 (59)
67 KOG0996 Structural maintenance 31.5 9.4E+02 0.02 29.2 13.9 26 125-150 858-883 (1293)
68 PRK01156 chromosome segregatio 31.2 6.2E+02 0.013 29.1 12.8 12 271-282 451-462 (895)
69 KOG2202 U2 snRNP splicing fact 30.8 2.3E+02 0.0049 28.3 7.8 208 152-390 25-257 (260)
70 PF14282 FlxA: FlxA-like prote 30.6 1E+02 0.0022 26.2 4.9 51 124-174 18-74 (106)
71 KOG2416 Acinus (induces apopto 30.1 20 0.00043 39.5 0.5 12 220-231 463-475 (718)
72 COG2093 DNA-directed RNA polym 29.8 20 0.00044 28.1 0.4 26 269-294 18-53 (64)
73 PF12854 PPR_1: PPR repeat 29.7 54 0.0012 21.8 2.4 18 220-237 15-32 (34)
74 PF08792 A2L_zn_ribbon: A2L zi 29.7 17 0.00036 24.8 -0.1 20 269-288 3-23 (33)
75 PF02132 RecR: RecR protein; 29.3 38 0.00083 23.9 1.7 10 269-278 17-26 (41)
76 PF10979 DUF2786: Protein of u 28.6 1.3E+02 0.0027 21.7 4.3 34 208-243 3-36 (43)
77 PF13894 zf-C2H2_4: C2H2-type 27.7 21 0.00045 20.8 0.1 19 271-292 2-20 (24)
78 KOG0996 Structural maintenance 26.9 8.7E+02 0.019 29.5 12.6 19 208-226 863-881 (1293)
79 PRK06424 transcription factor; 26.9 23 0.0005 32.1 0.2 22 272-293 3-30 (144)
80 PF13248 zf-ribbon_3: zinc-rib 26.9 26 0.00055 22.3 0.4 23 270-295 3-25 (26)
81 PF05191 ADK_lid: Adenylate ki 26.7 25 0.00054 24.4 0.3 14 267-280 19-32 (36)
82 PF06397 Desulfoferrod_N: Desu 26.6 18 0.00039 25.3 -0.4 16 268-283 5-20 (36)
83 PF09237 GAGA: GAGA factor; I 26.6 18 0.00038 27.5 -0.5 18 270-287 25-42 (54)
84 KOG4727 U1-like Zn-finger prot 26.4 57 0.0012 30.6 2.7 32 265-299 71-102 (193)
85 PRK06835 DNA replication prote 26.1 2.7E+02 0.0058 28.5 7.8 45 203-247 36-83 (329)
86 PRK14151 heat shock protein Gr 25.7 1.3E+02 0.0028 28.2 4.9 91 201-310 18-114 (176)
87 PHA02562 46 endonuclease subun 25.0 8.7E+02 0.019 26.0 14.7 14 269-282 284-297 (562)
88 COG3809 Uncharacterized protei 24.9 25 0.00055 28.9 0.1 14 269-282 1-14 (88)
89 PRK02224 chromosome segregatio 24.6 1.1E+03 0.024 27.0 15.2 11 270-280 452-462 (880)
90 PF07967 zf-C3HC: C3HC zinc fi 24.3 28 0.00061 30.6 0.3 17 266-282 40-56 (133)
91 KOG4602 Nanos and related prot 24.1 27 0.00058 34.7 0.1 13 270-285 269-281 (318)
92 PF05741 zf-nanos: Nanos RNA b 23.3 31 0.00068 26.3 0.3 9 269-277 33-41 (55)
93 PF14559 TPR_19: Tetratricopep 23.2 99 0.0021 22.7 3.1 26 215-240 28-53 (68)
94 PF07535 zf-DBF: DBF zinc fing 22.9 50 0.0011 24.6 1.3 42 268-315 4-45 (49)
95 TIGR03826 YvyF flagellar opero 22.8 44 0.00095 30.1 1.2 29 270-302 82-110 (137)
96 PF04032 Rpr2: RNAse P Rpr2/Rp 22.5 2.1E+02 0.0046 22.5 5.2 60 211-284 2-61 (85)
97 KOG0250 DNA repair protein RAD 22.5 1.3E+03 0.028 27.7 13.0 21 124-144 733-753 (1074)
98 PF13424 TPR_12: Tetratricopep 22.3 3.4E+02 0.0075 20.3 6.5 31 212-242 46-76 (78)
99 PF10367 Vps39_2: Vacuolar sor 22.1 1.5E+02 0.0033 24.1 4.3 12 270-281 79-90 (109)
100 KOG0977 Nuclear envelope prote 21.6 6.1E+02 0.013 28.1 9.7 29 77-105 241-269 (546)
101 PF10650 zf-C3H1: Putative zin 21.4 43 0.00093 21.2 0.6 10 32-41 2-12 (23)
102 KOG1902 Putative signal transd 21.3 47 0.001 34.4 1.2 10 129-138 195-204 (441)
103 PF04423 Rad50_zn_hook: Rad50 21.2 26 0.00056 26.0 -0.5 10 271-280 22-31 (54)
104 KOG4765 Uncharacterized conser 21.2 59 0.0013 34.1 1.9 44 266-319 87-130 (419)
105 TIGR03826 YvyF flagellar opero 20.9 63 0.0014 29.1 1.8 40 269-310 3-42 (137)
106 cd07973 Spt4 Transcription elo 20.7 38 0.00083 28.8 0.4 27 270-296 21-51 (98)
107 cd00729 rubredoxin_SM Rubredox 20.4 36 0.00077 23.2 0.1 9 269-277 18-26 (34)
108 smart00746 TRASH metallochaper 20.3 28 0.00061 21.6 -0.4 10 272-281 1-10 (39)
109 smart00745 MIT Microtubule Int 20.1 3.2E+02 0.0069 21.2 5.6 25 136-160 10-34 (77)
No 1
>KOG0796 consensus Spliceosome subunit [RNA processing and modification]
Probab=100.00 E-value=3.6e-80 Score=603.85 Aligned_cols=237 Identities=49% Similarity=0.814 Sum_probs=199.9
Q ss_pred ChH-HHHHHHHhcCCCCCCCcccccCCCCCCCCcchhccCCCcchhhHhhhhcCCCCCccccHHHHHHHHHHhhcCccch
Q 014614 1 MDA-MRKQLDVLMGANRNGDVREVNRKYYDRDVCRLYLAGLCPHELFQLTKMDMGPCPKVHSLQLRKEYEEAKAKGVDNY 79 (421)
Q Consensus 1 md~-~R~~LDeLMG~~Rn~~~~~~~~~~~D~~VCk~~L~G~CPhdLF~nTK~DlG~C~k~Hde~lk~~YE~~~~k~~~~Y 79 (421)
|++ ||+|||||||++||++++.+.++|+||+||++|||||||||||+|||+|+|+||++|+++||+.|+.+++.+.++|
T Consensus 1 Msa~mR~mLdqLMGs~r~~~~~~~~v~~~D~~VC~~fLvg~CPHDlF~nTk~dlg~C~kvHd~~lk~~Ye~~~k~~~~~~ 80 (319)
T KOG0796|consen 1 MSAQMRAMLDQLMGSNRDGDETRQRVKFDDPDVCKSFLVGFCPHDLFQNTKMDLGPCPKVHDEALKADYERASKERDYGY 80 (319)
T ss_pred CchHHHHHHHHHhCCCcCCCcccCCCCCCchhHHHHHHhCCCcHHHhhhhhcccCcccchhhHHHHHHHhhchHhhhhhh
Confidence 777 9999999999999999988889999999999999999999999999999999999999999999999999999999
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHhhhhhhhhHHHHHHhhccccccchHHHHHHHHHHHHHhhhhcccccCCcHHHHHHHHH
Q 014614 80 DRELEDAIDRLIVECDRKIGRALKRLEDDDAKAAIAISVSEVTQTPEVLELSKQIKEKLKETDQYDYEGKTDLKIRALEV 159 (421)
Q Consensus 80 e~e~~~~l~r~I~~~drrI~r~~~rLe~~~~~~~~~~~~~e~~~~eei~~l~~~I~~ll~e~E~lg~eG~vdea~~l~e~ 159 (421)
|.+|+.+|+++|.+|+++|++++++|..++. +.. +++..-.++
T Consensus 81 E~d~~~~l~~~v~d~~rri~~~kerL~e~~e---------------e~~----------------------~e~~~k~~~ 123 (319)
T KOG0796|consen 81 EWDALEILERFVADVDRRIEKAKERLAETVE---------------ERS----------------------EEAARKAEK 123 (319)
T ss_pred hHHHHHHHHHHHHHHHHHHHHHHHHHHhhhh---------------hhh----------------------hHHHHHHHH
Confidence 9999999999999999999999999976411 000 000000111
Q ss_pred HHHHHHHHHHHHHHHHHHhhhcccCCCCCCCCCCCCCCCCCCCCCchhhHHHHHHHHHHHHhhhhcCChHHHHHHHHHHH
Q 014614 160 VEELRTKRADKQSMLLLDAFNKDRASLPQPLPNPPPLAPLPIPAPDARTQEMINEKLKKAEDLGEQGMVDEAQKALEEAE 239 (421)
Q Consensus 160 veeLk~ek~~~q~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~I~~~l~~aE~LGeeG~VdeAqk~~~eve 239 (421)
|. .|+++|+.+|++||+||++|+|++||++|.+||
T Consensus 124 v~---------------------------------------------~l~e~I~~~l~~~E~LG~eG~Veeaq~~~~e~E 158 (319)
T KOG0796|consen 124 VH---------------------------------------------ELEEKIGKLLEKAEELGEEGNVEEAQKAMKEVE 158 (319)
T ss_pred HH---------------------------------------------HHHHHHHHHHHHHHHHhhcCCHHHHHHHHHHHH
Confidence 11 146899999999999999999999999999999
Q ss_pred Hhhc-cccccCCcccCCcccccccccccccchhhhcccccccccCchhhhhhhhhhhhhhcHHHHHHHHHHHHHHHhhhc
Q 014614 240 ALKK-LPARQEPTLDSSKYTAADVRITDQKLRVCDICGAFLSVYDSDRRLADHFGGKLHLGYMQIRDKLAELQEERNKKH 318 (421)
Q Consensus 240 ~lk~-~~~~~e~~~~~~~~~~~~~~~~~qkl~VCeVCGA~Ls~~D~d~Rl~dH~~GK~H~Gy~~iR~~l~eL~e~~~~~~ 318 (421)
.|++ .+...+. ....+.+...+++|||+||+||||||+++|+++||+|||+||||+||++||++|.+|++.+...+
T Consensus 159 ~lk~~e~e~~~~---~~~~~~~~~~~~~qkl~VCeVCGa~L~~~D~d~RlaDHf~GKlHlGy~~iR~~l~eLk~~~~~~~ 235 (319)
T KOG0796|consen 159 ELKAKEKEEAEE---SYNTTMPGASAQQQKLRVCEVCGAFLSVNDADRRLADHFGGKLHLGYVLIREKLAELKKEKAKRR 235 (319)
T ss_pred HHHHHHHHHHHH---HHccCcchhhhhhhhhhHHHhhhHHHhccchHHHHHHhhcchHHHHHHHHHHHHHHHHHHHhHHH
Confidence 9997 2222111 11122233456899999999999999999999999999999999999999999999999998876
Q ss_pred cccc
Q 014614 319 KDRC 322 (421)
Q Consensus 319 k~r~ 322 (421)
+.+.
T Consensus 236 ~er~ 239 (319)
T KOG0796|consen 236 KERL 239 (319)
T ss_pred HHHH
Confidence 5543
No 2
>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=100.00 E-value=2.3e-74 Score=559.51 Aligned_cols=235 Identities=50% Similarity=0.824 Sum_probs=199.5
Q ss_pred ChHHHHHHHHhcCCCCCCCcccccCCCCCCCCcchhccCCCcchhhHhhhhcCCCCCccccHHHHHHHHHHhhcCccc-h
Q 014614 1 MDAMRKQLDVLMGANRNGDVREVNRKYYDRDVCRLYLAGLCPHELFQLTKMDMGPCPKVHSLQLRKEYEEAKAKGVDN-Y 79 (421)
Q Consensus 1 md~~R~~LDeLMG~~Rn~~~~~~~~~~~D~~VCk~~L~G~CPhdLF~nTK~DlG~C~k~Hde~lk~~YE~~~~k~~~~-Y 79 (421)
||+||+|||||||++||+++....++|+||+||+||||||||||||+|||+|||||||+|++.||++|+++++++.++ |
T Consensus 1 md~~Ra~LdeLMG~~Rn~~~~~~~~~f~D~~VCk~~L~g~CPhdLF~nTK~DLG~C~kiHd~~lk~~Ye~~~~~~~~~~Y 80 (254)
T PF03194_consen 1 MDEMRAMLDELMGSNRNGDPSKRKVHFTDPDVCKYFLVGFCPHDLFVNTKSDLGPCPKIHDEALKAEYEKASKKEKYGGY 80 (254)
T ss_pred CHHHHHHHHHHcCCccCCCccccCCCCCCcccCHHHHhCCCcHHHHhhcccccchhhhhcCHHHHHHHHhCccccccchh
Confidence 899999999999999999988878999999999999999999999999999999999999999999999998777776 9
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHhhhhhhhhHHHHHHhhccccccchHHHHHHHHHHHHHhhhhcccccCCcHHHHHHHHH
Q 014614 80 DRELEDAIDRLIVECDRKIGRALKRLEDDDAKAAIAISVSEVTQTPEVLELSKQIKEKLKETDQYDYEGKTDLKIRALEV 159 (421)
Q Consensus 80 e~e~~~~l~r~I~~~drrI~r~~~rLe~~~~~~~~~~~~~e~~~~eei~~l~~~I~~ll~e~E~lg~eG~vdea~~l~e~ 159 (421)
|.+|+.+|+++|.+||++|+++++||+.++...+ .. .. . ...+.
T Consensus 81 E~e~~~~L~~~i~d~drrI~~~k~RL~~~~~~~~---------~~---~~--~----------------------~~~~~ 124 (254)
T PF03194_consen 81 EREFLRYLQRLIRDCDRRIERAKERLEQTQEEQA---------KE---AD--E----------------------EKAEK 124 (254)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHhCccccc---------cc---hh--h----------------------hHHHH
Confidence 9999999999999999999999999987532110 00 00 0 00111
Q ss_pred HHHHHHHHHHHHHHHHHHhhhcccCCCCCCCCCCCCCCCCCCCCCchhhHHHHHHHHHHHHhhhhcCChHHHHHHHHHHH
Q 014614 160 VEELRTKRADKQSMLLLDAFNKDRASLPQPLPNPPPLAPLPIPAPDARTQEMINEKLKKAEDLGEQGMVDEAQKALEEAE 239 (421)
Q Consensus 160 veeLk~ek~~~q~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~I~~~l~~aE~LGeeG~VdeAqk~~~eve 239 (421)
+..|+++|+++|++||+||++|+||+|+++|++|+
T Consensus 125 ---------------------------------------------i~~l~~~I~~ll~~aE~LGeeG~VdeA~~~~~~~e 159 (254)
T PF03194_consen 125 ---------------------------------------------IDELDEKIGELLKEAEELGEEGDVDEAQKLMEEVE 159 (254)
T ss_pred ---------------------------------------------HHHHHHHHHHHHHHHHHHHHCCCHHHHHHHHHHHH
Confidence 12247889999999999999999999999999999
Q ss_pred HhhccccccCCcccCCcccc-cccccccccchhhhcccccccccCchhhhhhhhhhhhhhcHHHHHHHHHHHHHHHhh
Q 014614 240 ALKKLPARQEPTLDSSKYTA-ADVRITDQKLRVCDICGAFLSVYDSDRRLADHFGGKLHLGYMQIRDKLAELQEERNK 316 (421)
Q Consensus 240 ~lk~~~~~~e~~~~~~~~~~-~~~~~~~qkl~VCeVCGA~Ls~~D~d~Rl~dH~~GK~H~Gy~~iR~~l~eL~e~~~~ 316 (421)
.|+.++.+++........+. ....+++|+|+||+|||||||++|+++||+|||+||||+||++||++|++|++.+.+
T Consensus 160 ~Lk~ek~~le~~~~~~~~~~~~~~~~~~qkl~VCeVCGA~Ls~~D~d~RladH~~GK~HlGy~~IR~~l~el~e~~~~ 237 (254)
T PF03194_consen 160 KLKEEKEELEKELEEYRNSIENSAQSQQQKLEVCEVCGAFLSVGDNDRRLADHFGGKQHLGYAKIREKLKELKEKREE 237 (254)
T ss_pred HHHHHHHHHHhhhhhhhhhhhhhhcccccCccchhhhhhHHhccchHHHHHHHhccchhhhHHHHHHHHHHHHHHHHH
Confidence 99998877765221111111 112357899999999999999999999999999999999999999999999999987
No 3
>COG5200 LUC7 U1 snRNP component, mediates U1 snRNP association with cap-binding complex [RNA processing and modification]
Probab=100.00 E-value=2e-51 Score=379.09 Aligned_cols=233 Identities=33% Similarity=0.526 Sum_probs=184.6
Q ss_pred hHHHHHHHHhcCCCCCCCcccccCCCCCCCCcchhccCCCcchhhHhhhhcCCCCCccccHHHHHHHHHHhhcCccchHH
Q 014614 2 DAMRKQLDVLMGANRNGDVREVNRKYYDRDVCRLYLAGLCPHELFQLTKMDMGPCPKVHSLQLRKEYEEAKAKGVDNYDR 81 (421)
Q Consensus 2 d~~R~~LDeLMG~~Rn~~~~~~~~~~~D~~VCk~~L~G~CPhdLF~nTK~DlG~C~k~Hde~lk~~YE~~~~k~~~~Ye~ 81 (421)
+.+|++|+||||+++..-.+..-.+|+|++||++||||+||||||.|||++||+||++|.+++|.+||.....+..+||-
T Consensus 3 aeqRkv~eqLmG~~~s~f~~~r~~hftd~kvC~s~Lvg~CP~dlF~nTk~slGkCp~~H~~k~K~~YeR~~~~~~~~yEw 82 (258)
T COG5200 3 AEQRKVLEQLMGPERSTFDPCRPTHFTDKKVCISMLVGFCPFDLFRNTKRSLGKCPTSHEEKYKAEYERNGRERAEEYEW 82 (258)
T ss_pred hHHHHHHHHHhCCCcccCCCCCCccccchHHHHHHHHccCcHHHHhccccccCCCcchhHHHHHHHHhhhhhccchhhhH
Confidence 78999999999999864333445689999999999999999999999999999999999999999999998888899999
Q ss_pred HHHHHHHHHHHHHHHHHHHHhhhhhhhhHHHHHHhhccccccchHHHHHHHHHHHHHhhhhcccccCCcHHHHHHHHHHH
Q 014614 82 ELEDAIDRLIVECDRKIGRALKRLEDDDAKAAIAISVSEVTQTPEVLELSKQIKEKLKETDQYDYEGKTDLKIRALEVVE 161 (421)
Q Consensus 82 e~~~~l~r~I~~~drrI~r~~~rLe~~~~~~~~~~~~~e~~~~eei~~l~~~I~~ll~e~E~lg~eG~vdea~~l~e~ve 161 (421)
+|+..|.+++.+|..+|..+..++..++ + ...+|++++..+. .
T Consensus 83 eyl~~L~r~V~~cn~~I~~a~~~~~~t~----------------e---e~~kI~e~~e~~~----------------~-- 125 (258)
T COG5200 83 EYLRLLVRIVLSCNDGIRAAGLEDRTTP----------------E---EFGKIKEKEELFN----------------R-- 125 (258)
T ss_pred HHHHHHHHHHHHhcchhhhhhhhccCCH----------------H---HHHhHHHHHHHHH----------------H--
Confidence 9999999999999999998876665432 1 1235544432211 0
Q ss_pred HHHHHHHHHHHHHHHHhhhcccCCCCCCCCCCCCCCCCCCCCCchhhHHHHHHHHHHHHhhhhcCChHHHHHHHHHHHHh
Q 014614 162 ELRTKRADKQSMLLLDAFNKDRASLPQPLPNPPPLAPLPIPAPDARTQEMINEKLKKAEDLGEQGMVDEAQKALEEAEAL 241 (421)
Q Consensus 162 eLk~ek~~~q~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~I~~~l~~aE~LGeeG~VdeAqk~~~eve~l 241 (421)
+.+.|.++..+.+.|...-.|+-|.+...+++.|
T Consensus 126 ----------------------------------------------~d~sIg~lg~e~dalakrk~V~~a~~~f~el~rl 159 (258)
T COG5200 126 ----------------------------------------------VDESIGELGMEGDALAKRKLVERACSAFNELERL 159 (258)
T ss_pred ----------------------------------------------HHHHHHHHHHhHHHHHHHHHHHHHHHHHHHHHHH
Confidence 1233444434444444455589999999999999
Q ss_pred hccccccCCcccCCcccccccccccccchhhhcccccccccCchhhhhhhhhhhhhhcHHHHHHHHHHHHHHHhhhcc
Q 014614 242 KKLPARQEPTLDSSKYTAADVRITDQKLRVCDICGAFLSVYDSDRRLADHFGGKLHLGYMQIRDKLAELQEERNKKHK 319 (421)
Q Consensus 242 k~~~~~~e~~~~~~~~~~~~~~~~~qkl~VCeVCGA~Ls~~D~d~Rl~dH~~GK~H~Gy~~iR~~l~eL~e~~~~~~k 319 (421)
+.+.+++-+... .|+.++.++++|||+||+|||||||..|+|+||+|||.||+|+||+.+|..|..|-+++...++
T Consensus 160 ~~~rkei~~~v~--sm~en~gq~thqklqvC~iCgayLsrlDtdrrladHf~GklHlGy~~~R~dl~~llk~~~~sr~ 235 (258)
T COG5200 160 REERKEIKEAVY--SMVENNGQGTHQKLQVCGICGAYLSRLDTDRRLADHFNGKLHLGYLLVRSDLADLLKKFGISRV 235 (258)
T ss_pred HHHHHHHHHHHH--HHhhCcchhhhhhhhhhhhhhhHHHhcchhhHHHHHhccchhhhHHHHHHHHHHHHHHhccchh
Confidence 877665533221 1333445668999999999999999999999999999999999999999999998888766663
No 4
>KOG0796 consensus Spliceosome subunit [RNA processing and modification]
Probab=99.83 E-value=7.6e-20 Score=180.03 Aligned_cols=121 Identities=23% Similarity=0.332 Sum_probs=102.3
Q ss_pred CCCCCCCcchhcc-------CCCcchhhHhhhhcCCCCCccccHHHHHHHHHHhhcCccchHHHHHHHHHHHHHHHHHHH
Q 014614 26 KYYDRDVCRLYLA-------GLCPHELFQLTKMDMGPCPKVHSLQLRKEYEEAKAKGVDNYDRELEDAIDRLIVECDRKI 98 (421)
Q Consensus 26 ~~~D~~VCk~~L~-------G~CPhdLF~nTK~DlG~C~k~Hde~lk~~YE~~~~k~~~~Ye~e~~~~l~r~I~~~drrI 98 (421)
.||..+||||.|| |+||-.+-.|.|.+|..|++-+ +..||.. ++.|+..|+.+|++.|..+..++
T Consensus 35 ~~fLvg~CPHDlF~nTk~dlg~C~kvHd~~lk~~Ye~~~k~~----~~~~E~d----~~~~l~~~v~d~~rri~~~kerL 106 (319)
T KOG0796|consen 35 KSFLVGFCPHDLFQNTKMDLGPCPKVHDEALKADYERASKER----DYGYEWD----ALEILERFVADVDRRIEKAKERL 106 (319)
T ss_pred HHHHhCCCcHHHhhhhhcccCcccchhhHHHHHHHhhchHhh----hhhhhHH----HHHHHHHHHHHHHHHHHHHHHHH
Confidence 6899999999999 9999666669999999997655 3456655 67899999999999999999999
Q ss_pred HHHhhhhhhhhHHHHHHhhccccccchHHHHHHHHHHHHHhhhhcccccCCcHHHHHHHHHHHHHHH
Q 014614 99 GRALKRLEDDDAKAAIAISVSEVTQTPEVLELSKQIKEKLKETDQYDYEGKTDLKIRALEVVEELRT 165 (421)
Q Consensus 99 ~r~~~rLe~~~~~~~~~~~~~e~~~~eei~~l~~~I~~ll~e~E~lg~eG~vdea~~l~e~veeLk~ 165 (421)
....+.+... ++ .++++|..|+++|+++|.+||+||.+|+|++|+.+|..||+|++
T Consensus 107 ~e~~ee~~~e---~~--------~k~~~v~~l~e~I~~~l~~~E~LG~eG~Veeaq~~~~e~E~lk~ 162 (319)
T KOG0796|consen 107 AETVEERSEE---AA--------RKAEKVHELEEKIGKLLEKAEELGEEGNVEEAQKAMKEVEELKA 162 (319)
T ss_pred HhhhhhhhhH---HH--------HHHHHHHHHHHHHHHHHHHHHHHhhcCCHHHHHHHHHHHHHHHH
Confidence 8874433321 11 12578999999999999999999999999999999999999987
No 5
>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=99.60 E-value=1.3e-15 Score=148.53 Aligned_cols=130 Identities=23% Similarity=0.359 Sum_probs=110.3
Q ss_pred CCCCCCCcchhcc-------CCCcchhhHhhhhcCCCCCccccHHHHHHHHHHhhcCccchHHHHHHHHHHHHHHHHHHH
Q 014614 26 KYYDRDVCRLYLA-------GLCPHELFQLTKMDMGPCPKVHSLQLRKEYEEAKAKGVDNYDRELEDAIDRLIVECDRKI 98 (421)
Q Consensus 26 ~~~D~~VCk~~L~-------G~CPhdLF~nTK~DlG~C~k~Hde~lk~~YE~~~~k~~~~Ye~e~~~~l~r~I~~~drrI 98 (421)
+||..+||||.|| |.||.-+-.+.|.+|...|+-. ... +||.. ++.|+..|+.+|++.|..+..|+
T Consensus 34 k~~L~g~CPhdLF~nTK~DLG~C~kiHd~~lk~~Ye~~~~~~--~~~-~YE~e----~~~~L~~~i~d~drrI~~~k~RL 106 (254)
T PF03194_consen 34 KYFLVGFCPHDLFVNTKSDLGPCPKIHDEALKAEYEKASKKE--KYG-GYERE----FLRYLQRLIRDCDRRIERAKERL 106 (254)
T ss_pred HHHHhCCCcHHHHhhcccccchhhhhcCHHHHHHHHhCcccc--ccc-hhHHH----HHHHHHHHHHHHHHHHHHHHHHH
Confidence 7999999999999 9999555568999998776643 222 69877 78999999999999999999999
Q ss_pred HHHhhhhhhhhHHHHHHhhccccccchHHHHHHHHHHHHHhhhhcccccCCcHHHHHHHHHHHHHHHHHHHHHH
Q 014614 99 GRALKRLEDDDAKAAIAISVSEVTQTPEVLELSKQIKEKLKETDQYDYEGKTDLKIRALEVVEELRTKRADKQS 172 (421)
Q Consensus 99 ~r~~~rLe~~~~~~~~~~~~~e~~~~eei~~l~~~I~~ll~e~E~lg~eG~vdea~~l~e~veeLk~ek~~~q~ 172 (421)
+............ .+.+.|..|+++|+++|.+||+||++|+|++|+.+|.+|+.|+.++.+++.
T Consensus 107 ~~~~~~~~~~~~~----------~~~~~i~~l~~~I~~ll~~aE~LGeeG~VdeA~~~~~~~e~Lk~ek~~le~ 170 (254)
T PF03194_consen 107 EQTQEEQAKEADE----------EKAEKIDELDEKIGELLKEAEELGEEGDVDEAQKLMEEVEKLKEEKEELEK 170 (254)
T ss_pred HhCccccccchhh----------hHHHHHHHHHHHHHHHHHHHHHHHHCCCHHHHHHHHHHHHHHHHHHHHHHh
Confidence 9876554432211 125789999999999999999999999999999999999999999999865
No 6
>KOG4676 consensus Splicing factor, arginine/serine-rich [RNA processing and modification]
Probab=97.73 E-value=1.3e-05 Score=81.71 Aligned_cols=9 Identities=11% Similarity=0.017 Sum_probs=4.9
Q ss_pred chhhHhhhh
Q 014614 43 HELFQLTKM 51 (421)
Q Consensus 43 hdLF~nTK~ 51 (421)
..+++||.+
T Consensus 68 aQhLtntvf 76 (479)
T KOG4676|consen 68 AQHLTNTVF 76 (479)
T ss_pred Hhhhcccee
Confidence 345566654
No 7
>KOG4676 consensus Splicing factor, arginine/serine-rich [RNA processing and modification]
Probab=97.59 E-value=2.2e-05 Score=80.03 Aligned_cols=9 Identities=22% Similarity=0.135 Sum_probs=4.1
Q ss_pred hhhhcHHHH
Q 014614 295 KLHLGYMQI 303 (421)
Q Consensus 295 K~H~Gy~~i 303 (421)
-||.-|.-|
T Consensus 215 ~qhsr~ai~ 223 (479)
T KOG4676|consen 215 RQHSRRAII 223 (479)
T ss_pred hhhhhhhhc
Confidence 345544433
No 8
>COG5200 LUC7 U1 snRNP component, mediates U1 snRNP association with cap-binding complex [RNA processing and modification]
Probab=97.45 E-value=0.0002 Score=67.76 Aligned_cols=125 Identities=14% Similarity=0.071 Sum_probs=82.7
Q ss_pred CCCCCCCcchhcc-------CCCcchhhHhhhhcCCCCCccccHHHHHHHHHHhhcCccchHHHHHHHHHHHHHHHHHHH
Q 014614 26 KYYDRDVCRLYLA-------GLCPHELFQLTKMDMGPCPKVHSLQLRKEYEEAKAKGVDNYDRELEDAIDRLIVECDRKI 98 (421)
Q Consensus 26 ~~~D~~VCk~~L~-------G~CPhdLF~nTK~DlG~C~k~Hde~lk~~YE~~~~k~~~~Ye~e~~~~l~r~I~~~drrI 98 (421)
.++..++|||.|| |.||--+-...|.+|....+.|... ||-. .+.-+..++..|..-|+-.-...
T Consensus 35 ~s~Lvg~CP~dlF~nTk~slGkCp~~H~~k~K~~YeR~~~~~~~~----yEwe----yl~~L~r~V~~cn~~I~~a~~~~ 106 (258)
T COG5200 35 ISMLVGFCPFDLFRNTKRSLGKCPTSHEEKYKAEYERNGRERAEE----YEWE----YLRLLVRIVLSCNDGIRAAGLED 106 (258)
T ss_pred HHHHHccCcHHHHhccccccCCCcchhHHHHHHHHhhhhhccchh----hhHH----HHHHHHHHHHHhcchhhhhhhhc
Confidence 5779999999999 9999777678888998877777654 5543 23445566667777777655554
Q ss_pred HHHhhhhhhhhHHHHHHhhccccccchHHHHHHHHHHHHHhhhhcccccCCcHHHHHHHHHHHHHHHHHHHH
Q 014614 99 GRALKRLEDDDAKAAIAISVSEVTQTPEVLELSKQIKEKLKETDQYDYEGKTDLKIRALEVVEELRTKRADK 170 (421)
Q Consensus 99 ~r~~~rLe~~~~~~~~~~~~~e~~~~eei~~l~~~I~~ll~e~E~lg~eG~vdea~~l~e~veeLk~ek~~~ 170 (421)
....+.... .. +..+.++-+..-|..+..++++|.-.--|.-|.....+++.|++++.++
T Consensus 107 ~~t~ee~~k-I~-----------e~~e~~~~~d~sIg~lg~e~dalakrk~V~~a~~~f~el~rl~~~rkei 166 (258)
T COG5200 107 RTTPEEFGK-IK-----------EKEELFNRVDESIGELGMEGDALAKRKLVERACSAFNELERLREERKEI 166 (258)
T ss_pred cCCHHHHHh-HH-----------HHHHHHHHHHHHHHHHHHhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 444332221 00 1133444455566666555555555445888888888899999888776
No 9
>KOG2888 consensus Putative RNA binding protein [General function prediction only]
Probab=96.58 E-value=0.00077 Score=67.73 Aligned_cols=8 Identities=50% Similarity=0.779 Sum_probs=3.8
Q ss_pred HHHHHHHH
Q 014614 209 QEMINEKL 216 (421)
Q Consensus 209 ~~~I~~~l 216 (421)
+.+|.+.+
T Consensus 226 qkqId~~i 233 (453)
T KOG2888|consen 226 QKQIDEKI 233 (453)
T ss_pred HHHHHHHH
Confidence 45555443
No 10
>KOG2888 consensus Putative RNA binding protein [General function prediction only]
Probab=96.50 E-value=0.0011 Score=66.74 Aligned_cols=7 Identities=43% Similarity=0.525 Sum_probs=2.7
Q ss_pred hHHHHHH
Q 014614 208 TQEMINE 214 (421)
Q Consensus 208 ~~~~I~~ 214 (421)
|.++|.+
T Consensus 229 Id~~ie~ 235 (453)
T KOG2888|consen 229 IDEKIEE 235 (453)
T ss_pred HHHHHHh
Confidence 3333333
No 11
>KOG0151 consensus Predicted splicing regulator, contains RRM, SWAP and RPR domains [General function prediction only]
Probab=96.32 E-value=0.0028 Score=69.06 Aligned_cols=8 Identities=38% Similarity=0.563 Sum_probs=3.1
Q ss_pred HHHHHHHh
Q 014614 4 MRKQLDVL 11 (421)
Q Consensus 4 ~R~~LDeL 11 (421)
+|+-|+.|
T Consensus 432 qRdklE~l 439 (877)
T KOG0151|consen 432 QRDKLEDL 439 (877)
T ss_pred HHHHHHHH
Confidence 33334333
No 12
>KOG4368 consensus Predicted RNA binding protein, contains SWAP, RPR and G-patch domains [General function prediction only]
Probab=96.22 E-value=0.0081 Score=64.32 Aligned_cols=15 Identities=33% Similarity=0.696 Sum_probs=7.0
Q ss_pred HHHHHHHHHHHHHHH
Q 014614 86 AIDRLIVECDRKIGR 100 (421)
Q Consensus 86 ~l~r~I~~~drrI~r 100 (421)
.|...+.-|.+|-++
T Consensus 166 lind~~~hcqrk~~~ 180 (757)
T KOG4368|consen 166 LINDVLHHCQRKQAR 180 (757)
T ss_pred HHHHHHHHHHHHHHH
Confidence 334444445555444
No 13
>KOG4368 consensus Predicted RNA binding protein, contains SWAP, RPR and G-patch domains [General function prediction only]
Probab=95.75 E-value=0.0092 Score=63.91 Aligned_cols=10 Identities=20% Similarity=0.341 Sum_probs=4.8
Q ss_pred HHHHHHHHHH
Q 014614 156 ALEVVEELRT 165 (421)
Q Consensus 156 l~e~veeLk~ 165 (421)
+|.+++.|++
T Consensus 259 ~~~~~~~~~~ 268 (757)
T KOG4368|consen 259 FQQQIQTLKT 268 (757)
T ss_pred HHHHHHHHHH
Confidence 3445555543
No 14
>KOG0835 consensus Cyclin L [General function prediction only]
Probab=93.80 E-value=0.24 Score=50.33 Aligned_cols=20 Identities=10% Similarity=0.046 Sum_probs=14.6
Q ss_pred cHHHHHHHHHHHHHHHhhhc
Q 014614 299 GYMQIRDKLAELQEERNKKH 318 (421)
Q Consensus 299 Gy~~iR~~l~eL~e~~~~~~ 318 (421)
-|..|...++.++.++....
T Consensus 235 ~~~li~~~vd~~k~~~~da~ 254 (367)
T KOG0835|consen 235 DETLIEAFVDRLKRKFSDAS 254 (367)
T ss_pred CHHHHHHHHHHhhHHHHhcc
Confidence 47788888888888665443
No 15
>KOG2548 consensus SWAP mRNA splicing regulator [RNA processing and modification]
Probab=93.07 E-value=0.031 Score=59.34 Aligned_cols=12 Identities=42% Similarity=0.518 Sum_probs=5.0
Q ss_pred HHHHHHHHHHhh
Q 014614 231 AQKALEEAEALK 242 (421)
Q Consensus 231 Aqk~~~eve~lk 242 (421)
|++.+.+.+.-+
T Consensus 242 a~k~lk~~d~ek 253 (653)
T KOG2548|consen 242 AQKELKKGDPEK 253 (653)
T ss_pred HHHHHHhcCHHH
Confidence 344444444433
No 16
>KOG1847 consensus mRNA splicing factor [RNA processing and modification]
Probab=91.55 E-value=0.26 Score=53.79 Aligned_cols=7 Identities=57% Similarity=0.790 Sum_probs=3.9
Q ss_pred hhhhhhc
Q 014614 293 GGKLHLG 299 (421)
Q Consensus 293 ~GK~H~G 299 (421)
.|+-|+-
T Consensus 692 sg~R~l~ 698 (878)
T KOG1847|consen 692 SGKRHLH 698 (878)
T ss_pred CCCCcCc
Confidence 5555554
No 17
>KOG0113 consensus U1 small nuclear ribonucleoprotein (RRM superfamily) [RNA processing and modification]
Probab=90.90 E-value=0.26 Score=49.41 Aligned_cols=9 Identities=44% Similarity=0.955 Sum_probs=3.4
Q ss_pred hhhhhhhhh
Q 014614 287 RLADHFGGK 295 (421)
Q Consensus 287 Rl~dH~~GK 295 (421)
||--=+||.
T Consensus 190 RLGGGLGg~ 198 (335)
T KOG0113|consen 190 RLGGGLGGR 198 (335)
T ss_pred cccCCcCCc
Confidence 333333333
No 18
>KOG0835 consensus Cyclin L [General function prediction only]
Probab=90.40 E-value=0.41 Score=48.63 Aligned_cols=34 Identities=18% Similarity=0.093 Sum_probs=19.9
Q ss_pred HHHHHHHHHHHHhhhhcCChHHHHHHHHHHHHhhc
Q 014614 209 QEMINEKLKKAEDLGEQGMVDEAQKALEEAEALKK 243 (421)
Q Consensus 209 ~~~I~~~l~~aE~LGeeG~VdeAqk~~~eve~lk~ 243 (421)
.+.|.+..-....|-..-.++ .+.+...++.++.
T Consensus 215 k~eid~ic~~l~~lY~~~~p~-~~li~~~vd~~k~ 248 (367)
T KOG0835|consen 215 KREIDEICYRLIPLYKRAKPD-ETLIEAFVDRLKR 248 (367)
T ss_pred HHHHHHHHHHHHHHHHhcccC-HHHHHHHHHHhhH
Confidence 466777666666666653333 3455566676664
No 19
>TIGR02302 aProt_lowcomp conserved hypothetical protein TIGR02302. Members of this family are long (~850 residue) bacterial proteins from the alpha Proteobacteria. Each has 2-3 predicted transmembrane helices near the N-terminus and a long C-terminal region that includes stretches of Gln/Gly-rich low complexity sequence, predicted by TMHMM to be outside the membrane. In Bradyrhizobium japonicum, two tandem reading frames are together homologous the single members found in other species; the cutoffs scores are set low enough that the longer scores above the trusted cutoff and the shorter above the noise cutoff for this model.
Probab=83.99 E-value=7.2 Score=44.80 Aligned_cols=33 Identities=21% Similarity=0.410 Sum_probs=29.8
Q ss_pred HHHHHHHHHHHHhhhhcCChHHHHHHHHHHHHh
Q 014614 209 QEMINEKLKKAEDLGEQGMVDEAQKALEEAEAL 241 (421)
Q Consensus 209 ~~~I~~~l~~aE~LGeeG~VdeAqk~~~eve~l 241 (421)
+..+..+|..+|+|-++|..++|+.+|+++..+
T Consensus 567 ~~dLq~Mmd~ieela~~G~~~~A~qlL~qlq~m 599 (851)
T TIGR02302 567 QQDLQNMMDQIENLARSGDRDQAKQLLSQLQQM 599 (851)
T ss_pred HHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHH
Confidence 566888899999999999999999999998876
No 20
>PF13779 DUF4175: Domain of unknown function (DUF4175)
Probab=80.18 E-value=12 Score=43.07 Aligned_cols=34 Identities=26% Similarity=0.496 Sum_probs=30.5
Q ss_pred HHHHHHHHHHHHhhhhcCChHHHHHHHHHHHHhh
Q 014614 209 QEMINEKLKKAEDLGEQGMVDEAQKALEEAEALK 242 (421)
Q Consensus 209 ~~~I~~~l~~aE~LGeeG~VdeAqk~~~eve~lk 242 (421)
+..+..+|..+++|-++|..++|+.+|+++..+-
T Consensus 537 ~~dL~~mmd~ie~la~~G~~~~A~q~L~qlq~mm 570 (820)
T PF13779_consen 537 QQDLQRMMDRIEELARSGRMDEARQLLEQLQQMM 570 (820)
T ss_pred HHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHHH
Confidence 5678889999999999999999999999888763
No 21
>PF12171 zf-C2H2_jaz: Zinc-finger double-stranded RNA-binding; InterPro: IPR022755 This zinc finger is found in archaea and eukaryotes, and is approximately 30 amino acids in length. The mammalian members of this group occur multiple times along the protein, joined by flexible linkers, and are referred to as JAZ - dsRNA-binding ZF protein - zinc-fingers. The JAZ proteins are expressed in all tissues tested and localise in the nucleus, particularly the nucleolus []. JAZ preferentially binds to double-stranded (ds) RNA or RNA/DNA hybrids rather than DNA. In addition to binding double-stranded RNA, these zinc-fingers are required for nucleolar localisation. This entry represents the multiple-adjacent-C2H2 zinc finger, JAZ. ; PDB: 4DGW_A 1ZR9_A.
Probab=79.77 E-value=0.87 Score=29.06 Aligned_cols=25 Identities=36% Similarity=0.757 Sum_probs=20.6
Q ss_pred hhhhcccccccccCchhhhhhhhhhhhh
Q 014614 270 RVCDICGAFLSVYDSDRRLADHFGGKLH 297 (421)
Q Consensus 270 ~VCeVCGA~Ls~~D~d~Rl~dH~~GK~H 297 (421)
..|++|+..++ +..=+..|+.||.|
T Consensus 2 ~~C~~C~k~f~---~~~~~~~H~~sk~H 26 (27)
T PF12171_consen 2 FYCDACDKYFS---SENQLKQHMKSKKH 26 (27)
T ss_dssp CBBTTTTBBBS---SHHHHHCCTTSHHH
T ss_pred CCcccCCCCcC---CHHHHHHHHccCCC
Confidence 57999997544 66778999999988
No 22
>smart00451 ZnF_U1 U1-like zinc finger. Family of C2H2-type zinc fingers, present in matrin, U1 small nuclear ribonucleoprotein C and other RNA-binding proteins.
Probab=78.70 E-value=0.91 Score=30.27 Aligned_cols=28 Identities=21% Similarity=0.500 Sum_probs=21.6
Q ss_pred hhhhcccccccccCchhhhhhhhhhhhhhcH
Q 014614 270 RVCDICGAFLSVYDSDRRLADHFGGKLHLGY 300 (421)
Q Consensus 270 ~VCeVCGA~Ls~~D~d~Rl~dH~~GK~H~Gy 300 (421)
.-|++|+..+. +..=+..|+.||.|..-
T Consensus 4 ~~C~~C~~~~~---~~~~~~~H~~gk~H~~~ 31 (35)
T smart00451 4 FYCKLCNVTFT---DEISVEAHLKGKKHKKN 31 (35)
T ss_pred eEccccCCccC---CHHHHHHHHChHHHHHH
Confidence 46999998655 44556999999999653
No 23
>PF12874 zf-met: Zinc-finger of C2H2 type; PDB: 1ZU1_A 2KVG_A.
Probab=78.13 E-value=0.83 Score=28.25 Aligned_cols=24 Identities=38% Similarity=0.751 Sum_probs=19.4
Q ss_pred hhhcccccccccCchhhhhhhhhhhhh
Q 014614 271 VCDICGAFLSVYDSDRRLADHFGGKLH 297 (421)
Q Consensus 271 VCeVCGA~Ls~~D~d~Rl~dH~~GK~H 297 (421)
.|+||..-. -+..=+..|+.|+.|
T Consensus 2 ~C~~C~~~f---~s~~~~~~H~~s~~H 25 (25)
T PF12874_consen 2 YCDICNKSF---SSENSLRQHLRSKKH 25 (25)
T ss_dssp EETTTTEEE---SSHHHHHHHHTTHHH
T ss_pred CCCCCCCCc---CCHHHHHHHHCcCCC
Confidence 699999753 356779999999987
No 24
>KOG0415 consensus Predicted peptidyl prolyl cis-trans isomerase [Posttranslational modification, protein turnover, chaperones]
Probab=72.17 E-value=1.8 Score=44.66 Aligned_cols=14 Identities=21% Similarity=0.598 Sum_probs=9.0
Q ss_pred CCCCcchhcc-------CCCc
Q 014614 29 DRDVCRLYLA-------GLCP 42 (421)
Q Consensus 29 D~~VCk~~L~-------G~CP 42 (421)
-|..|.+||- .||+
T Consensus 21 rP~~clNFLKLCk~KYYN~cl 41 (479)
T KOG0415|consen 21 RPRTCLNFLKLCKIKYYNFCL 41 (479)
T ss_pred CcHHHHHHHHHHhHhhcccce
Confidence 3566777664 7776
No 25
>KOG0132 consensus RNA polymerase II C-terminal domain-binding protein RA4, contains RPR and RRM domains [RNA processing and modification; Transcription]
Probab=68.87 E-value=5.6 Score=44.77 Aligned_cols=12 Identities=25% Similarity=0.166 Sum_probs=5.1
Q ss_pred HHHHHHhhhhcc
Q 014614 133 QIKEKLKETDQY 144 (421)
Q Consensus 133 ~I~~ll~e~E~l 144 (421)
.|.-|+.-++..
T Consensus 127 ~IqpLlDm~~~s 138 (894)
T KOG0132|consen 127 IIQPLLDMADGS 138 (894)
T ss_pred HHHHHHHHHhcc
Confidence 444444444433
No 26
>COG5136 U1 snRNP-specific protein C [RNA processing and modification]
Probab=65.85 E-value=5.3 Score=36.89 Aligned_cols=46 Identities=28% Similarity=0.413 Sum_probs=34.0
Q ss_pred hhhhcccccccccCchhhhhhhhhhhhhhc-----HHHH-HHHHHHHHHHHhh
Q 014614 270 RVCDICGAFLSVYDSDRRLADHFGGKLHLG-----YMQI-RDKLAELQEERNK 316 (421)
Q Consensus 270 ~VCeVCGA~Ls~~D~d~Rl~dH~~GK~H~G-----y~~i-R~~l~eL~e~~~~ 316 (421)
+.||-|-.+|. +|...=--.|++|+-|+- |..+ +++.+|+..++..
T Consensus 4 Y~CeyC~~~Lt-hD~lsvRk~H~~G~~H~~~~~dYY~~~a~di~~e~~~~lr~ 55 (188)
T COG5136 4 YFCEYCNKMLT-HDRLSVRKMHCGGAKHGLMRKDYYMEMAEDIAAEMASILRD 55 (188)
T ss_pred hHHHHHHHHHh-ccHHHHHHHhhhhHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 68999999886 788777789999999987 4444 4455555555543
No 27
>KOG4207 consensus Predicted splicing factor, SR protein superfamily [RNA processing and modification]
Probab=65.64 E-value=12 Score=36.30 Aligned_cols=9 Identities=44% Similarity=0.615 Sum_probs=3.9
Q ss_pred HhhhhcCCh
Q 014614 220 EDLGEQGMV 228 (421)
Q Consensus 220 E~LGeeG~V 228 (421)
|+-|.-|+|
T Consensus 35 ekYG~vgDV 43 (256)
T KOG4207|consen 35 EKYGRVGDV 43 (256)
T ss_pred HHhCcccce
Confidence 344444443
No 28
>KOG3454 consensus U1 snRNP-specific protein C [RNA processing and modification]
Probab=63.96 E-value=7.2 Score=36.08 Aligned_cols=29 Identities=34% Similarity=0.624 Sum_probs=26.7
Q ss_pred hhhhcccccccccCchhhhhhhhhhhhhhc
Q 014614 270 RVCDICGAFLSVYDSDRRLADHFGGKLHLG 299 (421)
Q Consensus 270 ~VCeVCGA~Ls~~D~d~Rl~dH~~GK~H~G 299 (421)
+-||-|-.||. +|+..=--.|++|+.|+-
T Consensus 4 YyCDYCdt~Lt-hDslsvRK~H~~GrkH~~ 32 (165)
T KOG3454|consen 4 YYCDYCDTYLT-HDSLSVRKTHCGGRKHKD 32 (165)
T ss_pred chhhhhhhhhh-cccHHHHHhhhhhHHHHH
Confidence 68999999987 899888899999999998
No 29
>PF06220 zf-U1: U1 zinc finger; InterPro: IPR013085 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 zinc finger motif found in several U1 small nuclear ribonucleoprotein C (U1-C) proteins. Some proteins contain multiple copies of this motif. The U1 small nuclear ribonucleoprotein (U1 snRNP) binds to the pre-mRNA 5' splice site at early stages of spliceosome assembly. Recruitment of U1 to a class of weak 5' splice site is promoted by binding of the protein TIA-1 to uridine-rich sequences immediately downstream from the 5' splice site. Binding of TIA-1 in the vicinity of a 5' splice site helps to stabilise U1 snRNP recruitment, at least in part, via a direct interaction with U1-C, thus providing one molecular mechanism for the function of this splicing regulator []. More information about these proteins can be found at Protein of the Month: Zinc Fingers [].; GO: 0008270 zinc ion binding; PDB: 2VRD_A.
Probab=61.83 E-value=3.6 Score=28.86 Aligned_cols=32 Identities=28% Similarity=0.377 Sum_probs=17.5
Q ss_pred chhhhcccccccccCchhhhhhhhhhhhhhcHH
Q 014614 269 LRVCDICGAFLSVYDSDRRLADHFGGKLHLGYM 301 (421)
Q Consensus 269 l~VCeVCGA~Ls~~D~d~Rl~dH~~GK~H~Gy~ 301 (421)
..-||.|..+|. .|+..=...|..|..|..=+
T Consensus 3 ryyCdyC~~~~~-~d~~~~Rk~H~~G~kH~~nv 34 (38)
T PF06220_consen 3 RYYCDYCKKYLT-HDSPSIRKQHERGWKHKENV 34 (38)
T ss_dssp S-B-TTT--B-S---SHHHHHHHT--THHHHHH
T ss_pred Ceecccccceec-CCChHHHHHhhccHHHHHHH
Confidence 468999999875 55655558999999998743
No 30
>COG3783 CybC Soluble cytochrome b562 [Energy production and conversion]
Probab=59.98 E-value=36 Score=28.94 Aligned_cols=28 Identities=29% Similarity=0.503 Sum_probs=24.0
Q ss_pred HHHHHhhhhcCChHHHHHHHHHHHHhhc
Q 014614 216 LKKAEDLGEQGMVDEAQKALEEAEALKK 243 (421)
Q Consensus 216 l~~aE~LGeeG~VdeAqk~~~eve~lk~ 243 (421)
|.+|-.|..+|+|++|.+.+.++..++.
T Consensus 66 iD~a~klaqeGnl~eAKaaak~l~d~Rn 93 (100)
T COG3783 66 IDKADKLAQEGNLDEAKAAAKTLKDTRN 93 (100)
T ss_pred HHHHHHHHHcCChHHHHHHHHHHHHHHH
Confidence 5678899999999999999988877753
No 31
>PF11931 DUF3449: Domain of unknown function (DUF3449); InterPro: IPR024598 This presumed domain is functionally uncharacterised. It has two conserved sequence motifs: PIP and CEICG and contains a zinc-finger of the C2H2-type.; PDB: 4DGW_A.
Probab=59.62 E-value=3 Score=39.72 Aligned_cols=28 Identities=29% Similarity=0.428 Sum_probs=0.0
Q ss_pred cchhhhcccccccccCchhh-hhhhhhhhhhh
Q 014614 268 KLRVCDICGAFLSVYDSDRR-LADHFGGKLHL 298 (421)
Q Consensus 268 kl~VCeVCGA~Ls~~D~d~R-l~dH~~GK~H~ 298 (421)
..+.|+|||.+.-.+ +| ...||+.--|.
T Consensus 100 ~ey~CEICGN~~Y~G---rkaFekHF~E~rH~ 128 (196)
T PF11931_consen 100 VEYKCEICGNQSYKG---RKAFEKHFQEWRHA 128 (196)
T ss_dssp --------------------------------
T ss_pred CeeeeEeCCCcceec---HHHHHHhcChhHHH
Confidence 358999999875443 44 78999999885
No 32
>KOG0415 consensus Predicted peptidyl prolyl cis-trans isomerase [Posttranslational modification, protein turnover, chaperones]
Probab=58.51 E-value=3.9 Score=42.25 Aligned_cols=15 Identities=20% Similarity=0.335 Sum_probs=8.7
Q ss_pred CCcHHHHHHHHHHHH
Q 014614 148 GKTDLKIRALEVVEE 162 (421)
Q Consensus 148 G~vdea~~l~e~vee 162 (421)
|.|.|-...+.+|++
T Consensus 127 GqV~EG~dtl~kiNe 141 (479)
T KOG0415|consen 127 GQVAEGFDTLTKINE 141 (479)
T ss_pred eehhhhHHHHHHHHH
Confidence 566666555555554
No 33
>PLN03229 acetyl-coenzyme A carboxylase carboxyl transferase subunit alpha; Provisional
Probab=58.35 E-value=82 Score=35.84 Aligned_cols=98 Identities=16% Similarity=0.246 Sum_probs=53.3
Q ss_pred cHHHHHHHHHHhh----cC---ccchHHHHHHHHHHHHHHHHHHHHHHhhhhhhhh-----HHHHHHhhccccccchHHH
Q 014614 61 SLQLRKEYEEAKA----KG---VDNYDRELEDAIDRLIVECDRKIGRALKRLEDDD-----AKAAIAISVSEVTQTPEVL 128 (421)
Q Consensus 61 de~lk~~YE~~~~----k~---~~~Ye~e~~~~l~r~I~~~drrI~r~~~rLe~~~-----~~~~~~~~~~e~~~~eei~ 128 (421)
.+.+++.+|.... -+ ...+..+|...+..+-.+++..|+...+-..... ...+.+.......-.+.|.
T Consensus 573 ~~~~kek~ea~~aev~~~g~s~~~~~~~~lkeki~~~~~Ei~~eie~v~~S~gL~~~~~~k~e~a~~~~~p~~~~k~KIe 652 (762)
T PLN03229 573 RPEIKEKMEALKAEVASSGASSGDELDDDLKEKVEKMKKEIELELAGVLKSMGLEVIGVTKKNKDTAEQTPPPNLQEKIE 652 (762)
T ss_pred cHHHHHHHHHHHHHHHhcCccccCCCCHHHHHHHHHHHHHHHHHHHHHHhccCchhhhhhhhhhcccccCCChhhHHHHH
Confidence 3456777765421 11 2356677777777777777777776532211110 0111100001112256899
Q ss_pred HHHHHHHHHHhhhhcccccCCcHHHHHHHHHHHHHHHHH
Q 014614 129 ELSKQIKEKLKETDQYDYEGKTDLKIRALEVVEELRTKR 167 (421)
Q Consensus 129 ~l~~~I~~ll~e~E~lg~eG~vdea~~l~e~veeLk~ek 167 (421)
.|+++|++.|.++= .+..|.+++|.|+.+.
T Consensus 653 ~L~~eIkkkIe~av---------~ss~LK~k~E~Lk~Ev 682 (762)
T PLN03229 653 SLNEEINKKIERVI---------RSSDLKSKIELLKLEV 682 (762)
T ss_pred HHHHHHHHHHHHHh---------cchhHHHHHHHHHHHH
Confidence 99999998875421 2445677788876544
No 34
>KOG4246 consensus Predicted DNA-binding protein, contains SAP domain [General function prediction only]
Probab=56.05 E-value=7.6 Score=44.09 Aligned_cols=12 Identities=25% Similarity=0.130 Sum_probs=5.9
Q ss_pred cccCCcHHHHHH
Q 014614 145 DYEGKTDLKIRA 156 (421)
Q Consensus 145 g~eG~vdea~~l 156 (421)
+.=|-||+...+
T Consensus 158 DtygfVD~dvff 169 (1194)
T KOG4246|consen 158 DTYGFVDQDVFF 169 (1194)
T ss_pred cccccccHHHHH
Confidence 334556655444
No 35
>KOG4246 consensus Predicted DNA-binding protein, contains SAP domain [General function prediction only]
Probab=55.60 E-value=6.1 Score=44.80 Aligned_cols=13 Identities=23% Similarity=0.197 Sum_probs=6.6
Q ss_pred hhhcCChHHHHHH
Q 014614 222 LGEQGMVDEAQKA 234 (421)
Q Consensus 222 LGeeG~VdeAqk~ 234 (421)
+-.=|-||++--+
T Consensus 157 ~DtygfVD~dvff 169 (1194)
T KOG4246|consen 157 TDTYGFVDQDVFF 169 (1194)
T ss_pred ccccccccHHHHH
Confidence 3345666655443
No 36
>KOG4080 consensus Mitochondrial ribosomal protein L32 [Translation, ribosomal structure and biogenesis]
Probab=55.46 E-value=7.7 Score=35.98 Aligned_cols=35 Identities=29% Similarity=0.513 Sum_probs=25.3
Q ss_pred chhhhcccccccccCchhhhhhhhhhhhhhcHHHHHHHH
Q 014614 269 LRVCDICGAFLSVYDSDRRLADHFGGKLHLGYMQIRDKL 307 (421)
Q Consensus 269 l~VCeVCGA~Ls~~D~d~Rl~dH~~GK~H~Gy~~iR~~l 307 (421)
+-+|..||-|=-. -=||+||-+|+|--|..|+.+.
T Consensus 93 l~~CP~CGh~k~a----~~LC~~Cy~kV~ket~ei~~k~ 127 (176)
T KOG4080|consen 93 LNTCPACGHIKPA----HTLCDYCYAKVHKETSEIKKKM 127 (176)
T ss_pred cccCcccCccccc----cccHHHHHHHHHHHHHHHHHHH
Confidence 6799999964221 2389999888887777776543
No 37
>PF04012 PspA_IM30: PspA/IM30 family; InterPro: IPR007157 This family includes PspA a protein that suppresses sigma54-dependent transcription. The PspA protein, a negative regulator of the Escherichia coli phage shock psp operon, is produced when virulence factors are exported through secretins in many Gram-negative pathogenic bacteria and its homologue in plants, VIPP1, plays a critical role in thylakoid biogenesis, essential for photosynthesis. Activation of transcription by the enhancer-dependent bacterial sigma54-containing RNA polymerase occurs through ATP hydrolysis-driven protein conformational changes enabled by activator proteins that belong to the large AAA(+) mechanochemical protein family. It has been shown that PspA directly and specifically acts upon and binds to the AAA(+) domain of the PspF transcription activator [].
Probab=53.22 E-value=2e+02 Score=27.10 Aligned_cols=79 Identities=15% Similarity=0.183 Sum_probs=51.3
Q ss_pred HHHHHHHHHHHHHHHHHhhhhhhhhHHHHHHhhccccccchHHHHHHHHHHHHHhhhhcccccCCcHHHHHHHHHHHHHH
Q 014614 85 DAIDRLIVECDRKIGRALKRLEDDDAKAAIAISVSEVTQTPEVLELSKQIKEKLKETDQYDYEGKTDLKIRALEVVEELR 164 (421)
Q Consensus 85 ~~l~r~I~~~drrI~r~~~rLe~~~~~~~~~~~~~e~~~~eei~~l~~~I~~ll~e~E~lg~eG~vdea~~l~e~veeLk 164 (421)
..|+..|+++..-|..++.-+...... ......++..+...|.+....|+.+-..|+-+-|..++.....+.
T Consensus 26 ~~l~q~ird~e~~l~~a~~~~a~~~a~--------~~~le~~~~~~~~~~~~~~~~A~~Al~~g~edLAr~al~~k~~~e 97 (221)
T PF04012_consen 26 KMLEQAIRDMEEQLRKARQALARVMAN--------QKRLERKLDEAEEEAEKWEKQAELALAAGREDLAREALQRKADLE 97 (221)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHH--------HHHHHHHHHHHHHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHHH
Confidence 556666777777666665544321110 001234566777888888888988888999998888877666666
Q ss_pred HHHHHHH
Q 014614 165 TKRADKQ 171 (421)
Q Consensus 165 ~ek~~~q 171 (421)
.....++
T Consensus 98 ~~~~~l~ 104 (221)
T PF04012_consen 98 EQAERLE 104 (221)
T ss_pred HHHHHHH
Confidence 5555543
No 38
>PRK15058 cytochrome b562; Provisional
Probab=52.47 E-value=23 Score=31.62 Aligned_cols=28 Identities=32% Similarity=0.431 Sum_probs=25.1
Q ss_pred HHHHHhhhhcCChHHHHHHHHHHHHhhc
Q 014614 216 LKKAEDLGEQGMVDEAQKALEEAEALKK 243 (421)
Q Consensus 216 l~~aE~LGeeG~VdeAqk~~~eve~lk~ 243 (421)
+.+|..|..+|+++||...+.++..++.
T Consensus 94 ID~a~~la~~GkL~eAK~~a~~l~~lR~ 121 (128)
T PRK15058 94 IDGALKLANEGKVKEAQAAAEQLKTTRN 121 (128)
T ss_pred HHHHHHHHhCCCHHHHHHHHHHHHHHHH
Confidence 5678899999999999999999988875
No 39
>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=51.43 E-value=8.5 Score=24.70 Aligned_cols=16 Identities=31% Similarity=1.074 Sum_probs=10.1
Q ss_pred CCCCcchhcc-CCCcch
Q 014614 29 DRDVCRLYLA-GLCPHE 44 (421)
Q Consensus 29 D~~VCk~~L~-G~CPhd 44 (421)
...+|++|+. |.||+.
T Consensus 2 k~~~C~~f~~~g~C~~G 18 (27)
T PF00642_consen 2 KTKLCRFFMRTGTCPFG 18 (27)
T ss_dssp TSSB-HHHHHTS--TTG
T ss_pred ccccChhhccCCccCCC
Confidence 3568999999 999864
No 40
>COG1579 Zn-ribbon protein, possibly nucleic acid-binding [General function prediction only]
Probab=50.89 E-value=1.9e+02 Score=28.44 Aligned_cols=22 Identities=18% Similarity=0.181 Sum_probs=12.1
Q ss_pred HHHHHHHHHHHHHHHHHHHHHH
Q 014614 152 LKIRALEVVEELRTKRADKQSM 173 (421)
Q Consensus 152 ea~~l~e~veeLk~ek~~~q~~ 173 (421)
+-..+|+.++.|..+...++..
T Consensus 111 el~~l~~~~~~l~~~i~~l~~~ 132 (239)
T COG1579 111 ELAELMEEIEKLEKEIEDLKER 132 (239)
T ss_pred HHHHHHHHHHHHHHHHHHHHHH
Confidence 3445566666666555555433
No 41
>PF07361 Cytochrom_B562: Cytochrome b562; InterPro: IPR009155 Cytochrome b562 is a haem-containing protein that is expressed in the periplasm of Escherichia coli. In b-type cytochromes, the haem atom is not covalently attached to the polypeptide. Cytochrome b562 has a four-helical bundle structure that is structurally similar to that found in members of the cytochrome c family (IPR002321 from INTERPRO). Cytochrome b562 has a reduction potential of 167 mV, which sets the energy yield possible in metabolism and is also a key determinant of the rate at which redox reactions proceed [].; GO: 0005506 iron ion binding, 0009055 electron carrier activity, 0020037 heme binding, 0042597 periplasmic space; PDB: 4ER9_A 3IQ6_G 2QLA_B 3FOO_A 3M79_C 256B_A 3NMI_F 3HNK_A 3NMK_D 2BC5_A ....
Probab=49.48 E-value=24 Score=30.07 Aligned_cols=28 Identities=46% Similarity=0.700 Sum_probs=25.4
Q ss_pred HHHHHhhhhcCChHHHHHHHHHHHHhhc
Q 014614 216 LKKAEDLGEQGMVDEAQKALEEAEALKK 243 (421)
Q Consensus 216 l~~aE~LGeeG~VdeAqk~~~eve~lk~ 243 (421)
+..|+.+.+.|++++|...+.++..|+.
T Consensus 69 id~a~~~~~~G~l~~AK~~l~~l~~lR~ 96 (103)
T PF07361_consen 69 IDKAEALAEAGKLDEAKAALKKLDDLRK 96 (103)
T ss_dssp HHHHHHHHHTTHHHHHHHHHHHHHHHHH
T ss_pred HHHHHHHHHCCCHHHHHHHHHHHHHHHH
Confidence 5678899999999999999999999975
No 42
>PF11781 RRN7: RNA polymerase I-specific transcription initiation factor Rrn7; InterPro: IPR021752 Rrn7 is a transcription binding factor that associates strongly with both Rrn6 and Rrn11 to form a complex which itself binds the TATA-binding protein and is required for transcription by the core domain of the RNA PolI promoter [],[].
Probab=49.42 E-value=5.7 Score=27.60 Aligned_cols=26 Identities=23% Similarity=0.437 Sum_probs=21.1
Q ss_pred hhhhcccccccccCchhhhhhhhhhh
Q 014614 270 RVCDICGAFLSVYDSDRRLADHFGGK 295 (421)
Q Consensus 270 ~VCeVCGA~Ls~~D~d~Rl~dH~~GK 295 (421)
..|+|||+.+...+.-...+++++-+
T Consensus 9 ~~C~~C~~~~~~~~dG~~yC~~cG~~ 34 (36)
T PF11781_consen 9 EPCPVCGSRWFYSDDGFYYCDRCGHQ 34 (36)
T ss_pred CcCCCCCCeEeEccCCEEEhhhCceE
Confidence 35999999988888888888887643
No 43
>KOG2146 consensus Splicing coactivator SRm160/300, subunit SRm160 (contains PWI domain) [RNA processing and modification; General function prediction only]
Probab=48.02 E-value=47 Score=33.61 Aligned_cols=7 Identities=43% Similarity=0.425 Sum_probs=4.5
Q ss_pred hhhcCCh
Q 014614 222 LGEQGMV 228 (421)
Q Consensus 222 LGeeG~V 228 (421)
||-+-+|
T Consensus 57 lgfEDdV 63 (354)
T KOG2146|consen 57 LGFEDDV 63 (354)
T ss_pred hccccch
Confidence 6666665
No 44
>PRK09720 cybC cytochrome b562; Provisional
Probab=47.82 E-value=32 Score=29.42 Aligned_cols=28 Identities=32% Similarity=0.450 Sum_probs=23.7
Q ss_pred HHHHHhhhhcCChHHHHHHHHHHHHhhc
Q 014614 216 LKKAEDLGEQGMVDEAQKALEEAEALKK 243 (421)
Q Consensus 216 l~~aE~LGeeG~VdeAqk~~~eve~lk~ 243 (421)
+.+|..|..+|+++||.....++-.++.
T Consensus 66 ID~A~~La~~GkL~eAK~~a~~l~~~Rn 93 (100)
T PRK09720 66 IDDALKLANEGKVKEAQAAAEQLKTTRN 93 (100)
T ss_pred HHHHHHHHHcCCHHHHHHHHHHHHHHHH
Confidence 5678899999999999998887777764
No 45
>COG1675 TFA1 Transcription initiation factor IIE, alpha subunit [Transcription]
Probab=47.35 E-value=16 Score=34.30 Aligned_cols=38 Identities=32% Similarity=0.514 Sum_probs=30.2
Q ss_pred chhhhcccccccccCchhhhhhhhhhhhhhcHHHHHHHHHHHHHHHhhhc
Q 014614 269 LRVCDICGAFLSVYDSDRRLADHFGGKLHLGYMQIRDKLAELQEERNKKH 318 (421)
Q Consensus 269 l~VCeVCGA~Ls~~D~d~Rl~dH~~GK~H~Gy~~iR~~l~eL~e~~~~~~ 318 (421)
.++|+.||+.|--+|+.. .+..+...+++|.+.+...-
T Consensus 132 ~F~Cp~Cg~~L~~~d~s~------------~i~~l~~~i~~l~~~l~~~~ 169 (176)
T COG1675 132 GFTCPKCGEDLEEYDSSE------------EIEELESELDELEEELERND 169 (176)
T ss_pred CCCCCCCCchhhhccchH------------HHHHHHHHHHHHHHHHhccc
Confidence 389999999999999987 56777778888877765433
No 46
>PRK10564 maltose regulon periplasmic protein; Provisional
Probab=46.92 E-value=42 Score=34.16 Aligned_cols=28 Identities=36% Similarity=0.402 Sum_probs=24.0
Q ss_pred HHHHhhhhcCChHHHHHHHHHHHHhhcc
Q 014614 217 KKAEDLGEQGMVDEAQKALEEAEALKKL 244 (421)
Q Consensus 217 ~~aE~LGeeG~VdeAqk~~~eve~lk~~ 244 (421)
..++++-..|+|+.|++|++|+|.|.-.
T Consensus 262 ~aI~~AVk~gDi~KAL~LldEAe~LG~~ 289 (303)
T PRK10564 262 QAIKQAVKKGDVDKALKLLDEAERLGST 289 (303)
T ss_pred HHHHHHHHcCCHHHHHHHHHHHHHhCCc
Confidence 4466678899999999999999999864
No 47
>KOG0132 consensus RNA polymerase II C-terminal domain-binding protein RA4, contains RPR and RRM domains [RNA processing and modification; Transcription]
Probab=46.29 E-value=19 Score=40.82 Aligned_cols=13 Identities=23% Similarity=0.312 Sum_probs=5.3
Q ss_pred hhhcCChHHHHHH
Q 014614 222 LGEQGMVDEAQKA 234 (421)
Q Consensus 222 LGeeG~VdeAqk~ 234 (421)
.|..|++..+|.+
T Consensus 191 g~d~~~~~~~q~~ 203 (894)
T KOG0132|consen 191 GGDVGSQAALQRS 203 (894)
T ss_pred ccchhhhhhhhHH
Confidence 3444444444433
No 48
>PF06160 EzrA: Septation ring formation regulator, EzrA ; InterPro: IPR010379 During the bacterial cell cycle, the tubulin-like cell-division protein FtsZ polymerises into a ring structure that establishes the location of the nascent division site. EzrA modulates the frequency and position of FtsZ ring formation [].; GO: 0000921 septin ring assembly, 0005940 septin ring, 0016021 integral to membrane
Probab=46.06 E-value=4.4e+02 Score=28.94 Aligned_cols=32 Identities=34% Similarity=0.397 Sum_probs=25.9
Q ss_pred HHHHHHHHHHHhhhhcCChHHHHHHHHHHHHh
Q 014614 210 EMINEKLKKAEDLGEQGMVDEAQKALEEAEAL 241 (421)
Q Consensus 210 ~~I~~~l~~aE~LGeeG~VdeAqk~~~eve~l 241 (421)
..|.....+.++|-+.|+..+|..++..+..-
T Consensus 171 ~~ie~~F~~f~~lt~~GD~~~A~eil~~l~~~ 202 (560)
T PF06160_consen 171 ENIEEEFSEFEELTENGDYLEAREILEKLKEE 202 (560)
T ss_pred HHHHHHHHHHHHHHHCCCHHHHHHHHHHHHHH
Confidence 45666677899999999999999988776554
No 49
>PF12325 TMF_TATA_bd: TATA element modulatory factor 1 TATA binding; InterPro: IPR022091 This is the C-terminal conserved coiled coil region of a family of TATA element modulatory factor 1 proteins conserved in eukaryotes []. The proteins bind to the TATA element of some RNA polymerase II promoters and repress their activity. by competing with the binding of TATA binding protein. TMF1_TATA_bd is the most conserved part of the TMFs []. TMFs are evolutionarily conserved golgins that bind Rab6, a ubiquitous ras-like GTP-binding Golgi protein, and contribute to Golgi organisation in animal [] and plant cells. The Rab6-binding domain appears to be the same region as this C-terminal family [].
Probab=45.54 E-value=2.1e+02 Score=25.13 Aligned_cols=68 Identities=19% Similarity=0.234 Sum_probs=40.4
Q ss_pred HHHHHHHHHHHHHHHHHHHHHhhhhhhhhHHHHHHhhccccccchHHHHHHHHHHHHHhhhhcccccCCcHHHHHHHHHH
Q 014614 81 RELEDAIDRLIVECDRKIGRALKRLEDDDAKAAIAISVSEVTQTPEVLELSKQIKEKLKETDQYDYEGKTDLKIRALEVV 160 (421)
Q Consensus 81 ~e~~~~l~r~I~~~drrI~r~~~rLe~~~~~~~~~~~~~e~~~~eei~~l~~~I~~ll~e~E~lg~eG~vdea~~l~e~v 160 (421)
..++..|..-|+..+--|...+..+..-.. +=..++++|-.++.+.+++ ......+
T Consensus 15 ~~~ve~L~s~lr~~E~E~~~l~~el~~l~~---------------~r~~l~~Eiv~l~~~~e~~---------~~~~~~~ 70 (120)
T PF12325_consen 15 VQLVERLQSQLRRLEGELASLQEELARLEA---------------ERDELREEIVKLMEENEEL---------RALKKEV 70 (120)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHH---------------HHHHHHHHHHHHHHHHHHH---------HHHHHHH
Confidence 346677777788777777777666653111 1124456777777665544 3344556
Q ss_pred HHHHHHHHHHHH
Q 014614 161 EELRTKRADKQS 172 (421)
Q Consensus 161 eeLk~ek~~~q~ 172 (421)
..|+.+.++++.
T Consensus 71 ~~L~~el~~l~~ 82 (120)
T PF12325_consen 71 EELEQELEELQQ 82 (120)
T ss_pred HHHHHHHHHHHH
Confidence 666666666654
No 50
>KOG1049 consensus Polyadenylation factor I complex, subunit FIP1 [RNA processing and modification]
Probab=45.06 E-value=17 Score=39.41 Aligned_cols=15 Identities=7% Similarity=0.142 Sum_probs=9.8
Q ss_pred cch-HHHHHHHHHHHH
Q 014614 77 DNY-DRELEDAIDRLI 91 (421)
Q Consensus 77 ~~Y-e~e~~~~l~r~I 91 (421)
++| |.-+..+|.+.-
T Consensus 181 YGFNEeTWk~YC~rQk 196 (538)
T KOG1049|consen 181 YGFNEETWKAYCERQK 196 (538)
T ss_pred cccCHHHHHHHHHHHh
Confidence 455 666778887654
No 51
>PF15070 GOLGA2L5: Putative golgin subfamily A member 2-like protein 5
Probab=42.91 E-value=1.4e+02 Score=33.37 Aligned_cols=50 Identities=20% Similarity=0.378 Sum_probs=32.2
Q ss_pred cchhhhcccccccccCchhhhhhhhhhhhhhc------HHHHHHHHHHHHHHHhhh
Q 014614 268 KLRVCDICGAFLSVYDSDRRLADHFGGKLHLG------YMQIRDKLAELQEERNKK 317 (421)
Q Consensus 268 kl~VCeVCGA~Ls~~D~d~Rl~dH~~GK~H~G------y~~iR~~l~eL~e~~~~~ 317 (421)
|.++++.=-+|+.++-..-=|.+.+-.-+|++ |..+...+..+++.+..+
T Consensus 166 K~QL~Elq~~Fv~ltne~~elt~~lq~Eq~~~keL~~kl~~l~~~l~~~~e~le~K 221 (617)
T PF15070_consen 166 KEQLAELQDAFVKLTNENMELTSALQSEQHVKKELQKKLGELQEKLHNLKEKLELK 221 (617)
T ss_pred HHHHHHHHHHHHHHHHhhhHhhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhh
Confidence 44677777788887733334677777777877 445566666666655444
No 52
>KOG0717 consensus Molecular chaperone (DnaJ superfamily) [Posttranslational modification, protein turnover, chaperones]
Probab=40.68 E-value=5.1e+02 Score=28.15 Aligned_cols=27 Identities=26% Similarity=0.575 Sum_probs=21.7
Q ss_pred hhhhcccccccccCchhhhhhhhhhhhhhc
Q 014614 270 RVCDICGAFLSVYDSDRRLADHFGGKLHLG 299 (421)
Q Consensus 270 ~VCeVCGA~Ls~~D~d~Rl~dH~~GK~H~G 299 (421)
.-|-||.. .+=+..=+.+|-.-|.|.-
T Consensus 293 lyC~vCnK---sFKseKq~kNHEnSKKHke 319 (508)
T KOG0717|consen 293 LYCVVCNK---SFKSEKQLKNHENSKKHKE 319 (508)
T ss_pred eEEeeccc---cccchHHHHhhHHHHHHHH
Confidence 67999995 3456677999999999964
No 53
>PF06248 Zw10: Centromere/kinetochore Zw10; InterPro: IPR009361 Zeste white 10 (ZW10) was initially identified as a mitotic checkpoint protein involved in chromosome segregation, and then implicated in targeting cytoplasmic dynein and dynactin to mitotic kinetochores, but it is also important in non-dividing cells. These include cytoplasmic dynein targeting to Golgi and other membranes, and SNARE-mediated ER-Golgi trafficking [, ]. Dominant-negative ZW10, anti-ZW10 antibody, and ZW10 RNA interference (RNAi) cause Golgi dispersal. ZW10 RNAi also disperse endosomes and lysosomes []. Drosophila kinetochore components Rough deal (Rod) and Zw10 are required for the proper functioning of the metaphase checkpoint in flies []. The eukaryotic spindle assembly checkpoint (SAC) monitors microtubule attachment to kinetochores and prevents anaphase onset until all kinetochores are aligned on the metaphase plate. It is an essential surveillance mechanism that ensures high fidelity chromosome segregation during mitosis. In higher eukaryotes, cytoplasmic dynein is involved in silencing the SAC by removing the checkpoint proteins Mad2 and the Rod-Zw10-Zwilch complex (RZZ) from aligned kinetochores [, , ].; GO: 0007067 mitosis, 0000775 chromosome, centromeric region, 0005634 nucleus
Probab=40.60 E-value=5.3e+02 Score=28.31 Aligned_cols=32 Identities=31% Similarity=0.390 Sum_probs=28.2
Q ss_pred HHHHHHHHHHHhhhhcCChHHHHHHHHHHHHh
Q 014614 210 EMINEKLKKAEDLGEQGMVDEAQKALEEAEAL 241 (421)
Q Consensus 210 ~~I~~~l~~aE~LGeeG~VdeAqk~~~eve~l 241 (421)
..|.+.+..++.+..+|++-.|..+++++..+
T Consensus 106 ~~i~~~l~~~~~al~~~~~~~Aa~~L~~~~~~ 137 (593)
T PF06248_consen 106 QEIDELLEEVEEALKEGNYLDAADLLEELKSL 137 (593)
T ss_pred HHHHHHHHHHHHHHhcCCHHHHHHHHHHHHHH
Confidence 56888899999999999999999988888775
No 54
>smart00356 ZnF_C3H1 zinc finger.
Probab=40.17 E-value=13 Score=23.08 Aligned_cols=14 Identities=29% Similarity=1.103 Sum_probs=11.7
Q ss_pred CCCcchhccCCCcc
Q 014614 30 RDVCRLYLAGLCPH 43 (421)
Q Consensus 30 ~~VCk~~L~G~CPh 43 (421)
..+|++|+.|.|++
T Consensus 4 ~~~C~~~~~g~C~~ 17 (27)
T smart00356 4 TELCKFFKRGYCPY 17 (27)
T ss_pred CCcCcCccCCCCCC
Confidence 35899999999985
No 55
>PF09862 DUF2089: Protein of unknown function (DUF2089); InterPro: IPR018658 This family consists of various hypothetical prokaryotic proteins.
Probab=39.16 E-value=19 Score=31.50 Aligned_cols=20 Identities=20% Similarity=0.444 Sum_probs=17.2
Q ss_pred hhcHHHHHHHHHHHHHHHhh
Q 014614 297 HLGYMQIRDKLAELQEERNK 316 (421)
Q Consensus 297 H~Gy~~iR~~l~eL~e~~~~ 316 (421)
-++|=.+|..|++|-+++.-
T Consensus 60 giSYPTvR~rLd~ii~~lg~ 79 (113)
T PF09862_consen 60 GISYPTVRNRLDKIIEKLGY 79 (113)
T ss_pred CCCcHHHHHHHHHHHHHhCC
Confidence 56699999999999988876
No 56
>cd02681 MIT_calpain7_1 MIT: domain contained within Microtubule Interacting and Trafficking molecules. This sub-family of MIT domains is found in the nuclear thiol protease PalBH. The molecular function of the MIT domain is unclear.
Probab=39.04 E-value=1.1e+02 Score=24.70 Aligned_cols=61 Identities=21% Similarity=0.150 Sum_probs=36.5
Q ss_pred HHHhhhhcccccCCcHHHHHHHH-HHHHHHHHHHHHHHHHHHHhhhcccCCCCCCCCCCCCCCCCCCCCCchhhHHHHHH
Q 014614 136 EKLKETDQYDYEGKTDLKIRALE-VVEELRTKRADKQSMLLLDAFNKDRASLPQPLPNPPPLAPLPIPAPDARTQEMINE 214 (421)
Q Consensus 136 ~ll~e~E~lg~eG~vdea~~l~e-~veeLk~ek~~~q~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~I~~ 214 (421)
+++..|=+++..|+.++|+.+-. -++-|.. ..+.+++| +.....+..+|.+
T Consensus 8 ~~a~~Ave~D~~g~y~eA~~~Y~~aie~l~~-------~~~~~~~n---------------------~~~k~~ir~K~~e 59 (76)
T cd02681 8 QFARLAVQRDQEGRYSEAVFYYKEAAQLLIY-------AEMAGTLN---------------------DSHLKTIQEKSNE 59 (76)
T ss_pred HHHHHHHHHHHccCHHHHHHHHHHHHHHHHH-------HHHhcCCC---------------------hHHHHHHHHHHHH
Confidence 34556667889999999998875 3332210 00111111 1223446788999
Q ss_pred HHHHHHhhhh
Q 014614 215 KLKKAEDLGE 224 (421)
Q Consensus 215 ~l~~aE~LGe 224 (421)
.|..||.|-+
T Consensus 60 Yl~RAE~Lk~ 69 (76)
T cd02681 60 YLDRAQALHQ 69 (76)
T ss_pred HHHHHHHHHH
Confidence 9988887754
No 57
>COG1592 Rubrerythrin [Energy production and conversion]
Probab=38.83 E-value=12 Score=34.71 Aligned_cols=26 Identities=19% Similarity=0.449 Sum_probs=17.8
Q ss_pred chhhhcccccccccCchhh--hhhhhhhh
Q 014614 269 LRVCDICGAFLSVYDSDRR--LADHFGGK 295 (421)
Q Consensus 269 l~VCeVCGA~Ls~~D~d~R--l~dH~~GK 295 (421)
..||.||| |+..+.++.. ||.|-..+
T Consensus 134 ~~vC~vCG-y~~~ge~P~~CPiCga~k~~ 161 (166)
T COG1592 134 VWVCPVCG-YTHEGEAPEVCPICGAPKEK 161 (166)
T ss_pred EEEcCCCC-CcccCCCCCcCCCCCChHHH
Confidence 68999999 6666677666 55554444
No 58
>PRK04778 septation ring formation regulator EzrA; Provisional
Probab=38.40 E-value=5.7e+02 Score=28.05 Aligned_cols=93 Identities=22% Similarity=0.224 Sum_probs=51.8
Q ss_pred HHHHHHHHHHHHhhhhcccccCCcHHHHHHHHHHHHHHHHHHHHHHHHHHHhhhcccCCCCCCCCCCCCCCCCCCCCCch
Q 014614 127 VLELSKQIKEKLKETDQYDYEGKTDLKIRALEVVEELRTKRADKQSMLLLDAFNKDRASLPQPLPNPPPLAPLPIPAPDA 206 (421)
Q Consensus 127 i~~l~~~I~~ll~e~E~lg~eG~vdea~~l~e~veeLk~ek~~~q~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 206 (421)
|..+.++|..+..+++.|-. .-..--..|++|+..-..+...+|...|.= .| +.+++.
T Consensus 114 l~~~e~~~~~i~~~l~~l~~-----~e~~nr~~v~~l~~~y~~~rk~ll~~~~~~--------G~---------a~~~le 171 (569)
T PRK04778 114 LDLIEEDIEQILEELQELLE-----SEEKNREEVEQLKDLYRELRKSLLANRFSF--------GP---------ALDELE 171 (569)
T ss_pred HHHHHHHHHHHHHHHHHHHH-----HHHHHHHHHHHHHHHHHHHHHHHHhcCccc--------cc---------hHHHHH
Confidence 44444555555555544421 111223457777777777766665433220 00 001111
Q ss_pred hhHHHHHHHHHHHHhhhhcCChHHHHHHHHHHHHh
Q 014614 207 RTQEMINEKLKKAEDLGEQGMVDEAQKALEEAEAL 241 (421)
Q Consensus 207 ~~~~~I~~~l~~aE~LGeeG~VdeAqk~~~eve~l 241 (421)
.-=..|.....+-++|-+.|+..+|..++..+..-
T Consensus 172 ~~l~~~e~~f~~f~~l~~~Gd~~~A~e~l~~l~~~ 206 (569)
T PRK04778 172 KQLENLEEEFSQFVELTESGDYVEAREILDQLEEE 206 (569)
T ss_pred HHHHHHHHHHHHHHHHhcCCCHHHHHHHHHHHHHH
Confidence 11245666677889999999999999888766544
No 59
>PRK03918 chromosome segregation protein; Provisional
Probab=37.11 E-value=6.1e+02 Score=28.92 Aligned_cols=12 Identities=33% Similarity=0.548 Sum_probs=6.0
Q ss_pred ccHHHHHHHHHH
Q 014614 60 HSLQLRKEYEEA 71 (421)
Q Consensus 60 Hde~lk~~YE~~ 71 (421)
|...+...|+..
T Consensus 449 ~~~el~~~~~~e 460 (880)
T PRK03918 449 HRKELLEEYTAE 460 (880)
T ss_pred hHHHHHHHHHHH
Confidence 444454566543
No 60
>PLN00204 CP12 gene family protein; Provisional
Probab=36.93 E-value=45 Score=29.60 Aligned_cols=44 Identities=20% Similarity=0.267 Sum_probs=35.6
Q ss_pred chhhHHHHHHHHHHHHhhhhcCCh-HHHHHHHHHHHHhhcccccc
Q 014614 205 DARTQEMINEKLKKAEDLGEQGMV-DEAQKALEEAEALKKLPARQ 248 (421)
Q Consensus 205 ~~~~~~~I~~~l~~aE~LGeeG~V-deAqk~~~eve~lk~~~~~~ 248 (421)
...|+++|.+.+++|.++-..|.. .++.....+||+|...+.-+
T Consensus 54 ~~~L~e~Ie~aI~eArevCa~g~~S~eCaaAWDeVEELqAeasHq 98 (126)
T PLN00204 54 PEGISEKVEKSIKEAEETCADDPASGECVAAWDEVEELSAAASHA 98 (126)
T ss_pred CccHHHHHHHHHHHHHHHHhCCCCCHHHHHHHHHHHHHHHHHHHc
Confidence 345899999999999999888744 48888999999998765544
No 61
>KOG2801 consensus Probable Rab-GAPs [Intracellular trafficking, secretion, and vesicular transport]
Probab=36.14 E-value=12 Score=37.94 Aligned_cols=22 Identities=55% Similarity=1.061 Sum_probs=16.5
Q ss_pred hhcccccccccCchhhhhhhhhhhh
Q 014614 272 CDICGAFLSVYDSDRRLADHFGGKL 296 (421)
Q Consensus 272 CeVCGA~Ls~~D~d~Rl~dH~~GK~ 296 (421)
=+||||||+ +|-..| +.||||+
T Consensus 401 kevcgayls-tdwser--nkfggkl 422 (559)
T KOG2801|consen 401 KEVCGAYLS-TDWSER--NKFGGKL 422 (559)
T ss_pred HHHhhHhcc-cchhhh--cccCcee
Confidence 389999999 444443 6899997
No 62
>PRK06266 transcription initiation factor E subunit alpha; Validated
Probab=35.60 E-value=32 Score=32.15 Aligned_cols=34 Identities=29% Similarity=0.668 Sum_probs=21.3
Q ss_pred hhhhcccccccccCchhhhhhhhhhhhhhcHHHHHHHHHHHHHHHh
Q 014614 270 RVCDICGAFLSVYDSDRRLADHFGGKLHLGYMQIRDKLAELQEERN 315 (421)
Q Consensus 270 ~VCeVCGA~Ls~~D~d~Rl~dH~~GK~H~Gy~~iR~~l~eL~e~~~ 315 (421)
..|++||..|.-.||..-+ ..|.+.+++|.+.+.
T Consensus 137 F~Cp~Cg~~L~~~dn~~~~------------~~l~~~I~~l~~~~~ 170 (178)
T PRK06266 137 FRCPQCGEMLEEYDNSELI------------KELKEQIKELEEELK 170 (178)
T ss_pred CcCCCCCCCCeecccHHHH------------HHHHHHHHHHHHHhc
Confidence 6677777766666665443 456666666766554
No 63
>KOG0107 consensus Alternative splicing factor SRp20/9G8 (RRM superfamily) [RNA processing and modification]
Probab=35.16 E-value=51 Score=31.20 Aligned_cols=12 Identities=25% Similarity=0.423 Sum_probs=9.3
Q ss_pred hhhhhhhhhhcH
Q 014614 289 ADHFGGKLHLGY 300 (421)
Q Consensus 289 ~dH~~GK~H~Gy 300 (421)
|+|++..-|+|+
T Consensus 103 ~~r~G~rg~~~r 114 (195)
T KOG0107|consen 103 CYRCGERGHIGR 114 (195)
T ss_pred cccCCCcccccc
Confidence 788888888874
No 64
>COG2178 Predicted RNA-binding protein of the translin family [Translation, ribosomal structure and biogenesis]
Probab=34.12 E-value=3e+02 Score=26.55 Aligned_cols=40 Identities=20% Similarity=0.200 Sum_probs=34.1
Q ss_pred hhhHHHHHHHHHHHHhhhhcCChHHHHHHHHHHHHhhccc
Q 014614 206 ARTQEMINEKLKKAEDLGEQGMVDEAQKALEEAEALKKLP 245 (421)
Q Consensus 206 ~~~~~~I~~~l~~aE~LGeeG~VdeAqk~~~eve~lk~~~ 245 (421)
-.+...|+++...+=+++-+|+|++|...+.=.|.+-...
T Consensus 115 lGl~D~vGELrR~~le~l~~~~~~~Ae~~~~~ME~lY~~L 154 (204)
T COG2178 115 LGLADAVGELRRHVLELLRKGSFEEAERFLKFMEKLYEEL 154 (204)
T ss_pred HHHHHHHHHHHHHHHHHHHhccHHHHHHHHHHHHHHHHHH
Confidence 3467899999999999999999999999888888886543
No 65
>cd02682 MIT_AAA_Arch MIT: domain contained within Microtubule Interacting and Trafficking molecules. This sub-family of MIT domains is found in mostly archaebacterial AAA-ATPases. The molecular function of the MIT domain is unclear.
Probab=34.01 E-value=1.7e+02 Score=23.68 Aligned_cols=62 Identities=18% Similarity=0.176 Sum_probs=37.7
Q ss_pred HHHhhhhcccccCCcHHHHHHHHHHHHHHHHHHHHHHHHHHHhhhcccCCCCCCCCCCCCCCCCCCCCCchhhHHHHHHH
Q 014614 136 EKLKETDQYDYEGKTDLKIRALEVVEELRTKRADKQSMLLLDAFNKDRASLPQPLPNPPPLAPLPIPAPDARTQEMINEK 215 (421)
Q Consensus 136 ~ll~e~E~lg~eG~vdea~~l~e~veeLk~ek~~~q~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~I~~~ 215 (421)
..+..|-+++.+|+..+|+...+..=++ .+.++..++ ..+....+..+|++.
T Consensus 8 ~~a~~AVe~D~~gr~~eAi~~Y~~aIe~--------L~q~~~~~p--------------------D~~~k~~yr~ki~eY 59 (75)
T cd02682 8 KYAINAVKAEKEGNAEDAITNYKKAIEV--------LSQIVKNYP--------------------DSPTRLIYEQMINEY 59 (75)
T ss_pred HHHHHHHHHHhcCCHHHHHHHHHHHHHH--------HHHHHHhCC--------------------ChHHHHHHHHHHHHH
Confidence 3445566788899999999887643322 122222210 112234478899999
Q ss_pred HHHHHhhhhc
Q 014614 216 LKKAEDLGEQ 225 (421)
Q Consensus 216 l~~aE~LGee 225 (421)
+..||.|-+.
T Consensus 60 ~~Rae~Lk~~ 69 (75)
T cd02682 60 KRRIEVLEKQ 69 (75)
T ss_pred HHHHHHHHHH
Confidence 9888877554
No 66
>COG2260 Predicted Zn-ribbon RNA-binding protein [Translation, ribosomal structure and biogenesis]
Probab=32.39 E-value=32 Score=26.65 Aligned_cols=37 Identities=24% Similarity=0.526 Sum_probs=24.1
Q ss_pred cchhhhcccccccccCchhhhhhhhhhhhhhc----------HHHHHHHHHH
Q 014614 268 KLRVCDICGAFLSVYDSDRRLADHFGGKLHLG----------YMQIRDKLAE 309 (421)
Q Consensus 268 kl~VCeVCGA~Ls~~D~d~Rl~dH~~GK~H~G----------y~~iR~~l~e 309 (421)
.|..|.-||.|-. +=.|-|+||+.++. |.++|-+|++
T Consensus 4 ~~rkC~~cg~YTL-----ke~Cp~CG~~t~~~~PprFSPeD~y~kYR~~lkk 50 (59)
T COG2260 4 LIRKCPKCGRYTL-----KEKCPVCGGDTKVPHPPRFSPEDKYGKYRRELKK 50 (59)
T ss_pred hhhcCcCCCceee-----cccCCCCCCccccCCCCCCCccchHHHHHHHHHH
Confidence 4567777776632 23677777777665 7777766654
No 67
>KOG0996 consensus Structural maintenance of chromosome protein 4 (chromosome condensation complex Condensin, subunit C) [Chromatin structure and dynamics; Cell cycle control, cell division, chromosome partitioning]
Probab=31.49 E-value=9.4e+02 Score=29.23 Aligned_cols=26 Identities=27% Similarity=0.343 Sum_probs=16.5
Q ss_pred hHHHHHHHHHHHHHhhhhcccccCCc
Q 014614 125 PEVLELSKQIKEKLKETDQYDYEGKT 150 (421)
Q Consensus 125 eei~~l~~~I~~ll~e~E~lg~eG~v 150 (421)
..+.++.++|.++-+++++++++|-.
T Consensus 858 ~~l~~~~~~ie~l~kE~e~~qe~~~K 883 (1293)
T KOG0996|consen 858 KRLKELEEQIEELKKEVEELQEKAAK 883 (1293)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHhhhH
Confidence 34555566777777777777655544
No 68
>PRK01156 chromosome segregation protein; Provisional
Probab=31.16 E-value=6.2e+02 Score=29.15 Aligned_cols=12 Identities=8% Similarity=0.119 Sum_probs=5.6
Q ss_pred hhhccccccccc
Q 014614 271 VCDICGAFLSVY 282 (421)
Q Consensus 271 VCeVCGA~Ls~~ 282 (421)
+|+||+..++-.
T Consensus 451 ~~~~Cp~c~~~~ 462 (895)
T PRK01156 451 GQSVCPVCGTTL 462 (895)
T ss_pred cCCCCCCCCCcC
Confidence 455555444433
No 69
>KOG2202 consensus U2 snRNP splicing factor, small subunit, and related proteins [RNA processing and modification]
Probab=30.76 E-value=2.3e+02 Score=28.31 Aligned_cols=208 Identities=19% Similarity=0.227 Sum_probs=0.0
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHhhhcccCCCCCCCCCCCCC------CCCCCCCCchhhHHHHHHHHHHHH-hhhh
Q 014614 152 LKIRALEVVEELRTKRADKQSMLLLDAFNKDRASLPQPLPNPPPL------APLPIPAPDARTQEMINEKLKKAE-DLGE 224 (421)
Q Consensus 152 ea~~l~e~veeLk~ek~~~q~~~~~~~~~~~~~~~~~~~~~~~~~------~~~~~~~~~~~~~~~I~~~l~~aE-~LGe 224 (421)
+|...+..+-.+..+-.-.|-.+|...|+ .|.+.+. ......+...-.++....+..+-+ +.||
T Consensus 25 gacR~gdrcsR~h~kpt~s~t~ll~nmyq---------~P~~~~~~~d~~~~~~~de~~q~~~defyEd~f~E~~~kygE 95 (260)
T KOG2202|consen 25 GACRHGDRCSRLHEKPTFSQTVLLKNMYQ---------NPENSWERRDAQGQFLTDEELQRHEDEFYEDVFTELEDKYGE 95 (260)
T ss_pred cccccccHHHHhhcccccchHHHHHHHHh---------CCCCCchhhhhccccccHHHHHHHHHHHHHHHHHHHHHHhhh
Q ss_pred cCChHHHH------------HHHHHHHHhhccccccCCcccCCcccccccccccccchhhhcccccccccCchhhhhhhh
Q 014614 225 QGMVDEAQ------------KALEEAEALKKLPARQEPTLDSSKYTAADVRITDQKLRVCDICGAFLSVYDSDRRLADHF 292 (421)
Q Consensus 225 eG~VdeAq------------k~~~eve~lk~~~~~~e~~~~~~~~~~~~~~~~~qkl~VCeVCGA~Ls~~D~d~Rl~dH~ 292 (421)
-.+++-+- +...+.+..++ +..-+-.....+-.+|+.|- ++|....+|.-|
T Consensus 96 iee~~Vc~Nl~~hl~GNVYV~f~~Ee~ae~a-------------~~~lnnRw~~G~pi~ae~~p----vT~~rea~C~~~ 158 (260)
T KOG2202|consen 96 IEELNVCDNLGDHLVGNVYVKFRSEEDAEAA-------------LEDLNNRWYNGRPIHAELSP----VTDFREAICGQF 158 (260)
T ss_pred hhhhhhhcccchhhhhhhhhhcccHHHHHHH-------------HHHHcCccccCCcceeeecC----cCchhhhhhccc
Q ss_pred hhhh-----hhcHHHHHHHHHHHHHHHhhhcccccccccccccCCCCCCCCCccccccccccccCCCCCCCCCCcCCCCc
Q 014614 293 GGKL-----HLGYMQIRDKLAELQEERNKKHKDRCDDRRSKERSKDQDREPSRDREKEASRDRDRGDSRDRGRDYDRSSR 367 (421)
Q Consensus 293 ~GK~-----H~Gy~~iR~~l~eL~e~~~~~~k~r~~~rr~~ers~dr~r~~~~~r~r~~~rdr~r~~~r~r~r~~~r~~~ 367 (421)
.=-. |.+|+-.+..-..|...+-......- ...+++.++++ .|+.+.+++.++.. .+.++-..+.++..+
T Consensus 159 e~~~C~rG~~CnFmH~k~~sr~L~r~l~~~~~~~~---~~~sra~~~~~-~s~~r~r~~~~~~~-~~~~~~~~~~~~~~~ 233 (260)
T KOG2202|consen 159 ERTECSRGGACNFMHVKRLSRSLRRELYGRQRKRY---PRRSRARARER-DSRPRYRSPGRRVV-GRGRGDGSRRDRNTR 233 (260)
T ss_pred ccccCCCCCcCcchhhhhhhHHHHHHhhhhhhccc---ccccccccccC-CCCCCccCcccccC-CCCcCCCcCccccCc
Q ss_pred ccccCC-CCCccccccccccCCCC
Q 014614 368 DRDRYY-DRDRRYDRERDRDSDRH 390 (421)
Q Consensus 368 ~rdr~~-~r~r~~~r~r~r~~~r~ 390 (421)
.+++.. ...++..+.-.+.++++
T Consensus 234 ~r~rg~~~~Rr~~~~~~~~~~~~~ 257 (260)
T KOG2202|consen 234 ERSRGHGGERRSGRRGGTGLQGRY 257 (260)
T ss_pred cCcccccccccccccCCccccccc
No 70
>PF14282 FlxA: FlxA-like protein
Probab=30.55 E-value=1e+02 Score=26.24 Aligned_cols=51 Identities=20% Similarity=0.248 Sum_probs=27.7
Q ss_pred chHHHHHHHHHHHHHhhhhcccccCC--cHHH----HHHHHHHHHHHHHHHHHHHHH
Q 014614 124 TPEVLELSKQIKEKLKETDQYDYEGK--TDLK----IRALEVVEELRTKRADKQSML 174 (421)
Q Consensus 124 ~eei~~l~~~I~~ll~e~E~lg~eG~--vdea----~~l~e~veeLk~ek~~~q~~~ 174 (421)
...|..|..+|..|..++..|...+. .+++ ..|..+|..|....+.+|...
T Consensus 18 ~~~I~~L~~Qi~~Lq~ql~~l~~~~~~~~e~k~~q~q~Lq~QI~~LqaQI~qlq~q~ 74 (106)
T PF14282_consen 18 DSQIEQLQKQIKQLQEQLQELSQDSDLDAEQKQQQIQLLQAQIQQLQAQIAQLQSQQ 74 (106)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHcccCCCHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 45677777777777777777766322 2222 223334555555555444443
No 71
>KOG2416 consensus Acinus (induces apoptotic chromatin condensation) [Chromatin structure and dynamics]
Probab=30.10 E-value=20 Score=39.47 Aligned_cols=12 Identities=50% Similarity=0.581 Sum_probs=8.1
Q ss_pred Hhhh-hcCChHHH
Q 014614 220 EDLG-EQGMVDEA 231 (421)
Q Consensus 220 E~LG-eeG~VdeA 231 (421)
+.|| .-|.|++.
T Consensus 463 elL~rtgg~Vee~ 475 (718)
T KOG2416|consen 463 ELLGRTGGNVEEF 475 (718)
T ss_pred HHHhhccCchHHH
Confidence 3456 67788777
No 72
>COG2093 DNA-directed RNA polymerase, subunit E'' [Transcription]
Probab=29.78 E-value=20 Score=28.09 Aligned_cols=26 Identities=27% Similarity=0.810 Sum_probs=18.8
Q ss_pred chhhhcccc---------cccccCchh-hhhhhhhh
Q 014614 269 LRVCDICGA---------FLSVYDSDR-RLADHFGG 294 (421)
Q Consensus 269 l~VCeVCGA---------~Ls~~D~d~-Rl~dH~~G 294 (421)
..+|+|||. ||++.|.+. =+|.-++-
T Consensus 18 ~e~CP~Cgs~~~te~W~G~~iIidpe~SeIAkrlgi 53 (64)
T COG2093 18 TEICPVCGSTDLTEEWFGLLIIIDPEKSEIAKRLGI 53 (64)
T ss_pred CccCCCCCCcccchhhccEEEEEcCcHHHHHHHhCC
Confidence 478999997 578888887 35555443
No 73
>PF12854 PPR_1: PPR repeat
Probab=29.74 E-value=54 Score=21.80 Aligned_cols=18 Identities=33% Similarity=0.492 Sum_probs=15.3
Q ss_pred HhhhhcCChHHHHHHHHH
Q 014614 220 EDLGEQGMVDEAQKALEE 237 (421)
Q Consensus 220 E~LGeeG~VdeAqk~~~e 237 (421)
.-+...|+|++|.+++.+
T Consensus 15 ~~~Ck~G~~~~A~~l~~~ 32 (34)
T PF12854_consen 15 DGYCKAGRVDEAFELFDE 32 (34)
T ss_pred HHHHHCCCHHHHHHHHHh
Confidence 348899999999999865
No 74
>PF08792 A2L_zn_ribbon: A2L zinc ribbon domain; InterPro: IPR014900 This zinc ribbon protein is found associated with some viral A2L transcription factors [].
Probab=29.66 E-value=17 Score=24.83 Aligned_cols=20 Identities=30% Similarity=0.564 Sum_probs=13.0
Q ss_pred chhhhcccccccc-cCchhhh
Q 014614 269 LRVCDICGAFLSV-YDSDRRL 288 (421)
Q Consensus 269 l~VCeVCGA~Ls~-~D~d~Rl 288 (421)
+.+|.+||+.+.+ .+.+..+
T Consensus 3 ~~~C~~C~~~~i~~~~~~~~~ 23 (33)
T PF08792_consen 3 LKKCSKCGGNGIVNKEDDYEV 23 (33)
T ss_pred ceEcCCCCCCeEEEecCCeEE
Confidence 4678888887777 4444443
No 75
>PF02132 RecR: RecR protein; InterPro: IPR023628 The bacterial protein RecR seems to play a role in a recombinational process of DNA repair []. It may act with RecF and RecO. RecR's structure consists of a N-terminal helix-hairpin-helix (HhH) motif, followed by a Cys4 zinc-finger motif, a Toprim domain and a Walker B motif []. This entry represents the C4-type zinc finger.; PDB: 1VDD_D 2V1C_B.
Probab=29.26 E-value=38 Score=23.88 Aligned_cols=10 Identities=40% Similarity=1.378 Sum_probs=4.1
Q ss_pred chhhhccccc
Q 014614 269 LRVCDICGAF 278 (421)
Q Consensus 269 l~VCeVCGA~ 278 (421)
...|.+||.|
T Consensus 17 i~~C~~C~nl 26 (41)
T PF02132_consen 17 IKFCSICGNL 26 (41)
T ss_dssp -EE-SSS--E
T ss_pred CCccCCCCCc
Confidence 4577777754
No 76
>PF10979 DUF2786: Protein of unknown function (DUF2786); InterPro: IPR024498 This domain is found in proteins that have no known function.
Probab=28.56 E-value=1.3e+02 Score=21.73 Aligned_cols=34 Identities=35% Similarity=0.335 Sum_probs=26.2
Q ss_pred hHHHHHHHHHHHHhhhhcCChHHHHHHHHHHHHhhc
Q 014614 208 TQEMINEKLKKAEDLGEQGMVDEAQKALEEAEALKK 243 (421)
Q Consensus 208 ~~~~I~~~l~~aE~LGeeG~VdeAqk~~~eve~lk~ 243 (421)
+-++|.++|..|+.-| +.-.||+..+..+..|-.
T Consensus 3 il~kI~kLLalA~~~~--~~~~EA~~A~~kAq~Lm~ 36 (43)
T PF10979_consen 3 ILEKIRKLLALAESTG--SNEHEAEAALAKAQRLMA 36 (43)
T ss_pred HHHHHHHHHHHhhCCC--CCHHHHHHHHHHHHHHHH
Confidence 4578899998887433 666799999988888854
No 77
>PF13894 zf-C2H2_4: C2H2-type zinc finger; PDB: 2ELX_A 2EPP_A 2DLK_A 1X6H_A 2EOU_A 2EMB_A 2GQJ_A 2CSH_A 2WBT_B 2ELM_A ....
Probab=27.68 E-value=21 Score=20.83 Aligned_cols=19 Identities=37% Similarity=0.838 Sum_probs=10.9
Q ss_pred hhhcccccccccCchhhhhhhh
Q 014614 271 VCDICGAFLSVYDSDRRLADHF 292 (421)
Q Consensus 271 VCeVCGA~Ls~~D~d~Rl~dH~ 292 (421)
.|++||.- +.+..-|..|+
T Consensus 2 ~C~~C~~~---~~~~~~l~~H~ 20 (24)
T PF13894_consen 2 QCPICGKS---FRSKSELRQHM 20 (24)
T ss_dssp E-SSTS-E---ESSHHHHHHHH
T ss_pred CCcCCCCc---CCcHHHHHHHH
Confidence 69999964 44555566665
No 78
>KOG0996 consensus Structural maintenance of chromosome protein 4 (chromosome condensation complex Condensin, subunit C) [Chromatin structure and dynamics; Cell cycle control, cell division, chromosome partitioning]
Probab=26.95 E-value=8.7e+02 Score=29.53 Aligned_cols=19 Identities=37% Similarity=0.469 Sum_probs=9.0
Q ss_pred hHHHHHHHHHHHHhhhhcC
Q 014614 208 TQEMINEKLKKAEDLGEQG 226 (421)
Q Consensus 208 ~~~~I~~~l~~aE~LGeeG 226 (421)
++++|.++-.+.++|+++|
T Consensus 863 ~~~~ie~l~kE~e~~qe~~ 881 (1293)
T KOG0996|consen 863 LEEQIEELKKEVEELQEKA 881 (1293)
T ss_pred HHHHHHHHHHHHHHHHHhh
Confidence 3444555545555554444
No 79
>PRK06424 transcription factor; Provisional
Probab=26.92 E-value=23 Score=32.10 Aligned_cols=22 Identities=18% Similarity=0.549 Sum_probs=14.6
Q ss_pred hhccccccc------ccCchhhhhhhhh
Q 014614 272 CDICGAFLS------VYDSDRRLADHFG 293 (421)
Q Consensus 272 CeVCGA~Ls------~~D~d~Rl~dH~~ 293 (421)
||+||+.+. |-.+.-.+|+-|.
T Consensus 3 CE~CG~~~~~~~~v~ieg~~l~vC~~Ca 30 (144)
T PRK06424 3 CEMCGKKVPQTTKVMIDGAILNVCDDCA 30 (144)
T ss_pred ccccCcccCCceEEEEcCeeeehhHHHH
Confidence 999998654 3344556666665
No 80
>PF13248 zf-ribbon_3: zinc-ribbon domain
Probab=26.91 E-value=26 Score=22.32 Aligned_cols=23 Identities=35% Similarity=0.677 Sum_probs=15.0
Q ss_pred hhhhcccccccccCchhhhhhhhhhh
Q 014614 270 RVCDICGAFLSVYDSDRRLADHFGGK 295 (421)
Q Consensus 270 ~VCeVCGA~Ls~~D~d~Rl~dH~~GK 295 (421)
.+|.-||+. ++.+.+.+.+.|-+
T Consensus 3 ~~Cp~Cg~~---~~~~~~fC~~CG~~ 25 (26)
T PF13248_consen 3 MFCPNCGAE---IDPDAKFCPNCGAK 25 (26)
T ss_pred CCCcccCCc---CCcccccChhhCCC
Confidence 468888873 45566677666654
No 81
>PF05191 ADK_lid: Adenylate kinase, active site lid; InterPro: IPR007862 Adenylate kinases (ADK; 2.7.4.3 from EC) are phosphotransferases that catalyse the Mg-dependent reversible conversion of ATP and AMP to two molecules of ADP, an essential reaction for many processes in living cells. In large variants of adenylate kinase, the AMP and ATP substrates are buried in a domain that undergoes conformational changes from an open to a closed state when bound to substrate; the ligand is then contained within a highly specific environment required for catalysis. Adenylate kinase is a 3-domain protein consisting of a large central CORE domain flanked by a LID domain on one side and the AMP-binding NMPbind domain on the other []. The LID domain binds ATP and covers the phosphates at the active site. The substrates first bind the CORE domain, followed by closure of the active site by the LID and NMPbind domains. Comparisons of adenylate kinases have revealed a particular divergence in the active site lid. In some organisms, particularly the Gram-positive bacteria, residues in the lid domain have been mutated to cysteines and these cysteine residues (two CX(n)C motifs) are responsible for the binding of a zinc ion. The bound zinc ion in the lid domain is clearly structurally homologous to Zinc-finger domains. However, it is unclear whether the adenylate kinase lid is a novel zinc-finger DNA/RNA binding domain, or that the lid bound zinc serves a purely structural function [].; GO: 0004017 adenylate kinase activity; PDB: 3BE4_A 2OSB_B 2ORI_A 2EU8_A 3DL0_A 1P3J_A 2QAJ_A 2OO7_A 2P3S_A 3DKV_A ....
Probab=26.67 E-value=25 Score=24.39 Aligned_cols=14 Identities=43% Similarity=0.726 Sum_probs=10.8
Q ss_pred ccchhhhccccccc
Q 014614 267 QKLRVCDICGAFLS 280 (421)
Q Consensus 267 qkl~VCeVCGA~Ls 280 (421)
+.--+|++||.-|+
T Consensus 19 ~~~~~Cd~cg~~L~ 32 (36)
T PF05191_consen 19 KVEGVCDNCGGELV 32 (36)
T ss_dssp SSTTBCTTTTEBEB
T ss_pred CCCCccCCCCCeeE
Confidence 34579999998765
No 82
>PF06397 Desulfoferrod_N: Desulfoferrodoxin, N-terminal domain; InterPro: IPR004462 This domain is found as essentially the full length of desulforedoxin, a 37-residue homodimeric non-haem iron protein. It is also found as the N-terminal domain of desulfoferrodoxin (rbo), a homodimeric non-haem iron protein with 2 Fe atoms per monomer in different oxidation states. This domain binds the ferric rather than the ferrous Fe of desulfoferrodoxin. Neelaredoxin, a monomeric blue non-haem iron protein, lacks this domain.; GO: 0005506 iron ion binding; PDB: 1DFX_A 1VZI_B 2JI2_D 1VZH_B 2JI3_C 2JI1_C 1VZG_A 1CFW_A 2LK5_B 1DHG_B ....
Probab=26.61 E-value=18 Score=25.31 Aligned_cols=16 Identities=25% Similarity=0.733 Sum_probs=9.5
Q ss_pred cchhhhcccccccccC
Q 014614 268 KLRVCDICGAFLSVYD 283 (421)
Q Consensus 268 kl~VCeVCGA~Ls~~D 283 (421)
+.+.|++||.++-+..
T Consensus 5 ~~YkC~~CGniVev~~ 20 (36)
T PF06397_consen 5 EFYKCEHCGNIVEVVH 20 (36)
T ss_dssp EEEE-TTT--EEEEEE
T ss_pred cEEEccCCCCEEEEEE
Confidence 4689999999876543
No 83
>PF09237 GAGA: GAGA factor; InterPro: IPR015318 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. Members of this entry bind to a 5'-GAGAG-3' DNA consensus binding site, and contain a Cys2-His2 zinc finger core as well as an N-terminal extension containing two highly basic regions. The zinc finger core binds in the DNA major groove and recognises the first three GAG bases of the consensus in a manner similar to that seen in other classical zinc finger-DNA complexes. The second basic region forms a helix that interacts in the major groove recognising the last G of the consensus, while the first basic region wraps around the DNA in the minor groove and recognises the A in the fourth position of the consensus sequence []. More information about these proteins can be found at Protein of the Month: Zinc Fingers [].; PDB: 1YUI_A 1YUJ_A.
Probab=26.56 E-value=18 Score=27.45 Aligned_cols=18 Identities=39% Similarity=0.741 Sum_probs=10.5
Q ss_pred hhhhcccccccccCchhh
Q 014614 270 RVCDICGAFLSVYDSDRR 287 (421)
Q Consensus 270 ~VCeVCGA~Ls~~D~d~R 287 (421)
-+|.||||.++..-|-+|
T Consensus 25 atCP~C~a~~~~srnLrR 42 (54)
T PF09237_consen 25 ATCPICGAVIRQSRNLRR 42 (54)
T ss_dssp EE-TTT--EESSHHHHHH
T ss_pred CCCCcchhhccchhhHHH
Confidence 589999998886544444
No 84
>KOG4727 consensus U1-like Zn-finger protein [General function prediction only]
Probab=26.44 E-value=57 Score=30.62 Aligned_cols=32 Identities=34% Similarity=0.581 Sum_probs=22.6
Q ss_pred ccccchhhhcccccccccCchhhhhhhhhhhhhhc
Q 014614 265 TDQKLRVCDICGAFLSVYDSDRRLADHFGGKLHLG 299 (421)
Q Consensus 265 ~~qkl~VCeVCGA~Ls~~D~d~Rl~dH~~GK~H~G 299 (421)
.++--+-|+||.+. +-|+- -.-||+.||-|.-
T Consensus 71 sq~~GyyCdVCdcv--vKDSi-nflDHiNgKkHqr 102 (193)
T KOG4727|consen 71 SQKGGYYCDVCDCV--VKDSI-NFLDHINGKKHQR 102 (193)
T ss_pred cccCceeeeeccee--ehhhH-HHHHHhccHHHHH
Confidence 34445899999964 44443 3569999999954
No 85
>PRK06835 DNA replication protein DnaC; Validated
Probab=26.08 E-value=2.7e+02 Score=28.51 Aligned_cols=45 Identities=13% Similarity=-0.022 Sum_probs=23.9
Q ss_pred CCchhhHHHHHHHHHHHHhhhhcCC---hHHHHHHHHHHHHhhccccc
Q 014614 203 APDARTQEMINEKLKKAEDLGEQGM---VDEAQKALEEAEALKKLPAR 247 (421)
Q Consensus 203 ~~~~~~~~~I~~~l~~aE~LGeeG~---VdeAqk~~~eve~lk~~~~~ 247 (421)
|....|..+|..+-.+.-.+.-.|. -+....+-+++..|..++.+
T Consensus 36 P~~~~id~~i~~~~~~~~~~~l~~~~~~~~~~~~l~~~~~~l~~~~~~ 83 (329)
T PRK06835 36 PEIAEIDDEIAKLGIKLSRAILKNPDKKEETLKELKEKITDLRVKKAE 83 (329)
T ss_pred ccHHHHHHHHHHHHHHHHHHHhcCCCccHHHHHHHHHHHHHHHHHHHH
Confidence 3456677888776443333333444 33334555666666655443
No 86
>PRK14151 heat shock protein GrpE; Provisional
Probab=25.71 E-value=1.3e+02 Score=28.22 Aligned_cols=91 Identities=14% Similarity=0.158 Sum_probs=56.0
Q ss_pred CCCCchhhHHHHHHHHHHHHhhhhcCChHHHHHHHHHHHHhhccccccCCcccCCcccccccccccccchhhhccccccc
Q 014614 201 IPAPDARTQEMINEKLKKAEDLGEQGMVDEAQKALEEAEALKKLPARQEPTLDSSKYTAADVRITDQKLRVCDICGAFLS 280 (421)
Q Consensus 201 ~~~~~~~~~~~I~~~l~~aE~LGeeG~VdeAqk~~~eve~lk~~~~~~e~~~~~~~~~~~~~~~~~qkl~VCeVCGA~Ls 280 (421)
.++....++++|.++-+++++|- +.-+.+.++.+.+++-. +.+.. .-.+.-+-.++..+|-
T Consensus 18 ~~~~~~~l~~~i~~le~e~~el~-----d~~lR~~Ae~eN~rkR~-~kE~e-------------~~~~~a~~~~~~~LLp 78 (176)
T PRK14151 18 EAAAGDDLTARVQELEEQLAAAK-----DQSLRAAADLQNVRRRA-EQDVE-------------KAHKFALEKFAGDLLP 78 (176)
T ss_pred cccchhhHHHHHHHHHHHHHHHH-----HHHHHHHHHHHHHHHHH-HHHHH-------------HHHHHHHHHHHHHHhh
Confidence 34455667888888777777774 45677777777776421 11110 0112345667788999
Q ss_pred ccCchhhhhhhhh------hhhhhcHHHHHHHHHHH
Q 014614 281 VYDSDRRLADHFG------GKLHLGYMQIRDKLAEL 310 (421)
Q Consensus 281 ~~D~d~Rl~dH~~------GK~H~Gy~~iR~~l~eL 310 (421)
+.|+=.|--.|.. ..++-|+..|...+...
T Consensus 79 v~DnlerAl~~~~~~~~~~~~~~~Gv~mi~k~l~~~ 114 (176)
T PRK14151 79 VVDSLERGLELSSADDEAIKPMREGVELTLKMFQDT 114 (176)
T ss_pred HHhHHHHHHhcccccchhHHHHHHHHHHHHHHHHHH
Confidence 9999999666643 23566766665555444
No 87
>PHA02562 46 endonuclease subunit; Provisional
Probab=25.00 E-value=8.7e+02 Score=25.97 Aligned_cols=14 Identities=29% Similarity=0.356 Sum_probs=10.3
Q ss_pred chhhhccccccccc
Q 014614 269 LRVCDICGAFLSVY 282 (421)
Q Consensus 269 l~VCeVCGA~Ls~~ 282 (421)
..+|+.||.-+...
T Consensus 284 ~~~Cp~C~~~~~~~ 297 (562)
T PHA02562 284 GGVCPTCTQQISEG 297 (562)
T ss_pred CCCCCCCCCcCCCc
Confidence 35999999776543
No 88
>COG3809 Uncharacterized protein conserved in bacteria [Function unknown]
Probab=24.92 E-value=25 Score=28.86 Aligned_cols=14 Identities=36% Similarity=0.814 Sum_probs=10.9
Q ss_pred chhhhccccccccc
Q 014614 269 LRVCDICGAFLSVY 282 (421)
Q Consensus 269 l~VCeVCGA~Ls~~ 282 (421)
|.+|+|||+-|...
T Consensus 1 ~llCP~C~v~l~~~ 14 (88)
T COG3809 1 MLLCPICGVELVMS 14 (88)
T ss_pred CcccCcCCceeeee
Confidence 46899999877654
No 89
>PRK02224 chromosome segregation protein; Provisional
Probab=24.57 E-value=1.1e+03 Score=26.99 Aligned_cols=11 Identities=27% Similarity=0.652 Sum_probs=8.6
Q ss_pred hhhhccccccc
Q 014614 270 RVCDICGAFLS 280 (421)
Q Consensus 270 ~VCeVCGA~Ls 280 (421)
.+|++||.-+.
T Consensus 452 ~~Cp~C~r~~~ 462 (880)
T PRK02224 452 GKCPECGQPVE 462 (880)
T ss_pred ccCCCCCCcCC
Confidence 58999998553
No 90
>PF07967 zf-C3HC: C3HC zinc finger-like ; InterPro: IPR012935 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 zinc-finger like domain is distributed throughout the eukaryotic kingdom in NIPA (Nuclear interacting partner of ALK) and other proteins. NIPA is thought to perform an antiapoptotic role in nucleophosmin-anaplastic lymphoma kinase (ALK) mediated signalling events []. The domain is often repeated, with the second domain usually containing a large insert (approximately 90 residues) after the first three cysteine residues. The Schizosaccharomyces pombe protein containing this domain (O94506 from SWISSPROT) is involved in mRNA export from the nucleus []. More information about these proteins can be found at Protein of the Month: Zinc Fingers [].; GO: 0008270 zinc ion binding, 0005634 nucleus
Probab=24.32 E-value=28 Score=30.65 Aligned_cols=17 Identities=35% Similarity=0.716 Sum_probs=14.5
Q ss_pred cccchhhhccccccccc
Q 014614 266 DQKLRVCDICGAFLSVY 282 (421)
Q Consensus 266 ~qkl~VCeVCGA~Ls~~ 282 (421)
++-+-.|+.||+.|++.
T Consensus 40 ~~d~l~C~~C~~~l~~~ 56 (133)
T PF07967_consen 40 SKDMLKCESCGARLCVK 56 (133)
T ss_pred CCCEEEeCCCCCEEEEe
Confidence 35578999999999988
No 91
>KOG4602 consensus Nanos and related proteins [General function prediction only]
Probab=24.09 E-value=27 Score=34.72 Aligned_cols=13 Identities=54% Similarity=0.979 Sum_probs=10.3
Q ss_pred hhhhcccccccccCch
Q 014614 270 RVCDICGAFLSVYDSD 285 (421)
Q Consensus 270 ~VCeVCGA~Ls~~D~d 285 (421)
+||.|||| .+|+-
T Consensus 269 YVCPiCGA---TgDnA 281 (318)
T KOG4602|consen 269 YVCPICGA---TGDNA 281 (318)
T ss_pred hcCccccc---cCCcc
Confidence 79999998 46654
No 92
>PF05741 zf-nanos: Nanos RNA binding domain; InterPro: IPR024161 Nanos is a highly conserved RNA-binding protein in higher eukaryotes and functions as a key regulatory protein in translational control using a 3' untranslated region during the development and maintenance of germ cells. Nanos comprises a non-conserved amino-terminus and highly conserved carboxy- terminal regions. The C-terminal region has two conserved Cys-Cys-His-Cys (CCHC)-type zinc-finger motifs that are indispensable for nanos function [, , ]. The structure of the nanos-type zinc finger is composed of two independent zinc-finger (ZF) lobes, the N-terminal ZF1 and the C-terminal ZF2, which are connected by a linker helix []. These lobes create a large cleft. Zinc ions in ZF1 and ZF2 are bound to the CCHC motif by tetrahedral coordination.; PDB: 3ALR_B.
Probab=23.33 E-value=31 Score=26.34 Aligned_cols=9 Identities=67% Similarity=1.287 Sum_probs=3.4
Q ss_pred chhhhcccc
Q 014614 269 LRVCDICGA 277 (421)
Q Consensus 269 l~VCeVCGA 277 (421)
.+||++|||
T Consensus 33 ~y~Cp~CgA 41 (55)
T PF05741_consen 33 KYVCPICGA 41 (55)
T ss_dssp G---TTT--
T ss_pred cCcCCCCcC
Confidence 479999998
No 93
>PF14559 TPR_19: Tetratricopeptide repeat; PDB: 2R5S_A 3QDN_B 3QOU_A 3ASG_A 3ASD_A 3AS5_A 3AS4_A 3ASH_B 3FP3_A 3LCA_A ....
Probab=23.18 E-value=99 Score=22.66 Aligned_cols=26 Identities=35% Similarity=0.302 Sum_probs=18.9
Q ss_pred HHHHHHhhhhcCChHHHHHHHHHHHH
Q 014614 215 KLKKAEDLGEQGMVDEAQKALEEAEA 240 (421)
Q Consensus 215 ~l~~aE~LGeeG~VdeAqk~~~eve~ 240 (421)
.+.-|.-+-..|++++|..+++.+-.
T Consensus 28 ~~~la~~~~~~g~~~~A~~~l~~~~~ 53 (68)
T PF14559_consen 28 RLLLAQCYLKQGQYDEAEELLERLLK 53 (68)
T ss_dssp HHHHHHHHHHTT-HHHHHHHHHCCHG
T ss_pred HHHHHHHHHHcCCHHHHHHHHHHHHH
Confidence 34557789999999999998755443
No 94
>PF07535 zf-DBF: DBF zinc finger; InterPro: IPR006572 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. In eukaryotes, initiation of DNA replication requires the assembly of pre-replication complexes (pre-RCs) on chromatin during the G1 phase. In the S phase, pre-RCs are activated by two protein kinases, Cdk2 and Cdc7, which results in the loading of replication factors and the unwinding of replication origins by the MCM helicase complex []. Cdc7 is a serine/threonine kinase that is conserved from yeast to human. It is regulated by its association with a regulatory subunit, the Dbf4 protein. This complex is often referred to as DDK (Dbf4-dependent kinase) []. DBF4 contains an N-terminal BRCT domain and a C-terminal conserved region that could potentially coordinate one zinc atom, the DBF4-type zinc finger. This entry represents the zinc finger, which is important for the interaction with Cdc7 [, ]. More information about these proteins can be found at Protein of the Month: Zinc Fingers [].; GO: 0003676 nucleic acid binding, 0008270 zinc ion binding
Probab=22.90 E-value=50 Score=24.59 Aligned_cols=42 Identities=24% Similarity=0.437 Sum_probs=28.6
Q ss_pred cchhhhcccccccccCchhhhhhhhhhhhhhcHHHHHHHHHHHHHHHh
Q 014614 268 KLRVCDICGAFLSVYDSDRRLADHFGGKLHLGYMQIRDKLAELQEERN 315 (421)
Q Consensus 268 kl~VCeVCGA~Ls~~D~d~Rl~dH~~GK~H~Gy~~iR~~l~eL~e~~~ 315 (421)
+--.||+|-.- ++ =|..|+.+..|..|+.=-.-+..|...+.
T Consensus 4 k~GYCE~C~~k---y~---~l~~Hi~s~~Hr~FA~~~~Nf~~lD~li~ 45 (49)
T PF07535_consen 4 KPGYCENCRVK---YD---DLEEHIQSEKHRKFAENDSNFKELDSLIS 45 (49)
T ss_pred CCccCccccch---hh---hHHHHhCCHHHHHHHcCcccHHHHHHHHH
Confidence 44689999863 32 38999999999998754444444444433
No 95
>TIGR03826 YvyF flagellar operon protein TIGR03826. This gene is found in flagellar operons of Bacillus-related organisms. Its function has not been determined and an official gene symbol has not been assigned, although the gene is designated yvyF in B. subtilus. A tentative assignment as a regulator is suggested in the NCBI record GI:16080597.
Probab=22.84 E-value=44 Score=30.15 Aligned_cols=29 Identities=28% Similarity=0.481 Sum_probs=23.4
Q ss_pred hhhhcccccccccCchhhhhhhhhhhhhhcHHH
Q 014614 270 RVCDICGAFLSVYDSDRRLADHFGGKLHLGYMQ 302 (421)
Q Consensus 270 ~VCeVCGA~Ls~~D~d~Rl~dH~~GK~H~Gy~~ 302 (421)
..|+.||+.+..+ |+|+-+.++++-++..
T Consensus 82 ~~CE~CG~~I~~G----r~C~~C~~~l~~~l~~ 110 (137)
T TIGR03826 82 YPCERCGTSIREG----RLCDSCAGELKRQLSA 110 (137)
T ss_pred CcccccCCcCCCC----CccHHHHHHHHHHHHH
Confidence 7999999987765 9999999988655443
No 96
>PF04032 Rpr2: RNAse P Rpr2/Rpp21/SNM1 subunit domain; InterPro: IPR007175 This family contains a ribonuclease P subunit of human and yeast. Other members of the family include the probable archaeal homologues. This subunit possibly binds the precursor tRNA [].; PDB: 2K3R_A 2KI7_B 2ZAE_B 1X0T_A.
Probab=22.51 E-value=2.1e+02 Score=22.54 Aligned_cols=60 Identities=18% Similarity=0.197 Sum_probs=33.2
Q ss_pred HHHHHHHHHHhhhhcCChHHHHHHHHHHHHhhccccccCCcccCCcccccccccccccchhhhcccccccccCc
Q 014614 211 MINEKLKKAEDLGEQGMVDEAQKALEEAEALKKLPARQEPTLDSSKYTAADVRITDQKLRVCDICGAFLSVYDS 284 (421)
Q Consensus 211 ~I~~~l~~aE~LGeeG~VdeAqk~~~eve~lk~~~~~~e~~~~~~~~~~~~~~~~~qkl~VCeVCGA~Ls~~D~ 284 (421)
.|+-|...|-.+-..+..+-|...+..+..+-.... + .+ .++-+..+|.-||.+|+-+-+
T Consensus 2 Ri~~L~~~a~~~~~~~~~~lsr~y~~~~~~i~~k~~-~-------~l------~~~~kr~~Ck~C~~~liPG~~ 61 (85)
T PF04032_consen 2 RINFLYQAAHLLLADGSPSLSRHYMKLMRKISKKTR-I-------RL------PPEIKRTICKKCGSLLIPGVN 61 (85)
T ss_dssp HHHHHHHHHH-HHCCC-HHHHHHHHHHHHHHHHHCT-----------------STTCCCTB-TTT--B--CTTT
T ss_pred HHHHHHHHHHHHHhcCCHHHHHHHHHHHHHHHHHhC-C-------CC------ChHHhcccccCCCCEEeCCCc
Confidence 455566666656778888888888887777754211 0 01 123467899999999887654
No 97
>KOG0250 consensus DNA repair protein RAD18 (SMC family protein) [Replication, recombination and repair]
Probab=22.48 E-value=1.3e+03 Score=27.71 Aligned_cols=21 Identities=29% Similarity=0.469 Sum_probs=15.0
Q ss_pred chHHHHHHHHHHHHHhhhhcc
Q 014614 124 TPEVLELSKQIKEKLKETDQY 144 (421)
Q Consensus 124 ~eei~~l~~~I~~ll~e~E~l 144 (421)
.+.+..+...|.+.+++|++.
T Consensus 733 ~~~~~~l~~ei~~~~~eIe~~ 753 (1074)
T KOG0250|consen 733 ISKLEDLAREIKKKEKEIEEK 753 (1074)
T ss_pred hhhhHHHHHHHHHHHHHHHHH
Confidence 556677777888887777755
No 98
>PF13424 TPR_12: Tetratricopeptide repeat; PDB: 3RO2_A 3Q15_A 3ASG_A 3ASD_A 3AS5_A 3AS4_A 3ASH_B 4A1S_B 3CEQ_B 3EDT_H ....
Probab=22.26 E-value=3.4e+02 Score=20.35 Aligned_cols=31 Identities=19% Similarity=0.029 Sum_probs=24.2
Q ss_pred HHHHHHHHHhhhhcCChHHHHHHHHHHHHhh
Q 014614 212 INEKLKKAEDLGEQGMVDEAQKALEEAEALK 242 (421)
Q Consensus 212 I~~~l~~aE~LGeeG~VdeAqk~~~eve~lk 242 (421)
+.-+..-+.-....|+.++|+..+.++-.+.
T Consensus 46 a~~~~~lg~~~~~~g~~~~A~~~~~~al~i~ 76 (78)
T PF13424_consen 46 ANTLNNLGECYYRLGDYEEALEYYQKALDIF 76 (78)
T ss_dssp HHHHHHHHHHHHHTTHHHHHHHHHHHHHHHH
T ss_pred HHHHHHHHHHHHHcCCHHHHHHHHHHHHhhh
Confidence 3444455777889999999999999887764
No 99
>PF10367 Vps39_2: Vacuolar sorting protein 39 domain 2; InterPro: IPR019453 This entry represents a domain found in the vacuolar sorting protein Vps39 and transforming growth factor beta receptor-associated protein Trap1. Vps39, a component of the C-Vps complex, is thought to be required for the fusion of endosomes and other types of transport intermediates with the vacuole [, ]. In Saccharomyces cerevisiae (Baker's yeast), Vps39 has been shown to stimulate nucleotide exchange []. Trap1 plays a role in the TGF-beta/activin signaling pathway. It associates with inactive heteromeric TGF-beta and activin receptor complexes, mainly through the type II receptor, and is released upon activation of signaling [, ]. The precise function of this domain has not been characterised In Vps39 this domain is involved in localisation and in mediating the interactions with Vps11 [].
Probab=22.10 E-value=1.5e+02 Score=24.09 Aligned_cols=12 Identities=33% Similarity=0.814 Sum_probs=9.4
Q ss_pred hhhhcccccccc
Q 014614 270 RVCDICGAFLSV 281 (421)
Q Consensus 270 ~VCeVCGA~Ls~ 281 (421)
.+|.|||..|..
T Consensus 79 ~~C~vC~k~l~~ 90 (109)
T PF10367_consen 79 TKCSVCGKPLGN 90 (109)
T ss_pred CCccCcCCcCCC
Confidence 579999987653
No 100
>KOG0977 consensus Nuclear envelope protein lamin, intermediate filament superfamily [Cell cycle control, cell division, chromosome partitioning; Nuclear structure]
Probab=21.56 E-value=6.1e+02 Score=28.09 Aligned_cols=29 Identities=17% Similarity=0.242 Sum_probs=14.2
Q ss_pred cchHHHHHHHHHHHHHHHHHHHHHHhhhh
Q 014614 77 DNYDRELEDAIDRLIVECDRKIGRALKRL 105 (421)
Q Consensus 77 ~~Ye~e~~~~l~r~I~~~drrI~r~~~rL 105 (421)
..|..+|-.-|..+=.+-+.-+..+++.+
T Consensus 241 ~~F~~eL~~Ai~eiRaqye~~~~~nR~di 269 (546)
T KOG0977|consen 241 EYFKNELALAIREIRAQYEAISRQNRKDI 269 (546)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHhHHHH
Confidence 34555555555554444444444444433
No 101
>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=21.45 E-value=43 Score=21.21 Aligned_cols=10 Identities=40% Similarity=1.139 Sum_probs=8.2
Q ss_pred CcchhccC-CC
Q 014614 32 VCRLYLAG-LC 41 (421)
Q Consensus 32 VCk~~L~G-~C 41 (421)
+|+|.|.| .|
T Consensus 2 lC~yEl~Gg~C 12 (23)
T PF10650_consen 2 LCPYELTGGVC 12 (23)
T ss_pred CCccccCCCee
Confidence 68888887 77
No 102
>KOG1902 consensus Putative signal transduction protein involved in RNA splicing [Signal transduction mechanisms; RNA processing and modification]
Probab=21.27 E-value=47 Score=34.40 Aligned_cols=10 Identities=40% Similarity=0.667 Sum_probs=4.0
Q ss_pred HHHHHHHHHH
Q 014614 129 ELSKQIKEKL 138 (421)
Q Consensus 129 ~l~~~I~~ll 138 (421)
+|..+|.+-|
T Consensus 195 ELep~VGEqL 204 (441)
T KOG1902|consen 195 ELEPEVGEQL 204 (441)
T ss_pred ccChhHHHHH
Confidence 3334444433
No 103
>PF04423 Rad50_zn_hook: Rad50 zinc hook motif; InterPro: IPR007517 The Mre11 complex (Mre11 Rad50 Nbs1) is central to chromosomal maintenance and functions in homologous recombination, telomere maintenance and sister chromatid association. The Rad50 coiled-coil region contains a dimer interface at the apex of the coiled coils in which pairs of conserved Cys-X-X-Cys motifs form interlocking hooks that bind one Zn ion. This alignment includes the zinc hook motif and a short stretch of coiled-coil on either side.; GO: 0004518 nuclease activity, 0005524 ATP binding, 0008270 zinc ion binding, 0006281 DNA repair; PDB: 1L8D_B.
Probab=21.19 E-value=26 Score=26.00 Aligned_cols=10 Identities=40% Similarity=1.059 Sum_probs=5.0
Q ss_pred hhhccccccc
Q 014614 271 VCDICGAFLS 280 (421)
Q Consensus 271 VCeVCGA~Ls 280 (421)
+|+|||.-|.
T Consensus 22 ~CPlC~r~l~ 31 (54)
T PF04423_consen 22 CCPLCGRPLD 31 (54)
T ss_dssp E-TTT--EE-
T ss_pred cCCCCCCCCC
Confidence 9999997644
No 104
>KOG4765 consensus Uncharacterized conserved protein [Function unknown]
Probab=21.16 E-value=59 Score=34.11 Aligned_cols=44 Identities=18% Similarity=0.477 Sum_probs=31.8
Q ss_pred cccchhhhcccccccccCchhhhhhhhhhhhhhcHHHHHHHHHHHHHHHhhhcc
Q 014614 266 DQKLRVCDICGAFLSVYDSDRRLADHFGGKLHLGYMQIRDKLAELQEERNKKHK 319 (421)
Q Consensus 266 ~qkl~VCeVCGA~Ls~~D~d~Rl~dH~~GK~H~Gy~~iR~~l~eL~e~~~~~~k 319 (421)
+.-+-+|++|||||...=..+ -+.|-.+-...+++++++....+
T Consensus 87 d~D~lkCe~C~a~L~~s~pq~----------s~s~d~~n~~~ek~~kkLetaHe 130 (419)
T KOG4765|consen 87 DCDMLKCESCGAFLCASLPQQ----------SFSFDRYNQRCEKFKKKLETAHE 130 (419)
T ss_pred cCCeeehhhhhhHHhccCCcc----------ccChHHHHhHHHHHHHHHHHHHh
Confidence 345789999999998643221 45677788888888888877554
No 105
>TIGR03826 YvyF flagellar operon protein TIGR03826. This gene is found in flagellar operons of Bacillus-related organisms. Its function has not been determined and an official gene symbol has not been assigned, although the gene is designated yvyF in B. subtilus. A tentative assignment as a regulator is suggested in the NCBI record GI:16080597.
Probab=20.90 E-value=63 Score=29.12 Aligned_cols=40 Identities=15% Similarity=0.269 Sum_probs=32.7
Q ss_pred chhhhcccccccccCchhhhhhhhhhhhhhcHHHHHHHHHHH
Q 014614 269 LRVCDICGAFLSVYDSDRRLADHFGGKLHLGYMQIRDKLAEL 310 (421)
Q Consensus 269 l~VCeVCGA~Ls~~D~d~Rl~dH~~GK~H~Gy~~iR~~l~eL 310 (421)
+..|..||.+... +-+.+|..+.-+..--|.+|++.|.+-
T Consensus 3 l~nC~~CgklF~~--~~~~iCp~C~~~~e~~f~kV~~yLr~~ 42 (137)
T TIGR03826 3 LANCPKCGRLFVK--TGRDVCPSCYEEEEREFEKVYKFLRKH 42 (137)
T ss_pred Cccccccchhhhh--cCCccCHHHhHHHHHHHHHHHHHHHHC
Confidence 5689999985554 466799999999999999999988754
No 106
>cd07973 Spt4 Transcription elongation factor Spt4. Spt4 is a transcription elongation factor. Three transcription-elongation factors Spt4, Spt5, and Spt6, are conserved among eukaryotes and are essential for transcription via the modulation of chromatin structure. It is known that Spt4, Spt5, and Spt6 are general transcription-elongation factors, controlling transcription both positively and negatively in important regulatory and developmental roles. Spt4 functions entirely in the context of the Spt4-Spt5 heterodimer and it has been found only as a complex to Spt5 in Yeast and Human. Spt4 is a small protein that has zinc finger at the N-terminus. Spt5 is a large protein that has several interesting structural features of an acidic N-terminus, a single NGN domain, five or six KOW domains, and a set of simple C-termianl repeats. Spt4 binds to Spt5 NGN domain. Unlike Spt5, Spt4 is not essential for viability in yeast, however Spt4 is critical for normal function of the Spt4-Spt5 compl
Probab=20.66 E-value=38 Score=28.81 Aligned_cols=27 Identities=26% Similarity=0.620 Sum_probs=19.8
Q ss_pred hhhhcccccccccCchhhhhh----hhhhhh
Q 014614 270 RVCDICGAFLSVYDSDRRLAD----HFGGKL 296 (421)
Q Consensus 270 ~VCeVCGA~Ls~~D~d~Rl~d----H~~GK~ 296 (421)
..|++||.||..-++..++.| .|.|-+
T Consensus 21 ~gCpnC~~~l~~~g~~~~v~~~tT~~f~G~i 51 (98)
T cd07973 21 DGCPNCEGYLDMKGNHERVYDCTSPNFEGII 51 (98)
T ss_pred CCCCCCcchhccCCCccccccccCCCcceEE
Confidence 589999999988777766554 455544
No 107
>cd00729 rubredoxin_SM Rubredoxin, Small Modular nonheme iron binding domain containing a [Fe(SCys)4] center, present in rubrerythrin and nigerythrin and detected either N- or C-terminal to such proteins as flavin reductase, NAD(P)H-nitrite reductase, and ferredoxin-thioredoxin reductase. In rubredoxin, the iron atom is coordinated by four cysteine residues (Fe(S-Cys)4), and believed to be involved in electron transfer. Rubrerythrins and nigerythrins are small homodimeric proteins, generally consisting of 2 domains: a rubredoxin domain C-terminal to a non-sulfur, oxo-bridged diiron site in the N-terminal rubrerythrin domain. Rubrerythrins and nigerythrins have putative peroxide activity.
Probab=20.38 E-value=36 Score=23.19 Aligned_cols=9 Identities=56% Similarity=1.173 Sum_probs=7.7
Q ss_pred chhhhcccc
Q 014614 269 LRVCDICGA 277 (421)
Q Consensus 269 l~VCeVCGA 277 (421)
..+|.|||+
T Consensus 18 p~~CP~Cg~ 26 (34)
T cd00729 18 PEKCPICGA 26 (34)
T ss_pred CCcCcCCCC
Confidence 469999997
No 108
>smart00746 TRASH metallochaperone-like domain.
Probab=20.33 E-value=28 Score=21.59 Aligned_cols=10 Identities=30% Similarity=0.829 Sum_probs=7.8
Q ss_pred hhcccccccc
Q 014614 272 CDICGAFLSV 281 (421)
Q Consensus 272 CeVCGA~Ls~ 281 (421)
|++||..+..
T Consensus 1 c~~C~~~~~~ 10 (39)
T smart00746 1 CSFCGKDIYN 10 (39)
T ss_pred CCCCCCCccC
Confidence 8899987763
No 109
>smart00745 MIT Microtubule Interacting and Trafficking molecule domain.
Probab=20.13 E-value=3.2e+02 Score=21.19 Aligned_cols=25 Identities=12% Similarity=0.133 Sum_probs=18.0
Q ss_pred HHHhhhhcccccCCcHHHHHHHHHH
Q 014614 136 EKLKETDQYDYEGKTDLKIRALEVV 160 (421)
Q Consensus 136 ~ll~e~E~lg~eG~vdea~~l~e~v 160 (421)
+++.++-..+..|+.++|+.+....
T Consensus 10 ~li~~Av~~d~~g~~~eAl~~Y~~a 34 (77)
T smart00745 10 ELISKALKADEAGDYEEALELYKKA 34 (77)
T ss_pred HHHHHHHHHHHcCCHHHHHHHHHHH
Confidence 3455556677789999999988643
Done!