Query 015793
Match_columns 400
No_of_seqs 390 out of 1697
Neff 5.9
Searched_HMMs 46136
Date Fri Mar 29 09:37:41 2013
Command hhsearch -i /work/01045/syshi/csienesis_hhblits_a3m/015793.a3m -d /work/01045/syshi/HHdatabase/Cdd.hhm -o /work/01045/syshi/hhsearch_cdd/015793hhsearch_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 9.9E-54 2.1E-58 422.9 5.6 359 20-400 51-410 (473)
2 COG2930 Uncharacterized conser 100.0 3.7E-39 8.1E-44 292.9 11.0 161 240-400 10-172 (227)
3 KOG1843 Uncharacterized conser 99.9 1.4E-23 3E-28 208.9 2.0 160 241-400 4-164 (473)
4 PF01363 FYVE: FYVE zinc finge 99.8 1.8E-19 3.8E-24 140.6 1.1 67 142-209 1-68 (69)
5 PF04366 DUF500: Family of unk 99.7 3.7E-18 8.1E-23 148.8 8.1 76 323-400 1-76 (126)
6 smart00064 FYVE Protein presen 99.7 4.4E-17 9.4E-22 126.8 3.1 66 142-209 2-67 (68)
7 KOG1729 FYVE finger containing 99.6 2.7E-16 5.8E-21 154.0 0.2 71 137-210 155-226 (288)
8 PTZ00303 phosphatidylinositol 99.5 2.9E-15 6.3E-20 158.5 2.7 72 139-210 448-531 (1374)
9 KOG1818 Membrane trafficking a 99.5 5E-15 1.1E-19 156.5 1.9 84 123-211 137-224 (634)
10 KOG1819 FYVE finger-containing 99.5 1.7E-14 3.6E-19 147.3 2.3 70 139-210 890-964 (990)
11 cd00065 FYVE FYVE domain; Zinc 99.4 3.5E-13 7.6E-18 101.0 2.8 55 150-206 2-56 (57)
12 KOG1842 FYVE finger-containing 99.1 3.4E-12 7.4E-17 129.2 -2.9 73 136-209 166-259 (505)
13 KOG1841 Smad anchor for recept 99.1 5.3E-11 1.2E-15 130.9 2.8 65 137-204 544-608 (1287)
14 KOG1409 Uncharacterized conser 99.0 8.6E-11 1.9E-15 116.3 0.4 119 115-241 248-380 (404)
15 KOG4424 Predicted Rho/Rac guan 98.5 2.8E-08 6.1E-13 104.0 0.5 114 142-259 409-537 (623)
16 KOG1811 Predicted Zn2+-binding 97.9 1.6E-06 3.4E-11 91.6 -1.9 69 137-207 309-382 (1141)
17 KOG0230 Phosphatidylinositol-4 97.2 0.00024 5.1E-09 81.8 3.1 53 149-214 4-56 (1598)
18 PF02318 FYVE_2: FYVE-type zin 96.8 0.00068 1.5E-08 58.5 1.9 50 150-207 54-103 (118)
19 KOG0230 Phosphatidylinositol-4 96.0 0.0024 5.3E-08 73.8 1.2 34 145-181 92-125 (1598)
20 KOG1729 FYVE finger containing 92.7 0.026 5.7E-07 56.0 -0.7 66 141-207 11-81 (288)
21 KOG1841 Smad anchor for recept 90.8 0.13 2.9E-06 58.5 2.2 55 140-209 647-701 (1287)
22 COG3874 Uncharacterized conser 84.7 1 2.3E-05 39.6 3.4 49 249-304 7-55 (138)
23 KOG0320 Predicted E3 ubiquitin 84.4 0.12 2.6E-06 47.8 -2.5 50 150-211 131-180 (187)
24 TIGR00622 ssl1 transcription f 83.6 0.91 2E-05 39.1 2.6 39 144-182 49-96 (112)
25 PRK00464 nrdR transcriptional 82.0 0.74 1.6E-05 41.8 1.5 26 152-177 2-38 (154)
26 KOG0993 Rab5 GTPase effector R 79.7 0.032 6.9E-07 57.3 -8.9 67 142-212 460-528 (542)
27 PF06577 DUF1134: Protein of u 79.7 4 8.6E-05 37.2 5.3 67 284-355 39-105 (160)
28 PF09538 FYDLN_acid: Protein o 79.7 1 2.2E-05 38.6 1.5 27 151-177 10-36 (108)
29 TIGR02300 FYDLN_acid conserved 76.5 1.5 3.2E-05 38.6 1.6 27 151-177 10-36 (129)
30 PF07975 C1_4: TFIIH C1-like d 75.0 0.59 1.3E-05 34.8 -1.1 31 152-182 1-36 (51)
31 PF13717 zinc_ribbon_4: zinc-r 70.9 2.3 5E-05 29.1 1.2 26 152-177 4-35 (36)
32 KOG1314 DHHC-type Zn-finger pr 70.8 1.4 3E-05 45.0 0.0 36 138-176 74-114 (414)
33 PF13719 zinc_ribbon_5: zinc-r 67.7 3 6.6E-05 28.6 1.2 26 152-177 4-35 (37)
34 KOG4275 Predicted E3 ubiquitin 67.0 0.66 1.4E-05 46.1 -3.0 49 148-207 42-90 (350)
35 KOG0317 Predicted E3 ubiquitin 66.2 1.4 3E-05 43.7 -1.0 49 150-212 239-287 (293)
36 TIGR01562 FdhE formate dehydro 65.1 6.3 0.00014 39.7 3.4 62 150-211 184-265 (305)
37 KOG3576 Ovo and related transc 63.5 1.5 3.2E-05 41.8 -1.3 35 146-180 113-158 (267)
38 smart00154 ZnF_AN1 AN1-like Zi 63.2 4.6 0.0001 28.2 1.5 26 153-181 1-26 (39)
39 PRK00420 hypothetical protein; 63.1 5.1 0.00011 34.6 2.0 26 150-183 23-48 (112)
40 PRK00432 30S ribosomal protein 62.9 6.1 0.00013 29.2 2.1 27 151-177 21-47 (50)
41 KOG3799 Rab3 effector RIM1 and 62.1 3.2 7E-05 36.9 0.6 52 149-207 64-116 (169)
42 PF12773 DZR: Double zinc ribb 60.1 6.2 0.00014 28.3 1.8 27 149-175 11-37 (50)
43 PF15616 TerY-C: TerY-C metal 59.8 4.3 9.2E-05 36.0 1.0 15 4-18 7-21 (131)
44 COG5400 Uncharacterized protei 59.7 13 0.00029 34.3 4.2 57 291-355 91-150 (205)
45 PF07282 OrfB_Zn_ribbon: Putat 59.5 8 0.00017 29.6 2.4 29 149-177 27-56 (69)
46 PF14634 zf-RING_5: zinc-RING 59.1 1.8 3.9E-05 30.5 -1.2 32 152-185 1-32 (44)
47 PF01529 zf-DHHC: DHHC palmito 57.3 8.7 0.00019 34.3 2.6 27 147-176 45-71 (174)
48 KOG2164 Predicted E3 ubiquitin 57.3 2.9 6.3E-05 44.5 -0.6 52 150-210 186-237 (513)
49 PF01485 IBR: IBR domain; Int 55.8 9.9 0.00022 28.0 2.3 34 151-184 19-57 (64)
50 PHA02768 hypothetical protein; 49.3 7.6 0.00017 29.4 0.7 26 152-177 7-41 (55)
51 PRK03564 formate dehydrogenase 49.0 16 0.00035 36.9 3.2 62 150-211 187-265 (309)
52 TIGR00570 cdk7 CDK-activating 47.7 6.4 0.00014 39.7 0.1 49 151-209 4-54 (309)
53 PF07191 zinc-ribbons_6: zinc- 47.2 17 0.00037 28.8 2.4 23 152-175 3-25 (70)
54 PF03604 DNA_RNApol_7kD: DNA d 46.6 12 0.00027 25.1 1.3 24 152-175 2-25 (32)
55 KOG0978 E3 ubiquitin ligase in 46.1 2.2 4.8E-05 47.3 -3.7 46 150-208 643-688 (698)
56 PLN03208 E3 ubiquitin-protein 46.0 5.1 0.00011 37.8 -0.8 58 149-211 17-81 (193)
57 PRK00398 rpoP DNA-directed RNA 45.6 12 0.00025 26.7 1.2 23 152-175 5-29 (46)
58 PRK04023 DNA polymerase II lar 45.6 16 0.00034 42.3 2.7 50 148-213 624-678 (1121)
59 smart00647 IBR In Between Ring 45.5 17 0.00038 26.7 2.2 35 150-184 18-57 (64)
60 PF00415 RCC1: Regulator of ch 45.2 5.6 0.00012 28.1 -0.6 29 94-123 1-30 (51)
61 PF15135 UPF0515: Uncharacteri 45.0 14 0.00029 36.3 1.9 34 144-177 126-165 (278)
62 PF13901 DUF4206: Domain of un 43.9 6.1 0.00013 37.2 -0.6 46 169-214 2-51 (202)
63 KOG0823 Predicted E3 ubiquitin 42.9 7.2 0.00016 37.6 -0.3 35 171-211 63-97 (230)
64 PRK14559 putative protein seri 42.8 14 0.00031 40.9 1.9 32 148-184 13-50 (645)
65 PF13923 zf-C3HC4_2: Zinc fing 42.7 8.1 0.00018 26.3 -0.0 29 153-185 1-29 (39)
66 COG1773 Rubredoxin [Energy pro 42.0 20 0.00043 27.2 2.0 41 166-206 2-44 (55)
67 smart00659 RPOLCX RNA polymera 41.7 14 0.0003 26.5 1.1 23 152-174 4-26 (44)
68 COG5151 SSL1 RNA polymerase II 41.2 12 0.00026 37.8 0.9 39 144-182 356-403 (421)
69 PF10367 Vps39_2: Vacuolar sor 41.2 22 0.00048 28.9 2.4 32 149-183 77-108 (109)
70 PF10571 UPF0547: Uncharacteri 40.9 17 0.00037 23.2 1.3 23 152-177 2-24 (26)
71 PF09889 DUF2116: Uncharacteri 40.4 5.9 0.00013 30.4 -1.1 31 167-214 3-34 (59)
72 COG0675 Transposase and inacti 40.3 19 0.0004 35.0 2.1 26 148-177 307-332 (364)
73 COG5574 PEX10 RING-finger-cont 40.2 7.8 0.00017 38.2 -0.6 48 151-210 216-263 (271)
74 PF13639 zf-RING_2: Ring finge 38.9 7 0.00015 27.2 -0.8 32 152-185 2-33 (44)
75 PRK04136 rpl40e 50S ribosomal 38.8 18 0.00038 26.7 1.2 22 151-175 15-36 (48)
76 PF09297 zf-NADH-PPase: NADH p 38.8 25 0.00054 23.1 1.9 25 177-206 5-29 (32)
77 KOG1315 Predicted DHHC-type Zn 38.7 13 0.00029 37.4 0.8 28 145-175 104-131 (307)
78 PF06750 DiS_P_DiS: Bacterial 38.4 21 0.00045 29.6 1.8 10 151-160 34-43 (92)
79 PF14353 CpXC: CpXC protein 38.1 18 0.00039 31.2 1.4 10 152-161 3-12 (128)
80 PF04216 FdhE: Protein involve 37.9 15 0.00033 36.3 1.1 62 151-212 173-252 (290)
81 TIGR02098 MJ0042_CXXC MJ0042 f 37.6 18 0.00039 24.5 1.1 10 152-161 4-13 (38)
82 KOG3173 Predicted Zn-finger pr 36.9 17 0.00037 33.4 1.2 29 149-181 104-132 (167)
83 TIGR02874 spore_ytfJ sporulati 35.8 1.1E+02 0.0025 26.8 6.1 50 249-304 5-54 (125)
84 KOG2879 Predicted E3 ubiquitin 34.0 22 0.00048 35.3 1.5 54 149-213 238-291 (298)
85 KOG1311 DHHC-type Zn-finger pr 33.2 19 0.00042 35.5 0.9 24 150-176 113-136 (299)
86 KOG1814 Predicted E3 ubiquitin 33.1 19 0.0004 37.7 0.8 42 142-184 361-403 (445)
87 KOG2272 Focal adhesion protein 32.4 14 0.0003 36.4 -0.2 64 142-209 215-313 (332)
88 TIGR00100 hypA hydrogenase nic 32.1 21 0.00045 30.7 0.9 24 150-174 70-93 (115)
89 PF15616 TerY-C: TerY-C metal 31.9 30 0.00066 30.7 1.8 24 151-180 78-101 (131)
90 PF01286 XPA_N: XPA protein N- 31.6 30 0.00065 23.7 1.4 10 197-206 23-32 (34)
91 PF10497 zf-4CXXC_R1: Zinc-fin 31.4 17 0.00037 30.8 0.2 58 149-209 6-72 (105)
92 PRK00564 hypA hydrogenase nick 31.1 24 0.00053 30.4 1.1 25 150-175 71-96 (117)
93 COG1198 PriA Primosomal protei 31.1 30 0.00065 39.0 2.1 10 65-74 363-372 (730)
94 PF01155 HypA: Hydrogenase exp 30.9 14 0.0003 31.6 -0.4 25 150-175 70-94 (113)
95 COG1996 RPC10 DNA-directed RNA 30.5 23 0.00051 26.2 0.8 23 152-174 8-31 (49)
96 cd00162 RING RING-finger (Real 30.3 14 0.00031 24.5 -0.4 30 152-185 1-30 (45)
97 PF14445 Prok-RING_2: Prokaryo 29.7 9.4 0.0002 28.5 -1.4 45 151-209 8-52 (57)
98 PF04438 zf-HIT: HIT zinc fing 29.6 26 0.00056 23.1 0.8 23 151-179 3-25 (30)
99 PF14803 Nudix_N_2: Nudix N-te 29.2 44 0.00096 22.7 1.9 28 177-206 2-30 (34)
100 TIGR02605 CxxC_CxxC_SSSS putat 29.1 26 0.00055 25.3 0.8 11 152-162 7-17 (52)
101 KOG3795 Uncharacterized conser 28.5 25 0.00053 32.9 0.7 22 160-182 9-33 (230)
102 PHA02942 putative transposase; 28.1 45 0.00098 34.5 2.7 27 150-176 325-351 (383)
103 cd02341 ZZ_ZZZ3 Zinc finger, Z 27.8 26 0.00057 25.6 0.6 28 152-182 2-33 (48)
104 KOG1813 Predicted E3 ubiquitin 27.8 42 0.00091 33.8 2.2 28 152-184 243-270 (313)
105 PRK12380 hydrogenase nickel in 27.7 27 0.00058 29.9 0.8 24 151-175 71-94 (113)
106 KOG1313 DHHC-type Zn-finger pr 27.3 19 0.00041 35.8 -0.2 24 150-176 102-125 (309)
107 smart00834 CxxC_CXXC_SSSS Puta 26.7 31 0.00068 23.3 0.8 10 152-161 7-16 (41)
108 PF14835 zf-RING_6: zf-RING of 26.7 41 0.00089 26.3 1.5 28 152-184 9-37 (65)
109 COG5273 Uncharacterized protei 26.6 31 0.00068 34.7 1.1 26 148-176 107-132 (309)
110 PF09579 Spore_YtfJ: Sporulati 26.4 1.1E+02 0.0024 24.8 4.2 21 285-305 6-26 (83)
111 PF03107 C1_2: C1 domain; Int 26.2 62 0.0014 20.9 2.2 28 152-181 2-29 (30)
112 PF09862 DUF2089: Protein of u 26.1 38 0.00083 29.3 1.4 25 153-180 1-25 (113)
113 KOG1829 Uncharacterized conser 26.0 21 0.00046 39.0 -0.2 61 150-210 340-405 (580)
114 PF05191 ADK_lid: Adenylate ki 25.8 33 0.00071 23.6 0.8 14 196-209 19-32 (36)
115 PF13445 zf-RING_UBOX: RING-ty 25.8 22 0.00048 25.3 -0.1 31 153-185 1-31 (43)
116 PF06221 zf-C2HC5: Putative zi 25.5 35 0.00075 26.0 0.9 29 167-209 18-46 (57)
117 COG1198 PriA Primosomal protei 25.0 43 0.00092 37.8 1.9 10 152-161 446-455 (730)
118 COG1327 Predicted transcriptio 24.9 37 0.0008 30.9 1.2 26 251-279 83-108 (156)
119 PRK14559 putative protein seri 24.7 55 0.0012 36.4 2.7 49 151-211 2-54 (645)
120 PF01927 Mut7-C: Mut7-C RNAse 24.3 52 0.0011 29.2 2.0 18 145-162 86-103 (147)
121 KOG4739 Uncharacterized protei 24.1 37 0.0008 33.0 1.1 44 152-209 5-48 (233)
122 PRK14714 DNA polymerase II lar 23.9 83 0.0018 37.6 4.0 51 151-212 668-723 (1337)
123 KOG2932 E3 ubiquitin ligase in 23.9 23 0.0005 35.8 -0.4 50 150-214 90-139 (389)
124 PRK05978 hypothetical protein; 23.9 43 0.00093 30.3 1.4 26 151-176 34-61 (148)
125 COG1645 Uncharacterized Zn-fin 23.7 42 0.00092 29.8 1.3 24 151-183 29-52 (131)
126 PF11781 RRN7: RNA polymerase 22.7 37 0.0008 23.3 0.6 24 152-175 10-33 (36)
127 KOG2593 Transcription initiati 22.7 36 0.00078 35.8 0.8 35 149-183 127-169 (436)
128 PF00097 zf-C3HC4: Zinc finger 22.5 30 0.00066 23.3 0.1 29 153-185 1-29 (41)
129 PF13912 zf-C2H2_6: C2H2-type 22.5 22 0.00048 21.8 -0.5 11 152-162 3-13 (27)
130 PRK12496 hypothetical protein; 22.3 53 0.0011 30.0 1.7 23 152-175 129-151 (164)
131 TIGR00599 rad18 DNA repair pro 22.1 46 0.00099 34.9 1.4 47 149-209 25-71 (397)
132 TIGR00311 aIF-2beta translatio 22.0 47 0.001 29.5 1.2 25 151-175 98-126 (133)
133 PRK03824 hypA hydrogenase nick 22.0 41 0.00088 29.7 0.8 10 152-161 72-81 (135)
134 PRK14873 primosome assembly pr 21.9 46 0.001 37.1 1.4 26 345-373 579-604 (665)
135 smart00291 ZnF_ZZ Zinc-binding 21.8 53 0.0012 23.1 1.3 28 151-181 5-33 (44)
136 PF15227 zf-C3HC4_4: zinc fing 21.7 32 0.00069 24.1 0.1 28 153-185 1-28 (42)
137 PHA02929 N1R/p28-like protein; 21.5 29 0.00062 33.8 -0.2 53 148-209 172-227 (238)
138 PRK03681 hypA hydrogenase nick 21.2 44 0.00095 28.6 0.9 25 151-175 71-95 (114)
139 COG1998 RPS31 Ribosomal protei 20.5 61 0.0013 24.1 1.3 25 151-175 20-45 (51)
140 KOG2807 RNA polymerase II tran 20.5 64 0.0014 33.0 1.9 37 144-182 324-360 (378)
141 PF01428 zf-AN1: AN1-like Zinc 20.2 58 0.0013 22.9 1.2 22 156-181 6-27 (43)
142 PRK11595 DNA utilization prote 20.1 26 0.00056 33.3 -0.8 30 151-183 21-56 (227)
143 PF09723 Zn-ribbon_8: Zinc rib 20.1 45 0.00098 23.4 0.6 10 197-206 25-34 (42)
No 1
>KOG1843 consensus Uncharacterized conserved protein [Function unknown]
Probab=100.00 E-value=9.9e-54 Score=422.86 Aligned_cols=359 Identities=38% Similarity=0.490 Sum_probs=330.2
Q ss_pred CCCCCCcCCCCCCCCCCCCCCCCCCCCCCCCcccccccCCCCCcchHHHHhhhhheeeecCCCCCCCccccccCCceeee
Q 015793 20 TVSNSTKEDYMYPFPLESDDVIDGGYDSSDDQCTDILRNNMPPEVNLKNVLSGIFAIITGQNKTPSDCMNQQESSSNVSF 99 (400)
Q Consensus 20 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~t~~~~~~~~~~~~~~~s~~v~~ 99 (400)
++|++++ -|.|.+..+.++++||+++.++. |.+...+.+|.++++|+.+|..++++.|..... +.-++..+.|
T Consensus 51 ~i~~lke---gflfsgr~Gsgviv~~l~dGtws-apsa~~~~g~g~g~~Vgveltd~V~ilNs~~av---~~f~~~G~it 123 (473)
T KOG1843|consen 51 SIPVLKE---GFLFSGRAGSGVIVGYLKDGTWS-APSAIAEAGEGAGGMVGVELTDFVIILNSALAV---QSFARFGTIT 123 (473)
T ss_pred Eeeeecc---cccccccccCceeeeecCCCCcC-cchhhhhccccchhhhHHHHHHHHHhhcchHhh---hhhhhcCeee
Confidence 4566553 36678888999999999998886 999999999999999999999999888755443 3456667777
Q ss_pred cCCCCCCCccCCCcccCCCCCCcccCCCCcchhhhhcccCCCCccccCCCCCcCccCCcCCCccccccccccccCceEeC
Q 015793 100 FGSGKNGDTYLHSSVYIPSAPPLLEPDGVRYIAYKEVLEAEPPEWLPDSSTTVCMQCTAPFTALTRGRHHCRFCGGVFCR 179 (400)
Q Consensus 100 ~g~g~~g~~~~~~~~~~~~~p~l~~~~g~~~~~~~~~~~~~~p~W~pd~~~~~C~~C~~~F~~l~rRrHHCR~CG~vfC~ 179 (400)
+|.+ +..+++||.+. ++...+..++.++|.|.+++....|++|..+|+.+..||||||.|+.+||.
T Consensus 124 LGgn-----------~svsAgPLgr~---aea~a~asl~~~ap~f~yskskglfagvSvegsaI~erR~anR~~yg~~cr 189 (473)
T KOG1843|consen 124 LGGN-----------LSVSAGPLGRN---AEAAASASLGGEAPVFLYSKSKGLFAGVSVEGSAIIERREANRKFYGIFCR 189 (473)
T ss_pred ecCc-----------ceeccCccccc---chhhhhhhhcCcCccccccccccceeeeecccceeeecchhhhhhcCccch
Confidence 7755 56778888776 677788899999999999999999999999999999999999999999999
Q ss_pred CCCCceeecCccCCCCcceEeccccccccccccchhhhhchhhhhhhcccccccccccccccCCcccchhHHHHHHhHHH
Q 015793 180 ICTKGRCLLPVRFRERNPQRVCDACYDRLDPLQGVLINTISNAVQVAKHDVVDWTCTRGWLNLPVGLSMEYEIYKASNTL 259 (400)
Q Consensus 180 ~CS~~~~~lP~~~~~~~p~RVC~~C~~~l~~~q~~l~~~~s~a~~~~~~~~~d~s~~r~wLnlP~~~tle~EV~kAa~tL 259 (400)
+|+..+.++|.++....++|||+.|+..|+..|..+.+.++++.|.+.|++.||...|+|.|.|++.+|+.++++++++|
T Consensus 190 a~~ilsg~vp~p~a~d~l~RVldS~~~nl~~~q~~~~d~~~da~qy~d~d~~Di~~s~sstn~~~~~~~e~s~~rra~sl 269 (473)
T KOG1843|consen 190 AKSILSGLVPVPFAADPLQRVLDSCAFNLESVQGSLDDQYSDAAQYADHDYTDIPTSRSSTNFPSGRSMERSIYRRANSL 269 (473)
T ss_pred hhhhhccCCCCCcccCCHHHHHhhHhhccCCCccccccccCcccccCcccccccccccccccCcccCcchHHHHHhhhhc
Confidence 99999999998899999999999999999999999999999999999999999999999999999999999999999999
Q ss_pred HHh-hhcccCCCCCccchhhhcCCcceEEEEEeeceeeEEEecceEEEEEEcCCCCcccceeEEEeeeeEeEEeceeeee
Q 015793 260 RSY-CQVAESNPERSIPLAVLNGAKGLAILTVAKAGVLVSYKLGTGLVVARRSDGSWSAPSAILSVGLGWGAQIGGELMD 338 (400)
Q Consensus 260 ~~~-~~~~~~~p~~~iP~~~l~~A~Glai~~v~k~Gf~~gg~~G~G~viar~~~g~WS~P~~i~~~g~s~G~q~G~e~~d 338 (400)
+.+ ++.....++++| ...+.+||||+++++.++|.+...+.|+|++++|+++|+||+|++|...|.+||.|+|.|..|
T Consensus 270 rg~r~~~~dddded~~-~a~~srakgLa~~t~~~~g~l~~yk~~s~~~~srR~~Gs~s~~s~~s~~glgWgaq~ggey~d 348 (473)
T KOG1843|consen 270 RGYRSRVDDDDDEDSI-DAGLSRAKGLAPITVARSGVLDTYKLGSSLVVSRRNDGSWSPRSAISRFGLGWGAQAGGEYSD 348 (473)
T ss_pred ccceeecccCchhhhh-hhhhhhcccCCcccccccccccccccccccceecccCCCCCCcchhcccccccchhccccccc
Confidence 888 666677888999 999999999999999999999999999999999999999999999999999999999999999
Q ss_pred EEEEEeCHHHHHHHhhcCceEEccceeEEeeccccccccccccccCCcccEEEEEeeeeecC
Q 015793 339 FIVVLHDSKAVKTFCSRLHFSLGAGCSAAAGPIGRVLEADLRAGERGSGMCYTYSCSKGIVS 400 (400)
Q Consensus 339 ~Viv~~t~~al~~f~~~~~~~lG~~~s~aaGp~G~~~~~~~~~~~~~~~~v~~ys~skGlf~ 400 (400)
++||+++.|+++.|.++.++.+|+..++++||.||..+++.+++....+.+|+|+.+||.|.
T Consensus 349 fiivlrd~ea~~tf~s~~h~~~Ga~~s~a~~~s~r~~esdi~a~S~~~~~~~~~s~skgaf~ 410 (473)
T KOG1843|consen 349 FIIVLRDYEAIQTFRSGTHRVRGAGLSAAVGPSGRAVESDIRAGSSGYSKCGTYSASKGAFV 410 (473)
T ss_pred chhhcchhhhhhccccccccccccccccccCcCccchhhcccccCCcccccccccCCCCccc
Confidence 99999999999999999999999999999999999999999988888889999999999984
No 2
>COG2930 Uncharacterized conserved protein [Function unknown]
Probab=100.00 E-value=3.7e-39 Score=292.89 Aligned_cols=161 Identities=35% Similarity=0.574 Sum_probs=147.6
Q ss_pred ccCCcccchhHHHHHHhHHHHHhhhcc-cCCCCCccchhhhcCCcceEEEE-EeeceeeEEEecceEEEEEEcCCCCccc
Q 015793 240 LNLPVGLSMEYEIYKASNTLRSYCQVA-ESNPERSIPLAVLNGAKGLAILT-VAKAGVLVSYKLGTGLVVARRSDGSWSA 317 (400)
Q Consensus 240 LnlP~~~tle~EV~kAa~tL~~~~~~~-~~~p~~~iP~~~l~~A~Glai~~-v~k~Gf~~gg~~G~G~viar~~~g~WS~ 317 (400)
+++|.+.++..+..|+..++..|.... ...|+..||+++|++||||+||| ++|+||++||++|+||+++|.++|+||+
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 355777788888899888777665432 35688899999999999999999 9999999999999999999999999999
Q ss_pred ceeEEEeeeeEeEEeceeeeeEEEEEeCHHHHHHHhhcCceEEccceeEEeeccccccccccccccCCcccEEEEEeeee
Q 015793 318 PSAILSVGLGWGAQIGGELMDFIVVLHDSKAVKTFCSRLHFSLGAGCSAAAGPIGRVLEADLRAGERGSGMCYTYSCSKG 397 (400)
Q Consensus 318 P~~i~~~g~s~G~q~G~e~~d~Viv~~t~~al~~f~~~~~~~lG~~~s~aaGp~G~~~~~~~~~~~~~~~~v~~ys~skG 397 (400)
|+|++|.|+|+|+|+|+|++|+|++|||++||+.|..-++|+||+++|+++||+||++++.+++...+.+.||+||++||
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 99999999999999999999999999999999999987999999999999999999999888877677899999999999
Q ss_pred ecC
Q 015793 398 IVS 400 (400)
Q Consensus 398 lf~ 400 (400)
|||
T Consensus 170 LfA 172 (227)
T COG2930 170 LFA 172 (227)
T ss_pred cee
Confidence 996
No 3
>KOG1843 consensus Uncharacterized conserved protein [Function unknown]
Probab=99.87 E-value=1.4e-23 Score=208.95 Aligned_cols=160 Identities=38% Similarity=0.596 Sum_probs=146.6
Q ss_pred cCCcccchhHHHHHHhHHHHHhhhcc-cCCCCCccchhhhcCCcceEEEEEeeceeeEEEecceEEEEEEcCCCCcccce
Q 015793 241 NLPVGLSMEYEIYKASNTLRSYCQVA-ESNPERSIPLAVLNGAKGLAILTVAKAGVLVSYKLGTGLVVARRSDGSWSAPS 319 (400)
Q Consensus 241 nlP~~~tle~EV~kAa~tL~~~~~~~-~~~p~~~iP~~~l~~A~Glai~~v~k~Gf~~gg~~G~G~viar~~~g~WS~P~ 319 (400)
|.|+.-++..|..+|...+..|.++. ....+..||+.+|.+|+|++|+|++|+||++.++.|.||.++|+++|+||+|+
T Consensus 4 ~npipaSlkse~~~~~k~~~~fv~p~q~~Gs~e~ipPyvl~da~gl~~i~~lkegflfsgr~Gsgviv~~l~dGtwsaps 83 (473)
T KOG1843|consen 4 NNPIPASLKSETNKAVKSLSSFVDPNQDFGSDEGIPPYVLKDAPGLVSIPVLKEGFLFSGRAGSGVIVGYLKDGTWSAPS 83 (473)
T ss_pred CCcCccCccchhcccceeeccccChhhccCCccccCcceeccCCcceEeeeecccccccccccCceeeeecCCCCcCcch
Confidence 55677788889999999999887643 23345679999999999999999999999999999999999999999999999
Q ss_pred eEEEeeeeEeEEeceeeeeEEEEEeCHHHHHHHhhcCceEEccceeEEeeccccccccccccccCCcccEEEEEeeeeec
Q 015793 320 AILSVGLGWGAQIGGELMDFIVVLHDSKAVKTFCSRLHFSLGAGCSAAAGPIGRVLEADLRAGERGSGMCYTYSCSKGIV 399 (400)
Q Consensus 320 ~i~~~g~s~G~q~G~e~~d~Viv~~t~~al~~f~~~~~~~lG~~~s~aaGp~G~~~~~~~~~~~~~~~~v~~ys~skGlf 399 (400)
+|.+.+.+.|.++|++.+|+|++++++.|++.|..-+..+||++++++|||+||++++...+...+.+++|+|+++||||
T Consensus 84 a~~~~g~g~g~~Vgveltd~V~ilNs~~av~~f~~~G~itLGgn~svsAgPLgr~aea~a~asl~~~ap~f~yskskglf 163 (473)
T KOG1843|consen 84 AIAEAGEGAGGMVGVELTDFVIILNSALAVQSFARFGTITLGGNLSVSAGPLGRNAEAAASASLGGEAPVFLYSKSKGLF 163 (473)
T ss_pred hhhhccccchhhhHHHHHHHHHhhcchHhhhhhhhcCeeeecCcceeccCcccccchhhhhhhhcCcCccccccccccce
Confidence 99999999999999999999999999999999998889999999999999999998887777667889999999999999
Q ss_pred C
Q 015793 400 S 400 (400)
Q Consensus 400 ~ 400 (400)
+
T Consensus 164 a 164 (473)
T KOG1843|consen 164 A 164 (473)
T ss_pred e
Confidence 6
No 4
>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=99.75 E-value=1.8e-19 Score=140.64 Aligned_cols=67 Identities=48% Similarity=1.064 Sum_probs=47.3
Q ss_pred CccccCCCCCcCccCCcCCCccccccccccccCceEeCCCCCceeecC-ccCCCCcceEeccccccccc
Q 015793 142 PEWLPDSSTTVCMQCTAPFTALTRGRHHCRFCGGVFCRICTKGRCLLP-VRFRERNPQRVCDACYDRLD 209 (400)
Q Consensus 142 p~W~pd~~~~~C~~C~~~F~~l~rRrHHCR~CG~vfC~~CS~~~~~lP-~~~~~~~p~RVC~~C~~~l~ 209 (400)
|.|+||+++..|+.|+++|+ +++||||||.||++||+.|+.++..+| .......++|||+.|++.|+
T Consensus 1 ~~W~~d~~~~~C~~C~~~F~-~~~rrhhCr~CG~~vC~~Cs~~~~~~~~~~~~~~~~~RvC~~C~~~~~ 68 (69)
T PF01363_consen 1 PHWVPDSEASNCMICGKKFS-LFRRRHHCRNCGRVVCSSCSSQRIPLPTPSSGSGEPVRVCDSCYSKLQ 68 (69)
T ss_dssp --SSSGGG-SB-TTT--B-B-SSS-EEE-TTT--EEECCCS-EEEEET--GGTESEEEEE-HHHHHHHH
T ss_pred CCcCCCCCCCcCcCcCCcCC-CceeeEccCCCCCEECCchhCCEEcccccccCCCCcCEECHHHHHHhc
Confidence 78999999999999999998 668999999999999999999998887 23455789999999998774
No 5
>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=99.74 E-value=3.7e-18 Score=148.80 Aligned_cols=76 Identities=41% Similarity=0.651 Sum_probs=70.5
Q ss_pred EeeeeEeEEeceeeeeEEEEEeCHHHHHHHhhcCceEEccceeEEeeccccccccccccccCCcccEEEEEeeeeecC
Q 015793 323 SVGLGWGAQIGGELMDFIVVLHDSKAVKTFCSRLHFSLGAGCSAAAGPIGRVLEADLRAGERGSGMCYTYSCSKGIVS 400 (400)
Q Consensus 323 ~~g~s~G~q~G~e~~d~Viv~~t~~al~~f~~~~~~~lG~~~s~aaGp~G~~~~~~~~~~~~~~~~v~~ys~skGlf~ 400 (400)
++++|+|||+|+|.+|+||||||++||+.|.+ ++|+||+++++++||+|+++++++.... .+++||+|++|||||+
T Consensus 1 ~~g~~~Glq~G~~~~d~Vlvl~t~~al~~f~~-~~~~lG~~~s~a~gp~g~~~~~~~~~~~-~~~~v~~ys~s~Gl~~ 76 (126)
T PF04366_consen 1 ISGASVGLQAGAQSYDVVLVLMTDEALESFIK-GKFTLGGDASAAAGPVGRSAEADTDTSD-GSADVYSYSKSKGLFA 76 (126)
T ss_pred CCceeEEEEEeeEEeeEEEEEeCHHHHHHHhh-CCEEEeeeeEEEecCcCccccccccccc-ccCceEEEEecCeEEE
Confidence 46899999999999999999999999999998 9999999999999999999999887643 4579999999999996
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=99.57 E-value=2.7e-16 Score=154.04 Aligned_cols=71 Identities=45% Similarity=1.014 Sum_probs=63.2
Q ss_pred ccCCCCccccCCCCCcCccCCc-CCCccccccccccccCceEeCCCCCceeecCccCCCCcceEecccccccccc
Q 015793 137 LEAEPPEWLPDSSTTVCMQCTA-PFTALTRGRHHCRFCGGVFCRICTKGRCLLPVRFRERNPQRVCDACYDRLDP 210 (400)
Q Consensus 137 ~~~~~p~W~pd~~~~~C~~C~~-~F~~l~rRrHHCR~CG~vfC~~CS~~~~~lP~~~~~~~p~RVC~~C~~~l~~ 210 (400)
.....+.|+||++++.|+.|++ .|+ ++.||||||+||.|||..|+.++..+| +...+|.|||+.||+.|.+
T Consensus 155 ~~~~~~~W~PD~ea~~C~~C~~~~Ft-l~~RRHHCR~CG~ivC~~Cs~n~~~l~--~~~~k~~rvC~~CF~el~~ 226 (288)
T KOG1729|consen 155 SNNSAAVWLPDSEATECMVCGCTEFT-LSERRHHCRNCGDIVCAPCSRNRFLLP--NLSTKPIRVCDICFEELEK 226 (288)
T ss_pred CCCcCCcccCcccceecccCCCcccc-HHHHHHHHHhcchHhhhhhhcCccccc--ccCCCCceecHHHHHHHhc
Confidence 4455789999999999999999 999 678999999999999999999987776 4457899999999999976
No 8
>PTZ00303 phosphatidylinositol kinase; Provisional
Probab=99.52 E-value=2.9e-15 Score=158.53 Aligned_cols=72 Identities=31% Similarity=0.715 Sum_probs=56.8
Q ss_pred CCCCccccCCCC-CcCccCCcCCCcc----ccccccccccCceEeCCCCCceeecC-------ccCCCCcceEecccccc
Q 015793 139 AEPPEWLPDSST-TVCMQCTAPFTAL----TRGRHHCRFCGGVFCRICTKGRCLLP-------VRFRERNPQRVCDACYD 206 (400)
Q Consensus 139 ~~~p~W~pd~~~-~~C~~C~~~F~~l----~rRrHHCR~CG~vfC~~CS~~~~~lP-------~~~~~~~p~RVC~~C~~ 206 (400)
...|.|++|+++ +.|+.|+++|+++ ..||||||+||++||..||+++...| .......+.|||+.||+
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 467899999984 8899999999754 35899999999999999999886433 11222357799999997
Q ss_pred cccc
Q 015793 207 RLDP 210 (400)
Q Consensus 207 ~l~~ 210 (400)
.++.
T Consensus 528 q~En 531 (1374)
T PTZ00303 528 EYET 531 (1374)
T ss_pred HHHh
Confidence 7653
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=99.50 E-value=5e-15 Score=156.49 Aligned_cols=84 Identities=36% Similarity=0.834 Sum_probs=68.6
Q ss_pred ccCCCCcchhhhhc----ccCCCCccccCCCCCcCccCCcCCCccccccccccccCceEeCCCCCceeecCccCCCCcce
Q 015793 123 LEPDGVRYIAYKEV----LEAEPPEWLPDSSTTVCMQCTAPFTALTRGRHHCRFCGGVFCRICTKGRCLLPVRFRERNPQ 198 (400)
Q Consensus 123 ~~~~g~~~~~~~~~----~~~~~p~W~pd~~~~~C~~C~~~F~~l~rRrHHCR~CG~vfC~~CS~~~~~lP~~~~~~~p~ 198 (400)
+...|+.|+...+. ....+|.|+.. ..|+.|..+|+ ++.|+||||+||+|||..|+++.+.+| .++..+|+
T Consensus 137 lk~~g~~Fpe~~e~d~mf~~~~~pdW~D~---~~C~rCr~~F~-~~~rkHHCr~CG~vFC~qcss~s~~lP-~~Gi~~~V 211 (634)
T KOG1818|consen 137 LKGGGHVFPELDENDAMFDAETAPDWIDS---EECLRCRVKFG-LTNRKHHCRNCGQVFCGQCSSKSLTLP-KLGIEKPV 211 (634)
T ss_pred HhcCCccccccccchhhhcccCCcccccc---cccceeeeeee-eccccccccccchhhccCccccccCcc-cccccccc
Confidence 44456666654432 23568999874 68999999999 667999999999999999999999999 67888999
Q ss_pred Eeccccccccccc
Q 015793 199 RVCDACYDRLDPL 211 (400)
Q Consensus 199 RVC~~C~~~l~~~ 211 (400)
|||+.||+.+...
T Consensus 212 RVCd~C~E~l~~~ 224 (634)
T KOG1818|consen 212 RVCDSCYELLTRA 224 (634)
T ss_pred eehhhhHHHhhhc
Confidence 9999999988753
No 10
>KOG1819 consensus FYVE finger-containing proteins [General function prediction only]
Probab=99.46 E-value=1.7e-14 Score=147.34 Aligned_cols=70 Identities=41% Similarity=1.010 Sum_probs=62.1
Q ss_pred CCCCccccCCCCCcCccCCcCCCccccccccccccCceEeCCCCCceeecCccCCCCcceEecc-----cccccccc
Q 015793 139 AEPPEWLPDSSTTVCMQCTAPFTALTRGRHHCRFCGGVFCRICTKGRCLLPVRFRERNPQRVCD-----ACYDRLDP 210 (400)
Q Consensus 139 ~~~p~W~pd~~~~~C~~C~~~F~~l~rRrHHCR~CG~vfC~~CS~~~~~lP~~~~~~~p~RVC~-----~C~~~l~~ 210 (400)
..||.|+||.++..||.|+.+|+ .+|||||||+||.|||..||...+++| +++..+..|||. .||.+-+.
T Consensus 890 lsppawipd~~a~~cmacq~pf~-afrrrhhcrncggifcg~cs~asapip-~~gl~ka~rvcrpqsnldc~~rqdq 964 (990)
T KOG1819|consen 890 LSPPAWIPDEDAEQCMACQMPFN-AFRRRHHCRNCGGIFCGKCSCASAPIP-EHGLDKAPRVCRPQSNLDCLTRQDQ 964 (990)
T ss_pred cCCcccCCCCcchhhhhccCcHH-HHHHhhhhcccCceeecccccCCCCCc-ccccccCceecCCcccccceeeccc
Confidence 45889999999999999999999 568999999999999999999988898 566778999999 88876543
No 11
>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=3.5e-13 Score=101.04 Aligned_cols=55 Identities=53% Similarity=1.178 Sum_probs=48.3
Q ss_pred CCcCccCCcCCCccccccccccccCceEeCCCCCceeecCccCCCCcceEecccccc
Q 015793 150 TTVCMQCTAPFTALTRGRHHCRFCGGVFCRICTKGRCLLPVRFRERNPQRVCDACYD 206 (400)
Q Consensus 150 ~~~C~~C~~~F~~l~rRrHHCR~CG~vfC~~CS~~~~~lP~~~~~~~p~RVC~~C~~ 206 (400)
+..|+.|+++|+ ++.||||||.||++||.+|+.++..+|.. ...+|+|||+.||+
T Consensus 2 ~~~C~~C~~~F~-~~~rk~~Cr~Cg~~~C~~C~~~~~~~~~~-~~~~~~rvC~~C~~ 56 (57)
T cd00065 2 ASSCMGCGKPFT-LTRRRHHCRNCGRIFCSKCSSNRIPLPSM-GGGKPVRVCDSCYE 56 (57)
T ss_pred cCcCcccCcccc-CCccccccCcCcCCcChHHcCCeeecCcc-cCCCccEeChHHhC
Confidence 468999999999 56789999999999999999999888742 45789999999986
No 12
>KOG1842 consensus FYVE finger-containing protein [General function prediction only]
Probab=99.12 E-value=3.4e-12 Score=129.19 Aligned_cols=73 Identities=44% Similarity=0.828 Sum_probs=56.8
Q ss_pred cccCCCCccccCCCCCcCccCCcCCCccccccccccccCceEeCCCCCceee-------------cCccC--------CC
Q 015793 136 VLEAEPPEWLPDSSTTVCMQCTAPFTALTRGRHHCRFCGGVFCRICTKGRCL-------------LPVRF--------RE 194 (400)
Q Consensus 136 ~~~~~~p~W~pd~~~~~C~~C~~~F~~l~rRrHHCR~CG~vfC~~CS~~~~~-------------lP~~~--------~~ 194 (400)
.++.....|+.|+++..|..|..+|+ ++|||||||.||+|+|..|+..-.. .+..+ ..
T Consensus 166 ~~EqsvVpW~DDs~V~~CP~Ca~~F~-l~rRrHHCRLCG~VmC~~C~k~iSle~a~~ltsss~~dt~~e~~qq~~~lH~~ 244 (505)
T KOG1842|consen 166 RLEQSVVPWLDDSSVQFCPECANSFG-LTRRRHHCRLCGRVMCRDCSKFISLEIAIGLTSSSASDTHFEPNQQKDDLHQH 244 (505)
T ss_pred HHHhccccccCCCcccccccccchhh-hHHHhhhhhhcchHHHHHHHHhcChHHHHHHhhccCCCCCcCcccCcccccCC
Confidence 35566778999999999999999999 8899999999999999999865420 00000 11
Q ss_pred CcceEeccccccccc
Q 015793 195 RNPQRVCDACYDRLD 209 (400)
Q Consensus 195 ~~p~RVC~~C~~~l~ 209 (400)
..+.|+|..|...|.
T Consensus 245 ~~~iRlC~hCl~~L~ 259 (505)
T KOG1842|consen 245 PQPIRLCMHCLDNLF 259 (505)
T ss_pred hhHhHHHHHHHHHHH
Confidence 346899999987653
No 13
>KOG1841 consensus Smad anchor for receptor activation [Defense mechanisms]
Probab=99.06 E-value=5.3e-11 Score=130.91 Aligned_cols=65 Identities=37% Similarity=0.862 Sum_probs=54.3
Q ss_pred ccCCCCccccCCCCCcCccCCcCCCccccccccccccCceEeCCCCCceeecCccCCCCcceEecccc
Q 015793 137 LEAEPPEWLPDSSTTVCMQCTAPFTALTRGRHHCRFCGGVFCRICTKGRCLLPVRFRERNPQRVCDAC 204 (400)
Q Consensus 137 ~~~~~p~W~pd~~~~~C~~C~~~F~~l~rRrHHCR~CG~vfC~~CS~~~~~lP~~~~~~~p~RVC~~C 204 (400)
+++..|.|+||+.+..||.|.++|+ +.+||||||+||+|+|..|+..+..+- |-.....|||..|
T Consensus 544 lgkkqP~wvpdse~pncm~clqkft-~ikrrhhcRacgkVlcgvccnek~~le--yl~e~~~rv~nV~ 608 (1287)
T KOG1841|consen 544 LGKKQPSWVPDSEAPNCMDCLQKFT-PIKRRHHCRACGKVLCGVCCNEKSALE--YLSESEGRVSNVD 608 (1287)
T ss_pred cCCCCCccCccccCchHHHHHhhcc-cccccccchhccceeehhhcchhhhhh--hcCcccccccccc
Confidence 6778999999999999999999999 567899999999999999999987663 3334455666655
No 14
>KOG1409 consensus Uncharacterized conserved protein, contains WD40 repeats and FYVE domains [Function unknown]
Probab=98.98 E-value=8.6e-11 Score=116.29 Aligned_cols=119 Identities=29% Similarity=0.525 Sum_probs=85.8
Q ss_pred cCCCCCCcccCCCCcchhhh--hcccCCCCccccCCCCCcCccCCcCCCc----------cccccccccccCceEeCCCC
Q 015793 115 YIPSAPPLLEPDGVRYIAYK--EVLEAEPPEWLPDSSTTVCMQCTAPFTA----------LTRGRHHCRFCGGVFCRICT 182 (400)
Q Consensus 115 ~~~~~p~l~~~~g~~~~~~~--~~~~~~~p~W~pd~~~~~C~~C~~~F~~----------l~rRrHHCR~CG~vfC~~CS 182 (400)
+.+-+.+|.+.+.++.-+.. .....+.|+|+.+ ..|+.|.++|.. +..|.||||.||..+|..|+
T Consensus 248 ~~~~t~~l~S~~edg~i~~w~mn~~r~etpewl~s---~~cQ~c~qpffwn~~~m~~~k~~glr~h~crkcg~avc~~c~ 324 (404)
T KOG1409|consen 248 YAQHTRQLISCGEDGGIVVWNMNVKRVETPEWLDS---DSCQKCNQPFFWNFRQMWDRKQLGLRQHHCRKCGKAVCGKCS 324 (404)
T ss_pred hhhhheeeeeccCCCeEEEEeccceeecCcccccc---chhhhhCchHHHHHHHHHhhhhhhhhhhhhhhhhhhcCcccc
Confidence 45566677777665544332 2345678999986 689999999842 34579999999999999999
Q ss_pred CceeecCccCCCCcceEeccccccccccccchhhhhchhhhhhhcccc--ccccccccccc
Q 015793 183 KGRCLLPVRFRERNPQRVCDACYDRLDPLQGVLINTISNAVQVAKHDV--VDWTCTRGWLN 241 (400)
Q Consensus 183 ~~~~~lP~~~~~~~p~RVC~~C~~~l~~~q~~l~~~~s~a~~~~~~~~--~d~s~~r~wLn 241 (400)
+++...|. -+....+|+|+.||..+....+.+.+... ..+|.+ +++..+++||.
T Consensus 325 s~~~~~p~-mg~e~~vR~~~~c~~~i~~~~~t~LA~ph----ei~tgItamhlqetlglLv 380 (404)
T KOG1409|consen 325 SNRSSYPT-MGFEFSVRVCDSCYPTIKDEERTPLAIPH----EIKTGITAMHLQETLGLLV 380 (404)
T ss_pred cCcccccc-ccceeEEEEecccchhhhcCCCCcccccc----ccccceeEEEhhhhcccee
Confidence 99988773 23467899999999999887665444333 233433 45667788774
No 15
>KOG4424 consensus Predicted Rho/Rac guanine nucleotide exchange factor/faciogenital dysplasia protein 3 [Signal transduction mechanisms]
Probab=98.49 E-value=2.8e-08 Score=104.00 Aligned_cols=114 Identities=25% Similarity=0.415 Sum_probs=79.4
Q ss_pred CccccCCCCCcCccCCcCCCccccccccccccCceEeCCCCCceeecCccCCCCcceEeccccccccccccchh------
Q 015793 142 PEWLPDSSTTVCMQCTAPFTALTRGRHHCRFCGGVFCRICTKGRCLLPVRFRERNPQRVCDACYDRLDPLQGVL------ 215 (400)
Q Consensus 142 p~W~pd~~~~~C~~C~~~F~~l~rRrHHCR~CG~vfC~~CS~~~~~lP~~~~~~~p~RVC~~C~~~l~~~q~~l------ 215 (400)
|.| +++...|+.|+.+|+.++.|||||+.||.++|+.|+..+..+- +......|||..||....+.....
T Consensus 409 ~r~--~~k~~~c~~c~e~~~s~t~~R~~~k~~~~vlc~~cs~~~~~l~--~~~s~ssrv~~~~~~~~~~a~~s~~~rr~~ 484 (623)
T KOG4424|consen 409 PRR--DNKVTSCDSCEETFNSITFRRHRCKAKGAVLCDKCSDFMAKLS--YDNSRSSRVCMDRYLTPSGAPGSPPKRRQS 484 (623)
T ss_pred ccc--ccccccchhhcCchhhHHHhhhhhhhccceeeccccchhhhhc--ccccchhhhhhhhccCCCCCCCCchhcccc
Confidence 366 7788999999999999999999999999999999999987773 455788999999998876432111
Q ss_pred hhhchhhhhhh-----cc----cccccccccccccCCcccchhHHHHHHhHHH
Q 015793 216 INTISNAVQVA-----KH----DVVDWTCTRGWLNLPVGLSMEYEIYKASNTL 259 (400)
Q Consensus 216 ~~~~s~a~~~~-----~~----~~~d~s~~r~wLnlP~~~tle~EV~kAa~tL 259 (400)
+....++.... .| +....++...|.++|..-++-...+.+.+.+
T Consensus 485 ~l~~~~a~~s~~~~~~s~l~~~~~~~~~g~~a~~~vP~~d~~~~~~Yg~~qDv 537 (623)
T KOG4424|consen 485 ILEIELATVSKENVICSHLKYMEAAGKTGILAWSVVPKSDPLVDYSYGSPQDV 537 (623)
T ss_pred cccccccccCCCceehhhHHHHhhcCccceeeeeeccCCCCccccccCCcccc
Confidence 11111111110 01 0112345678889998887766666666554
No 16
>KOG1811 consensus Predicted Zn2+-binding protein, contains FYVE domain [General function prediction only]
Probab=97.87 E-value=1.6e-06 Score=91.62 Aligned_cols=69 Identities=29% Similarity=0.672 Sum_probs=52.7
Q ss_pred ccCCCCccccCC----CCCcCcc-CCcCCCccccccccccccCceEeCCCCCceeecCccCCCCcceEeccccccc
Q 015793 137 LEAEPPEWLPDS----STTVCMQ-CTAPFTALTRGRHHCRFCGGVFCRICTKGRCLLPVRFRERNPQRVCDACYDR 207 (400)
Q Consensus 137 ~~~~~p~W~pd~----~~~~C~~-C~~~F~~l~rRrHHCR~CG~vfC~~CS~~~~~lP~~~~~~~p~RVC~~C~~~ 207 (400)
+.+..++|+||. .-.-|+. |+..|. .+.||||||.||...|.+|...+...- .-+...|.++|+.|+..
T Consensus 309 f~~al~nfq~darrafs~a~~~a~~R~~~k-d~~Rk~~~~g~Ga~e~aa~ea~kgiqE-d~gse~~Adg~Dq~psv 382 (1141)
T KOG1811|consen 309 FPPALHNFQPDARRAFSEAICMACCREHFK-DFNRKHHCRGCGALECAACEAKKGIQE-DCGSENPADGCDQCPSV 382 (1141)
T ss_pred CCchhhhcChhhhhhhhhhHHHHHHHHHHH-HHHHhhhccccchHHHhHHHHhhhhhh-cccccCcccccccccch
Confidence 444567899987 4567885 566787 457899999999999999998775442 33456899999999954
No 17
>KOG0230 consensus Phosphatidylinositol-4-phosphate 5-kinase and related FYVE finger-containing proteins [Signal transduction mechanisms]
Probab=97.16 E-value=0.00024 Score=81.79 Aligned_cols=53 Identities=36% Similarity=0.882 Sum_probs=40.8
Q ss_pred CCCcCccCCcCCCccccccccccccCceEeCCCCCceeecCccCCCCcceEeccccccccccccch
Q 015793 149 STTVCMQCTAPFTALTRGRHHCRFCGGVFCRICTKGRCLLPVRFRERNPQRVCDACYDRLDPLQGV 214 (400)
Q Consensus 149 ~~~~C~~C~~~F~~l~rRrHHCR~CG~vfC~~CS~~~~~lP~~~~~~~p~RVC~~C~~~l~~~q~~ 214 (400)
..+.|..|...+ .||||||.||++||++|... . ....|||..|+.........
T Consensus 4 s~~~~~~~~t~~----~~~~~~~~~g~~~~~~~~~~------~---~~~i~~~~~~~~~~~~~~~~ 56 (1598)
T KOG0230|consen 4 SSNVCYDCDTSV----NRRHHCRVCGRVFCSKCQDS------P---ETSIRVCNECRGQWEQGNVA 56 (1598)
T ss_pred cccchhcccccc----ccCCCCcccCceeccccCCC------C---ccceeehhhhhhhccccCCC
Confidence 457899999543 47999999999999999832 2 23899999999887654433
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=96.77 E-value=0.00068 Score=58.51 Aligned_cols=50 Identities=24% Similarity=0.622 Sum_probs=41.2
Q ss_pred CCcCccCCcCCCccccccccccccCceEeCCCCCceeecCccCCCCcceEeccccccc
Q 015793 150 TTVCMQCTAPFTALTRGRHHCRFCGGVFCRICTKGRCLLPVRFRERNPQRVCDACYDR 207 (400)
Q Consensus 150 ~~~C~~C~~~F~~l~rRrHHCR~CG~vfC~~CS~~~~~lP~~~~~~~p~RVC~~C~~~ 207 (400)
...|..|+++|+++..+.+.|..|.+-||.+|... ....+.-+|..|+..
T Consensus 54 ~~~C~~C~~~fg~l~~~~~~C~~C~~~VC~~C~~~--------~~~~~~WlC~vC~k~ 103 (118)
T PF02318_consen 54 ERHCARCGKPFGFLFNRGRVCVDCKHRVCKKCGVY--------SKKEPIWLCKVCQKQ 103 (118)
T ss_dssp CSB-TTTS-BCSCTSTTCEEETTTTEEEETTSEEE--------TSSSCCEEEHHHHHH
T ss_pred CcchhhhCCcccccCCCCCcCCcCCccccCccCCc--------CCCCCCEEChhhHHH
Confidence 46999999999988888999999999999999854 224688999999875
No 19
>KOG0230 consensus Phosphatidylinositol-4-phosphate 5-kinase and related FYVE finger-containing proteins [Signal transduction mechanisms]
Probab=96.02 E-value=0.0024 Score=73.83 Aligned_cols=34 Identities=47% Similarity=1.228 Sum_probs=32.2
Q ss_pred ccCCCCCcCccCCcCCCccccccccccccCceEeCCC
Q 015793 145 LPDSSTTVCMQCTAPFTALTRGRHHCRFCGGVFCRIC 181 (400)
Q Consensus 145 ~pd~~~~~C~~C~~~F~~l~rRrHHCR~CG~vfC~~C 181 (400)
++|+....|..|.+.|.. +||+||| ||++||.+|
T Consensus 92 m~d~s~~ec~~~~~~~~t-~Rr~~~~--~gqi~~ss~ 125 (1598)
T KOG0230|consen 92 MPDSSSKECYDCEQKFET-FRRKHHC--CGQIFCSSC 125 (1598)
T ss_pred CCccccchhhhhccchhh-hhccccc--CccccCCcc
Confidence 889999999999999995 5899999 999999999
No 20
>KOG1729 consensus FYVE finger containing protein [General function prediction only]
Probab=92.68 E-value=0.026 Score=56.04 Aligned_cols=66 Identities=29% Similarity=0.545 Sum_probs=51.6
Q ss_pred CCccccCCCCCcCccCCcCCCccccccccccccCceEeCCCCC-ceeecCc----cCCCCcceEeccccccc
Q 015793 141 PPEWLPDSSTTVCMQCTAPFTALTRGRHHCRFCGGVFCRICTK-GRCLLPV----RFRERNPQRVCDACYDR 207 (400)
Q Consensus 141 ~p~W~pd~~~~~C~~C~~~F~~l~rRrHHCR~CG~vfC~~CS~-~~~~lP~----~~~~~~p~RVC~~C~~~ 207 (400)
.+.|+.+.++..|..|...|. |.+|+|||+.||+++|..|+. +....+. .+-.....+.|..|+..
T Consensus 11 ~~~~~~~~e~~s~~~~~~e~~-~~~r~~~~~~~grv~~~q~~~~k~~rk~~q~r~~~l~~D~~~~~~~~~~~ 81 (288)
T KOG1729|consen 11 MVDWQANSEANSCRNCKVEFC-FGRRGHPCRECGRVLCRQGTLVKRCRKKLQSRSFFLFNDILVYGNIVSDN 81 (288)
T ss_pred hHHHHHhccchhhhhhcccch-hhhccCcccccchhhhhhhhhHHHHhcccccccccccccchhhcccccCH
Confidence 567999999999999999999 678899999999999999986 2222211 12235677888888876
No 21
>KOG1841 consensus Smad anchor for receptor activation [Defense mechanisms]
Probab=90.81 E-value=0.13 Score=58.54 Aligned_cols=55 Identities=27% Similarity=0.450 Sum_probs=44.8
Q ss_pred CCCccccCCCCCcCccCCcCCCccccccccccccCceEeCCCCCceeecCccCCCCcceEeccccccccc
Q 015793 140 EPPEWLPDSSTTVCMQCTAPFTALTRGRHHCRFCGGVFCRICTKGRCLLPVRFRERNPQRVCDACYDRLD 209 (400)
Q Consensus 140 ~~p~W~pd~~~~~C~~C~~~F~~l~rRrHHCR~CG~vfC~~CS~~~~~lP~~~~~~~p~RVC~~C~~~l~ 209 (400)
..+.|++|..+..|+.|.+.|. ++.+||||| |+++ . .+...+..|+|..|.+.+.
T Consensus 647 ~ksVw~aDg~aPng~la~t~~~-~~~e~~hsr--~~ls---------~---~~~s~~~~~~~n~t~s~~r 701 (1287)
T KOG1841|consen 647 VKSVWFADGIAPNGELAETRFT-FTGERHHSR--GKLS---------L---LYSSRKEARPCNITHSVLR 701 (1287)
T ss_pred ecceeccCCcCCCceeccccee-eeccccccc--cccc---------c---cccccccCCCCcccCccch
Confidence 3678999999999999999999 667899999 8876 1 2334577899999988764
No 22
>COG3874 Uncharacterized conserved protein [Function unknown]
Probab=84.70 E-value=1 Score=39.58 Aligned_cols=49 Identities=22% Similarity=0.249 Sum_probs=33.9
Q ss_pred hHHHHHHhHHHHHhhhcccCCCCCccchhhhcCCcceEEEEEeeceeeEEEecceE
Q 015793 249 EYEIYKASNTLRSYCQVAESNPERSIPLAVLNGAKGLAILTVAKAGVLVSYKLGTG 304 (400)
Q Consensus 249 e~EV~kAa~tL~~~~~~~~~~p~~~iP~~~l~~A~Glai~~v~k~Gf~~gg~~G~G 304 (400)
+.-+..+..-|+.|..... |--+-++ +.|-.|+||.|++|.|++.+|.|
T Consensus 7 ee~mkt~~e~Lk~m~dv~T------iVGdPIe-~dgs~iiPvsKv~fGFgaGGgEg 55 (138)
T COG3874 7 EELMKTTMENLKKMLDVNT------IVGDPIE-PDGSTIIPVSKVGFGFGAGGGEG 55 (138)
T ss_pred hHHHHHHHHHHHHHhhhcc------cccCccc-CCCcEEEEEEEEeeeeccCCccc
Confidence 4455666667777764322 2222234 77889999999999999888888
No 23
>KOG0320 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=84.42 E-value=0.12 Score=47.77 Aligned_cols=50 Identities=24% Similarity=0.528 Sum_probs=36.3
Q ss_pred CCcCccCCcCCCccccccccccccCceEeCCCCCceeecCccCCCCcceEeccccccccccc
Q 015793 150 TTVCMQCTAPFTALTRGRHHCRFCGGVFCRICTKGRCLLPVRFRERNPQRVCDACYDRLDPL 211 (400)
Q Consensus 150 ~~~C~~C~~~F~~l~rRrHHCR~CG~vfC~~CS~~~~~lP~~~~~~~p~RVC~~C~~~l~~~ 211 (400)
.-.|.+|-.+|. .+-----.||+|||..|.+.. .+..++|-.|..+++..
T Consensus 131 ~~~CPiCl~~~s---ek~~vsTkCGHvFC~~Cik~a---------lk~~~~CP~C~kkIt~k 180 (187)
T KOG0320|consen 131 TYKCPICLDSVS---EKVPVSTKCGHVFCSQCIKDA---------LKNTNKCPTCRKKITHK 180 (187)
T ss_pred ccCCCceecchh---hccccccccchhHHHHHHHHH---------HHhCCCCCCcccccchh
Confidence 357888887776 222345789999999997543 25678999999887653
No 24
>TIGR00622 ssl1 transcription factor ssl1. This family is based on the phylogenomic analysis of JA Eisen (1999, Ph.D. Thesis, Stanford University).
Probab=83.57 E-value=0.91 Score=39.13 Aligned_cols=39 Identities=28% Similarity=0.686 Sum_probs=29.0
Q ss_pred cccCCCCCcCccCCcCCCcc---------ccccccccccCceEeCCCC
Q 015793 144 WLPDSSTTVCMQCTAPFTAL---------TRGRHHCRFCGGVFCRICT 182 (400)
Q Consensus 144 W~pd~~~~~C~~C~~~F~~l---------~rRrHHCR~CG~vfC~~CS 182 (400)
|........|..|+++|... ...|..|..|..+||-.|=
T Consensus 49 ~~~~~~~~~C~~C~~~f~~~~~~~~~~~~~~~~y~C~~C~~~FC~dCD 96 (112)
T TIGR00622 49 LEEYNGSRFCFGCQGPFPKPPVSPFDELKDSHRYVCAVCKNVFCVDCD 96 (112)
T ss_pred ccccCCCCcccCcCCCCCCcccccccccccccceeCCCCCCccccccc
Confidence 44343446799999999731 2346789999999999994
No 25
>PRK00464 nrdR transcriptional regulator NrdR; Validated
Probab=82.05 E-value=0.74 Score=41.83 Aligned_cols=26 Identities=38% Similarity=0.718 Sum_probs=18.6
Q ss_pred cCccCCcCCC-----------ccccccccccccCceE
Q 015793 152 VCMQCTAPFT-----------ALTRGRHHCRFCGGVF 177 (400)
Q Consensus 152 ~C~~C~~~F~-----------~l~rRrHHCR~CG~vf 177 (400)
.|+.|+.+++ ...+|+++|++||.-|
T Consensus 2 ~cp~c~~~~~~~~~s~~~~~~~~~~~~~~c~~c~~~f 38 (154)
T PRK00464 2 RCPFCGHPDTRVIDSRPAEDGNAIRRRRECLACGKRF 38 (154)
T ss_pred cCCCCCCCCCEeEeccccCCCCceeeeeeccccCCcc
Confidence 5888888772 1245679999998866
No 26
>KOG0993 consensus Rab5 GTPase effector Rabaptin-5 [Intracellular trafficking, secretion, and vesicular transport]
Probab=79.71 E-value=0.032 Score=57.34 Aligned_cols=67 Identities=28% Similarity=0.625 Sum_probs=52.6
Q ss_pred CccccCCCCCcCccCCcCCCccccccccccc--cCceEeCCCCCceeecCccCCCCcceEecccccccccccc
Q 015793 142 PEWLPDSSTTVCMQCTAPFTALTRGRHHCRF--CGGVFCRICTKGRCLLPVRFRERNPQRVCDACYDRLDPLQ 212 (400)
Q Consensus 142 p~W~pd~~~~~C~~C~~~F~~l~rRrHHCR~--CG~vfC~~CS~~~~~lP~~~~~~~p~RVC~~C~~~l~~~q 212 (400)
-.|.-+.+...|..|-.+|..+ +-.-||-+ |+++||-.|++-. +|. .....|..||.-|.+.+..-+
T Consensus 460 le~ql~~~ve~c~~~~aS~~sl-k~e~erl~qq~eqi~~~~~~Kat--vp~-l~~e~~akv~rlq~eL~~seq 528 (542)
T KOG0993|consen 460 LEWQLDDDVEQCSNCDASFASL-KVEPERLHQQCEQIFCMNCLKAT--VPS-LPNERPAKVCRLQHELLNSEQ 528 (542)
T ss_pred HHHHHHHHHHHHHHHHHHHHHH-hccHHHHHHHHHHHHHHhHHHhh--ccc-ccccchHHHHHHHHHHhhhcc
Confidence 3688888899999999999976 45788877 9999999998654 552 234578999999998776443
No 27
>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=79.68 E-value=4 Score=37.17 Aligned_cols=67 Identities=15% Similarity=0.263 Sum_probs=49.3
Q ss_pred ceEEEEEeeceeeEEEecceEEEEEEcCCCCcccceeEEEeeeeEeEEeceeeeeEEEEEeCHHHHHHHhhc
Q 015793 284 GLAILTVAKAGVLVSYKLGTGLVVARRSDGSWSAPSAILSVGLGWGAQIGGELMDFIVVLHDSKAVKTFCSR 355 (400)
Q Consensus 284 Glai~~v~k~Gf~~gg~~G~G~viar~~~g~WS~P~~i~~~g~s~G~q~G~e~~d~Viv~~t~~al~~f~~~ 355 (400)
|+..-.=.-+.|++|.++|+|.+..|...- .-+-+.|-|+||.+|++...+.+++-+-..++++-.|
T Consensus 39 gYI~G~E~sGA~~~GlrYGeG~L~~k~~g~-----~~vyWqGPSiG~D~G~~~~r~~~LVYnL~~~~~iy~R 105 (160)
T PF06577_consen 39 GYILGEEASGAFVVGLRYGEGTLYTKNAGQ-----HKVYWQGPSIGFDFGGNGSRVFMLVYNLPDPDDIYQR 105 (160)
T ss_pred eEEEeeeccccEEEEEEecccEEEEcCCCe-----eEEEEeCCceeEeecCCceEEEEEEEcCCCHHHHhhh
Confidence 333334455667889999999999886532 2344667789999999999988888777777776653
No 28
>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=79.66 E-value=1 Score=38.61 Aligned_cols=27 Identities=33% Similarity=0.712 Sum_probs=22.6
Q ss_pred CcCccCCcCCCccccccccccccCceE
Q 015793 151 TVCMQCTAPFTALTRGRHHCRFCGGVF 177 (400)
Q Consensus 151 ~~C~~C~~~F~~l~rRrHHCR~CG~vf 177 (400)
..|..|+++|-=|.|+--+|..||..|
T Consensus 10 R~Cp~CG~kFYDLnk~PivCP~CG~~~ 36 (108)
T PF09538_consen 10 RTCPSCGAKFYDLNKDPIVCPKCGTEF 36 (108)
T ss_pred ccCCCCcchhccCCCCCccCCCCCCcc
Confidence 689999999977877777788888875
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=76.50 E-value=1.5 Score=38.60 Aligned_cols=27 Identities=22% Similarity=0.445 Sum_probs=23.5
Q ss_pred CcCccCCcCCCccccccccccccCceE
Q 015793 151 TVCMQCTAPFTALTRGRHHCRFCGGVF 177 (400)
Q Consensus 151 ~~C~~C~~~F~~l~rRrHHCR~CG~vf 177 (400)
..|+.|+++|-=|.|+-.+|..||..+
T Consensus 10 r~Cp~cg~kFYDLnk~p~vcP~cg~~~ 36 (129)
T TIGR02300 10 RICPNTGSKFYDLNRRPAVSPYTGEQF 36 (129)
T ss_pred ccCCCcCccccccCCCCccCCCcCCcc
Confidence 689999999987888888899988875
No 30
>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=75.02 E-value=0.59 Score=34.77 Aligned_cols=31 Identities=32% Similarity=0.810 Sum_probs=18.7
Q ss_pred cCccCCcCCCccc-----cccccccccCceEeCCCC
Q 015793 152 VCMQCTAPFTALT-----RGRHHCRFCGGVFCRICT 182 (400)
Q Consensus 152 ~C~~C~~~F~~l~-----rRrHHCR~CG~vfC~~CS 182 (400)
.|..|.++|.... ..+..|..|+.+||-.|=
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 4889999998431 247999999999999983
No 31
>PF13717 zinc_ribbon_4: zinc-ribbon domain
Probab=70.85 E-value=2.3 Score=29.12 Aligned_cols=26 Identities=31% Similarity=0.741 Sum_probs=16.1
Q ss_pred cCccCCcCCCcc------ccccccccccCceE
Q 015793 152 VCMQCTAPFTAL------TRGRHHCRFCGGVF 177 (400)
Q Consensus 152 ~C~~C~~~F~~l------~rRrHHCR~CG~vf 177 (400)
.|..|++.|..= ..++-.|.+||++|
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 577888877520 22456677777664
No 32
>KOG1314 consensus DHHC-type Zn-finger protein [General function prediction only]
Probab=70.84 E-value=1.4 Score=45.01 Aligned_cols=36 Identities=28% Similarity=0.801 Sum_probs=26.2
Q ss_pred cCCCCccccCCCCC-----cCccCCcCCCccccccccccccCce
Q 015793 138 EAEPPEWLPDSSTT-----VCMQCTAPFTALTRGRHHCRFCGGV 176 (400)
Q Consensus 138 ~~~~p~W~pd~~~~-----~C~~C~~~F~~l~rRrHHCR~CG~v 176 (400)
+..|+.|.|....+ -|..|+. |. .-|-||||.|-+.
T Consensus 74 G~vp~~wkPe~~~D~~~lqfCk~Cqg-YK--apRSHHCrkCnrC 114 (414)
T KOG1314|consen 74 GFVPLGWKPENPKDEMFLQFCKKCQG-YK--APRSHHCRKCNRC 114 (414)
T ss_pred CCCCCCCCCCCChhHHHHHHHhhccC-cC--CCccccchHHHHH
Confidence 34578899965554 6888876 44 3589999998774
No 33
>PF13719 zinc_ribbon_5: zinc-ribbon domain
Probab=67.74 E-value=3 Score=28.64 Aligned_cols=26 Identities=31% Similarity=0.746 Sum_probs=16.9
Q ss_pred cCccCCcCCCcc------ccccccccccCceE
Q 015793 152 VCMQCTAPFTAL------TRGRHHCRFCGGVF 177 (400)
Q Consensus 152 ~C~~C~~~F~~l------~rRrHHCR~CG~vf 177 (400)
.|..|+..|..= ..++..|-.|+.+|
T Consensus 4 ~CP~C~~~f~v~~~~l~~~~~~vrC~~C~~~f 35 (37)
T PF13719_consen 4 TCPNCQTRFRVPDDKLPAGGRKVRCPKCGHVF 35 (37)
T ss_pred ECCCCCceEEcCHHHcccCCcEEECCCCCcEe
Confidence 588888888621 23466777777665
No 34
>KOG4275 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=67.03 E-value=0.66 Score=46.11 Aligned_cols=49 Identities=24% Similarity=0.676 Sum_probs=39.8
Q ss_pred CCCCcCccCCcCCCccccccccccccCceEeCCCCCceeecCccCCCCcceEeccccccc
Q 015793 148 SSTTVCMQCTAPFTALTRGRHHCRFCGGVFCRICTKGRCLLPVRFRERNPQRVCDACYDR 207 (400)
Q Consensus 148 ~~~~~C~~C~~~F~~l~rRrHHCR~CG~vfC~~CS~~~~~lP~~~~~~~p~RVC~~C~~~ 207 (400)
..+..|..|+..|. -++|||-|-.|-+-||..||. + ....|.|..|...
T Consensus 42 ~~~p~ckacg~~f~-~~~~k~~c~dckk~fc~tcs~----v------~~~lr~c~~c~r~ 90 (350)
T KOG4275|consen 42 SQAPHCKACGEEFE-DAQSKSDCEDCKKEFCATCSR----V------SISLRTCTSCRRV 90 (350)
T ss_pred cccchhhhhchhHh-hhhhhhhhhhhhHHHHHHHHH----h------cccchhhhHHHHH
Confidence 34458999999999 578999999999999999982 2 2357889999753
No 35
>KOG0317 consensus Predicted E3 ubiquitin ligase, integral peroxisomal membrane protein [Posttranslational modification, protein turnover, chaperones]
Probab=66.18 E-value=1.4 Score=43.71 Aligned_cols=49 Identities=27% Similarity=0.719 Sum_probs=33.6
Q ss_pred CCcCccCCcCCCccccccccccccCceEeCCCCCceeecCccCCCCcceEecccccccccccc
Q 015793 150 TTVCMQCTAPFTALTRGRHHCRFCGGVFCRICTKGRCLLPVRFRERNPQRVCDACYDRLDPLQ 212 (400)
Q Consensus 150 ~~~C~~C~~~F~~l~rRrHHCR~CG~vfC~~CS~~~~~lP~~~~~~~p~RVC~~C~~~l~~~q 212 (400)
...|..|-. .++---|-.||++||++|--.++.- ++. |--|.+..++.+
T Consensus 239 ~~kC~LCLe-----~~~~pSaTpCGHiFCWsCI~~w~~e-------k~e--CPlCR~~~~psk 287 (293)
T KOG0317|consen 239 TRKCSLCLE-----NRSNPSATPCGHIFCWSCILEWCSE-------KAE--CPLCREKFQPSK 287 (293)
T ss_pred CCceEEEec-----CCCCCCcCcCcchHHHHHHHHHHcc-------ccC--CCcccccCCCcc
Confidence 367888844 3345679999999999996544211 122 888988887643
No 36
>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=65.09 E-value=6.3 Score=39.68 Aligned_cols=62 Identities=27% Similarity=0.631 Sum_probs=37.0
Q ss_pred CCcCccCCcCC--Ccc-------ccccccccccC------ceEeCCCCCceee--cCccCC-CCcceE--eccccccccc
Q 015793 150 TTVCMQCTAPF--TAL-------TRGRHHCRFCG------GVFCRICTKGRCL--LPVRFR-ERNPQR--VCDACYDRLD 209 (400)
Q Consensus 150 ~~~C~~C~~~F--~~l-------~rRrHHCR~CG------~vfC~~CS~~~~~--lP~~~~-~~~p~R--VC~~C~~~l~ 209 (400)
...|..|+..= +.+ ..|..||-.|+ ++-|..|-+.+-+ ...... ....+| +|+.|..-++
T Consensus 184 ~~~CPvCGs~P~~s~~~~~~~~~G~RyL~CslC~teW~~~R~~C~~Cg~~~~l~y~~~e~~~~~~~~r~e~C~~C~~YlK 263 (305)
T TIGR01562 184 RTLCPACGSPPVASMVRQGGKETGLRYLSCSLCATEWHYVRVKCSHCEESKHLAYLSLEHDAEKAVLKAETCDSCQGYLK 263 (305)
T ss_pred CCcCCCCCChhhhhhhcccCCCCCceEEEcCCCCCcccccCccCCCCCCCCceeeEeecCCCCCcceEEeeccccccchh
Confidence 45899998842 111 24678888887 4578888654411 111110 123455 9999998776
Q ss_pred cc
Q 015793 210 PL 211 (400)
Q Consensus 210 ~~ 211 (400)
.+
T Consensus 264 ~~ 265 (305)
T TIGR01562 264 IL 265 (305)
T ss_pred hh
Confidence 54
No 37
>KOG3576 consensus Ovo and related transcription factors [Transcription]
Probab=63.45 E-value=1.5 Score=41.76 Aligned_cols=35 Identities=34% Similarity=0.700 Sum_probs=25.5
Q ss_pred cCCCCCcCccCCcCCCc---c--------ccccccccccCceEeCC
Q 015793 146 PDSSTTVCMQCTAPFTA---L--------TRGRHHCRFCGGVFCRI 180 (400)
Q Consensus 146 pd~~~~~C~~C~~~F~~---l--------~rRrHHCR~CG~vfC~~ 180 (400)
+|.+.-.|..|++.|+. | -.|||-|+.||+-|=..
T Consensus 113 sd~d~ftCrvCgK~F~lQRmlnrh~kch~~vkr~lct~cgkgfndt 158 (267)
T KOG3576|consen 113 SDQDSFTCRVCGKKFGLQRMLNRHLKCHSDVKRHLCTFCGKGFNDT 158 (267)
T ss_pred CCCCeeeeehhhhhhhHHHHHHHHhhhccHHHHHHHhhccCcccch
Confidence 45667889999999973 1 12488999999877443
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=63.22 E-value=4.6 Score=28.17 Aligned_cols=26 Identities=38% Similarity=0.933 Sum_probs=19.6
Q ss_pred CccCCcCCCccccccccccccCceEeCCC
Q 015793 153 CMQCTAPFTALTRGRHHCRFCGGVFCRIC 181 (400)
Q Consensus 153 C~~C~~~F~~l~rRrHHCR~CG~vfC~~C 181 (400)
|..|++.-. |+ ...|+.|+++||...
T Consensus 1 C~~C~~~~~-l~--~f~C~~C~~~FC~~H 26 (39)
T smart00154 1 CHFCRKKVG-LT--GFKCRHCGNLFCGEH 26 (39)
T ss_pred CcccCCccc-cc--CeECCccCCcccccc
Confidence 667887655 32 578999999998865
No 39
>PRK00420 hypothetical protein; Validated
Probab=63.05 E-value=5.1 Score=34.60 Aligned_cols=26 Identities=31% Similarity=0.659 Sum_probs=17.3
Q ss_pred CCcCccCCcCCCccccccccccccCceEeCCCCC
Q 015793 150 TTVCMQCTAPFTALTRGRHHCRFCGGVFCRICTK 183 (400)
Q Consensus 150 ~~~C~~C~~~F~~l~rRrHHCR~CG~vfC~~CS~ 183 (400)
...|..|+.+|.-+.. |++||..|..
T Consensus 23 ~~~CP~Cg~pLf~lk~--------g~~~Cp~Cg~ 48 (112)
T PRK00420 23 SKHCPVCGLPLFELKD--------GEVVCPVHGK 48 (112)
T ss_pred cCCCCCCCCcceecCC--------CceECCCCCC
Confidence 3689999988763333 5666666654
No 40
>PRK00432 30S ribosomal protein S27ae; Validated
Probab=62.90 E-value=6.1 Score=29.16 Aligned_cols=27 Identities=33% Similarity=0.637 Sum_probs=18.9
Q ss_pred CcCccCCcCCCccccccccccccCceE
Q 015793 151 TVCMQCTAPFTALTRGRHHCRFCGGVF 177 (400)
Q Consensus 151 ~~C~~C~~~F~~l~rRrHHCR~CG~vf 177 (400)
..|..|+..|-.....|.+|..||..+
T Consensus 21 ~fCP~Cg~~~m~~~~~r~~C~~Cgyt~ 47 (50)
T PRK00432 21 KFCPRCGSGFMAEHLDRWHCGKCGYTE 47 (50)
T ss_pred CcCcCCCcchheccCCcEECCCcCCEE
Confidence 578889886543344578888888764
No 41
>KOG3799 consensus Rab3 effector RIM1 and related proteins, contain Rab3a binding domain [Intracellular trafficking, secretion, and vesicular transport]
Probab=62.06 E-value=3.2 Score=36.94 Aligned_cols=52 Identities=27% Similarity=0.645 Sum_probs=38.0
Q ss_pred CCCcCccCCc-CCCccccccccccccCceEeCCCCCceeecCccCCCCcceEeccccccc
Q 015793 149 STTVCMQCTA-PFTALTRGRHHCRFCGGVFCRICTKGRCLLPVRFRERNPQRVCDACYDR 207 (400)
Q Consensus 149 ~~~~C~~C~~-~F~~l~rRrHHCR~CG~vfC~~CS~~~~~lP~~~~~~~p~RVC~~C~~~ 207 (400)
+...|.+|.+ +|. =.. -|+|..|---||..|--.. .+ +.++-.-||.-|-..
T Consensus 64 ddatC~IC~KTKFA-DG~-GH~C~YCq~r~CARCGGrv-~l----rsNKv~wvcnlc~k~ 116 (169)
T KOG3799|consen 64 DDATCGICHKTKFA-DGC-GHNCSYCQTRFCARCGGRV-SL----RSNKVMWVCNLCRKQ 116 (169)
T ss_pred cCcchhhhhhcccc-ccc-CcccchhhhhHHHhcCCee-ee----ccCceEEeccCCcHH
Confidence 3468999998 464 222 6999999999999997543 33 345677899998754
No 42
>PF12773 DZR: Double zinc ribbon
Probab=60.12 E-value=6.2 Score=28.30 Aligned_cols=27 Identities=22% Similarity=0.733 Sum_probs=16.2
Q ss_pred CCCcCccCCcCCCccccccccccccCc
Q 015793 149 STTVCMQCTAPFTALTRGRHHCRFCGG 175 (400)
Q Consensus 149 ~~~~C~~C~~~F~~l~rRrHHCR~CG~ 175 (400)
++..|..|+.++..-......|..||.
T Consensus 11 ~~~fC~~CG~~l~~~~~~~~~C~~Cg~ 37 (50)
T PF12773_consen 11 DAKFCPHCGTPLPPPDQSKKICPNCGA 37 (50)
T ss_pred cccCChhhcCChhhccCCCCCCcCCcC
Confidence 466788888776522233456666665
No 43
>PF15616 TerY-C: TerY-C metal binding domain
Probab=59.81 E-value=4.3 Score=36.01 Aligned_cols=15 Identities=60% Similarity=1.161 Sum_probs=13.8
Q ss_pred EEEEeccccccCCCC
Q 015793 4 IVILFGGCQKAKKPY 18 (400)
Q Consensus 4 ~~~~~~~~~~~~~~~ 18 (400)
.|||.|=|||.||||
T Consensus 7 ~vvl~gkCsktk~pY 21 (131)
T PF15616_consen 7 CVVLVGKCSKTKKPY 21 (131)
T ss_pred EEEEEEeccCCCCce
Confidence 488999999999999
No 44
>COG5400 Uncharacterized protein conserved in bacteria [Function unknown]
Probab=59.68 E-value=13 Score=34.33 Aligned_cols=57 Identities=14% Similarity=0.328 Sum_probs=45.2
Q ss_pred eeceeeEEEecceEEEEEEcCC---CCcccceeEEEeeeeEeEEeceeeeeEEEEEeCHHHHHHHhhc
Q 015793 291 AKAGVLVSYKLGTGLVVARRSD---GSWSAPSAILSVGLGWGAQIGGELMDFIVVLHDSKAVKTFCSR 355 (400)
Q Consensus 291 ~k~Gf~~gg~~G~G~viar~~~---g~WS~P~~i~~~g~s~G~q~G~e~~d~Viv~~t~~al~~f~~~ 355 (400)
-.+.||-|..+|+|.+..|+.. --|-. -++|+..|+|-+.+.++.-+-..++++.+|
T Consensus 91 GSGAfIaGltYGeG~LytKn~g~h~vFWQG--------PslGwD~GGqgsRvmmLvYnL~~v~aly~R 150 (205)
T COG5400 91 GSGAFIAGLTYGEGTLYTKNAGDHKVFWQG--------PSLGWDWGGQGSRVMMLVYNLDDVDALYRR 150 (205)
T ss_pred cccceEeeeeeccceEEecCCCCcceEeeC--------CccccccCCCceEEEEEEecCCCHHHHHhh
Confidence 3456677999999999988542 35555 458999999999999999898899987654
No 45
>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=59.47 E-value=8 Score=29.63 Aligned_cols=29 Identities=17% Similarity=0.391 Sum_probs=22.0
Q ss_pred CCCcCccCCcCCCc-cccccccccccCceE
Q 015793 149 STTVCMQCTAPFTA-LTRGRHHCRFCGGVF 177 (400)
Q Consensus 149 ~~~~C~~C~~~F~~-l~rRrHHCR~CG~vf 177 (400)
.+..|..|+..-.. ...|.++|..||..+
T Consensus 27 TSq~C~~CG~~~~~~~~~r~~~C~~Cg~~~ 56 (69)
T PF07282_consen 27 TSQTCPRCGHRNKKRRSGRVFTCPNCGFEM 56 (69)
T ss_pred CccCccCcccccccccccceEEcCCCCCEE
Confidence 35789999986653 466789999998863
No 46
>PF14634 zf-RING_5: zinc-RING finger domain
Probab=59.07 E-value=1.8 Score=30.55 Aligned_cols=32 Identities=28% Similarity=0.692 Sum_probs=23.5
Q ss_pred cCccCCcCCCccccccccccccCceEeCCCCCce
Q 015793 152 VCMQCTAPFTALTRGRHHCRFCGGVFCRICTKGR 185 (400)
Q Consensus 152 ~C~~C~~~F~~l~rRrHHCR~CG~vfC~~CS~~~ 185 (400)
+|..|...|+ ..++-.=-.||++||..|....
T Consensus 1 ~C~~C~~~~~--~~~~~~l~~CgH~~C~~C~~~~ 32 (44)
T PF14634_consen 1 HCNICFEKYS--EERRPRLTSCGHIFCEKCLKKL 32 (44)
T ss_pred CCcCcCcccc--CCCCeEEcccCCHHHHHHHHhh
Confidence 4888888884 1334555689999999998654
No 47
>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=57.29 E-value=8.7 Score=34.28 Aligned_cols=27 Identities=26% Similarity=0.651 Sum_probs=19.4
Q ss_pred CCCCCcCccCCcCCCccccccccccccCce
Q 015793 147 DSSTTVCMQCTAPFTALTRGRHHCRFCGGV 176 (400)
Q Consensus 147 d~~~~~C~~C~~~F~~l~rRrHHCR~CG~v 176 (400)
......|..|...=. .|-|||+.|++.
T Consensus 45 ~~~~~~C~~C~~~kp---~Rs~HC~~C~~C 71 (174)
T PF01529_consen 45 NGELKYCSTCKIIKP---PRSHHCRVCNRC 71 (174)
T ss_pred CCCCEECcccCCcCC---Ccceeccccccc
Confidence 344567999987533 378999998765
No 48
>KOG2164 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=57.28 E-value=2.9 Score=44.52 Aligned_cols=52 Identities=19% Similarity=0.431 Sum_probs=37.6
Q ss_pred CCcCccCCcCCCccccccccccccCceEeCCCCCceeecCccCCCCcceEecccccccccc
Q 015793 150 TTVCMQCTAPFTALTRGRHHCRFCGGVFCRICTKGRCLLPVRFRERNPQRVCDACYDRLDP 210 (400)
Q Consensus 150 ~~~C~~C~~~F~~l~rRrHHCR~CG~vfC~~CS~~~~~lP~~~~~~~p~RVC~~C~~~l~~ 210 (400)
-..|.+|-.++. +-.| - +||+|||..|.=+....+ .....+-|--|+..+..
T Consensus 186 ~~~CPICL~~~~-~p~~-t---~CGHiFC~~CiLqy~~~s----~~~~~~~CPiC~s~I~~ 237 (513)
T KOG2164|consen 186 DMQCPICLEPPS-VPVR-T---NCGHIFCGPCILQYWNYS----AIKGPCSCPICRSTITL 237 (513)
T ss_pred CCcCCcccCCCC-cccc-c---ccCceeeHHHHHHHHhhh----cccCCccCCchhhhccc
Confidence 368999999887 3322 2 399999999975544333 23567889999998765
No 49
>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=55.79 E-value=9.9 Score=28.01 Aligned_cols=34 Identities=24% Similarity=0.476 Sum_probs=19.6
Q ss_pred CcCcc--CCcCCCccccc---cccccccCceEeCCCCCc
Q 015793 151 TVCMQ--CTAPFTALTRG---RHHCRFCGGVFCRICTKG 184 (400)
Q Consensus 151 ~~C~~--C~~~F~~l~rR---rHHCR~CG~vfC~~CS~~ 184 (400)
..|.. |...|..-... .-.|..|+..||..|...
T Consensus 19 ~~Cp~~~C~~~~~~~~~~~~~~~~C~~C~~~fC~~C~~~ 57 (64)
T PF01485_consen 19 RWCPNPDCEYIIEKDDGCNSPIVTCPSCGTEFCFKCGEP 57 (64)
T ss_dssp C--TTSST---ECS-SSTTS--CCTTSCCSEECSSSTSE
T ss_pred cCCCCCCCcccEEecCCCCCCeeECCCCCCcCccccCcc
Confidence 46865 88877532111 267999999999999753
No 50
>PHA02768 hypothetical protein; Provisional
Probab=49.33 E-value=7.6 Score=29.36 Aligned_cols=26 Identities=12% Similarity=0.198 Sum_probs=17.2
Q ss_pred cCccCCcCCCcc-----cc----ccccccccCceE
Q 015793 152 VCMQCTAPFTAL-----TR----GRHHCRFCGGVF 177 (400)
Q Consensus 152 ~C~~C~~~F~~l-----~r----RrHHCR~CG~vf 177 (400)
.|..|++.|+.. -. +.+.|-.||++|
T Consensus 7 ~C~~CGK~Fs~~~~L~~H~r~H~k~~kc~~C~k~f 41 (55)
T PHA02768 7 ECPICGEIYIKRKSMITHLRKHNTNLKLSNCKRIS 41 (55)
T ss_pred CcchhCCeeccHHHHHHHHHhcCCcccCCccccee
Confidence 699999999631 01 244577777765
No 51
>PRK03564 formate dehydrogenase accessory protein FdhE; Provisional
Probab=49.04 E-value=16 Score=36.88 Aligned_cols=62 Identities=21% Similarity=0.416 Sum_probs=36.6
Q ss_pred CCcCccCCcC--CCcc------ccccccccccC------ceEeCCCCCceeec--CccCC-CCcceEeccccccccccc
Q 015793 150 TTVCMQCTAP--FTAL------TRGRHHCRFCG------GVFCRICTKGRCLL--PVRFR-ERNPQRVCDACYDRLDPL 211 (400)
Q Consensus 150 ~~~C~~C~~~--F~~l------~rRrHHCR~CG------~vfC~~CS~~~~~l--P~~~~-~~~p~RVC~~C~~~l~~~ 211 (400)
...|..|+.. .+.+ ..|..||-.|+ ++-|..|-+.+.+- ..... ....+-+|+.|..-++.+
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 RQFCPVCGSMPVSSVVQIGTTQGLRYLHCNLCESEWHVVRVKCSNCEQSGKLHYWSLDSEQAAVKAESCGDCGTYLKIL 265 (309)
T ss_pred CCCCCCCCCcchhheeeccCCCCceEEEcCCCCCcccccCccCCCCCCCCceeeeeecCCCcceEeeecccccccceec
Confidence 4688888875 2211 34678888887 45788886543111 00100 123456899999877653
No 52
>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=47.65 E-value=6.4 Score=39.70 Aligned_cols=49 Identities=18% Similarity=0.420 Sum_probs=29.9
Q ss_pred CcCccCCcC--CCccccccccccccCceEeCCCCCceeecCccCCCCcceEeccccccccc
Q 015793 151 TVCMQCTAP--FTALTRGRHHCRFCGGVFCRICTKGRCLLPVRFRERNPQRVCDACYDRLD 209 (400)
Q Consensus 151 ~~C~~C~~~--F~~l~rRrHHCR~CG~vfC~~CS~~~~~lP~~~~~~~p~RVC~~C~~~l~ 209 (400)
..|..|... +++-.+=-.+ .||+.||.+|....... +...|-.|...+.
T Consensus 4 ~~CP~Ck~~~y~np~~kl~i~--~CGH~~C~sCv~~l~~~--------~~~~CP~C~~~lr 54 (309)
T TIGR00570 4 QGCPRCKTTKYRNPSLKLMVN--VCGHTLCESCVDLLFVR--------GSGSCPECDTPLR 54 (309)
T ss_pred CCCCcCCCCCccCcccccccC--CCCCcccHHHHHHHhcC--------CCCCCCCCCCccc
Confidence 479999984 4421111233 79999999998653211 1226778866554
No 53
>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=47.23 E-value=17 Score=28.84 Aligned_cols=23 Identities=26% Similarity=0.748 Sum_probs=12.7
Q ss_pred cCccCCcCCCccccccccccccCc
Q 015793 152 VCMQCTAPFTALTRGRHHCRFCGG 175 (400)
Q Consensus 152 ~C~~C~~~F~~l~rRrHHCR~CG~ 175 (400)
.|..|+.+.. +...+.||-.|..
T Consensus 3 ~CP~C~~~L~-~~~~~~~C~~C~~ 25 (70)
T PF07191_consen 3 TCPKCQQELE-WQGGHYHCEACQK 25 (70)
T ss_dssp B-SSS-SBEE-EETTEEEETTT--
T ss_pred cCCCCCCccE-EeCCEEECccccc
Confidence 6889999876 3444566666654
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=46.58 E-value=12 Score=25.06 Aligned_cols=24 Identities=25% Similarity=0.582 Sum_probs=14.5
Q ss_pred cCccCCcCCCccccccccccccCc
Q 015793 152 VCMQCTAPFTALTRGRHHCRFCGG 175 (400)
Q Consensus 152 ~C~~C~~~F~~l~rRrHHCR~CG~ 175 (400)
.|..|+..+..-..-.-.|+.||.
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 477888888732333457777775
No 55
>KOG0978 consensus E3 ubiquitin ligase involved in syntaxin degradation [Posttranslational modification, protein turnover, chaperones]
Probab=46.12 E-value=2.2 Score=47.26 Aligned_cols=46 Identities=28% Similarity=0.665 Sum_probs=32.5
Q ss_pred CCcCccCCcCCCccccccccccccCceEeCCCCCceeecCccCCCCcceEecccccccc
Q 015793 150 TTVCMQCTAPFTALTRGRHHCRFCGGVFCRICTKGRCLLPVRFRERNPQRVCDACYDRL 208 (400)
Q Consensus 150 ~~~C~~C~~~F~~l~rRrHHCR~CG~vfC~~CS~~~~~lP~~~~~~~p~RVC~~C~~~l 208 (400)
.-.|..|...|.- ----.||++||..|...+. ...+|-|..|-.-.
T Consensus 643 ~LkCs~Cn~R~Kd-----~vI~kC~H~FC~~Cvq~r~--------etRqRKCP~Cn~aF 688 (698)
T KOG0978|consen 643 LLKCSVCNTRWKD-----AVITKCGHVFCEECVQTRY--------ETRQRKCPKCNAAF 688 (698)
T ss_pred ceeCCCccCchhh-----HHHHhcchHHHHHHHHHHH--------HHhcCCCCCCCCCC
Confidence 3579999875532 1224799999999986541 45789999997654
No 56
>PLN03208 E3 ubiquitin-protein ligase RMA2; Provisional
Probab=45.95 E-value=5.1 Score=37.76 Aligned_cols=58 Identities=16% Similarity=0.440 Sum_probs=36.9
Q ss_pred CCCcCccCCcCCCccccccccccccCceEeCCCCCceeecCc-------cCCCCcceEeccccccccccc
Q 015793 149 STTVCMQCTAPFTALTRGRHHCRFCGGVFCRICTKGRCLLPV-------RFRERNPQRVCDACYDRLDPL 211 (400)
Q Consensus 149 ~~~~C~~C~~~F~~l~rRrHHCR~CG~vfC~~CS~~~~~lP~-------~~~~~~p~RVC~~C~~~l~~~ 211 (400)
..-.|.+|...+.- -.--.||++||..|...+..... .....+....|-.|...+...
T Consensus 17 ~~~~CpICld~~~d-----PVvT~CGH~FC~~CI~~wl~~s~~s~~~~~~~~~~k~~~~CPvCR~~Is~~ 81 (193)
T PLN03208 17 GDFDCNICLDQVRD-----PVVTLCGHLFCWPCIHKWTYASNNSRQRVDQYDHKREPPKCPVCKSDVSEA 81 (193)
T ss_pred CccCCccCCCcCCC-----cEEcCCCchhHHHHHHHHHHhccccccccccccccCCCCcCCCCCCcCChh
Confidence 34679999987752 12257999999999865422110 011123456899999888653
No 57
>PRK00398 rpoP DNA-directed RNA polymerase subunit P; Provisional
Probab=45.61 E-value=12 Score=26.74 Aligned_cols=23 Identities=26% Similarity=0.691 Sum_probs=13.5
Q ss_pred cCccCCcCCCccccc--cccccccCc
Q 015793 152 VCMQCTAPFTALTRG--RHHCRFCGG 175 (400)
Q Consensus 152 ~C~~C~~~F~~l~rR--rHHCR~CG~ 175 (400)
.|..|+..|. +..+ ..+|..||.
T Consensus 5 ~C~~CG~~~~-~~~~~~~~~Cp~CG~ 29 (46)
T PRK00398 5 KCARCGREVE-LDEYGTGVRCPYCGY 29 (46)
T ss_pred ECCCCCCEEE-ECCCCCceECCCCCC
Confidence 5777888775 2222 356666655
No 58
>PRK04023 DNA polymerase II large subunit; Validated
Probab=45.58 E-value=16 Score=42.35 Aligned_cols=50 Identities=22% Similarity=0.531 Sum_probs=34.7
Q ss_pred CCCCcCccCCcCCCccccccccccccCce-----EeCCCCCceeecCccCCCCcceEeccccccccccccc
Q 015793 148 SSTTVCMQCTAPFTALTRGRHHCRFCGGV-----FCRICTKGRCLLPVRFRERNPQRVCDACYDRLDPLQG 213 (400)
Q Consensus 148 ~~~~~C~~C~~~F~~l~rRrHHCR~CG~v-----fC~~CS~~~~~lP~~~~~~~p~RVC~~C~~~l~~~q~ 213 (400)
.....|..|+.... ...|..||.. ||..|-... . .-.|..|-..+.+.+.
T Consensus 624 Vg~RfCpsCG~~t~-----~frCP~CG~~Te~i~fCP~CG~~~----------~-~y~CPKCG~El~~~s~ 678 (1121)
T PRK04023 624 IGRRKCPSCGKETF-----YRRCPFCGTHTEPVYRCPRCGIEV----------E-EDECEKCGREPTPYSK 678 (1121)
T ss_pred ccCccCCCCCCcCC-----cccCCCCCCCCCcceeCccccCcC----------C-CCcCCCCCCCCCccce
Confidence 34579999999753 3689999964 999994321 1 1349999887765443
No 59
>smart00647 IBR In Between Ring fingers. the domains occurs between pairs og RING fingers
Probab=45.46 E-value=17 Score=26.72 Aligned_cols=35 Identities=29% Similarity=0.581 Sum_probs=24.3
Q ss_pred CCcCc--cCCcCCCcc---ccccccccccCceEeCCCCCc
Q 015793 150 TTVCM--QCTAPFTAL---TRGRHHCRFCGGVFCRICTKG 184 (400)
Q Consensus 150 ~~~C~--~C~~~F~~l---~rRrHHCR~CG~vfC~~CS~~ 184 (400)
...|. .|....... ...+-.|..||..||..|...
T Consensus 18 ~~~CP~~~C~~~~~~~~~~~~~~v~C~~C~~~fC~~C~~~ 57 (64)
T smart00647 18 LKWCPAPDCSAAIIVTEEEGCNRVTCPKCGFSFCFRCKVP 57 (64)
T ss_pred ccCCCCCCCcceEEecCCCCCCeeECCCCCCeECCCCCCc
Confidence 34577 776654321 345788999999999999753
No 60
>PF00415 RCC1: Regulator of chromosome condensation (RCC1) repeat; InterPro: IPR000408 The regulator of chromosome condensation (RCC1) [] is a eukaryotic protein which binds to chromatin and interacts with ran, a nuclear GTP-binding protein IPR002041 from INTERPRO, to promote the loss of bound GDP and the uptake of fresh GTP, thus acting as a guanine-nucleotide dissociation stimulator (GDS). The interaction of RCC1 with ran probably plays an important role in the regulation of gene expression. RCC1, known as PRP20 or SRM1 in yeast, pim1 in fission yeast and BJ1 in Drosophila, is a protein that contains seven tandem repeats of a domain of about 50 to 60 amino acids. As shown in the following schematic representation, the repeats make up the major part of the length of the protein. Outside the repeat region, there is just a small N-terminal domain of about 40 to 50 residues and, in the Drosophila protein only, a C-terminal domain of about 130 residues. +----+-------+-------+-------+-------+-------+-------+-------+-------------+ |N-t.|Rpt. 1 |Rpt. 2 |Rpt. 3 |Rpt. 4 |Rpt. 5 |Rpt. 6 |Rpt. 7 | C-terminal | +----+-------+-------+-------+-------+-------+-------+-------+-------------+ The RCC1-type of repeat is also found in the X-linked retinitis pigmentosa GTPase regulator []. The RCC repeats form a beta-propeller structure.; PDB: 3MVD_L 3OF7_A 1I2M_D 1A12_B 3KCI_A 4DNV_B 4DNU_A 4D9S_B 4DNW_A.
Probab=45.16 E-value=5.6 Score=28.15 Aligned_cols=29 Identities=21% Similarity=0.162 Sum_probs=20.0
Q ss_pred CceeeecCCCCCCCccC-CCcccCCCCCCcc
Q 015793 94 SSNVSFFGSGKNGDTYL-HSSVYIPSAPPLL 123 (400)
Q Consensus 94 s~~v~~~g~g~~g~~~~-~~~~~~~~~p~l~ 123 (400)
.+++|.||.+.+|++ + +.+......|..+
T Consensus 1 dG~vy~wG~n~~GqL-G~~~~~~~~~~P~~v 30 (51)
T PF00415_consen 1 DGRVYSWGSNDYGQL-GSGGDNKNVSVPTKV 30 (51)
T ss_dssp TSEEEEEEEETTSTT-SSSSSSSEEEEEEEE
T ss_pred CCcEEEEECCCCCCC-CCCCCCCceeEEEEE
Confidence 368999999999998 4 5555444444443
No 61
>PF15135 UPF0515: Uncharacterised protein UPF0515
Probab=45.00 E-value=14 Score=36.29 Aligned_cols=34 Identities=18% Similarity=0.466 Sum_probs=26.5
Q ss_pred cccCCCCCcCccCCcCCCcc------ccccccccccCceE
Q 015793 144 WLPDSSTTVCMQCTAPFTAL------TRGRHHCRFCGGVF 177 (400)
Q Consensus 144 W~pd~~~~~C~~C~~~F~~l------~rRrHHCR~CG~vf 177 (400)
|-.-++++.|..|++.|.++ ..-..||..|++-|
T Consensus 126 vp~rKeVSRCr~C~~rYDPVP~dkmwG~aef~C~~C~h~F 165 (278)
T PF15135_consen 126 VPQRKEVSRCRKCRKRYDPVPCDKMWGIAEFHCPKCRHNF 165 (278)
T ss_pred cCcccccccccccccccCCCccccccceeeeecccccccc
Confidence 34567789999999998653 33478999999987
No 62
>PF13901 DUF4206: Domain of unknown function (DUF4206)
Probab=43.93 E-value=6.1 Score=37.24 Aligned_cols=46 Identities=22% Similarity=0.465 Sum_probs=34.7
Q ss_pred cccccCceEeCCCCCc-eeecCcc---CCCCcceEeccccccccccccch
Q 015793 169 HCRFCGGVFCRICTKG-RCLLPVR---FRERNPQRVCDACYDRLDPLQGV 214 (400)
Q Consensus 169 HCR~CG~vfC~~CS~~-~~~lP~~---~~~~~p~RVC~~C~~~l~~~q~~ 214 (400)
.|...|+.||..|-.+ ...+|.+ ...-++..||+..++.|......
T Consensus 2 ~C~Y~G~yyC~~CH~~~~~vIParil~~WDf~~~pVs~~a~~~L~~~~~~ 51 (202)
T PF13901_consen 2 FCDYTGKYYCSSCHWNDTSVIPARILHNWDFRPYPVSRFAKQFLDQIWSK 51 (202)
T ss_pred ccCCCCCcCCCCCCCCCceeccHHHHHhcCCCccHHHHHHHHHHHHhccC
Confidence 5999999999999766 5677843 12347899999999988765443
No 63
>KOG0823 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=42.89 E-value=7.2 Score=37.63 Aligned_cols=35 Identities=23% Similarity=0.531 Sum_probs=25.0
Q ss_pred cccCceEeCCCCCceeecCccCCCCcceEeccccccccccc
Q 015793 171 RFCGGVFCRICTKGRCLLPVRFRERNPQRVCDACYDRLDPL 211 (400)
Q Consensus 171 R~CG~vfC~~CS~~~~~lP~~~~~~~p~RVC~~C~~~l~~~ 211 (400)
-.||+.||+-|..++... ......|-.|...++..
T Consensus 63 TlCGHLFCWpClyqWl~~------~~~~~~cPVCK~~Vs~~ 97 (230)
T KOG0823|consen 63 TLCGHLFCWPCLYQWLQT------RPNSKECPVCKAEVSID 97 (230)
T ss_pred eecccceehHHHHHHHhh------cCCCeeCCccccccccc
Confidence 489999999998777443 23456677787776643
No 64
>PRK14559 putative protein serine/threonine phosphatase; Provisional
Probab=42.78 E-value=14 Score=40.86 Aligned_cols=32 Identities=25% Similarity=0.717 Sum_probs=25.4
Q ss_pred CCCCcCccCCcCCCccccccccccccCce------EeCCCCCc
Q 015793 148 SSTTVCMQCTAPFTALTRGRHHCRFCGGV------FCRICTKG 184 (400)
Q Consensus 148 ~~~~~C~~C~~~F~~l~rRrHHCR~CG~v------fC~~CS~~ 184 (400)
..+..|..|+.++.. ..|..||.. ||..|-..
T Consensus 13 ~~akFC~~CG~~l~~-----~~Cp~CG~~~~~~~~fC~~CG~~ 50 (645)
T PRK14559 13 NNNRFCQKCGTSLTH-----KPCPQCGTEVPVDEAHCPNCGAE 50 (645)
T ss_pred CCCccccccCCCCCC-----CcCCCCCCCCCcccccccccCCc
Confidence 346789999998861 369999998 99999643
No 65
>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=42.65 E-value=8.1 Score=26.31 Aligned_cols=29 Identities=24% Similarity=0.610 Sum_probs=19.9
Q ss_pred CccCCcCCCccccccccccccCceEeCCCCCce
Q 015793 153 CMQCTAPFTALTRGRHHCRFCGGVFCRICTKGR 185 (400)
Q Consensus 153 C~~C~~~F~~l~rRrHHCR~CG~vfC~~CS~~~ 185 (400)
|.+|...+. .....-.||++||..|....
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 566766443 24567899999999997543
No 66
>COG1773 Rubredoxin [Energy production and conversion]
Probab=42.03 E-value=20 Score=27.16 Aligned_cols=41 Identities=27% Similarity=0.521 Sum_probs=22.8
Q ss_pred ccccccccCceEeCCCCCceeecC--ccCCCCcceEecccccc
Q 015793 166 GRHHCRFCGGVFCRICTKGRCLLP--VRFRERNPQRVCDACYD 206 (400)
Q Consensus 166 RrHHCR~CG~vfC~~CS~~~~~lP--~~~~~~~p~RVC~~C~~ 206 (400)
+++.|+.||.||=..=-..+.-++ .+|..-....+|-.|-.
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 479999999997443222222222 12223345677877753
No 67
>smart00659 RPOLCX RNA polymerase subunit CX. present in RNA polymerase I, II and III
Probab=41.74 E-value=14 Score=26.51 Aligned_cols=23 Identities=26% Similarity=0.686 Sum_probs=13.0
Q ss_pred cCccCCcCCCccccccccccccC
Q 015793 152 VCMQCTAPFTALTRGRHHCRFCG 174 (400)
Q Consensus 152 ~C~~C~~~F~~l~rRrHHCR~CG 174 (400)
.|..|+..|..-..-.-.|+.||
T Consensus 4 ~C~~Cg~~~~~~~~~~irC~~CG 26 (44)
T smart00659 4 ICGECGRENEIKSKDVVRCRECG 26 (44)
T ss_pred ECCCCCCEeecCCCCceECCCCC
Confidence 58889998883212233444443
No 68
>COG5151 SSL1 RNA polymerase II transcription initiation/nucleotide excision repair factor TFIIH, subunit SSL1 [Transcription / DNA replication, recombination, and repair]
Probab=41.21 E-value=12 Score=37.80 Aligned_cols=39 Identities=31% Similarity=0.812 Sum_probs=30.4
Q ss_pred cccCCCCCcCccCCcCCCc---------cccccccccccCceEeCCCC
Q 015793 144 WLPDSSTTVCMQCTAPFTA---------LTRGRHHCRFCGGVFCRICT 182 (400)
Q Consensus 144 W~pd~~~~~C~~C~~~F~~---------l~rRrHHCR~CG~vfC~~CS 182 (400)
|-..-....|..|+.+|-. +...|..|..|-.-||..|-
T Consensus 356 ~~~~~ks~~Cf~CQ~~fp~~~~~~~~~~~ss~rY~Ce~CK~~FC~dCd 403 (421)
T COG5151 356 EGTNPKSTHCFVCQGPFPKPPVSPFDESTSSGRYQCELCKSTFCSDCD 403 (421)
T ss_pred CCCCCCCccceeccCCCCCCCCCcccccccccceechhhhhhhhhhhH
Confidence 5555566789999998842 24568999999999999994
No 69
>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=41.15 E-value=22 Score=28.93 Aligned_cols=32 Identities=28% Similarity=0.501 Sum_probs=24.6
Q ss_pred CCCcCccCCcCCCccccccccccccCceEeCCCCC
Q 015793 149 STTVCMQCTAPFTALTRGRHHCRFCGGVFCRICTK 183 (400)
Q Consensus 149 ~~~~C~~C~~~F~~l~rRrHHCR~CG~vfC~~CS~ 183 (400)
+...|..|+++|.. ..-.-..||.+|-..|..
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 34679999999872 355666889999999864
No 70
>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=40.87 E-value=17 Score=23.22 Aligned_cols=23 Identities=30% Similarity=0.733 Sum_probs=14.5
Q ss_pred cCccCCcCCCccccccccccccCceE
Q 015793 152 VCMQCTAPFTALTRGRHHCRFCGGVF 177 (400)
Q Consensus 152 ~C~~C~~~F~~l~rRrHHCR~CG~vf 177 (400)
.|..|++.-. .. -.-|.+||..|
T Consensus 2 ~CP~C~~~V~-~~--~~~Cp~CG~~F 24 (26)
T PF10571_consen 2 TCPECGAEVP-ES--AKFCPHCGYDF 24 (26)
T ss_pred cCCCCcCCch-hh--cCcCCCCCCCC
Confidence 4777777665 22 35677777765
No 71
>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=40.44 E-value=5.9 Score=30.38 Aligned_cols=31 Identities=26% Similarity=0.680 Sum_probs=21.9
Q ss_pred cccccccCceEeCCCCCceeecCccCCCCcceEec-cccccccccccch
Q 015793 167 RHHCRFCGGVFCRICTKGRCLLPVRFRERNPQRVC-DACYDRLDPLQGV 214 (400)
Q Consensus 167 rHHCR~CG~vfC~~CS~~~~~lP~~~~~~~p~RVC-~~C~~~l~~~q~~ 214 (400)
..||..||.. +| ...+.| +.|.+.+...|+.
T Consensus 3 HkHC~~CG~~-----------Ip------~~~~fCS~~C~~~~~k~qk~ 34 (59)
T PF09889_consen 3 HKHCPVCGKP-----------IP------PDESFCSPKCREEYRKRQKR 34 (59)
T ss_pred CCcCCcCCCc-----------CC------cchhhhCHHHHHHHHHHHHH
Confidence 4799999873 33 247889 5898887766554
No 72
>COG0675 Transposase and inactivated derivatives [DNA replication, recombination, and repair]
Probab=40.35 E-value=19 Score=34.99 Aligned_cols=26 Identities=27% Similarity=0.550 Sum_probs=19.4
Q ss_pred CCCCcCccCCcCCCccccccccccccCceE
Q 015793 148 SSTTVCMQCTAPFTALTRGRHHCRFCGGVF 177 (400)
Q Consensus 148 ~~~~~C~~C~~~F~~l~rRrHHCR~CG~vf 177 (400)
.++..|..|+. +..|.+.|..||..+
T Consensus 307 ~tS~~C~~cg~----~~~r~~~C~~cg~~~ 332 (364)
T COG0675 307 YTSKTCPCCGH----LSGRLFKCPRCGFVH 332 (364)
T ss_pred CCcccccccCC----ccceeEECCCCCCee
Confidence 44578999999 335678888888764
No 73
>COG5574 PEX10 RING-finger-containing E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=40.17 E-value=7.8 Score=38.16 Aligned_cols=48 Identities=23% Similarity=0.574 Sum_probs=31.0
Q ss_pred CcCccCCcCCCccccccccccccCceEeCCCCCceeecCccCCCCcceEecccccccccc
Q 015793 151 TVCMQCTAPFTALTRGRHHCRFCGGVFCRICTKGRCLLPVRFRERNPQRVCDACYDRLDP 210 (400)
Q Consensus 151 ~~C~~C~~~F~~l~rRrHHCR~CG~vfC~~CS~~~~~lP~~~~~~~p~RVC~~C~~~l~~ 210 (400)
-.|..|-..=. .--|+.||++||..|.-.. ...+..--|--|..+..+
T Consensus 216 ~kC~lC~e~~~-----~ps~t~CgHlFC~~Cl~~~-------~t~~k~~~CplCRak~~p 263 (271)
T COG5574 216 YKCFLCLEEPE-----VPSCTPCGHLFCLSCLLIS-------WTKKKYEFCPLCRAKVYP 263 (271)
T ss_pred cceeeeecccC-----CcccccccchhhHHHHHHH-------HHhhccccCchhhhhccc
Confidence 57888876332 4679999999999996331 011233447777766544
No 74
>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=38.88 E-value=7 Score=27.23 Aligned_cols=32 Identities=31% Similarity=0.534 Sum_probs=22.7
Q ss_pred cCccCCcCCCccccccccccccCceEeCCCCCce
Q 015793 152 VCMQCTAPFTALTRGRHHCRFCGGVFCRICTKGR 185 (400)
Q Consensus 152 ~C~~C~~~F~~l~rRrHHCR~CG~vfC~~CS~~~ 185 (400)
.|.+|...|.. .. .-.--.||++||..|....
T Consensus 2 ~C~IC~~~~~~-~~-~~~~l~C~H~fh~~Ci~~~ 33 (44)
T PF13639_consen 2 ECPICLEEFED-GE-KVVKLPCGHVFHRSCIKEW 33 (44)
T ss_dssp CETTTTCBHHT-TS-CEEEETTSEEEEHHHHHHH
T ss_pred CCcCCChhhcC-CC-eEEEccCCCeeCHHHHHHH
Confidence 68999998853 22 2333349999999997654
No 75
>PRK04136 rpl40e 50S ribosomal protein L40e; Provisional
Probab=38.83 E-value=18 Score=26.68 Aligned_cols=22 Identities=36% Similarity=0.835 Sum_probs=17.5
Q ss_pred CcCccCCcCCCccccccccccccCc
Q 015793 151 TVCMQCTAPFTALTRGRHHCRFCGG 175 (400)
Q Consensus 151 ~~C~~C~~~F~~l~rRrHHCR~CG~ 175 (400)
..|+.|...-. -|-.+||.||.
T Consensus 15 ~ICrkC~ARnp---~~A~~CRKCg~ 36 (48)
T PRK04136 15 KICMRCNARNP---WRATKCRKCGY 36 (48)
T ss_pred cchhcccCCCC---ccccccccCCC
Confidence 57999998766 36899999885
No 76
>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=38.79 E-value=25 Score=23.12 Aligned_cols=25 Identities=28% Similarity=0.551 Sum_probs=13.3
Q ss_pred EeCCCCCceeecCccCCCCcceEecccccc
Q 015793 177 FCRICTKGRCLLPVRFRERNPQRVCDACYD 206 (400)
Q Consensus 177 fC~~CS~~~~~lP~~~~~~~p~RVC~~C~~ 206 (400)
||..|-......+ ....|+|..|-.
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 6777776554443 357999999854
No 77
>KOG1315 consensus Predicted DHHC-type Zn-finger protein [General function prediction only]
Probab=38.71 E-value=13 Score=37.41 Aligned_cols=28 Identities=25% Similarity=0.668 Sum_probs=18.2
Q ss_pred ccCCCCCcCccCCcCCCccccccccccccCc
Q 015793 145 LPDSSTTVCMQCTAPFTALTRGRHHCRFCGG 175 (400)
Q Consensus 145 ~pd~~~~~C~~C~~~F~~l~rRrHHCR~CG~ 175 (400)
.++.....|..|+.= . --|-|||+-|++
T Consensus 104 ~~~g~~R~C~kC~~i-K--PdRaHHCsvC~r 131 (307)
T KOG1315|consen 104 TSDGAVRYCDKCKCI-K--PDRAHHCSVCNR 131 (307)
T ss_pred cCCCCceeecccccc-c--CCccccchhhhh
Confidence 445566778888762 2 246888887743
No 78
>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=38.38 E-value=21 Score=29.55 Aligned_cols=10 Identities=30% Similarity=0.966 Sum_probs=5.3
Q ss_pred CcCccCCcCC
Q 015793 151 TVCMQCTAPF 160 (400)
Q Consensus 151 ~~C~~C~~~F 160 (400)
+.|..|+++.
T Consensus 34 S~C~~C~~~L 43 (92)
T PF06750_consen 34 SHCPHCGHPL 43 (92)
T ss_pred CcCcCCCCcC
Confidence 4555555544
No 79
>PF14353 CpXC: CpXC protein
Probab=38.06 E-value=18 Score=31.16 Aligned_cols=10 Identities=30% Similarity=0.876 Sum_probs=7.4
Q ss_pred cCccCCcCCC
Q 015793 152 VCMQCTAPFT 161 (400)
Q Consensus 152 ~C~~C~~~F~ 161 (400)
.|..|+.+|.
T Consensus 3 tCP~C~~~~~ 12 (128)
T PF14353_consen 3 TCPHCGHEFE 12 (128)
T ss_pred CCCCCCCeeE
Confidence 5788888773
No 80
>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=37.85 E-value=15 Score=36.27 Aligned_cols=62 Identities=26% Similarity=0.566 Sum_probs=30.8
Q ss_pred CcCccCCcCC--Ccc------ccccccccccCc------eEeCCCCCceee-cC---ccCCCCcceEecccccccccccc
Q 015793 151 TVCMQCTAPF--TAL------TRGRHHCRFCGG------VFCRICTKGRCL-LP---VRFRERNPQRVCDACYDRLDPLQ 212 (400)
Q Consensus 151 ~~C~~C~~~F--~~l------~rRrHHCR~CG~------vfC~~CS~~~~~-lP---~~~~~~~p~RVC~~C~~~l~~~q 212 (400)
..|..|+..= +.+ .+|..||-.||. +-|..|-+.... +- ........+-||+.|..-++.+.
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 6899999852 111 257889999985 478999754411 11 11122345679999998876544
No 81
>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=37.64 E-value=18 Score=24.45 Aligned_cols=10 Identities=30% Similarity=0.923 Sum_probs=5.5
Q ss_pred cCccCCcCCC
Q 015793 152 VCMQCTAPFT 161 (400)
Q Consensus 152 ~C~~C~~~F~ 161 (400)
.|..|++.|.
T Consensus 4 ~CP~C~~~~~ 13 (38)
T TIGR02098 4 QCPNCKTSFR 13 (38)
T ss_pred ECCCCCCEEE
Confidence 3555666554
No 82
>KOG3173 consensus Predicted Zn-finger protein [General function prediction only]
Probab=36.91 E-value=17 Score=33.44 Aligned_cols=29 Identities=38% Similarity=0.989 Sum_probs=22.9
Q ss_pred CCCcCccCCcCCCccccccccccccCceEeCCC
Q 015793 149 STTVCMQCTAPFTALTRGRHHCRFCGGVFCRIC 181 (400)
Q Consensus 149 ~~~~C~~C~~~F~~l~rRrHHCR~CG~vfC~~C 181 (400)
....|..|++.-. ++ . .||| ||.+||...
T Consensus 104 ~~~rC~~C~kk~g-lt-g-f~Cr-CG~~fC~~H 132 (167)
T KOG3173|consen 104 KKKRCFKCRKKVG-LT-G-FKCR-CGNTFCGTH 132 (167)
T ss_pred cchhhhhhhhhhc-cc-c-cccc-cCCcccccc
Confidence 3456999999888 54 3 8996 999999875
No 83
>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=35.85 E-value=1.1e+02 Score=26.84 Aligned_cols=50 Identities=12% Similarity=0.073 Sum_probs=32.5
Q ss_pred hHHHHHHhHHHHHhhhcccCCCCCccchhhhcCCcceEEEEEeeceeeEEEecceE
Q 015793 249 EYEIYKASNTLRSYCQVAESNPERSIPLAVLNGAKGLAILTVAKAGVLVSYKLGTG 304 (400)
Q Consensus 249 e~EV~kAa~tL~~~~~~~~~~p~~~iP~~~l~~A~Glai~~v~k~Gf~~gg~~G~G 304 (400)
|.-+..+.+-|+.|..... +--+-++-.-|-.|+|+.|++|.||+.+|.+
T Consensus 5 e~lm~t~~e~ik~~i~v~t------VvGdPI~~~dgt~IIPvs~VsfGfgaGg~~~ 54 (125)
T TIGR02874 5 ENLMKTTMENIKEMIDVNT------IVGDPVETPDGSVIIPISKVSFGFAAGGSEF 54 (125)
T ss_pred HHHHHHHHHHHHHheeece------EEecCEEcCCCeEEEEEEEEEEeeeeccCcc
Confidence 4445666777777764321 2222234455779999999999998777664
No 84
>KOG2879 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=33.99 E-value=22 Score=35.31 Aligned_cols=54 Identities=31% Similarity=0.678 Sum_probs=40.1
Q ss_pred CCCcCccCCcCCCccccccccccccCceEeCCCCCceeecCccCCCCcceEeccccccccccccc
Q 015793 149 STTVCMQCTAPFTALTRGRHHCRFCGGVFCRICTKGRCLLPVRFRERNPQRVCDACYDRLDPLQG 213 (400)
Q Consensus 149 ~~~~C~~C~~~F~~l~rRrHHCR~CG~vfC~~CS~~~~~lP~~~~~~~p~RVC~~C~~~l~~~q~ 213 (400)
...+|..|+..=+ + -||--.||+++|-.|...... ....-.|..|-+-..++|+
T Consensus 238 ~~~~C~~Cg~~Pt-i---P~~~~~C~HiyCY~Ci~ts~~-------~~asf~Cp~Cg~~~~~lq~ 291 (298)
T KOG2879|consen 238 SDTECPVCGEPPT-I---PHVIGKCGHIYCYYCIATSRL-------WDASFTCPLCGENVEPLQA 291 (298)
T ss_pred CCceeeccCCCCC-C---Ceeeccccceeehhhhhhhhc-------chhhcccCccCCCCcchhh
Confidence 3478999999555 3 588889999999999754422 1234579999988877764
No 85
>KOG1311 consensus DHHC-type Zn-finger proteins [General function prediction only]
Probab=33.18 E-value=19 Score=35.52 Aligned_cols=24 Identities=21% Similarity=0.535 Sum_probs=17.4
Q ss_pred CCcCccCCcCCCccccccccccccCce
Q 015793 150 TTVCMQCTAPFTALTRGRHHCRFCGGV 176 (400)
Q Consensus 150 ~~~C~~C~~~F~~l~rRrHHCR~CG~v 176 (400)
...|..|+.. . -.|-|||+.|++.
T Consensus 113 ~~~C~~C~~~-r--PpRs~HCsvC~~C 136 (299)
T KOG1311|consen 113 WKYCDTCQLY-R--PPRSSHCSVCNNC 136 (299)
T ss_pred eEEcCcCccc-C--CCCcccchhhccc
Confidence 3678888874 2 3578999988763
No 86
>KOG1814 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=33.07 E-value=19 Score=37.72 Aligned_cols=42 Identities=29% Similarity=0.764 Sum_probs=31.8
Q ss_pred CccccCCCCCcCccCCcCCCcc-ccccccccccCceEeCCCCCc
Q 015793 142 PEWLPDSSTTVCMQCTAPFTAL-TRGRHHCRFCGGVFCRICTKG 184 (400)
Q Consensus 142 p~W~pd~~~~~C~~C~~~F~~l-~rRrHHCR~CG~vfC~~CS~~ 184 (400)
..|+.. ....|..|...-... .--|+||-.||..||.-|+.-
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 378864 477999999865422 123899999999999999853
No 87
>KOG2272 consensus Focal adhesion protein PINCH-1, contains LIM domains [Signal transduction mechanisms; Cytoskeleton]
Probab=32.38 E-value=14 Score=36.37 Aligned_cols=64 Identities=28% Similarity=0.671 Sum_probs=38.9
Q ss_pred CccccCCCCCcCccCCcCCCccccc------------------cccccccCceEeC---------------CCC--Ccee
Q 015793 142 PEWLPDSSTTVCMQCTAPFTALTRG------------------RHHCRFCGGVFCR---------------ICT--KGRC 186 (400)
Q Consensus 142 p~W~pd~~~~~C~~C~~~F~~l~rR------------------rHHCR~CG~vfC~---------------~CS--~~~~ 186 (400)
.+|--+. -.|..|.+||- ..| -|+|-.|+++++. +|| ..+.
T Consensus 215 KhWHveH--FvCa~CekPFl--GHrHYEkkGlaYCe~h~~qLfG~~CF~C~~~i~G~vv~al~KawCv~cf~Cs~Cdkkl 290 (332)
T KOG2272|consen 215 KHWHVEH--FVCAKCEKPFL--GHRHYEKKGLAYCETHYHQLFGNLCFICNRVIGGDVVSALNKAWCVECFSCSTCDKKL 290 (332)
T ss_pred cccchhh--eeehhcCCccc--chhhhhhcCchhHHHHHHHHhhhhheecCCccCccHHHHhhhhhcccccccccccccc
Confidence 4686654 67999999992 111 4789999988543 222 1222
Q ss_pred ecCccCCCCcceEeccccccccc
Q 015793 187 LLPVRFRERNPQRVCDACYDRLD 209 (400)
Q Consensus 187 ~lP~~~~~~~p~RVC~~C~~~l~ 209 (400)
..-.++-+-....||..||++..
T Consensus 291 ~~K~Kf~E~DmkP~CKkCy~rfp 313 (332)
T KOG2272|consen 291 TQKNKFYEFDMKPVCKKCYDRFP 313 (332)
T ss_pred ccccceeeeccchHHHHHHhhcc
Confidence 22223434456778888888664
No 88
>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=32.15 E-value=21 Score=30.66 Aligned_cols=24 Identities=17% Similarity=0.430 Sum_probs=14.6
Q ss_pred CCcCccCCcCCCccccccccccccC
Q 015793 150 TTVCMQCTAPFTALTRGRHHCRFCG 174 (400)
Q Consensus 150 ~~~C~~C~~~F~~l~rRrHHCR~CG 174 (400)
.-.|..|+..|. +....-+|..||
T Consensus 70 ~~~C~~Cg~~~~-~~~~~~~CP~Cg 93 (115)
T TIGR00100 70 ECECEDCSEEVS-PEIDLYRCPKCH 93 (115)
T ss_pred EEEcccCCCEEe-cCCcCccCcCCc
Confidence 367999998887 332333455554
No 89
>PF15616 TerY-C: TerY-C metal binding domain
Probab=31.91 E-value=30 Score=30.68 Aligned_cols=24 Identities=29% Similarity=0.843 Sum_probs=19.4
Q ss_pred CcCccCCcCCCccccccccccccCceEeCC
Q 015793 151 TVCMQCTAPFTALTRGRHHCRFCGGVFCRI 180 (400)
Q Consensus 151 ~~C~~C~~~F~~l~rRrHHCR~CG~vfC~~ 180 (400)
..|..|+..+. |. -| .||+++|..
T Consensus 78 PgCP~CGn~~~-fa----~C-~CGkl~Ci~ 101 (131)
T PF15616_consen 78 PGCPHCGNQYA-FA----VC-GCGKLFCID 101 (131)
T ss_pred CCCCCCcChhc-EE----Ee-cCCCEEEeC
Confidence 68999999998 43 36 799999964
No 90
>PF01286 XPA_N: XPA protein N-terminal; InterPro: IPR022652 Xeroderma pigmentosum (XP) [] is a human autosomal recessive disease, characterised by a high incidence of sunlight-induced skin cancer. Skin cells of individual's with this condition are hypersensitive to ultraviolet light, due to defects in the incision step of DNA excision repair. There are a minimum of seven genetic complementation groups involved in this pathway: XP-A to XP-G. XP-A is the most severe form of the disease and is due to defects in a 30 kDa nuclear protein called XPA (or XPAC) []. The sequence of the XPA protein is conserved from higher eukaryotes [] to yeast (gene RAD14) []. XPA is a hydrophilic protein of 247 to 296 amino-acid residues which has a C4-type zinc finger motif in its central section. This entry contains the zinc-finger containing region in the XPA protein. It is found N-terminal to PF05181 from PFAM ; PDB: 1D4U_A 1XPA_A.
Probab=31.62 E-value=30 Score=23.66 Aligned_cols=10 Identities=50% Similarity=1.012 Sum_probs=4.0
Q ss_pred ceEecccccc
Q 015793 197 PQRVCDACYD 206 (400)
Q Consensus 197 p~RVC~~C~~ 206 (400)
..+||+.|.+
T Consensus 23 ~~~VCD~CRD 32 (34)
T PF01286_consen 23 DLPVCDKCRD 32 (34)
T ss_dssp S-S--TTT-S
T ss_pred CccccccccC
Confidence 4677777754
No 91
>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=31.39 E-value=17 Score=30.83 Aligned_cols=58 Identities=24% Similarity=0.472 Sum_probs=34.9
Q ss_pred CCCcCccCCcCCCccccccccc------ccc---CceEeCCCCCceeecCccCCCCcceEeccccccccc
Q 015793 149 STTVCMQCTAPFTALTRGRHHC------RFC---GGVFCRICTKGRCLLPVRFRERNPQRVCDACYDRLD 209 (400)
Q Consensus 149 ~~~~C~~C~~~F~~l~rRrHHC------R~C---G~vfC~~CS~~~~~lP~~~~~~~p~RVC~~C~~~l~ 209 (400)
....|.+|+++-. ..+..| ..| ...||..|...+--.-...-...+.-+|-.|...-+
T Consensus 6 ~g~~CHqCrqKt~---~~~~~C~~~~~~~~C~~~~~~fC~~CL~~ryge~~~ev~~~~~W~CP~CrgiCn 72 (105)
T PF10497_consen 6 NGKTCHQCRQKTL---DFKTICTGHWKNSSCRGCRGKFCGGCLRNRYGENVEEVLEDPNWKCPKCRGICN 72 (105)
T ss_pred CCCCchhhcCCCC---CCceEcCCCCCCCCCccCcceehHhHHHHHHhhhHHHHhcCCceECCCCCCeeC
Confidence 3467999988543 122334 566 999999998665221000011356788999988653
No 92
>PRK00564 hypA hydrogenase nickel incorporation protein; Provisional
Probab=31.10 E-value=24 Score=30.37 Aligned_cols=25 Identities=20% Similarity=0.441 Sum_probs=15.0
Q ss_pred CCcCccCCcCCCccccccc-cccccCc
Q 015793 150 TTVCMQCTAPFTALTRGRH-HCRFCGG 175 (400)
Q Consensus 150 ~~~C~~C~~~F~~l~rRrH-HCR~CG~ 175 (400)
.-.|..|+..|. +..... +|..||.
T Consensus 71 ~~~C~~Cg~~~~-~~~~~~~~CP~Cgs 96 (117)
T PRK00564 71 ELECKDCSHVFK-PNALDYGVCEKCHS 96 (117)
T ss_pred EEEhhhCCCccc-cCCccCCcCcCCCC
Confidence 357999998887 322212 3666653
No 93
>COG1198 PriA Primosomal protein N' (replication factor Y) - superfamily II helicase [DNA replication, recombination, and repair]
Probab=31.08 E-value=30 Score=38.97 Aligned_cols=10 Identities=30% Similarity=0.448 Sum_probs=6.2
Q ss_pred hHHHHhhhhh
Q 015793 65 NLKNVLSGIF 74 (400)
Q Consensus 65 ~~~~~~~~~~ 74 (400)
++.|+..|-+
T Consensus 363 S~~~~~~g~y 372 (730)
T COG1198 363 SYANAESGKY 372 (730)
T ss_pred HHHhhhcCce
Confidence 6667766633
No 94
>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=30.88 E-value=14 Score=31.57 Aligned_cols=25 Identities=24% Similarity=0.578 Sum_probs=14.1
Q ss_pred CCcCccCCcCCCccccccccccccCc
Q 015793 150 TTVCMQCTAPFTALTRGRHHCRFCGG 175 (400)
Q Consensus 150 ~~~C~~C~~~F~~l~rRrHHCR~CG~ 175 (400)
.-.|..|+..|. +......|..||.
T Consensus 70 ~~~C~~Cg~~~~-~~~~~~~CP~Cgs 94 (113)
T PF01155_consen 70 RARCRDCGHEFE-PDEFDFSCPRCGS 94 (113)
T ss_dssp EEEETTTS-EEE-CHHCCHH-SSSSS
T ss_pred cEECCCCCCEEe-cCCCCCCCcCCcC
Confidence 357899999888 3333344555543
No 95
>COG1996 RPC10 DNA-directed RNA polymerase, subunit RPC10 (contains C4-type Zn-finger) [Transcription]
Probab=30.55 E-value=23 Score=26.17 Aligned_cols=23 Identities=22% Similarity=0.647 Sum_probs=13.6
Q ss_pred cCccCCcCCCcc-ccccccccccC
Q 015793 152 VCMQCTAPFTAL-TRGRHHCRFCG 174 (400)
Q Consensus 152 ~C~~C~~~F~~l-~rRrHHCR~CG 174 (400)
.|..|++.|..+ ..+.-.|..||
T Consensus 8 ~C~~Cg~~~~~~~~~~~irCp~Cg 31 (49)
T COG1996 8 KCARCGREVELDQETRGIRCPYCG 31 (49)
T ss_pred EhhhcCCeeehhhccCceeCCCCC
Confidence 588899988733 22334444443
No 96
>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=30.25 E-value=14 Score=24.46 Aligned_cols=30 Identities=33% Similarity=0.654 Sum_probs=20.8
Q ss_pred cCccCCcCCCccccccccccccCceEeCCCCCce
Q 015793 152 VCMQCTAPFTALTRGRHHCRFCGGVFCRICTKGR 185 (400)
Q Consensus 152 ~C~~C~~~F~~l~rRrHHCR~CG~vfC~~CS~~~ 185 (400)
.|..|...+. ....-..||+.||..|....
T Consensus 1 ~C~iC~~~~~----~~~~~~~C~H~~c~~C~~~~ 30 (45)
T cd00162 1 ECPICLEEFR----EPVVLLPCGHVFCRSCIDKW 30 (45)
T ss_pred CCCcCchhhh----CceEecCCCChhcHHHHHHH
Confidence 3778887762 23444569999999997643
No 97
>PF14445 Prok-RING_2: Prokaryotic RING finger family 2
Probab=29.66 E-value=9.4 Score=28.48 Aligned_cols=45 Identities=20% Similarity=0.623 Sum_probs=34.1
Q ss_pred CcCccCCcCCCccccccccccccCceEeCCCCCceeecCccCCCCcceEeccccccccc
Q 015793 151 TVCMQCTAPFTALTRGRHHCRFCGGVFCRICTKGRCLLPVRFRERNPQRVCDACYDRLD 209 (400)
Q Consensus 151 ~~C~~C~~~F~~l~rRrHHCR~CG~vfC~~CS~~~~~lP~~~~~~~p~RVC~~C~~~l~ 209 (400)
-.|..|+..|. + ..-..|-.||+--|++|-.. ..-.|+.|-..++
T Consensus 8 y~CDLCn~~~p-~-~~LRQCvlCGRWaC~sCW~d------------eYY~CksC~Gii~ 52 (57)
T PF14445_consen 8 YSCDLCNSSHP-I-SELRQCVLCGRWACNSCWQD------------EYYTCKSCNGIIN 52 (57)
T ss_pred HhHHhhcccCc-H-HHHHHHhhhchhhhhhhhhh------------hHhHHHhhhchhh
Confidence 46889999998 4 34678999999999999642 3556777876653
No 98
>PF04438 zf-HIT: HIT zinc finger; InterPro: IPR007529 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 HIT-type zinc finger, which contains 7 conserved cysteines and one histidine that can potentially coordinate two zinc atoms. It has been named after the first protein that originally defined the domain: the yeast HIT1 protein (P46973 from SWISSPROT) []. The HIT-type zinc finger displays some sequence similarities to the MYND-type zinc finger. The function of this domain is unknown but it is mainly found in nuclear proteins involved in gene regulation and chromatin remodeling. This domain is also found in the thyroid receptor interacting protein 3 (TRIP-3) Q15649 from SWISSPROT, that specifically interacts with the ligand binding domain of the thyroid receptor. More information about these proteins can be found at Protein of the Month: Zinc Fingers [].; PDB: 2YQP_A 2YQQ_A 1X4S_A.
Probab=29.55 E-value=26 Score=23.10 Aligned_cols=23 Identities=26% Similarity=0.852 Sum_probs=15.3
Q ss_pred CcCccCCcCCCccccccccccccCceEeC
Q 015793 151 TVCMQCTAPFTALTRGRHHCRFCGGVFCR 179 (400)
Q Consensus 151 ~~C~~C~~~F~~l~rRrHHCR~CG~vfC~ 179 (400)
..|..|+. + .++.|..|+..+|+
T Consensus 3 ~~C~vC~~-~-----~kY~Cp~C~~~~CS 25 (30)
T PF04438_consen 3 KLCSVCGN-P-----AKYRCPRCGARYCS 25 (30)
T ss_dssp EEETSSSS-E-----ESEE-TTT--EESS
T ss_pred CCCccCcC-C-----CEEECCCcCCceeC
Confidence 46888887 2 36889999999886
No 99
>PF14803 Nudix_N_2: Nudix N-terminal; PDB: 3CNG_C.
Probab=29.24 E-value=44 Score=22.70 Aligned_cols=28 Identities=29% Similarity=0.541 Sum_probs=12.3
Q ss_pred EeCCCCCce-eecCccCCCCcceEecccccc
Q 015793 177 FCRICTKGR-CLLPVRFRERNPQRVCDACYD 206 (400)
Q Consensus 177 fC~~CS~~~-~~lP~~~~~~~p~RVC~~C~~ 206 (400)
||..|.... ..+|. +.+++-.||..|-.
T Consensus 2 fC~~CG~~l~~~ip~--gd~r~R~vC~~Cg~ 30 (34)
T PF14803_consen 2 FCPQCGGPLERRIPE--GDDRERLVCPACGF 30 (34)
T ss_dssp B-TTT--B-EEE--T--T-SS-EEEETTTTE
T ss_pred ccccccChhhhhcCC--CCCccceECCCCCC
Confidence 455554332 23342 34678889999954
No 100
>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=29.06 E-value=26 Score=25.31 Aligned_cols=11 Identities=27% Similarity=0.739 Sum_probs=7.4
Q ss_pred cCccCCcCCCc
Q 015793 152 VCMQCTAPFTA 162 (400)
Q Consensus 152 ~C~~C~~~F~~ 162 (400)
.|..|+..|..
T Consensus 7 ~C~~Cg~~fe~ 17 (52)
T TIGR02605 7 RCTACGHRFEV 17 (52)
T ss_pred EeCCCCCEeEE
Confidence 47777777763
No 101
>KOG3795 consensus Uncharacterized conserved protein [Function unknown]
Probab=28.54 E-value=25 Score=32.87 Aligned_cols=22 Identities=36% Similarity=0.936 Sum_probs=16.4
Q ss_pred CCccccccccccccCc---eEeCCCC
Q 015793 160 FTALTRGRHHCRFCGG---VFCRICT 182 (400)
Q Consensus 160 F~~l~rRrHHCR~CG~---vfC~~CS 182 (400)
|..+ ..||+|+.|+. .||-+|.
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 4433 46899999985 4899996
No 102
>PHA02942 putative transposase; Provisional
Probab=28.14 E-value=45 Score=34.55 Aligned_cols=27 Identities=22% Similarity=0.603 Sum_probs=14.5
Q ss_pred CCcCccCCcCCCccccccccccccCce
Q 015793 150 TTVCMQCTAPFTALTRGRHHCRFCGGV 176 (400)
Q Consensus 150 ~~~C~~C~~~F~~l~rRrHHCR~CG~v 176 (400)
+..|..|+..=..+..|.+.|..||..
T Consensus 325 Sq~Cs~CG~~~~~l~~r~f~C~~CG~~ 351 (383)
T PHA02942 325 SVSCPKCGHKMVEIAHRYFHCPSCGYE 351 (383)
T ss_pred CccCCCCCCccCcCCCCEEECCCCCCE
Confidence 356776665322233455666666664
No 103
>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=27.79 E-value=26 Score=25.58 Aligned_cols=28 Identities=32% Similarity=0.777 Sum_probs=19.4
Q ss_pred cCccCCc-CCCccccccccccccC---ceEeCCCC
Q 015793 152 VCMQCTA-PFTALTRGRHHCRFCG---GVFCRICT 182 (400)
Q Consensus 152 ~C~~C~~-~F~~l~rRrHHCR~CG---~vfC~~CS 182 (400)
.|..|+. ++. -.|.||..|. .-+|..|-
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 4888988 443 4589999997 44666663
No 104
>KOG1813 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=27.76 E-value=42 Score=33.75 Aligned_cols=28 Identities=29% Similarity=0.734 Sum_probs=21.5
Q ss_pred cCccCCcCCCccccccccccccCceEeCCCCCc
Q 015793 152 VCMQCTAPFTALTRGRHHCRFCGGVFCRICTKG 184 (400)
Q Consensus 152 ~C~~C~~~F~~l~rRrHHCR~CG~vfC~~CS~~ 184 (400)
.|.+|++.|-. .---.||+-||..|+..
T Consensus 243 ~c~icr~~f~~-----pVvt~c~h~fc~~ca~~ 270 (313)
T KOG1813|consen 243 KCFICRKYFYR-----PVVTKCGHYFCEVCALK 270 (313)
T ss_pred ccccccccccc-----chhhcCCceeehhhhcc
Confidence 59999998852 22347999999999854
No 105
>PRK12380 hydrogenase nickel incorporation protein HybF; Provisional
Probab=27.71 E-value=27 Score=29.91 Aligned_cols=24 Identities=21% Similarity=0.699 Sum_probs=15.0
Q ss_pred CcCccCCcCCCccccccccccccCc
Q 015793 151 TVCMQCTAPFTALTRGRHHCRFCGG 175 (400)
Q Consensus 151 ~~C~~C~~~F~~l~rRrHHCR~CG~ 175 (400)
-.|..|+..|. +..+..-|..||.
T Consensus 71 ~~C~~Cg~~~~-~~~~~~~CP~Cgs 94 (113)
T PRK12380 71 AWCWDCSQVVE-IHQHDAQCPHCHG 94 (113)
T ss_pred EEcccCCCEEe-cCCcCccCcCCCC
Confidence 57889998887 3323333666653
No 106
>KOG1313 consensus DHHC-type Zn-finger proteins [General function prediction only]
Probab=27.34 E-value=19 Score=35.85 Aligned_cols=24 Identities=29% Similarity=0.847 Sum_probs=18.5
Q ss_pred CCcCccCCcCCCccccccccccccCce
Q 015793 150 TTVCMQCTAPFTALTRGRHHCRFCGGV 176 (400)
Q Consensus 150 ~~~C~~C~~~F~~l~rRrHHCR~CG~v 176 (400)
.+.|..|..+=+ -|-|||+.|++.
T Consensus 102 ~SfC~KC~~pK~---prTHHCsiC~kC 125 (309)
T KOG1313|consen 102 DSFCNKCNYPKS---PRTHHCSICNKC 125 (309)
T ss_pred ccHHhhcCCCCC---CCcchhhHHhhH
Confidence 367889988776 367999988764
No 107
>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=26.70 E-value=31 Score=23.33 Aligned_cols=10 Identities=30% Similarity=0.833 Sum_probs=6.3
Q ss_pred cCccCCcCCC
Q 015793 152 VCMQCTAPFT 161 (400)
Q Consensus 152 ~C~~C~~~F~ 161 (400)
.|..|+..|.
T Consensus 7 ~C~~Cg~~fe 16 (41)
T smart00834 7 RCEDCGHTFE 16 (41)
T ss_pred EcCCCCCEEE
Confidence 4666666665
No 108
>PF14835 zf-RING_6: zf-RING of BARD1-type protein; PDB: 1JM7_B.
Probab=26.65 E-value=41 Score=26.33 Aligned_cols=28 Identities=25% Similarity=0.724 Sum_probs=13.3
Q ss_pred cCccCCcCCCccccccccc-cccCceEeCCCCCc
Q 015793 152 VCMQCTAPFTALTRGRHHC-RFCGGVFCRICTKG 184 (400)
Q Consensus 152 ~C~~C~~~F~~l~rRrHHC-R~CG~vfC~~CS~~ 184 (400)
.|..|.. +. |.-+| -.|.++||+.|.+.
T Consensus 9 rCs~C~~----~l-~~pv~l~~CeH~fCs~Ci~~ 37 (65)
T PF14835_consen 9 RCSICFD----IL-KEPVCLGGCEHIFCSSCIRD 37 (65)
T ss_dssp S-SSS-S-------SS-B---SSS--B-TTTGGG
T ss_pred CCcHHHH----Hh-cCCceeccCccHHHHHHhHH
Confidence 5666654 32 46677 79999999999754
No 109
>COG5273 Uncharacterized protein containing DHHC-type Zn finger [General function prediction only]
Probab=26.58 E-value=31 Score=34.72 Aligned_cols=26 Identities=23% Similarity=0.648 Sum_probs=16.3
Q ss_pred CCCCcCccCCcCCCccccccccccccCce
Q 015793 148 SSTTVCMQCTAPFTALTRGRHHCRFCGGV 176 (400)
Q Consensus 148 ~~~~~C~~C~~~F~~l~rRrHHCR~CG~v 176 (400)
.....|..|+.-=- -|-|||+.|++.
T Consensus 107 ~~~~~C~~C~~~KP---~RS~HC~~Cn~C 132 (309)
T COG5273 107 GTENFCSTCNIYKP---PRSHHCSICNRC 132 (309)
T ss_pred ccceeccccccccC---CCCccchhhcch
Confidence 33467887776222 367888877653
No 110
>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=26.40 E-value=1.1e+02 Score=24.78 Aligned_cols=21 Identities=24% Similarity=0.222 Sum_probs=17.3
Q ss_pred eEEEEEeeceeeEEEecceEE
Q 015793 285 LAILTVAKAGVLVSYKLGTGL 305 (400)
Q Consensus 285 lai~~v~k~Gf~~gg~~G~G~ 305 (400)
..|+|+.+++|.||+..|.+-
T Consensus 6 ~tiIPv~~VsfGfG~Gg~~~~ 26 (83)
T PF09579_consen 6 TTIIPVSKVSFGFGAGGGEGK 26 (83)
T ss_pred EEEEEEEEEEEEEEEeCCCCC
Confidence 578999999999988777753
No 111
>PF03107 C1_2: C1 domain; InterPro: IPR004146 This short domain is rich in cysteines and histidines. The pattern of conservation is similar to that found in DAG_PE-bind (IPR002219 from INTERPRO), therefore we have termed this domain DC1 for divergent C1 domain. This domain probably also binds to two zinc ions. The function of proteins with this domain is uncertain, however this domain may bind to molecules such as diacylglycerol. This family are found in plant proteins.
Probab=26.20 E-value=62 Score=20.95 Aligned_cols=28 Identities=21% Similarity=0.432 Sum_probs=21.4
Q ss_pred cCccCCcCCCccccccccccccCceEeCCC
Q 015793 152 VCMQCTAPFTALTRGRHHCRFCGGVFCRIC 181 (400)
Q Consensus 152 ~C~~C~~~F~~l~rRrHHCR~CG~vfC~~C 181 (400)
.|..|++..+.+. ..+|..|.-.+...|
T Consensus 2 ~C~~C~~~~~~~~--~Y~C~~c~f~lh~~C 29 (30)
T PF03107_consen 2 WCDVCRRKIDGFY--FYHCSECCFTLHVRC 29 (30)
T ss_pred CCCCCCCCcCCCE--eEEeCCCCCeEcCcc
Confidence 5888999887543 688988887776666
No 112
>PF09862 DUF2089: Protein of unknown function (DUF2089); InterPro: IPR018658 This family consists of various hypothetical prokaryotic proteins.
Probab=26.14 E-value=38 Score=29.31 Aligned_cols=25 Identities=24% Similarity=0.551 Sum_probs=19.7
Q ss_pred CccCCcCCCccccccccccccCceEeCC
Q 015793 153 CMQCTAPFTALTRGRHHCRFCGGVFCRI 180 (400)
Q Consensus 153 C~~C~~~F~~l~rRrHHCR~CG~vfC~~ 180 (400)
|..|+.++. + .|.+|.+|+-.+-..
T Consensus 1 CPvCg~~l~-v--t~l~C~~C~t~i~G~ 25 (113)
T PF09862_consen 1 CPVCGGELV-V--TRLKCPSCGTEIEGE 25 (113)
T ss_pred CCCCCCceE-E--EEEEcCCCCCEEEee
Confidence 889999887 4 479999998876554
No 113
>KOG1829 consensus Uncharacterized conserved protein, contains C1, PH and RUN domains [Signal transduction mechanisms]
Probab=26.03 E-value=21 Score=39.01 Aligned_cols=61 Identities=23% Similarity=0.502 Sum_probs=43.0
Q ss_pred CCcCccCCcCCC-ccccccccccccCceEeCCCCCce-eecCccC---CCCcceEecccccccccc
Q 015793 150 TTVCMQCTAPFT-ALTRGRHHCRFCGGVFCRICTKGR-CLLPVRF---RERNPQRVCDACYDRLDP 210 (400)
Q Consensus 150 ~~~C~~C~~~F~-~l~rRrHHCR~CG~vfC~~CS~~~-~~lP~~~---~~~~p~RVC~~C~~~l~~ 210 (400)
.-.|-.|++.+. .+..|-.-|+.+|+-||..|-.+. ..+|.+. ..-++..||+.=...|..
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 455667789999999999997554 3356431 123677888766555543
No 114
>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=25.81 E-value=33 Score=23.55 Aligned_cols=14 Identities=36% Similarity=0.669 Sum_probs=10.0
Q ss_pred cceEeccccccccc
Q 015793 196 NPQRVCDACYDRLD 209 (400)
Q Consensus 196 ~p~RVC~~C~~~l~ 209 (400)
+..-+|+.|-..|.
T Consensus 19 ~~~~~Cd~cg~~L~ 32 (36)
T PF05191_consen 19 KVEGVCDNCGGELV 32 (36)
T ss_dssp SSTTBCTTTTEBEB
T ss_pred CCCCccCCCCCeeE
Confidence 45668888887664
No 115
>PF13445 zf-RING_UBOX: RING-type zinc-finger; PDB: 2CT2_A.
Probab=25.77 E-value=22 Score=25.32 Aligned_cols=31 Identities=29% Similarity=0.672 Sum_probs=13.8
Q ss_pred CccCCcCCCccccccccccccCceEeCCCCCce
Q 015793 153 CMQCTAPFTALTRGRHHCRFCGGVFCRICTKGR 185 (400)
Q Consensus 153 C~~C~~~F~~l~rRrHHCR~CG~vfC~~CS~~~ 185 (400)
|.+|.. |+.- ...--=-.||++||..|..+.
T Consensus 1 CpIc~e-~~~~-~n~P~~L~CGH~~c~~cl~~l 31 (43)
T PF13445_consen 1 CPICKE-FSTE-ENPPMVLPCGHVFCKDCLQKL 31 (43)
T ss_dssp -TTT-----TT-SS-EEE-SSS-EEEHHHHHHH
T ss_pred CCcccc-ccCC-CCCCEEEeCccHHHHHHHHHH
Confidence 667777 6521 111122359999999997543
No 116
>PF06221 zf-C2HC5: Putative zinc finger motif, C2HC5-type; InterPro: IPR009349 Zinc finger (Znf) domains are relatively small protein motifs which contain multiple finger-like protrusions that make tandem contacts with their target molecule. Some of these domains bind zinc, but many do not; instead binding other metals such as iron, or no metal at all. For example, some family members form salt bridges to stabilise the finger-like folds. They were first identified as a DNA-binding motif in transcription factor TFIIIA from Xenopus laevis (African clawed frog), however they are now recognised to bind DNA, RNA, protein and/or lipid substrates [, , , , ]. Their binding properties depend on the amino acid sequence of the finger domains and of the linker between fingers, as well as on the higher-order structures and the number of fingers. Znf domains are often found in clusters, where fingers can have different binding specificities. There are many superfamilies of Znf motifs, varying in both sequence and structure. They display considerable versatility in binding modes, even between members of the same class (e.g. some bind DNA, others protein), suggesting that Znf motifs are stable scaffolds that have evolved specialised functions. For example, Znf-containing proteins function in gene transcription, translation, mRNA trafficking, cytoskeleton organisation, epithelial development, cell adhesion, protein folding, chromatin remodelling and zinc sensing, to name but a few []. Zinc-binding motifs are stable structures, and they rarely undergo conformational changes upon binding their target. This zinc finger appears to be common in activating signal cointegrator 1/thyroid receptor interacting protein 4. 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, 0005634 nucleus
Probab=25.47 E-value=35 Score=26.02 Aligned_cols=29 Identities=28% Similarity=0.587 Sum_probs=19.8
Q ss_pred cccccccCceEeCCCCCceeecCccCCCCcceEeccccccccc
Q 015793 167 RHHCRFCGGVFCRICTKGRCLLPVRFRERNPQRVCDACYDRLD 209 (400)
Q Consensus 167 rHHCR~CG~vfC~~CS~~~~~lP~~~~~~~p~RVC~~C~~~l~ 209 (400)
.-+|-+||+|+|..=. |.-.|..|-..|-
T Consensus 18 ~~NCl~CGkIiC~~Eg--------------~~~pC~fCg~~l~ 46 (57)
T PF06221_consen 18 APNCLNCGKIICEQEG--------------PLGPCPFCGTPLL 46 (57)
T ss_pred cccccccChhhccccc--------------CcCcCCCCCCccc
Confidence 4789999999987521 2455777765543
No 117
>COG1198 PriA Primosomal protein N' (replication factor Y) - superfamily II helicase [DNA replication, recombination, and repair]
Probab=25.02 E-value=43 Score=37.79 Aligned_cols=10 Identities=40% Similarity=1.085 Sum_probs=5.9
Q ss_pred cCccCCcCCC
Q 015793 152 VCMQCTAPFT 161 (400)
Q Consensus 152 ~C~~C~~~F~ 161 (400)
.|..|..+++
T Consensus 446 ~Cp~Cd~~lt 455 (730)
T COG1198 446 ECPNCDSPLT 455 (730)
T ss_pred cCCCCCcceE
Confidence 4666666555
No 118
>COG1327 Predicted transcriptional regulator, consists of a Zn-ribbon and ATP-cone domains [Transcription]
Probab=24.91 E-value=37 Score=30.92 Aligned_cols=26 Identities=23% Similarity=0.328 Sum_probs=13.4
Q ss_pred HHHHHhHHHHHhhhcccCCCCCccchhhh
Q 015793 251 EIYKASNTLRSYCQVAESNPERSIPLAVL 279 (400)
Q Consensus 251 EV~kAa~tL~~~~~~~~~~p~~~iP~~~l 279 (400)
.|..+++-+..-+ ....+.+||.+.+
T Consensus 83 ~ie~~v~~ie~~L---r~~g~~EV~S~~I 108 (156)
T COG1327 83 QIEEAVSHIERQL---RSSGEREVPSKEI 108 (156)
T ss_pred HHHHHHHHHHHHH---HhcCCCCCCHHHH
Confidence 5666655544333 2345566766543
No 119
>PRK14559 putative protein serine/threonine phosphatase; Provisional
Probab=24.73 E-value=55 Score=36.40 Aligned_cols=49 Identities=22% Similarity=0.589 Sum_probs=35.1
Q ss_pred CcCccCCcCCCccccccccccccCce----EeCCCCCceeecCccCCCCcceEeccccccccccc
Q 015793 151 TVCMQCTAPFTALTRGRHHCRFCGGV----FCRICTKGRCLLPVRFRERNPQRVCDACYDRLDPL 211 (400)
Q Consensus 151 ~~C~~C~~~F~~l~rRrHHCR~CG~v----fC~~CS~~~~~lP~~~~~~~p~RVC~~C~~~l~~~ 211 (400)
..|..|+..-. ..-.-|..||.- .|..|... +| ...+.|..|-..+...
T Consensus 2 ~~Cp~Cg~~n~---~~akFC~~CG~~l~~~~Cp~CG~~---~~------~~~~fC~~CG~~~~~~ 54 (645)
T PRK14559 2 LICPQCQFENP---NNNRFCQKCGTSLTHKPCPQCGTE---VP------VDEAHCPNCGAETGTI 54 (645)
T ss_pred CcCCCCCCcCC---CCCccccccCCCCCCCcCCCCCCC---CC------cccccccccCCcccch
Confidence 36999998754 235679999987 58888643 23 3578999998776544
No 120
>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=24.26 E-value=52 Score=29.23 Aligned_cols=18 Identities=22% Similarity=0.536 Sum_probs=12.1
Q ss_pred ccCCCCCcCccCCcCCCc
Q 015793 145 LPDSSTTVCMQCTAPFTA 162 (400)
Q Consensus 145 ~pd~~~~~C~~C~~~F~~ 162 (400)
..+..-+.|..|+.++-.
T Consensus 86 ~~~~~~sRC~~CN~~L~~ 103 (147)
T PF01927_consen 86 RLDPIFSRCPKCNGPLRP 103 (147)
T ss_pred ccCCCCCccCCCCcEeee
Confidence 344445789999986653
No 121
>KOG4739 consensus Uncharacterized protein involved in synaptonemal complex formation [Cell cycle control, cell division, chromosome partitioning; General function prediction only]
Probab=24.14 E-value=37 Score=33.01 Aligned_cols=44 Identities=25% Similarity=0.554 Sum_probs=27.8
Q ss_pred cCccCCcCCCccccccccccccCceEeCCCCCceeecCccCCCCcceEeccccccccc
Q 015793 152 VCMQCTAPFTALTRGRHHCRFCGGVFCRICTKGRCLLPVRFRERNPQRVCDACYDRLD 209 (400)
Q Consensus 152 ~C~~C~~~F~~l~rRrHHCR~CG~vfC~~CS~~~~~lP~~~~~~~p~RVC~~C~~~l~ 209 (400)
.|..|...=+ ...-+=-.|++|||..|...- . -++|..|...+.
T Consensus 5 hCn~C~~~~~---~~~f~LTaC~HvfC~~C~k~~--~---------~~~C~lCkk~ir 48 (233)
T KOG4739|consen 5 HCNKCFRFPS---QDPFFLTACRHVFCEPCLKAS--S---------PDVCPLCKKSIR 48 (233)
T ss_pred EeccccccCC---CCceeeeechhhhhhhhcccC--C---------ccccccccceee
Confidence 5777766222 223444589999999997431 1 129999987643
No 122
>PRK14714 DNA polymerase II large subunit; Provisional
Probab=23.95 E-value=83 Score=37.59 Aligned_cols=51 Identities=29% Similarity=0.647 Sum_probs=33.3
Q ss_pred CcCccCCcCCCccccccccccccCce-----EeCCCCCceeecCccCCCCcceEecccccccccccc
Q 015793 151 TVCMQCTAPFTALTRGRHHCRFCGGV-----FCRICTKGRCLLPVRFRERNPQRVCDACYDRLDPLQ 212 (400)
Q Consensus 151 ~~C~~C~~~F~~l~rRrHHCR~CG~v-----fC~~CS~~~~~lP~~~~~~~p~RVC~~C~~~l~~~q 212 (400)
..|..|+.. + . ...|..||.. +|..|-.. ++.. ... ...|..|-..+.+.+
T Consensus 668 rkCPkCG~~-t-~---~~fCP~CGs~te~vy~CPsCGae---v~~d--es~-a~~CP~CGtplv~~~ 723 (1337)
T PRK14714 668 RRCPSCGTE-T-Y---ENRCPDCGTHTEPVYVCPDCGAE---VPPD--ESG-RVECPRCDVELTPYQ 723 (1337)
T ss_pred EECCCCCCc-c-c---cccCcccCCcCCCceeCccCCCc---cCCC--ccc-cccCCCCCCcccccc
Confidence 689999984 2 1 2489999965 59999653 2211 122 567999987665543
No 123
>KOG2932 consensus E3 ubiquitin ligase involved in ubiquitination of E-cadherin complex [Posttranslational modification, protein turnover, chaperones]
Probab=23.92 E-value=23 Score=35.84 Aligned_cols=50 Identities=24% Similarity=0.707 Sum_probs=35.6
Q ss_pred CCcCccCCcCCCccccccccccccCceEeCCCCCceeecCccCCCCcceEeccccccccccccch
Q 015793 150 TTVCMQCTAPFTALTRGRHHCRFCGGVFCRICTKGRCLLPVRFRERNPQRVCDACYDRLDPLQGV 214 (400)
Q Consensus 150 ~~~C~~C~~~F~~l~rRrHHCR~CG~vfC~~CS~~~~~lP~~~~~~~p~RVC~~C~~~l~~~q~~ 214 (400)
++.|..|..+.- +.-|-- -|-+|||-.|..- .+.+.|-.|-+.++.++..
T Consensus 90 VHfCd~Cd~PI~-IYGRmI---PCkHvFCl~CAr~-----------~~dK~Cp~C~d~VqrIeq~ 139 (389)
T KOG2932|consen 90 VHFCDRCDFPIA-IYGRMI---PCKHVFCLECARS-----------DSDKICPLCDDRVQRIEQI 139 (389)
T ss_pred eEeecccCCcce-eeeccc---ccchhhhhhhhhc-----------CccccCcCcccHHHHHHHh
Confidence 678999999887 444444 4567999999632 3477888898887665543
No 124
>PRK05978 hypothetical protein; Provisional
Probab=23.89 E-value=43 Score=30.33 Aligned_cols=26 Identities=31% Similarity=0.671 Sum_probs=14.2
Q ss_pred CcCccCCc--CCCccccccccccccCce
Q 015793 151 TVCMQCTA--PFTALTRGRHHCRFCGGV 176 (400)
Q Consensus 151 ~~C~~C~~--~F~~l~rRrHHCR~CG~v 176 (400)
..|..|++ -|..+.+=+.+|.+||.-
T Consensus 34 grCP~CG~G~LF~g~Lkv~~~C~~CG~~ 61 (148)
T PRK05978 34 GRCPACGEGKLFRAFLKPVDHCAACGED 61 (148)
T ss_pred CcCCCCCCCcccccccccCCCccccCCc
Confidence 45666665 243333335666666654
No 125
>COG1645 Uncharacterized Zn-finger containing protein [General function prediction only]
Probab=23.69 E-value=42 Score=29.79 Aligned_cols=24 Identities=42% Similarity=0.909 Sum_probs=17.7
Q ss_pred CcCccCCcCCCccccccccccccCceEeCCCCC
Q 015793 151 TVCMQCTAPFTALTRGRHHCRFCGGVFCRICTK 183 (400)
Q Consensus 151 ~~C~~C~~~F~~l~rRrHHCR~CG~vfC~~CS~ 183 (400)
.+|..|+.+ ||+ .=|.|||..|-.
T Consensus 29 ~hCp~Cg~P---LF~------KdG~v~CPvC~~ 52 (131)
T COG1645 29 KHCPKCGTP---LFR------KDGEVFCPVCGY 52 (131)
T ss_pred hhCcccCCc---cee------eCCeEECCCCCc
Confidence 579999985 343 348999999963
No 126
>PF11781 RRN7: RNA polymerase I-specific transcription initiation factor Rrn7; InterPro: IPR021752 Rrn7 is a transcription binding factor that associates strongly with both Rrn6 and Rrn11 to form a complex which itself binds the TATA-binding protein and is required for transcription by the core domain of the RNA PolI promoter [],[].
Probab=22.74 E-value=37 Score=23.29 Aligned_cols=24 Identities=25% Similarity=0.513 Sum_probs=12.0
Q ss_pred cCccCCcCCCccccccccccccCc
Q 015793 152 VCMQCTAPFTALTRGRHHCRFCGG 175 (400)
Q Consensus 152 ~C~~C~~~F~~l~rRrHHCR~CG~ 175 (400)
.|..|+..|......+.-|..||.
T Consensus 10 ~C~~C~~~~~~~~dG~~yC~~cG~ 33 (36)
T PF11781_consen 10 PCPVCGSRWFYSDDGFYYCDRCGH 33 (36)
T ss_pred cCCCCCCeEeEccCCEEEhhhCce
Confidence 366666664433333444444444
No 127
>KOG2593 consensus Transcription initiation factor IIE, alpha subunit [Transcription]
Probab=22.71 E-value=36 Score=35.82 Aligned_cols=35 Identities=34% Similarity=0.743 Sum_probs=25.5
Q ss_pred CCCcCccCCcCCCcc--------ccccccccccCceEeCCCCC
Q 015793 149 STTVCMQCTAPFTAL--------TRGRHHCRFCGGVFCRICTK 183 (400)
Q Consensus 149 ~~~~C~~C~~~F~~l--------~rRrHHCR~CG~vfC~~CS~ 183 (400)
..-.|+.|+++|+.| -....||-+||.-+=..|+.
T Consensus 127 ~~Y~Cp~C~kkyt~Lea~~L~~~~~~~F~C~~C~gelveDe~~ 169 (436)
T KOG2593|consen 127 AGYVCPNCQKKYTSLEALQLLDNETGEFHCENCGGELVEDENK 169 (436)
T ss_pred ccccCCccccchhhhHHHHhhcccCceEEEecCCCchhccccc
Confidence 346799999999754 13578888888877666653
No 128
>PF00097 zf-C3HC4: Zinc finger, C3HC4 type (RING finger); InterPro: IPR018957 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 C3HC4 type zinc-finger (RING finger) is a cysteine-rich domain of 40 to 60 residues that coordinates two zinc ions, and has the consensus sequence: C-X2-C-X(9-39)-C-X(1-3)-H-X(2-3)-C-X2-C-X(4-48)-C-X2-C where X is any amino acid []. Many proteins containing a RING finger play a key role in the ubiquitination pathway []. More information about these proteins can be found at Protein of the Month: Zinc Fingers [].; PDB: 1CHC_A 2ECW_A 2Y43_B 1V87_A 2DJB_A 2H0D_B 3RPG_C 3KNV_A 2CKL_B 1JM7_A ....
Probab=22.51 E-value=30 Score=23.34 Aligned_cols=29 Identities=34% Similarity=0.723 Sum_probs=20.1
Q ss_pred CccCCcCCCccccccccccccCceEeCCCCCce
Q 015793 153 CMQCTAPFTALTRGRHHCRFCGGVFCRICTKGR 185 (400)
Q Consensus 153 C~~C~~~F~~l~rRrHHCR~CG~vfC~~CS~~~ 185 (400)
|.+|...|..- ..-..||+.||..|....
T Consensus 1 C~iC~~~~~~~----~~~~~C~H~fC~~C~~~~ 29 (41)
T PF00097_consen 1 CPICLEPFEDP----VILLPCGHSFCRDCLRKW 29 (41)
T ss_dssp ETTTSSBCSSE----EEETTTSEEEEHHHHHHH
T ss_pred CCcCCccccCC----CEEecCCCcchHHHHHHH
Confidence 56777766521 135689999999997654
No 129
>PF13912 zf-C2H2_6: C2H2-type zinc finger; PDB: 1JN7_A 1FU9_A 2L1O_A 1NJQ_A 2EN8_A 2EMM_A 1FV5_A 1Y0J_B 2L6Z_B.
Probab=22.51 E-value=22 Score=21.84 Aligned_cols=11 Identities=27% Similarity=0.848 Sum_probs=8.6
Q ss_pred cCccCCcCCCc
Q 015793 152 VCMQCTAPFTA 162 (400)
Q Consensus 152 ~C~~C~~~F~~ 162 (400)
.|..|++.|..
T Consensus 3 ~C~~C~~~F~~ 13 (27)
T PF13912_consen 3 ECDECGKTFSS 13 (27)
T ss_dssp EETTTTEEESS
T ss_pred CCCccCCccCC
Confidence 58888888864
No 130
>PRK12496 hypothetical protein; Provisional
Probab=22.31 E-value=53 Score=29.98 Aligned_cols=23 Identities=26% Similarity=0.748 Sum_probs=13.1
Q ss_pred cCccCCcCCCccccccccccccCc
Q 015793 152 VCMQCTAPFTALTRGRHHCRFCGG 175 (400)
Q Consensus 152 ~C~~C~~~F~~l~rRrHHCR~CG~ 175 (400)
.|.+|++.|. ...-+.-|..||.
T Consensus 129 ~C~gC~~~~~-~~~~~~~C~~CG~ 151 (164)
T PRK12496 129 VCKGCKKKYP-EDYPDDVCEICGS 151 (164)
T ss_pred ECCCCCcccc-CCCCCCcCCCCCC
Confidence 5777777775 2222345666664
No 131
>TIGR00599 rad18 DNA repair protein rad18. This family is based on the phylogenomic analysis of JA Eisen (1999, Ph.D. Thesis, Stanford University).
Probab=22.06 E-value=46 Score=34.85 Aligned_cols=47 Identities=21% Similarity=0.507 Sum_probs=31.7
Q ss_pred CCCcCccCCcCCCccccccccccccCceEeCCCCCceeecCccCCCCcceEeccccccccc
Q 015793 149 STTVCMQCTAPFTALTRGRHHCRFCGGVFCRICTKGRCLLPVRFRERNPQRVCDACYDRLD 209 (400)
Q Consensus 149 ~~~~C~~C~~~F~~l~rRrHHCR~CG~vfC~~CS~~~~~lP~~~~~~~p~RVC~~C~~~l~ 209 (400)
..-.|.+|...|.. .---.||+.||..|-.... . ....|-.|...+.
T Consensus 25 ~~l~C~IC~d~~~~-----PvitpCgH~FCs~CI~~~l--~-------~~~~CP~Cr~~~~ 71 (397)
T TIGR00599 25 TSLRCHICKDFFDV-----PVLTSCSHTFCSLCIRRCL--S-------NQPKCPLCRAEDQ 71 (397)
T ss_pred cccCCCcCchhhhC-----ccCCCCCCchhHHHHHHHH--h-------CCCCCCCCCCccc
Confidence 34689999987642 2346899999999976431 1 1236888876654
No 132
>TIGR00311 aIF-2beta translation initiation factor aIF-2, beta subunit, putative.
Probab=22.01 E-value=47 Score=29.49 Aligned_cols=25 Identities=28% Similarity=0.797 Sum_probs=17.1
Q ss_pred CcCccCCcCCCcccc--cc--ccccccCc
Q 015793 151 TVCMQCTAPFTALTR--GR--HHCRFCGG 175 (400)
Q Consensus 151 ~~C~~C~~~F~~l~r--Rr--HHCR~CG~ 175 (400)
-.|..|+.+-+.|.+ |. .+|..||.
T Consensus 98 VlC~~C~sPdT~l~k~~r~~~l~C~ACGa 126 (133)
T TIGR00311 98 VICRECNRPDTRIIKEGRVSLLKCEACGA 126 (133)
T ss_pred EECCCCCCCCcEEEEeCCeEEEecccCCC
Confidence 469999999887654 22 36666665
No 133
>PRK03824 hypA hydrogenase nickel incorporation protein; Provisional
Probab=21.95 E-value=41 Score=29.73 Aligned_cols=10 Identities=20% Similarity=0.783 Sum_probs=5.6
Q ss_pred cCccCCcCCC
Q 015793 152 VCMQCTAPFT 161 (400)
Q Consensus 152 ~C~~C~~~F~ 161 (400)
.|..|+..|.
T Consensus 72 ~C~~CG~~~~ 81 (135)
T PRK03824 72 KCRNCGNEWS 81 (135)
T ss_pred ECCCCCCEEe
Confidence 4556665554
No 134
>PRK14873 primosome assembly protein PriA; Provisional
Probab=21.87 E-value=46 Score=37.09 Aligned_cols=26 Identities=23% Similarity=0.336 Sum_probs=13.9
Q ss_pred CHHHHHHHhhcCceEEccceeEEeecccc
Q 015793 345 DSKAVKTFCSRLHFSLGAGCSAAAGPIGR 373 (400)
Q Consensus 345 t~~al~~f~~~~~~~lG~~~s~aaGp~G~ 373 (400)
+.++++.|... +.+..+ .-..||+-.
T Consensus 579 ~~~~~~~~~~~--~~~~~~-~~vlGPvp~ 604 (665)
T PRK14873 579 RPAAVAALLEA--AGLPDG-AEVLGPVPL 604 (665)
T ss_pred cHHHHHHHHHH--hcCCCC-CEEECCcCC
Confidence 45788888763 333222 245676633
No 135
>smart00291 ZnF_ZZ Zinc-binding domain, present in Dystrophin, CREB-binding protein. Putative zinc-binding domain present in dystrophin-like proteins, and CREB-binding protein/p300 homologues. The ZZ in dystrophin appears to bind calmodulin. A missense mutation of one of the conserved cysteines in dystrophin results in a patient with Duchenne muscular dystrophy [3].
Probab=21.76 E-value=53 Score=23.14 Aligned_cols=28 Identities=32% Similarity=0.828 Sum_probs=18.5
Q ss_pred CcCccCCcCCCccccccccccccCc-eEeCCC
Q 015793 151 TVCMQCTAPFTALTRGRHHCRFCGG-VFCRIC 181 (400)
Q Consensus 151 ~~C~~C~~~F~~l~rRrHHCR~CG~-vfC~~C 181 (400)
..|..|++++. ..|.||..|.. -+|..|
T Consensus 5 ~~C~~C~~~i~---g~ry~C~~C~d~dlC~~C 33 (44)
T smart00291 5 YSCDTCGKPIV---GVRYHCLVCPDYDLCQSC 33 (44)
T ss_pred cCCCCCCCCCc---CCEEECCCCCCccchHHH
Confidence 56999999554 45788888733 245555
No 136
>PF15227 zf-C3HC4_4: zinc finger of C3HC4-type, RING; PDB: 2EGP_A 2ECV_A 2ECJ_A 2YSL_A 2YSJ_A.
Probab=21.70 E-value=32 Score=24.13 Aligned_cols=28 Identities=32% Similarity=0.689 Sum_probs=17.6
Q ss_pred CccCCcCCCccccccccccccCceEeCCCCCce
Q 015793 153 CMQCTAPFTALTRGRHHCRFCGGVFCRICTKGR 185 (400)
Q Consensus 153 C~~C~~~F~~l~rRrHHCR~CG~vfC~~CS~~~ 185 (400)
|.+|..-|. +-.=-.||+.||..|....
T Consensus 1 CpiC~~~~~-----~Pv~l~CGH~FC~~Cl~~~ 28 (42)
T PF15227_consen 1 CPICLDLFK-----DPVSLPCGHSFCRSCLERL 28 (42)
T ss_dssp ETTTTSB-S-----SEEE-SSSSEEEHHHHHHH
T ss_pred CCccchhhC-----CccccCCcCHHHHHHHHHH
Confidence 556766553 1222479999999997654
No 137
>PHA02929 N1R/p28-like protein; Provisional
Probab=21.47 E-value=29 Score=33.82 Aligned_cols=53 Identities=19% Similarity=0.303 Sum_probs=32.1
Q ss_pred CCCCcCccCCcCCCccc---cccccccccCceEeCCCCCceeecCccCCCCcceEeccccccccc
Q 015793 148 SSTTVCMQCTAPFTALT---RGRHHCRFCGGVFCRICTKGRCLLPVRFRERNPQRVCDACYDRLD 209 (400)
Q Consensus 148 ~~~~~C~~C~~~F~~l~---rRrHHCR~CG~vfC~~CS~~~~~lP~~~~~~~p~RVC~~C~~~l~ 209 (400)
+....|..|...|..=- ++--.=-.||++||..|-.... +....|-.|...+.
T Consensus 172 ~~~~eC~ICle~~~~~~~~~~~~~vl~~C~H~FC~~CI~~Wl---------~~~~tCPlCR~~~~ 227 (238)
T PHA02929 172 SKDKECAICMEKVYDKEIKNMYFGILSNCNHVFCIECIDIWK---------KEKNTCPVCRTPFI 227 (238)
T ss_pred CCCCCCccCCcccccCccccccceecCCCCCcccHHHHHHHH---------hcCCCCCCCCCEee
Confidence 34578999999764100 0001123699999999986542 12336777776654
No 138
>PRK03681 hypA hydrogenase nickel incorporation protein; Validated
Probab=21.25 E-value=44 Score=28.65 Aligned_cols=25 Identities=32% Similarity=0.626 Sum_probs=14.0
Q ss_pred CcCccCCcCCCccccccccccccCc
Q 015793 151 TVCMQCTAPFTALTRGRHHCRFCGG 175 (400)
Q Consensus 151 ~~C~~C~~~F~~l~rRrHHCR~CG~ 175 (400)
-.|..|+..|.......-.|..||.
T Consensus 71 ~~C~~Cg~~~~~~~~~~~~CP~Cgs 95 (114)
T PRK03681 71 CWCETCQQYVTLLTQRVRRCPQCHG 95 (114)
T ss_pred EEcccCCCeeecCCccCCcCcCcCC
Confidence 5788888887632111123666653
No 139
>COG1998 RPS31 Ribosomal protein S27AE [Translation, ribosomal structure and biogenesis]
Probab=20.45 E-value=61 Score=24.13 Aligned_cols=25 Identities=32% Similarity=0.681 Sum_probs=12.0
Q ss_pred CcCccCCc-CCCccccccccccccCc
Q 015793 151 TVCMQCTA-PFTALTRGRHHCRFCGG 175 (400)
Q Consensus 151 ~~C~~C~~-~F~~l~rRrHHCR~CG~ 175 (400)
..|..|+. .|-..-..|.+|-.||.
T Consensus 20 ~~CPrCG~gvfmA~H~dR~~CGkCgy 45 (51)
T COG1998 20 RFCPRCGPGVFMADHKDRWACGKCGY 45 (51)
T ss_pred ccCCCCCCcchhhhcCceeEeccccc
Confidence 45666764 34322223455555553
No 140
>KOG2807 consensus RNA polymerase II transcription initiation/nucleotide excision repair factor TFIIH, subunit SSL1 [Transcription; Replication, recombination and repair]
Probab=20.45 E-value=64 Score=32.97 Aligned_cols=37 Identities=27% Similarity=0.696 Sum_probs=26.5
Q ss_pred cccCCCCCcCccCCcCCCccccccccccccCceEeCCCC
Q 015793 144 WLPDSSTTVCMQCTAPFTALTRGRHHCRFCGGVFCRICT 182 (400)
Q Consensus 144 W~pd~~~~~C~~C~~~F~~l~rRrHHCR~CG~vfC~~CS 182 (400)
|........|..|+..-. ..-+..|+.|-.+||..|-
T Consensus 324 ~~~~~~~~~Cf~C~~~~~--~~~~y~C~~Ck~~FCldCD 360 (378)
T KOG2807|consen 324 ETEYNGSRFCFACQGELL--SSGRYRCESCKNVFCLDCD 360 (378)
T ss_pred ccccCCCcceeeeccccC--CCCcEEchhccceeeccch
Confidence 444444566999954433 3457999999999999994
No 141
>PF01428 zf-AN1: AN1-like Zinc finger; InterPro: IPR000058 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 AN1-type zinc finger domain, which has a dimetal (zinc)-bound alpha/beta fold. This domain was first identified as a zinc finger at the C terminus of AN1 Q91889 from SWISSPROT, a ubiquitin-like protein in Xenopus laevis []. The AN1-type zinc finger contains six conserved cysteines and two histidines that could potentially coordinate 2 zinc atoms. Certain stress-associated proteins (SAP) contain AN1 domain, often in combination with A20 zinc finger domains (SAP8) or C2H2 domains (SAP16) []. For example, the human protein Znf216 has an A20 zinc-finger at the N terminus and an AN1 zinc-finger at the C terminus, acting to negatively regulate the NFkappaB activation pathway and to interact with components of the immune response like RIP, IKKgamma and TRAF6. The interact of Znf216 with IKK-gamma and RIP is mediated by the A20 zinc-finger domain, while its interaction with TRAF6 is mediated by the AN1 zinc-finger domain; therefore, both zinc-finger domains are involved in regulating the immune response []. The AN1 zinc finger domain is also found in proteins containing a ubiquitin-like domain, which are involved in the ubiquitination pathway []. Proteins containing an AN1-type zinc finger include: Ascidian posterior end mark 6 (pem-6) protein []. Human AWP1 protein (associated with PRK1), which is expressed during early embryogenesis []. Human immunoglobulin mu binding protein 2 (SMUBP-2), mutations in which cause muscular atrophy with respiratory distress type 1 []. More information about these proteins can be found at Protein of the Month: Zinc Fingers [].; GO: 0008270 zinc ion binding; PDB: 1WFP_A 1WYS_A 1WG2_A 1WFH_A 1X4W_A 1WFE_A 1WFL_A 1X4V_A.
Probab=20.15 E-value=58 Score=22.87 Aligned_cols=22 Identities=32% Similarity=0.765 Sum_probs=11.9
Q ss_pred CCcCCCccccccccccccCceEeCCC
Q 015793 156 CTAPFTALTRGRHHCRFCGGVFCRIC 181 (400)
Q Consensus 156 C~~~F~~l~rRrHHCR~CG~vfC~~C 181 (400)
|++.-. + ...|+.|++.||...
T Consensus 6 C~~~~~-~---~~~C~~C~~~FC~~H 27 (43)
T PF01428_consen 6 CKKKDF-L---PFKCKHCGKSFCLKH 27 (43)
T ss_dssp T--BCT-S---HEE-TTTS-EE-TTT
T ss_pred CcCccC-C---CeECCCCCcccCccc
Confidence 666433 2 367999999999876
No 142
>PRK11595 DNA utilization protein GntX; Provisional
Probab=20.14 E-value=26 Score=33.33 Aligned_cols=30 Identities=23% Similarity=0.682 Sum_probs=21.1
Q ss_pred CcCccCCcCCCccccccccccccCce------EeCCCCC
Q 015793 151 TVCMQCTAPFTALTRGRHHCRFCGGV------FCRICTK 183 (400)
Q Consensus 151 ~~C~~C~~~F~~l~rRrHHCR~CG~v------fC~~CS~ 183 (400)
..|..|...+.. . .++|..||+. +|..|..
T Consensus 21 ~lC~~C~~~l~~-~--~~~C~~Cg~~~~~~~~~C~~C~~ 56 (227)
T PRK11595 21 GICSVCSRALRT-L--KTCCPQCGLPATHPHLPCGRCLQ 56 (227)
T ss_pred cccHHHHhhCCc-c--cCcCccCCCcCCCCCCCcHHHHc
Confidence 368888888773 2 4789999874 3666654
No 143
>PF09723 Zn-ribbon_8: Zinc ribbon domain; InterPro: IPR013429 This entry 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=20.08 E-value=45 Score=23.37 Aligned_cols=10 Identities=20% Similarity=0.471 Sum_probs=4.9
Q ss_pred ceEecccccc
Q 015793 197 PQRVCDACYD 206 (400)
Q Consensus 197 p~RVC~~C~~ 206 (400)
+.-.|-.|-.
T Consensus 25 ~~~~CP~Cg~ 34 (42)
T PF09723_consen 25 DPVPCPECGS 34 (42)
T ss_pred CCCcCCCCCC
Confidence 4445555544
Done!