Query 011753
Match_columns 478
No_of_seqs 407 out of 1728
Neff 5.8
Searched_HMMs 46136
Date Fri Mar 29 04:51:31 2013
Command hhsearch -i /work/01045/syshi/csienesis_hhblits_a3m/011753.a3m -d /work/01045/syshi/HHdatabase/Cdd.hhm -o /work/01045/syshi/hhsearch_cdd/011753hhsearch_cdd -cpu 12 -v 0
No Hit Prob E-value P-value Score SS Cols Query HMM Template HMM
1 KOG1843 Uncharacterized conser 100.0 1.2E-57 2.5E-62 461.3 6.5 377 87-477 40-417 (473)
2 COG2930 Uncharacterized conser 100.0 4.3E-42 9.3E-47 319.5 12.3 168 310-477 10-179 (227)
3 KOG1843 Uncharacterized conser 99.9 3.4E-26 7.3E-31 232.9 1.9 168 310-477 3-171 (473)
4 PF04366 DUF500: Family of unk 99.8 2E-20 4.4E-25 167.2 9.5 83 393-477 1-83 (126)
5 PF01363 FYVE: FYVE zinc finge 99.7 3.8E-19 8.3E-24 142.3 1.8 67 212-279 1-68 (69)
6 smart00064 FYVE Protein presen 99.6 7.7E-17 1.7E-21 128.6 4.0 66 212-279 2-67 (68)
7 KOG1729 FYVE finger containing 99.5 2.1E-15 4.6E-20 151.5 2.5 71 207-280 155-226 (288)
8 PTZ00303 phosphatidylinositol 99.5 8E-15 1.7E-19 158.7 3.4 73 209-281 448-532 (1374)
9 KOG1818 Membrane trafficking a 99.5 1.2E-14 2.7E-19 157.3 2.4 70 207-281 155-224 (634)
10 KOG1819 FYVE finger-containing 99.5 1.5E-14 3.3E-19 150.9 2.0 66 210-277 891-961 (990)
11 KOG1409 Uncharacterized conser 99.4 1.7E-14 3.7E-19 145.6 -4.5 123 142-283 217-354 (404)
12 KOG1842 FYVE finger-containing 99.4 5.1E-14 1.1E-18 145.7 -2.5 75 204-280 164-260 (505)
13 cd00065 FYVE FYVE domain; Zinc 99.3 4.1E-13 8.9E-18 103.3 3.0 55 220-276 2-56 (57)
14 KOG1841 Smad anchor for recept 99.0 4.9E-11 1.1E-15 134.3 1.2 65 207-274 544-608 (1287)
15 KOG4424 Predicted Rho/Rac guan 98.7 1.8E-09 4E-14 115.5 -0.1 132 211-346 408-554 (623)
16 KOG1811 Predicted Zn2+-binding 97.1 3.8E-05 8.2E-10 83.4 -3.4 65 212-278 314-383 (1141)
17 KOG0230 Phosphatidylinositol-4 97.1 0.0003 6.5E-09 83.0 3.0 49 219-280 4-52 (1598)
18 PF02318 FYVE_2: FYVE-type zin 96.6 0.0012 2.6E-08 58.6 2.2 51 220-278 54-104 (118)
19 KOG0230 Phosphatidylinositol-4 96.0 0.0025 5.5E-08 75.5 1.3 34 215-251 92-125 (1598)
20 KOG1841 Smad anchor for recept 94.2 0.055 1.2E-06 63.1 5.0 57 209-280 646-702 (1287)
21 PF06577 DUF1134: Protein of u 94.1 0.58 1.3E-05 43.6 10.5 65 354-423 39-103 (160)
22 KOG1729 FYVE finger containing 90.7 0.049 1.1E-06 55.6 -1.2 65 212-277 12-81 (288)
23 COG3874 Uncharacterized conser 88.9 1.1 2.4E-05 40.5 5.9 85 318-422 6-90 (138)
24 COG5400 Uncharacterized protei 87.5 2.8 6.1E-05 39.7 7.9 59 360-423 90-148 (205)
25 KOG0993 Rab5 GTPase effector R 86.4 0.017 3.7E-07 60.7 -8.0 66 212-281 460-527 (542)
26 PF09538 FYDLN_acid: Protein o 84.5 0.67 1.4E-05 40.8 2.2 33 212-247 4-36 (108)
27 TIGR00622 ssl1 transcription f 83.4 0.99 2.1E-05 40.0 2.8 41 213-253 48-97 (112)
28 PRK00464 nrdR transcriptional 83.2 0.62 1.4E-05 43.5 1.6 25 222-247 2-38 (154)
29 TIGR02300 FYDLN_acid conserved 81.6 0.97 2.1E-05 40.8 2.1 33 212-247 4-36 (129)
30 KOG0320 Predicted E3 ubiquitin 77.3 0.31 6.7E-06 46.4 -2.5 50 220-281 131-180 (187)
31 PF07975 C1_4: TFIIH C1-like d 73.5 0.73 1.6E-05 35.3 -0.9 31 222-252 1-36 (51)
32 KOG1314 DHHC-type Zn-finger pr 69.3 1.4 3.1E-05 46.0 -0.2 35 209-246 75-114 (414)
33 PRK00420 hypothetical protein; 66.8 4.1 8.8E-05 36.2 2.1 26 220-245 23-48 (112)
34 KOG4275 Predicted E3 ubiquitin 65.8 0.84 1.8E-05 46.6 -2.6 49 218-277 42-90 (350)
35 PRK00432 30S ribosomal protein 62.3 5.7 0.00012 30.2 1.9 28 220-247 20-47 (50)
36 PF13717 zinc_ribbon_4: zinc-r 61.7 5.2 0.00011 28.2 1.5 26 222-247 4-35 (36)
37 PF13719 zinc_ribbon_5: zinc-r 60.9 5.5 0.00012 28.2 1.5 27 221-247 3-35 (37)
38 smart00154 ZnF_AN1 AN1-like Zi 60.9 5.6 0.00012 28.6 1.6 26 223-251 1-26 (39)
39 PF01485 IBR: IBR domain; Int 59.3 8.8 0.00019 29.1 2.6 34 220-253 18-56 (64)
40 KOG0978 E3 ubiquitin ligase in 58.6 1.3 2.7E-05 50.4 -3.1 43 220-277 643-687 (698)
41 PF07282 OrfB_Zn_ribbon: Putat 58.6 8.5 0.00018 30.4 2.4 29 219-247 27-56 (69)
42 PF12773 DZR: Double zinc ribb 58.2 7.5 0.00016 28.7 1.9 27 219-245 11-37 (50)
43 KOG3576 Ovo and related transc 57.3 2 4.2E-05 42.0 -1.7 33 217-249 114-157 (267)
44 PHA02768 hypothetical protein; 57.2 4.8 0.0001 31.4 0.7 27 221-247 6-41 (55)
45 KOG3799 Rab3 effector RIM1 and 56.2 9.5 0.00021 35.0 2.6 70 220-296 65-138 (169)
46 TIGR01562 FdhE formate dehydro 55.0 12 0.00025 38.8 3.4 61 220-281 184-265 (305)
47 PRK00398 rpoP DNA-directed RNA 53.1 9 0.00019 28.1 1.6 23 222-245 5-29 (46)
48 TIGR02874 spore_ytfJ sporulati 52.9 50 0.0011 29.9 6.6 53 316-374 2-54 (125)
49 KOG2164 Predicted E3 ubiquitin 51.7 4.4 9.5E-05 44.3 -0.3 52 220-280 186-237 (513)
50 PF09889 DUF2116: Uncharacteri 51.1 5.2 0.00011 31.6 0.1 30 237-283 3-33 (59)
51 TIGR01031 rpmF_bact ribosomal 50.9 10 0.00022 29.4 1.7 26 215-245 21-47 (55)
52 PF01529 zf-DHHC: DHHC palmito 50.5 9.3 0.0002 35.1 1.7 28 217-247 45-72 (174)
53 PF15232 DUF4585: Domain of un 49.5 10 0.00022 31.3 1.5 27 83-109 14-48 (75)
54 PF03604 DNA_RNApol_7kD: DNA d 49.4 12 0.00025 26.0 1.6 24 222-245 2-25 (32)
55 PF14634 zf-RING_5: zinc-RING 48.8 4.2 9E-05 29.5 -0.7 32 222-255 1-32 (44)
56 smart00647 IBR In Between Ring 47.7 17 0.00037 27.6 2.5 34 220-253 18-56 (64)
57 KOG0317 Predicted E3 ubiquitin 47.5 5.5 0.00012 40.7 -0.4 48 220-281 239-286 (293)
58 PF14445 Prok-RING_2: Prokaryo 47.2 3.2 7E-05 31.8 -1.6 45 221-279 8-52 (57)
59 PF10571 UPF0547: Uncharacteri 46.1 13 0.00029 24.4 1.4 23 222-247 2-24 (26)
60 PF15616 TerY-C: TerY-C metal 44.5 13 0.00028 34.0 1.5 24 220-249 77-100 (131)
61 TIGR00570 cdk7 CDK-activating 44.2 7.4 0.00016 40.3 -0.0 50 221-280 4-55 (309)
62 COG5151 SSL1 RNA polymerase II 44.0 10 0.00022 39.3 0.9 41 213-253 355-404 (421)
63 COG1327 Predicted transcriptio 43.5 12 0.00027 34.9 1.3 13 235-247 26-38 (156)
64 smart00659 RPOLCX RNA polymera 43.3 15 0.00032 27.2 1.4 24 222-245 4-27 (44)
65 smart00064 FYVE Protein presen 42.1 20 0.00044 28.0 2.2 42 27-68 2-44 (68)
66 PF07191 zinc-ribbons_6: zinc- 41.4 16 0.00036 29.8 1.6 55 222-280 3-62 (70)
67 PRK04023 DNA polymerase II lar 40.8 30 0.00064 41.2 4.0 46 219-280 625-675 (1121)
68 PRK03564 formate dehydrogenase 39.2 26 0.00056 36.4 3.0 61 220-281 187-265 (309)
69 PRK12286 rpmF 50S ribosomal pr 38.9 18 0.00039 28.2 1.4 20 220-244 27-47 (57)
70 KOG1814 Predicted E3 ubiquitin 38.5 15 0.00033 39.4 1.2 42 212-254 361-403 (445)
71 PF09579 Spore_YtfJ: Sporulati 37.4 57 0.0012 27.3 4.3 20 355-374 6-25 (83)
72 TIGR03826 YvyF flagellar opero 36.0 11 0.00024 34.7 -0.3 35 238-288 4-42 (137)
73 PRK14559 putative protein seri 35.7 22 0.00049 40.5 2.1 31 219-254 14-50 (645)
74 COG0675 Transposase and inacti 35.4 25 0.00054 35.1 2.2 27 218-248 307-333 (364)
75 TIGR02098 MJ0042_CXXC MJ0042 f 34.8 25 0.00053 24.5 1.4 10 222-231 4-13 (38)
76 TIGR00244 transcriptional regu 34.8 24 0.00051 32.9 1.7 13 235-247 26-38 (147)
77 KOG3795 Uncharacterized conser 34.5 18 0.0004 34.6 1.0 22 230-252 9-33 (230)
78 PF13901 DUF4206: Domain of un 34.4 16 0.00035 35.4 0.6 43 238-280 1-47 (202)
79 PF06750 DiS_P_DiS: Bacterial 33.9 27 0.00059 29.7 1.8 26 220-245 33-66 (92)
80 KOG1315 Predicted DHHC-type Zn 33.6 18 0.0004 37.5 0.9 27 216-245 105-131 (307)
81 PF10367 Vps39_2: Vacuolar sor 32.8 34 0.00074 28.6 2.3 32 219-253 77-108 (109)
82 COG5574 PEX10 RING-finger-cont 32.7 12 0.00027 37.8 -0.5 47 220-278 215-261 (271)
83 PF13639 zf-RING_2: Ring finge 31.6 11 0.00024 27.0 -0.8 33 221-255 1-33 (44)
84 PRK04136 rpl40e 50S ribosomal 31.2 31 0.00067 26.2 1.5 23 220-245 14-36 (48)
85 KOG3173 Predicted Zn-finger pr 30.5 24 0.00053 33.4 1.1 29 219-251 104-132 (167)
86 PF15135 UPF0515: Uncharacteri 29.9 33 0.00071 34.6 1.9 35 215-249 127-167 (278)
87 PF01927 Mut7-C: Mut7-C RNAse 29.7 24 0.00052 32.3 0.9 19 215-233 86-104 (147)
88 TIGR02605 CxxC_CxxC_SSSS putat 28.9 27 0.00058 26.0 0.9 12 222-233 7-18 (52)
89 PLN03208 E3 ubiquitin-protein 28.8 18 0.0004 35.0 -0.1 60 216-280 14-80 (193)
90 TIGR00100 hypA hydrogenase nic 28.6 30 0.00064 30.6 1.2 25 220-245 70-94 (115)
91 COG1996 RPC10 DNA-directed RNA 28.6 28 0.0006 26.5 0.9 23 222-244 8-31 (49)
92 PF14353 CpXC: CpXC protein 28.5 32 0.0007 30.5 1.5 10 222-231 3-12 (128)
93 COG1645 Uncharacterized Zn-fin 28.0 31 0.00066 31.6 1.2 26 220-254 28-53 (131)
94 PRK00564 hypA hydrogenase nick 28.0 32 0.00069 30.5 1.3 25 220-245 71-96 (117)
95 COG2126 RPL37A Ribosomal prote 27.8 29 0.00063 27.4 0.9 6 240-245 19-24 (61)
96 KOG0263 Transcription initiati 27.3 29 0.00062 39.7 1.1 79 91-181 508-598 (707)
97 PF10497 zf-4CXXC_R1: Zinc-fin 27.2 20 0.00044 31.3 -0.1 57 219-278 6-71 (105)
98 KOG1311 DHHC-type Zn-finger pr 26.9 30 0.00066 35.1 1.1 25 220-247 113-137 (299)
99 COG1773 Rubredoxin [Energy pro 26.3 30 0.00065 27.0 0.7 41 236-276 2-44 (55)
100 PRK14890 putative Zn-ribbon RN 26.3 52 0.0011 26.1 2.0 33 220-252 7-43 (59)
101 PF13923 zf-C3HC4_2: Zinc fing 26.1 19 0.00041 25.2 -0.4 29 223-255 1-29 (39)
102 smart00834 CxxC_CXXC_SSSS Puta 25.8 36 0.00079 23.7 1.1 11 222-232 7-17 (41)
103 KOG3576 Ovo and related transc 25.7 17 0.00037 35.7 -0.8 61 220-280 145-224 (267)
104 KOG1829 Uncharacterized conser 25.6 28 0.0006 39.2 0.6 61 220-280 340-405 (580)
105 PHA02942 putative transposase; 25.5 54 0.0012 35.0 2.7 29 219-247 324-352 (383)
106 KOG1313 DHHC-type Zn-finger pr 25.0 22 0.00047 36.4 -0.3 24 220-246 102-125 (309)
107 PF09862 DUF2089: Protein of u 24.8 42 0.0009 29.9 1.4 25 223-250 1-25 (113)
108 KOG2593 Transcription initiati 24.6 32 0.00068 37.2 0.8 34 220-253 128-169 (436)
109 COG4530 Uncharacterized protei 24.5 41 0.00088 29.9 1.3 28 220-247 9-36 (129)
110 KOG0823 Predicted E3 ubiquitin 24.4 20 0.00043 35.7 -0.7 34 241-280 63-96 (230)
111 PF14803 Nudix_N_2: Nudix N-te 23.7 55 0.0012 22.9 1.6 19 256-276 12-30 (34)
112 PF05191 ADK_lid: Adenylate ki 23.5 37 0.00081 24.0 0.7 15 266-280 19-33 (36)
113 PF01155 HypA: Hydrogenase exp 23.4 26 0.00057 30.8 -0.1 25 220-245 70-94 (113)
114 PF08271 TF_Zn_Ribbon: TFIIB z 23.2 41 0.00088 24.3 0.9 11 268-278 19-29 (43)
115 smart00531 TFIIE Transcription 23.2 44 0.00096 30.6 1.4 13 220-232 99-111 (147)
116 cd00162 RING RING-finger (Real 22.5 25 0.00055 23.9 -0.3 30 222-255 1-30 (45)
117 PF04216 FdhE: Protein involve 22.4 38 0.00083 34.4 0.9 62 221-282 173-252 (290)
118 PF07503 zf-HYPF: HypF finger; 22.4 18 0.00038 25.6 -1.1 17 223-239 2-18 (35)
119 PF15227 zf-C3HC4_4: zinc fing 22.1 29 0.00063 25.1 -0.1 28 223-255 1-28 (42)
120 PF09332 Mcm10: Mcm10 replicat 22.0 37 0.0008 35.8 0.7 30 235-277 283-312 (344)
121 cd02341 ZZ_ZZZ3 Zinc finger, Z 21.9 41 0.00088 25.3 0.7 28 222-252 2-33 (48)
122 COG0333 RpmF Ribosomal protein 21.8 51 0.0011 25.9 1.3 20 220-244 27-47 (57)
123 PF09297 zf-NADH-PPase: NADH p 21.6 64 0.0014 21.8 1.6 25 247-276 5-29 (32)
124 COG1198 PriA Primosomal protei 21.2 66 0.0014 37.3 2.5 9 269-277 476-484 (730)
125 KOG0704 ADP-ribosylation facto 21.0 36 0.00078 35.9 0.3 53 86-140 18-71 (386)
126 PRK05978 hypothetical protein; 20.8 56 0.0012 30.5 1.5 25 221-245 34-60 (148)
127 PF14835 zf-RING_6: zf-RING of 20.6 65 0.0014 26.0 1.6 28 222-254 9-37 (65)
128 PF02945 Endonuclease_7: Recom 20.4 37 0.0008 28.4 0.2 27 220-246 22-50 (81)
129 COG5273 Uncharacterized protei 20.2 49 0.0011 34.2 1.2 27 217-246 106-132 (309)
No 1
>KOG1843 consensus Uncharacterized conserved protein [Function unknown]
Probab=100.00 E-value=1.2e-57 Score=461.28 Aligned_cols=377 Identities=41% Similarity=0.520 Sum_probs=352.7
Q ss_pred cccccCCCCCCCCCceeecccCCcCCCCCcccccCcccCCCcccCCCCCccccccCCceeEehhHHHHHHHhhcCcceee
Q 011753 87 KYFFYDSPHYEDTGVWIPVSVPPMLDSKDDEWARGFHSDGGYFPEVDMGWSQYLKEDKELTMWDVVVEMLLAARGKVHAL 166 (478)
Q Consensus 87 ~~~~~~~~~~~~~~~W~~~~~~~~~~~~~~~~~~g~~~~~g~~~~~~~~w~~~~~~~~~~~m~dv~~~~l~~~~~Kv~al 166 (478)
-|+.|+.|. +|++|+|++..+.+|..|.+++++|+.++++.|..+..+++++++|+|+.++..--..+-.++
T Consensus 40 Pyvl~da~g--------l~~i~~lkegflfsgr~Gsgviv~~l~dGtwsapsa~~~~g~g~g~~Vgveltd~V~ilNs~~ 111 (473)
T KOG1843|consen 40 PYVLKDAPG--------LVSIPVLKEGFLFSGRAGSGVIVGYLKDGTWSAPSAIAEAGEGAGGMVGVELTDFVIILNSAL 111 (473)
T ss_pred cceeccCCc--------ceEeeeecccccccccccCceeeeecCCCCcCcchhhhhccccchhhhHHHHHHHHHhhcchH
Confidence 477778875 899999999999999999999999999999999999999999999999998776655666667
Q ss_pred eeccCCCCcccccchhHHHHHHHHHHHHHHhhccCCcccccccCCCCcccCCCCCcCCCCCccCcccccccccccCCCce
Q 011753 167 AKGDIHGCNFSWMSSHLLEQAWQEMAQTLTEANFGNVSELLDAEPPRWLADSSASACMLCGVRFHPIMCSRHHCRFCGGI 246 (478)
Q Consensus 167 ~~~d~~~~~~S~~~~~~le~~~~~~a~~l~~~~~~~~~~~~~~~~p~W~~d~~~~~C~~C~~~F~~l~~RrHHCR~CG~v 246 (478)
+.....+.++.++... |..++..|.+.++....+.++.++|.|.+++....|+.|..+|+.|+.||||||.|+.+
T Consensus 112 av~~f~~~G~itLGgn-----~svsAgPLgr~aea~a~asl~~~ap~f~yskskglfagvSvegsaI~erR~anR~~yg~ 186 (473)
T KOG1843|consen 112 AVQSFARFGTITLGGN-----LSVSAGPLGRNAEAAASASLGGEAPVFLYSKSKGLFAGVSVEGSAIIERREANRKFYGI 186 (473)
T ss_pred hhhhhhhcCeeeecCc-----ceeccCcccccchhhhhhhhcCcCccccccccccceeeeecccceeeecchhhhhhcCc
Confidence 7777777777776433 55788888888888888999999999999999999999999999999999999999999
Q ss_pred EcCCCCCCeeeccccCCCCCceeeCccchhhhcccchhhhccccccCCCCccCccccccccccccCCCCCCHHHHHHHHH
Q 011753 247 FCGECSKGRSLLPVKFRVSDPQRVCDVCCVRLQSVQPYLMNQVSHAAQLPTRDLTDLSTLRSWVNFPWGQSMEYEIYKAA 326 (478)
Q Consensus 247 ~C~~CS~~~~~lP~~~~~~~pvRVC~~C~~~L~~~~~~l~~~~S~a~q~p~~d~~d~~~~r~wln~P~~~tl~~EI~KAa 326 (478)
||..|+..+..+|..+.-..++|||+.|+..|...|.++.++++.+.|.+.+|++|+...|+|+|+|++.+|+.+++|++
T Consensus 187 ~cra~~ilsg~vp~p~a~d~l~RVldS~~~nl~~~q~~~~d~~~da~qy~d~d~~Di~~s~sstn~~~~~~~e~s~~rra 266 (473)
T KOG1843|consen 187 FCRAKSILSGLVPVPFAADPLQRVLDSCAFNLESVQGSLDDQYSDAAQYADHDYTDIPTSRSSTNFPSGRSMERSIYRRA 266 (473)
T ss_pred cchhhhhhccCCCCCcccCCHHHHHhhHhhccCCCccccccccCcccccCcccccccccccccccCcccCcchHHHHHhh
Confidence 99999999988888888889999999999999999999999999999999999999999999999999999999999999
Q ss_pred HHHhcc-cccCccCCCCCchhHHHhhcceeEEEEEEeeeeEEEEeeeeEEEEEEcCCCCcCCCceEEeecceEEEeecce
Q 011753 327 NTIRGY-SKVGFLKPEKSIPDIILRQAKGLAILSVAKVGVMVTYNIGTGLVIARRNDGSWSPPSAISSFGMGWGAQAGGE 405 (478)
Q Consensus 327 qtL~~~-~kv~~l~pd~sIP~~~L~~A~Glai~~v~k~g~~~gg~~G~Gvviar~~~g~WS~P~~i~~~g~s~G~q~G~e 405 (478)
++|+.+ +++....+|..| ...|.+||||+++++.++|.+.....|+|++++|+.+|+||+|++|+..|++||.|+|+|
T Consensus 267 ~slrg~r~~~~dddded~~-~a~~srakgLa~~t~~~~g~l~~yk~~s~~~~srR~~Gs~s~~s~~s~~glgWgaq~gge 345 (473)
T KOG1843|consen 267 NSLRGYRSRVDDDDDEDSI-DAGLSRAKGLAPITVARSGVLDTYKLGSSLVVSRRNDGSWSPRSAISRFGLGWGAQAGGE 345 (473)
T ss_pred hhcccceeecccCchhhhh-hhhhhhcccCCcccccccccccccccccccceecccCCCCCCcchhcccccccchhcccc
Confidence 999988 457777888888 889999999999999999999999999999999999999999999999999999999999
Q ss_pred eeeEEEEEeCHHHHHHhhcCCceEEccceeEEEeeccceeeeccccCCCCcceEEEEEecceeEEEeeeeec
Q 011753 406 LTDFIIVLRTNDAVKTFTGNAHISIGAGLSAAVGTVGRVVEAGVRAGDGGYAACYTYSCSKGTRFNSVTLGV 477 (478)
Q Consensus 406 ~~d~Vivl~t~~av~~f~~~~~~~lGa~~s~aaGp~G~~~ea~~~~~~~~~a~i~~Ys~skGlfaGvSl~G~ 477 (478)
..|+|||+++.++++.|.++.++.+|+..++++||.||..+++...++++.+.+|+|+.+||+|+|.|++|.
T Consensus 346 y~dfiivlrd~ea~~tf~s~~h~~~Ga~~s~a~~~s~r~~esdi~a~S~~~~~~~~~s~skgaf~~~Sl~~n 417 (473)
T KOG1843|consen 346 YSDFIIVLRDYEAIQTFRSGTHRVRGAGLSAAVGPSGRAVESDIRAGSSGYSKCGTYSASKGAFVGCSLEPN 417 (473)
T ss_pred cccchhhcchhhhhhccccccccccccccccccCcCccchhhcccccCCcccccccccCCCCcccccccCcc
Confidence 999999999999999999989999999999999999999999999999999999999999999999999984
No 2
>COG2930 Uncharacterized conserved protein [Function unknown]
Probab=100.00 E-value=4.3e-42 Score=319.50 Aligned_cols=168 Identities=36% Similarity=0.550 Sum_probs=155.5
Q ss_pred ccCCCCCCHHHHHHHHHHHHhcccc-cCccCCCCCchhHHHhhcceeEEEE-EEeeeeEEEEeeeeEEEEEEcCCCCcCC
Q 011753 310 VNFPWGQSMEYEIYKAANTIRGYSK-VGFLKPEKSIPDIILRQAKGLAILS-VAKVGVMVTYNIGTGLVIARRNDGSWSP 387 (478)
Q Consensus 310 ln~P~~~tl~~EI~KAaqtL~~~~k-v~~l~pd~sIP~~~L~~A~Glai~~-v~k~g~~~gg~~G~Gvviar~~~g~WS~ 387 (478)
+++|.++++..+..|++.+...+.. .-.+.++..||+.+|++||||+||| |+|+||++||++|+||+++|+++|+||+
T Consensus 10 i~~a~~~s~~s~~~k~~~~~s~~v~~~~~~~~~~~ip~~lL~rAkGi~Iip~vLkaGFvigGr~GqGvl~~r~~~nTWs~ 89 (227)
T COG2930 10 IPNAQGSSFASETNKAAKTNSSFVLTEQRLGPDQVIPPSLLERAKGIVIIPSVLKAGFVIGGRYGQGVLVARLPDNTWSA 89 (227)
T ss_pred CCCccchhhcchhhhhhhhhhhhcchhhhhCCcccCCHHHHhhcCeeEEehhhccccEEEeccccceEEEecCCCCCccc
Confidence 5677888888899999988777754 2345788999999999999999999 9999999999999999999999999999
Q ss_pred CceEEeecceEEEeecceeeeEEEEEeCHHHHHHhhcCCceEEccceeEEEeeccceeeeccccCCCCcceEEEEEecce
Q 011753 388 PSAISSFGMGWGAQAGGELTDFIIVLRTNDAVKTFTGNAHISIGAGLSAAVGTVGRVVEAGVRAGDGGYAACYTYSCSKG 467 (478)
Q Consensus 388 P~~i~~~g~s~G~q~G~e~~d~Vivl~t~~av~~f~~~~~~~lGa~~s~aaGp~G~~~ea~~~~~~~~~a~i~~Ys~skG 467 (478)
|+||+|.|+|+|+|+|+|++|+||+|||++||++|..-++|+||+++|+|+||+||++++...+..++.+.||+||++||
T Consensus 90 p~~v~~~g~siG~q~G~qs~d~v~i~~~~~av~~f~~~g~iTlGg~~SVAagplGrna~aa~d~~~~~~a~v~sys~~kG 169 (227)
T COG2930 90 PSFVKMAGASIGGQAGVQSTDFVIILNTDEAVDSFAEFGTITLGGNASVAAGPLGRNAEAAADASLGGVAAVFSYSKAKG 169 (227)
T ss_pred chhhhhhcccccccccceeeeEEEEEcchHHHHHHHhcCcEEecceeEEeeccccccchhccccccCCcceEEEEEeccc
Confidence 99999999999999999999999999999999999855899999999999999999998877777678899999999999
Q ss_pred eEEEeeeeec
Q 011753 468 TRFNSVTLGV 477 (478)
Q Consensus 468 lfaGvSl~G~ 477 (478)
||||+|++|+
T Consensus 170 LfAGvSvEGs 179 (227)
T COG2930 170 LFAGVSVEGS 179 (227)
T ss_pred ceeeeeeccc
Confidence 9999999997
No 3
>KOG1843 consensus Uncharacterized conserved protein [Function unknown]
Probab=99.92 E-value=3.4e-26 Score=232.87 Aligned_cols=168 Identities=35% Similarity=0.550 Sum_probs=154.3
Q ss_pred ccCCCCCCHHHHHHHHHHHHhccccc-CccCCCCCchhHHHhhcceeEEEEEEeeeeEEEEeeeeEEEEEEcCCCCcCCC
Q 011753 310 VNFPWGQSMEYEIYKAANTIRGYSKV-GFLKPEKSIPDIILRQAKGLAILSVAKVGVMVTYNIGTGLVIARRNDGSWSPP 388 (478)
Q Consensus 310 ln~P~~~tl~~EI~KAaqtL~~~~kv-~~l~pd~sIP~~~L~~A~Glai~~v~k~g~~~gg~~G~Gvviar~~~g~WS~P 388 (478)
+|.|...++..|..+|...+..|.+. ...+-+..||+.+|++|+|++|+|++|+||++.++.|.||.++|+++|+||+|
T Consensus 3 ~~npipaSlkse~~~~~k~~~~fv~p~q~~Gs~e~ipPyvl~da~gl~~i~~lkegflfsgr~Gsgviv~~l~dGtwsap 82 (473)
T KOG1843|consen 3 INNPIPASLKSETNKAVKSLSSFVDPNQDFGSDEGIPPYVLKDAPGLVSIPVLKEGFLFSGRAGSGVIVGYLKDGTWSAP 82 (473)
T ss_pred CCCcCccCccchhcccceeeccccChhhccCCccccCcceeccCCcceEeeeecccccccccccCceeeeecCCCCcCcc
Confidence 45677888888999999999999762 22345577999999999999999999999999999999999999999999999
Q ss_pred ceEEeecceEEEeecceeeeEEEEEeCHHHHHHhhcCCceEEccceeEEEeeccceeeeccccCCCCcceEEEEEeccee
Q 011753 389 SAISSFGMGWGAQAGGELTDFIIVLRTNDAVKTFTGNAHISIGAGLSAAVGTVGRVVEAGVRAGDGGYAACYTYSCSKGT 468 (478)
Q Consensus 389 ~~i~~~g~s~G~q~G~e~~d~Vivl~t~~av~~f~~~~~~~lGa~~s~aaGp~G~~~ea~~~~~~~~~a~i~~Ys~skGl 468 (478)
++|.+.+.+.|.++|++.+|+|++++++.|+++|..-+..+||++++++|||+|+++++...+..++.+++|.|+++|||
T Consensus 83 sa~~~~g~g~g~~Vgveltd~V~ilNs~~av~~f~~~G~itLGgn~svsAgPLgr~aea~a~asl~~~ap~f~yskskgl 162 (473)
T KOG1843|consen 83 SAIAEAGEGAGGMVGVELTDFVIILNSALAVQSFARFGTITLGGNLSVSAGPLGRNAEAAASASLGGEAPVFLYSKSKGL 162 (473)
T ss_pred hhhhhccccchhhhHHHHHHHHHhhcchHhhhhhhhcCeeeecCcceeccCcccccchhhhhhhhcCcCccccccccccc
Confidence 99999999999999999999999999999999998778899999999999999999988777766788999999999999
Q ss_pred EEEeeeeec
Q 011753 469 RFNSVTLGV 477 (478)
Q Consensus 469 faGvSl~G~ 477 (478)
|+|||++|+
T Consensus 163 fagvSvegs 171 (473)
T KOG1843|consen 163 FAGVSVEGS 171 (473)
T ss_pred eeeeecccc
Confidence 999999997
No 4
>PF04366 DUF500: Family of unknown function (DUF500); InterPro: IPR007461 This entry corresponds to proteins having the Ysc84 actin binding domain (YAB). This 184 amino acid domain lies at the N terminus of the Saccharomyces cerevisiae (Baker's yeast) protein Ysc84 (P32793 from SWISSPROT). It is essential for the organisation of the actin cytoskeleton, and interacts with the Arp2/3 complex []. Homologous domains are found across a range of species. In fungi and vertebrates the domain is at the N terminus, while there is an SH3 domain at the C terminus. In plants the domain seems to be at the C terminus and in association with a FYVE domain. Interestingly, the domain is absent in invertebrates. The domain is also found in prokaryotes, where presumable it is also involved in protein binding, perhaps to the prokaryotic homologue of actin [].
Probab=99.82 E-value=2e-20 Score=167.18 Aligned_cols=83 Identities=37% Similarity=0.524 Sum_probs=77.2
Q ss_pred eecceEEEeecceeeeEEEEEeCHHHHHHhhcCCceEEccceeEEEeeccceeeeccccCCCCcceEEEEEecceeEEEe
Q 011753 393 SFGMGWGAQAGGELTDFIIVLRTNDAVKTFTGNAHISIGAGLSAAVGTVGRVVEAGVRAGDGGYAACYTYSCSKGTRFNS 472 (478)
Q Consensus 393 ~~g~s~G~q~G~e~~d~Vivl~t~~av~~f~~~~~~~lGa~~s~aaGp~G~~~ea~~~~~~~~~a~i~~Ys~skGlfaGv 472 (478)
++++|+|||+|+|.+|+||||||++||+.|.+ ++|+||+++++++||+|+++++++.... ..++||+|++|||||+|+
T Consensus 1 ~~g~~~Glq~G~~~~d~Vlvl~t~~al~~f~~-~~~~lG~~~s~a~gp~g~~~~~~~~~~~-~~~~v~~ys~s~Gl~~G~ 78 (126)
T PF04366_consen 1 ISGASVGLQAGAQSYDVVLVLMTDEALESFIK-GKFTLGGDASAAAGPVGRSAEADTDTSD-GSADVYSYSKSKGLFAGV 78 (126)
T ss_pred CCceeEEEEEeeEEeeEEEEEeCHHHHHHHhh-CCEEEeeeeEEEecCcCccccccccccc-ccCceEEEEecCeEEEEE
Confidence 47899999999999999999999999999996 9999999999999999999999887653 357999999999999999
Q ss_pred eeeec
Q 011753 473 VTLGV 477 (478)
Q Consensus 473 Sl~G~ 477 (478)
||+|+
T Consensus 79 sl~G~ 83 (126)
T PF04366_consen 79 SLEGS 83 (126)
T ss_pred EEcce
Confidence 99997
No 5
>PF01363 FYVE: FYVE zinc finger; InterPro: IPR000306 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. The FYVE zinc finger is named after four proteins that it has been found in: Fab1, YOTB/ZK632.12, Vac1, and EEA1. The FYVE finger has been shown to bind two zinc ions []. The FYVE finger has eight potential zinc coordinating cysteine positions. Many members of this family also include two histidines in a motif R+HHC+XCG, where + represents a charged residue and X any residue. FYVE-type domains are divided into two known classes: FYVE domains that specifically bind to phosphatidylinositol 3-phosphate in lipid bilayers and FYVE-related domains of undetermined function []. Those that bind to phosphatidylinositol 3-phosphate are often found in proteins targeted to lipid membranes that are involved in regulating membrane traffic [, , ]. Most FYVE domains target proteins to endosomes by binding specifically to phosphatidylinositol-3-phosphate at the membrane surface. By contrast, the CARP2 FYVE-like domain is not optimized to bind to phosphoinositides or insert into lipid bilayers. FYVE domains are distinguished from other zinc fingers by three signature sequences: an N-terminal WxxD motif, a basic R(R/K)HHCR patch, and a C-terminal RVC motif. More information about these proteins can be found at Protein of the Month: Zinc Fingers [].; GO: 0046872 metal ion binding; PDB: 1HYI_A 1JOC_B 1HYJ_A 1DVP_A 3ZYQ_A 4AVX_A 1VFY_A 3T7L_A 1X4U_A 1WFK_A ....
Probab=99.74 E-value=3.8e-19 Score=142.31 Aligned_cols=67 Identities=48% Similarity=1.040 Sum_probs=48.1
Q ss_pred CCcccCCCCCcCCCCCccCcccccccccccCCCceEcCCCCCCeeecc-ccCCCCCceeeCccchhhhc
Q 011753 212 PRWLADSSASACMLCGVRFHPIMCSRHHCRFCGGIFCGECSKGRSLLP-VKFRVSDPQRVCDVCCVRLQ 279 (478)
Q Consensus 212 p~W~~d~~~~~C~~C~~~F~~l~~RrHHCR~CG~v~C~~CS~~~~~lP-~~~~~~~pvRVC~~C~~~L~ 279 (478)
|.|++|+++..|+.|+++|+++ +||||||.||++||++|+.++..+| .......++|||+.|+..|+
T Consensus 1 ~~W~~d~~~~~C~~C~~~F~~~-~rrhhCr~CG~~vC~~Cs~~~~~~~~~~~~~~~~~RvC~~C~~~~~ 68 (69)
T PF01363_consen 1 PHWVPDSEASNCMICGKKFSLF-RRRHHCRNCGRVVCSSCSSQRIPLPTPSSGSGEPVRVCDSCYSKLQ 68 (69)
T ss_dssp --SSSGGG-SB-TTT--B-BSS-S-EEE-TTT--EEECCCS-EEEEET--GGTESEEEEE-HHHHHHHH
T ss_pred CCcCCCCCCCcCcCcCCcCCCc-eeeEccCCCCCEECCchhCCEEcccccccCCCCcCEECHHHHHHhc
Confidence 7899999999999999999976 8999999999999999999999887 23466789999999999875
No 6
>smart00064 FYVE Protein present in Fab1, YOTB, Vac1, and EEA1. The FYVE zinc finger is named after four proteins where it was first found: Fab1, YOTB/ZK632.12, Vac1, and EEA1. The FYVE finger has been shown to bind two Zn2+ ions. The FYVE finger has eight potential zinc coordinating cysteine positions. The FYVE finger is structurally related to the KOG1729 consensus FYVE finger containing protein [General function prediction only]
Probab=99.53 E-value=2.1e-15 Score=151.48 Aligned_cols=71 Identities=45% Similarity=0.963 Sum_probs=63.7
Q ss_pred cccCCCCcccCCCCCcCCCCCc-cCcccccccccccCCCceEcCCCCCCeeeccccCCCCCceeeCccchhhhcc
Q 011753 207 LDAEPPRWLADSSASACMLCGV-RFHPIMCSRHHCRFCGGIFCGECSKGRSLLPVKFRVSDPQRVCDVCCVRLQS 280 (478)
Q Consensus 207 ~~~~~p~W~~d~~~~~C~~C~~-~F~~l~~RrHHCR~CG~v~C~~CS~~~~~lP~~~~~~~pvRVC~~C~~~L~~ 280 (478)
.....+.|+||+++..|+.|.+ .|+++ .||||||+||.|||..|+.++..+| +...+|+|||+.||..|..
T Consensus 155 ~~~~~~~W~PD~ea~~C~~C~~~~Ftl~-~RRHHCR~CG~ivC~~Cs~n~~~l~--~~~~k~~rvC~~CF~el~~ 226 (288)
T KOG1729|consen 155 SNNSAAVWLPDSEATECMVCGCTEFTLS-ERRHHCRNCGDIVCAPCSRNRFLLP--NLSTKPIRVCDICFEELEK 226 (288)
T ss_pred CCCcCCcccCcccceecccCCCccccHH-HHHHHHHhcchHhhhhhhcCccccc--ccCCCCceecHHHHHHHhc
Confidence 3456789999999999999999 99976 8999999999999999999998886 3578899999999999865
No 8
>PTZ00303 phosphatidylinositol kinase; Provisional
Probab=99.50 E-value=8e-15 Score=158.73 Aligned_cols=73 Identities=29% Similarity=0.630 Sum_probs=57.2
Q ss_pred cCCCCcccCCC-CCcCCCCCccCccc----ccccccccCCCceEcCCCCCCeeecc-------ccCCCCCceeeCccchh
Q 011753 209 AEPPRWLADSS-ASACMLCGVRFHPI----MCSRHHCRFCGGIFCGECSKGRSLLP-------VKFRVSDPQRVCDVCCV 276 (478)
Q Consensus 209 ~~~p~W~~d~~-~~~C~~C~~~F~~l----~~RrHHCR~CG~v~C~~CS~~~~~lP-------~~~~~~~pvRVC~~C~~ 276 (478)
...|.|++|++ ++.|+.|++.|+.+ ..||||||+||++||+.||+++..+| .......+.|||+.||+
T Consensus 448 LhAPvWqpDDEaSdtC~~C~kkFfSlsK~L~~RKHHCRkCGrVFC~~CSSnRs~yp~aKLpKPgsseE~ppRRVCD~CYd 527 (1374)
T PTZ00303 448 LHNPSWQKDDESSDSCPSCGRAFISLSRPLGTRAHHCRSCGIRLCVFCITKRAHYSFAKLAKPGSSDEAEERLVCDTCYK 527 (1374)
T ss_pred ccCCCCCCCcccCCcccCcCCcccccccccccccccccCCccccCccccCCcccCcccccCCCCCcccccccchhHHHHH
Confidence 35789999997 48899999999753 35999999999999999999876432 11222346799999998
Q ss_pred hhccc
Q 011753 277 RLQSV 281 (478)
Q Consensus 277 ~L~~~ 281 (478)
.++..
T Consensus 528 q~EnL 532 (1374)
T PTZ00303 528 EYETV 532 (1374)
T ss_pred HHHhH
Confidence 77653
No 9
>KOG1818 consensus Membrane trafficking and cell signaling protein HRS, contains VHS and FYVE domains [Signal transduction mechanisms; Intracellular trafficking, secretion, and vesicular transport]
Probab=99.47 E-value=1.2e-14 Score=157.34 Aligned_cols=70 Identities=39% Similarity=0.925 Sum_probs=63.4
Q ss_pred cccCCCCcccCCCCCcCCCCCccCcccccccccccCCCceEcCCCCCCeeeccccCCCCCceeeCccchhhhccc
Q 011753 207 LDAEPPRWLADSSASACMLCGVRFHPIMCSRHHCRFCGGIFCGECSKGRSLLPVKFRVSDPQRVCDVCCVRLQSV 281 (478)
Q Consensus 207 ~~~~~p~W~~d~~~~~C~~C~~~F~~l~~RrHHCR~CG~v~C~~CS~~~~~lP~~~~~~~pvRVC~~C~~~L~~~ 281 (478)
....+|.|++ ...|..|...|+++ .|+||||+||+|||..|+++.++|| +++..+|||||+.||+.|...
T Consensus 155 ~~~~~pdW~D---~~~C~rCr~~F~~~-~rkHHCr~CG~vFC~qcss~s~~lP-~~Gi~~~VRVCd~C~E~l~~~ 224 (634)
T KOG1818|consen 155 DAETAPDWID---SEECLRCRVKFGLT-NRKHHCRNCGQVFCGQCSSKSLTLP-KLGIEKPVRVCDSCYELLTRA 224 (634)
T ss_pred cccCCccccc---ccccceeeeeeeec-cccccccccchhhccCccccccCcc-cccccccceehhhhHHHhhhc
Confidence 3457899998 67899999999986 7999999999999999999999998 689999999999999998764
No 10
>KOG1819 consensus FYVE finger-containing proteins [General function prediction only]
Probab=99.46 E-value=1.5e-14 Score=150.94 Aligned_cols=66 Identities=44% Similarity=1.070 Sum_probs=60.8
Q ss_pred CCCCcccCCCCCcCCCCCccCcccccccccccCCCceEcCCCCCCeeeccccCCCCCceeeCc-----cchhh
Q 011753 210 EPPRWLADSSASACMLCGVRFHPIMCSRHHCRFCGGIFCGECSKGRSLLPVKFRVSDPQRVCD-----VCCVR 277 (478)
Q Consensus 210 ~~p~W~~d~~~~~C~~C~~~F~~l~~RrHHCR~CG~v~C~~CS~~~~~lP~~~~~~~pvRVC~-----~C~~~ 277 (478)
.+|.|+||..+..|+.|+.+|+.| +||||||+||.|||..||...+++| +++..+.+|||. .||.+
T Consensus 891 sppawipd~~a~~cmacq~pf~af-rrrhhcrncggifcg~cs~asapip-~~gl~ka~rvcrpqsnldc~~r 961 (990)
T KOG1819|consen 891 SPPAWIPDEDAEQCMACQMPFNAF-RRRHHCRNCGGIFCGKCSCASAPIP-EHGLDKAPRVCRPQSNLDCLTR 961 (990)
T ss_pred CCcccCCCCcchhhhhccCcHHHH-HHhhhhcccCceeecccccCCCCCc-ccccccCceecCCcccccceee
Confidence 578999999999999999999986 8999999999999999999999998 468889999999 78754
No 11
>KOG1409 consensus Uncharacterized conserved protein, contains WD40 repeats and FYVE domains [Function unknown]
Probab=99.37 E-value=1.7e-14 Score=145.63 Aligned_cols=123 Identities=30% Similarity=0.570 Sum_probs=101.0
Q ss_pred CCceeEehhHHH-----HHHHhhcCcceeeeeccCCCCcccccchhHHHHHHHHHHHHHHhhccCCcccccccCCCCccc
Q 011753 142 EDKELTMWDVVV-----EMLLAARGKVHALAKGDIHGCNFSWMSSHLLEQAWQEMAQTLTEANFGNVSELLDAEPPRWLA 216 (478)
Q Consensus 142 ~~~~~~m~dv~~-----~~l~~~~~Kv~al~~~d~~~~~~S~~~~~~le~~~~~~a~~l~~~~~~~~~~~~~~~~p~W~~ 216 (478)
.|..++|||+.. .+++.|.+||.++....+.++++|.-.+..+ ..|. |. ....+.|.|+.
T Consensus 217 ~d~~vi~wdigg~~g~~~el~gh~~kV~~l~~~~~t~~l~S~~edg~i-~~w~-mn-------------~~r~etpewl~ 281 (404)
T KOG1409|consen 217 SDHSVIMWDIGGRKGTAYELQGHNDKVQALSYAQHTRQLISCGEDGGI-VVWN-MN-------------VKRVETPEWLD 281 (404)
T ss_pred ccCceEEEeccCCcceeeeeccchhhhhhhhhhhhheeeeeccCCCeE-EEEe-cc-------------ceeecCccccc
Confidence 678999999997 4778999999999999999999998777554 2232 21 23457899998
Q ss_pred CCCCCcCCCCCccCcc----------cccccccccCCCceEcCCCCCCeeeccccCCCCCceeeCccchhhhcccch
Q 011753 217 DSSASACMLCGVRFHP----------IMCSRHHCRFCGGIFCGECSKGRSLLPVKFRVSDPQRVCDVCCVRLQSVQP 283 (478)
Q Consensus 217 d~~~~~C~~C~~~F~~----------l~~RrHHCR~CG~v~C~~CS~~~~~lP~~~~~~~pvRVC~~C~~~L~~~~~ 283 (478)
..+|+.|+++|.. +..|.||||.||+.||..|++++...|.. +..-.+|+|+.||..|....+
T Consensus 282 ---s~~cQ~c~qpffwn~~~m~~~k~~glr~h~crkcg~avc~~c~s~~~~~p~m-g~e~~vR~~~~c~~~i~~~~~ 354 (404)
T KOG1409|consen 282 ---SDSCQKCNQPFFWNFRQMWDRKQLGLRQHHCRKCGKAVCGKCSSNRSSYPTM-GFEFSVRVCDSCYPTIKDEER 354 (404)
T ss_pred ---cchhhhhCchHHHHHHHHHhhhhhhhhhhhhhhhhhhcCcccccCccccccc-cceeEEEEecccchhhhcCCC
Confidence 5799999999963 24689999999999999999999999864 677899999999999976543
No 12
>KOG1842 consensus FYVE finger-containing protein [General function prediction only]
Probab=99.35 E-value=5.1e-14 Score=145.66 Aligned_cols=75 Identities=37% Similarity=0.737 Sum_probs=59.8
Q ss_pred ccccccCCCCcccCCCCCcCCCCCccCcccccccccccCCCceEcCCCCCCeeeccc------------cC---------
Q 011753 204 SELLDAEPPRWLADSSASACMLCGVRFHPIMCSRHHCRFCGGIFCGECSKGRSLLPV------------KF--------- 262 (478)
Q Consensus 204 ~~~~~~~~p~W~~d~~~~~C~~C~~~F~~l~~RrHHCR~CG~v~C~~CS~~~~~lP~------------~~--------- 262 (478)
.+.++++..+|++|.++..|+.|..+|++ ++||||||+||+|+|.+|+.+-. ++. ++
T Consensus 164 ~k~~EqsvVpW~DDs~V~~CP~Ca~~F~l-~rRrHHCRLCG~VmC~~C~k~iS-le~a~~ltsss~~dt~~e~~qq~~~l 241 (505)
T KOG1842|consen 164 RKRLEQSVVPWLDDSSVQFCPECANSFGL-TRRRHHCRLCGRVMCRDCSKFIS-LEIAIGLTSSSASDTHFEPNQQKDDL 241 (505)
T ss_pred HHHHHhccccccCCCcccccccccchhhh-HHHhhhhhhcchHHHHHHHHhcC-hHHHHHHhhccCCCCCcCcccCcccc
Confidence 34577888999999999999999999996 58999999999999999997532 100 00
Q ss_pred -CCCCceeeCccchhhhcc
Q 011753 263 -RVSDPQRVCDVCCVRLQS 280 (478)
Q Consensus 263 -~~~~pvRVC~~C~~~L~~ 280 (478)
....+.|+|..|...|..
T Consensus 242 H~~~~~iRlC~hCl~~L~~ 260 (505)
T KOG1842|consen 242 HQHPQPIRLCMHCLDNLFR 260 (505)
T ss_pred cCChhHhHHHHHHHHHHHH
Confidence 223468999999988754
No 13
>cd00065 FYVE FYVE domain; Zinc-binding domain; targets proteins to membrane lipids via interaction with phosphatidylinositol-3-phosphate, PI3P; present in Fab1, YOTB, Vac1, and EEA1;
Probab=99.35 E-value=4.1e-13 Score=103.27 Aligned_cols=55 Identities=51% Similarity=0.994 Sum_probs=49.6
Q ss_pred CCcCCCCCccCcccccccccccCCCceEcCCCCCCeeeccccCCCCCceeeCccchh
Q 011753 220 ASACMLCGVRFHPIMCSRHHCRFCGGIFCGECSKGRSLLPVKFRVSDPQRVCDVCCV 276 (478)
Q Consensus 220 ~~~C~~C~~~F~~l~~RrHHCR~CG~v~C~~CS~~~~~lP~~~~~~~pvRVC~~C~~ 276 (478)
+..|+.|++.|+++ .||||||.||++||.+|+.++..+|.. ...+|+|||+.||.
T Consensus 2 ~~~C~~C~~~F~~~-~rk~~Cr~Cg~~~C~~C~~~~~~~~~~-~~~~~~rvC~~C~~ 56 (57)
T cd00065 2 ASSCMGCGKPFTLT-RRRHHCRNCGRIFCSKCSSNRIPLPSM-GGGKPVRVCDSCYE 56 (57)
T ss_pred cCcCcccCccccCC-ccccccCcCcCCcChHHcCCeeecCcc-cCCCccEeChHHhC
Confidence 57899999999986 799999999999999999999888743 56789999999996
No 14
>KOG1841 consensus Smad anchor for receptor activation [Defense mechanisms]
Probab=99.04 E-value=4.9e-11 Score=134.30 Aligned_cols=65 Identities=42% Similarity=0.894 Sum_probs=54.8
Q ss_pred cccCCCCcccCCCCCcCCCCCccCcccccccccccCCCceEcCCCCCCeeeccccCCCCCceeeCccc
Q 011753 207 LDAEPPRWLADSSASACMLCGVRFHPIMCSRHHCRFCGGIFCGECSKGRSLLPVKFRVSDPQRVCDVC 274 (478)
Q Consensus 207 ~~~~~p~W~~d~~~~~C~~C~~~F~~l~~RrHHCR~CG~v~C~~CS~~~~~lP~~~~~~~pvRVC~~C 274 (478)
+.+..|.|+||+.+..||.|.++|+++ +||||||+||+|+|..|+..+..+ .|-...--|||..|
T Consensus 544 lgkkqP~wvpdse~pncm~clqkft~i-krrhhcRacgkVlcgvccnek~~l--eyl~e~~~rv~nV~ 608 (1287)
T KOG1841|consen 544 LGKKQPSWVPDSEAPNCMDCLQKFTPI-KRRHHCRACGKVLCGVCCNEKSAL--EYLSESEGRVSNVD 608 (1287)
T ss_pred cCCCCCccCccccCchHHHHHhhcccc-cccccchhccceeehhhcchhhhh--hhcCcccccccccc
Confidence 456789999999999999999999986 899999999999999999988776 34444556666655
No 15
>KOG4424 consensus Predicted Rho/Rac guanine nucleotide exchange factor/faciogenital dysplasia protein 3 [Signal transduction mechanisms]
Probab=98.73 E-value=1.8e-09 Score=115.46 Aligned_cols=132 Identities=21% Similarity=0.421 Sum_probs=101.0
Q ss_pred CCCcccCCCCCcCCCCCccCcccccccccccCCCceEcCCCCCCeeeccccCCCCCceeeCccchhhhccc--------c
Q 011753 211 PPRWLADSSASACMLCGVRFHPIMCSRHHCRFCGGIFCGECSKGRSLLPVKFRVSDPQRVCDVCCVRLQSV--------Q 282 (478)
Q Consensus 211 ~p~W~~d~~~~~C~~C~~~F~~l~~RrHHCR~CG~v~C~~CS~~~~~lP~~~~~~~pvRVC~~C~~~L~~~--------~ 282 (478)
.|.| +.....|+.|+.+|+.++.|||||+.||.++|+.|+.++..+. +..+...|||..||...... +
T Consensus 408 ~~r~--~~k~~~c~~c~e~~~s~t~~R~~~k~~~~vlc~~cs~~~~~l~--~~~s~ssrv~~~~~~~~~~a~~s~~~rr~ 483 (623)
T KOG4424|consen 408 APRR--DNKVTSCDSCEETFNSITFRRHRCKAKGAVLCDKCSDFMAKLS--YDNSRSSRVCMDRYLTPSGAPGSPPKRRQ 483 (623)
T ss_pred Cccc--ccccccchhhcCchhhHHHhhhhhhhccceeeccccchhhhhc--ccccchhhhhhhhccCCCCCCCCchhccc
Confidence 4577 7779999999999999999999999999999999999987763 45678899999999877542 2
Q ss_pred hhhhccccccCCCC------c-cCccccccccccccCCCCCCHHHHHHHHHHHHhcccccCccCCCCCchh
Q 011753 283 PYLMNQVSHAAQLP------T-RDLTDLSTLRSWVNFPWGQSMEYEIYKAANTIRGYSKVGFLKPEKSIPD 346 (478)
Q Consensus 283 ~~l~~~~S~a~q~p------~-~d~~d~~~~r~wln~P~~~tl~~EI~KAaqtL~~~~kv~~l~pd~sIP~ 346 (478)
..+....+.+.+.. . .+.....|...|.+.|...++....+.+.+.+++-..++..+.+..+|.
T Consensus 484 ~~l~~~~a~~s~~~~~~s~l~~~~~~~~~g~~a~~~vP~~d~~~~~~Yg~~qDv~a~~~iPl~~~~v~~pe 554 (623)
T KOG4424|consen 484 SILEIELATVSKENVICSHLKYMEAAGKTGILAWSVVPKSDPLVDYSYGSPQDVRAQATIPLPGVEVTIPE 554 (623)
T ss_pred ccccccccccCCCceehhhHHHHhhcCccceeeeeeccCCCCccccccCCccccccccccccCccccCCCc
Confidence 22222222222221 1 2235677888899999999999999999999888887776666666554
No 16
>KOG1811 consensus Predicted Zn2+-binding protein, contains FYVE domain [General function prediction only]
Probab=97.12 E-value=3.8e-05 Score=83.38 Aligned_cols=65 Identities=28% Similarity=0.665 Sum_probs=50.7
Q ss_pred CCcccCC----CCCcCCCCC-ccCcccccccccccCCCceEcCCCCCCeeeccccCCCCCceeeCccchhhh
Q 011753 212 PRWLADS----SASACMLCG-VRFHPIMCSRHHCRFCGGIFCGECSKGRSLLPVKFRVSDPQRVCDVCCVRL 278 (478)
Q Consensus 212 p~W~~d~----~~~~C~~C~-~~F~~l~~RrHHCR~CG~v~C~~CS~~~~~lP~~~~~~~pvRVC~~C~~~L 278 (478)
.+|+||. +-.-|+.|. ..|.-+ .||||||.||...|..|+..+.... .-++..|.++|+.|+..-
T Consensus 314 ~nfq~darrafs~a~~~a~~R~~~kd~-~Rk~~~~g~Ga~e~aa~ea~kgiqE-d~gse~~Adg~Dq~psvs 383 (1141)
T KOG1811|consen 314 HNFQPDARRAFSEAICMACCREHFKDF-NRKHHCRGCGALECAACEAKKGIQE-DCGSENPADGCDQCPSVS 383 (1141)
T ss_pred hhcChhhhhhhhhhHHHHHHHHHHHHH-HHhhhccccchHHHhHHHHhhhhhh-cccccCcccccccccchh
Confidence 4699987 446788654 567765 7999999999999999998776553 335578999999999654
No 17
>KOG0230 consensus Phosphatidylinositol-4-phosphate 5-kinase and related FYVE finger-containing proteins [Signal transduction mechanisms]
Probab=97.08 E-value=0.0003 Score=82.98 Aligned_cols=49 Identities=35% Similarity=0.931 Sum_probs=39.1
Q ss_pred CCCcCCCCCccCcccccccccccCCCceEcCCCCCCeeeccccCCCCCceeeCccchhhhcc
Q 011753 219 SASACMLCGVRFHPIMCSRHHCRFCGGIFCGECSKGRSLLPVKFRVSDPQRVCDVCCVRLQS 280 (478)
Q Consensus 219 ~~~~C~~C~~~F~~l~~RrHHCR~CG~v~C~~CS~~~~~lP~~~~~~~pvRVC~~C~~~L~~ 280 (478)
....|..|. +.+ .|+||||.||++||.+|... . ....|||+.|+.....
T Consensus 4 s~~~~~~~~---t~~-~~~~~~~~~g~~~~~~~~~~------~---~~~i~~~~~~~~~~~~ 52 (1598)
T KOG0230|consen 4 SSNVCYDCD---TSV-NRRHHCRVCGRVFCSKCQDS------P---ETSIRVCNECRGQWEQ 52 (1598)
T ss_pred cccchhccc---ccc-ccCCCCcccCceeccccCCC------C---ccceeehhhhhhhccc
Confidence 467888898 444 69999999999999999832 2 2279999999987753
No 18
>PF02318 FYVE_2: FYVE-type zinc finger; InterPro: IPR003315 This entry represents the zinc-binding domain found in rabphilin Rab3A. The small G protein Rab3A plays an important role in the regulation of neurotransmitter release. The crystal structure of the small G protein Rab3A complexed with the effector domain of rabphilin-3A shows that the effector domain of rabphilin-3A contacts Rab3A in two distinct areas. The first interface involves the Rab3A switch I and switch II regions, which are sensitive to the nucleotide-binding state of Rab3A. The second interface consists of a deep pocket in Rab3A that interacts with a SGAWFF structural element of rabphilin-3A. Sequence and structure analysis, and biochemical data suggest that this pocket, or Rab complementarity-determining region (RabCDR), establishes a specific interaction between each Rab protein and its effectors. It has been suggested that RabCDRs could be major determinants of effector specificity during vesicle trafficking and fusion [].; GO: 0008270 zinc ion binding, 0017137 Rab GTPase binding, 0006886 intracellular protein transport; PDB: 2CSZ_A 2ZET_C 1ZBD_B 3BC1_B 2CJS_C 2A20_A.
Probab=96.59 E-value=0.0012 Score=58.57 Aligned_cols=51 Identities=24% Similarity=0.545 Sum_probs=41.8
Q ss_pred CCcCCCCCccCcccccccccccCCCceEcCCCCCCeeeccccCCCCCceeeCccchhhh
Q 011753 220 ASACMLCGVRFHPIMCSRHHCRFCGGIFCGECSKGRSLLPVKFRVSDPQRVCDVCCVRL 278 (478)
Q Consensus 220 ~~~C~~C~~~F~~l~~RrHHCR~CG~v~C~~CS~~~~~lP~~~~~~~pvRVC~~C~~~L 278 (478)
...|..|+++|.++..+.+-|..|..-||.+|+.. ....+.-+|..|+..-
T Consensus 54 ~~~C~~C~~~fg~l~~~~~~C~~C~~~VC~~C~~~--------~~~~~~WlC~vC~k~r 104 (118)
T PF02318_consen 54 ERHCARCGKPFGFLFNRGRVCVDCKHRVCKKCGVY--------SKKEPIWLCKVCQKQR 104 (118)
T ss_dssp CSB-TTTS-BCSCTSTTCEEETTTTEEEETTSEEE--------TSSSCCEEEHHHHHHH
T ss_pred CcchhhhCCcccccCCCCCcCCcCCccccCccCCc--------CCCCCCEEChhhHHHH
Confidence 56899999999998789999999999999999854 2356788999999754
No 19
>KOG0230 consensus Phosphatidylinositol-4-phosphate 5-kinase and related FYVE finger-containing proteins [Signal transduction mechanisms]
Probab=96.00 E-value=0.0025 Score=75.49 Aligned_cols=34 Identities=44% Similarity=1.142 Sum_probs=32.7
Q ss_pred ccCCCCCcCCCCCccCcccccccccccCCCceEcCCC
Q 011753 215 LADSSASACMLCGVRFHPIMCSRHHCRFCGGIFCGEC 251 (478)
Q Consensus 215 ~~d~~~~~C~~C~~~F~~l~~RrHHCR~CG~v~C~~C 251 (478)
++|.....|..|.+.|..+ ||+||| ||+|||.+|
T Consensus 92 m~d~s~~ec~~~~~~~~t~-Rr~~~~--~gqi~~ss~ 125 (1598)
T KOG0230|consen 92 MPDSSSKECYDCEQKFETF-RRKHHC--CGQIFCSSC 125 (1598)
T ss_pred CCccccchhhhhccchhhh-hccccc--CccccCCcc
Confidence 8999999999999999986 899999 999999999
No 20
>KOG1841 consensus Smad anchor for receptor activation [Defense mechanisms]
Probab=94.23 E-value=0.055 Score=63.05 Aligned_cols=57 Identities=26% Similarity=0.450 Sum_probs=47.9
Q ss_pred cCCCCcccCCCCCcCCCCCccCcccccccccccCCCceEcCCCCCCeeeccccCCCCCceeeCccchhhhcc
Q 011753 209 AEPPRWLADSSASACMLCGVRFHPIMCSRHHCRFCGGIFCGECSKGRSLLPVKFRVSDPQRVCDVCCVRLQS 280 (478)
Q Consensus 209 ~~~p~W~~d~~~~~C~~C~~~F~~l~~RrHHCR~CG~v~C~~CS~~~~~lP~~~~~~~pvRVC~~C~~~L~~ 280 (478)
...+.|.+|..+.+|+.|.++|.+. .+||||| |+++ ..+...+..|+|..|...+.+
T Consensus 646 e~ksVw~aDg~aPng~la~t~~~~~-~e~~hsr--~~ls------------~~~~s~~~~~~~n~t~s~~rn 702 (1287)
T KOG1841|consen 646 EVKSVWFADGIAPNGELAETRFTFT-GERHHSR--GKLS------------LLYSSRKEARPCNITHSVLRN 702 (1287)
T ss_pred eecceeccCCcCCCceecccceeee-ccccccc--cccc------------ccccccccCCCCcccCccchh
Confidence 4568999999999999999999975 8999999 8776 123456788999999998765
No 21
>PF06577 DUF1134: Protein of unknown function (DUF1134); InterPro: IPR008325 There are currently no experimental data for members of this group or their homologues, nor do they exhibit features indicative of any function.
Probab=94.15 E-value=0.58 Score=43.61 Aligned_cols=65 Identities=14% Similarity=0.171 Sum_probs=50.0
Q ss_pred eeEEEEEEeeeeEEEEeeeeEEEEEEcCCCCcCCCceEEeecceEEEeecceeeeEEEEEeCHHHHHHhh
Q 011753 354 GLAILSVAKVGVMVTYNIGTGLVIARRNDGSWSPPSAISSFGMGWGAQAGGELTDFIIVLRTNDAVKTFT 423 (478)
Q Consensus 354 Glai~~v~k~g~~~gg~~G~Gvviar~~~g~WS~P~~i~~~g~s~G~q~G~e~~d~Vivl~t~~av~~f~ 423 (478)
|+..-.=.-++|++|.++|.|.|.-|... +--+-..|-|+||.+|++...+.+++-+-..++.+-
T Consensus 39 gYI~G~E~sGA~~~GlrYGeG~L~~k~~g-----~~~vyWqGPSiG~D~G~~~~r~~~LVYnL~~~~~iy 103 (160)
T PF06577_consen 39 GYILGEEASGAFVVGLRYGEGTLYTKNAG-----QHKVYWQGPSIGFDFGGNGSRVFMLVYNLPDPDDIY 103 (160)
T ss_pred eEEEeeeccccEEEEEEecccEEEEcCCC-----eeEEEEeCCceeEeecCCceEEEEEEEcCCCHHHHh
Confidence 45444556677899999999999988653 233566788899999999999888887777777654
No 22
>KOG1729 consensus FYVE finger containing protein [General function prediction only]
Probab=90.68 E-value=0.049 Score=55.59 Aligned_cols=65 Identities=26% Similarity=0.451 Sum_probs=50.7
Q ss_pred CCcccCCCCCcCCCCCccCcccccccccccCCCceEcCCCCC-Ceeec---ccc-CCCCCceeeCccchhh
Q 011753 212 PRWLADSSASACMLCGVRFHPIMCSRHHCRFCGGIFCGECSK-GRSLL---PVK-FRVSDPQRVCDVCCVR 277 (478)
Q Consensus 212 p~W~~d~~~~~C~~C~~~F~~l~~RrHHCR~CG~v~C~~CS~-~~~~l---P~~-~~~~~pvRVC~~C~~~ 277 (478)
+.|+-+.++..|..|...|.+. .|+|||+.||+++|..|+. ..... |.. +-.....+.|..|+..
T Consensus 12 ~~~~~~~e~~s~~~~~~e~~~~-~r~~~~~~~grv~~~q~~~~k~~rk~~q~r~~~l~~D~~~~~~~~~~~ 81 (288)
T KOG1729|consen 12 VDWQANSEANSCRNCKVEFCFG-RRGHPCRECGRVLCRQGTLVKRCRKKLQSRSFFLFNDILVYGNIVSDN 81 (288)
T ss_pred HHHHHhccchhhhhhcccchhh-hccCcccccchhhhhhhhhHHHHhcccccccccccccchhhcccccCH
Confidence 4789999999999999999975 7999999999999999987 22111 111 2345677899999887
No 23
>COG3874 Uncharacterized conserved protein [Function unknown]
Probab=88.92 E-value=1.1 Score=40.53 Aligned_cols=85 Identities=22% Similarity=0.392 Sum_probs=49.3
Q ss_pred HHHHHHHHHHHHhcccccCccCCCCCchhHHHhhcceeEEEEEEeeeeEEEEeeeeEEEEEEcCCCCcCCCceEEeecce
Q 011753 318 MEYEIYKAANTIRGYSKVGFLKPEKSIPDIILRQAKGLAILSVAKVGVMVTYNIGTGLVIARRNDGSWSPPSAISSFGMG 397 (478)
Q Consensus 318 l~~EI~KAaqtL~~~~kv~~l~pd~sIP~~~L~~A~Glai~~v~k~g~~~gg~~G~Gvviar~~~g~WS~P~~i~~~g~s 397 (478)
.+.-+..+..-|+.|..+...-.| -++ +-|-.|+||.|+||.||+.+|.| |...+ .+ +.|
T Consensus 6 Iee~mkt~~e~Lk~m~dv~TiVGd------PIe-~dgs~iiPvsKv~fGFgaGGgEg----k~~t~-------~~--g~G 65 (138)
T COG3874 6 IEELMKTTMENLKKMLDVNTIVGD------PIE-PDGSTIIPVSKVGFGFGAGGGEG----KKSTG-------EK--GFG 65 (138)
T ss_pred hhHHHHHHHHHHHHHhhhcccccC------ccc-CCCcEEEEEEEEeeeeccCCccc----ccccC-------cC--CCC
Confidence 344566666667766543322222 133 67899999999999999999998 32221 23 455
Q ss_pred EEEeecceeeeEEEEEeCHHHHHHh
Q 011753 398 WGAQAGGELTDFIIVLRTNDAVKTF 422 (478)
Q Consensus 398 ~G~q~G~e~~d~Vivl~t~~av~~f 422 (478)
.|+.+|+...-..+++-..+.++.|
T Consensus 66 GG~GaGa~I~PiAflvl~~d~vrml 90 (138)
T COG3874 66 GGAGAGASIEPIAFLVLKSDGVRML 90 (138)
T ss_pred CCCCCccccceeEEEEEecCCEEEE
Confidence 5555555554433333333444433
No 24
>COG5400 Uncharacterized protein conserved in bacteria [Function unknown]
Probab=87.54 E-value=2.8 Score=39.72 Aligned_cols=59 Identities=14% Similarity=0.209 Sum_probs=46.1
Q ss_pred EEeeeeEEEEeeeeEEEEEEcCCCCcCCCceEEeecceEEEeecceeeeEEEEEeCHHHHHHhh
Q 011753 360 VAKVGVMVTYNIGTGLVIARRNDGSWSPPSAISSFGMGWGAQAGGELTDFIIVLRTNDAVKTFT 423 (478)
Q Consensus 360 v~k~g~~~gg~~G~Gvviar~~~g~WS~P~~i~~~g~s~G~q~G~e~~d~Vivl~t~~av~~f~ 423 (478)
-..++||-|..+|.|.+..|+.... + +-.-|-++|+..|+|-+.++++.-|-+.++++-
T Consensus 90 EGSGAfIaGltYGeG~LytKn~g~h---~--vFWQGPslGwD~GGqgsRvmmLvYnL~~v~aly 148 (205)
T COG5400 90 EGSGAFIAGLTYGEGTLYTKNAGDH---K--VFWQGPSLGWDWGGQGSRVMMLVYNLDDVDALY 148 (205)
T ss_pred ccccceEeeeeeccceEEecCCCCc---c--eEeeCCccccccCCCceEEEEEEecCCCHHHHH
Confidence 5567789999999999998864310 1 233456799999999999999998888888754
No 25
>KOG0993 consensus Rab5 GTPase effector Rabaptin-5 [Intracellular trafficking, secretion, and vesicular transport]
Probab=86.37 E-value=0.017 Score=60.70 Aligned_cols=66 Identities=26% Similarity=0.541 Sum_probs=54.7
Q ss_pred CCcccCCCCCcCCCCCccCcccccccccccC--CCceEcCCCCCCeeeccccCCCCCceeeCccchhhhccc
Q 011753 212 PRWLADSSASACMLCGVRFHPIMCSRHHCRF--CGGIFCGECSKGRSLLPVKFRVSDPQRVCDVCCVRLQSV 281 (478)
Q Consensus 212 p~W~~d~~~~~C~~C~~~F~~l~~RrHHCR~--CG~v~C~~CS~~~~~lP~~~~~~~pvRVC~~C~~~L~~~ 281 (478)
..|.-+.++..|..|-.+|..+ +-.-||-+ |++|||-.|++- .+|. .....|..||..|+..+.+-
T Consensus 460 le~ql~~~ve~c~~~~aS~~sl-k~e~erl~qq~eqi~~~~~~Ka--tvp~-l~~e~~akv~rlq~eL~~se 527 (542)
T KOG0993|consen 460 LEWQLDDDVEQCSNCDASFASL-KVEPERLHQQCEQIFCMNCLKA--TVPS-LPNERPAKVCRLQHELLNSE 527 (542)
T ss_pred HHHHHHHHHHHHHHHHHHHHHH-hccHHHHHHHHHHHHHHhHHHh--hccc-ccccchHHHHHHHHHHhhhc
Confidence 4688888899999999999986 67888887 999999999974 4553 35678999999999887653
No 26
>PF09538 FYDLN_acid: Protein of unknown function (FYDLN_acid); InterPro: IPR012644 Members of this family are bacterial proteins with a conserved motif [KR]FYDLN, sometimes flanked by a pair of CXXC motifs, followed by a long region of low complexity sequence in which roughly half the residues are Asp and Glu, including multiple runs of five or more acidic residues. The function of members of this family is unknown.
Probab=84.51 E-value=0.67 Score=40.81 Aligned_cols=33 Identities=27% Similarity=0.579 Sum_probs=25.9
Q ss_pred CCcccCCCCCcCCCCCccCcccccccccccCCCceE
Q 011753 212 PRWLADSSASACMLCGVRFHPIMCSRHHCRFCGGIF 247 (478)
Q Consensus 212 p~W~~d~~~~~C~~C~~~F~~l~~RrHHCR~CG~v~ 247 (478)
|.|-- -..|+.|+++|-=|.++.-+|..||.+|
T Consensus 4 pelGt---KR~Cp~CG~kFYDLnk~PivCP~CG~~~ 36 (108)
T PF09538_consen 4 PELGT---KRTCPSCGAKFYDLNKDPIVCPKCGTEF 36 (108)
T ss_pred cccCC---cccCCCCcchhccCCCCCccCCCCCCcc
Confidence 45544 5789999999988866677788888876
No 27
>TIGR00622 ssl1 transcription factor ssl1. This family is based on the phylogenomic analysis of JA Eisen (1999, Ph.D. Thesis, Stanford University).
Probab=83.38 E-value=0.99 Score=40.01 Aligned_cols=41 Identities=22% Similarity=0.496 Sum_probs=30.3
Q ss_pred CcccCCCCCcCCCCCccCccc---------ccccccccCCCceEcCCCCC
Q 011753 213 RWLADSSASACMLCGVRFHPI---------MCSRHHCRFCGGIFCGECSK 253 (478)
Q Consensus 213 ~W~~d~~~~~C~~C~~~F~~l---------~~RrHHCR~CG~v~C~~CS~ 253 (478)
.|........|..|+++|... ...|..|..|.++||-+|=.
T Consensus 48 ~~~~~~~~~~C~~C~~~f~~~~~~~~~~~~~~~~y~C~~C~~~FC~dCD~ 97 (112)
T TIGR00622 48 PLEEYNGSRFCFGCQGPFPKPPVSPFDELKDSHRYVCAVCKNVFCVDCDV 97 (112)
T ss_pred cccccCCCCcccCcCCCCCCcccccccccccccceeCCCCCCccccccch
Confidence 344344456799999999731 23478899999999999964
No 28
>PRK00464 nrdR transcriptional regulator NrdR; Validated
Probab=83.22 E-value=0.62 Score=43.48 Aligned_cols=25 Identities=36% Similarity=0.761 Sum_probs=19.5
Q ss_pred cCCCCCccCc------------ccccccccccCCCceE
Q 011753 222 ACMLCGVRFH------------PIMCSRHHCRFCGGIF 247 (478)
Q Consensus 222 ~C~~C~~~F~------------~l~~RrHHCR~CG~v~ 247 (478)
.|+.|+.+++ .+ +|+++|++||.-|
T Consensus 2 ~cp~c~~~~~~~~~s~~~~~~~~~-~~~~~c~~c~~~f 38 (154)
T PRK00464 2 RCPFCGHPDTRVIDSRPAEDGNAI-RRRRECLACGKRF 38 (154)
T ss_pred cCCCCCCCCCEeEeccccCCCCce-eeeeeccccCCcc
Confidence 5999998883 23 5679999999876
No 29
>TIGR02300 FYDLN_acid conserved hypothetical protein TIGR02300. Members of this family are bacterial proteins with a conserved motif [KR]FYDLN, sometimes flanked by a pair of CXXC motifs, followed by a long region of low complexity sequence in which roughly half the residues are Asp and Glu, including multiple runs of five or more acidic residues. The function of members of this family is unknown.
Probab=81.57 E-value=0.97 Score=40.85 Aligned_cols=33 Identities=18% Similarity=0.290 Sum_probs=26.4
Q ss_pred CCcccCCCCCcCCCCCccCcccccccccccCCCceE
Q 011753 212 PRWLADSSASACMLCGVRFHPIMCSRHHCRFCGGIF 247 (478)
Q Consensus 212 p~W~~d~~~~~C~~C~~~F~~l~~RrHHCR~CG~v~ 247 (478)
|.|-- -..|+.|+++|--|.++..+|..||..+
T Consensus 4 ~elGt---Kr~Cp~cg~kFYDLnk~p~vcP~cg~~~ 36 (129)
T TIGR02300 4 PDLGT---KRICPNTGSKFYDLNRRPAVSPYTGEQF 36 (129)
T ss_pred hhhCc---cccCCCcCccccccCCCCccCCCcCCcc
Confidence 45544 5689999999988877788899998875
No 30
>KOG0320 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=77.32 E-value=0.31 Score=46.37 Aligned_cols=50 Identities=20% Similarity=0.508 Sum_probs=35.8
Q ss_pred CCcCCCCCccCcccccccccccCCCceEcCCCCCCeeeccccCCCCCceeeCccchhhhccc
Q 011753 220 ASACMLCGVRFHPIMCSRHHCRFCGGIFCGECSKGRSLLPVKFRVSDPQRVCDVCCVRLQSV 281 (478)
Q Consensus 220 ~~~C~~C~~~F~~l~~RrHHCR~CG~v~C~~CS~~~~~lP~~~~~~~pvRVC~~C~~~L~~~ 281 (478)
.-.|++|-..|+- +-----+||+|||..|.+.- .+..++|-.|..+|...
T Consensus 131 ~~~CPiCl~~~se---k~~vsTkCGHvFC~~Cik~a---------lk~~~~CP~C~kkIt~k 180 (187)
T KOG0320|consen 131 TYKCPICLDSVSE---KVPVSTKCGHVFCSQCIKDA---------LKNTNKCPTCRKKITHK 180 (187)
T ss_pred ccCCCceecchhh---ccccccccchhHHHHHHHHH---------HHhCCCCCCcccccchh
Confidence 4678888887762 22234689999999998643 23478899999887653
No 31
>PF07975 C1_4: TFIIH C1-like domain; InterPro: IPR004595 All proteins in this domain for which functions are known are components of the TFIIH complex which is involved in the initiation of transcription and nucleotide excision repair. It includes the yeast transcription factor Ssl1 (Suppressor of stem-loop protein 1) that is essential for translation initiation and affects UV resistance. The C-terminal region is essential for transcription activity. This regions binds three zinc atoms through two independent domain. The first contains a C4 zinc finger motif, whereas the second is characterised by a CX(2)CX(2-4)FCADCD motif. The solution structure of the second C-terminal domain revealed homology with the regulatory domain of protein kinase C [].; GO: 0006281 DNA repair, 0005634 nucleus; PDB: 1Z60_A.
Probab=73.52 E-value=0.73 Score=35.29 Aligned_cols=31 Identities=32% Similarity=0.674 Sum_probs=19.1
Q ss_pred cCCCCCccCcccc-----cccccccCCCceEcCCCC
Q 011753 222 ACMLCGVRFHPIM-----CSRHHCRFCGGIFCGECS 252 (478)
Q Consensus 222 ~C~~C~~~F~~l~-----~RrHHCR~CG~v~C~~CS 252 (478)
.|..|.++|.... ..+..|..|+++||-.|=
T Consensus 1 ~CfgC~~~~~~~~~~~~~~~~y~C~~C~~~FC~dCD 36 (51)
T PF07975_consen 1 YCFGCQKPFPDGPEKKADSSRYRCPKCKNHFCIDCD 36 (51)
T ss_dssp EETTTTEE-TTS-------EEE--TTTT--B-HHHH
T ss_pred CCccCCCCCCCcccccccCCeEECCCCCCccccCcC
Confidence 4889999998531 257999999999999984
No 32
>KOG1314 consensus DHHC-type Zn-finger protein [General function prediction only]
Probab=69.27 E-value=1.4 Score=46.05 Aligned_cols=35 Identities=26% Similarity=0.636 Sum_probs=26.5
Q ss_pred cCCCCcccCCCCC-----cCCCCCccCcccccccccccCCCce
Q 011753 209 AEPPRWLADSSAS-----ACMLCGVRFHPIMCSRHHCRFCGGI 246 (478)
Q Consensus 209 ~~~p~W~~d~~~~-----~C~~C~~~F~~l~~RrHHCR~CG~v 246 (478)
..++.|.|....+ -|..|+. |-. -|-||||.|.+.
T Consensus 75 ~vp~~wkPe~~~D~~~lqfCk~Cqg-YKa--pRSHHCrkCnrC 114 (414)
T KOG1314|consen 75 FVPLGWKPENPKDEMFLQFCKKCQG-YKA--PRSHHCRKCNRC 114 (414)
T ss_pred CCCCCCCCCCChhHHHHHHHhhccC-cCC--CccccchHHHHH
Confidence 4578899966555 6888886 443 599999999875
No 33
>PRK00420 hypothetical protein; Validated
Probab=66.79 E-value=4.1 Score=36.20 Aligned_cols=26 Identities=19% Similarity=0.534 Sum_probs=15.6
Q ss_pred CCcCCCCCccCcccccccccccCCCc
Q 011753 220 ASACMLCGVRFHPIMCSRHHCRFCGG 245 (478)
Q Consensus 220 ~~~C~~C~~~F~~l~~RrHHCR~CG~ 245 (478)
..+|+.|+.+|.-+...+.-|.+||.
T Consensus 23 ~~~CP~Cg~pLf~lk~g~~~Cp~Cg~ 48 (112)
T PRK00420 23 SKHCPVCGLPLFELKDGEVVCPVHGK 48 (112)
T ss_pred cCCCCCCCCcceecCCCceECCCCCC
Confidence 47899999887754223333444444
No 34
>KOG4275 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=65.80 E-value=0.84 Score=46.57 Aligned_cols=49 Identities=35% Similarity=0.740 Sum_probs=40.1
Q ss_pred CCCCcCCCCCccCcccccccccccCCCceEcCCCCCCeeeccccCCCCCceeeCccchhh
Q 011753 218 SSASACMLCGVRFHPIMCSRHHCRFCGGIFCGECSKGRSLLPVKFRVSDPQRVCDVCCVR 277 (478)
Q Consensus 218 ~~~~~C~~C~~~F~~l~~RrHHCR~CG~v~C~~CS~~~~~lP~~~~~~~pvRVC~~C~~~ 277 (478)
....+|..|+..|.-+ .+||-|--|-+-||..|| ++.+ -.|.|..|...
T Consensus 42 ~~~p~ckacg~~f~~~-~~k~~c~dckk~fc~tcs--~v~~--------~lr~c~~c~r~ 90 (350)
T KOG4275|consen 42 SQAPHCKACGEEFEDA-QSKSDCEDCKKEFCATCS--RVSI--------SLRTCTSCRRV 90 (350)
T ss_pred cccchhhhhchhHhhh-hhhhhhhhhhHHHHHHHH--Hhcc--------cchhhhHHHHH
Confidence 3456899999999975 899999999999999999 3222 46889999854
No 35
>PRK00432 30S ribosomal protein S27ae; Validated
Probab=62.35 E-value=5.7 Score=30.18 Aligned_cols=28 Identities=32% Similarity=0.574 Sum_probs=19.2
Q ss_pred CCcCCCCCccCcccccccccccCCCceE
Q 011753 220 ASACMLCGVRFHPIMCSRHHCRFCGGIF 247 (478)
Q Consensus 220 ~~~C~~C~~~F~~l~~RrHHCR~CG~v~ 247 (478)
...|+.|+..|-..-..+++|..||...
T Consensus 20 ~~fCP~Cg~~~m~~~~~r~~C~~Cgyt~ 47 (50)
T PRK00432 20 NKFCPRCGSGFMAEHLDRWHCGKCGYTE 47 (50)
T ss_pred cCcCcCCCcchheccCCcEECCCcCCEE
Confidence 4589999886433334578888888754
No 36
>PF13717 zinc_ribbon_4: zinc-ribbon domain
Probab=61.69 E-value=5.2 Score=28.22 Aligned_cols=26 Identities=23% Similarity=0.662 Sum_probs=17.8
Q ss_pred cCCCCCccCccc------ccccccccCCCceE
Q 011753 222 ACMLCGVRFHPI------MCSRHHCRFCGGIF 247 (478)
Q Consensus 222 ~C~~C~~~F~~l------~~RrHHCR~CG~v~ 247 (478)
.|+.|++.|.+= ..++-.|.+||.+|
T Consensus 4 ~Cp~C~~~y~i~d~~ip~~g~~v~C~~C~~~f 35 (36)
T PF13717_consen 4 TCPNCQAKYEIDDEKIPPKGRKVRCSKCGHVF 35 (36)
T ss_pred ECCCCCCEEeCCHHHCCCCCcEEECCCCCCEe
Confidence 588888888731 13466788887765
No 37
>PF13719 zinc_ribbon_5: zinc-ribbon domain
Probab=60.86 E-value=5.5 Score=28.17 Aligned_cols=27 Identities=30% Similarity=0.654 Sum_probs=18.3
Q ss_pred CcCCCCCccCccc------ccccccccCCCceE
Q 011753 221 SACMLCGVRFHPI------MCSRHHCRFCGGIF 247 (478)
Q Consensus 221 ~~C~~C~~~F~~l------~~RrHHCR~CG~v~ 247 (478)
..|+.|+..|.+- ..++..|-.|+.+|
T Consensus 3 i~CP~C~~~f~v~~~~l~~~~~~vrC~~C~~~f 35 (37)
T PF13719_consen 3 ITCPNCQTRFRVPDDKLPAGGRKVRCPKCGHVF 35 (37)
T ss_pred EECCCCCceEEcCHHHcccCCcEEECCCCCcEe
Confidence 3688899888732 13466777777765
No 38
>smart00154 ZnF_AN1 AN1-like Zinc finger. Zinc finger at the C-terminus of An1, a ubiquitin-like protein in Xenopus laevis.
Probab=60.85 E-value=5.6 Score=28.59 Aligned_cols=26 Identities=38% Similarity=1.100 Sum_probs=19.1
Q ss_pred CCCCCccCcccccccccccCCCceEcCCC
Q 011753 223 CMLCGVRFHPIMCSRHHCRFCGGIFCGEC 251 (478)
Q Consensus 223 C~~C~~~F~~l~~RrHHCR~CG~v~C~~C 251 (478)
|..|++.-.+ ....|+.|+++||..-
T Consensus 1 C~~C~~~~~l---~~f~C~~C~~~FC~~H 26 (39)
T smart00154 1 CHFCRKKVGL---TGFKCRHCGNLFCGEH 26 (39)
T ss_pred CcccCCcccc---cCeECCccCCcccccc
Confidence 5678876553 2578999999998753
No 39
>PF01485 IBR: IBR domain; InterPro: IPR002867 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 a cysteine-rich (C6HC) zinc finger domain that is present in Triad1, and which is conserved in other proteins encoded by various eukaryotes. The C6HC consensus pattern is: C-x(4)-C-x(14-30)-C-x(1-4)-C-x(4)-C-x(2)-C-x(4)-H-x(4)-C The C6HC zinc finger motif is the fourth family member of the zinc-binding RING, LIM, and LAP/PHD fingers. Strikingly, in most of the proteins the C6HC domain is flanked by two RING finger structures IPR001841 from INTERPRO. The novel C6HC motif has been called DRIL (double RING finger linked). The strong conservation of the larger tripartite TRIAD (twoRING fingers and DRIL) structure indicates that the three subdomains are functionally linked and identifies a novel class of proteins []. More information about these proteins can be found at Protein of the Month: Zinc Fingers [].; GO: 0008270 zinc ion binding; PDB: 2CT7_A 1WD2_A 2JMO_A 1WIM_A.
Probab=59.29 E-value=8.8 Score=29.15 Aligned_cols=34 Identities=24% Similarity=0.450 Sum_probs=20.2
Q ss_pred CCcCCC--CCccCcccccc---cccccCCCceEcCCCCC
Q 011753 220 ASACML--CGVRFHPIMCS---RHHCRFCGGIFCGECSK 253 (478)
Q Consensus 220 ~~~C~~--C~~~F~~l~~R---rHHCR~CG~v~C~~CS~ 253 (478)
...|+. |...|..-... .-.|..||..||..|-.
T Consensus 18 ~~~Cp~~~C~~~~~~~~~~~~~~~~C~~C~~~fC~~C~~ 56 (64)
T PF01485_consen 18 IRWCPNPDCEYIIEKDDGCNSPIVTCPSCGTEFCFKCGE 56 (64)
T ss_dssp CC--TTSST---ECS-SSTTS--CCTTSCCSEECSSSTS
T ss_pred ccCCCCCCCcccEEecCCCCCCeeECCCCCCcCccccCc
Confidence 357876 99877643211 25799999999999975
No 40
>KOG0978 consensus E3 ubiquitin ligase involved in syntaxin degradation [Posttranslational modification, protein turnover, chaperones]
Probab=58.60 E-value=1.3 Score=50.36 Aligned_cols=43 Identities=35% Similarity=0.820 Sum_probs=32.1
Q ss_pred CCcCCCCCccCc--ccccccccccCCCceEcCCCCCCeeeccccCCCCCceeeCccchhh
Q 011753 220 ASACMLCGVRFH--PIMCSRHHCRFCGGIFCGECSKGRSLLPVKFRVSDPQRVCDVCCVR 277 (478)
Q Consensus 220 ~~~C~~C~~~F~--~l~~RrHHCR~CG~v~C~~CS~~~~~lP~~~~~~~pvRVC~~C~~~ 277 (478)
.-.|+.|+..+- .| -.||++||..|...+. ...+|-|..|-.-
T Consensus 643 ~LkCs~Cn~R~Kd~vI-------~kC~H~FC~~Cvq~r~--------etRqRKCP~Cn~a 687 (698)
T KOG0978|consen 643 LLKCSVCNTRWKDAVI-------TKCGHVFCEECVQTRY--------ETRQRKCPKCNAA 687 (698)
T ss_pred ceeCCCccCchhhHHH-------HhcchHHHHHHHHHHH--------HHhcCCCCCCCCC
Confidence 457999987553 22 3899999999997652 3468999999753
No 41
>PF07282 OrfB_Zn_ribbon: Putative transposase DNA-binding domain; InterPro: IPR010095 This entry represents a region of a sequence similarity between a family of putative transposases of Thermoanaerobacter tengcongensis, smaller related proteins from Bacillus anthracis, putative transposes described by IPR001959 from INTERPRO, and other proteins. More information about these proteins can be found at Protein of the Month: Transposase [].
Probab=58.56 E-value=8.5 Score=30.35 Aligned_cols=29 Identities=24% Similarity=0.448 Sum_probs=22.5
Q ss_pred CCCcCCCCCccCcc-cccccccccCCCceE
Q 011753 219 SASACMLCGVRFHP-IMCSRHHCRFCGGIF 247 (478)
Q Consensus 219 ~~~~C~~C~~~F~~-l~~RrHHCR~CG~v~ 247 (478)
.+..|+.|+..-.. ...|.++|..||..+
T Consensus 27 TSq~C~~CG~~~~~~~~~r~~~C~~Cg~~~ 56 (69)
T PF07282_consen 27 TSQTCPRCGHRNKKRRSGRVFTCPNCGFEM 56 (69)
T ss_pred CccCccCcccccccccccceEEcCCCCCEE
Confidence 47889999986654 346789999999874
No 42
>PF12773 DZR: Double zinc ribbon
Probab=58.18 E-value=7.5 Score=28.72 Aligned_cols=27 Identities=33% Similarity=0.679 Sum_probs=16.9
Q ss_pred CCCcCCCCCccCcccccccccccCCCc
Q 011753 219 SASACMLCGVRFHPIMCSRHHCRFCGG 245 (478)
Q Consensus 219 ~~~~C~~C~~~F~~l~~RrHHCR~CG~ 245 (478)
++..|..|+.++.........|..||.
T Consensus 11 ~~~fC~~CG~~l~~~~~~~~~C~~Cg~ 37 (50)
T PF12773_consen 11 DAKFCPHCGTPLPPPDQSKKICPNCGA 37 (50)
T ss_pred cccCChhhcCChhhccCCCCCCcCCcC
Confidence 367788888877621234566777766
No 43
>KOG3576 consensus Ovo and related transcription factors [Transcription]
Probab=57.31 E-value=2 Score=42.03 Aligned_cols=33 Identities=36% Similarity=0.792 Sum_probs=21.6
Q ss_pred CCCCCcCCCCCccCccc-----------ccccccccCCCceEcC
Q 011753 217 DSSASACMLCGVRFHPI-----------MCSRHHCRFCGGIFCG 249 (478)
Q Consensus 217 d~~~~~C~~C~~~F~~l-----------~~RrHHCR~CG~v~C~ 249 (478)
|...-.|..|++.|++- -.+||-|+.||+-|=+
T Consensus 114 d~d~ftCrvCgK~F~lQRmlnrh~kch~~vkr~lct~cgkgfnd 157 (267)
T KOG3576|consen 114 DQDSFTCRVCGKKFGLQRMLNRHLKCHSDVKRHLCTFCGKGFND 157 (267)
T ss_pred CCCeeeeehhhhhhhHHHHHHHHhhhccHHHHHHHhhccCcccc
Confidence 44567788888888731 0246778888877644
No 44
>PHA02768 hypothetical protein; Provisional
Probab=57.20 E-value=4.8 Score=31.36 Aligned_cols=27 Identities=19% Similarity=0.315 Sum_probs=18.3
Q ss_pred CcCCCCCccCcccc-----cc----cccccCCCceE
Q 011753 221 SACMLCGVRFHPIM-----CS----RHHCRFCGGIF 247 (478)
Q Consensus 221 ~~C~~C~~~F~~l~-----~R----rHHCR~CG~v~ 247 (478)
-.|..|++.|+... .| .+.|-.||++|
T Consensus 6 y~C~~CGK~Fs~~~~L~~H~r~H~k~~kc~~C~k~f 41 (55)
T PHA02768 6 YECPICGEIYIKRKSMITHLRKHNTNLKLSNCKRIS 41 (55)
T ss_pred cCcchhCCeeccHHHHHHHHHhcCCcccCCccccee
Confidence 36999999998421 13 34577787776
No 45
>KOG3799 consensus Rab3 effector RIM1 and related proteins, contain Rab3a binding domain [Intracellular trafficking, secretion, and vesicular transport]
Probab=56.21 E-value=9.5 Score=34.97 Aligned_cols=70 Identities=29% Similarity=0.681 Sum_probs=48.4
Q ss_pred CCcCCCCCc-cCcccccccccccCCCceEcCCCCCCeeeccccCCCCCceeeCccchhh---hcccchhhhccccccCCC
Q 011753 220 ASACMLCGV-RFHPIMCSRHHCRFCGGIFCGECSKGRSLLPVKFRVSDPQRVCDVCCVR---LQSVQPYLMNQVSHAAQL 295 (478)
Q Consensus 220 ~~~C~~C~~-~F~~l~~RrHHCR~CG~v~C~~CS~~~~~lP~~~~~~~pvRVC~~C~~~---L~~~~~~l~~~~S~a~q~ 295 (478)
...|.+|.+ +|.- -=-|.|..|.--||..|-- ++.+ .+++-.-||+.|-.. |...-.++.+..|+..+.
T Consensus 65 datC~IC~KTKFAD--G~GH~C~YCq~r~CARCGG-rv~l----rsNKv~wvcnlc~k~q~il~ksg~wf~~sgs~~~~~ 137 (169)
T KOG3799|consen 65 DATCGICHKTKFAD--GCGHNCSYCQTRFCARCGG-RVSL----RSNKVMWVCNLCRKQQEILTKSGAWFYNSGSNTPQQ 137 (169)
T ss_pred Ccchhhhhhccccc--ccCcccchhhhhHHHhcCC-eeee----ccCceEEeccCCcHHHHHHHhcchHHHhcCCCCCCC
Confidence 467999987 3442 2458899999999999985 3444 356778899999864 333344455666666665
Q ss_pred C
Q 011753 296 P 296 (478)
Q Consensus 296 p 296 (478)
|
T Consensus 138 p 138 (169)
T KOG3799|consen 138 P 138 (169)
T ss_pred c
Confidence 5
No 46
>TIGR01562 FdhE formate dehydrogenase accessory protein FdhE. The only sequence scoring between trusted and noise is that from Aquifex aeolicus, which shows certain structural differences from the proteobacterial forms in the alignment. However it is notable that A. aeolicus also has a sequence scoring above trusted to the alpha subunit of formate dehydrogenase (TIGR01553).
Probab=55.00 E-value=12 Score=38.85 Aligned_cols=61 Identities=20% Similarity=0.490 Sum_probs=38.2
Q ss_pred CCcCCCCCccC--ccc-------ccccccccCCC------ceEcCCCCCCeeeccc-cCC---CCCcee--eCccchhhh
Q 011753 220 ASACMLCGVRF--HPI-------MCSRHHCRFCG------GIFCGECSKGRSLLPV-KFR---VSDPQR--VCDVCCVRL 278 (478)
Q Consensus 220 ~~~C~~C~~~F--~~l-------~~RrHHCR~CG------~v~C~~CS~~~~~lP~-~~~---~~~pvR--VC~~C~~~L 278 (478)
...|+.|+..= +.+ ..|..||-.|+ ++-|..|-+.+ .+-. ... ....+| +|+.|..-+
T Consensus 184 ~~~CPvCGs~P~~s~~~~~~~~~G~RyL~CslC~teW~~~R~~C~~Cg~~~-~l~y~~~e~~~~~~~~r~e~C~~C~~Yl 262 (305)
T TIGR01562 184 RTLCPACGSPPVASMVRQGGKETGLRYLSCSLCATEWHYVRVKCSHCEESK-HLAYLSLEHDAEKAVLKAETCDSCQGYL 262 (305)
T ss_pred CCcCCCCCChhhhhhhcccCCCCCceEEEcCCCCCcccccCccCCCCCCCC-ceeeEeecCCCCCcceEEeeccccccch
Confidence 56899999752 111 24778999998 46888887643 1210 011 123455 999999877
Q ss_pred ccc
Q 011753 279 QSV 281 (478)
Q Consensus 279 ~~~ 281 (478)
..+
T Consensus 263 K~~ 265 (305)
T TIGR01562 263 KIL 265 (305)
T ss_pred hhh
Confidence 653
No 47
>PRK00398 rpoP DNA-directed RNA polymerase subunit P; Provisional
Probab=53.10 E-value=9 Score=28.13 Aligned_cols=23 Identities=26% Similarity=0.603 Sum_probs=15.7
Q ss_pred cCCCCCccCcccccc--cccccCCCc
Q 011753 222 ACMLCGVRFHPIMCS--RHHCRFCGG 245 (478)
Q Consensus 222 ~C~~C~~~F~~l~~R--rHHCR~CG~ 245 (478)
.|..|+..|.+- .. ..+|..||.
T Consensus 5 ~C~~CG~~~~~~-~~~~~~~Cp~CG~ 29 (46)
T PRK00398 5 KCARCGREVELD-EYGTGVRCPYCGY 29 (46)
T ss_pred ECCCCCCEEEEC-CCCCceECCCCCC
Confidence 588888888643 22 467777775
No 48
>TIGR02874 spore_ytfJ sporulation protein YtfJ. Members of this protein family, exemplified by YtfJ of Bacillus subtilis, are encoded by bacterial genomes if and only if the species is capable of endospore formation. YtfJ was confirmed in spores of Bacillus subtilis; it appears to be expressed in the forespore under control of SigF (see PubMed:12480901).
Probab=52.88 E-value=50 Score=29.94 Aligned_cols=53 Identities=13% Similarity=0.147 Sum_probs=34.8
Q ss_pred CCHHHHHHHHHHHHhcccccCccCCCCCchhHHHhhcceeEEEEEEeeeeEEEEeeeeE
Q 011753 316 QSMEYEIYKAANTIRGYSKVGFLKPEKSIPDIILRQAKGLAILSVAKVGVMVTYNIGTG 374 (478)
Q Consensus 316 ~tl~~EI~KAaqtL~~~~kv~~l~pd~sIP~~~L~~A~Glai~~v~k~g~~~gg~~G~G 374 (478)
++.+..+..+-+-|+.|..+...=.+ -++-.-|-.|+|+.|++|.||+.+|.+
T Consensus 2 hpie~lm~t~~e~ik~~i~v~tVvGd------PI~~~dgt~IIPvs~VsfGfgaGg~~~ 54 (125)
T TIGR02874 2 HPIENLMKTTMENIKEMIDVNTIVGD------PVETPDGSVIIPISKVSFGFAAGGSEF 54 (125)
T ss_pred CcHHHHHHHHHHHHHHheeeceEEec------CEEcCCCeEEEEEEEEEEeeeeccCcc
Confidence 34555667777778877653221111 123345789999999999998877765
No 49
>KOG2164 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=51.74 E-value=4.4 Score=44.34 Aligned_cols=52 Identities=21% Similarity=0.406 Sum_probs=38.8
Q ss_pred CCcCCCCCccCcccccccccccCCCceEcCCCCCCeeeccccCCCCCceeeCccchhhhcc
Q 011753 220 ASACMLCGVRFHPIMCSRHHCRFCGGIFCGECSKGRSLLPVKFRVSDPQRVCDVCCVRLQS 280 (478)
Q Consensus 220 ~~~C~~C~~~F~~l~~RrHHCR~CG~v~C~~CS~~~~~lP~~~~~~~pvRVC~~C~~~L~~ 280 (478)
-..|++|-.++.+- .|- +||+|||..|--+....+ ..+.-+-|.-|+..+..
T Consensus 186 ~~~CPICL~~~~~p-~~t----~CGHiFC~~CiLqy~~~s----~~~~~~~CPiC~s~I~~ 237 (513)
T KOG2164|consen 186 DMQCPICLEPPSVP-VRT----NCGHIFCGPCILQYWNYS----AIKGPCSCPICRSTITL 237 (513)
T ss_pred CCcCCcccCCCCcc-ccc----ccCceeeHHHHHHHHhhh----cccCCccCCchhhhccc
Confidence 36899999888743 232 499999999986655443 24567889999998865
No 50
>PF09889 DUF2116: Uncharacterized protein containing a Zn-ribbon (DUF2116); InterPro: IPR019216 This entry contains various hypothetical prokaryotic proteins whose functions are unknown. They contain a conserved zinc ribbon motif in the N-terminal part and a predicted transmembrane segment in the C-terminal part.
Probab=51.08 E-value=5.2 Score=31.57 Aligned_cols=30 Identities=27% Similarity=0.675 Sum_probs=21.5
Q ss_pred cccccCCCceEcCCCCCCeeeccccCCCCCceeeC-ccchhhhcccch
Q 011753 237 RHHCRFCGGIFCGECSKGRSLLPVKFRVSDPQRVC-DVCCVRLQSVQP 283 (478)
Q Consensus 237 rHHCR~CG~v~C~~CS~~~~~lP~~~~~~~pvRVC-~~C~~~L~~~~~ 283 (478)
..||.+||. ++|+ ..+.| +.|.+.....|+
T Consensus 3 HkHC~~CG~-----------~Ip~------~~~fCS~~C~~~~~k~qk 33 (59)
T PF09889_consen 3 HKHCPVCGK-----------PIPP------DESFCSPKCREEYRKRQK 33 (59)
T ss_pred CCcCCcCCC-----------cCCc------chhhhCHHHHHHHHHHHH
Confidence 468999987 3443 47889 589988776544
No 51
>TIGR01031 rpmF_bact ribosomal protein L32. This protein describes bacterial ribosomal protein L32. The noise cutoff is set low enough to include the equivalent protein from mitochondria and chloroplasts. No related proteins from the Archaea nor from the eukaryotic cytosol are detected by this model. This model is a fragment model; the putative L32 of some species shows similarity only toward the N-terminus.
Probab=50.88 E-value=10 Score=29.38 Aligned_cols=26 Identities=31% Similarity=0.643 Sum_probs=17.0
Q ss_pred ccCCCCCcCCCCCccCccccccccc-ccCCCc
Q 011753 215 LADSSASACMLCGVRFHPIMCSRHH-CRFCGG 245 (478)
Q Consensus 215 ~~d~~~~~C~~C~~~F~~l~~RrHH-CR~CG~ 245 (478)
........|..|+. + .+.|| |..||.
T Consensus 21 l~~p~l~~C~~cG~----~-~~~H~vc~~cG~ 47 (55)
T TIGR01031 21 LTAPTLVVCPNCGE----F-KLPHRVCPSCGY 47 (55)
T ss_pred ccCCcceECCCCCC----c-ccCeeECCccCe
Confidence 34444667899988 3 45566 888873
No 52
>PF01529 zf-DHHC: DHHC palmitoyltransferase; InterPro: IPR001594 Zinc finger (Znf) domains are relatively small protein motifs which contain multiple finger-like protrusions that make tandem contacts with their target molecule. Some of these domains bind zinc, but many do not; instead binding other metals such as iron, or no metal at all. For example, some family members form salt bridges to stabilise the finger-like folds. They were first identified as a DNA-binding motif in transcription factor TFIIIA from Xenopus laevis (African clawed frog), however they are now recognised to bind DNA, RNA, protein and/or lipid substrates [, , , , ]. Their binding properties depend on the amino acid sequence of the finger domains and of the linker between fingers, as well as on the higher-order structures and the number of fingers. Znf domains are often found in clusters, where fingers can have different binding specificities. There are many superfamilies of Znf motifs, varying in both sequence and structure. They display considerable versatility in binding modes, even between members of the same class (e.g. some bind DNA, others protein), suggesting that Znf motifs are stable scaffolds that have evolved specialised functions. For example, Znf-containing proteins function in gene transcription, translation, mRNA trafficking, cytoskeleton organisation, epithelial development, cell adhesion, protein folding, chromatin remodelling and zinc sensing, to name but a few []. Zinc-binding motifs are stable structures, and they rarely undergo conformational changes upon binding their target. This entry represents the DHHC-type zinc finger domain, which is also known as NEW1 []. The DHHC Zn-finger was first isolated in the Drosophila putative transcription factor DNZ1 and was named after a conserved sequence motif []. This domain has palmitoyltransferase activity; this post-translational modification attaches the C16 saturated fatty acid palmitate via a thioester linkage, predominantly to cysteine residues []. This domain is found in the DHHC proteins which are palmitoyl transferases []; the DHHC motif is found within a cysteine-rich domain which is thought to contain the catalytic site. More information about these proteins can be found at Protein of the Month: Zinc Fingers [].; GO: 0008270 zinc ion binding
Probab=50.46 E-value=9.3 Score=35.08 Aligned_cols=28 Identities=25% Similarity=0.592 Sum_probs=20.3
Q ss_pred CCCCCcCCCCCccCcccccccccccCCCceE
Q 011753 217 DSSASACMLCGVRFHPIMCSRHHCRFCGGIF 247 (478)
Q Consensus 217 d~~~~~C~~C~~~F~~l~~RrHHCR~CG~v~ 247 (478)
......|..|...=. .|-|||+.|++.+
T Consensus 45 ~~~~~~C~~C~~~kp---~Rs~HC~~C~~CV 72 (174)
T PF01529_consen 45 NGELKYCSTCKIIKP---PRSHHCRVCNRCV 72 (174)
T ss_pred CCCCEECcccCCcCC---Ccceecccccccc
Confidence 344678999987532 4899999998754
No 53
>PF15232 DUF4585: Domain of unknown function (DUF4585)
Probab=49.52 E-value=10 Score=31.28 Aligned_cols=27 Identities=33% Similarity=0.904 Sum_probs=23.1
Q ss_pred CCCCcccccCCCC-------CCC-CCceeecccCC
Q 011753 83 PRKGKYFFYDSPH-------YED-TGVWIPVSVPP 109 (478)
Q Consensus 83 ~~~~~~~~~~~~~-------~~~-~~~W~~~~~~~ 109 (478)
.+-|+||+.|.|+ ||- ||..|-|++|+
T Consensus 14 P~SG~Yy~vd~P~Qp~~k~lfDPETGqYVeV~iP~ 48 (75)
T PF15232_consen 14 PESGQYYVVDAPVQPKTKTLFDPETGQYVEVLIPS 48 (75)
T ss_pred CCCCCEEEEecCCCcceeeeecCCCCcEEEEeCCC
Confidence 3568999999997 554 99999999998
No 54
>PF03604 DNA_RNApol_7kD: DNA directed RNA polymerase, 7 kDa subunit; InterPro: IPR006591 DNA-dependent RNA polymerase catalyzes the transcription of DNA into RNA using the four ribonucleoside triphosphates as substrates. Each class of RNA polymerase is assembled from 9 to 15 different polypeptides. Rbp10 (RNA polymerase CX) is a domain found in RNA polymerase subunit 10; present in RNA polymerase I, II and III.; GO: 0003677 DNA binding, 0003899 DNA-directed RNA polymerase activity, 0006351 transcription, DNA-dependent; PDB: 2PMZ_Z 3HKZ_X 2NVX_L 3S1Q_L 2JA6_L 3S17_L 3HOW_L 3HOV_L 3PO2_L 3HOZ_L ....
Probab=49.43 E-value=12 Score=25.97 Aligned_cols=24 Identities=25% Similarity=0.502 Sum_probs=15.4
Q ss_pred cCCCCCccCcccccccccccCCCc
Q 011753 222 ACMLCGVRFHPIMCSRHHCRFCGG 245 (478)
Q Consensus 222 ~C~~C~~~F~~l~~RrHHCR~CG~ 245 (478)
.|..|+..|.+-..-.-.|+.||.
T Consensus 2 ~C~~Cg~~~~~~~~~~irC~~CG~ 25 (32)
T PF03604_consen 2 ICGECGAEVELKPGDPIRCPECGH 25 (32)
T ss_dssp BESSSSSSE-BSTSSTSSBSSSS-
T ss_pred CCCcCCCeeEcCCCCcEECCcCCC
Confidence 478889888853333467888875
No 55
>PF14634 zf-RING_5: zinc-RING finger domain
Probab=48.80 E-value=4.2 Score=29.50 Aligned_cols=32 Identities=31% Similarity=0.710 Sum_probs=23.5
Q ss_pred cCCCCCccCcccccccccccCCCceEcCCCCCCe
Q 011753 222 ACMLCGVRFHPIMCSRHHCRFCGGIFCGECSKGR 255 (478)
Q Consensus 222 ~C~~C~~~F~~l~~RrHHCR~CG~v~C~~CS~~~ 255 (478)
.|..|...|+. .++-.=-.||.+||..|....
T Consensus 1 ~C~~C~~~~~~--~~~~~l~~CgH~~C~~C~~~~ 32 (44)
T PF14634_consen 1 HCNICFEKYSE--ERRPRLTSCGHIFCEKCLKKL 32 (44)
T ss_pred CCcCcCccccC--CCCeEEcccCCHHHHHHHHhh
Confidence 47888888842 344445689999999998654
No 56
>smart00647 IBR In Between Ring fingers. the domains occurs between pairs og RING fingers
Probab=47.71 E-value=17 Score=27.58 Aligned_cols=34 Identities=29% Similarity=0.603 Sum_probs=24.2
Q ss_pred CCcCC--CCCccCccc---ccccccccCCCceEcCCCCC
Q 011753 220 ASACM--LCGVRFHPI---MCSRHHCRFCGGIFCGECSK 253 (478)
Q Consensus 220 ~~~C~--~C~~~F~~l---~~RrHHCR~CG~v~C~~CS~ 253 (478)
..-|+ .|....... ...+-.|..||..||..|..
T Consensus 18 ~~~CP~~~C~~~~~~~~~~~~~~v~C~~C~~~fC~~C~~ 56 (64)
T smart00647 18 LKWCPAPDCSAAIIVTEEEGCNRVTCPKCGFSFCFRCKV 56 (64)
T ss_pred ccCCCCCCCcceEEecCCCCCCeeECCCCCCeECCCCCC
Confidence 34577 777655432 24577899999999999975
No 57
>KOG0317 consensus Predicted E3 ubiquitin ligase, integral peroxisomal membrane protein [Posttranslational modification, protein turnover, chaperones]
Probab=47.46 E-value=5.5 Score=40.73 Aligned_cols=48 Identities=27% Similarity=0.561 Sum_probs=32.0
Q ss_pred CCcCCCCCccCcccccccccccCCCceEcCCCCCCeeeccccCCCCCceeeCccchhhhccc
Q 011753 220 ASACMLCGVRFHPIMCSRHHCRFCGGIFCGECSKGRSLLPVKFRVSDPQRVCDVCCVRLQSV 281 (478)
Q Consensus 220 ~~~C~~C~~~F~~l~~RrHHCR~CG~v~C~~CS~~~~~lP~~~~~~~pvRVC~~C~~~L~~~ 281 (478)
...|..|=. .++---|-.||+|||++|-..... .++. |.-|-...+..
T Consensus 239 ~~kC~LCLe-----~~~~pSaTpCGHiFCWsCI~~w~~-------ek~e--CPlCR~~~~ps 286 (293)
T KOG0317|consen 239 TRKCSLCLE-----NRSNPSATPCGHIFCWSCILEWCS-------EKAE--CPLCREKFQPS 286 (293)
T ss_pred CCceEEEec-----CCCCCCcCcCcchHHHHHHHHHHc-------cccC--CCcccccCCCc
Confidence 467888855 123344999999999999765432 2222 88888776553
No 58
>PF14445 Prok-RING_2: Prokaryotic RING finger family 2
Probab=47.15 E-value=3.2 Score=31.76 Aligned_cols=45 Identities=22% Similarity=0.595 Sum_probs=34.1
Q ss_pred CcCCCCCccCcccccccccccCCCceEcCCCCCCeeeccccCCCCCceeeCccchhhhc
Q 011753 221 SACMLCGVRFHPIMCSRHHCRFCGGIFCGECSKGRSLLPVKFRVSDPQRVCDVCCVRLQ 279 (478)
Q Consensus 221 ~~C~~C~~~F~~l~~RrHHCR~CG~v~C~~CS~~~~~lP~~~~~~~pvRVC~~C~~~L~ 279 (478)
-.|-.|+..|.. .--..|-.||+--|++|-+.+ .-.|+.|-..+.
T Consensus 8 y~CDLCn~~~p~--~~LRQCvlCGRWaC~sCW~de------------YY~CksC~Gii~ 52 (57)
T PF14445_consen 8 YSCDLCNSSHPI--SELRQCVLCGRWACNSCWQDE------------YYTCKSCNGIIN 52 (57)
T ss_pred HhHHhhcccCcH--HHHHHHhhhchhhhhhhhhhh------------HhHHHhhhchhh
Confidence 468999999984 466789999999999997532 345777766543
No 59
>PF10571 UPF0547: Uncharacterised protein family UPF0547; InterPro: IPR018886 This domain may well be a type of zinc-finger as it carries two pairs of highly conserved cysteine residues though with no accompanying histidines. Several members are annotated as putative helicases.
Probab=46.09 E-value=13 Score=24.44 Aligned_cols=23 Identities=35% Similarity=0.781 Sum_probs=14.6
Q ss_pred cCCCCCccCcccccccccccCCCceE
Q 011753 222 ACMLCGVRFHPIMCSRHHCRFCGGIF 247 (478)
Q Consensus 222 ~C~~C~~~F~~l~~RrHHCR~CG~v~ 247 (478)
.|+.|++.-.. --.-|.+||..|
T Consensus 2 ~CP~C~~~V~~---~~~~Cp~CG~~F 24 (26)
T PF10571_consen 2 TCPECGAEVPE---SAKFCPHCGYDF 24 (26)
T ss_pred cCCCCcCCchh---hcCcCCCCCCCC
Confidence 57777776553 335577777765
No 60
>PF15616 TerY-C: TerY-C metal binding domain
Probab=44.53 E-value=13 Score=33.97 Aligned_cols=24 Identities=38% Similarity=0.962 Sum_probs=20.0
Q ss_pred CCcCCCCCccCcccccccccccCCCceEcC
Q 011753 220 ASACMLCGVRFHPIMCSRHHCRFCGGIFCG 249 (478)
Q Consensus 220 ~~~C~~C~~~F~~l~~RrHHCR~CG~v~C~ 249 (478)
...|+.|+..|.+.. | .||+++|-
T Consensus 77 ~PgCP~CGn~~~fa~-----C-~CGkl~Ci 100 (131)
T PF15616_consen 77 APGCPHCGNQYAFAV-----C-GCGKLFCI 100 (131)
T ss_pred CCCCCCCcChhcEEE-----e-cCCCEEEe
Confidence 468999999998653 6 79999995
No 61
>TIGR00570 cdk7 CDK-activating kinase assembly factor MAT1. All proteins in this family for which functions are known are cyclin dependent protein kinases that are components of TFIIH, a complex that is involved in nucleotide excision repair and transcription initiation. Also known as MAT1 (menage a trois 1). This family is based on the phylogenomic analysis of JA Eisen (1999, Ph.D. Thesis, Stanford University).
Probab=44.22 E-value=7.4 Score=40.32 Aligned_cols=50 Identities=20% Similarity=0.440 Sum_probs=30.8
Q ss_pred CcCCCCCcc--CcccccccccccCCCceEcCCCCCCeeeccccCCCCCceeeCccchhhhcc
Q 011753 221 SACMLCGVR--FHPIMCSRHHCRFCGGIFCGECSKGRSLLPVKFRVSDPQRVCDVCCVRLQS 280 (478)
Q Consensus 221 ~~C~~C~~~--F~~l~~RrHHCR~CG~v~C~~CS~~~~~lP~~~~~~~pvRVC~~C~~~L~~ 280 (478)
..|+.|... ++.-++=-.+ .||+.||.+|....... +...|..|...|..
T Consensus 4 ~~CP~Ck~~~y~np~~kl~i~--~CGH~~C~sCv~~l~~~--------~~~~CP~C~~~lrk 55 (309)
T TIGR00570 4 QGCPRCKTTKYRNPSLKLMVN--VCGHTLCESCVDLLFVR--------GSGSCPECDTPLRK 55 (309)
T ss_pred CCCCcCCCCCccCcccccccC--CCCCcccHHHHHHHhcC--------CCCCCCCCCCccch
Confidence 479999984 3321111233 79999999998754221 12367788665543
No 62
>COG5151 SSL1 RNA polymerase II transcription initiation/nucleotide excision repair factor TFIIH, subunit SSL1 [Transcription / DNA replication, recombination, and repair]
Probab=44.01 E-value=10 Score=39.30 Aligned_cols=41 Identities=22% Similarity=0.652 Sum_probs=31.5
Q ss_pred CcccCCCCCcCCCCCccCcc---------cccccccccCCCceEcCCCCC
Q 011753 213 RWLADSSASACMLCGVRFHP---------IMCSRHHCRFCGGIFCGECSK 253 (478)
Q Consensus 213 ~W~~d~~~~~C~~C~~~F~~---------l~~RrHHCR~CG~v~C~~CS~ 253 (478)
.|-..-.+..|..|+-+|-. +...|+.|..|-.-||..|--
T Consensus 355 p~~~~~ks~~Cf~CQ~~fp~~~~~~~~~~~ss~rY~Ce~CK~~FC~dCdv 404 (421)
T COG5151 355 PEGTNPKSTHCFVCQGPFPKPPVSPFDESTSSGRYQCELCKSTFCSDCDV 404 (421)
T ss_pred cCCCCCCCccceeccCCCCCCCCCcccccccccceechhhhhhhhhhhHH
Confidence 45555557789999998852 235789999999999999953
No 63
>COG1327 Predicted transcriptional regulator, consists of a Zn-ribbon and ATP-cone domains [Transcription]
Probab=43.53 E-value=12 Score=34.88 Aligned_cols=13 Identities=38% Similarity=0.784 Sum_probs=7.8
Q ss_pred cccccccCCCceE
Q 011753 235 CSRHHCRFCGGIF 247 (478)
Q Consensus 235 ~RrHHCR~CG~v~ 247 (478)
+||.+|-.||+-|
T Consensus 26 RRRReC~~C~~RF 38 (156)
T COG1327 26 RRRRECLECGERF 38 (156)
T ss_pred hhhhccccccccc
Confidence 5666666666644
No 64
>smart00659 RPOLCX RNA polymerase subunit CX. present in RNA polymerase I, II and III
Probab=43.34 E-value=15 Score=27.23 Aligned_cols=24 Identities=29% Similarity=0.457 Sum_probs=14.8
Q ss_pred cCCCCCccCcccccccccccCCCc
Q 011753 222 ACMLCGVRFHPIMCSRHHCRFCGG 245 (478)
Q Consensus 222 ~C~~C~~~F~~l~~RrHHCR~CG~ 245 (478)
.|..|+..|..-..-.-.|+.||.
T Consensus 4 ~C~~Cg~~~~~~~~~~irC~~CG~ 27 (44)
T smart00659 4 ICGECGRENEIKSKDVVRCRECGY 27 (44)
T ss_pred ECCCCCCEeecCCCCceECCCCCc
Confidence 588899998853223344555553
No 65
>smart00064 FYVE Protein present in Fab1, YOTB, Vac1, and EEA1. The FYVE zinc finger is named after four proteins where it was first found: Fab1, YOTB/ZK632.12, Vac1, and EEA1. The FYVE finger has been shown to bind two Zn2+ ions. The FYVE finger has eight potential zinc coordinating cysteine positions. The FYVE finger is structurally related to the PF07191 zinc-ribbons_6: zinc-ribbons; InterPro: IPR010807 This family consists of several short, hypothetical bacterial proteins of around 70 residues in length. Members of this family 8 highly conserved cysteine residues. The function of the family is unknown.; PDB: 2JRP_A 2JNE_A.
Probab=41.39 E-value=16 Score=29.78 Aligned_cols=55 Identities=20% Similarity=0.495 Sum_probs=26.3
Q ss_pred cCCCCCccCcccccccccccCCCce-----EcCCCCCCeeeccccCCCCCceeeCccchhhhcc
Q 011753 222 ACMLCGVRFHPIMCSRHHCRFCGGI-----FCGECSKGRSLLPVKFRVSDPQRVCDVCCVRLQS 280 (478)
Q Consensus 222 ~C~~C~~~F~~l~~RrHHCR~CG~v-----~C~~CS~~~~~lP~~~~~~~pvRVC~~C~~~L~~ 280 (478)
.|+.|+.+...- ..+.||-.|.+- +|..|-..-..|- .-...--.|+.|...+++
T Consensus 3 ~CP~C~~~L~~~-~~~~~C~~C~~~~~~~a~CPdC~~~Le~Lk---ACGAvdYFC~~c~gLiSK 62 (70)
T PF07191_consen 3 TCPKCQQELEWQ-GGHYHCEACQKDYKKEAFCPDCGQPLEVLK---ACGAVDYFCNHCHGLISK 62 (70)
T ss_dssp B-SSS-SBEEEE-TTEEEETTT--EEEEEEE-TTT-SB-EEEE---ETTEEEEE-TTTT-EE-T
T ss_pred cCCCCCCccEEe-CCEEECccccccceecccCCCcccHHHHHH---HhcccceeeccCCceeec
Confidence 689999987753 467888888764 5666654333221 011223466777766554
No 67
>PRK04023 DNA polymerase II large subunit; Validated
Probab=40.85 E-value=30 Score=41.23 Aligned_cols=46 Identities=24% Similarity=0.610 Sum_probs=32.4
Q ss_pred CCCcCCCCCccCcccccccccccCCCce-----EcCCCCCCeeeccccCCCCCceeeCccchhhhcc
Q 011753 219 SASACMLCGVRFHPIMCSRHHCRFCGGI-----FCGECSKGRSLLPVKFRVSDPQRVCDVCCVRLQS 280 (478)
Q Consensus 219 ~~~~C~~C~~~F~~l~~RrHHCR~CG~v-----~C~~CS~~~~~lP~~~~~~~pvRVC~~C~~~L~~ 280 (478)
....|+.|+.... ...|.+||.. ||..|-... ..-.|..|-..+..
T Consensus 625 g~RfCpsCG~~t~-----~frCP~CG~~Te~i~fCP~CG~~~-----------~~y~CPKCG~El~~ 675 (1121)
T PRK04023 625 GRRKCPSCGKETF-----YRRCPFCGTHTEPVYRCPRCGIEV-----------EEDECEKCGREPTP 675 (1121)
T ss_pred cCccCCCCCCcCC-----cccCCCCCCCCCcceeCccccCcC-----------CCCcCCCCCCCCCc
Confidence 3579999999742 2579999964 999994321 01349999887764
No 68
>PRK03564 formate dehydrogenase accessory protein FdhE; Provisional
Probab=39.22 E-value=26 Score=36.44 Aligned_cols=61 Identities=20% Similarity=0.470 Sum_probs=38.8
Q ss_pred CCcCCCCCccC--ccc------ccccccccCCC------ceEcCCCCCCeeeccc-cCCC---CCceeeCccchhhhccc
Q 011753 220 ASACMLCGVRF--HPI------MCSRHHCRFCG------GIFCGECSKGRSLLPV-KFRV---SDPQRVCDVCCVRLQSV 281 (478)
Q Consensus 220 ~~~C~~C~~~F--~~l------~~RrHHCR~CG------~v~C~~CS~~~~~lP~-~~~~---~~pvRVC~~C~~~L~~~ 281 (478)
...|+.|+..= +.+ ..|.-||-.|+ ++-|..|-+.+ .+-. .... ...+-+|+.|..-+.-.
T Consensus 187 ~~~CPvCGs~P~~s~v~~~~~~G~RyL~CslC~teW~~~R~~C~~Cg~~~-~l~y~~~~~~~~~~r~e~C~~C~~YlK~~ 265 (309)
T PRK03564 187 RQFCPVCGSMPVSSVVQIGTTQGLRYLHCNLCESEWHVVRVKCSNCEQSG-KLHYWSLDSEQAAVKAESCGDCGTYLKIL 265 (309)
T ss_pred CCCCCCCCCcchhheeeccCCCCceEEEcCCCCCcccccCccCCCCCCCC-ceeeeeecCCCcceEeeecccccccceec
Confidence 57899999852 321 35778999998 46888887643 1110 0111 22456999999877653
No 69
>PRK12286 rpmF 50S ribosomal protein L32; Reviewed
Probab=38.88 E-value=18 Score=28.25 Aligned_cols=20 Identities=35% Similarity=0.737 Sum_probs=13.9
Q ss_pred CCcCCCCCccCccccccccc-ccCCC
Q 011753 220 ASACMLCGVRFHPIMCSRHH-CRFCG 244 (478)
Q Consensus 220 ~~~C~~C~~~F~~l~~RrHH-CR~CG 244 (478)
...|..|+. + .+.|| |.+||
T Consensus 27 l~~C~~CG~----~-~~~H~vC~~CG 47 (57)
T PRK12286 27 LVECPNCGE----P-KLPHRVCPSCG 47 (57)
T ss_pred ceECCCCCC----c-cCCeEECCCCC
Confidence 456888888 3 46666 77776
No 70
>KOG1814 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=38.46 E-value=15 Score=39.40 Aligned_cols=42 Identities=31% Similarity=0.819 Sum_probs=33.2
Q ss_pred CCcccCCCCCcCCCCCccCcccc-cccccccCCCceEcCCCCCC
Q 011753 212 PRWLADSSASACMLCGVRFHPIM-CSRHHCRFCGGIFCGECSKG 254 (478)
Q Consensus 212 p~W~~d~~~~~C~~C~~~F~~l~-~RrHHCR~CG~v~C~~CS~~ 254 (478)
..|+.. ....|+.|.......- .-|+||-.||.-||.-|+.-
T Consensus 361 ekwl~~-N~krCP~C~v~IEr~eGCnKM~C~~c~~~fc~~c~~~ 403 (445)
T KOG1814|consen 361 EKWLES-NSKRCPKCKVVIERSEGCNKMHCTKCGTYFCWICAEL 403 (445)
T ss_pred HHHHHh-cCCCCCcccceeecCCCccceeeccccccceeehhhh
Confidence 478864 4889999999765431 34899999999999999863
No 71
>PF09579 Spore_YtfJ: Sporulation protein YtfJ (Spore_YtfJ); InterPro: IPR014229 Proteins in this entry, exemplified by YtfJ of Bacillus subtilis, are encoded by bacterial genomes if, and only if, the species is capable of endospore formation. YtfJ was confirmed in spores of B. subtilis; it appears to be expressed in the forespore under control of SigF [].
Probab=37.40 E-value=57 Score=27.32 Aligned_cols=20 Identities=30% Similarity=0.341 Sum_probs=17.3
Q ss_pred eEEEEEEeeeeEEEEeeeeE
Q 011753 355 LAILSVAKVGVMVTYNIGTG 374 (478)
Q Consensus 355 lai~~v~k~g~~~gg~~G~G 374 (478)
..|+||.+++|.||+..|.+
T Consensus 6 ~tiIPv~~VsfGfG~Gg~~~ 25 (83)
T PF09579_consen 6 TTIIPVSKVSFGFGAGGGEG 25 (83)
T ss_pred EEEEEEEEEEEEEEEeCCCC
Confidence 57899999999998888776
No 72
>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=36.01 E-value=11 Score=34.65 Aligned_cols=35 Identities=26% Similarity=0.618 Sum_probs=22.5
Q ss_pred ccccCCCceEcCCCCCCeeeccccCCCCCceeeCccchhhhcc----cchhhhcc
Q 011753 238 HHCRFCGGIFCGECSKGRSLLPVKFRVSDPQRVCDVCCVRLQS----VQPYLMNQ 288 (478)
Q Consensus 238 HHCR~CG~v~C~~CS~~~~~lP~~~~~~~pvRVC~~C~~~L~~----~~~~l~~~ 288 (478)
.+|+.||++|=. . -..+|..|+..... +..||.++
T Consensus 4 ~nC~~CgklF~~-------------~---~~~iCp~C~~~~e~~f~kV~~yLr~~ 42 (137)
T TIGR03826 4 ANCPKCGRLFVK-------------T---GRDVCPSCYEEEEREFEKVYKFLRKH 42 (137)
T ss_pred ccccccchhhhh-------------c---CCccCHHHhHHHHHHHHHHHHHHHHC
Confidence 478888887611 1 23579999976643 56676644
No 73
>PRK14559 putative protein serine/threonine phosphatase; Provisional
Probab=35.66 E-value=22 Score=40.46 Aligned_cols=31 Identities=26% Similarity=0.733 Sum_probs=25.0
Q ss_pred CCCcCCCCCccCcccccccccccCCCce------EcCCCCCC
Q 011753 219 SASACMLCGVRFHPIMCSRHHCRFCGGI------FCGECSKG 254 (478)
Q Consensus 219 ~~~~C~~C~~~F~~l~~RrHHCR~CG~v------~C~~CS~~ 254 (478)
.+..|..|+.++.. ..|..||.. ||..|-..
T Consensus 14 ~akFC~~CG~~l~~-----~~Cp~CG~~~~~~~~fC~~CG~~ 50 (645)
T PRK14559 14 NNRFCQKCGTSLTH-----KPCPQCGTEVPVDEAHCPNCGAE 50 (645)
T ss_pred CCccccccCCCCCC-----CcCCCCCCCCCcccccccccCCc
Confidence 46789999998752 369999998 99999753
No 74
>COG0675 Transposase and inactivated derivatives [DNA replication, recombination, and repair]
Probab=35.35 E-value=25 Score=35.09 Aligned_cols=27 Identities=22% Similarity=0.518 Sum_probs=20.8
Q ss_pred CCCCcCCCCCccCcccccccccccCCCceEc
Q 011753 218 SSASACMLCGVRFHPIMCSRHHCRFCGGIFC 248 (478)
Q Consensus 218 ~~~~~C~~C~~~F~~l~~RrHHCR~CG~v~C 248 (478)
.++..|+.|+. + ..|.+.|..||..+-
T Consensus 307 ~tS~~C~~cg~-~---~~r~~~C~~cg~~~~ 333 (364)
T COG0675 307 YTSKTCPCCGH-L---SGRLFKCPRCGFVHD 333 (364)
T ss_pred CCcccccccCC-c---cceeEECCCCCCeeh
Confidence 44689999999 2 258888999998753
No 75
>TIGR02098 MJ0042_CXXC MJ0042 family finger-like domain. This domain contains a CXXCX(19)CXXC motif suggestive of both zinc fingers and thioredoxin, usually found at the N-terminus of prokaryotic proteins. One partially characterized gene, agmX, is among a large set in Myxococcus whose interruption affects adventurous gliding motility.
Probab=34.76 E-value=25 Score=24.51 Aligned_cols=10 Identities=30% Similarity=0.790 Sum_probs=6.4
Q ss_pred cCCCCCccCc
Q 011753 222 ACMLCGVRFH 231 (478)
Q Consensus 222 ~C~~C~~~F~ 231 (478)
.|+.|++.|.
T Consensus 4 ~CP~C~~~~~ 13 (38)
T TIGR02098 4 QCPNCKTSFR 13 (38)
T ss_pred ECCCCCCEEE
Confidence 4666666665
No 76
>TIGR00244 transcriptional regulator NrdR. Members of this almost entirely bacterial family contain an ATP cone domain (PFAM:PF03477). There is never more than one member per genome. Common gene symbols given include nrdR, ybaD, ribX and ytcG. The member from Streptomyces coelicolor is found upstream in the operon of the class II oxygen-independent ribonucleotide reductase gene nrdJ and was shown to repress nrdJ expression. Many members of this family are found near genes for riboflavin biosynthesis in Gram-negative bacteria, suggesting a role in that pathway. However, a phylogenetic profiling study associates members of this family with the presence of a palindromic signal with consensus acaCwAtATaTwGtgt, termed the NrdR-box, an upstream element for most operons for ribonucleotide reductase of all three classes in bacterial genomes.
Probab=34.75 E-value=24 Score=32.86 Aligned_cols=13 Identities=31% Similarity=0.580 Sum_probs=8.4
Q ss_pred cccccccCCCceE
Q 011753 235 CSRHHCRFCGGIF 247 (478)
Q Consensus 235 ~RrHHCR~CG~v~ 247 (478)
+||..|-.||+-|
T Consensus 26 RRRReC~~C~~RF 38 (147)
T TIGR00244 26 RRRRECLECHERF 38 (147)
T ss_pred eecccCCccCCcc
Confidence 5666677766654
No 77
>KOG3795 consensus Uncharacterized conserved protein [Function unknown]
Probab=34.52 E-value=18 Score=34.60 Aligned_cols=22 Identities=41% Similarity=1.004 Sum_probs=17.5
Q ss_pred CcccccccccccCCCc---eEcCCCC
Q 011753 230 FHPIMCSRHHCRFCGG---IFCGECS 252 (478)
Q Consensus 230 F~~l~~RrHHCR~CG~---v~C~~CS 252 (478)
|..+ ..||.|+.|+. .||.+|.
T Consensus 9 ~d~i-eGRs~C~~C~~SRkFfCY~C~ 33 (230)
T KOG3795|consen 9 FDPI-EGRSTCPGCKSSRKFFCYDCR 33 (230)
T ss_pred cCcc-cccccCCCCCCcceEEEEeec
Confidence 5555 68999999986 5899987
No 78
>PF13901 DUF4206: Domain of unknown function (DUF4206)
Probab=34.37 E-value=16 Score=35.36 Aligned_cols=43 Identities=21% Similarity=0.460 Sum_probs=33.7
Q ss_pred ccccCCCceEcCCCCCC-eeecccc---CCCCCceeeCccchhhhcc
Q 011753 238 HHCRFCGGIFCGECSKG-RSLLPVK---FRVSDPQRVCDVCCVRLQS 280 (478)
Q Consensus 238 HHCR~CG~v~C~~CS~~-~~~lP~~---~~~~~pvRVC~~C~~~L~~ 280 (478)
+.|...|+.||..|-.+ ...||.+ .-.-++..||+..+..|..
T Consensus 1 R~C~Y~G~yyC~~CH~~~~~vIParil~~WDf~~~pVs~~a~~~L~~ 47 (202)
T PF13901_consen 1 RFCDYTGKYYCSSCHWNDTSVIPARILHNWDFRPYPVSRFAKQFLDQ 47 (202)
T ss_pred CccCCCCCcCCCCCCCCCceeccHHHHHhcCCCccHHHHHHHHHHHH
Confidence 35899999999999887 4667754 1234688999999998875
No 79
>PF06750 DiS_P_DiS: Bacterial Peptidase A24 N-terminal domain; InterPro: IPR010627 In the MEROPS database peptidases and peptidase homologues are grouped into clans and families. Clans are groups of families for which there is evidence of common ancestry based on a common structural fold: Each clan is identified with two letters, the first representing the catalytic type of the families included in the clan (with the letter 'P' being used for a clan containing families of more than one of the catalytic types serine, threonine and cysteine). Some families cannot yet be assigned to clans, and when a formal assignment is required, such a family is described as belonging to clan A-, C-, M-, N-, S-, T- or U-, according to the catalytic type. Some clans are divided into subclans because there is evidence of a very ancient divergence within the clan, for example MA(E), the gluzincins, and MA(M), the metzincins. Peptidase families are grouped by their catalytic type, the first character representing the catalytic type: A, aspartic; C, cysteine; G, glutamic acid; M, metallo; N, asparagine; S, serine; T, threonine; and U, unknown. The serine, threonine and cysteine peptidases utilise the amino acid as a nucleophile and form an acyl intermediate - these peptidases can also readily act as transferases. In the case of aspartic, glutamic and metallopeptidases, the nucleophile is an activated water molecule. In the case of the asparagine endopeptidases, the nucleophile is asparagine and all are self-processing endopeptidases. In many instances the structural protein fold that characterises the clan or family may have lost its catalytic activity, yet retain its function in protein recognition and binding. Aspartic endopeptidases 3.4.23. from EC of vertebrate, fungal and retroviral origin have been characterised []. More recently, aspartic endopeptidases associated with the processing of bacterial type 4 prepilin [] and archaean preflagellin have been described [, ]. Structurally, aspartic endopeptidases are bilobal enzymes, each lobe contributing a catalytic Asp residue, with an extended active site cleft localised between the two lobes of the molecule. One lobe has probably evolved from the other through a gene duplication event in the distant past. In modern-day enzymes, although the three-dimensional structures are very similar, the amino acid sequences are more divergent, except for the catalytic site motif, which is very conserved. The presence and position of disulphide bridges are other conserved features of aspartic peptidases. All or most aspartate peptidases are endopeptidases. These enzymes have been assigned into clans (proteins which are evolutionary related), and further sub-divided into families, largely on the basis of their tertiary structure. This domain is found at the N terminus of bacterial aspartic peptidases belonging to MEROPS peptidase family A24 (clan AD), subfamily A24A (type IV prepilin peptidase, IPR000045 from INTERPRO). It's function has not been specifically determined; however some of the family have been characterised as bifunctional [], and this domain may contain the N-methylation activity. The domain consists of an intracellular region between a pair of transmembrane domains. This intracellular region contains an invariant proline and four conserved cysteines. These Cys residues are arranged in a two-pair motif, with the Cys residues of a pair separated (usually) by 2 aa and with each pair separated by 21 largely hydrophilic residues (C-X-X-C...X21...C-X-X-C); they have been shown to be essential to the overall function of the enzyme [, ]. The bifunctional enzyme prepilin peptidase (PilD) from Pseudomonas aeruginosa is a key determinant in both type-IV pilus biogenesis and extracellular protein secretion, in its roles as a leader peptidase and methyl transferase (MTase). It is responsible for endopeptidic cleavage of the unique leader peptides that characterise type-IV pilin precursors, as well as proteins with homologous leader sequences that are essential components of the general secretion pathway found in a variety of Gram-negative pathogens. Following removal of the leader peptides, the same enzyme is responsible for the second posttranslational modification that characterises the type-IV pilins and their homologues, namely N-methylation of the newly exposed N-terminal amino acid residue [].
Probab=33.89 E-value=27 Score=29.70 Aligned_cols=26 Identities=35% Similarity=0.784 Sum_probs=16.8
Q ss_pred CCcCCCCCccCccc--------ccccccccCCCc
Q 011753 220 ASACMLCGVRFHPI--------MCSRHHCRFCGG 245 (478)
Q Consensus 220 ~~~C~~C~~~F~~l--------~~RrHHCR~CG~ 245 (478)
.+.|..|+++.... ..-|.+||.|++
T Consensus 33 rS~C~~C~~~L~~~~lIPi~S~l~lrGrCr~C~~ 66 (92)
T PF06750_consen 33 RSHCPHCGHPLSWWDLIPILSYLLLRGRCRYCGA 66 (92)
T ss_pred CCcCcCCCCcCcccccchHHHHHHhCCCCcccCC
Confidence 56788888876521 134777888765
No 80
>KOG1315 consensus Predicted DHHC-type Zn-finger protein [General function prediction only]
Probab=33.57 E-value=18 Score=37.45 Aligned_cols=27 Identities=26% Similarity=0.634 Sum_probs=15.9
Q ss_pred cCCCCCcCCCCCccCcccccccccccCCCc
Q 011753 216 ADSSASACMLCGVRFHPIMCSRHHCRFCGG 245 (478)
Q Consensus 216 ~d~~~~~C~~C~~~F~~l~~RrHHCR~CG~ 245 (478)
++.....|..|+. .- --|-|||+.|++
T Consensus 105 ~~g~~R~C~kC~~-iK--PdRaHHCsvC~r 131 (307)
T KOG1315|consen 105 SDGAVRYCDKCKC-IK--PDRAHHCSVCNR 131 (307)
T ss_pred CCCCceeeccccc-cc--CCccccchhhhh
Confidence 4445666777766 22 147777777633
No 81
>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=32.79 E-value=34 Score=28.64 Aligned_cols=32 Identities=25% Similarity=0.504 Sum_probs=24.1
Q ss_pred CCCcCCCCCccCcccccccccccCCCceEcCCCCC
Q 011753 219 SASACMLCGVRFHPIMCSRHHCRFCGGIFCGECSK 253 (478)
Q Consensus 219 ~~~~C~~C~~~F~~l~~RrHHCR~CG~v~C~~CS~ 253 (478)
+...|..|+++|.. ..-.--.||.+|-..|.+
T Consensus 77 ~~~~C~vC~k~l~~---~~f~~~p~~~v~H~~C~~ 108 (109)
T PF10367_consen 77 ESTKCSVCGKPLGN---SVFVVFPCGHVVHYSCIK 108 (109)
T ss_pred CCCCccCcCCcCCC---ceEEEeCCCeEEeccccc
Confidence 35679999998872 445555788999888874
No 82
>COG5574 PEX10 RING-finger-containing E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=32.70 E-value=12 Score=37.78 Aligned_cols=47 Identities=23% Similarity=0.575 Sum_probs=30.3
Q ss_pred CCcCCCCCccCcccccccccccCCCceEcCCCCCCeeeccccCCCCCceeeCccchhhh
Q 011753 220 ASACMLCGVRFHPIMCSRHHCRFCGGIFCGECSKGRSLLPVKFRVSDPQRVCDVCCVRL 278 (478)
Q Consensus 220 ~~~C~~C~~~F~~l~~RrHHCR~CG~v~C~~CS~~~~~lP~~~~~~~pvRVC~~C~~~L 278 (478)
--.|.+|-..-. .--|+.||+|||..|--.. ...+..--|..|-.+.
T Consensus 215 d~kC~lC~e~~~-----~ps~t~CgHlFC~~Cl~~~-------~t~~k~~~CplCRak~ 261 (271)
T COG5574 215 DYKCFLCLEEPE-----VPSCTPCGHLFCLSCLLIS-------WTKKKYEFCPLCRAKV 261 (271)
T ss_pred ccceeeeecccC-----CcccccccchhhHHHHHHH-------HHhhccccCchhhhhc
Confidence 346888877333 3468999999999996431 1223344577776654
No 83
>PF13639 zf-RING_2: Ring finger domain; PDB: 2KIZ_A 4EPO_C 1IYM_A 2EP4_A 2ECT_A 2JRJ_A 2ECN_A 2ECM_A 3NG2_A 2EA6_A ....
Probab=31.61 E-value=11 Score=27.03 Aligned_cols=33 Identities=24% Similarity=0.486 Sum_probs=22.9
Q ss_pred CcCCCCCccCcccccccccccCCCceEcCCCCCCe
Q 011753 221 SACMLCGVRFHPIMCSRHHCRFCGGIFCGECSKGR 255 (478)
Q Consensus 221 ~~C~~C~~~F~~l~~RrHHCR~CG~v~C~~CS~~~ 255 (478)
+.|.+|...|.. ...-.--.||.+||.+|....
T Consensus 1 d~C~IC~~~~~~--~~~~~~l~C~H~fh~~Ci~~~ 33 (44)
T PF13639_consen 1 DECPICLEEFED--GEKVVKLPCGHVFHRSCIKEW 33 (44)
T ss_dssp -CETTTTCBHHT--TSCEEEETTSEEEEHHHHHHH
T ss_pred CCCcCCChhhcC--CCeEEEccCCCeeCHHHHHHH
Confidence 369999999964 122333349999999997654
No 84
>PRK04136 rpl40e 50S ribosomal protein L40e; Provisional
Probab=31.15 E-value=31 Score=26.18 Aligned_cols=23 Identities=35% Similarity=0.732 Sum_probs=18.2
Q ss_pred CCcCCCCCccCcccccccccccCCCc
Q 011753 220 ASACMLCGVRFHPIMCSRHHCRFCGG 245 (478)
Q Consensus 220 ~~~C~~C~~~F~~l~~RrHHCR~CG~ 245 (478)
...|+.|...-. .|-..||.||.
T Consensus 14 k~ICrkC~ARnp---~~A~~CRKCg~ 36 (48)
T PRK04136 14 KKICMRCNARNP---WRATKCRKCGY 36 (48)
T ss_pred ccchhcccCCCC---ccccccccCCC
Confidence 457999998766 37889999885
No 85
>KOG3173 consensus Predicted Zn-finger protein [General function prediction only]
Probab=30.52 E-value=24 Score=33.36 Aligned_cols=29 Identities=31% Similarity=0.875 Sum_probs=22.5
Q ss_pred CCCcCCCCCccCcccccccccccCCCceEcCCC
Q 011753 219 SASACMLCGVRFHPIMCSRHHCRFCGGIFCGEC 251 (478)
Q Consensus 219 ~~~~C~~C~~~F~~l~~RrHHCR~CG~v~C~~C 251 (478)
....|..|+++-.+. - .||| ||.+||...
T Consensus 104 ~~~rC~~C~kk~glt--g-f~Cr-CG~~fC~~H 132 (167)
T KOG3173|consen 104 KKKRCFKCRKKVGLT--G-FKCR-CGNTFCGTH 132 (167)
T ss_pred cchhhhhhhhhhccc--c-cccc-cCCcccccc
Confidence 345699999888853 4 9998 899998843
No 86
>PF15135 UPF0515: Uncharacterised protein UPF0515
Probab=29.85 E-value=33 Score=34.63 Aligned_cols=35 Identities=29% Similarity=0.624 Sum_probs=26.8
Q ss_pred ccCCCCCcCCCCCccCcccc------cccccccCCCceEcC
Q 011753 215 LADSSASACMLCGVRFHPIM------CSRHHCRFCGGIFCG 249 (478)
Q Consensus 215 ~~d~~~~~C~~C~~~F~~l~------~RrHHCR~CG~v~C~ 249 (478)
-.-++++.|..|.++|..+- .-..||..|++.|=+
T Consensus 127 p~rKeVSRCr~C~~rYDPVP~dkmwG~aef~C~~C~h~F~G 167 (278)
T PF15135_consen 127 PQRKEVSRCRKCRKRYDPVPCDKMWGIAEFHCPKCRHNFRG 167 (278)
T ss_pred CcccccccccccccccCCCccccccceeeeecccccccchh
Confidence 44556899999999998652 246899999998743
No 87
>PF01927 Mut7-C: Mut7-C RNAse domain; InterPro: IPR002782 This prokaryotic family of proteins have no known function. The proteins contain four conserved cysteines that may be involved in metal binding or disulphide bridges.
Probab=29.69 E-value=24 Score=32.32 Aligned_cols=19 Identities=26% Similarity=0.478 Sum_probs=12.8
Q ss_pred ccCCCCCcCCCCCccCccc
Q 011753 215 LADSSASACMLCGVRFHPI 233 (478)
Q Consensus 215 ~~d~~~~~C~~C~~~F~~l 233 (478)
..+..-+.|+.|+..+-.+
T Consensus 86 ~~~~~~sRC~~CN~~L~~v 104 (147)
T PF01927_consen 86 RLDPIFSRCPKCNGPLRPV 104 (147)
T ss_pred ccCCCCCccCCCCcEeeec
Confidence 3344467899999977543
No 88
>TIGR02605 CxxC_CxxC_SSSS putative regulatory protein, FmdB family. This model represents a region of about 50 amino acids found in a number of small proteins in a wide range of bacteria. The region begins usually with the initiator Met and contains two CxxC motifs separated by 17 amino acids. One member of this family is has been noted as a putative regulatory protein, designated FmdB (PubMed:8841393). Most members of this family have a C-terminal region containing highly degenerate sequence, such as SSTSESTKSSGSSGSSGSSESKASGSTEKSTSSTTAAAAV in Mycobacterium tuberculosis and VAVGGSAPAPSPAPRAGGGGGGCCGGGCCG in Streptomyces avermitilis. These low complexity regions, which are not included in the model, resemble low-complexity C-terminal regions of some heterocycle-containing bacteriocin precursors.
Probab=28.92 E-value=27 Score=25.97 Aligned_cols=12 Identities=42% Similarity=1.063 Sum_probs=7.7
Q ss_pred cCCCCCccCccc
Q 011753 222 ACMLCGVRFHPI 233 (478)
Q Consensus 222 ~C~~C~~~F~~l 233 (478)
.|..|+..|..+
T Consensus 7 ~C~~Cg~~fe~~ 18 (52)
T TIGR02605 7 RCTACGHRFEVL 18 (52)
T ss_pred EeCCCCCEeEEE
Confidence 466777777643
No 89
>PLN03208 E3 ubiquitin-protein ligase RMA2; Provisional
Probab=28.76 E-value=18 Score=35.05 Aligned_cols=60 Identities=17% Similarity=0.428 Sum_probs=37.6
Q ss_pred cCCCCCcCCCCCccCcccccccccccCCCceEcCCCCCCeeeccc-------cCCCCCceeeCccchhhhcc
Q 011753 216 ADSSASACMLCGVRFHPIMCSRHHCRFCGGIFCGECSKGRSLLPV-------KFRVSDPQRVCDVCCVRLQS 280 (478)
Q Consensus 216 ~d~~~~~C~~C~~~F~~l~~RrHHCR~CG~v~C~~CS~~~~~lP~-------~~~~~~pvRVC~~C~~~L~~ 280 (478)
+....-.|.+|...+.-- .--.||++||..|-........ .+...+....|-.|...++.
T Consensus 14 ~~~~~~~CpICld~~~dP-----VvT~CGH~FC~~CI~~wl~~s~~s~~~~~~~~~~k~~~~CPvCR~~Is~ 80 (193)
T PLN03208 14 DSGGDFDCNICLDQVRDP-----VVTLCGHLFCWPCIHKWTYASNNSRQRVDQYDHKREPPKCPVCKSDVSE 80 (193)
T ss_pred cCCCccCCccCCCcCCCc-----EEcCCCchhHHHHHHHHHHhccccccccccccccCCCCcCCCCCCcCCh
Confidence 333456899999876521 2247999999999865422110 01112345689999988754
No 90
>TIGR00100 hypA hydrogenase nickel insertion protein HypA. In Hpylori, hypA mutant abolished hydrogenase activity and decrease in urease activity. Nickel supplementation in media restored urease activity and partial hydrogenase activity. HypA probably involved in inserting Ni in enzymes.
Probab=28.64 E-value=30 Score=30.60 Aligned_cols=25 Identities=24% Similarity=0.539 Sum_probs=16.9
Q ss_pred CCcCCCCCccCcccccccccccCCCc
Q 011753 220 ASACMLCGVRFHPIMCSRHHCRFCGG 245 (478)
Q Consensus 220 ~~~C~~C~~~F~~l~~RrHHCR~CG~ 245 (478)
.-.|..|+..|... .+..+|..||.
T Consensus 70 ~~~C~~Cg~~~~~~-~~~~~CP~Cgs 94 (115)
T TIGR00100 70 ECECEDCSEEVSPE-IDLYRCPKCHG 94 (115)
T ss_pred EEEcccCCCEEecC-CcCccCcCCcC
Confidence 46799999999853 34445666654
No 91
>COG1996 RPC10 DNA-directed RNA polymerase, subunit RPC10 (contains C4-type Zn-finger) [Transcription]
Probab=28.63 E-value=28 Score=26.55 Aligned_cols=23 Identities=26% Similarity=0.704 Sum_probs=14.6
Q ss_pred cCCCCCccCcccc-cccccccCCC
Q 011753 222 ACMLCGVRFHPIM-CSRHHCRFCG 244 (478)
Q Consensus 222 ~C~~C~~~F~~l~-~RrHHCR~CG 244 (478)
.|..|++.|.++. .+--.|..||
T Consensus 8 ~C~~Cg~~~~~~~~~~~irCp~Cg 31 (49)
T COG1996 8 KCARCGREVELDQETRGIRCPYCG 31 (49)
T ss_pred EhhhcCCeeehhhccCceeCCCCC
Confidence 5899999997542 2344455554
No 92
>PF14353 CpXC: CpXC protein
Probab=28.53 E-value=32 Score=30.46 Aligned_cols=10 Identities=40% Similarity=1.055 Sum_probs=8.3
Q ss_pred cCCCCCccCc
Q 011753 222 ACMLCGVRFH 231 (478)
Q Consensus 222 ~C~~C~~~F~ 231 (478)
.|+.|+..|.
T Consensus 3 tCP~C~~~~~ 12 (128)
T PF14353_consen 3 TCPHCGHEFE 12 (128)
T ss_pred CCCCCCCeeE
Confidence 6888998886
No 93
>COG1645 Uncharacterized Zn-finger containing protein [General function prediction only]
Probab=27.97 E-value=31 Score=31.55 Aligned_cols=26 Identities=31% Similarity=0.690 Sum_probs=19.5
Q ss_pred CCcCCCCCccCcccccccccccCCCceEcCCCCCC
Q 011753 220 ASACMLCGVRFHPIMCSRHHCRFCGGIFCGECSKG 254 (478)
Q Consensus 220 ~~~C~~C~~~F~~l~~RrHHCR~CG~v~C~~CS~~ 254 (478)
..+|+.|+.+.. | .=|.|||..|-..
T Consensus 28 ~~hCp~Cg~PLF----~-----KdG~v~CPvC~~~ 53 (131)
T COG1645 28 AKHCPKCGTPLF----R-----KDGEVFCPVCGYR 53 (131)
T ss_pred HhhCcccCCcce----e-----eCCeEECCCCCce
Confidence 468999999653 2 4589999999743
No 94
>PRK00564 hypA hydrogenase nickel incorporation protein; Provisional
Probab=27.97 E-value=32 Score=30.53 Aligned_cols=25 Identities=24% Similarity=0.498 Sum_probs=16.2
Q ss_pred CCcCCCCCccCcccccccc-cccCCCc
Q 011753 220 ASACMLCGVRFHPIMCSRH-HCRFCGG 245 (478)
Q Consensus 220 ~~~C~~C~~~F~~l~~RrH-HCR~CG~ 245 (478)
.-.|..|+..|..- .... +|..||.
T Consensus 71 ~~~C~~Cg~~~~~~-~~~~~~CP~Cgs 96 (117)
T PRK00564 71 ELECKDCSHVFKPN-ALDYGVCEKCHS 96 (117)
T ss_pred EEEhhhCCCccccC-CccCCcCcCCCC
Confidence 45799999988853 2222 4777664
No 95
>COG2126 RPL37A Ribosomal protein L37E [Translation, ribosomal structure and biogenesis]
Probab=27.81 E-value=29 Score=27.41 Aligned_cols=6 Identities=67% Similarity=1.669 Sum_probs=3.3
Q ss_pred ccCCCc
Q 011753 240 CRFCGG 245 (478)
Q Consensus 240 CR~CG~ 245 (478)
||.||+
T Consensus 19 CRRCGr 24 (61)
T COG2126 19 CRRCGR 24 (61)
T ss_pred hhhccc
Confidence 555554
No 96
>KOG0263 consensus Transcription initiation factor TFIID, subunit TAF5 (also component of histone acetyltransferase SAGA) [Transcription]
Probab=27.32 E-value=29 Score=39.71 Aligned_cols=79 Identities=22% Similarity=0.354 Sum_probs=51.2
Q ss_pred cCCCCCCCCCc-eeecccCC-------cCCCCCcccccCcccCCCcccCCCCCccccccCCceeEehhHHH----HHHHh
Q 011753 91 YDSPHYEDTGV-WIPVSVPP-------MLDSKDDEWARGFHSDGGYFPEVDMGWSQYLKEDKELTMWDVVV----EMLLA 158 (478)
Q Consensus 91 ~~~~~~~~~~~-W~~~~~~~-------~~~~~~~~~~~g~~~~~g~~~~~~~~w~~~~~~~~~~~m~dv~~----~~l~~ 158 (478)
|..--||.|.. |.-...-| ..+-+|= -|+.|..|+--+ ..|+++.|||+-. +.+.+
T Consensus 508 Fatas~D~tArLWs~d~~~PlRifaghlsDV~cv----~FHPNs~Y~aTG--------SsD~tVRlWDv~~G~~VRiF~G 575 (707)
T KOG0263|consen 508 FATASHDQTARLWSTDHNKPLRIFAGHLSDVDCV----SFHPNSNYVATG--------SSDRTVRLWDVSTGNSVRIFTG 575 (707)
T ss_pred EEecCCCceeeeeecccCCchhhhcccccccceE----EECCcccccccC--------CCCceEEEEEcCCCcEEEEecC
Confidence 33334666544 85555444 2222222 355666666555 3689999999987 56799
Q ss_pred hcCcceeeeeccCCCCcccccch
Q 011753 159 ARGKVHALAKGDIHGCNFSWMSS 181 (478)
Q Consensus 159 ~~~Kv~al~~~d~~~~~~S~~~~ 181 (478)
|++.|++|++..-.+-+.|...+
T Consensus 576 H~~~V~al~~Sp~Gr~LaSg~ed 598 (707)
T KOG0263|consen 576 HKGPVTALAFSPCGRYLASGDED 598 (707)
T ss_pred CCCceEEEEEcCCCceEeecccC
Confidence 99999999988766656555444
No 97
>PF10497 zf-4CXXC_R1: Zinc-finger domain of monoamine-oxidase A repressor R1; InterPro: IPR018866 R1 is a transcription factor repressor that inhibits monoamine oxidase A gene expression. This domain is a four-CXXC zinc finger putative DNA-binding domain found at the C-terminal end of R1. The domain carries 12 cysteines of which four pairs are of the CXXC type [].
Probab=27.20 E-value=20 Score=31.29 Aligned_cols=57 Identities=26% Similarity=0.522 Sum_probs=35.1
Q ss_pred CCCcCCCCCccCcccccccccc------cCC---CceEcCCCCCCeeeccccCCCCCceeeCccchhhh
Q 011753 219 SASACMLCGVRFHPIMCSRHHC------RFC---GGIFCGECSKGRSLLPVKFRVSDPQRVCDVCCVRL 278 (478)
Q Consensus 219 ~~~~C~~C~~~F~~l~~RrHHC------R~C---G~v~C~~CS~~~~~lP~~~~~~~pvRVC~~C~~~L 278 (478)
....|..|.++-. ..+..| ..| ...||..|..++...-.......+.-+|..|...-
T Consensus 6 ~g~~CHqCrqKt~---~~~~~C~~~~~~~~C~~~~~~fC~~CL~~ryge~~~ev~~~~~W~CP~CrgiC 71 (105)
T PF10497_consen 6 NGKTCHQCRQKTL---DFKTICTGHWKNSSCRGCRGKFCGGCLRNRYGENVEEVLEDPNWKCPKCRGIC 71 (105)
T ss_pred CCCCchhhcCCCC---CCceEcCCCCCCCCCccCcceehHhHHHHHHhhhHHHHhcCCceECCCCCCee
Confidence 3567999988543 122333 666 89999999876633211111234678888888754
No 98
>KOG1311 consensus DHHC-type Zn-finger proteins [General function prediction only]
Probab=26.92 E-value=30 Score=35.09 Aligned_cols=25 Identities=20% Similarity=0.470 Sum_probs=18.4
Q ss_pred CCcCCCCCccCcccccccccccCCCceE
Q 011753 220 ASACMLCGVRFHPIMCSRHHCRFCGGIF 247 (478)
Q Consensus 220 ~~~C~~C~~~F~~l~~RrHHCR~CG~v~ 247 (478)
...|..|+.. . -.|-|||+.|++-+
T Consensus 113 ~~~C~~C~~~-r--PpRs~HCsvC~~CV 137 (299)
T KOG1311|consen 113 WKYCDTCQLY-R--PPRSSHCSVCNNCV 137 (299)
T ss_pred eEEcCcCccc-C--CCCcccchhhcccc
Confidence 4689999884 2 26889999887643
No 99
>COG1773 Rubredoxin [Energy production and conversion]
Probab=26.34 E-value=30 Score=27.01 Aligned_cols=41 Identities=27% Similarity=0.490 Sum_probs=22.5
Q ss_pred ccccccCCCceEcCCCCCCeeeccc--cCCCCCceeeCccchh
Q 011753 236 SRHHCRFCGGIFCGECSKGRSLLPV--KFRVSDPQRVCDVCCV 276 (478)
Q Consensus 236 RrHHCR~CG~v~C~~CS~~~~~lP~--~~~~~~pvRVC~~C~~ 276 (478)
+++.|+.||.|+=..=-..+..++. .|.....-.+|..|-.
T Consensus 2 ~~~~C~~CG~vYd~e~Gdp~~gi~pgT~fedlPd~w~CP~Cg~ 44 (55)
T COG1773 2 KRWRCSVCGYVYDPEKGDPRCGIAPGTPFEDLPDDWVCPECGV 44 (55)
T ss_pred CceEecCCceEeccccCCccCCCCCCCchhhCCCccCCCCCCC
Confidence 5899999999974432222222221 1222234578888863
No 100
>PRK14890 putative Zn-ribbon RNA-binding protein; Provisional
Probab=26.28 E-value=52 Score=26.06 Aligned_cols=33 Identities=27% Similarity=0.830 Sum_probs=23.2
Q ss_pred CCcCCCCCccCcccc-cccccccCCCce---EcCCCC
Q 011753 220 ASACMLCGVRFHPIM-CSRHHCRFCGGI---FCGECS 252 (478)
Q Consensus 220 ~~~C~~C~~~F~~l~-~RrHHCR~CG~v---~C~~CS 252 (478)
...|..|+......- --+..|.+||++ -|.+|-
T Consensus 7 ~~~CtSCg~~i~~~~~~~~F~CPnCG~~~I~RC~~CR 43 (59)
T PRK14890 7 PPKCTSCGIEIAPREKAVKFLCPNCGEVIIYRCEKCR 43 (59)
T ss_pred CccccCCCCcccCCCccCEeeCCCCCCeeEeechhHH
Confidence 457999999776432 236889999987 355553
No 101
>PF13923 zf-C3HC4_2: Zinc finger, C3HC4 type (RING finger); PDB: 3HCU_A 2ECI_A 2JMD_A 3HCS_B 3HCT_A 3ZTG_A 2YUR_A 3L11_A.
Probab=26.08 E-value=19 Score=25.19 Aligned_cols=29 Identities=28% Similarity=0.628 Sum_probs=19.6
Q ss_pred CCCCCccCcccccccccccCCCceEcCCCCCCe
Q 011753 223 CMLCGVRFHPIMCSRHHCRFCGGIFCGECSKGR 255 (478)
Q Consensus 223 C~~C~~~F~~l~~RrHHCR~CG~v~C~~CS~~~ 255 (478)
|..|...+. .....-.||.+||..|....
T Consensus 1 C~iC~~~~~----~~~~~~~CGH~fC~~C~~~~ 29 (39)
T PF13923_consen 1 CPICLDELR----DPVVVTPCGHSFCKECIEKY 29 (39)
T ss_dssp ETTTTSB-S----SEEEECTTSEEEEHHHHHHH
T ss_pred CCCCCCccc----CcCEECCCCCchhHHHHHHH
Confidence 566765332 34467799999999997543
No 102
>smart00834 CxxC_CXXC_SSSS Putative regulatory protein. CxxC_CXXC_SSSS represents a region of about 41 amino acids found in a number of small proteins in a wide range of bacteria. The region usually begins with the initiator Met and contains two CxxC motifs separated by 17 amino acids. One protein in this entry has been noted as a putative regulatory protein, designated FmdB. Most proteins in this entry have a C-terminal region containing highly degenerate sequence.
Probab=25.81 E-value=36 Score=23.72 Aligned_cols=11 Identities=36% Similarity=0.800 Sum_probs=6.8
Q ss_pred cCCCCCccCcc
Q 011753 222 ACMLCGVRFHP 232 (478)
Q Consensus 222 ~C~~C~~~F~~ 232 (478)
.|..|+..|..
T Consensus 7 ~C~~Cg~~fe~ 17 (41)
T smart00834 7 RCEDCGHTFEV 17 (41)
T ss_pred EcCCCCCEEEE
Confidence 46666666654
No 103
>KOG3576 consensus Ovo and related transcription factors [Transcription]
Probab=25.73 E-value=17 Score=35.69 Aligned_cols=61 Identities=20% Similarity=0.465 Sum_probs=39.9
Q ss_pred CCcCCCCCccCccc-----------ccccccccCCCceEcCCCCCCe--ee---ccccCC---CCCceeeCccchhhhcc
Q 011753 220 ASACMLCGVRFHPI-----------MCSRHHCRFCGGIFCGECSKGR--SL---LPVKFR---VSDPQRVCDVCCVRLQS 280 (478)
Q Consensus 220 ~~~C~~C~~~F~~l-----------~~RrHHCR~CG~v~C~~CS~~~--~~---lP~~~~---~~~pvRVC~~C~~~L~~ 280 (478)
..-|..|++.|+-. ..|...|..|++.|-..||-.. .. ++..|. -....-||..|--+-..
T Consensus 145 r~lct~cgkgfndtfdlkrh~rthtgvrpykc~~c~kaftqrcsleshl~kvhgv~~~yaykerr~kl~vcedcg~t~~~ 224 (267)
T KOG3576|consen 145 RHLCTFCGKGFNDTFDLKRHTRTHTGVRPYKCSLCEKAFTQRCSLESHLKKVHGVQHQYAYKERRAKLYVCEDCGYTSER 224 (267)
T ss_pred HHHHhhccCcccchhhhhhhhccccCccccchhhhhHHHHhhccHHHHHHHHcCchHHHHHHHhhhheeeecccCCCCCC
Confidence 45799999999732 2467889999999999999421 11 111111 12356799999765433
No 104
>KOG1829 consensus Uncharacterized conserved protein, contains C1, PH and RUN domains [Signal transduction mechanisms]
Probab=25.63 E-value=28 Score=39.19 Aligned_cols=61 Identities=20% Similarity=0.391 Sum_probs=42.4
Q ss_pred CCcCCCCCccCc-ccccccccccCCCceEcCCCCCCeee-ccccC---CCCCceeeCccchhhhcc
Q 011753 220 ASACMLCGVRFH-PIMCSRHHCRFCGGIFCGECSKGRSL-LPVKF---RVSDPQRVCDVCCVRLQS 280 (478)
Q Consensus 220 ~~~C~~C~~~F~-~l~~RrHHCR~CG~v~C~~CS~~~~~-lP~~~---~~~~pvRVC~~C~~~L~~ 280 (478)
--.|..|+..+. .+..|-.-|+.+|+-||..|-.+... ||.+. -.-.+..||+.=+..|..
T Consensus 340 ~~~CAgC~~~i~~~~~~~~R~C~y~G~y~C~~Ch~~~~svIPARVl~~WDf~~y~Vs~~a~~~L~~ 405 (580)
T KOG1829|consen 340 NFRCAGCGHTIGPDLEQRPRLCRYLGKYFCDCCHQNDKSVIPARVLHNWDFTKYPVSNFAKQFLDE 405 (580)
T ss_pred CceecccCCCcccccccchhHhhhhhhhhCchhcccCcccccccceecccCcccccchhHHHHHHH
Confidence 348999999998 44467778999999999999876543 46431 112456677665555543
No 105
>PHA02942 putative transposase; Provisional
Probab=25.53 E-value=54 Score=34.96 Aligned_cols=29 Identities=31% Similarity=0.579 Sum_probs=19.2
Q ss_pred CCCcCCCCCccCcccccccccccCCCceE
Q 011753 219 SASACMLCGVRFHPIMCSRHHCRFCGGIF 247 (478)
Q Consensus 219 ~~~~C~~C~~~F~~l~~RrHHCR~CG~v~ 247 (478)
.+..|+.|+..=..+..|.+.|..||...
T Consensus 324 TSq~Cs~CG~~~~~l~~r~f~C~~CG~~~ 352 (383)
T PHA02942 324 SSVSCPKCGHKMVEIAHRYFHCPSCGYEN 352 (383)
T ss_pred CCccCCCCCCccCcCCCCEEECCCCCCEe
Confidence 36789989863222234678888888764
No 106
>KOG1313 consensus DHHC-type Zn-finger proteins [General function prediction only]
Probab=25.01 E-value=22 Score=36.39 Aligned_cols=24 Identities=29% Similarity=0.607 Sum_probs=18.8
Q ss_pred CCcCCCCCccCcccccccccccCCCce
Q 011753 220 ASACMLCGVRFHPIMCSRHHCRFCGGI 246 (478)
Q Consensus 220 ~~~C~~C~~~F~~l~~RrHHCR~CG~v 246 (478)
.+.|..|..+=+ -|-|||+.|++.
T Consensus 102 ~SfC~KC~~pK~---prTHHCsiC~kC 125 (309)
T KOG1313|consen 102 DSFCNKCNYPKS---PRTHHCSICNKC 125 (309)
T ss_pred ccHHhhcCCCCC---CCcchhhHHhhH
Confidence 467888988766 388999988774
No 107
>PF09862 DUF2089: Protein of unknown function (DUF2089); InterPro: IPR018658 This family consists of various hypothetical prokaryotic proteins.
Probab=24.82 E-value=42 Score=29.93 Aligned_cols=25 Identities=36% Similarity=0.817 Sum_probs=20.1
Q ss_pred CCCCCccCcccccccccccCCCceEcCC
Q 011753 223 CMLCGVRFHPIMCSRHHCRFCGGIFCGE 250 (478)
Q Consensus 223 C~~C~~~F~~l~~RrHHCR~CG~v~C~~ 250 (478)
|+.|+.++. ..+-+|.+||-.+-+.
T Consensus 1 CPvCg~~l~---vt~l~C~~C~t~i~G~ 25 (113)
T PF09862_consen 1 CPVCGGELV---VTRLKCPSCGTEIEGE 25 (113)
T ss_pred CCCCCCceE---EEEEEcCCCCCEEEee
Confidence 899999876 3789999998877553
No 108
>KOG2593 consensus Transcription initiation factor IIE, alpha subunit [Transcription]
Probab=24.61 E-value=32 Score=37.22 Aligned_cols=34 Identities=24% Similarity=0.621 Sum_probs=27.1
Q ss_pred CCcCCCCCccCccc------c--cccccccCCCceEcCCCCC
Q 011753 220 ASACMLCGVRFHPI------M--CSRHHCRFCGGIFCGECSK 253 (478)
Q Consensus 220 ~~~C~~C~~~F~~l------~--~RrHHCR~CG~v~C~~CS~ 253 (478)
.-.|+.|+++|+.+ . .-..||-+||.-+=..|+.
T Consensus 128 ~Y~Cp~C~kkyt~Lea~~L~~~~~~~F~C~~C~gelveDe~~ 169 (436)
T KOG2593|consen 128 GYVCPNCQKKYTSLEALQLLDNETGEFHCENCGGELVEDENK 169 (436)
T ss_pred cccCCccccchhhhHHHHhhcccCceEEEecCCCchhccccc
Confidence 45799999999832 1 3589999999988888875
No 109
>COG4530 Uncharacterized protein conserved in bacteria [Function unknown]
Probab=24.48 E-value=41 Score=29.95 Aligned_cols=28 Identities=11% Similarity=0.095 Sum_probs=21.4
Q ss_pred CCcCCCCCccCcccccccccccCCCceE
Q 011753 220 ASACMLCGVRFHPIMCSRHHCRFCGGIF 247 (478)
Q Consensus 220 ~~~C~~C~~~F~~l~~RrHHCR~CG~v~ 247 (478)
...|+.|+++|--+.++..-|..||+-+
T Consensus 9 KridPetg~KFYDLNrdPiVsPytG~s~ 36 (129)
T COG4530 9 KRIDPETGKKFYDLNRDPIVSPYTGKSY 36 (129)
T ss_pred cccCccccchhhccCCCccccCcccccc
Confidence 4579999999988766667777777754
No 110
>KOG0823 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=24.40 E-value=20 Score=35.67 Aligned_cols=34 Identities=24% Similarity=0.567 Sum_probs=24.3
Q ss_pred cCCCceEcCCCCCCeeeccccCCCCCceeeCccchhhhcc
Q 011753 241 RFCGGIFCGECSKGRSLLPVKFRVSDPQRVCDVCCVRLQS 280 (478)
Q Consensus 241 R~CG~v~C~~CS~~~~~lP~~~~~~~pvRVC~~C~~~L~~ 280 (478)
-+||+.||+-|.-.++.+ ..-...|-.|...++.
T Consensus 63 TlCGHLFCWpClyqWl~~------~~~~~~cPVCK~~Vs~ 96 (230)
T KOG0823|consen 63 TLCGHLFCWPCLYQWLQT------RPNSKECPVCKAEVSI 96 (230)
T ss_pred eecccceehHHHHHHHhh------cCCCeeCCcccccccc
Confidence 489999999998766444 2245677788876654
No 111
>PF14803 Nudix_N_2: Nudix N-terminal; PDB: 3CNG_C.
Probab=23.67 E-value=55 Score=22.95 Aligned_cols=19 Identities=21% Similarity=0.441 Sum_probs=10.4
Q ss_pred eeccccCCCCCceeeCccchh
Q 011753 256 SLLPVKFRVSDPQRVCDVCCV 276 (478)
Q Consensus 256 ~~lP~~~~~~~pvRVC~~C~~ 276 (478)
..+|. +..++..||..|-.
T Consensus 12 ~~ip~--gd~r~R~vC~~Cg~ 30 (34)
T PF14803_consen 12 RRIPE--GDDRERLVCPACGF 30 (34)
T ss_dssp EE--T--T-SS-EEEETTTTE
T ss_pred hhcCC--CCCccceECCCCCC
Confidence 44553 45678889999964
No 112
>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=23.47 E-value=37 Score=24.00 Aligned_cols=15 Identities=33% Similarity=0.581 Sum_probs=9.6
Q ss_pred CceeeCccchhhhcc
Q 011753 266 DPQRVCDVCCVRLQS 280 (478)
Q Consensus 266 ~pvRVC~~C~~~L~~ 280 (478)
+.--+|+.|-..|..
T Consensus 19 ~~~~~Cd~cg~~L~q 33 (36)
T PF05191_consen 19 KVEGVCDNCGGELVQ 33 (36)
T ss_dssp SSTTBCTTTTEBEBE
T ss_pred CCCCccCCCCCeeEe
Confidence 345688888776543
No 113
>PF01155 HypA: Hydrogenase expression/synthesis hypA family; InterPro: IPR000688 Bacterial membrane-bound nickel-dependent hydrogenases requires a number of accessory proteins which are involved in their maturation. The exact role of these proteins is not yet clear, but some seem to be required for the incorporation of the nickel ions []. One of these proteins is generally known as hypA. It is a protein of about 12 to 14 kDa that contains, in its C-terminal region, four conserved cysteines that form a zinc-finger like motif. Escherichia coli has two proteins that belong to this family, hypA and hybF. A homologue, MJ0214, has also been found in a number of archaeal species, including the genome of Methanocaldococcus jannaschii (Methanococcus jannaschii).; GO: 0016151 nickel ion binding, 0006464 protein modification process; PDB: 2KDX_A 3A44_D 3A43_B.
Probab=23.42 E-value=26 Score=30.75 Aligned_cols=25 Identities=32% Similarity=0.705 Sum_probs=15.7
Q ss_pred CCcCCCCCccCcccccccccccCCCc
Q 011753 220 ASACMLCGVRFHPIMCSRHHCRFCGG 245 (478)
Q Consensus 220 ~~~C~~C~~~F~~l~~RrHHCR~CG~ 245 (478)
.-.|..|+..|..- .....|..||.
T Consensus 70 ~~~C~~Cg~~~~~~-~~~~~CP~Cgs 94 (113)
T PF01155_consen 70 RARCRDCGHEFEPD-EFDFSCPRCGS 94 (113)
T ss_dssp EEEETTTS-EEECH-HCCHH-SSSSS
T ss_pred cEECCCCCCEEecC-CCCCCCcCCcC
Confidence 45799999999853 34455666664
No 114
>PF08271 TF_Zn_Ribbon: TFIIB zinc-binding; InterPro: IPR013137 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 a zinc finger motif found in transcription factor IIB (TFIIB). In eukaryotes the initiation of transcription of protein encoding genes by the polymerase II complexe (Pol II) is modulated by general and specific transcription factors. The general transcription factors operate through common promoters elements (such as the TATA box). At least seven different proteins associate to form the general transcription factors: TFIIA, -IIB, -IID, -IIE, -IIF, -IIG, and -IIH []. TFIIB and TFIID are responsible for promoter recognition and interaction with pol II; together with Pol II, they form a minimal initiation complex capable of transcription under certain conditions. The TATA box of a Pol II promoter is bound in the initiation complex by the TBP subunit of TFIID, which bends the DNA around the C-terminal domain of TFIIB whereas the N-terminal zinc finger of TFIIB interacts with Pol II [, ]. The TFIIB zinc finger adopts a zinc ribbon fold characterised by two beta-hairpins forming two structurally similar zinc-binding sub-sites []. The zinc finger contacts the rbp1 subunit of Pol II through its dock domain, a conserved region of about 70 amino acids located close to the polymerase active site []. In the Pol II complex this surface is located near the RNA exit groove. Interestingly this sequence is best conserved in the three polymerases that utilise a TFIIB-like general transcription factor (Pol II, Pol III, and archaeal RNA polymerase) but not in Pol I []. More information about these proteins can be found at Protein of the Month: Zinc Fingers [].; GO: 0008270 zinc ion binding, 0006355 regulation of transcription, DNA-dependent; PDB: 1VD4_A 1PFT_A 3K1F_M 3K7A_M 1RO4_A 1RLY_A 1DL6_A.
Probab=23.24 E-value=41 Score=24.29 Aligned_cols=11 Identities=36% Similarity=0.751 Sum_probs=4.4
Q ss_pred eeeCccchhhh
Q 011753 268 QRVCDVCCVRL 278 (478)
Q Consensus 268 vRVC~~C~~~L 278 (478)
..||..|-.+|
T Consensus 19 ~~vC~~CG~Vl 29 (43)
T PF08271_consen 19 ELVCPNCGLVL 29 (43)
T ss_dssp EEEETTT-BBE
T ss_pred eEECCCCCCEe
Confidence 33555554433
No 115
>smart00531 TFIIE Transcription initiation factor IIE.
Probab=23.19 E-value=44 Score=30.58 Aligned_cols=13 Identities=15% Similarity=0.380 Sum_probs=10.8
Q ss_pred CCcCCCCCccCcc
Q 011753 220 ASACMLCGVRFHP 232 (478)
Q Consensus 220 ~~~C~~C~~~F~~ 232 (478)
.-.|+.|+..|++
T Consensus 99 ~Y~Cp~C~~~y~~ 111 (147)
T smart00531 99 YYKCPNCQSKYTF 111 (147)
T ss_pred EEECcCCCCEeeH
Confidence 5579999999985
No 116
>cd00162 RING RING-finger (Really Interesting New Gene) domain, a specialized type of Zn-finger of 40 to 60 residues that binds two atoms of zinc; defined by the 'cross-brace' motif C-X2-C-X(9-39)-C-X(1-3)- H-X(2-3)-(N/C/H)-X2-C-X(4-48)C-X2-C; probably involved in mediating protein-protein interactions; identified in a proteins with a wide range of functions such as viral replication, signal transduction, and development; has two variants, the C3HC4-type and a C3H2C3-type (RING-H2 finger), which have different cysteine/histidine pattern; a subset of RINGs are associated with B-Boxes (C-X2-H-X7-C-X7-C-X2-C-H-X2-H)
Probab=22.51 E-value=25 Score=23.91 Aligned_cols=30 Identities=27% Similarity=0.644 Sum_probs=20.4
Q ss_pred cCCCCCccCcccccccccccCCCceEcCCCCCCe
Q 011753 222 ACMLCGVRFHPIMCSRHHCRFCGGIFCGECSKGR 255 (478)
Q Consensus 222 ~C~~C~~~F~~l~~RrHHCR~CG~v~C~~CS~~~ 255 (478)
.|..|...+. ....-..||..||..|....
T Consensus 1 ~C~iC~~~~~----~~~~~~~C~H~~c~~C~~~~ 30 (45)
T cd00162 1 ECPICLEEFR----EPVVLLPCGHVFCRSCIDKW 30 (45)
T ss_pred CCCcCchhhh----CceEecCCCChhcHHHHHHH
Confidence 3778877762 23344569999999997643
No 117
>PF04216 FdhE: Protein involved in formate dehydrogenase formation; InterPro: IPR006452 This family of sequences describe an accessory protein required for the assembly of formate dehydrogenase of certain proteobacteria although not present in the final complex []. The exact nature of the function of FdhE in the assembly of the complex is unknown, but considering the presence of selenocysteine, molybdopterin, iron-sulphur clusters and cytochrome b556, it is likely to be involved in the insertion of cofactors. ; GO: 0005737 cytoplasm; PDB: 2FIY_B.
Probab=22.43 E-value=38 Score=34.38 Aligned_cols=62 Identities=27% Similarity=0.518 Sum_probs=30.8
Q ss_pred CcCCCCCccCc--cc------ccccccccCCCc------eEcCCCCCCe-eecc---ccCCCCCceeeCccchhhhcccc
Q 011753 221 SACMLCGVRFH--PI------MCSRHHCRFCGG------IFCGECSKGR-SLLP---VKFRVSDPQRVCDVCCVRLQSVQ 282 (478)
Q Consensus 221 ~~C~~C~~~F~--~l------~~RrHHCR~CG~------v~C~~CS~~~-~~lP---~~~~~~~pvRVC~~C~~~L~~~~ 282 (478)
..|+.|+..=. .+ ..|..||-.||. +-|..|-+.. ..+- ........+-||+.|...+..+.
T Consensus 173 g~CPvCGs~P~~s~l~~~~~~G~R~L~Cs~C~t~W~~~R~~Cp~Cg~~~~~~l~~~~~e~~~~~rve~C~~C~~YlK~vd 252 (290)
T PF04216_consen 173 GYCPVCGSPPVLSVLRGGEREGKRYLHCSLCGTEWRFVRIKCPYCGNTDHEKLEYFTVEGEPAYRVEVCESCGSYLKTVD 252 (290)
T ss_dssp SS-TTT---EEEEEEE------EEEEEETTT--EEE--TTS-TTT---SS-EEE--------SEEEEEETTTTEEEEEEE
T ss_pred CcCCCCCCcCceEEEecCCCCccEEEEcCCCCCeeeecCCCCcCCCCCCCcceeeEecCCCCcEEEEECCcccchHHHHh
Confidence 68999998522 11 247889999995 5899998643 1111 01112234669999998776543
No 118
>PF07503 zf-HYPF: HypF finger; InterPro: IPR011125 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. Proteins of the HypF family are involved in the maturation and regulation of hydrogenase []. In the N terminus they appear to have two zinc finger domains that are similar to those found in the DnaJ chaperone []. More information about these proteins can be found at Protein of the Month: Zinc Fingers [].; GO: 0008270 zinc ion binding; PDB: 3TTD_A 3TSQ_A 3TTC_A 3TSP_A 3TTF_A 3TSU_A.
Probab=22.37 E-value=18 Score=25.60 Aligned_cols=17 Identities=24% Similarity=0.378 Sum_probs=6.8
Q ss_pred CCCCCccCccccccccc
Q 011753 223 CMLCGVRFHPIMCSRHH 239 (478)
Q Consensus 223 C~~C~~~F~~l~~RrHH 239 (478)
|..|.+.+.-...||+|
T Consensus 2 C~~C~~Ey~~p~~RR~~ 18 (35)
T PF07503_consen 2 CDDCLKEYFDPSNRRFH 18 (35)
T ss_dssp -HHHHHHHCSTTSTTTT
T ss_pred CHHHHHHHcCCCCCccc
Confidence 44455543222245544
No 119
>PF15227 zf-C3HC4_4: zinc finger of C3HC4-type, RING; PDB: 2EGP_A 2ECV_A 2ECJ_A 2YSL_A 2YSJ_A.
Probab=22.07 E-value=29 Score=25.08 Aligned_cols=28 Identities=29% Similarity=0.617 Sum_probs=17.4
Q ss_pred CCCCCccCcccccccccccCCCceEcCCCCCCe
Q 011753 223 CMLCGVRFHPIMCSRHHCRFCGGIFCGECSKGR 255 (478)
Q Consensus 223 C~~C~~~F~~l~~RrHHCR~CG~v~C~~CS~~~ 255 (478)
|++|..-|.- -.=-.||..||..|....
T Consensus 1 CpiC~~~~~~-----Pv~l~CGH~FC~~Cl~~~ 28 (42)
T PF15227_consen 1 CPICLDLFKD-----PVSLPCGHSFCRSCLERL 28 (42)
T ss_dssp ETTTTSB-SS-----EEE-SSSSEEEHHHHHHH
T ss_pred CCccchhhCC-----ccccCCcCHHHHHHHHHH
Confidence 5667765541 111379999999997654
No 120
>PF09332 Mcm10: Mcm10 replication factor; InterPro: IPR015411 Mcm10 is a eukaryotic DNA replication factor that regulates the stability and chromatin association of DNA polymerase alpha []. ; PDB: 2KWQ_A.
Probab=22.04 E-value=37 Score=35.84 Aligned_cols=30 Identities=23% Similarity=0.465 Sum_probs=10.6
Q ss_pred cccccccCCCceEcCCCCCCeeeccccCCCCCceeeCccchhh
Q 011753 235 CSRHHCRFCGGIFCGECSKGRSLLPVKFRVSDPQRVCDVCCVR 277 (478)
Q Consensus 235 ~RrHHCR~CG~v~C~~CS~~~~~lP~~~~~~~pvRVC~~C~~~ 277 (478)
+|=..|.+||.- .+.+ ..-|...|..|-..
T Consensus 283 KRFFkC~~C~~R--------t~sl-----~r~P~~~C~~Cg~~ 312 (344)
T PF09332_consen 283 KRFFKCKDCGNR--------TISL-----ERLPKKHCSNCGSS 312 (344)
T ss_dssp -EEEE-T-TS-E--------EEES-----SSS--S--TTT-S-
T ss_pred eeeEECCCCCCe--------eeec-----ccCCCCCCCcCCcC
Confidence 344568888763 1222 12366789888864
No 121
>cd02341 ZZ_ZZZ3 Zinc finger, ZZ type. Zinc finger present in ZZZ3 (ZZ finger containing 3) and related proteins. The ZZ motif coordinates two zinc ions and most likely participates in ligand binding or molecular scaffolding.
Probab=21.90 E-value=41 Score=25.34 Aligned_cols=28 Identities=32% Similarity=0.832 Sum_probs=19.2
Q ss_pred cCCCCCc-cCcccccccccccCCC---ceEcCCCC
Q 011753 222 ACMLCGV-RFHPIMCSRHHCRFCG---GIFCGECS 252 (478)
Q Consensus 222 ~C~~C~~-~F~~l~~RrHHCR~CG---~v~C~~CS 252 (478)
.|..|+. ++. -.|.||-.|. --+|..|-
T Consensus 2 ~Cd~C~~~pI~---G~R~~C~~C~~~d~DlC~~C~ 33 (48)
T cd02341 2 KCDSCGIEPIP---GTRYHCSECDDGDFDLCQDCV 33 (48)
T ss_pred CCCCCCCCccc---cceEECCCCCCCCCccCHHHH
Confidence 4888887 333 5889999997 34555553
No 122
>COG0333 RpmF Ribosomal protein L32 [Translation, ribosomal structure and biogenesis]
Probab=21.84 E-value=51 Score=25.91 Aligned_cols=20 Identities=40% Similarity=0.793 Sum_probs=12.5
Q ss_pred CCcCCCCCccCccccccccc-ccCCC
Q 011753 220 ASACMLCGVRFHPIMCSRHH-CRFCG 244 (478)
Q Consensus 220 ~~~C~~C~~~F~~l~~RrHH-CR~CG 244 (478)
...|..|+. . ...|| |..||
T Consensus 27 ~~~c~~cG~----~-~l~Hrvc~~cg 47 (57)
T COG0333 27 LSVCPNCGE----Y-KLPHRVCLKCG 47 (57)
T ss_pred ceeccCCCC----c-ccCceEcCCCC
Confidence 456888887 2 34444 77776
No 123
>PF09297 zf-NADH-PPase: NADH pyrophosphatase zinc ribbon domain; InterPro: IPR015376 This domain has a zinc ribbon structure and is often found between two NUDIX domains.; GO: 0016787 hydrolase activity, 0046872 metal ion binding; PDB: 1VK6_A 2GB5_A.
Probab=21.57 E-value=64 Score=21.80 Aligned_cols=25 Identities=32% Similarity=0.729 Sum_probs=12.6
Q ss_pred EcCCCCCCeeeccccCCCCCceeeCccchh
Q 011753 247 FCGECSKGRSLLPVKFRVSDPQRVCDVCCV 276 (478)
Q Consensus 247 ~C~~CS~~~~~lP~~~~~~~pvRVC~~C~~ 276 (478)
||..|-....+.+ ..-.|+|..|-.
T Consensus 5 fC~~CG~~t~~~~-----~g~~r~C~~Cg~ 29 (32)
T PF09297_consen 5 FCGRCGAPTKPAP-----GGWARRCPSCGH 29 (32)
T ss_dssp B-TTT--BEEE-S-----SSS-EEESSSS-
T ss_pred ccCcCCccccCCC-----CcCEeECCCCcC
Confidence 6666765544443 346899998864
No 124
>COG1198 PriA Primosomal protein N' (replication factor Y) - superfamily II helicase [DNA replication, recombination, and repair]
Probab=21.18 E-value=66 Score=37.34 Aligned_cols=9 Identities=22% Similarity=0.678 Sum_probs=5.6
Q ss_pred eeCccchhh
Q 011753 269 RVCDVCCVR 277 (478)
Q Consensus 269 RVC~~C~~~ 277 (478)
..|..|-..
T Consensus 476 ~~Cp~Cgs~ 484 (730)
T COG1198 476 QSCPECGSE 484 (730)
T ss_pred CCCCCCCCC
Confidence 456677665
No 125
>KOG0704 consensus ADP-ribosylation factor GTPase activator [Signal transduction mechanisms; Intracellular trafficking, secretion, and vesicular transport; Cytoskeleton]
Probab=20.98 E-value=36 Score=35.91 Aligned_cols=53 Identities=15% Similarity=0.241 Sum_probs=42.1
Q ss_pred CcccccCCCCCCCCCceeecccCCcCCCCCcccccCcccCCCcccCCCC-Cccccc
Q 011753 86 GKYFFYDSPHYEDTGVWIPVSVPPMLDSKDDEWARGFHSDGGYFPEVDM-GWSQYL 140 (478)
Q Consensus 86 ~~~~~~~~~~~~~~~~W~~~~~~~~~~~~~~~~~~g~~~~~g~~~~~~~-~w~~~~ 140 (478)
++++-|+|- ..++.|+.|+..--++.+|..-|||++..-.|+.+-.| .|.++.
T Consensus 18 eNk~CfeC~--a~NPQWvSvsyGIfICLECSG~HRgLGVhiSFVRSVTMD~wkeie 71 (386)
T KOG0704|consen 18 ENKKCFECG--APNPQWVSVSYGIFICLECSGKHRGLGVHISFVRSVTMDKWKEIE 71 (386)
T ss_pred cCCceeecC--CCCCCeEeecccEEEEEecCCcccccceeeEEEEeeecccccHHH
Confidence 445555553 23899999999999999999999999999888888877 475543
No 126
>PRK05978 hypothetical protein; Provisional
Probab=20.83 E-value=56 Score=30.45 Aligned_cols=25 Identities=32% Similarity=0.817 Sum_probs=11.6
Q ss_pred CcCCCCCc--cCcccccccccccCCCc
Q 011753 221 SACMLCGV--RFHPIMCSRHHCRFCGG 245 (478)
Q Consensus 221 ~~C~~C~~--~F~~l~~RrHHCR~CG~ 245 (478)
-.|+.|++ -|..+.+=+.+|.+||.
T Consensus 34 grCP~CG~G~LF~g~Lkv~~~C~~CG~ 60 (148)
T PRK05978 34 GRCPACGEGKLFRAFLKPVDHCAACGE 60 (148)
T ss_pred CcCCCCCCCcccccccccCCCccccCC
Confidence 34556654 23332233455555554
No 127
>PF14835 zf-RING_6: zf-RING of BARD1-type protein; PDB: 1JM7_B.
Probab=20.62 E-value=65 Score=26.02 Aligned_cols=28 Identities=32% Similarity=0.783 Sum_probs=13.5
Q ss_pred cCCCCCccCcccccccccc-cCCCceEcCCCCCC
Q 011753 222 ACMLCGVRFHPIMCSRHHC-RFCGGIFCGECSKG 254 (478)
Q Consensus 222 ~C~~C~~~F~~l~~RrHHC-R~CG~v~C~~CS~~ 254 (478)
.|..|.. + .|.-+| -.|.++||..|-+.
T Consensus 9 rCs~C~~----~-l~~pv~l~~CeH~fCs~Ci~~ 37 (65)
T PF14835_consen 9 RCSICFD----I-LKEPVCLGGCEHIFCSSCIRD 37 (65)
T ss_dssp S-SSS-S-------SS-B---SSS--B-TTTGGG
T ss_pred CCcHHHH----H-hcCCceeccCccHHHHHHhHH
Confidence 4666655 2 366777 79999999999853
No 128
>PF02945 Endonuclease_7: Recombination endonuclease VII; InterPro: IPR004211 This family of proteins which includes Bacteriophage T4 endonuclease VII, Mycobacteriophage D29 gene 59, and other as yet uncharacterised proteins. The T4 endonuclease VII (Endo VII) recognises a broad spectrum of DNA substrates ranging from branched DNAs to single base mismatches. The structure of this enzyme has been resolved and it was found that the monomers form an elongated, intertwined molecular dimer that exibits extreme domain swapping. Two pairs of antiparallel helices which form a novel 'four-helix cross' motif are the major dimerisation elements [].; PDB: 3GOX_A 3FC3_A 1EN7_B 1E7L_B 2QNF_A 2QNC_A 1E7D_A.
Probab=20.40 E-value=37 Score=28.38 Aligned_cols=27 Identities=19% Similarity=0.362 Sum_probs=14.8
Q ss_pred CCcCCCCCccCcccccc--cccccCCCce
Q 011753 220 ASACMLCGVRFHPIMCS--RHHCRFCGGI 246 (478)
Q Consensus 220 ~~~C~~C~~~F~~l~~R--rHHCR~CG~v 246 (478)
...|.+|+.++.....+ .-||..+|.|
T Consensus 22 ~~~C~iC~~~~~~~~~~~~vDHdH~tG~v 50 (81)
T PF02945_consen 22 GGRCAICGKPLPGESRKLVVDHDHKTGRV 50 (81)
T ss_dssp TTE-TTT-SEEETTCGGCEEEE-TTTTBE
T ss_pred CCcCcCCCCCcccCCCcceecCCCCCCCc
Confidence 35899999955432222 3578888874
No 129
>COG5273 Uncharacterized protein containing DHHC-type Zn finger [General function prediction only]
Probab=20.18 E-value=49 Score=34.25 Aligned_cols=27 Identities=22% Similarity=0.578 Sum_probs=17.4
Q ss_pred CCCCCcCCCCCccCcccccccccccCCCce
Q 011753 217 DSSASACMLCGVRFHPIMCSRHHCRFCGGI 246 (478)
Q Consensus 217 d~~~~~C~~C~~~F~~l~~RrHHCR~CG~v 246 (478)
+....-|..|+.- - .-|-|||+.|++.
T Consensus 106 ~~~~~~C~~C~~~-K--P~RS~HC~~Cn~C 132 (309)
T COG5273 106 FGTENFCSTCNIY-K--PPRSHHCSICNRC 132 (309)
T ss_pred cccceeccccccc-c--CCCCccchhhcch
Confidence 3345678888762 2 1488888887764
Done!