Query 012738
Match_columns 457
No_of_seqs 359 out of 1765
Neff 6.0
Searched_HMMs 46136
Date Fri Mar 29 05:47:50 2013
Command hhsearch -i /work/01045/syshi/csienesis_hhblits_a3m/012738.a3m -d /work/01045/syshi/HHdatabase/Cdd.hhm -o /work/01045/syshi/hhsearch_cdd/012738hhsearch_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 5.1E-61 1.1E-65 481.7 8.1 414 20-456 51-465 (473)
2 COG2930 Uncharacterized conser 100.0 2.5E-52 5.5E-57 384.2 16.1 209 241-450 11-221 (227)
3 PF04366 DUF500: Family of unk 100.0 1.2E-34 2.7E-39 256.8 13.4 126 323-451 1-126 (126)
4 KOG1843 Uncharacterized conser 100.0 2.5E-33 5.5E-38 282.3 6.1 214 241-455 4-218 (473)
5 PF01363 FYVE: FYVE zinc finge 99.7 2.1E-19 4.6E-24 142.7 1.2 67 142-209 1-68 (69)
6 smart00064 FYVE Protein presen 99.6 6.8E-17 1.5E-21 128.0 3.3 66 142-209 2-67 (68)
7 KOG1729 FYVE finger containing 99.6 2.5E-16 5.5E-21 156.9 -0.1 71 137-210 155-226 (288)
8 PTZ00303 phosphatidylinositol 99.5 1.8E-15 3.9E-20 162.4 3.5 72 139-210 448-531 (1374)
9 KOG1818 Membrane trafficking a 99.5 3.9E-15 8.5E-20 159.9 1.9 68 138-210 156-223 (634)
10 KOG1819 FYVE finger-containing 99.5 1.1E-14 2.3E-19 150.8 2.3 69 139-209 890-963 (990)
11 cd00065 FYVE FYVE domain; Zinc 99.3 4.8E-13 1E-17 102.1 2.9 55 150-206 2-56 (57)
12 KOG1842 FYVE finger-containing 99.2 1.3E-12 2.8E-17 134.3 -2.6 74 135-209 165-259 (505)
13 KOG1841 Smad anchor for recept 99.2 1.8E-11 4E-16 136.6 4.5 65 137-204 544-608 (1287)
14 KOG1409 Uncharacterized conser 99.0 1.2E-10 2.5E-15 117.2 0.6 119 115-241 248-380 (404)
15 KOG4424 Predicted Rho/Rac guan 98.5 4E-08 8.7E-13 104.5 0.6 114 142-259 409-537 (623)
16 KOG1811 Predicted Zn2+-binding 97.9 1.3E-06 2.7E-11 93.7 -2.0 69 137-207 309-382 (1141)
17 KOG0230 Phosphatidylinositol-4 97.4 0.00011 2.3E-09 85.9 3.2 55 148-215 3-57 (1598)
18 PF02318 FYVE_2: FYVE-type zin 96.7 0.00091 2E-08 58.8 2.2 51 150-208 54-104 (118)
19 KOG0230 Phosphatidylinositol-4 96.1 0.0021 4.5E-08 75.6 1.2 34 145-181 92-125 (1598)
20 PF06577 DUF1134: Protein of u 96.0 0.041 8.9E-07 50.5 8.7 119 283-416 38-158 (160)
21 KOG1729 FYVE finger containing 92.5 0.023 4.9E-07 57.5 -1.4 67 140-207 10-81 (288)
22 KOG1841 Smad anchor for recept 92.1 0.13 2.8E-06 59.7 3.8 57 139-210 646-702 (1287)
23 COG5400 Uncharacterized protei 88.8 1.6 3.6E-05 40.8 7.2 109 290-416 90-203 (205)
24 KOG0320 Predicted E3 ubiquitin 85.5 0.099 2.1E-06 49.1 -2.7 51 150-212 131-181 (187)
25 COG3874 Uncharacterized conser 83.2 2 4.3E-05 38.5 4.6 48 250-304 8-55 (138)
26 TIGR00622 ssl1 transcription f 82.9 1.1 2.3E-05 39.4 2.8 40 144-183 49-97 (112)
27 PRK00464 nrdR transcriptional 82.6 0.67 1.4E-05 42.9 1.5 26 152-177 2-38 (154)
28 KOG0993 Rab5 GTPase effector R 82.1 0.025 5.4E-07 59.0 -8.9 66 142-211 460-527 (542)
29 PF09538 FYDLN_acid: Protein o 81.0 1.1 2.4E-05 39.0 2.2 33 142-177 4-36 (108)
30 TIGR02300 FYDLN_acid conserved 78.8 1.4 3E-05 39.5 2.1 33 142-177 4-36 (129)
31 PF07975 C1_4: TFIIH C1-like d 75.2 0.62 1.3E-05 35.3 -0.9 31 152-182 1-36 (51)
32 PF13717 zinc_ribbon_4: zinc-r 71.8 2.3 5E-05 29.7 1.3 26 152-177 4-35 (36)
33 KOG1314 DHHC-type Zn-finger pr 71.5 1.4 3E-05 45.7 0.2 36 138-176 74-114 (414)
34 KOG0317 Predicted E3 ubiquitin 67.7 1.3 2.8E-05 44.7 -0.8 49 150-212 239-287 (293)
35 PF13719 zinc_ribbon_5: zinc-r 66.6 3.5 7.5E-05 28.8 1.4 26 152-177 4-35 (37)
36 smart00154 ZnF_AN1 AN1-like Zi 64.5 4.3 9.4E-05 28.8 1.5 26 153-181 1-26 (39)
37 KOG3576 Ovo and related transc 63.4 1.4 3E-05 42.6 -1.5 36 145-181 112-159 (267)
38 PRK00420 hypothetical protein; 63.0 5.2 0.00011 35.2 2.1 25 151-183 24-48 (112)
39 PRK00432 30S ribosomal protein 61.6 6.6 0.00014 29.5 2.2 27 151-177 21-47 (50)
40 KOG4275 Predicted E3 ubiquitin 61.4 1 2.2E-05 45.5 -2.9 49 148-207 42-90 (350)
41 PF14634 zf-RING_5: zinc-RING 61.2 1.7 3.8E-05 31.2 -1.0 32 152-185 1-32 (44)
42 PF12773 DZR: Double zinc ribb 58.0 7.5 0.00016 28.4 1.9 27 149-175 11-37 (50)
43 PF07282 OrfB_Zn_ribbon: Putat 56.7 9.5 0.00021 29.8 2.4 29 149-177 27-56 (69)
44 PF01485 IBR: IBR domain; Int 55.5 11 0.00024 28.3 2.5 34 151-184 19-57 (64)
45 KOG3799 Rab3 effector RIM1 and 53.8 6.5 0.00014 35.6 1.1 52 149-207 64-116 (169)
46 TIGR00570 cdk7 CDK-activating 53.8 4.9 0.00011 41.2 0.4 50 151-210 4-55 (309)
47 KOG2164 Predicted E3 ubiquitin 53.4 3.8 8.1E-05 44.5 -0.5 51 151-210 187-237 (513)
48 PHA02768 hypothetical protein; 53.3 5.8 0.00012 30.5 0.6 26 152-177 7-41 (55)
49 PF01529 zf-DHHC: DHHC palmito 52.1 12 0.00025 34.2 2.6 29 146-177 44-72 (174)
50 PLN03208 E3 ubiquitin-protein 51.7 3.9 8.3E-05 39.3 -0.7 56 150-210 18-80 (193)
51 KOG0978 E3 ubiquitin ligase in 50.5 1.6 3.4E-05 49.2 -4.0 46 151-209 644-689 (698)
52 KOG0823 Predicted E3 ubiquitin 50.5 4.7 0.0001 39.6 -0.3 34 171-210 63-96 (230)
53 PF07191 zinc-ribbons_6: zinc- 47.8 13 0.00028 30.0 1.8 23 152-175 3-25 (70)
54 PF00415 RCC1: Regulator of ch 47.6 4.9 0.00011 29.0 -0.6 28 94-122 1-29 (51)
55 PF13923 zf-C3HC4_2: Zinc fing 47.2 5.8 0.00013 27.5 -0.2 28 153-184 1-28 (39)
56 TIGR01562 FdhE formate dehydro 47.1 18 0.0004 37.1 3.3 62 150-211 184-265 (305)
57 smart00647 IBR In Between Ring 47.0 16 0.00036 27.4 2.3 34 151-184 19-57 (64)
58 COG5574 PEX10 RING-finger-cont 46.8 5.5 0.00012 39.9 -0.5 28 151-183 216-243 (271)
59 PF04216 FdhE: Protein involve 46.8 9.2 0.0002 38.6 1.1 63 150-212 172-252 (290)
60 PF13901 DUF4206: Domain of un 46.0 6.2 0.00013 37.9 -0.3 46 169-214 2-51 (202)
61 PF03604 DNA_RNApol_7kD: DNA d 45.7 14 0.0003 25.3 1.5 24 152-175 2-25 (32)
62 PF10367 Vps39_2: Vacuolar sor 44.7 17 0.00038 30.2 2.3 31 150-183 78-108 (109)
63 PF06750 DiS_P_DiS: Bacterial 44.7 15 0.00032 31.0 1.9 11 151-161 34-44 (92)
64 PRK03564 formate dehydrogenase 44.7 20 0.00044 36.9 3.2 62 150-211 187-265 (309)
65 PRK04023 DNA polymerase II lar 43.2 19 0.0004 42.5 2.9 47 149-211 625-676 (1121)
66 KOG1814 Predicted E3 ubiquitin 42.8 11 0.00023 40.1 0.8 42 142-184 361-403 (445)
67 PRK00398 rpoP DNA-directed RNA 42.7 14 0.00031 26.7 1.3 23 152-175 5-29 (46)
68 PF10571 UPF0547: Uncharacteri 41.9 16 0.00035 23.7 1.3 23 152-177 2-24 (26)
69 smart00659 RPOLCX RNA polymera 41.1 16 0.00034 26.7 1.3 23 152-174 4-26 (44)
70 PF15616 TerY-C: TerY-C metal 39.8 13 0.00028 33.6 0.8 15 4-18 7-21 (131)
71 PF13639 zf-RING_2: Ring finge 39.6 6.6 0.00014 27.9 -0.9 32 152-185 2-33 (44)
72 COG1773 Rubredoxin [Energy pro 39.1 24 0.00051 27.2 2.0 41 166-206 2-44 (55)
73 KOG3173 Predicted Zn-finger pr 38.2 17 0.00036 34.2 1.3 29 149-181 104-132 (167)
74 KOG2879 Predicted E3 ubiquitin 37.9 18 0.00039 36.6 1.5 55 149-214 238-292 (298)
75 TIGR02098 MJ0042_CXXC MJ0042 f 37.6 19 0.0004 24.8 1.2 10 152-161 4-13 (38)
76 PRK14559 putative protein seri 37.6 19 0.00041 40.7 1.9 30 149-183 14-49 (645)
77 COG0675 Transposase and inacti 37.3 22 0.00048 35.2 2.2 26 148-177 307-332 (364)
78 PF14445 Prok-RING_2: Prokaryo 37.0 5.8 0.00013 30.0 -1.5 45 151-209 8-52 (57)
79 PF15135 UPF0515: Uncharacteri 36.7 22 0.00048 35.4 1.9 34 144-177 126-165 (278)
80 COG5151 SSL1 RNA polymerase II 35.0 17 0.00037 37.3 0.9 40 143-182 355-403 (421)
81 PRK04136 rpl40e 50S ribosomal 34.6 25 0.00055 26.3 1.5 22 151-175 15-36 (48)
82 PF14353 CpXC: CpXC protein 33.5 24 0.00053 31.0 1.5 10 152-161 3-12 (128)
83 KOG1813 Predicted E3 ubiquitin 33.2 29 0.00063 35.4 2.2 28 152-184 243-270 (313)
84 KOG1829 Uncharacterized conser 32.3 15 0.00033 40.8 0.1 62 149-210 339-405 (580)
85 PF13445 zf-RING_UBOX: RING-ty 32.3 14 0.00031 26.8 -0.1 30 153-184 1-30 (43)
86 PF15616 TerY-C: TerY-C metal 32.2 27 0.0006 31.5 1.7 24 151-180 78-101 (131)
87 KOG3795 Uncharacterized conser 31.9 20 0.00043 34.0 0.7 18 165-182 13-33 (230)
88 PF09297 zf-NADH-PPase: NADH p 31.1 40 0.00087 22.5 1.9 25 177-206 5-29 (32)
89 cd00162 RING RING-finger (Real 31.0 14 0.00029 25.1 -0.4 30 152-185 1-30 (45)
90 KOG1315 Predicted DHHC-type Zn 30.9 22 0.00048 36.6 0.9 27 145-174 104-130 (307)
91 PHA02926 zinc finger-like prot 30.6 14 0.00031 36.2 -0.4 54 151-209 171-230 (242)
92 KOG1311 DHHC-type Zn-finger pr 30.1 23 0.00051 35.6 1.0 24 150-176 113-136 (299)
93 COG1327 Predicted transcriptio 29.4 27 0.00058 32.3 1.1 26 251-279 83-108 (156)
94 TIGR00100 hypA hydrogenase nic 29.0 27 0.00058 30.6 1.0 23 151-174 71-93 (115)
95 PF14835 zf-RING_6: zf-RING of 28.9 36 0.00079 27.1 1.6 28 152-184 9-37 (65)
96 COG1996 RPC10 DNA-directed RNA 28.1 29 0.00062 26.1 0.9 11 152-162 8-18 (49)
97 TIGR03826 YvyF flagellar opero 27.9 7.2 0.00016 35.4 -2.8 51 168-234 4-67 (137)
98 PRK00564 hypA hydrogenase nick 27.9 31 0.00068 30.3 1.3 25 150-175 71-96 (117)
99 PF09889 DUF2116: Uncharacteri 27.5 20 0.00043 28.0 -0.0 31 167-214 3-34 (59)
100 KOG2272 Focal adhesion protein 26.7 21 0.00046 35.6 -0.0 64 142-209 215-313 (332)
101 PF09862 DUF2089: Protein of u 26.6 33 0.00071 30.2 1.1 26 153-181 1-26 (113)
102 PF01155 HypA: Hydrogenase exp 26.6 19 0.00041 31.4 -0.4 23 151-174 71-93 (113)
103 PF14803 Nudix_N_2: Nudix N-te 26.4 53 0.0012 22.7 1.9 28 177-206 2-30 (34)
104 PHA02942 putative transposase; 26.3 52 0.0011 34.8 2.8 27 150-176 325-351 (383)
105 KOG4739 Uncharacterized protei 25.8 30 0.00066 34.2 0.8 44 152-209 5-48 (233)
106 PF01286 XPA_N: XPA protein N- 25.6 50 0.0011 23.0 1.6 10 197-206 23-32 (34)
107 TIGR02605 CxxC_CxxC_SSSS putat 25.4 31 0.00066 25.4 0.6 11 152-162 7-17 (52)
108 PF04438 zf-HIT: HIT zinc fing 25.2 34 0.00073 22.9 0.7 23 151-179 3-25 (30)
109 PRK05978 hypothetical protein; 24.9 41 0.00089 31.0 1.5 27 151-177 34-62 (148)
110 cd02341 ZZ_ZZZ3 Zinc finger, Z 24.4 32 0.0007 25.6 0.6 28 152-182 2-33 (48)
111 PRK12380 hydrogenase nickel in 24.3 36 0.00078 29.7 1.0 23 151-174 71-93 (113)
112 COG5273 Uncharacterized protei 24.2 37 0.00081 34.8 1.2 25 149-176 108-132 (309)
113 TIGR00599 rad18 DNA repair pro 24.1 30 0.00065 36.9 0.5 46 150-209 26-71 (397)
114 PF10497 zf-4CXXC_R1: Zinc-fin 24.0 28 0.0006 30.1 0.2 57 150-209 7-72 (105)
115 PF15227 zf-C3HC4_4: zinc fing 23.8 26 0.00057 25.0 -0.0 28 153-185 1-28 (42)
116 KOG2593 Transcription initiati 23.1 35 0.00075 36.6 0.8 35 149-183 127-169 (436)
117 PF00097 zf-C3HC4: Zinc finger 23.1 27 0.00058 24.1 -0.0 29 153-185 1-29 (41)
118 KOG1313 DHHC-type Zn-finger pr 23.0 26 0.00056 35.5 -0.2 24 150-176 102-125 (309)
119 KOG2932 E3 ubiquitin ligase in 22.8 25 0.00054 36.2 -0.4 50 150-214 90-139 (389)
120 COG1198 PriA Primosomal protei 22.8 49 0.0011 38.0 1.9 39 152-207 446-484 (730)
121 TIGR00311 aIF-2beta translatio 22.6 38 0.00083 30.6 0.8 26 151-176 98-127 (133)
122 PRK14873 primosome assembly pr 22.5 47 0.001 37.8 1.6 8 200-207 424-431 (665)
123 PF04216 FdhE: Protein involve 22.3 39 0.00084 34.1 0.9 37 149-188 196-251 (290)
124 PF03107 C1_2: C1 domain; Int 22.2 78 0.0017 20.9 2.1 28 152-181 2-29 (30)
125 KOG2807 RNA polymerase II tran 22.0 58 0.0013 33.8 2.0 51 144-205 324-374 (378)
126 COG1198 PriA Primosomal protei 21.9 53 0.0012 37.7 2.0 37 168-209 436-473 (730)
127 TIGR00244 transcriptional regu 21.8 52 0.0011 30.3 1.5 13 165-177 26-38 (147)
128 PF01927 Mut7-C: Mut7-C RNAse 21.7 65 0.0014 29.2 2.2 18 145-162 86-103 (147)
129 PLN02638 cellulose synthase A 21.5 58 0.0013 38.8 2.2 59 145-212 12-73 (1079)
130 PF06221 zf-C2HC5: Putative zi 21.5 48 0.001 25.7 1.1 29 167-209 18-46 (57)
131 COG1645 Uncharacterized Zn-fin 21.3 47 0.001 30.0 1.1 24 151-183 29-52 (131)
132 PF07503 zf-HYPF: HypF finger; 21.2 23 0.0005 24.7 -0.7 17 153-169 2-18 (35)
133 TIGR02874 spore_ytfJ sporulati 20.5 3.2E+02 0.0069 24.5 6.2 47 252-304 8-54 (125)
134 PRK11595 DNA utilization prote 20.4 28 0.0006 33.8 -0.6 30 151-183 21-56 (227)
135 PRK12496 hypothetical protein; 20.3 63 0.0014 30.1 1.8 24 151-175 128-151 (164)
136 PF05191 ADK_lid: Adenylate ki 20.3 53 0.0012 22.9 1.0 14 196-209 19-32 (36)
137 smart00834 CxxC_CXXC_SSSS Puta 20.2 47 0.001 22.9 0.7 10 152-161 7-16 (41)
138 PRK03824 hypA hydrogenase nick 20.1 49 0.0011 29.8 1.0 10 152-161 72-81 (135)
139 COG4530 Uncharacterized protei 20.0 56 0.0012 28.7 1.3 27 151-177 10-36 (129)
No 1
>KOG1843 consensus Uncharacterized conserved protein [Function unknown]
Probab=100.00 E-value=5.1e-61 Score=481.73 Aligned_cols=414 Identities=36% Similarity=0.472 Sum_probs=385.1
Q ss_pred CCCCCCcCCCCCCCCCCCCCCCCCCCCCCCCcccccccCCCCCcchHHHHHhhhhhhhcCCCCCCCCCCCCCcCcceeee
Q 012738 20 TVSNSTKEDYMYPFPLESDDVIDGGYDSSDDQCTDILRNNMPPEVNLKNVLSGIFAIITGQNKTPSDCMNQQESSSNVSF 99 (457)
Q Consensus 20 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~g~~~~~~~~~~~~~~~~~v~~ 99 (457)
++|++++ -|.|.+..+.++++||+++.++. |.+...+.+|.++|+|+.+|..++++.|+.... +.-++..+.|
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 5566553 36678888999999999998886 999999999999999999999999998877654 3556778888
Q ss_pred cCCCCCCCccCCCCcCCCCCCCccccCCCchhhhhhhcccCCCCccCCCCCCcccccCccCCCCcccccccccCCceEeC
Q 012738 100 FGSGKNGDTYLHSSVYIPSAPPLLEPDGVRYIAYKEVLEAEPPEWLPDSSTTVCMQCTAPFTALTRGRHHCRFCGGVFCR 179 (457)
Q Consensus 100 ~g~~~~g~~~~~~~~~~~~~p~l~~~~g~~~~~~~~~l~~~~p~Wv~d~~~~~C~~C~~~F~~l~rRrHHCR~CG~vfC~ 179 (457)
+|.+ +.++++||.+. ++...+..++.++|.|.+++....|++|..+|+.++.||||||.|+.+||.
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 8755 56788898876 667788889999999999999999999999999999999999999999999
Q ss_pred CCCCceeecCccCCCCCceeeccccccccccccchhhhccchhhhhccccccccccccccccCCcccchhhhhhhhhHHH
Q 012738 180 ICTKGRCLLPVRFRERNPQRVCDACYDRLDPLQGVLINTISNAVQVAKHDVVDWTCTRGWLNLPVGLSMEYEIYKASNTL 259 (457)
Q Consensus 180 ~Cs~~~~~lP~~~~~~~p~RVC~~C~~~l~~~q~~~~~~~s~~~~~~~~~~~~~~~~RgwLnlPv~~s~e~EI~kAa~tL 259 (457)
.|+..+.++|..+....++|||+.|+..|...|..+.+..+.+.|.++||..+|...++|.|.|.+.+|+.++++++++|
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-hhhccCCCCCCCchhhhccCcceEEEEEeeeeeeEEEeeceEEEEEecCCCccccceeEEEecccceeeeceeeee
Q 012738 260 RSY-CQVAESNPERSIPLAVLNGAKGLAILTVAKAGVLVSYKLGTGLVVARRSDGSWSAPSAILSVGLGWGAQIGGELMD 338 (457)
Q Consensus 260 ~~f-~~~~~~~p~~~ip~~~l~~AkGlai~~v~k~G~~~gg~~G~GvviaR~~~g~WS~P~~i~~~g~s~Glq~G~e~~d 338 (457)
+.+ ++.....+|.+| ...+.+||||+++++.+.|.+...+.|+|++++|+++|+||+|+.|...|.+||.|+|.|-.|
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 988 556667788889 889999999999999999999999999999999999999999999999999999999999999
Q ss_pred EEEEEeCHHHHHHHhhcCceEEcceeeEEeccccccccccccccccCcccEEEEEcccceEEEEEEeeEEEEechhHhhh
Q 012738 339 FIVVLHDSKAVKTFCSRLHFSLGAGCSAAAGPIGRVLEADLRAGERGSGMCYTYSCSKGAFVGVSLEGNIVATRMDTNLR 418 (457)
Q Consensus 339 ~V~vl~t~~al~~f~~~~~~~lG~d~s~aaGp~G~~~~a~~~~~~~~~~~v~sYs~skGlfaGvSl~G~~i~~~~d~N~~ 418 (457)
+|||+++.|+++.|.++.++.+|+..++++||.||..+++.+++..+.+.+++|+.+||+|+|.||+++....+.+.|-+
T Consensus 349 fiivlrd~ea~~tf~s~~h~~~Ga~~s~a~~~s~r~~esdi~a~S~~~~~~~~~s~skgaf~~~Sl~~n~a~a~ysfage 428 (473)
T KOG1843|consen 349 FIIVLRDYEAIQTFRSGTHRVRGAGLSAAVGPSGRAVESDIRAGSSGYSKCGTYSASKGAFVGCSLEPNIATALYSFAGE 428 (473)
T ss_pred chhhcchhhhhhccccccccccccccccccCcCccchhhcccccCCcccccccccCCCCcccccccCcceeeeeehhccC
Confidence 99999999999999999999999999999999999999999988888889999999999999999999999999999999
Q ss_pred ccCCCCCChhhhhcCCCCCCcchHHHHHHHHHHhhccC
Q 012738 419 FYGDPYLTTADILLGTVDRPKAAEPLYVALEGLYSSLS 456 (457)
Q Consensus 419 ~YG~~~v~~~dIL~g~v~~p~~a~~L~~~L~~~~~~~~ 456 (457)
|||.......|||. -++.|.++.+||.++.+++++|-
T Consensus 429 ~~GDl~f~kgDii~-il~ks~s~~dwwtgr~~~~egif 465 (473)
T KOG1843|consen 429 QPGDLSFQKGDIIT-ILKKSDSANDWWTGRGNGYEGIF 465 (473)
T ss_pred CCCCcccccCceEE-EecCCcchhhHHHhhcccccccc
Confidence 99988888999999 88999999999999999999874
No 2
>COG2930 Uncharacterized conserved protein [Function unknown]
Probab=100.00 E-value=2.5e-52 Score=384.16 Aligned_cols=209 Identities=38% Similarity=0.614 Sum_probs=192.5
Q ss_pred cCCcccchhhhhhhhhHHHHHHhhhc-cCCCCCCCchhhhccCcceEEEE-EeeeeeeEEEeeceEEEEEecCCCccccc
Q 012738 241 NLPVGLSMEYEIYKASNTLRSYCQVA-ESNPERSIPLAVLNGAKGLAILT-VAKAGVLVSYKLGTGLVVARRSDGSWSAP 318 (457)
Q Consensus 241 nlPv~~s~e~EI~kAa~tL~~f~~~~-~~~p~~~ip~~~l~~AkGlai~~-v~k~G~~~gg~~G~GvviaR~~~g~WS~P 318 (457)
++|.+.++..+.+|+..+...|.... ...|+..||+++|++||||+||| +.|+||++||++|+||+++|.++|+||+|
T Consensus 11 ~~a~~~s~~s~~~k~~~~~s~~v~~~~~~~~~~~ip~~lL~rAkGi~Iip~vLkaGFvigGr~GqGvl~~r~~~nTWs~p 90 (227)
T COG2930 11 PNAQGSSFASETNKAAKTNSSFVLTEQRLGPDQVIPPSLLERAKGIVIIPSVLKAGFVIGGRYGQGVLVARLPDNTWSAP 90 (227)
T ss_pred CCccchhhcchhhhhhhhhhhhcchhhhhCCcccCCHHHHhhcCeeEEehhhccccEEEeccccceEEEecCCCCCcccc
Confidence 34666667777888887777665422 34688999999999999999999 99999999999999999999999999999
Q ss_pred eeEEEecccceeeeceeeeeEEEEEeCHHHHHHHhhcCceEEcceeeEEeccccccccccccccccCcccEEEEEcccce
Q 012738 319 SAILSVGLGWGAQIGGELMDFIVVLHDSKAVKTFCSRLHFSLGAGCSAAAGPIGRVLEADLRAGERGSGMCYTYSCSKGA 398 (457)
Q Consensus 319 ~~i~~~g~s~Glq~G~e~~d~V~vl~t~~al~~f~~~~~~~lG~d~s~aaGp~G~~~~a~~~~~~~~~~~v~sYs~skGl 398 (457)
+|+++.|+|+|+|+|+|++|+|++|||++||++|..-++|+||+|+||++||+||++++.+++...+.+.||+||+++||
T Consensus 91 ~~v~~~g~siG~q~G~qs~d~v~i~~~~~av~~f~~~g~iTlGg~~SVAagplGrna~aa~d~~~~~~a~v~sys~~kGL 170 (227)
T COG2930 91 SFVKMAGASIGGQAGVQSTDFVIILNTDEAVDSFAEFGTITLGGNASVAAGPLGRNAEAAADASLGGVAAVFSYSKAKGL 170 (227)
T ss_pred hhhhhhcccccccccceeeeEEEEEcchHHHHHHHhcCcEEecceeEEeeccccccchhccccccCCcceEEEEEecccc
Confidence 99999999999999999999999999999999999878999999999999999999888877766777899999999999
Q ss_pred EEEEEEeeEEEEechhHhhhccCCCCCChhhhhcCCCCCCcchHHHHHHHHH
Q 012738 399 FVGVSLEGNIVATRMDTNLRFYGDPYLTTADILLGTVDRPKAAEPLYVALEG 450 (457)
Q Consensus 399 faGvSl~G~~i~~~~d~N~~~YG~~~v~~~dIL~g~v~~p~~a~~L~~~L~~ 450 (457)
|||+||||++|.+|+|+|++|||.. .+|+.||+|+|..||+|++|+..|+.
T Consensus 171 fAGvSvEGs~i~~~~eanr~~Y~~~-~t~k~il~grv~~ppaad~l~~~l~~ 221 (227)
T COG2930 171 FAGVSVEGSAITERREANRKFYGDN-ITPKMILSGRVAEPPAADPLARVLNS 221 (227)
T ss_pred eeeeeeccceeeehhhhhhHHhcCC-CCHHHhhcCccCCCCcccHHHHHHHh
Confidence 9999999999999999999999975 99999999999999999999999985
No 3
>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=100.00 E-value=1.2e-34 Score=256.85 Aligned_cols=126 Identities=46% Similarity=0.716 Sum_probs=118.9
Q ss_pred EecccceeeeceeeeeEEEEEeCHHHHHHHhhcCceEEcceeeEEeccccccccccccccccCcccEEEEEcccceEEEE
Q 012738 323 SVGLGWGAQIGGELMDFIVVLHDSKAVKTFCSRLHFSLGAGCSAAAGPIGRVLEADLRAGERGSGMCYTYSCSKGAFVGV 402 (457)
Q Consensus 323 ~~g~s~Glq~G~e~~d~V~vl~t~~al~~f~~~~~~~lG~d~s~aaGp~G~~~~a~~~~~~~~~~~v~sYs~skGlfaGv 402 (457)
++++|+|||+|+|.+|+||||||++||+.|.+ ++|+||+++++++||+|+++++++.... ..++||+|++|+|||+|+
T Consensus 1 ~~g~~~Glq~G~~~~d~Vlvl~t~~al~~f~~-~~~~lG~~~s~a~gp~g~~~~~~~~~~~-~~~~v~~ys~s~Gl~~G~ 78 (126)
T PF04366_consen 1 ISGASVGLQAGAQSYDVVLVLMTDEALESFIK-GKFTLGGDASAAAGPVGRSAEADTDTSD-GSADVYSYSKSKGLFAGV 78 (126)
T ss_pred CCceeEEEEEeeEEeeEEEEEeCHHHHHHHhh-CCEEEeeeeEEEecCcCccccccccccc-ccCceEEEEecCeEEEEE
Confidence 46899999999999999999999999999998 8999999999999999999999887644 457999999999999999
Q ss_pred EEeeEEEEechhHhhhccCCCCCChhhhhcCCCCCCcchHHHHHHHHHH
Q 012738 403 SLEGNIVATRMDTNLRFYGDPYLTTADILLGTVDRPKAAEPLYVALEGL 451 (457)
Q Consensus 403 Sl~G~~i~~~~d~N~~~YG~~~v~~~dIL~g~v~~p~~a~~L~~~L~~~ 451 (457)
||+|++|.+|+|+|++|||+. ++++|||.|++++|++|++||++|+++
T Consensus 79 sl~G~~i~~~~~~N~~~YG~~-v~~~~IL~g~~~~p~~a~~L~~~L~~a 126 (126)
T PF04366_consen 79 SLEGSKISVRDDANARFYGRD-VTPEDILNGKVPPPPEAQPLYEALNKA 126 (126)
T ss_pred EEcceEEEEChHHHHHHhCCC-CCHHHHhCCCCCCCHHHHHHHHHHHhC
Confidence 999999999999999999975 999999999999999999999999975
No 4
>KOG1843 consensus Uncharacterized conserved protein [Function unknown]
Probab=99.98 E-value=2.5e-33 Score=282.26 Aligned_cols=214 Identities=39% Similarity=0.582 Sum_probs=195.6
Q ss_pred cCCcccchhhhhhhhhHHHHHHhhhcc-CCCCCCCchhhhccCcceEEEEEeeeeeeEEEeeceEEEEEecCCCccccce
Q 012738 241 NLPVGLSMEYEIYKASNTLRSYCQVAE-SNPERSIPLAVLNGAKGLAILTVAKAGVLVSYKLGTGLVVARRSDGSWSAPS 319 (457)
Q Consensus 241 nlPv~~s~e~EI~kAa~tL~~f~~~~~-~~p~~~ip~~~l~~AkGlai~~v~k~G~~~gg~~G~GvviaR~~~g~WS~P~ 319 (457)
+.|+..++..|..+|..++..|.++.. ...+..||+.+|.+|+|++++|++|+||++.++.|.||.++|+++|+||+|+
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 345556667788888889988876432 2345679999999999999999999999999999999999999999999999
Q ss_pred eEEEecccceeeeceeeeeEEEEEeCHHHHHHHhhcCceEEcceeeEEeccccccccccccccccCcccEEEEEcccceE
Q 012738 320 AILSVGLGWGAQIGGELMDFIVVLHDSKAVKTFCSRLHFSLGAGCSAAAGPIGRVLEADLRAGERGSGMCYTYSCSKGAF 399 (457)
Q Consensus 320 ~i~~~g~s~Glq~G~e~~d~V~vl~t~~al~~f~~~~~~~lG~d~s~aaGp~G~~~~a~~~~~~~~~~~v~sYs~skGlf 399 (457)
+|.+.+.+.|.++|.+.+|+|++++++.|+++|.+-+..+||++++++|||+|+++++...+...+.+++|+|++++|||
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 99999999999999999999999999999999999889999999999999999998887776666788999999999999
Q ss_pred EEEEEeeEEEEechhHhhhccCCCCCChhhhhcCCCCCCcchHHHHHHHHHHhhcc
Q 012738 400 VGVSLEGNIVATRMDTNLRFYGDPYLTTADILLGTVDRPKAAEPLYVALEGLYSSL 455 (457)
Q Consensus 400 aGvSl~G~~i~~~~d~N~~~YG~~~v~~~dIL~g~v~~p~~a~~L~~~L~~~~~~~ 455 (457)
+|+||+|+.|..+++.|+.|||.. .+...||.|.|+.|+++.+|+++|+.-+..|
T Consensus 164 agvSvegsaI~erR~anR~~yg~~-cra~~ilsg~vp~p~a~d~l~RVldS~~~nl 218 (473)
T KOG1843|consen 164 AGVSVEGSAIIERREANRKFYGIF-CRAKSILSGLVPVPFAADPLQRVLDSCAFNL 218 (473)
T ss_pred eeeecccceeeecchhhhhhcCcc-chhhhhhccCCCCCcccCCHHHHHhhHhhcc
Confidence 999999999999999999999985 8999999999999999999999999877665
No 5
>PF01363 FYVE: FYVE zinc finger; InterPro: IPR000306 Zinc finger (Znf) domains are relatively small protein motifs which contain multiple finger-like protrusions that make tandem contacts with their target molecule. Some of these domains bind zinc, but many do not; instead binding other metals such as iron, or no metal at all. For example, some family members form salt bridges to stabilise the finger-like folds. They were first identified as a DNA-binding motif in transcription factor TFIIIA from Xenopus laevis (African clawed frog), however they are now recognised to bind DNA, RNA, protein and/or lipid substrates [, , , , ]. Their binding properties depend on the amino acid sequence of the finger domains and of the linker between fingers, as well as on the higher-order structures and the number of fingers. Znf domains are often found in clusters, where fingers can have different binding specificities. There are many superfamilies of Znf motifs, varying in both sequence and structure. They display considerable versatility in binding modes, even between members of the same class (e.g. some bind DNA, others protein), suggesting that Znf motifs are stable scaffolds that have evolved specialised functions. For example, Znf-containing proteins function in gene transcription, translation, mRNA trafficking, cytoskeleton organisation, epithelial development, cell adhesion, protein folding, chromatin remodelling and zinc sensing, to name but a few []. Zinc-binding motifs are stable structures, and they rarely undergo conformational changes upon binding their target. The FYVE zinc finger is named after four proteins that it has been found in: Fab1, YOTB/ZK632.12, Vac1, and EEA1. The FYVE finger has been shown to bind two zinc ions []. The FYVE finger has eight potential zinc coordinating cysteine positions. Many members of this family also include two histidines in a motif R+HHC+XCG, where + represents a charged residue and X any residue. FYVE-type domains are divided into two known classes: FYVE domains that specifically bind to phosphatidylinositol 3-phosphate in lipid bilayers and FYVE-related domains of undetermined function []. Those that bind to phosphatidylinositol 3-phosphate are often found in proteins targeted to lipid membranes that are involved in regulating membrane traffic [, , ]. Most FYVE domains target proteins to endosomes by binding specifically to phosphatidylinositol-3-phosphate at the membrane surface. By contrast, the CARP2 FYVE-like domain is not optimized to bind to phosphoinositides or insert into lipid bilayers. FYVE domains are distinguished from other zinc fingers by three signature sequences: an N-terminal WxxD motif, a basic R(R/K)HHCR patch, and a C-terminal RVC motif. More information about these proteins can be found at Protein of the Month: Zinc Fingers [].; GO: 0046872 metal ion binding; PDB: 1HYI_A 1JOC_B 1HYJ_A 1DVP_A 3ZYQ_A 4AVX_A 1VFY_A 3T7L_A 1X4U_A 1WFK_A ....
Probab=99.75 E-value=2.1e-19 Score=142.72 Aligned_cols=67 Identities=48% Similarity=1.064 Sum_probs=47.5
Q ss_pred CCccCCCCCCcccccCccCCCCcccccccccCCceEeCCCCCceeecC-ccCCCCCceeeccccccccc
Q 012738 142 PEWLPDSSTTVCMQCTAPFTALTRGRHHCRFCGGVFCRICTKGRCLLP-VRFRERNPQRVCDACYDRLD 209 (457)
Q Consensus 142 p~Wv~d~~~~~C~~C~~~F~~l~rRrHHCR~CG~vfC~~Cs~~~~~lP-~~~~~~~p~RVC~~C~~~l~ 209 (457)
|.|+||+++..|+.|+++|+ +++||||||.||++||..|++++..+| .......++|||+.|+..|+
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 678999999999999999999998877 33456789999999998764
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=2.5e-16 Score=156.90 Aligned_cols=71 Identities=45% Similarity=1.014 Sum_probs=63.4
Q ss_pred cccCCCCccCCCCCCcccccCc-cCCCCcccccccccCCceEeCCCCCceeecCccCCCCCceeecccccccccc
Q 012738 137 LEAEPPEWLPDSSTTVCMQCTA-PFTALTRGRHHCRFCGGVFCRICTKGRCLLPVRFRERNPQRVCDACYDRLDP 210 (457)
Q Consensus 137 l~~~~p~Wv~d~~~~~C~~C~~-~F~~l~rRrHHCR~CG~vfC~~Cs~~~~~lP~~~~~~~p~RVC~~C~~~l~~ 210 (457)
.....+.|+||+++.+|+.|++ .|+ ++.||||||+||.|||..|+.++..+| +...++.|||+.||+.|.+
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 3455789999999999999999 999 678999999999999999999987777 4457899999999999976
No 8
>PTZ00303 phosphatidylinositol kinase; Provisional
Probab=99.55 E-value=1.8e-15 Score=162.39 Aligned_cols=72 Identities=31% Similarity=0.715 Sum_probs=57.3
Q ss_pred cCCCCccCCCCC-CcccccCccCCCC----cccccccccCCceEeCCCCCceeecC-------ccCCCCCceeecccccc
Q 012738 139 AEPPEWLPDSST-TVCMQCTAPFTAL----TRGRHHCRFCGGVFCRICTKGRCLLP-------VRFRERNPQRVCDACYD 206 (457)
Q Consensus 139 ~~~p~Wv~d~~~-~~C~~C~~~F~~l----~rRrHHCR~CG~vfC~~Cs~~~~~lP-------~~~~~~~p~RVC~~C~~ 206 (457)
...|.|++|++. +.|+.|+++|+++ ..||||||+||++||..||+++..+| .......+.|||+.||+
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 468999999984 7899999999854 34899999999999999999886433 12223457799999997
Q ss_pred cccc
Q 012738 207 RLDP 210 (457)
Q Consensus 207 ~l~~ 210 (457)
+++.
T Consensus 528 q~En 531 (1374)
T PTZ00303 528 EYET 531 (1374)
T ss_pred HHHh
Confidence 7654
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=99.51 E-value=3.9e-15 Score=159.90 Aligned_cols=68 Identities=40% Similarity=1.003 Sum_probs=61.1
Q ss_pred ccCCCCccCCCCCCcccccCccCCCCcccccccccCCceEeCCCCCceeecCccCCCCCceeecccccccccc
Q 012738 138 EAEPPEWLPDSSTTVCMQCTAPFTALTRGRHHCRFCGGVFCRICTKGRCLLPVRFRERNPQRVCDACYDRLDP 210 (457)
Q Consensus 138 ~~~~p~Wv~d~~~~~C~~C~~~F~~l~rRrHHCR~CG~vfC~~Cs~~~~~lP~~~~~~~p~RVC~~C~~~l~~ 210 (457)
...+|.|+.. ..|+.|..+|+ ++.|+||||+||+|||..|+++.+.+| .++..+++|||+.||+.+..
T Consensus 156 ~~~~pdW~D~---~~C~rCr~~F~-~~~rkHHCr~CG~vFC~qcss~s~~lP-~~Gi~~~VRVCd~C~E~l~~ 223 (634)
T KOG1818|consen 156 AETAPDWIDS---EECLRCRVKFG-LTNRKHHCRNCGQVFCGQCSSKSLTLP-KLGIEKPVRVCDSCYELLTR 223 (634)
T ss_pred ccCCcccccc---cccceeeeeee-eccccccccccchhhccCccccccCcc-cccccccceehhhhHHHhhh
Confidence 3568999975 68999999999 667999999999999999999999998 67888999999999999864
No 10
>KOG1819 consensus FYVE finger-containing proteins [General function prediction only]
Probab=99.47 E-value=1.1e-14 Score=150.78 Aligned_cols=69 Identities=42% Similarity=1.026 Sum_probs=61.5
Q ss_pred cCCCCccCCCCCCcccccCccCCCCcccccccccCCceEeCCCCCceeecCccCCCCCceeecc-----ccccccc
Q 012738 139 AEPPEWLPDSSTTVCMQCTAPFTALTRGRHHCRFCGGVFCRICTKGRCLLPVRFRERNPQRVCD-----ACYDRLD 209 (457)
Q Consensus 139 ~~~p~Wv~d~~~~~C~~C~~~F~~l~rRrHHCR~CG~vfC~~Cs~~~~~lP~~~~~~~p~RVC~-----~C~~~l~ 209 (457)
..+|.|+||.++..||.|+.+|+ .+|||||||+||.|||..||...+.+| +++..+..|||. .|+.+-.
T Consensus 890 lsppawipd~~a~~cmacq~pf~-afrrrhhcrncggifcg~cs~asapip-~~gl~ka~rvcrpqsnldc~~rqd 963 (990)
T KOG1819|consen 890 LSPPAWIPDEDAEQCMACQMPFN-AFRRRHHCRNCGGIFCGKCSCASAPIP-EHGLDKAPRVCRPQSNLDCLTRQD 963 (990)
T ss_pred cCCcccCCCCcchhhhhccCcHH-HHHHhhhhcccCceeecccccCCCCCc-ccccccCceecCCcccccceeecc
Confidence 45789999999999999999999 578999999999999999999988888 567788999999 7887643
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=99.34 E-value=4.8e-13 Score=102.10 Aligned_cols=55 Identities=53% Similarity=1.178 Sum_probs=48.4
Q ss_pred CCcccccCccCCCCcccccccccCCceEeCCCCCceeecCccCCCCCceeecccccc
Q 012738 150 TTVCMQCTAPFTALTRGRHHCRFCGGVFCRICTKGRCLLPVRFRERNPQRVCDACYD 206 (457)
Q Consensus 150 ~~~C~~C~~~F~~l~rRrHHCR~CG~vfC~~Cs~~~~~lP~~~~~~~p~RVC~~C~~ 206 (457)
+..|+.|+++|+ ++.||||||.||++||..|+.++..+|.. ...+|+|||+.||.
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 56789999999999999999999887742 45789999999996
No 12
>KOG1842 consensus FYVE finger-containing protein [General function prediction only]
Probab=99.19 E-value=1.3e-12 Score=134.25 Aligned_cols=74 Identities=43% Similarity=0.838 Sum_probs=58.1
Q ss_pred hhcccCCCCccCCCCCCcccccCccCCCCcccccccccCCceEeCCCCCceee-------------cCcc--------CC
Q 012738 135 EVLEAEPPEWLPDSSTTVCMQCTAPFTALTRGRHHCRFCGGVFCRICTKGRCL-------------LPVR--------FR 193 (457)
Q Consensus 135 ~~l~~~~p~Wv~d~~~~~C~~C~~~F~~l~rRrHHCR~CG~vfC~~Cs~~~~~-------------lP~~--------~~ 193 (457)
..++.....|+.|.++..|..|..+|+ ++|||||||.||+|+|..|+..-.. .+.. ..
T Consensus 165 k~~EqsvVpW~DDs~V~~CP~Ca~~F~-l~rRrHHCRLCG~VmC~~C~k~iSle~a~~ltsss~~dt~~e~~qq~~~lH~ 243 (505)
T KOG1842|consen 165 KRLEQSVVPWLDDSSVQFCPECANSFG-LTRRRHHCRLCGRVMCRDCSKFISLEIAIGLTSSSASDTHFEPNQQKDDLHQ 243 (505)
T ss_pred HHHHhccccccCCCcccccccccchhh-hHHHhhhhhhcchHHHHHHHHhcChHHHHHHhhccCCCCCcCcccCcccccC
Confidence 345667789999999999999999999 8999999999999999999875430 0000 01
Q ss_pred CCCceeeccccccccc
Q 012738 194 ERNPQRVCDACYDRLD 209 (457)
Q Consensus 194 ~~~p~RVC~~C~~~l~ 209 (457)
...+.|+|..|...|.
T Consensus 244 ~~~~iRlC~hCl~~L~ 259 (505)
T KOG1842|consen 244 HPQPIRLCMHCLDNLF 259 (505)
T ss_pred ChhHhHHHHHHHHHHH
Confidence 2346899999988764
No 13
>KOG1841 consensus Smad anchor for receptor activation [Defense mechanisms]
Probab=99.16 E-value=1.8e-11 Score=136.64 Aligned_cols=65 Identities=37% Similarity=0.862 Sum_probs=53.9
Q ss_pred cccCCCCccCCCCCCcccccCccCCCCcccccccccCCceEeCCCCCceeecCccCCCCCceeecccc
Q 012738 137 LEAEPPEWLPDSSTTVCMQCTAPFTALTRGRHHCRFCGGVFCRICTKGRCLLPVRFRERNPQRVCDAC 204 (457)
Q Consensus 137 l~~~~p~Wv~d~~~~~C~~C~~~F~~l~rRrHHCR~CG~vfC~~Cs~~~~~lP~~~~~~~p~RVC~~C 204 (457)
+++..|.|+||+++..||.|.++|+ +.+||||||+||+|+|..|+..++.+- |-....-|||..|
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 668999999999999999999987663 3223445555554
No 14
>KOG1409 consensus Uncharacterized conserved protein, contains WD40 repeats and FYVE domains [Function unknown]
Probab=98.97 E-value=1.2e-10 Score=117.18 Aligned_cols=119 Identities=29% Similarity=0.521 Sum_probs=84.4
Q ss_pred CCCCCCCccccCCCchhh--hhhhcccCCCCccCCCCCCcccccCccCCC----------CcccccccccCCceEeCCCC
Q 012738 115 YIPSAPPLLEPDGVRYIA--YKEVLEAEPPEWLPDSSTTVCMQCTAPFTA----------LTRGRHHCRFCGGVFCRICT 182 (457)
Q Consensus 115 ~~~~~p~l~~~~g~~~~~--~~~~l~~~~p~Wv~d~~~~~C~~C~~~F~~----------l~rRrHHCR~CG~vfC~~Cs 182 (457)
+.+.+.+|.+.+.++... .+.....+.|+|+.+ ..|+.|+++|.. +..|.||||.||..||..|+
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 344555666665443322 233345678999987 689999999842 34579999999999999999
Q ss_pred CceeecCccCCCCCceeeccccccccccccchhhhccchhhhhccccc--ccccccccccc
Q 012738 183 KGRCLLPVRFRERNPQRVCDACYDRLDPLQGVLINTISNAVQVAKHDV--VDWTCTRGWLN 241 (457)
Q Consensus 183 ~~~~~lP~~~~~~~p~RVC~~C~~~l~~~q~~~~~~~s~~~~~~~~~~--~~~~~~RgwLn 241 (457)
+++...|.. +....+|+|+.||..+....+.+...-+ ..+|.+ +++.++++||.
T Consensus 325 s~~~~~p~m-g~e~~vR~~~~c~~~i~~~~~t~LA~ph----ei~tgItamhlqetlglLv 380 (404)
T KOG1409|consen 325 SNRSSYPTM-GFEFSVRVCDSCYPTIKDEERTPLAIPH----EIKTGITAMHLQETLGLLV 380 (404)
T ss_pred cCccccccc-cceeEEEEecccchhhhcCCCCcccccc----ccccceeEEEhhhhcccee
Confidence 999888742 3467899999999999887765443333 234444 45677788774
No 15
>KOG4424 consensus Predicted Rho/Rac guanine nucleotide exchange factor/faciogenital dysplasia protein 3 [Signal transduction mechanisms]
Probab=98.45 E-value=4e-08 Score=104.54 Aligned_cols=114 Identities=25% Similarity=0.418 Sum_probs=79.7
Q ss_pred CCccCCCCCCcccccCccCCCCcccccccccCCceEeCCCCCceeecCccCCCCCceeeccccccccccccchh------
Q 012738 142 PEWLPDSSTTVCMQCTAPFTALTRGRHHCRFCGGVFCRICTKGRCLLPVRFRERNPQRVCDACYDRLDPLQGVL------ 215 (457)
Q Consensus 142 p~Wv~d~~~~~C~~C~~~F~~l~rRrHHCR~CG~vfC~~Cs~~~~~lP~~~~~~~p~RVC~~C~~~l~~~q~~~------ 215 (457)
|.| +++...|+.|+.+|+.++.|||||+.||.++|+.|+.++..+- +..+...|||..||....+.....
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 467 7778999999999999999999999999999999999987763 456788999999999887543221
Q ss_pred hhccchhhhhcc-----c----cccccccccccccCCcccchhhhhhhhhHHH
Q 012738 216 INTISNAVQVAK-----H----DVVDWTCTRGWLNLPVGLSMEYEIYKASNTL 259 (457)
Q Consensus 216 ~~~~s~~~~~~~-----~----~~~~~~~~RgwLnlPv~~s~e~EI~kAa~tL 259 (457)
+.+..++.+... | +.........|.++|...++....+.+.+.+
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 111111111111 1 0011234567888888888776666665543
No 16
>KOG1811 consensus Predicted Zn2+-binding protein, contains FYVE domain [General function prediction only]
Probab=97.91 E-value=1.3e-06 Score=93.70 Aligned_cols=69 Identities=29% Similarity=0.672 Sum_probs=53.3
Q ss_pred cccCCCCccCCC----CCCcccc-cCccCCCCcccccccccCCceEeCCCCCceeecCccCCCCCceeeccccccc
Q 012738 137 LEAEPPEWLPDS----STTVCMQ-CTAPFTALTRGRHHCRFCGGVFCRICTKGRCLLPVRFRERNPQRVCDACYDR 207 (457)
Q Consensus 137 l~~~~p~Wv~d~----~~~~C~~-C~~~F~~l~rRrHHCR~CG~vfC~~Cs~~~~~lP~~~~~~~p~RVC~~C~~~ 207 (457)
+....+.|+||. .-.-|+. |+..|. .++||||||.||...|.+|...+...- +-+...|.++|+.|+..
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 444467899997 5567885 566787 567899999999999999998775443 33457899999999965
No 17
>KOG0230 consensus Phosphatidylinositol-4-phosphate 5-kinase and related FYVE finger-containing proteins [Signal transduction mechanisms]
Probab=97.36 E-value=0.00011 Score=85.88 Aligned_cols=55 Identities=35% Similarity=0.837 Sum_probs=42.1
Q ss_pred CCCCcccccCccCCCCcccccccccCCceEeCCCCCceeecCccCCCCCceeeccccccccccccchh
Q 012738 148 SSTTVCMQCTAPFTALTRGRHHCRFCGGVFCRICTKGRCLLPVRFRERNPQRVCDACYDRLDPLQGVL 215 (457)
Q Consensus 148 ~~~~~C~~C~~~F~~l~rRrHHCR~CG~vfC~~Cs~~~~~lP~~~~~~~p~RVC~~C~~~l~~~q~~~ 215 (457)
.....|..|... .+||||||.||++||.+|... . ....|||..|+.........+
T Consensus 3 ~s~~~~~~~~t~----~~~~~~~~~~g~~~~~~~~~~------~---~~~i~~~~~~~~~~~~~~~~~ 57 (1598)
T KOG0230|consen 3 QSSNVCYDCDTS----VNRRHHCRVCGRVFCSKCQDS------P---ETSIRVCNECRGQWEQGNVAP 57 (1598)
T ss_pred ccccchhccccc----cccCCCCcccCceeccccCCC------C---ccceeehhhhhhhccccCCCC
Confidence 346789999943 458999999999999999832 1 238999999999887554433
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=96.69 E-value=0.00091 Score=58.81 Aligned_cols=51 Identities=24% Similarity=0.595 Sum_probs=41.6
Q ss_pred CCcccccCccCCCCcccccccccCCceEeCCCCCceeecCccCCCCCceeecccccccc
Q 012738 150 TTVCMQCTAPFTALTRGRHHCRFCGGVFCRICTKGRCLLPVRFRERNPQRVCDACYDRL 208 (457)
Q Consensus 150 ~~~C~~C~~~F~~l~rRrHHCR~CG~vfC~~Cs~~~~~lP~~~~~~~p~RVC~~C~~~l 208 (457)
...|..|+.+|+++..+.+.|..|.+-||..|..+ ..+.+.-+|..|+..-
T Consensus 54 ~~~C~~C~~~fg~l~~~~~~C~~C~~~VC~~C~~~--------~~~~~~WlC~vC~k~r 104 (118)
T PF02318_consen 54 ERHCARCGKPFGFLFNRGRVCVDCKHRVCKKCGVY--------SKKEPIWLCKVCQKQR 104 (118)
T ss_dssp CSB-TTTS-BCSCTSTTCEEETTTTEEEETTSEEE--------TSSSCCEEEHHHHHHH
T ss_pred CcchhhhCCcccccCCCCCcCCcCCccccCccCCc--------CCCCCCEEChhhHHHH
Confidence 46899999999988888999999999999999855 2246788999998753
No 19
>KOG0230 consensus Phosphatidylinositol-4-phosphate 5-kinase and related FYVE finger-containing proteins [Signal transduction mechanisms]
Probab=96.11 E-value=0.0021 Score=75.60 Aligned_cols=34 Identities=47% Similarity=1.228 Sum_probs=32.1
Q ss_pred cCCCCCCcccccCccCCCCcccccccccCCceEeCCC
Q 012738 145 LPDSSTTVCMQCTAPFTALTRGRHHCRFCGGVFCRIC 181 (457)
Q Consensus 145 v~d~~~~~C~~C~~~F~~l~rRrHHCR~CG~vfC~~C 181 (457)
++|.....|..|.+.|.. +||+||| ||++||.+|
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
>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=95.99 E-value=0.041 Score=50.53 Aligned_cols=119 Identities=18% Similarity=0.260 Sum_probs=80.7
Q ss_pred cceEEEEEeeeeeeEEEeeceEEEEEecCCCccccceeEEEecccceeeeceeeeeEEEEEeCHHHHHHHhhcCceEEcc
Q 012738 283 KGLAILTVAKAGVLVSYKLGTGLVVARRSDGSWSAPSAILSVGLGWGAQIGGELMDFIVVLHDSKAVKTFCSRLHFSLGA 362 (457)
Q Consensus 283 kGlai~~v~k~G~~~gg~~G~GvviaR~~~g~WS~P~~i~~~g~s~Glq~G~e~~d~V~vl~t~~al~~f~~~~~~~lG~ 362 (457)
.|++.-.=.-++|++|.++|+|.+.-|...- --+.+.|-|+|+.+|++...+.+++-+-..++++-.+ |- |.
T Consensus 38 ngYI~G~E~sGA~~~GlrYGeG~L~~k~~g~-----~~vyWqGPSiG~D~G~~~~r~~~LVYnL~~~~~iy~R--f~-gv 109 (160)
T PF06577_consen 38 NGYILGEEASGAFVVGLRYGEGTLYTKNAGQ-----HKVYWQGPSIGFDFGGNGSRVFMLVYNLPDPDDIYQR--FP-GV 109 (160)
T ss_pred ceEEEeeeccccEEEEEEecccEEEEcCCCe-----eEEEEeCCceeEeecCCceEEEEEEEcCCCHHHHhhh--CC-Cc
Confidence 3444444556677889999999999886432 2345666779999999999999999988888887763 21 22
Q ss_pred eeeE-EeccccccccccccccccCcccEEEEEc-ccceEEEEEEeeEEEEechhHh
Q 012738 363 GCSA-AAGPIGRVLEADLRAGERGSGMCYTYSC-SKGAFVGVSLEGNIVATRMDTN 416 (457)
Q Consensus 363 d~s~-aaGp~G~~~~a~~~~~~~~~~~v~sYs~-skGlfaGvSl~G~~i~~~~d~N 416 (457)
+-|+ .+|-+|.+.... ++ -+.+=.+ ..|+-.|+++.--+++..+.+|
T Consensus 110 ~GsAYlvgG~G~~~l~~---~~----ivl~PIR~GvG~RLG~nvGYl~fT~~~twn 158 (160)
T PF06577_consen 110 EGSAYLVGGVGMTYLRN---GD----IVLAPIRTGVGARLGANVGYLKFTRKPTWN 158 (160)
T ss_pred cceEEEEccceEEEEEe---CC----EEEEEeecCcceeeeeeeeeEeecCCCCcC
Confidence 2222 334466544321 11 1233333 4899999999999999888776
No 21
>KOG1729 consensus FYVE finger containing protein [General function prediction only]
Probab=92.49 E-value=0.023 Score=57.54 Aligned_cols=67 Identities=28% Similarity=0.541 Sum_probs=52.6
Q ss_pred CCCCccCCCCCCcccccCccCCCCcccccccccCCceEeCCCCC-ceeecCc----cCCCCCceeeccccccc
Q 012738 140 EPPEWLPDSSTTVCMQCTAPFTALTRGRHHCRFCGGVFCRICTK-GRCLLPV----RFRERNPQRVCDACYDR 207 (457)
Q Consensus 140 ~~p~Wv~d~~~~~C~~C~~~F~~l~rRrHHCR~CG~vfC~~Cs~-~~~~lP~----~~~~~~p~RVC~~C~~~ 207 (457)
..+.|+.+.++..|..|...|. |.+|+|||+.||+++|..|+. .....+. .+-.+...+.|..|+..
T Consensus 10 ~~~~~~~~~e~~s~~~~~~e~~-~~~r~~~~~~~grv~~~q~~~~k~~rk~~q~r~~~l~~D~~~~~~~~~~~ 81 (288)
T KOG1729|consen 10 NMVDWQANSEANSCRNCKVEFC-FGRRGHPCRECGRVLCRQGTLVKRCRKKLQSRSFFLFNDILVYGNIVSDN 81 (288)
T ss_pred hhHHHHHhccchhhhhhcccch-hhhccCcccccchhhhhhhhhHHHHhcccccccccccccchhhcccccCH
Confidence 3578999999999999999999 778899999999999999987 2222111 12235677889998887
No 22
>KOG1841 consensus Smad anchor for receptor activation [Defense mechanisms]
Probab=92.15 E-value=0.13 Score=59.67 Aligned_cols=57 Identities=26% Similarity=0.429 Sum_probs=46.3
Q ss_pred cCCCCccCCCCCCcccccCccCCCCcccccccccCCceEeCCCCCceeecCccCCCCCceeecccccccccc
Q 012738 139 AEPPEWLPDSSTTVCMQCTAPFTALTRGRHHCRFCGGVFCRICTKGRCLLPVRFRERNPQRVCDACYDRLDP 210 (457)
Q Consensus 139 ~~~p~Wv~d~~~~~C~~C~~~F~~l~rRrHHCR~CG~vfC~~Cs~~~~~lP~~~~~~~p~RVC~~C~~~l~~ 210 (457)
...+.|++|..+..|+.|.+.|. ++.+||||| |.++ + .+......|+|..|.+.+..
T Consensus 646 e~ksVw~aDg~aPng~la~t~~~-~~~e~~hsr--~~ls---------~---~~~s~~~~~~~n~t~s~~rn 702 (1287)
T KOG1841|consen 646 EVKSVWFADGIAPNGELAETRFT-FTGERHHSR--GKLS---------L---LYSSRKEARPCNITHSVLRN 702 (1287)
T ss_pred eecceeccCCcCCCceeccccee-eeccccccc--cccc---------c---cccccccCCCCcccCccchh
Confidence 34789999999999999999999 678899999 8877 1 13345678999999987653
No 23
>COG5400 Uncharacterized protein conserved in bacteria [Function unknown]
Probab=88.79 E-value=1.6 Score=40.78 Aligned_cols=109 Identities=16% Similarity=0.265 Sum_probs=71.7
Q ss_pred EeeeeeeEEEeeceEEEEEecCC---CccccceeEEEecccceeeeceeeeeEEEEEeCHHHHHHHhhcCce-EEcceee
Q 012738 290 VAKAGVLVSYKLGTGLVVARRSD---GSWSAPSAILSVGLGWGAQIGGELMDFIVVLHDSKAVKTFCSRLHF-SLGAGCS 365 (457)
Q Consensus 290 v~k~G~~~gg~~G~GvviaR~~~---g~WS~P~~i~~~g~s~Glq~G~e~~d~V~vl~t~~al~~f~~~~~~-~lG~d~s 365 (457)
=..++||-|..+|+|.+..|+.. --|-.| ++|+..|+|-+.++++.-|-..++++.++ + -+-+.+=
T Consensus 90 EGSGAfIaGltYGeG~LytKn~g~h~vFWQGP--------slGwD~GGqgsRvmmLvYnL~~v~aly~R--y~GV~GSAy 159 (205)
T COG5400 90 EGSGAFIAGLTYGEGTLYTKNAGDHKVFWQGP--------SLGWDWGGQGSRVMMLVYNLDDVDALYRR--YGGVAGSAY 159 (205)
T ss_pred ccccceEeeeeeccceEEecCCCCcceEeeCC--------ccccccCCCceEEEEEEecCCCHHHHHhh--cCCccccEE
Confidence 44566788999999999987632 235555 59999999999999999999999998764 1 1222222
Q ss_pred EEeccccccccccccccccCcccEEEEEcc-cceEEEEEEeeEEEEechhHh
Q 012738 366 AAAGPIGRVLEADLRAGERGSGMCYTYSCS-KGAFVGVSLEGNIVATRMDTN 416 (457)
Q Consensus 366 ~aaGp~G~~~~a~~~~~~~~~~~v~sYs~s-kGlfaGvSl~G~~i~~~~d~N 416 (457)
+.+| +|-+...+.+ -+++--++ -|+-.|+.+.=-+++..+-+|
T Consensus 160 vVaG-vG~n~lk~~~-------v~lvPIRtGiGaRLGvNvGYLklt~q~twn 203 (205)
T COG5400 160 VVAG-VGFNVLKAEN-------VTLVPIRTGIGARLGVNVGYLKLTQQPTWN 203 (205)
T ss_pred EEee-cceEEEecCc-------eEEEEeeeccceeecceeeeeeeccccccC
Confidence 3333 6654432211 12222233 688888888777777766655
No 24
>KOG0320 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=85.49 E-value=0.099 Score=49.15 Aligned_cols=51 Identities=25% Similarity=0.535 Sum_probs=37.0
Q ss_pred CCcccccCccCCCCcccccccccCCceEeCCCCCceeecCccCCCCCceeecccccccccccc
Q 012738 150 TTVCMQCTAPFTALTRGRHHCRFCGGVFCRICTKGRCLLPVRFRERNPQRVCDACYDRLDPLQ 212 (457)
Q Consensus 150 ~~~C~~C~~~F~~l~rRrHHCR~CG~vfC~~Cs~~~~~lP~~~~~~~p~RVC~~C~~~l~~~q 212 (457)
.-.|.+|-..|+ .+-----.||+|||..|.+.. .+..++|-.|..+++..|
T Consensus 131 ~~~CPiCl~~~s---ek~~vsTkCGHvFC~~Cik~a---------lk~~~~CP~C~kkIt~k~ 181 (187)
T KOG0320|consen 131 TYKCPICLDSVS---EKVPVSTKCGHVFCSQCIKDA---------LKNTNKCPTCRKKITHKQ 181 (187)
T ss_pred ccCCCceecchh---hccccccccchhHHHHHHHHH---------HHhCCCCCCcccccchhh
Confidence 357888888776 222345789999999997642 245789999998876543
No 25
>COG3874 Uncharacterized conserved protein [Function unknown]
Probab=83.25 E-value=2 Score=38.48 Aligned_cols=48 Identities=21% Similarity=0.230 Sum_probs=32.6
Q ss_pred hhhhhhhHHHHHHhhhccCCCCCCCchhhhccCcceEEEEEeeeeeeEEEeeceE
Q 012738 250 YEIYKASNTLRSYCQVAESNPERSIPLAVLNGAKGLAILTVAKAGVLVSYKLGTG 304 (457)
Q Consensus 250 ~EI~kAa~tL~~f~~~~~~~p~~~ip~~~l~~AkGlai~~v~k~G~~~gg~~G~G 304 (457)
+-+.-+..-|+.|.+... |--+-++ +.|-.|+|+.|++|.|++.+|.|
T Consensus 8 e~mkt~~e~Lk~m~dv~T------iVGdPIe-~dgs~iiPvsKv~fGFgaGGgEg 55 (138)
T COG3874 8 ELMKTTMENLKKMLDVNT------IVGDPIE-PDGSTIIPVSKVGFGFGAGGGEG 55 (138)
T ss_pred HHHHHHHHHHHHHhhhcc------cccCccc-CCCcEEEEEEEEeeeeccCCccc
Confidence 334444455777754322 2222345 78889999999999999988888
No 26
>TIGR00622 ssl1 transcription factor ssl1. This family is based on the phylogenomic analysis of JA Eisen (1999, Ph.D. Thesis, Stanford University).
Probab=82.91 E-value=1.1 Score=39.38 Aligned_cols=40 Identities=28% Similarity=0.655 Sum_probs=29.5
Q ss_pred ccCCCCCCcccccCccCCCC---------cccccccccCCceEeCCCCC
Q 012738 144 WLPDSSTTVCMQCTAPFTAL---------TRGRHHCRFCGGVFCRICTK 183 (457)
Q Consensus 144 Wv~d~~~~~C~~C~~~F~~l---------~rRrHHCR~CG~vfC~~Cs~ 183 (457)
|........|..|+++|... ...|..|..|.++||-.|=.
T Consensus 49 ~~~~~~~~~C~~C~~~f~~~~~~~~~~~~~~~~y~C~~C~~~FC~dCD~ 97 (112)
T TIGR00622 49 LEEYNGSRFCFGCQGPFPKPPVSPFDELKDSHRYVCAVCKNVFCVDCDV 97 (112)
T ss_pred ccccCCCCcccCcCCCCCCcccccccccccccceeCCCCCCccccccch
Confidence 44344446799999999731 23367899999999999953
No 27
>PRK00464 nrdR transcriptional regulator NrdR; Validated
Probab=82.57 E-value=0.67 Score=42.89 Aligned_cols=26 Identities=38% Similarity=0.718 Sum_probs=19.2
Q ss_pred cccccCccCC-----------CCcccccccccCCceE
Q 012738 152 VCMQCTAPFT-----------ALTRGRHHCRFCGGVF 177 (457)
Q Consensus 152 ~C~~C~~~F~-----------~l~rRrHHCR~CG~vf 177 (457)
.|+.|+.+++ ...+|+++|.+||.-|
T Consensus 2 ~cp~c~~~~~~~~~s~~~~~~~~~~~~~~c~~c~~~f 38 (154)
T PRK00464 2 RCPFCGHPDTRVIDSRPAEDGNAIRRRRECLACGKRF 38 (154)
T ss_pred cCCCCCCCCCEeEeccccCCCCceeeeeeccccCCcc
Confidence 5889998872 1245679999998876
No 28
>KOG0993 consensus Rab5 GTPase effector Rabaptin-5 [Intracellular trafficking, secretion, and vesicular transport]
Probab=82.05 E-value=0.025 Score=59.00 Aligned_cols=66 Identities=27% Similarity=0.594 Sum_probs=52.6
Q ss_pred CCccCCCCCCcccccCccCCCCccccccccc--CCceEeCCCCCceeecCccCCCCCceeeccccccccccc
Q 012738 142 PEWLPDSSTTVCMQCTAPFTALTRGRHHCRF--CGGVFCRICTKGRCLLPVRFRERNPQRVCDACYDRLDPL 211 (457)
Q Consensus 142 p~Wv~d~~~~~C~~C~~~F~~l~rRrHHCR~--CG~vfC~~Cs~~~~~lP~~~~~~~p~RVC~~C~~~l~~~ 211 (457)
-.|.-+.+...|..|-.+|..+ +-.-||-+ |+++||-.|++. .+|.. ....|.+||+-|.+.+..-
T Consensus 460 le~ql~~~ve~c~~~~aS~~sl-k~e~erl~qq~eqi~~~~~~Ka--tvp~l-~~e~~akv~rlq~eL~~se 527 (542)
T KOG0993|consen 460 LEWQLDDDVEQCSNCDASFASL-KVEPERLHQQCEQIFCMNCLKA--TVPSL-PNERPAKVCRLQHELLNSE 527 (542)
T ss_pred HHHHHHHHHHHHHHHHHHHHHH-hccHHHHHHHHHHHHHHhHHHh--hcccc-cccchHHHHHHHHHHhhhc
Confidence 4688888899999999999966 45788887 999999999965 45632 3467899999999877543
No 29
>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=81.03 E-value=1.1 Score=39.04 Aligned_cols=33 Identities=33% Similarity=0.651 Sum_probs=25.7
Q ss_pred CCccCCCCCCcccccCccCCCCcccccccccCCceE
Q 012738 142 PEWLPDSSTTVCMQCTAPFTALTRGRHHCRFCGGVF 177 (457)
Q Consensus 142 p~Wv~d~~~~~C~~C~~~F~~l~rRrHHCR~CG~vf 177 (457)
|.|=-. ..|+.|+++|-=|.|+--+|-.||..|
T Consensus 4 pelGtK---R~Cp~CG~kFYDLnk~PivCP~CG~~~ 36 (108)
T PF09538_consen 4 PELGTK---RTCPSCGAKFYDLNKDPIVCPKCGTEF 36 (108)
T ss_pred cccCCc---ccCCCCcchhccCCCCCccCCCCCCcc
Confidence 556433 689999999988877777788888775
No 30
>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=78.80 E-value=1.4 Score=39.48 Aligned_cols=33 Identities=21% Similarity=0.423 Sum_probs=26.6
Q ss_pred CCccCCCCCCcccccCccCCCCcccccccccCCceE
Q 012738 142 PEWLPDSSTTVCMQCTAPFTALTRGRHHCRFCGGVF 177 (457)
Q Consensus 142 p~Wv~d~~~~~C~~C~~~F~~l~rRrHHCR~CG~vf 177 (457)
|.|-.. ..|+.|+++|-=|.|+..+|..||..+
T Consensus 4 ~elGtK---r~Cp~cg~kFYDLnk~p~vcP~cg~~~ 36 (129)
T TIGR02300 4 PDLGTK---RICPNTGSKFYDLNRRPAVSPYTGEQF 36 (129)
T ss_pred hhhCcc---ccCCCcCccccccCCCCccCCCcCCcc
Confidence 556443 689999999988888888899988875
No 31
>PF07975 C1_4: TFIIH C1-like domain; InterPro: IPR004595 All proteins in this domain for which functions are known are components of the TFIIH complex which is involved in the initiation of transcription and nucleotide excision repair. It includes the yeast transcription factor Ssl1 (Suppressor of stem-loop protein 1) that is essential for translation initiation and affects UV resistance. The C-terminal region is essential for transcription activity. This regions binds three zinc atoms through two independent domain. The first contains a C4 zinc finger motif, whereas the second is characterised by a CX(2)CX(2-4)FCADCD motif. The solution structure of the second C-terminal domain revealed homology with the regulatory domain of protein kinase C [].; GO: 0006281 DNA repair, 0005634 nucleus; PDB: 1Z60_A.
Probab=75.20 E-value=0.62 Score=35.26 Aligned_cols=31 Identities=32% Similarity=0.810 Sum_probs=18.8
Q ss_pred cccccCccCCCCc-----ccccccccCCceEeCCCC
Q 012738 152 VCMQCTAPFTALT-----RGRHHCRFCGGVFCRICT 182 (457)
Q Consensus 152 ~C~~C~~~F~~l~-----rRrHHCR~CG~vfC~~Cs 182 (457)
.|..|.++|.... ..+..|..|++.||-.|=
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 32
>PF13717 zinc_ribbon_4: zinc-ribbon domain
Probab=71.84 E-value=2.3 Score=29.66 Aligned_cols=26 Identities=31% Similarity=0.741 Sum_probs=17.2
Q ss_pred cccccCccCCCC------cccccccccCCceE
Q 012738 152 VCMQCTAPFTAL------TRGRHHCRFCGGVF 177 (457)
Q Consensus 152 ~C~~C~~~F~~l------~rRrHHCR~CG~vf 177 (457)
.|..|+..|..= ..++-.|.+||++|
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 588888888621 23467777887765
No 33
>KOG1314 consensus DHHC-type Zn-finger protein [General function prediction only]
Probab=71.51 E-value=1.4 Score=45.74 Aligned_cols=36 Identities=28% Similarity=0.801 Sum_probs=26.0
Q ss_pred ccCCCCccCCCCCC-----cccccCccCCCCcccccccccCCce
Q 012738 138 EAEPPEWLPDSSTT-----VCMQCTAPFTALTRGRHHCRFCGGV 176 (457)
Q Consensus 138 ~~~~p~Wv~d~~~~-----~C~~C~~~F~~l~rRrHHCR~CG~v 176 (457)
+..++.|.|....+ -|..|+. |. .-|-||||.|.+.
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 45578899955443 6888876 55 3579999998764
No 34
>KOG0317 consensus Predicted E3 ubiquitin ligase, integral peroxisomal membrane protein [Posttranslational modification, protein turnover, chaperones]
Probab=67.67 E-value=1.3 Score=44.66 Aligned_cols=49 Identities=27% Similarity=0.719 Sum_probs=32.7
Q ss_pred CCcccccCccCCCCcccccccccCCceEeCCCCCceeecCccCCCCCceeecccccccccccc
Q 012738 150 TTVCMQCTAPFTALTRGRHHCRFCGGVFCRICTKGRCLLPVRFRERNPQRVCDACYDRLDPLQ 212 (457)
Q Consensus 150 ~~~C~~C~~~F~~l~rRrHHCR~CG~vfC~~Cs~~~~~lP~~~~~~~p~RVC~~C~~~l~~~q 212 (457)
...|..|-. .++---|-.||++||++|-..++.- ++. |--|-...++.+
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 357888844 3345679999999999996443211 112 888888776643
No 35
>PF13719 zinc_ribbon_5: zinc-ribbon domain
Probab=66.63 E-value=3.5 Score=28.85 Aligned_cols=26 Identities=31% Similarity=0.746 Sum_probs=17.5
Q ss_pred cccccCccCCCC------cccccccccCCceE
Q 012738 152 VCMQCTAPFTAL------TRGRHHCRFCGGVF 177 (457)
Q Consensus 152 ~C~~C~~~F~~l------~rRrHHCR~CG~vf 177 (457)
.|..|+..|..= ..++..|-.|+.+|
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 23467777777765
No 36
>smart00154 ZnF_AN1 AN1-like Zinc finger. Zinc finger at the C-terminus of An1, a ubiquitin-like protein in Xenopus laevis.
Probab=64.52 E-value=4.3 Score=28.81 Aligned_cols=26 Identities=38% Similarity=0.933 Sum_probs=19.8
Q ss_pred ccccCccCCCCcccccccccCCceEeCCC
Q 012738 153 CMQCTAPFTALTRGRHHCRFCGGVFCRIC 181 (457)
Q Consensus 153 C~~C~~~F~~l~rRrHHCR~CG~vfC~~C 181 (457)
|..|++.-. ++ ...|+.|+++||...
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 33 578999999998765
No 37
>KOG3576 consensus Ovo and related transcription factors [Transcription]
Probab=63.42 E-value=1.4 Score=42.60 Aligned_cols=36 Identities=33% Similarity=0.665 Sum_probs=27.0
Q ss_pred cCCCCCCcccccCccCCCCc------------ccccccccCCceEeCCC
Q 012738 145 LPDSSTTVCMQCTAPFTALT------------RGRHHCRFCGGVFCRIC 181 (457)
Q Consensus 145 v~d~~~~~C~~C~~~F~~l~------------rRrHHCR~CG~vfC~~C 181 (457)
-+|.+...|..|++.|+ +- .|||-|+.||+-|=..-
T Consensus 112 ssd~d~ftCrvCgK~F~-lQRmlnrh~kch~~vkr~lct~cgkgfndtf 159 (267)
T KOG3576|consen 112 SSDQDSFTCRVCGKKFG-LQRMLNRHLKCHSDVKRHLCTFCGKGFNDTF 159 (267)
T ss_pred CCCCCeeeeehhhhhhh-HHHHHHHHhhhccHHHHHHHhhccCcccchh
Confidence 34567789999999997 31 24899999999875543
No 38
>PRK00420 hypothetical protein; Validated
Probab=62.95 E-value=5.2 Score=35.15 Aligned_cols=25 Identities=32% Similarity=0.665 Sum_probs=17.1
Q ss_pred CcccccCccCCCCcccccccccCCceEeCCCCC
Q 012738 151 TVCMQCTAPFTALTRGRHHCRFCGGVFCRICTK 183 (457)
Q Consensus 151 ~~C~~C~~~F~~l~rRrHHCR~CG~vfC~~Cs~ 183 (457)
..|+.|+.+|..+.. |++||..|..
T Consensus 24 ~~CP~Cg~pLf~lk~--------g~~~Cp~Cg~ 48 (112)
T PRK00420 24 KHCPVCGLPLFELKD--------GEVVCPVHGK 48 (112)
T ss_pred CCCCCCCCcceecCC--------CceECCCCCC
Confidence 689999988774433 5666666654
No 39
>PRK00432 30S ribosomal protein S27ae; Validated
Probab=61.61 E-value=6.6 Score=29.47 Aligned_cols=27 Identities=33% Similarity=0.637 Sum_probs=18.8
Q ss_pred CcccccCccCCCCcccccccccCCceE
Q 012738 151 TVCMQCTAPFTALTRGRHHCRFCGGVF 177 (457)
Q Consensus 151 ~~C~~C~~~F~~l~rRrHHCR~CG~vf 177 (457)
..|+.|+..|-..-..|++|..||...
T Consensus 21 ~fCP~Cg~~~m~~~~~r~~C~~Cgyt~ 47 (50)
T PRK00432 21 KFCPRCGSGFMAEHLDRWHCGKCGYTE 47 (50)
T ss_pred CcCcCCCcchheccCCcEECCCcCCEE
Confidence 579999886443344578888888764
No 40
>KOG4275 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=61.37 E-value=1 Score=45.53 Aligned_cols=49 Identities=24% Similarity=0.676 Sum_probs=39.5
Q ss_pred CCCCcccccCccCCCCcccccccccCCceEeCCCCCceeecCccCCCCCceeeccccccc
Q 012738 148 SSTTVCMQCTAPFTALTRGRHHCRFCGGVFCRICTKGRCLLPVRFRERNPQRVCDACYDR 207 (457)
Q Consensus 148 ~~~~~C~~C~~~F~~l~rRrHHCR~CG~vfC~~Cs~~~~~lP~~~~~~~p~RVC~~C~~~ 207 (457)
....+|..|+..|. -++|||-|-.|-+-||..||. + ....|.|..|...
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 33458999999999 568999999999999999992 1 1347889998754
No 41
>PF14634 zf-RING_5: zinc-RING finger domain
Probab=61.18 E-value=1.7 Score=31.19 Aligned_cols=32 Identities=28% Similarity=0.692 Sum_probs=23.7
Q ss_pred cccccCccCCCCcccccccccCCceEeCCCCCce
Q 012738 152 VCMQCTAPFTALTRGRHHCRFCGGVFCRICTKGR 185 (457)
Q Consensus 152 ~C~~C~~~F~~l~rRrHHCR~CG~vfC~~Cs~~~ 185 (457)
+|..|..+|+ .+++-.=-.||++||..|....
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 4888988884 1344555689999999998654
No 42
>PF12773 DZR: Double zinc ribbon
Probab=57.98 E-value=7.5 Score=28.41 Aligned_cols=27 Identities=22% Similarity=0.733 Sum_probs=16.2
Q ss_pred CCCcccccCccCCCCcccccccccCCc
Q 012738 149 STTVCMQCTAPFTALTRGRHHCRFCGG 175 (457)
Q Consensus 149 ~~~~C~~C~~~F~~l~rRrHHCR~CG~ 175 (457)
++..|..|+.++..-......|..||.
T Consensus 11 ~~~fC~~CG~~l~~~~~~~~~C~~Cg~ 37 (50)
T PF12773_consen 11 DAKFCPHCGTPLPPPDQSKKICPNCGA 37 (50)
T ss_pred cccCChhhcCChhhccCCCCCCcCCcC
Confidence 456788888776622223456666665
No 43
>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=56.74 E-value=9.5 Score=29.76 Aligned_cols=29 Identities=17% Similarity=0.391 Sum_probs=21.8
Q ss_pred CCCcccccCccCCC-CcccccccccCCceE
Q 012738 149 STTVCMQCTAPFTA-LTRGRHHCRFCGGVF 177 (457)
Q Consensus 149 ~~~~C~~C~~~F~~-l~rRrHHCR~CG~vf 177 (457)
.+..|..|+..-.. ...|.++|..||..+
T Consensus 27 TSq~C~~CG~~~~~~~~~r~~~C~~Cg~~~ 56 (69)
T PF07282_consen 27 TSQTCPRCGHRNKKRRSGRVFTCPNCGFEM 56 (69)
T ss_pred CccCccCcccccccccccceEEcCCCCCEE
Confidence 35789999986653 456789999999863
No 44
>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=55.51 E-value=11 Score=28.35 Aligned_cols=34 Identities=24% Similarity=0.476 Sum_probs=19.7
Q ss_pred Ccccc--cCccCCCCccc---ccccccCCceEeCCCCCc
Q 012738 151 TVCMQ--CTAPFTALTRG---RHHCRFCGGVFCRICTKG 184 (457)
Q Consensus 151 ~~C~~--C~~~F~~l~rR---rHHCR~CG~vfC~~Cs~~ 184 (457)
..|.. |...|..-... .-.|..|+..||..|...
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 268999999999999753
No 45
>KOG3799 consensus Rab3 effector RIM1 and related proteins, contain Rab3a binding domain [Intracellular trafficking, secretion, and vesicular transport]
Probab=53.81 E-value=6.5 Score=35.63 Aligned_cols=52 Identities=27% Similarity=0.645 Sum_probs=38.4
Q ss_pred CCCcccccCc-cCCCCcccccccccCCceEeCCCCCceeecCccCCCCCceeeccccccc
Q 012738 149 STTVCMQCTA-PFTALTRGRHHCRFCGGVFCRICTKGRCLLPVRFRERNPQRVCDACYDR 207 (457)
Q Consensus 149 ~~~~C~~C~~-~F~~l~rRrHHCR~CG~vfC~~Cs~~~~~lP~~~~~~~p~RVC~~C~~~ 207 (457)
+...|.+|++ +|. =.. -|+|..|---||..|--.- .+ +.++-.-||..|-..
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 3478999998 564 233 5999999999999997543 22 346677899999654
No 46
>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=53.81 E-value=4.9 Score=41.20 Aligned_cols=50 Identities=18% Similarity=0.408 Sum_probs=30.9
Q ss_pred CcccccCcc--CCCCcccccccccCCceEeCCCCCceeecCccCCCCCceeecccccccccc
Q 012738 151 TVCMQCTAP--FTALTRGRHHCRFCGGVFCRICTKGRCLLPVRFRERNPQRVCDACYDRLDP 210 (457)
Q Consensus 151 ~~C~~C~~~--F~~l~rRrHHCR~CG~vfC~~Cs~~~~~lP~~~~~~~p~RVC~~C~~~l~~ 210 (457)
..|..|... ++.-.+=-.+ .||+.||.+|...-... +...|..|...+..
T Consensus 4 ~~CP~Ck~~~y~np~~kl~i~--~CGH~~C~sCv~~l~~~--------~~~~CP~C~~~lrk 55 (309)
T TIGR00570 4 QGCPRCKTTKYRNPSLKLMVN--VCGHTLCESCVDLLFVR--------GSGSCPECDTPLRK 55 (309)
T ss_pred CCCCcCCCCCccCcccccccC--CCCCcccHHHHHHHhcC--------CCCCCCCCCCccch
Confidence 479999984 3321111244 89999999998753211 12368888766653
No 47
>KOG2164 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=53.35 E-value=3.8 Score=44.45 Aligned_cols=51 Identities=20% Similarity=0.428 Sum_probs=37.1
Q ss_pred CcccccCccCCCCcccccccccCCceEeCCCCCceeecCccCCCCCceeecccccccccc
Q 012738 151 TVCMQCTAPFTALTRGRHHCRFCGGVFCRICTKGRCLLPVRFRERNPQRVCDACYDRLDP 210 (457)
Q Consensus 151 ~~C~~C~~~F~~l~rRrHHCR~CG~vfC~~Cs~~~~~lP~~~~~~~p~RVC~~C~~~l~~ 210 (457)
..|.+|-.++.. -.| - +||++||..|.=+....+ .....+-|.-|+..+..
T Consensus 187 ~~CPICL~~~~~-p~~-t---~CGHiFC~~CiLqy~~~s----~~~~~~~CPiC~s~I~~ 237 (513)
T KOG2164|consen 187 MQCPICLEPPSV-PVR-T---NCGHIFCGPCILQYWNYS----AIKGPCSCPICRSTITL 237 (513)
T ss_pred CcCCcccCCCCc-ccc-c---ccCceeeHHHHHHHHhhh----cccCCccCCchhhhccc
Confidence 689999998873 322 2 399999999975443333 23567889999998876
No 48
>PHA02768 hypothetical protein; Provisional
Probab=53.25 E-value=5.8 Score=30.54 Aligned_cols=26 Identities=12% Similarity=0.203 Sum_probs=17.6
Q ss_pred cccccCccCCCCc-----c----cccccccCCceE
Q 012738 152 VCMQCTAPFTALT-----R----GRHHCRFCGGVF 177 (457)
Q Consensus 152 ~C~~C~~~F~~l~-----r----RrHHCR~CG~vf 177 (457)
.|..|++.|+... . +.+.|-.||++|
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 6999999996320 1 245577787766
No 49
>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=52.06 E-value=12 Score=34.18 Aligned_cols=29 Identities=24% Similarity=0.602 Sum_probs=20.2
Q ss_pred CCCCCCcccccCccCCCCcccccccccCCceE
Q 012738 146 PDSSTTVCMQCTAPFTALTRGRHHCRFCGGVF 177 (457)
Q Consensus 146 ~d~~~~~C~~C~~~F~~l~rRrHHCR~CG~vf 177 (457)
.......|..|...=. .|-|||+.|++.+
T Consensus 44 ~~~~~~~C~~C~~~kp---~Rs~HC~~C~~CV 72 (174)
T PF01529_consen 44 ENGELKYCSTCKIIKP---PRSHHCRVCNRCV 72 (174)
T ss_pred cCCCCEECcccCCcCC---Ccceecccccccc
Confidence 3344577999987533 3789999987753
No 50
>PLN03208 E3 ubiquitin-protein ligase RMA2; Provisional
Probab=51.66 E-value=3.9 Score=39.25 Aligned_cols=56 Identities=16% Similarity=0.460 Sum_probs=35.9
Q ss_pred CCcccccCccCCCCcccccccccCCceEeCCCCCceeecCc-------cCCCCCceeecccccccccc
Q 012738 150 TTVCMQCTAPFTALTRGRHHCRFCGGVFCRICTKGRCLLPV-------RFRERNPQRVCDACYDRLDP 210 (457)
Q Consensus 150 ~~~C~~C~~~F~~l~rRrHHCR~CG~vfC~~Cs~~~~~lP~-------~~~~~~p~RVC~~C~~~l~~ 210 (457)
.-.|.+|...+.- -.--.||++||+.|-........ ..........|-.|...++.
T Consensus 18 ~~~CpICld~~~d-----PVvT~CGH~FC~~CI~~wl~~s~~s~~~~~~~~~~k~~~~CPvCR~~Is~ 80 (193)
T PLN03208 18 DFDCNICLDQVRD-----PVVTLCGHLFCWPCIHKWTYASNNSRQRVDQYDHKREPPKCPVCKSDVSE 80 (193)
T ss_pred ccCCccCCCcCCC-----cEEcCCCchhHHHHHHHHHHhccccccccccccccCCCCcCCCCCCcCCh
Confidence 4679999987652 22357999999999864321100 01112345689999998865
No 51
>KOG0978 consensus E3 ubiquitin ligase involved in syntaxin degradation [Posttranslational modification, protein turnover, chaperones]
Probab=50.51 E-value=1.6 Score=49.24 Aligned_cols=46 Identities=28% Similarity=0.659 Sum_probs=32.1
Q ss_pred CcccccCccCCCCcccccccccCCceEeCCCCCceeecCccCCCCCceeeccccccccc
Q 012738 151 TVCMQCTAPFTALTRGRHHCRFCGGVFCRICTKGRCLLPVRFRERNPQRVCDACYDRLD 209 (457)
Q Consensus 151 ~~C~~C~~~F~~l~rRrHHCR~CG~vfC~~Cs~~~~~lP~~~~~~~p~RVC~~C~~~l~ 209 (457)
-.|+.|...+.- --=-.||++||..|...+ ....+|-|..|-.-..
T Consensus 644 LkCs~Cn~R~Kd-----~vI~kC~H~FC~~Cvq~r--------~etRqRKCP~Cn~aFg 689 (698)
T KOG0978|consen 644 LKCSVCNTRWKD-----AVITKCGHVFCEECVQTR--------YETRQRKCPKCNAAFG 689 (698)
T ss_pred eeCCCccCchhh-----HHHHhcchHHHHHHHHHH--------HHHhcCCCCCCCCCCC
Confidence 569999864431 112369999999998654 2457999999976543
No 52
>KOG0823 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=50.46 E-value=4.7 Score=39.58 Aligned_cols=34 Identities=24% Similarity=0.586 Sum_probs=24.3
Q ss_pred ccCCceEeCCCCCceeecCccCCCCCceeecccccccccc
Q 012738 171 RFCGGVFCRICTKGRCLLPVRFRERNPQRVCDACYDRLDP 210 (457)
Q Consensus 171 R~CG~vfC~~Cs~~~~~lP~~~~~~~p~RVC~~C~~~l~~ 210 (457)
-.||++||+-|.-++... ..-...|-.|...++.
T Consensus 63 TlCGHLFCWpClyqWl~~------~~~~~~cPVCK~~Vs~ 96 (230)
T KOG0823|consen 63 TLCGHLFCWPCLYQWLQT------RPNSKECPVCKAEVSI 96 (230)
T ss_pred eecccceehHHHHHHHhh------cCCCeeCCcccccccc
Confidence 489999999998766433 2335677888877754
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=47.77 E-value=13 Score=30.04 Aligned_cols=23 Identities=26% Similarity=0.748 Sum_probs=13.0
Q ss_pred cccccCccCCCCcccccccccCCc
Q 012738 152 VCMQCTAPFTALTRGRHHCRFCGG 175 (457)
Q Consensus 152 ~C~~C~~~F~~l~rRrHHCR~CG~ 175 (457)
.|+.|+.+.. +...+.||-.|..
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 6899999877 3444666666654
No 54
>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=47.57 E-value=4.9 Score=29.03 Aligned_cols=28 Identities=21% Similarity=0.146 Sum_probs=20.0
Q ss_pred cceeeecCCCCCCCccC-CCCcCCCCCCCc
Q 012738 94 SSNVSFFGSGKNGDTYL-HSSVYIPSAPPL 122 (457)
Q Consensus 94 ~~~v~~~g~~~~g~~~~-~~~~~~~~~p~l 122 (457)
+++||.||.+.+|++ + +.+......|..
T Consensus 1 dG~vy~wG~n~~GqL-G~~~~~~~~~~P~~ 29 (51)
T PF00415_consen 1 DGRVYSWGSNDYGQL-GSGGDNKNVSVPTK 29 (51)
T ss_dssp TSEEEEEEEETTSTT-SSSSSSSEEEEEEE
T ss_pred CCcEEEEECCCCCCC-CCCCCCCceeEEEE
Confidence 368999999999998 5 555544444443
No 55
>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=47.17 E-value=5.8 Score=27.55 Aligned_cols=28 Identities=25% Similarity=0.653 Sum_probs=19.9
Q ss_pred ccccCccCCCCcccccccccCCceEeCCCCCc
Q 012738 153 CMQCTAPFTALTRGRHHCRFCGGVFCRICTKG 184 (457)
Q Consensus 153 C~~C~~~F~~l~rRrHHCR~CG~vfC~~Cs~~ 184 (457)
|.+|...+. .....-.||++||..|...
T Consensus 1 C~iC~~~~~----~~~~~~~CGH~fC~~C~~~ 28 (39)
T PF13923_consen 1 CPICLDELR----DPVVVTPCGHSFCKECIEK 28 (39)
T ss_dssp ETTTTSB-S----SEEEECTTSEEEEHHHHHH
T ss_pred CCCCCCccc----CcCEECCCCCchhHHHHHH
Confidence 567766443 3456789999999999754
No 56
>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=47.09 E-value=18 Score=37.09 Aligned_cols=62 Identities=27% Similarity=0.631 Sum_probs=39.0
Q ss_pred CCcccccCccC--CCC-------cccccccccCC------ceEeCCCCCceee--cCccCC-CCCcee--eccccccccc
Q 012738 150 TTVCMQCTAPF--TAL-------TRGRHHCRFCG------GVFCRICTKGRCL--LPVRFR-ERNPQR--VCDACYDRLD 209 (457)
Q Consensus 150 ~~~C~~C~~~F--~~l-------~rRrHHCR~CG------~vfC~~Cs~~~~~--lP~~~~-~~~p~R--VC~~C~~~l~ 209 (457)
...|..|+..= +.+ ..|..||-.|+ ++-|..|-+.+-+ ...... +...+| +|+.|...++
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 46899999852 211 24688999998 4578888764421 111110 223456 9999999886
Q ss_pred cc
Q 012738 210 PL 211 (457)
Q Consensus 210 ~~ 211 (457)
.+
T Consensus 264 ~~ 265 (305)
T TIGR01562 264 IL 265 (305)
T ss_pred hh
Confidence 54
No 57
>smart00647 IBR In Between Ring fingers. the domains occurs between pairs og RING fingers
Probab=46.96 E-value=16 Score=27.41 Aligned_cols=34 Identities=29% Similarity=0.611 Sum_probs=24.1
Q ss_pred Cccc--ccCccCCCC---cccccccccCCceEeCCCCCc
Q 012738 151 TVCM--QCTAPFTAL---TRGRHHCRFCGGVFCRICTKG 184 (457)
Q Consensus 151 ~~C~--~C~~~F~~l---~rRrHHCR~CG~vfC~~Cs~~ 184 (457)
..|. .|....... ...+-.|..||..||..|...
T Consensus 19 ~~CP~~~C~~~~~~~~~~~~~~v~C~~C~~~fC~~C~~~ 57 (64)
T smart00647 19 KWCPAPDCSAAIIVTEEEGCNRVTCPKCGFSFCFRCKVP 57 (64)
T ss_pred cCCCCCCCcceEEecCCCCCCeeECCCCCCeECCCCCCc
Confidence 4577 776654421 345788999999999999753
No 58
>COG5574 PEX10 RING-finger-containing E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=46.79 E-value=5.5 Score=39.89 Aligned_cols=28 Identities=29% Similarity=0.702 Sum_probs=21.7
Q ss_pred CcccccCccCCCCcccccccccCCceEeCCCCC
Q 012738 151 TVCMQCTAPFTALTRGRHHCRFCGGVFCRICTK 183 (457)
Q Consensus 151 ~~C~~C~~~F~~l~rRrHHCR~CG~vfC~~Cs~ 183 (457)
-.|..|-..-. .--|+.||++||..|.-
T Consensus 216 ~kC~lC~e~~~-----~ps~t~CgHlFC~~Cl~ 243 (271)
T COG5574 216 YKCFLCLEEPE-----VPSCTPCGHLFCLSCLL 243 (271)
T ss_pred cceeeeecccC-----CcccccccchhhHHHHH
Confidence 56888876333 46799999999999963
No 59
>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=46.76 E-value=9.2 Score=38.58 Aligned_cols=63 Identities=24% Similarity=0.544 Sum_probs=31.4
Q ss_pred CCcccccCccCC--CC------cccccccccCCc------eEeCCCCCcee-e---cCccCCCCCceeeccccccccccc
Q 012738 150 TTVCMQCTAPFT--AL------TRGRHHCRFCGG------VFCRICTKGRC-L---LPVRFRERNPQRVCDACYDRLDPL 211 (457)
Q Consensus 150 ~~~C~~C~~~F~--~l------~rRrHHCR~CG~------vfC~~Cs~~~~-~---lP~~~~~~~p~RVC~~C~~~l~~~ 211 (457)
...|..|+..=. .+ .+|..||-.||. +-|..|-+... . +.........+-||+.|...+..+
T Consensus 172 ~g~CPvCGs~P~~s~l~~~~~~G~R~L~Cs~C~t~W~~~R~~Cp~Cg~~~~~~l~~~~~e~~~~~rve~C~~C~~YlK~v 251 (290)
T PF04216_consen 172 RGYCPVCGSPPVLSVLRGGEREGKRYLHCSLCGTEWRFVRIKCPYCGNTDHEKLEYFTVEGEPAYRVEVCESCGSYLKTV 251 (290)
T ss_dssp -SS-TTT---EEEEEEE------EEEEEETTT--EEE--TTS-TTT---SS-EEE--------SEEEEEETTTTEEEEEE
T ss_pred CCcCCCCCCcCceEEEecCCCCccEEEEcCCCCCeeeecCCCCcCCCCCCCcceeeEecCCCCcEEEEECCcccchHHHH
Confidence 368999998521 11 257899999995 57999976431 1 111112234466999999988765
Q ss_pred c
Q 012738 212 Q 212 (457)
Q Consensus 212 q 212 (457)
.
T Consensus 252 d 252 (290)
T PF04216_consen 252 D 252 (290)
T ss_dssp E
T ss_pred h
Confidence 4
No 60
>PF13901 DUF4206: Domain of unknown function (DUF4206)
Probab=46.01 E-value=6.2 Score=37.94 Aligned_cols=46 Identities=22% Similarity=0.465 Sum_probs=35.2
Q ss_pred ccccCCceEeCCCCCc-eeecCcc---CCCCCceeeccccccccccccch
Q 012738 169 HCRFCGGVFCRICTKG-RCLLPVR---FRERNPQRVCDACYDRLDPLQGV 214 (457)
Q Consensus 169 HCR~CG~vfC~~Cs~~-~~~lP~~---~~~~~p~RVC~~C~~~l~~~q~~ 214 (457)
.|...|+.||..|-.+ ...+|.. ...-++..||+..++.|......
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 5899999999999765 5677832 23457899999999998765443
No 61
>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=45.71 E-value=14 Score=25.26 Aligned_cols=24 Identities=25% Similarity=0.582 Sum_probs=14.6
Q ss_pred cccccCccCCCCcccccccccCCc
Q 012738 152 VCMQCTAPFTALTRGRHHCRFCGG 175 (457)
Q Consensus 152 ~C~~C~~~F~~l~rRrHHCR~CG~ 175 (457)
.|..|+..+..-..-.-.|+.||.
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 478888888732333567888875
No 62
>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=44.72 E-value=17 Score=30.22 Aligned_cols=31 Identities=29% Similarity=0.515 Sum_probs=24.8
Q ss_pred CCcccccCccCCCCcccccccccCCceEeCCCCC
Q 012738 150 TTVCMQCTAPFTALTRGRHHCRFCGGVFCRICTK 183 (457)
Q Consensus 150 ~~~C~~C~~~F~~l~rRrHHCR~CG~vfC~~Cs~ 183 (457)
...|..|+++|.. ..-.-..||.+|...|.+
T Consensus 78 ~~~C~vC~k~l~~---~~f~~~p~~~v~H~~C~~ 108 (109)
T PF10367_consen 78 STKCSVCGKPLGN---SVFVVFPCGHVVHYSCIK 108 (109)
T ss_pred CCCccCcCCcCCC---ceEEEeCCCeEEeccccc
Confidence 4679999999872 456667889999999974
No 63
>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=44.69 E-value=15 Score=31.01 Aligned_cols=11 Identities=27% Similarity=0.923 Sum_probs=5.7
Q ss_pred CcccccCccCC
Q 012738 151 TVCMQCTAPFT 161 (457)
Q Consensus 151 ~~C~~C~~~F~ 161 (457)
+.|..|+++..
T Consensus 34 S~C~~C~~~L~ 44 (92)
T PF06750_consen 34 SHCPHCGHPLS 44 (92)
T ss_pred CcCcCCCCcCc
Confidence 45555555443
No 64
>PRK03564 formate dehydrogenase accessory protein FdhE; Provisional
Probab=44.68 E-value=20 Score=36.88 Aligned_cols=62 Identities=21% Similarity=0.390 Sum_probs=38.7
Q ss_pred CCcccccCccC--CCC------cccccccccCC------ceEeCCCCCceeecCccCC---CCCceeeccccccccccc
Q 012738 150 TTVCMQCTAPF--TAL------TRGRHHCRFCG------GVFCRICTKGRCLLPVRFR---ERNPQRVCDACYDRLDPL 211 (457)
Q Consensus 150 ~~~C~~C~~~F--~~l------~rRrHHCR~CG------~vfC~~Cs~~~~~lP~~~~---~~~p~RVC~~C~~~l~~~ 211 (457)
...|..|+..= +.+ ..|..||-.|+ ++-|..|-+.+.+--.... ....+-+|+.|...++.+
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 47899999852 211 35788999998 4578888764321100011 122446899999988764
No 65
>PRK04023 DNA polymerase II large subunit; Validated
Probab=43.24 E-value=19 Score=42.46 Aligned_cols=47 Identities=23% Similarity=0.564 Sum_probs=33.0
Q ss_pred CCCcccccCccCCCCcccccccccCCc-----eEeCCCCCceeecCccCCCCCceeeccccccccccc
Q 012738 149 STTVCMQCTAPFTALTRGRHHCRFCGG-----VFCRICTKGRCLLPVRFRERNPQRVCDACYDRLDPL 211 (457)
Q Consensus 149 ~~~~C~~C~~~F~~l~rRrHHCR~CG~-----vfC~~Cs~~~~~lP~~~~~~~p~RVC~~C~~~l~~~ 211 (457)
....|..|+.... ...|.+||. .||..|-... . .-.|..|-..+.+.
T Consensus 625 g~RfCpsCG~~t~-----~frCP~CG~~Te~i~fCP~CG~~~--~---------~y~CPKCG~El~~~ 676 (1121)
T PRK04023 625 GRRKCPSCGKETF-----YRRCPFCGTHTEPVYRCPRCGIEV--E---------EDECEKCGREPTPY 676 (1121)
T ss_pred cCccCCCCCCcCC-----cccCCCCCCCCCcceeCccccCcC--C---------CCcCCCCCCCCCcc
Confidence 4578999999743 368999996 4999994321 0 13499998877654
No 66
>KOG1814 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=42.84 E-value=11 Score=40.13 Aligned_cols=42 Identities=29% Similarity=0.772 Sum_probs=32.3
Q ss_pred CCccCCCCCCcccccCccCCCCc-ccccccccCCceEeCCCCCc
Q 012738 142 PEWLPDSSTTVCMQCTAPFTALT-RGRHHCRFCGGVFCRICTKG 184 (457)
Q Consensus 142 p~Wv~d~~~~~C~~C~~~F~~l~-rRrHHCR~CG~vfC~~Cs~~ 184 (457)
..|+..+ ...|+.|...-...- .-|+||-.||..||+-|+.-
T Consensus 361 ekwl~~N-~krCP~C~v~IEr~eGCnKM~C~~c~~~fc~~c~~~ 403 (445)
T KOG1814|consen 361 EKWLESN-SKRCPKCKVVIERSEGCNKMHCTKCGTYFCWICAEL 403 (445)
T ss_pred HHHHHhc-CCCCCcccceeecCCCccceeeccccccceeehhhh
Confidence 4798654 679999998664321 23899999999999999853
No 67
>PRK00398 rpoP DNA-directed RNA polymerase subunit P; Provisional
Probab=42.75 E-value=14 Score=26.72 Aligned_cols=23 Identities=26% Similarity=0.691 Sum_probs=13.7
Q ss_pred cccccCccCCCCccc--ccccccCCc
Q 012738 152 VCMQCTAPFTALTRG--RHHCRFCGG 175 (457)
Q Consensus 152 ~C~~C~~~F~~l~rR--rHHCR~CG~ 175 (457)
.|..|+..|. +..+ ..+|..||.
T Consensus 5 ~C~~CG~~~~-~~~~~~~~~Cp~CG~ 29 (46)
T PRK00398 5 KCARCGREVE-LDEYGTGVRCPYCGY 29 (46)
T ss_pred ECCCCCCEEE-ECCCCCceECCCCCC
Confidence 5777887775 2222 356666665
No 68
>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=41.94 E-value=16 Score=23.74 Aligned_cols=23 Identities=30% Similarity=0.733 Sum_probs=14.6
Q ss_pred cccccCccCCCCcccccccccCCceE
Q 012738 152 VCMQCTAPFTALTRGRHHCRFCGGVF 177 (457)
Q Consensus 152 ~C~~C~~~F~~l~rRrHHCR~CG~vf 177 (457)
.|..|++.-. .. -.-|.+||..|
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 69
>smart00659 RPOLCX RNA polymerase subunit CX. present in RNA polymerase I, II and III
Probab=41.09 E-value=16 Score=26.72 Aligned_cols=23 Identities=26% Similarity=0.686 Sum_probs=13.2
Q ss_pred cccccCccCCCCcccccccccCC
Q 012738 152 VCMQCTAPFTALTRGRHHCRFCG 174 (457)
Q Consensus 152 ~C~~C~~~F~~l~rRrHHCR~CG 174 (457)
.|..|+..|..-..-.-.|+.||
T Consensus 4 ~C~~Cg~~~~~~~~~~irC~~CG 26 (44)
T smart00659 4 ICGECGRENEIKSKDVVRCRECG 26 (44)
T ss_pred ECCCCCCEeecCCCCceECCCCC
Confidence 58889998883222234444444
No 70
>PF15616 TerY-C: TerY-C metal binding domain
Probab=39.81 E-value=13 Score=33.63 Aligned_cols=15 Identities=60% Similarity=1.161 Sum_probs=13.8
Q ss_pred EEEEeccccccCCCC
Q 012738 4 IVILFGGCQKAKKPY 18 (457)
Q Consensus 4 ~~~~~~~~~~~~~~~ 18 (457)
.|||.|=|||.||||
T Consensus 7 ~vvl~gkCsktk~pY 21 (131)
T PF15616_consen 7 CVVLVGKCSKTKKPY 21 (131)
T ss_pred EEEEEEeccCCCCce
Confidence 488999999999999
No 71
>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=39.64 E-value=6.6 Score=27.90 Aligned_cols=32 Identities=31% Similarity=0.534 Sum_probs=22.8
Q ss_pred cccccCccCCCCcccccccccCCceEeCCCCCce
Q 012738 152 VCMQCTAPFTALTRGRHHCRFCGGVFCRICTKGR 185 (457)
Q Consensus 152 ~C~~C~~~F~~l~rRrHHCR~CG~vfC~~Cs~~~ 185 (457)
.|.+|...|.. .. .-.--.||++||..|....
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 58999999863 22 3333449999999997654
No 72
>COG1773 Rubredoxin [Energy production and conversion]
Probab=39.08 E-value=24 Score=27.22 Aligned_cols=41 Identities=27% Similarity=0.507 Sum_probs=21.7
Q ss_pred cccccccCCceEeCCCCCceeecCc--cCCCCCceeecccccc
Q 012738 166 GRHHCRFCGGVFCRICTKGRCLLPV--RFRERNPQRVCDACYD 206 (457)
Q Consensus 166 RrHHCR~CG~vfC~~Cs~~~~~lP~--~~~~~~p~RVC~~C~~ 206 (457)
+|+.|+.||.|+=..=-..+.-++. .|..-....+|..|-.
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 4799999999973332221111111 1222334577777753
No 73
>KOG3173 consensus Predicted Zn-finger protein [General function prediction only]
Probab=38.23 E-value=17 Score=34.16 Aligned_cols=29 Identities=38% Similarity=0.989 Sum_probs=22.9
Q ss_pred CCCcccccCccCCCCcccccccccCCceEeCCC
Q 012738 149 STTVCMQCTAPFTALTRGRHHCRFCGGVFCRIC 181 (457)
Q Consensus 149 ~~~~C~~C~~~F~~l~rRrHHCR~CG~vfC~~C 181 (457)
....|..|+++-. ++ - .||| ||.+||..+
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 3456999998888 55 3 8997 899999875
No 74
>KOG2879 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=37.91 E-value=18 Score=36.57 Aligned_cols=55 Identities=31% Similarity=0.660 Sum_probs=40.7
Q ss_pred CCCcccccCccCCCCcccccccccCCceEeCCCCCceeecCccCCCCCceeeccccccccccccch
Q 012738 149 STTVCMQCTAPFTALTRGRHHCRFCGGVFCRICTKGRCLLPVRFRERNPQRVCDACYDRLDPLQGV 214 (457)
Q Consensus 149 ~~~~C~~C~~~F~~l~rRrHHCR~CG~vfC~~Cs~~~~~lP~~~~~~~p~RVC~~C~~~l~~~q~~ 214 (457)
....|..|+..=+ + .||--.||+++|-.|...... ..-.-.|..|-+-..++|+.
T Consensus 238 ~~~~C~~Cg~~Pt-i---P~~~~~C~HiyCY~Ci~ts~~-------~~asf~Cp~Cg~~~~~lq~s 292 (298)
T KOG2879|consen 238 SDTECPVCGEPPT-I---PHVIGKCGHIYCYYCIATSRL-------WDASFTCPLCGENVEPLQAS 292 (298)
T ss_pred CCceeeccCCCCC-C---Ceeeccccceeehhhhhhhhc-------chhhcccCccCCCCcchhhc
Confidence 3478999999655 3 699999999999999754321 12345799999888776643
No 75
>TIGR02098 MJ0042_CXXC MJ0042 family finger-like domain. This domain contains a CXXCX(19)CXXC motif suggestive of both zinc fingers and thioredoxin, usually found at the N-terminus of prokaryotic proteins. One partially characterized gene, agmX, is among a large set in Myxococcus whose interruption affects adventurous gliding motility.
Probab=37.58 E-value=19 Score=24.85 Aligned_cols=10 Identities=30% Similarity=0.923 Sum_probs=5.7
Q ss_pred cccccCccCC
Q 012738 152 VCMQCTAPFT 161 (457)
Q Consensus 152 ~C~~C~~~F~ 161 (457)
.|..|+..|.
T Consensus 4 ~CP~C~~~~~ 13 (38)
T TIGR02098 4 QCPNCKTSFR 13 (38)
T ss_pred ECCCCCCEEE
Confidence 3556666554
No 76
>PRK14559 putative protein serine/threonine phosphatase; Provisional
Probab=37.56 E-value=19 Score=40.70 Aligned_cols=30 Identities=27% Similarity=0.763 Sum_probs=24.4
Q ss_pred CCCcccccCccCCCCcccccccccCCce------EeCCCCC
Q 012738 149 STTVCMQCTAPFTALTRGRHHCRFCGGV------FCRICTK 183 (457)
Q Consensus 149 ~~~~C~~C~~~F~~l~rRrHHCR~CG~v------fC~~Cs~ 183 (457)
.+..|..|+.++.. ..|..||.. ||..|-.
T Consensus 14 ~akFC~~CG~~l~~-----~~Cp~CG~~~~~~~~fC~~CG~ 49 (645)
T PRK14559 14 NNRFCQKCGTSLTH-----KPCPQCGTEVPVDEAHCPNCGA 49 (645)
T ss_pred CCccccccCCCCCC-----CcCCCCCCCCCcccccccccCC
Confidence 46789999998861 369999998 9999964
No 77
>COG0675 Transposase and inactivated derivatives [DNA replication, recombination, and repair]
Probab=37.29 E-value=22 Score=35.24 Aligned_cols=26 Identities=23% Similarity=0.525 Sum_probs=19.5
Q ss_pred CCCCcccccCccCCCCcccccccccCCceE
Q 012738 148 SSTTVCMQCTAPFTALTRGRHHCRFCGGVF 177 (457)
Q Consensus 148 ~~~~~C~~C~~~F~~l~rRrHHCR~CG~vf 177 (457)
..+..|..|+. + ..|.+.|..||..+
T Consensus 307 ~tS~~C~~cg~-~---~~r~~~C~~cg~~~ 332 (364)
T COG0675 307 YTSKTCPCCGH-L---SGRLFKCPRCGFVH 332 (364)
T ss_pred CCcccccccCC-c---cceeEECCCCCCee
Confidence 44578999999 3 35678888888764
No 78
>PF14445 Prok-RING_2: Prokaryotic RING finger family 2
Probab=36.98 E-value=5.8 Score=30.00 Aligned_cols=45 Identities=20% Similarity=0.623 Sum_probs=34.5
Q ss_pred CcccccCccCCCCcccccccccCCceEeCCCCCceeecCccCCCCCceeeccccccccc
Q 012738 151 TVCMQCTAPFTALTRGRHHCRFCGGVFCRICTKGRCLLPVRFRERNPQRVCDACYDRLD 209 (457)
Q Consensus 151 ~~C~~C~~~F~~l~rRrHHCR~CG~vfC~~Cs~~~~~lP~~~~~~~p~RVC~~C~~~l~ 209 (457)
-.|-.|+..|. + ..-..|-.||+--|++|... ..-.|+.|-.+++
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 34678999999999999743 3456888877654
No 79
>PF15135 UPF0515: Uncharacterised protein UPF0515
Probab=36.69 E-value=22 Score=35.43 Aligned_cols=34 Identities=18% Similarity=0.466 Sum_probs=26.1
Q ss_pred ccCCCCCCcccccCccCCCC------cccccccccCCceE
Q 012738 144 WLPDSSTTVCMQCTAPFTAL------TRGRHHCRFCGGVF 177 (457)
Q Consensus 144 Wv~d~~~~~C~~C~~~F~~l------~rRrHHCR~CG~vf 177 (457)
|-+-++++.|..|++.|..+ ..-..||..|++-|
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 34557789999999998643 23378999999987
No 80
>COG5151 SSL1 RNA polymerase II transcription initiation/nucleotide excision repair factor TFIIH, subunit SSL1 [Transcription / DNA replication, recombination, and repair]
Probab=34.98 E-value=17 Score=37.33 Aligned_cols=40 Identities=30% Similarity=0.787 Sum_probs=30.5
Q ss_pred CccCCCCCCcccccCccCCC---------CcccccccccCCceEeCCCC
Q 012738 143 EWLPDSSTTVCMQCTAPFTA---------LTRGRHHCRFCGGVFCRICT 182 (457)
Q Consensus 143 ~Wv~d~~~~~C~~C~~~F~~---------l~rRrHHCR~CG~vfC~~Cs 182 (457)
.|-..-....|..|+.+|-. +...|..|..|-.-||..|-
T Consensus 355 p~~~~~ks~~Cf~CQ~~fp~~~~~~~~~~~ss~rY~Ce~CK~~FC~dCd 403 (421)
T COG5151 355 PEGTNPKSTHCFVCQGPFPKPPVSPFDESTSSGRYQCELCKSTFCSDCD 403 (421)
T ss_pred cCCCCCCCccceeccCCCCCCCCCcccccccccceechhhhhhhhhhhH
Confidence 35555556789999998842 23458999999999999995
No 81
>PRK04136 rpl40e 50S ribosomal protein L40e; Provisional
Probab=34.59 E-value=25 Score=26.29 Aligned_cols=22 Identities=36% Similarity=0.848 Sum_probs=17.3
Q ss_pred CcccccCccCCCCcccccccccCCc
Q 012738 151 TVCMQCTAPFTALTRGRHHCRFCGG 175 (457)
Q Consensus 151 ~~C~~C~~~F~~l~rRrHHCR~CG~ 175 (457)
..|+.|...-. . |-.+||.||.
T Consensus 15 ~ICrkC~ARnp-~--~A~~CRKCg~ 36 (48)
T PRK04136 15 KICMRCNARNP-W--RATKCRKCGY 36 (48)
T ss_pred cchhcccCCCC-c--cccccccCCC
Confidence 57999988766 2 6789998885
No 82
>PF14353 CpXC: CpXC protein
Probab=33.47 E-value=24 Score=30.96 Aligned_cols=10 Identities=30% Similarity=0.876 Sum_probs=7.5
Q ss_pred cccccCccCC
Q 012738 152 VCMQCTAPFT 161 (457)
Q Consensus 152 ~C~~C~~~F~ 161 (457)
.|..|+.+|.
T Consensus 3 tCP~C~~~~~ 12 (128)
T PF14353_consen 3 TCPHCGHEFE 12 (128)
T ss_pred CCCCCCCeeE
Confidence 5888888874
No 83
>KOG1813 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=33.21 E-value=29 Score=35.42 Aligned_cols=28 Identities=29% Similarity=0.734 Sum_probs=21.5
Q ss_pred cccccCccCCCCcccccccccCCceEeCCCCCc
Q 012738 152 VCMQCTAPFTALTRGRHHCRFCGGVFCRICTKG 184 (457)
Q Consensus 152 ~C~~C~~~F~~l~rRrHHCR~CG~vfC~~Cs~~ 184 (457)
.|.+|++.|-. .---.||+-||..|+..
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 49999998852 22247999999999865
No 84
>KOG1829 consensus Uncharacterized conserved protein, contains C1, PH and RUN domains [Signal transduction mechanisms]
Probab=32.33 E-value=15 Score=40.80 Aligned_cols=62 Identities=23% Similarity=0.463 Sum_probs=43.9
Q ss_pred CCCcccccCccCC-CCcccccccccCCceEeCCCCCcee-ecCcc---CCCCCceeecccccccccc
Q 012738 149 STTVCMQCTAPFT-ALTRGRHHCRFCGGVFCRICTKGRC-LLPVR---FRERNPQRVCDACYDRLDP 210 (457)
Q Consensus 149 ~~~~C~~C~~~F~-~l~rRrHHCR~CG~vfC~~Cs~~~~-~lP~~---~~~~~p~RVC~~C~~~l~~ 210 (457)
.--.|..|++.+. .+..|-.-|+.+|+-||..|-.+-. .+|.+ ...-++..||+.=...|..
T Consensus 339 Q~~~CAgC~~~i~~~~~~~~R~C~y~G~y~C~~Ch~~~~svIPARVl~~WDf~~y~Vs~~a~~~L~~ 405 (580)
T KOG1829|consen 339 QNFRCAGCGHTIGPDLEQRPRLCRYLGKYFCDCCHQNDKSVIPARVLHNWDFTKYPVSNFAKQFLDE 405 (580)
T ss_pred cCceecccCCCcccccccchhHhhhhhhhhCchhcccCcccccccceecccCcccccchhHHHHHHH
Confidence 3348999999998 5566778899999999999976543 35632 1224567788776665544
No 85
>PF13445 zf-RING_UBOX: RING-type zinc-finger; PDB: 2CT2_A.
Probab=32.31 E-value=14 Score=26.77 Aligned_cols=30 Identities=30% Similarity=0.719 Sum_probs=13.8
Q ss_pred ccccCccCCCCcccccccccCCceEeCCCCCc
Q 012738 153 CMQCTAPFTALTRGRHHCRFCGGVFCRICTKG 184 (457)
Q Consensus 153 C~~C~~~F~~l~rRrHHCR~CG~vfC~~Cs~~ 184 (457)
|.+|.. |+.- ....-=-.||++||..|..+
T Consensus 1 CpIc~e-~~~~-~n~P~~L~CGH~~c~~cl~~ 30 (43)
T PF13445_consen 1 CPICKE-FSTE-ENPPMVLPCGHVFCKDCLQK 30 (43)
T ss_dssp -TTT-----TT-SS-EEE-SSS-EEEHHHHHH
T ss_pred CCcccc-ccCC-CCCCEEEeCccHHHHHHHHH
Confidence 677777 7521 11222246999999999754
No 86
>PF15616 TerY-C: TerY-C metal binding domain
Probab=32.23 E-value=27 Score=31.51 Aligned_cols=24 Identities=29% Similarity=0.843 Sum_probs=19.5
Q ss_pred CcccccCccCCCCcccccccccCCceEeCC
Q 012738 151 TVCMQCTAPFTALTRGRHHCRFCGGVFCRI 180 (457)
Q Consensus 151 ~~C~~C~~~F~~l~rRrHHCR~CG~vfC~~ 180 (457)
.-|+.|+..|. |. -| .||+++|..
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 67999999998 43 36 799999964
No 87
>KOG3795 consensus Uncharacterized conserved protein [Function unknown]
Probab=31.95 E-value=20 Score=34.00 Aligned_cols=18 Identities=39% Similarity=0.957 Sum_probs=14.6
Q ss_pred ccccccccCCc---eEeCCCC
Q 012738 165 RGRHHCRFCGG---VFCRICT 182 (457)
Q Consensus 165 rRrHHCR~CG~---vfC~~Cs 182 (457)
..||+|+.|+. .||-+|.
T Consensus 13 eGRs~C~~C~~SRkFfCY~C~ 33 (230)
T KOG3795|consen 13 EGRSTCPGCKSSRKFFCYDCR 33 (230)
T ss_pred cccccCCCCCCcceEEEEeec
Confidence 46899999985 5898886
No 88
>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=31.08 E-value=40 Score=22.52 Aligned_cols=25 Identities=28% Similarity=0.551 Sum_probs=13.0
Q ss_pred EeCCCCCceeecCccCCCCCceeecccccc
Q 012738 177 FCRICTKGRCLLPVRFRERNPQRVCDACYD 206 (457)
Q Consensus 177 fC~~Cs~~~~~lP~~~~~~~p~RVC~~C~~ 206 (457)
||..|-......+ ....|+|..|-.
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 357899998854
No 89
>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=30.99 E-value=14 Score=25.09 Aligned_cols=30 Identities=33% Similarity=0.654 Sum_probs=21.0
Q ss_pred cccccCccCCCCcccccccccCCceEeCCCCCce
Q 012738 152 VCMQCTAPFTALTRGRHHCRFCGGVFCRICTKGR 185 (457)
Q Consensus 152 ~C~~C~~~F~~l~rRrHHCR~CG~vfC~~Cs~~~ 185 (457)
.|..|...+. ....-..||+.||..|....
T Consensus 1 ~C~iC~~~~~----~~~~~~~C~H~~c~~C~~~~ 30 (45)
T cd00162 1 ECPICLEEFR----EPVVLLPCGHVFCRSCIDKW 30 (45)
T ss_pred CCCcCchhhh----CceEecCCCChhcHHHHHHH
Confidence 3778887763 23445569999999997643
No 90
>KOG1315 consensus Predicted DHHC-type Zn-finger protein [General function prediction only]
Probab=30.92 E-value=22 Score=36.56 Aligned_cols=27 Identities=26% Similarity=0.749 Sum_probs=15.6
Q ss_pred cCCCCCCcccccCccCCCCcccccccccCC
Q 012738 145 LPDSSTTVCMQCTAPFTALTRGRHHCRFCG 174 (457)
Q Consensus 145 v~d~~~~~C~~C~~~F~~l~rRrHHCR~CG 174 (457)
.++.....|..|+. .. --|-|||+-|+
T Consensus 104 ~~~g~~R~C~kC~~-iK--PdRaHHCsvC~ 130 (307)
T KOG1315|consen 104 TSDGAVRYCDKCKC-IK--PDRAHHCSVCN 130 (307)
T ss_pred cCCCCceeeccccc-cc--CCccccchhhh
Confidence 34555566777766 22 13567777763
No 91
>PHA02926 zinc finger-like protein; Provisional
Probab=30.57 E-value=14 Score=36.23 Aligned_cols=54 Identities=22% Similarity=0.453 Sum_probs=32.1
Q ss_pred CcccccCccCCCCcccccccc------cCCceEeCCCCCceeecCccCCCCCceeeccccccccc
Q 012738 151 TVCMQCTAPFTALTRGRHHCR------FCGGVFCRICTKGRCLLPVRFRERNPQRVCDACYDRLD 209 (457)
Q Consensus 151 ~~C~~C~~~F~~l~rRrHHCR------~CG~vfC~~Cs~~~~~lP~~~~~~~p~RVC~~C~~~l~ 209 (457)
..|..|-.... -++.-.+| .|+++||-.|-....... ....-.|-|.-|-..+.
T Consensus 171 ~eCgICmE~I~--eK~~~~eRrFGIL~~CnHsFCl~CIr~Wr~~r---~~~~~~rsCPiCR~~f~ 230 (242)
T PHA02926 171 KECGICYEVVY--SKRLENDRYFGLLDSCNHIFCITCINIWHRTR---RETGASDNCPICRTRFR 230 (242)
T ss_pred CCCccCccccc--cccccccccccccCCCCchHHHHHHHHHHHhc---cccCcCCcCCCCcceee
Confidence 67888876432 11223444 899999999976553221 11234566777766553
No 92
>KOG1311 consensus DHHC-type Zn-finger proteins [General function prediction only]
Probab=30.12 E-value=23 Score=35.64 Aligned_cols=24 Identities=21% Similarity=0.535 Sum_probs=17.0
Q ss_pred CCcccccCccCCCCcccccccccCCce
Q 012738 150 TTVCMQCTAPFTALTRGRHHCRFCGGV 176 (457)
Q Consensus 150 ~~~C~~C~~~F~~l~rRrHHCR~CG~v 176 (457)
...|..|+.- . -.|-|||+.|++.
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 3678888873 2 3578999988763
No 93
>COG1327 Predicted transcriptional regulator, consists of a Zn-ribbon and ATP-cone domains [Transcription]
Probab=29.44 E-value=27 Score=32.33 Aligned_cols=26 Identities=23% Similarity=0.328 Sum_probs=13.5
Q ss_pred hhhhhhHHHHHHhhhccCCCCCCCchhhh
Q 012738 251 EIYKASNTLRSYCQVAESNPERSIPLAVL 279 (457)
Q Consensus 251 EI~kAa~tL~~f~~~~~~~p~~~ip~~~l 279 (457)
.|+.+.+-+..-+ ....+.+||.+.|
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 5555555443322 2345667777644
No 94
>TIGR00100 hypA hydrogenase nickel insertion protein HypA. In Hpylori, hypA mutant abolished hydrogenase activity and decrease in urease activity. Nickel supplementation in media restored urease activity and partial hydrogenase activity. HypA probably involved in inserting Ni in enzymes.
Probab=28.96 E-value=27 Score=30.56 Aligned_cols=23 Identities=17% Similarity=0.450 Sum_probs=13.7
Q ss_pred CcccccCccCCCCcccccccccCC
Q 012738 151 TVCMQCTAPFTALTRGRHHCRFCG 174 (457)
Q Consensus 151 ~~C~~C~~~F~~l~rRrHHCR~CG 174 (457)
-.|..|+..|. +....-+|..||
T Consensus 71 ~~C~~Cg~~~~-~~~~~~~CP~Cg 93 (115)
T TIGR00100 71 CECEDCSEEVS-PEIDLYRCPKCH 93 (115)
T ss_pred EEcccCCCEEe-cCCcCccCcCCc
Confidence 67888888887 332233344444
No 95
>PF14835 zf-RING_6: zf-RING of BARD1-type protein; PDB: 1JM7_B.
Probab=28.86 E-value=36 Score=27.08 Aligned_cols=28 Identities=25% Similarity=0.724 Sum_probs=13.3
Q ss_pred cccccCccCCCCccccccc-ccCCceEeCCCCCc
Q 012738 152 VCMQCTAPFTALTRGRHHC-RFCGGVFCRICTKG 184 (457)
Q Consensus 152 ~C~~C~~~F~~l~rRrHHC-R~CG~vfC~~Cs~~ 184 (457)
.|..|.. +. |.-+| -.|.++||+.|-+.
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 4666654 33 46777 79999999999754
No 96
>COG1996 RPC10 DNA-directed RNA polymerase, subunit RPC10 (contains C4-type Zn-finger) [Transcription]
Probab=28.06 E-value=29 Score=26.14 Aligned_cols=11 Identities=18% Similarity=0.567 Sum_probs=8.9
Q ss_pred cccccCccCCC
Q 012738 152 VCMQCTAPFTA 162 (457)
Q Consensus 152 ~C~~C~~~F~~ 162 (457)
.|..|++.|..
T Consensus 8 ~C~~Cg~~~~~ 18 (49)
T COG1996 8 KCARCGREVEL 18 (49)
T ss_pred EhhhcCCeeeh
Confidence 58899998873
No 97
>TIGR03826 YvyF flagellar operon protein TIGR03826. This gene is found in flagellar operons of Bacillus-related organisms. Its function has not been determined and an official gene symbol has not been assigned, although the gene is designated yvyF in B. subtilus. A tentative assignment as a regulator is suggested in the NCBI record GI:16080597.
Probab=27.94 E-value=7.2 Score=35.44 Aligned_cols=51 Identities=20% Similarity=0.547 Sum_probs=28.5
Q ss_pred cccccCCceEeCCCCCceeecCccCCCCCceeecccccccccc-----------ccc--hhhhccchhhhhccccccccc
Q 012738 168 HHCRFCGGVFCRICTKGRCLLPVRFRERNPQRVCDACYDRLDP-----------LQG--VLINTISNAVQVAKHDVVDWT 234 (457)
Q Consensus 168 HHCR~CG~vfC~~Cs~~~~~lP~~~~~~~p~RVC~~C~~~l~~-----------~q~--~~~~~~s~~~~~~~~~~~~~~ 234 (457)
.+|+.||++|= . ....+|..|+..... ... ..+.+++.+.......+..|.
T Consensus 4 ~nC~~CgklF~-------------~---~~~~iCp~C~~~~e~~f~kV~~yLr~~p~~~ati~eV~e~tgVs~~~I~~~I 67 (137)
T TIGR03826 4 ANCPKCGRLFV-------------K---TGRDVCPSCYEEEEREFEKVYKFLRKHENRQATVSEIVEETGVSEKLILKFI 67 (137)
T ss_pred ccccccchhhh-------------h---cCCccCHHHhHHHHHHHHHHHHHHHHCCCCCCCHHHHHHHHCcCHHHHHHHH
Confidence 58888888761 1 124579999876532 111 334445555555555555554
No 98
>PRK00564 hypA hydrogenase nickel incorporation protein; Provisional
Probab=27.89 E-value=31 Score=30.26 Aligned_cols=25 Identities=20% Similarity=0.441 Sum_probs=14.2
Q ss_pred CCcccccCccCCCCccccc-ccccCCc
Q 012738 150 TTVCMQCTAPFTALTRGRH-HCRFCGG 175 (457)
Q Consensus 150 ~~~C~~C~~~F~~l~rRrH-HCR~CG~ 175 (457)
.-.|..|+..|. +..... +|..||.
T Consensus 71 ~~~C~~Cg~~~~-~~~~~~~~CP~Cgs 96 (117)
T PRK00564 71 ELECKDCSHVFK-PNALDYGVCEKCHS 96 (117)
T ss_pred EEEhhhCCCccc-cCCccCCcCcCCCC
Confidence 357888888887 322112 3555553
No 99
>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=27.45 E-value=20 Score=27.96 Aligned_cols=31 Identities=26% Similarity=0.680 Sum_probs=21.7
Q ss_pred ccccccCCceEeCCCCCceeecCccCCCCCceeec-cccccccccccch
Q 012738 167 RHHCRFCGGVFCRICTKGRCLLPVRFRERNPQRVC-DACYDRLDPLQGV 214 (457)
Q Consensus 167 rHHCR~CG~vfC~~Cs~~~~~lP~~~~~~~p~RVC-~~C~~~l~~~q~~ 214 (457)
..||..||.. +| ...+.| +.|-+.+...|+.
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 4898887665543
No 100
>KOG2272 consensus Focal adhesion protein PINCH-1, contains LIM domains [Signal transduction mechanisms; Cytoskeleton]
Probab=26.71 E-value=21 Score=35.64 Aligned_cols=64 Identities=28% Similarity=0.666 Sum_probs=39.4
Q ss_pred CCccCCCCCCcccccCccCCCCccc------------------ccccccCCceEeC------------C---CC--Ccee
Q 012738 142 PEWLPDSSTTVCMQCTAPFTALTRG------------------RHHCRFCGGVFCR------------I---CT--KGRC 186 (457)
Q Consensus 142 p~Wv~d~~~~~C~~C~~~F~~l~rR------------------rHHCR~CG~vfC~------------~---Cs--~~~~ 186 (457)
.+|--+ .-.|..|.++|- ..| -|||-.|+++++. . || ..+.
T Consensus 215 KhWHve--HFvCa~CekPFl--GHrHYEkkGlaYCe~h~~qLfG~~CF~C~~~i~G~vv~al~KawCv~cf~Cs~Cdkkl 290 (332)
T KOG2272|consen 215 KHWHVE--HFVCAKCEKPFL--GHRHYEKKGLAYCETHYHQLFGNLCFICNRVIGGDVVSALNKAWCVECFSCSTCDKKL 290 (332)
T ss_pred cccchh--heeehhcCCccc--chhhhhhcCchhHHHHHHHHhhhhheecCCccCccHHHHhhhhhcccccccccccccc
Confidence 468665 367999999993 111 4789999988543 2 22 1222
Q ss_pred ecCccCCCCCceeeccccccccc
Q 012738 187 LLPVRFRERNPQRVCDACYDRLD 209 (457)
Q Consensus 187 ~lP~~~~~~~p~RVC~~C~~~l~ 209 (457)
....++.+-....||+.||++..
T Consensus 291 ~~K~Kf~E~DmkP~CKkCy~rfp 313 (332)
T KOG2272|consen 291 TQKNKFYEFDMKPVCKKCYDRFP 313 (332)
T ss_pred ccccceeeeccchHHHHHHhhcc
Confidence 22234444566778888888654
No 101
>PF09862 DUF2089: Protein of unknown function (DUF2089); InterPro: IPR018658 This family consists of various hypothetical prokaryotic proteins.
Probab=26.63 E-value=33 Score=30.24 Aligned_cols=26 Identities=27% Similarity=0.566 Sum_probs=20.7
Q ss_pred ccccCccCCCCcccccccccCCceEeCCC
Q 012738 153 CMQCTAPFTALTRGRHHCRFCGGVFCRIC 181 (457)
Q Consensus 153 C~~C~~~F~~l~rRrHHCR~CG~vfC~~C 181 (457)
|+.|+.++. ++ |.+|-+|+-.+-..-
T Consensus 1 CPvCg~~l~-vt--~l~C~~C~t~i~G~F 26 (113)
T PF09862_consen 1 CPVCGGELV-VT--RLKCPSCGTEIEGEF 26 (113)
T ss_pred CCCCCCceE-EE--EEEcCCCCCEEEeee
Confidence 899999888 43 799999988876543
No 102
>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=26.62 E-value=19 Score=31.39 Aligned_cols=23 Identities=26% Similarity=0.625 Sum_probs=12.8
Q ss_pred CcccccCccCCCCcccccccccCC
Q 012738 151 TVCMQCTAPFTALTRGRHHCRFCG 174 (457)
Q Consensus 151 ~~C~~C~~~F~~l~rRrHHCR~CG 174 (457)
-.|..|+..|. +...+..|..||
T Consensus 71 ~~C~~Cg~~~~-~~~~~~~CP~Cg 93 (113)
T PF01155_consen 71 ARCRDCGHEFE-PDEFDFSCPRCG 93 (113)
T ss_dssp EEETTTS-EEE-CHHCCHH-SSSS
T ss_pred EECCCCCCEEe-cCCCCCCCcCCc
Confidence 57888888888 333333455554
No 103
>PF14803 Nudix_N_2: Nudix N-terminal; PDB: 3CNG_C.
Probab=26.44 E-value=53 Score=22.71 Aligned_cols=28 Identities=29% Similarity=0.517 Sum_probs=12.7
Q ss_pred EeCCCCCce-eecCccCCCCCceeecccccc
Q 012738 177 FCRICTKGR-CLLPVRFRERNPQRVCDACYD 206 (457)
Q Consensus 177 fC~~Cs~~~-~~lP~~~~~~~p~RVC~~C~~ 206 (457)
||..|...- ..+| .+.+++-.||..|-.
T Consensus 2 fC~~CG~~l~~~ip--~gd~r~R~vC~~Cg~ 30 (34)
T PF14803_consen 2 FCPQCGGPLERRIP--EGDDRERLVCPACGF 30 (34)
T ss_dssp B-TTT--B-EEE----TT-SS-EEEETTTTE
T ss_pred ccccccChhhhhcC--CCCCccceECCCCCC
Confidence 455554332 2344 234678889999964
No 104
>PHA02942 putative transposase; Provisional
Probab=26.34 E-value=52 Score=34.76 Aligned_cols=27 Identities=22% Similarity=0.603 Sum_probs=15.7
Q ss_pred CCcccccCccCCCCcccccccccCCce
Q 012738 150 TTVCMQCTAPFTALTRGRHHCRFCGGV 176 (457)
Q Consensus 150 ~~~C~~C~~~F~~l~rRrHHCR~CG~v 176 (457)
+..|+.|+..=..+..|.+.|..||..
T Consensus 325 Sq~Cs~CG~~~~~l~~r~f~C~~CG~~ 351 (383)
T PHA02942 325 SVSCPKCGHKMVEIAHRYFHCPSCGYE 351 (383)
T ss_pred CccCCCCCCccCcCCCCEEECCCCCCE
Confidence 356777775322233456777777765
No 105
>KOG4739 consensus Uncharacterized protein involved in synaptonemal complex formation [Cell cycle control, cell division, chromosome partitioning; General function prediction only]
Probab=25.77 E-value=30 Score=34.19 Aligned_cols=44 Identities=25% Similarity=0.554 Sum_probs=28.2
Q ss_pred cccccCccCCCCcccccccccCCceEeCCCCCceeecCccCCCCCceeeccccccccc
Q 012738 152 VCMQCTAPFTALTRGRHHCRFCGGVFCRICTKGRCLLPVRFRERNPQRVCDACYDRLD 209 (457)
Q Consensus 152 ~C~~C~~~F~~l~rRrHHCR~CG~vfC~~Cs~~~~~lP~~~~~~~p~RVC~~C~~~l~ 209 (457)
+|..|...=+ ....+=-.|++|||..|...- . -++|..|..-+.
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 223444589999999998531 1 118999987654
No 106
>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=25.63 E-value=50 Score=22.98 Aligned_cols=10 Identities=50% Similarity=1.012 Sum_probs=4.0
Q ss_pred ceeecccccc
Q 012738 197 PQRVCDACYD 206 (457)
Q Consensus 197 p~RVC~~C~~ 206 (457)
..+||+.|-+
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 107
>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=25.42 E-value=31 Score=25.39 Aligned_cols=11 Identities=27% Similarity=0.739 Sum_probs=7.0
Q ss_pred cccccCccCCC
Q 012738 152 VCMQCTAPFTA 162 (457)
Q Consensus 152 ~C~~C~~~F~~ 162 (457)
.|..|+..|..
T Consensus 7 ~C~~Cg~~fe~ 17 (52)
T TIGR02605 7 RCTACGHRFEV 17 (52)
T ss_pred EeCCCCCEeEE
Confidence 46667776663
No 108
>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=25.21 E-value=34 Score=22.95 Aligned_cols=23 Identities=26% Similarity=0.853 Sum_probs=15.2
Q ss_pred CcccccCccCCCCcccccccccCCceEeC
Q 012738 151 TVCMQCTAPFTALTRGRHHCRFCGGVFCR 179 (457)
Q Consensus 151 ~~C~~C~~~F~~l~rRrHHCR~CG~vfC~ 179 (457)
..|..|+. +. ++.|..|+..+|+
T Consensus 3 ~~C~vC~~-~~-----kY~Cp~C~~~~CS 25 (30)
T PF04438_consen 3 KLCSVCGN-PA-----KYRCPRCGARYCS 25 (30)
T ss_dssp EEETSSSS-EE-----SEE-TTT--EESS
T ss_pred CCCccCcC-CC-----EEECCCcCCceeC
Confidence 46888887 33 6889999999886
No 109
>PRK05978 hypothetical protein; Provisional
Probab=24.86 E-value=41 Score=31.02 Aligned_cols=27 Identities=33% Similarity=0.732 Sum_probs=15.5
Q ss_pred CcccccCc--cCCCCcccccccccCCceE
Q 012738 151 TVCMQCTA--PFTALTRGRHHCRFCGGVF 177 (457)
Q Consensus 151 ~~C~~C~~--~F~~l~rRrHHCR~CG~vf 177 (457)
-.|..|++ -|..+.+=+.+|.+||.-|
T Consensus 34 grCP~CG~G~LF~g~Lkv~~~C~~CG~~~ 62 (148)
T PRK05978 34 GRCPACGEGKLFRAFLKPVDHCAACGEDF 62 (148)
T ss_pred CcCCCCCCCcccccccccCCCccccCCcc
Confidence 45777776 2443333466777776643
No 110
>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=24.43 E-value=32 Score=25.58 Aligned_cols=28 Identities=32% Similarity=0.777 Sum_probs=19.0
Q ss_pred cccccCc-cCCCCcccccccccCC---ceEeCCCC
Q 012738 152 VCMQCTA-PFTALTRGRHHCRFCG---GVFCRICT 182 (457)
Q Consensus 152 ~C~~C~~-~F~~l~rRrHHCR~CG---~vfC~~Cs 182 (457)
.|..|+. ++. -.|.||-.|. .=+|..|-
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 4888888 444 3589999997 34555553
No 111
>PRK12380 hydrogenase nickel incorporation protein HybF; Provisional
Probab=24.27 E-value=36 Score=29.70 Aligned_cols=23 Identities=17% Similarity=0.634 Sum_probs=14.0
Q ss_pred CcccccCccCCCCcccccccccCC
Q 012738 151 TVCMQCTAPFTALTRGRHHCRFCG 174 (457)
Q Consensus 151 ~~C~~C~~~F~~l~rRrHHCR~CG 174 (457)
-.|..|+..|. +..+..-|..||
T Consensus 71 ~~C~~Cg~~~~-~~~~~~~CP~Cg 93 (113)
T PRK12380 71 AWCWDCSQVVE-IHQHDAQCPHCH 93 (113)
T ss_pred EEcccCCCEEe-cCCcCccCcCCC
Confidence 56888888887 332233366555
No 112
>COG5273 Uncharacterized protein containing DHHC-type Zn finger [General function prediction only]
Probab=24.23 E-value=37 Score=34.84 Aligned_cols=25 Identities=24% Similarity=0.668 Sum_probs=15.4
Q ss_pred CCCcccccCccCCCCcccccccccCCce
Q 012738 149 STTVCMQCTAPFTALTRGRHHCRFCGGV 176 (457)
Q Consensus 149 ~~~~C~~C~~~F~~l~rRrHHCR~CG~v 176 (457)
....|..|+.-=. -|-|||+.|++.
T Consensus 108 ~~~~C~~C~~~KP---~RS~HC~~Cn~C 132 (309)
T COG5273 108 TENFCSTCNIYKP---PRSHHCSICNRC 132 (309)
T ss_pred cceeccccccccC---CCCccchhhcch
Confidence 3456777766222 367888877653
No 113
>TIGR00599 rad18 DNA repair protein rad18. This family is based on the phylogenomic analysis of JA Eisen (1999, Ph.D. Thesis, Stanford University).
Probab=24.08 E-value=30 Score=36.88 Aligned_cols=46 Identities=22% Similarity=0.507 Sum_probs=31.2
Q ss_pred CCcccccCccCCCCcccccccccCCceEeCCCCCceeecCccCCCCCceeeccccccccc
Q 012738 150 TTVCMQCTAPFTALTRGRHHCRFCGGVFCRICTKGRCLLPVRFRERNPQRVCDACYDRLD 209 (457)
Q Consensus 150 ~~~C~~C~~~F~~l~rRrHHCR~CG~vfC~~Cs~~~~~lP~~~~~~~p~RVC~~C~~~l~ 209 (457)
.-.|.+|...|.. .---.||+.||..|-.... . ....|-.|...+.
T Consensus 26 ~l~C~IC~d~~~~-----PvitpCgH~FCs~CI~~~l--~-------~~~~CP~Cr~~~~ 71 (397)
T TIGR00599 26 SLRCHICKDFFDV-----PVLTSCSHTFCSLCIRRCL--S-------NQPKCPLCRAEDQ 71 (397)
T ss_pred ccCCCcCchhhhC-----ccCCCCCCchhHHHHHHHH--h-------CCCCCCCCCCccc
Confidence 4689999987652 2346899999999976431 1 1236777876654
No 114
>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=24.04 E-value=28 Score=30.14 Aligned_cols=57 Identities=25% Similarity=0.475 Sum_probs=34.3
Q ss_pred CCcccccCccCCCCccccccc------ccC---CceEeCCCCCceeecCccCCCCCceeeccccccccc
Q 012738 150 TTVCMQCTAPFTALTRGRHHC------RFC---GGVFCRICTKGRCLLPVRFRERNPQRVCDACYDRLD 209 (457)
Q Consensus 150 ~~~C~~C~~~F~~l~rRrHHC------R~C---G~vfC~~Cs~~~~~lP~~~~~~~p~RVC~~C~~~l~ 209 (457)
-..|.+|+++-.- .+..| ..| ...||..|...+--.-...-...+.-+|..|..+-+
T Consensus 7 g~~CHqCrqKt~~---~~~~C~~~~~~~~C~~~~~~fC~~CL~~ryge~~~ev~~~~~W~CP~CrgiCn 72 (105)
T PF10497_consen 7 GKTCHQCRQKTLD---FKTICTGHWKNSSCRGCRGKFCGGCLRNRYGENVEEVLEDPNWKCPKCRGICN 72 (105)
T ss_pred CCCchhhcCCCCC---CceEcCCCCCCCCCccCcceehHhHHHHHHhhhHHHHhcCCceECCCCCCeeC
Confidence 4679999885431 12344 566 889999998665211000011356788999988653
No 115
>PF15227 zf-C3HC4_4: zinc finger of C3HC4-type, RING; PDB: 2EGP_A 2ECV_A 2ECJ_A 2YSL_A 2YSJ_A.
Probab=23.77 E-value=26 Score=25.02 Aligned_cols=28 Identities=32% Similarity=0.689 Sum_probs=17.6
Q ss_pred ccccCccCCCCcccccccccCCceEeCCCCCce
Q 012738 153 CMQCTAPFTALTRGRHHCRFCGGVFCRICTKGR 185 (457)
Q Consensus 153 C~~C~~~F~~l~rRrHHCR~CG~vfC~~Cs~~~ 185 (457)
|.+|..-|. +-.=-.||+.||..|....
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 566766554 1222479999999997654
No 116
>KOG2593 consensus Transcription initiation factor IIE, alpha subunit [Transcription]
Probab=23.14 E-value=35 Score=36.57 Aligned_cols=35 Identities=34% Similarity=0.743 Sum_probs=25.9
Q ss_pred CCCcccccCccCCCC--------cccccccccCCceEeCCCCC
Q 012738 149 STTVCMQCTAPFTAL--------TRGRHHCRFCGGVFCRICTK 183 (457)
Q Consensus 149 ~~~~C~~C~~~F~~l--------~rRrHHCR~CG~vfC~~Cs~ 183 (457)
..-.|+.|+++|+.| -.-..||-+||.-+=..|+.
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 346799999999753 13478888888877777764
No 117
>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=23.14 E-value=27 Score=24.07 Aligned_cols=29 Identities=34% Similarity=0.739 Sum_probs=20.0
Q ss_pred ccccCccCCCCcccccccccCCceEeCCCCCce
Q 012738 153 CMQCTAPFTALTRGRHHCRFCGGVFCRICTKGR 185 (457)
Q Consensus 153 C~~C~~~F~~l~rRrHHCR~CG~vfC~~Cs~~~ 185 (457)
|.+|...|.. ...=..||+.||..|....
T Consensus 1 C~iC~~~~~~----~~~~~~C~H~fC~~C~~~~ 29 (41)
T PF00097_consen 1 CPICLEPFED----PVILLPCGHSFCRDCLRKW 29 (41)
T ss_dssp ETTTSSBCSS----EEEETTTSEEEEHHHHHHH
T ss_pred CCcCCccccC----CCEEecCCCcchHHHHHHH
Confidence 5677776652 1235689999999997654
No 118
>KOG1313 consensus DHHC-type Zn-finger proteins [General function prediction only]
Probab=22.99 E-value=26 Score=35.52 Aligned_cols=24 Identities=29% Similarity=0.863 Sum_probs=18.5
Q ss_pred CCcccccCccCCCCcccccccccCCce
Q 012738 150 TTVCMQCTAPFTALTRGRHHCRFCGGV 176 (457)
Q Consensus 150 ~~~C~~C~~~F~~l~rRrHHCR~CG~v 176 (457)
.+.|..|..+=+. |-|||+.|++.
T Consensus 102 ~SfC~KC~~pK~p---rTHHCsiC~kC 125 (309)
T KOG1313|consen 102 DSFCNKCNYPKSP---RTHHCSICNKC 125 (309)
T ss_pred ccHHhhcCCCCCC---CcchhhHHhhH
Confidence 3678899887773 67999988763
No 119
>KOG2932 consensus E3 ubiquitin ligase involved in ubiquitination of E-cadherin complex [Posttranslational modification, protein turnover, chaperones]
Probab=22.83 E-value=25 Score=36.17 Aligned_cols=50 Identities=24% Similarity=0.707 Sum_probs=36.4
Q ss_pred CCcccccCccCCCCcccccccccCCceEeCCCCCceeecCccCCCCCceeeccccccccccccch
Q 012738 150 TTVCMQCTAPFTALTRGRHHCRFCGGVFCRICTKGRCLLPVRFRERNPQRVCDACYDRLDPLQGV 214 (457)
Q Consensus 150 ~~~C~~C~~~F~~l~rRrHHCR~CG~vfC~~Cs~~~~~lP~~~~~~~p~RVC~~C~~~l~~~q~~ 214 (457)
++.|-.|..+.- ++-|.- .|-+|||-.|... .+.+.|-.|-+++..++..
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 554554 4567999999742 2477899998887765543
No 120
>COG1198 PriA Primosomal protein N' (replication factor Y) - superfamily II helicase [DNA replication, recombination, and repair]
Probab=22.78 E-value=49 Score=38.01 Aligned_cols=39 Identities=26% Similarity=0.660 Sum_probs=20.7
Q ss_pred cccccCccCCCCcccccccccCCceEeCCCCCceeecCccCCCCCceeeccccccc
Q 012738 152 VCMQCTAPFTALTRGRHHCRFCGGVFCRICTKGRCLLPVRFRERNPQRVCDACYDR 207 (457)
Q Consensus 152 ~C~~C~~~F~~l~rRrHHCR~CG~vfC~~Cs~~~~~lP~~~~~~~p~RVC~~C~~~ 207 (457)
.|..|...++ +-+ +. +...|+.|-... ..-..|..|-..
T Consensus 446 ~Cp~Cd~~lt-~H~--~~----~~L~CH~Cg~~~----------~~p~~Cp~Cgs~ 484 (730)
T COG1198 446 ECPNCDSPLT-LHK--AT----GQLRCHYCGYQE----------PIPQSCPECGSE 484 (730)
T ss_pred cCCCCCcceE-Eec--CC----CeeEeCCCCCCC----------CCCCCCCCCCCC
Confidence 4666666555 211 11 566666665331 233467788776
No 121
>TIGR00311 aIF-2beta translation initiation factor aIF-2, beta subunit, putative.
Probab=22.64 E-value=38 Score=30.61 Aligned_cols=26 Identities=27% Similarity=0.745 Sum_probs=17.7
Q ss_pred CcccccCccCCCCcc--cc--cccccCCce
Q 012738 151 TVCMQCTAPFTALTR--GR--HHCRFCGGV 176 (457)
Q Consensus 151 ~~C~~C~~~F~~l~r--Rr--HHCR~CG~v 176 (457)
-.|..|+.+-+.+.+ |. .+|..||..
T Consensus 98 VlC~~C~sPdT~l~k~~r~~~l~C~ACGa~ 127 (133)
T TIGR00311 98 VICRECNRPDTRIIKEGRVSLLKCEACGAK 127 (133)
T ss_pred EECCCCCCCCcEEEEeCCeEEEecccCCCC
Confidence 469999999987654 22 366666653
No 122
>PRK14873 primosome assembly protein PriA; Provisional
Probab=22.47 E-value=47 Score=37.78 Aligned_cols=8 Identities=25% Similarity=0.663 Sum_probs=4.3
Q ss_pred eccccccc
Q 012738 200 VCDACYDR 207 (457)
Q Consensus 200 VC~~C~~~ 207 (457)
.|..|-..
T Consensus 424 ~Cp~Cgs~ 431 (665)
T PRK14873 424 RCPRCGSD 431 (665)
T ss_pred cCCCCcCC
Confidence 56666543
No 123
>PF04216 FdhE: Protein involved in formate dehydrogenase formation; InterPro: IPR006452 This family of sequences describe an accessory protein required for the assembly of formate dehydrogenase of certain proteobacteria although not present in the final complex []. The exact nature of the function of FdhE in the assembly of the complex is unknown, but considering the presence of selenocysteine, molybdopterin, iron-sulphur clusters and cytochrome b556, it is likely to be involved in the insertion of cofactors. ; GO: 0005737 cytoplasm; PDB: 2FIY_B.
Probab=22.26 E-value=39 Score=34.09 Aligned_cols=37 Identities=22% Similarity=0.588 Sum_probs=22.4
Q ss_pred CCCcccccCccCCCCcccccccccCCce-------------------EeCCCCCceeec
Q 012738 149 STTVCMQCTAPFTALTRGRHHCRFCGGV-------------------FCRICTKGRCLL 188 (457)
Q Consensus 149 ~~~~C~~C~~~F~~l~rRrHHCR~CG~v-------------------fC~~Cs~~~~~l 188 (457)
..-.|..|+.... + +|..|-+||.- +|.+|-+|.-.+
T Consensus 196 R~L~Cs~C~t~W~-~--~R~~Cp~Cg~~~~~~l~~~~~e~~~~~rve~C~~C~~YlK~v 251 (290)
T PF04216_consen 196 RYLHCSLCGTEWR-F--VRIKCPYCGNTDHEKLEYFTVEGEPAYRVEVCESCGSYLKTV 251 (290)
T ss_dssp EEEEETTT--EEE-----TTS-TTT---SS-EEE--------SEEEEEETTTTEEEEEE
T ss_pred EEEEcCCCCCeee-e--cCCCCcCCCCCCCcceeeEecCCCCcEEEEECCcccchHHHH
Confidence 3467899998777 3 47899999975 899998876444
No 124
>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=22.24 E-value=78 Score=20.88 Aligned_cols=28 Identities=21% Similarity=0.432 Sum_probs=21.3
Q ss_pred cccccCccCCCCcccccccccCCceEeCCC
Q 012738 152 VCMQCTAPFTALTRGRHHCRFCGGVFCRIC 181 (457)
Q Consensus 152 ~C~~C~~~F~~l~rRrHHCR~CG~vfC~~C 181 (457)
.|..|++..+.+. ..||..|+-.+-..|
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 5888999887542 689998887776666
No 125
>KOG2807 consensus RNA polymerase II transcription initiation/nucleotide excision repair factor TFIIH, subunit SSL1 [Transcription; Replication, recombination and repair]
Probab=22.01 E-value=58 Score=33.83 Aligned_cols=51 Identities=24% Similarity=0.601 Sum_probs=32.9
Q ss_pred ccCCCCCCcccccCccCCCCcccccccccCCceEeCCCCCceeecCccCCCCCceeeccccc
Q 012738 144 WLPDSSTTVCMQCTAPFTALTRGRHHCRFCGGVFCRICTKGRCLLPVRFRERNPQRVCDACY 205 (457)
Q Consensus 144 Wv~d~~~~~C~~C~~~F~~l~rRrHHCR~CG~vfC~~Cs~~~~~lP~~~~~~~p~RVC~~C~ 205 (457)
|........|..|+..-. ..-+..|+.|-.+||..|--. + .....+|--|.
T Consensus 324 ~~~~~~~~~Cf~C~~~~~--~~~~y~C~~Ck~~FCldCDv~---i------HesLh~CpgCe 374 (378)
T KOG2807|consen 324 ETEYNGSRFCFACQGELL--SSGRYRCESCKNVFCLDCDVF---I------HESLHNCPGCE 374 (378)
T ss_pred ccccCCCcceeeeccccC--CCCcEEchhccceeeccchHH---H------HhhhhcCCCcC
Confidence 444334456999955433 345799999999999999532 1 23455666665
No 126
>COG1198 PriA Primosomal protein N' (replication factor Y) - superfamily II helicase [DNA replication, recombination, and repair]
Probab=21.88 E-value=53 Score=37.73 Aligned_cols=37 Identities=24% Similarity=0.462 Sum_probs=25.5
Q ss_pred cccccCCceE-eCCCCCceeecCccCCCCCceeeccccccccc
Q 012738 168 HHCRFCGGVF-CRICTKGRCLLPVRFRERNPQRVCDACYDRLD 209 (457)
Q Consensus 168 HHCR~CG~vf-C~~Cs~~~~~lP~~~~~~~p~RVC~~C~~~l~ 209 (457)
--|+.||.++ |..|+..- .+......-.|..|-..-.
T Consensus 436 l~C~~Cg~v~~Cp~Cd~~l-----t~H~~~~~L~CH~Cg~~~~ 473 (730)
T COG1198 436 LLCRDCGYIAECPNCDSPL-----TLHKATGQLRCHYCGYQEP 473 (730)
T ss_pred eecccCCCcccCCCCCcce-----EEecCCCeeEeCCCCCCCC
Confidence 3599999986 77777542 2333457889999987733
No 127
>TIGR00244 transcriptional regulator NrdR. Members of this almost entirely bacterial family contain an ATP cone domain (PFAM:PF03477). There is never more than one member per genome. Common gene symbols given include nrdR, ybaD, ribX and ytcG. The member from Streptomyces coelicolor is found upstream in the operon of the class II oxygen-independent ribonucleotide reductase gene nrdJ and was shown to repress nrdJ expression. Many members of this family are found near genes for riboflavin biosynthesis in Gram-negative bacteria, suggesting a role in that pathway. However, a phylogenetic profiling study associates members of this family with the presence of a palindromic signal with consensus acaCwAtATaTwGtgt, termed the NrdR-box, an upstream element for most operons for ribonucleotide reductase of all three classes in bacterial genomes.
Probab=21.78 E-value=52 Score=30.32 Aligned_cols=13 Identities=38% Similarity=0.746 Sum_probs=6.6
Q ss_pred ccccccccCCceE
Q 012738 165 RGRHHCRFCGGVF 177 (457)
Q Consensus 165 rRrHHCR~CG~vf 177 (457)
|||..|-.||+-|
T Consensus 26 RRRReC~~C~~RF 38 (147)
T TIGR00244 26 RRRRECLECHERF 38 (147)
T ss_pred eecccCCccCCcc
Confidence 4455555555543
No 128
>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=21.67 E-value=65 Score=29.16 Aligned_cols=18 Identities=22% Similarity=0.536 Sum_probs=12.1
Q ss_pred cCCCCCCcccccCccCCC
Q 012738 145 LPDSSTTVCMQCTAPFTA 162 (457)
Q Consensus 145 v~d~~~~~C~~C~~~F~~ 162 (457)
..+..-+.|..|+.++-.
T Consensus 86 ~~~~~~sRC~~CN~~L~~ 103 (147)
T PF01927_consen 86 RLDPIFSRCPKCNGPLRP 103 (147)
T ss_pred ccCCCCCccCCCCcEeee
Confidence 344445789999987653
No 129
>PLN02638 cellulose synthase A (UDP-forming), catalytic subunit
Probab=21.49 E-value=58 Score=38.84 Aligned_cols=59 Identities=19% Similarity=0.438 Sum_probs=40.2
Q ss_pred cCCCCCCcccccCccCCCCcc---cccccccCCceEeCCCCCceeecCccCCCCCceeecccccccccccc
Q 012738 145 LPDSSTTVCMQCTAPFTALTR---GRHHCRFCGGVFCRICTKGRCLLPVRFRERNPQRVCDACYDRLDPLQ 212 (457)
Q Consensus 145 v~d~~~~~C~~C~~~F~~l~r---RrHHCR~CG~vfC~~Cs~~~~~lP~~~~~~~p~RVC~~C~~~l~~~q 212 (457)
+..-....|.+|+-.-. ++. =-.-|.-||..+|..|-++. ...-...|-+|..+....+
T Consensus 12 ~~~~~~qiCqICGD~vg-~~~~Ge~FVAC~eC~FPVCrpCYEYE--------r~eG~q~CPqCktrYkr~k 73 (1079)
T PLN02638 12 MKHGGGQVCQICGDNVG-KTVDGEPFVACDVCAFPVCRPCYEYE--------RKDGNQSCPQCKTKYKRHK 73 (1079)
T ss_pred ccccCCceeeecccccC-cCCCCCEEEEeccCCCccccchhhhh--------hhcCCccCCccCCchhhhc
Confidence 44445578999999765 210 12679999999999998663 2344677888877765433
No 130
>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=21.48 E-value=48 Score=25.68 Aligned_cols=29 Identities=28% Similarity=0.604 Sum_probs=19.6
Q ss_pred ccccccCCceEeCCCCCceeecCccCCCCCceeeccccccccc
Q 012738 167 RHHCRFCGGVFCRICTKGRCLLPVRFRERNPQRVCDACYDRLD 209 (457)
Q Consensus 167 rHHCR~CG~vfC~~Cs~~~~~lP~~~~~~~p~RVC~~C~~~l~ 209 (457)
--+|-+||+|+|..= .|.-.|..|-..+-
T Consensus 18 ~~NCl~CGkIiC~~E--------------g~~~pC~fCg~~l~ 46 (57)
T PF06221_consen 18 APNCLNCGKIICEQE--------------GPLGPCPFCGTPLL 46 (57)
T ss_pred cccccccChhhcccc--------------cCcCcCCCCCCccc
Confidence 468999999998741 12456777765543
No 131
>COG1645 Uncharacterized Zn-finger containing protein [General function prediction only]
Probab=21.28 E-value=47 Score=30.03 Aligned_cols=24 Identities=38% Similarity=0.881 Sum_probs=17.6
Q ss_pred CcccccCccCCCCcccccccccCCceEeCCCCC
Q 012738 151 TVCMQCTAPFTALTRGRHHCRFCGGVFCRICTK 183 (457)
Q Consensus 151 ~~C~~C~~~F~~l~rRrHHCR~CG~vfC~~Cs~ 183 (457)
.+|..|+.+. |+ .=|.|||..|-.
T Consensus 29 ~hCp~Cg~PL---F~------KdG~v~CPvC~~ 52 (131)
T COG1645 29 KHCPKCGTPL---FR------KDGEVFCPVCGY 52 (131)
T ss_pred hhCcccCCcc---ee------eCCeEECCCCCc
Confidence 5799999854 33 348899999863
No 132
>PF07503 zf-HYPF: HypF finger; InterPro: IPR011125 Zinc finger (Znf) domains are relatively small protein motifs which contain multiple finger-like protrusions that make tandem contacts with their target molecule. Some of these domains bind zinc, but many do not; instead binding other metals such as iron, or no metal at all. For example, some family members form salt bridges to stabilise the finger-like folds. They were first identified as a DNA-binding motif in transcription factor TFIIIA from Xenopus laevis (African clawed frog), however they are now recognised to bind DNA, RNA, protein and/or lipid substrates [, , , , ]. Their binding properties depend on the amino acid sequence of the finger domains and of the linker between fingers, as well as on the higher-order structures and the number of fingers. Znf domains are often found in clusters, where fingers can have different binding specificities. There are many superfamilies of Znf motifs, varying in both sequence and structure. They display considerable versatility in binding modes, even between members of the same class (e.g. some bind DNA, others protein), suggesting that Znf motifs are stable scaffolds that have evolved specialised functions. For example, Znf-containing proteins function in gene transcription, translation, mRNA trafficking, cytoskeleton organisation, epithelial development, cell adhesion, protein folding, chromatin remodelling and zinc sensing, to name but a few []. Zinc-binding motifs are stable structures, and they rarely undergo conformational changes upon binding their target. Proteins of the HypF family are involved in the maturation and regulation of hydrogenase []. In the N terminus they appear to have two zinc finger domains that are similar to those found in the DnaJ chaperone []. More information about these proteins can be found at Protein of the Month: Zinc Fingers [].; GO: 0008270 zinc ion binding; PDB: 3TTD_A 3TSQ_A 3TTC_A 3TSP_A 3TTF_A 3TSU_A.
Probab=21.21 E-value=23 Score=24.69 Aligned_cols=17 Identities=24% Similarity=0.596 Sum_probs=8.1
Q ss_pred ccccCccCCCCcccccc
Q 012738 153 CMQCTAPFTALTRGRHH 169 (457)
Q Consensus 153 C~~C~~~F~~l~rRrHH 169 (457)
|..|.+.+.-...||+|
T Consensus 2 C~~C~~Ey~~p~~RR~~ 18 (35)
T PF07503_consen 2 CDDCLKEYFDPSNRRFH 18 (35)
T ss_dssp -HHHHHHHCSTTSTTTT
T ss_pred CHHHHHHHcCCCCCccc
Confidence 55666654323345555
No 133
>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=20.51 E-value=3.2e+02 Score=24.54 Aligned_cols=47 Identities=11% Similarity=0.082 Sum_probs=30.2
Q ss_pred hhhhhHHHHHHhhhccCCCCCCCchhhhccCcceEEEEEeeeeeeEEEeeceE
Q 012738 252 IYKASNTLRSYCQVAESNPERSIPLAVLNGAKGLAILTVAKAGVLVSYKLGTG 304 (457)
Q Consensus 252 I~kAa~tL~~f~~~~~~~p~~~ip~~~l~~AkGlai~~v~k~G~~~gg~~G~G 304 (457)
+..+..-|++|.+... +--+-++-.-|-.|+|+.|++|.||+..|.+
T Consensus 8 m~t~~e~ik~~i~v~t------VvGdPI~~~dgt~IIPvs~VsfGfgaGg~~~ 54 (125)
T TIGR02874 8 MKTTMENIKEMIDVNT------IVGDPVETPDGSVIIPISKVSFGFAAGGSEF 54 (125)
T ss_pred HHHHHHHHHHheeece------EEecCEEcCCCeEEEEEEEEEEeeeeccCcc
Confidence 3445555777754321 2222345456789999999999998777664
No 134
>PRK11595 DNA utilization protein GntX; Provisional
Probab=20.38 E-value=28 Score=33.82 Aligned_cols=30 Identities=23% Similarity=0.682 Sum_probs=21.7
Q ss_pred CcccccCccCCCCcccccccccCCce------EeCCCCC
Q 012738 151 TVCMQCTAPFTALTRGRHHCRFCGGV------FCRICTK 183 (457)
Q Consensus 151 ~~C~~C~~~F~~l~rRrHHCR~CG~v------fC~~Cs~ 183 (457)
..|..|...+.. . .++|..||+. +|..|..
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 468889888873 3 4789999974 3666654
No 135
>PRK12496 hypothetical protein; Provisional
Probab=20.33 E-value=63 Score=30.08 Aligned_cols=24 Identities=25% Similarity=0.757 Sum_probs=13.9
Q ss_pred CcccccCccCCCCcccccccccCCc
Q 012738 151 TVCMQCTAPFTALTRGRHHCRFCGG 175 (457)
Q Consensus 151 ~~C~~C~~~F~~l~rRrHHCR~CG~ 175 (457)
..|.+|++.|.. ..-.--|..||.
T Consensus 128 ~~C~gC~~~~~~-~~~~~~C~~CG~ 151 (164)
T PRK12496 128 KVCKGCKKKYPE-DYPDDVCEICGS 151 (164)
T ss_pred EECCCCCccccC-CCCCCcCCCCCC
Confidence 358888887762 222345666665
No 136
>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=20.29 E-value=53 Score=22.92 Aligned_cols=14 Identities=36% Similarity=0.669 Sum_probs=9.8
Q ss_pred Cceeeccccccccc
Q 012738 196 NPQRVCDACYDRLD 209 (457)
Q Consensus 196 ~p~RVC~~C~~~l~ 209 (457)
+..-+|+.|-..|.
T Consensus 19 ~~~~~Cd~cg~~L~ 32 (36)
T PF05191_consen 19 KVEGVCDNCGGELV 32 (36)
T ss_dssp SSTTBCTTTTEBEB
T ss_pred CCCCccCCCCCeeE
Confidence 44568888887664
No 137
>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=20.22 E-value=47 Score=22.85 Aligned_cols=10 Identities=30% Similarity=0.833 Sum_probs=5.8
Q ss_pred cccccCccCC
Q 012738 152 VCMQCTAPFT 161 (457)
Q Consensus 152 ~C~~C~~~F~ 161 (457)
.|..|+..|.
T Consensus 7 ~C~~Cg~~fe 16 (41)
T smart00834 7 RCEDCGHTFE 16 (41)
T ss_pred EcCCCCCEEE
Confidence 4556666555
No 138
>PRK03824 hypA hydrogenase nickel incorporation protein; Provisional
Probab=20.13 E-value=49 Score=29.79 Aligned_cols=10 Identities=20% Similarity=0.783 Sum_probs=4.9
Q ss_pred cccccCccCC
Q 012738 152 VCMQCTAPFT 161 (457)
Q Consensus 152 ~C~~C~~~F~ 161 (457)
.|..|+..|.
T Consensus 72 ~C~~CG~~~~ 81 (135)
T PRK03824 72 KCRNCGNEWS 81 (135)
T ss_pred ECCCCCCEEe
Confidence 3555554444
No 139
>COG4530 Uncharacterized protein conserved in bacteria [Function unknown]
Probab=20.04 E-value=56 Score=28.73 Aligned_cols=27 Identities=15% Similarity=0.234 Sum_probs=20.7
Q ss_pred CcccccCccCCCCcccccccccCCceE
Q 012738 151 TVCMQCTAPFTALTRGRHHCRFCGGVF 177 (457)
Q Consensus 151 ~~C~~C~~~F~~l~rRrHHCR~CG~vf 177 (457)
..|..|+++|--|.|+..-|..||+-|
T Consensus 10 ridPetg~KFYDLNrdPiVsPytG~s~ 36 (129)
T COG4530 10 RIDPETGKKFYDLNRDPIVSPYTGKSY 36 (129)
T ss_pred ccCccccchhhccCCCccccCcccccc
Confidence 579999999987877776677766643
Done!