Query 017657
Match_columns 368
No_of_seqs 329 out of 1727
Neff 6.8
Searched_HMMs 46136
Date Fri Mar 29 10:32:51 2013
Command hhsearch -i /work/01045/syshi/csienesis_hhblits_a3m/017657.a3m -d /work/01045/syshi/HHdatabase/Cdd.hhm -o /work/01045/syshi/hhsearch_cdd/017657hhsearch_cdd -cpu 12 -v 0
No Hit Prob E-value P-value Score SS Cols Query HMM Template HMM
1 PF12315 DUF3633: Protein of u 100.0 3.5E-38 7.5E-43 283.8 6.2 103 265-367 1-103 (212)
2 KOG2272 Focal adhesion protein 100.0 3.9E-30 8.4E-35 235.3 -2.3 166 112-314 72-252 (332)
3 KOG1701 Focal adhesion adaptor 99.9 8E-25 1.7E-29 213.4 -4.7 165 112-307 273-438 (468)
4 KOG1701 Focal adhesion adaptor 99.8 4.3E-20 9.3E-25 180.5 -0.1 127 107-245 328-462 (468)
5 KOG4577 Transcription factor L 99.7 7.7E-20 1.7E-24 170.5 -4.7 122 112-245 32-153 (383)
6 KOG1703 Adaptor protein Enigma 99.7 2.3E-17 5E-22 169.7 5.7 226 112-367 133-359 (479)
7 KOG2272 Focal adhesion protein 99.7 3.4E-18 7.4E-23 157.1 -0.8 129 99-244 183-311 (332)
8 KOG1703 Adaptor protein Enigma 99.7 2.9E-17 6.4E-22 169.0 4.4 167 112-311 302-478 (479)
9 KOG1044 Actin-binding LIM Zn-f 99.6 1.1E-16 2.4E-21 161.4 2.4 119 111-244 131-249 (670)
10 KOG1044 Actin-binding LIM Zn-f 99.6 4.3E-16 9.2E-21 157.2 5.3 161 112-313 15-189 (670)
11 PF00412 LIM: LIM domain; Int 99.3 7.3E-13 1.6E-17 97.1 2.9 57 116-172 1-58 (58)
12 KOG1700 Regulatory protein MLP 98.7 1.9E-09 4.2E-14 99.0 0.6 121 111-245 5-166 (200)
13 PF00412 LIM: LIM domain; Int 98.5 7.3E-08 1.6E-12 70.4 3.7 57 176-245 1-57 (58)
14 smart00132 LIM Zinc-binding do 98.4 2.7E-07 5.9E-12 61.4 3.0 37 115-151 1-38 (39)
15 KOG4577 Transcription factor L 97.5 1.1E-05 2.4E-10 76.4 -1.6 77 98-176 79-158 (383)
16 KOG1700 Regulatory protein MLP 97.4 3.4E-05 7.4E-10 71.0 0.3 64 109-172 104-167 (200)
17 KOG1702 Nebulin repeat protein 97.3 2.7E-05 5.8E-10 70.7 -2.0 59 114-172 5-63 (264)
18 smart00132 LIM Zinc-binding do 97.2 0.00031 6.7E-09 46.4 2.5 37 175-222 1-37 (39)
19 KOG0490 Transcription factor, 97.0 8.6E-05 1.9E-09 68.8 -1.8 114 118-244 1-118 (235)
20 smart00726 UIM Ubiquitin-inter 75.4 2.3 5E-05 26.2 1.8 20 44-63 2-21 (26)
21 PF02809 UIM: Ubiquitin intera 72.6 1.9 4.1E-05 24.2 0.8 16 43-58 2-17 (18)
22 PF14835 zf-RING_6: zf-RING of 71.0 4.1 8.8E-05 30.7 2.6 46 141-186 8-53 (65)
23 KOG1280 Uncharacterized conser 64.8 4.3 9.4E-05 40.2 2.1 73 113-221 8-88 (381)
24 PF14471 DUF4428: Domain of un 62.7 4.8 0.0001 28.8 1.5 30 214-245 1-30 (51)
25 PF01421 Reprolysin: Reprolysi 60.8 6 0.00013 35.8 2.2 24 344-367 118-141 (199)
26 PF12773 DZR: Double zinc ribb 60.0 8 0.00017 26.9 2.3 18 235-252 29-46 (50)
27 PRK14873 primosome assembly pr 58.0 7.5 0.00016 42.3 2.7 38 142-182 394-431 (665)
28 PF10083 DUF2321: Uncharacteri 57.3 5.5 0.00012 35.1 1.2 55 161-228 28-84 (158)
29 PF13699 DUF4157: Domain of un 57.0 3.5 7.7E-05 32.2 -0.0 11 357-367 61-71 (79)
30 PF08219 TOM13: Outer membrane 56.7 4.8 0.0001 31.2 0.7 32 337-368 32-63 (77)
31 KOG0320 Predicted E3 ubiquitin 56.3 3.7 8E-05 37.1 -0.0 48 138-185 129-179 (187)
32 PF14634 zf-RING_5: zinc-RING 56.2 13 0.00027 25.3 2.7 42 215-256 2-43 (44)
33 PF14471 DUF4428: Domain of un 55.3 4.5 9.8E-05 29.0 0.3 29 142-171 1-30 (51)
34 PF11781 RRN7: RNA polymerase 54.3 8 0.00017 25.6 1.3 25 141-169 9-33 (36)
35 TIGR00595 priA primosomal prot 53.6 10 0.00023 39.7 2.8 38 142-182 224-262 (505)
36 PF10367 Vps39_2: Vacuolar sor 53.6 9.4 0.0002 30.5 2.0 30 112-141 77-107 (109)
37 PF05572 Peptidase_M43: Pregna 53.3 5.5 0.00012 35.0 0.6 45 323-367 30-79 (154)
38 KOG0320 Predicted E3 ubiquitin 52.8 6.6 0.00014 35.5 1.0 50 210-260 129-178 (187)
39 cd04267 ZnMc_ADAM_like Zinc-de 52.8 6.4 0.00014 35.3 1.0 24 344-368 121-144 (192)
40 PF10367 Vps39_2: Vacuolar sor 52.8 10 0.00022 30.3 2.1 12 174-185 79-90 (109)
41 COG4357 Zinc finger domain con 52.1 2.4 5.2E-05 34.4 -1.7 50 116-165 38-87 (105)
42 cd04270 ZnMc_TACE_like Zinc-de 51.4 7 0.00015 37.0 1.0 20 349-368 157-178 (244)
43 PF13240 zinc_ribbon_2: zinc-r 51.2 9.7 0.00021 22.6 1.2 8 116-123 2-9 (23)
44 PRK14559 putative protein seri 50.9 15 0.00032 39.9 3.5 9 115-123 3-11 (645)
45 KOG1813 Predicted E3 ubiquitin 50.6 8.6 0.00019 37.4 1.5 45 140-185 241-287 (313)
46 PF08394 Arc_trans_TRASH: Arch 50.1 10 0.00022 25.4 1.3 29 116-148 1-31 (37)
47 PF09943 DUF2175: Uncharacteri 49.3 5.3 0.00011 32.8 -0.2 28 115-142 4-32 (101)
48 COG2888 Predicted Zn-ribbon RN 49.1 6.7 0.00015 29.0 0.4 27 214-245 11-37 (61)
49 PF01447 Peptidase_M4: Thermol 46.9 6.5 0.00014 34.6 0.0 10 358-367 136-145 (150)
50 PF06114 DUF955: Domain of unk 46.9 14 0.00031 29.4 2.1 24 344-367 29-52 (122)
51 PF01863 DUF45: Protein of unk 45.5 13 0.00027 33.6 1.7 26 342-367 149-174 (205)
52 PF01435 Peptidase_M48: Peptid 45.1 7.2 0.00016 35.4 0.0 23 345-367 73-99 (226)
53 PF14446 Prok-RING_1: Prokaryo 44.4 14 0.0003 26.9 1.4 30 112-141 4-36 (54)
54 smart00504 Ubox Modified RING 44.3 19 0.00041 25.8 2.2 42 213-257 2-43 (63)
55 PF13920 zf-C3HC4_3: Zinc fing 44.1 13 0.00028 25.9 1.2 42 142-184 4-48 (50)
56 PF06689 zf-C4_ClpX: ClpX C4-t 44.1 19 0.00042 24.4 2.0 31 214-244 3-33 (41)
57 KOG2199 Signal transducing ada 43.9 13 0.00028 37.7 1.6 26 40-65 161-186 (462)
58 PF00645 zf-PARP: Poly(ADP-rib 43.4 9.3 0.0002 29.6 0.4 18 111-128 5-22 (82)
59 COG1451 Predicted metal-depend 42.3 10 0.00022 35.6 0.5 26 342-367 160-185 (223)
60 COG2191 Formylmethanofuran deh 41.9 13 0.00027 34.4 1.1 16 156-171 188-203 (206)
61 PF10235 Cript: Microtubule-as 41.2 16 0.00035 29.4 1.5 24 160-185 58-81 (90)
62 cd00162 RING RING-finger (Real 39.7 13 0.00027 24.1 0.6 39 143-181 2-43 (45)
63 PF06677 Auto_anti-p27: Sjogre 39.6 21 0.00046 24.4 1.6 21 215-241 20-40 (41)
64 COG4784 Putative Zn-dependent 38.0 31 0.00068 34.5 3.2 44 309-367 86-134 (479)
65 TIGR02420 dksA RNA polymerase- 37.7 7.9 0.00017 32.0 -0.8 31 111-147 78-108 (110)
66 cd04269 ZnMc_adamalysin_II_lik 37.6 25 0.00055 31.5 2.4 15 354-368 128-142 (194)
67 PF13920 zf-C3HC4_3: Zinc fing 37.5 25 0.00054 24.4 1.9 43 214-259 4-47 (50)
68 PRK05580 primosome assembly pr 36.3 27 0.00058 38.1 2.7 38 142-182 392-430 (679)
69 PRK14890 putative Zn-ribbon RN 35.9 15 0.00032 27.2 0.4 13 173-185 7-19 (59)
70 COG1645 Uncharacterized Zn-fin 35.9 20 0.00044 30.8 1.4 21 143-168 31-51 (131)
71 PF12674 Zn_ribbon_2: Putative 35.5 18 0.00039 28.5 0.9 31 214-244 2-35 (81)
72 PRK01345 heat shock protein Ht 35.3 14 0.00031 36.4 0.4 22 346-367 109-134 (317)
73 KOG1702 Nebulin repeat protein 34.8 11 0.00024 34.9 -0.5 37 207-245 26-62 (264)
74 PF01258 zf-dskA_traR: Prokary 34.4 4.6 9.9E-05 26.5 -2.2 26 143-168 6-31 (36)
75 COG5152 Uncharacterized conser 33.9 11 0.00023 34.7 -0.7 44 140-184 196-241 (259)
76 PRK00420 hypothetical protein; 33.9 27 0.00059 29.2 1.8 26 214-245 25-50 (112)
77 COG1645 Uncharacterized Zn-fin 33.8 24 0.00052 30.4 1.5 25 214-245 30-54 (131)
78 PF14891 Peptidase_M91: Effect 33.7 15 0.00032 32.8 0.2 10 358-367 104-113 (174)
79 PRK03982 heat shock protein Ht 32.8 16 0.00034 35.4 0.2 22 346-367 110-135 (288)
80 PRK03001 M48 family peptidase; 32.6 16 0.00034 35.3 0.2 22 346-367 109-134 (283)
81 PF13834 DUF4193: Domain of un 31.0 15 0.00032 30.1 -0.3 28 213-241 71-98 (99)
82 PF13923 zf-C3HC4_2: Zinc fing 30.9 41 0.00089 22.0 2.0 36 215-252 1-36 (39)
83 COG2191 Formylmethanofuran deh 30.5 21 0.00047 32.9 0.7 30 213-244 173-202 (206)
84 PRK01265 heat shock protein Ht 30.5 19 0.0004 35.8 0.3 23 345-367 124-150 (324)
85 COG1198 PriA Primosomal protei 30.0 44 0.00096 36.8 3.1 39 141-182 445-484 (730)
86 PRK04897 heat shock protein Ht 29.9 19 0.0004 35.1 0.2 17 351-367 131-147 (298)
87 COG0501 HtpX Zn-dependent prot 29.5 19 0.00041 34.3 0.2 23 345-367 141-167 (302)
88 PF06037 DUF922: Bacterial pro 29.5 68 0.0015 28.4 3.7 23 345-367 58-96 (161)
89 PF13688 Reprolysin_5: Metallo 29.4 24 0.00053 31.5 0.9 16 352-367 137-152 (196)
90 PRK14714 DNA polymerase II lar 28.9 62 0.0013 37.7 4.0 9 214-222 694-702 (1337)
91 PRK02391 heat shock protein Ht 28.7 20 0.00043 35.0 0.2 22 346-367 118-143 (296)
92 PF13639 zf-RING_2: Ring finge 28.6 27 0.00059 23.4 0.8 40 214-253 2-41 (44)
93 PF04228 Zn_peptidase: Putativ 28.3 23 0.00049 34.6 0.5 15 354-368 167-181 (292)
94 PRK00420 hypothetical protein; 27.8 38 0.00082 28.4 1.6 10 158-167 37-46 (112)
95 KOG2932 E3 ubiquitin ligase in 27.4 28 0.00061 34.2 0.9 42 143-184 93-134 (389)
96 PLN03208 E3 ubiquitin-protein 26.0 45 0.00097 30.6 1.9 12 174-185 69-80 (193)
97 COG5148 RPN10 26S proteasome r 25.8 30 0.00065 31.7 0.8 32 45-76 207-238 (243)
98 KOG0490 Transcription factor, 25.7 19 0.0004 33.0 -0.6 52 207-259 18-69 (235)
99 cd00203 ZnMc Zinc-dependent me 25.4 31 0.00067 29.7 0.8 13 355-367 94-106 (167)
100 PF10460 Peptidase_M30: Peptid 25.4 25 0.00054 35.5 0.2 12 356-367 138-149 (366)
101 cd04272 ZnMc_salivary_gland_MP 25.1 28 0.0006 32.1 0.4 13 355-367 143-155 (220)
102 KOG3624 M13 family peptidase [ 25.0 32 0.00069 37.4 0.9 14 355-368 516-529 (687)
103 smart00731 SprT SprT homologue 24.7 32 0.00068 29.7 0.7 14 354-367 56-69 (146)
104 PRK04023 DNA polymerase II lar 24.4 80 0.0017 36.0 3.8 37 141-185 639-675 (1121)
105 cd02249 ZZ Zinc finger, ZZ typ 24.2 53 0.0012 22.5 1.6 8 237-244 25-32 (46)
106 smart00291 ZnF_ZZ Zinc-binding 24.1 57 0.0012 22.2 1.8 9 236-244 28-36 (44)
107 KOG0957 PHD finger protein [Ge 23.9 1.9E+02 0.0042 30.4 6.2 140 111-259 117-262 (707)
108 PRK05457 heat shock protein Ht 23.6 30 0.00065 33.5 0.4 17 351-367 128-144 (284)
109 PF10263 SprT-like: SprT-like 23.3 36 0.00079 29.2 0.8 16 352-367 55-70 (157)
110 cd04273 ZnMc_ADAMTS_like Zinc- 23.2 14 0.0003 33.8 -2.0 14 355-368 138-151 (207)
111 smart00235 ZnMc Zinc-dependent 23.2 27 0.00058 29.5 -0.1 10 359-368 88-97 (140)
112 PF06524 NOA36: NOA36 protein; 23.1 66 0.0014 31.0 2.5 66 139-220 112-179 (314)
113 KOG0978 E3 ubiquitin ligase in 23.0 21 0.00045 38.9 -0.9 26 162-187 664-692 (698)
114 PRK03072 heat shock protein Ht 23.0 30 0.00065 33.5 0.2 23 345-367 111-137 (288)
115 PF05502 Dynactin_p62: Dynacti 22.7 66 0.0014 33.7 2.7 41 112-153 25-65 (483)
116 PF14569 zf-UDP: Zinc-binding 22.7 51 0.0011 25.8 1.4 21 236-256 37-58 (80)
117 cd02340 ZZ_NBR1_like Zinc fing 22.5 51 0.0011 22.5 1.3 11 175-185 2-12 (43)
118 KOG4739 Uncharacterized protei 21.9 55 0.0012 31.0 1.7 34 152-185 15-49 (233)
119 PRK02870 heat shock protein Ht 21.9 35 0.00075 34.0 0.4 23 345-367 157-183 (336)
120 cd02336 ZZ_RSC8 Zinc finger, Z 21.8 77 0.0017 22.0 2.0 30 214-244 2-32 (45)
121 PF04502 DUF572: Family of unk 21.6 50 0.0011 32.7 1.5 20 112-131 39-58 (324)
122 cd04268 ZnMc_MMP_like Zinc-dep 21.3 36 0.00078 29.3 0.4 12 357-368 94-105 (165)
123 PRK11827 hypothetical protein; 21.0 54 0.0012 24.3 1.2 14 268-281 36-49 (60)
124 PF00413 Peptidase_M10: Matrix 20.8 35 0.00075 29.0 0.2 12 356-367 104-115 (154)
125 PF09538 FYDLN_acid: Protein o 20.7 63 0.0014 26.8 1.7 25 214-244 11-35 (108)
126 PF08273 Prim_Zn_Ribbon: Zinc- 20.7 81 0.0018 21.4 1.9 17 225-241 12-32 (40)
127 PHA00527 hypothetical protein 20.2 91 0.002 25.8 2.4 9 359-367 75-83 (129)
128 cd02335 ZZ_ADA2 Zinc finger, Z 20.2 77 0.0017 22.1 1.8 7 237-243 26-32 (49)
129 KOG2935 Ataxin 3/Josephin [Gen 20.2 1.3E+02 0.0027 29.0 3.7 35 41-88 215-249 (315)
130 PF10886 DUF2685: Protein of u 20.1 64 0.0014 23.5 1.4 24 115-138 3-26 (54)
131 KOG3002 Zn finger protein [Gen 20.1 61 0.0013 31.8 1.7 44 141-185 49-92 (299)
132 cd06164 S2P-M50_SpoIVFB_CBS Sp 20.0 45 0.00098 31.2 0.8 20 348-367 42-63 (227)
No 1
>PF12315 DUF3633: Protein of unknown function (DUF3633); InterPro: IPR022087 This domain family is found in bacteria and eukaryotes, and is approximately 210 amino acids in length. The family is found in association with PF00412 from PFAM.
Probab=100.00 E-value=3.5e-38 Score=283.80 Aligned_cols=103 Identities=66% Similarity=1.018 Sum_probs=101.7
Q ss_pred HhccccccccchhhHhHHHHHhhhcCCCCCCCCCcccCCcccccceeeeeeeccCcCCCCCcceeeeeccccccccceEE
Q 017657 265 SIHMKLEQQIPLLLVERQALNEARDGEKNGYYHMPETRGLCLSEEQTVTTVLWRPRFGPGNQARNIITEPYKLTRRCDVT 344 (368)
Q Consensus 265 ~~~~~i~~~~p~~lv~~~aLn~~~~~e~~g~~~~~~~~G~~~~E~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~v~ 344 (368)
||||||++++||+||+++|||+|.++|++|++|.++|||||+||+|+|++|+|+|++|+|+++++|.++|++++|+|+||
T Consensus 1 ~lnmki~q~~PllLVe~~aLN~a~~~Ek~~~~~~~~tRGLclseeq~v~sv~~~p~~~~~~~~~~~~~e~~~~~~~~eV~ 80 (212)
T PF12315_consen 1 GLNMKIEQEIPLLLVERQALNEAEEGEKIGHHHMPETRGLCLSEEQTVTSVLRRPRMGPGNQLIDMSTEPQRLTRGCEVT 80 (212)
T ss_pred CCCCcccCCCCeEEecHHHHHHHHhhccCCCCCCeeeeeeeeeeeEEEEEEEecCCcCCCCccceeeecceeeccceeEE
Confidence 58999999999999999999999999999999999999999999999999999999999999999999999999999999
Q ss_pred EEEEecCCcHHHHHHHHhhhccc
Q 017657 345 AILILYGLPRFVICLALSNVCTR 367 (368)
Q Consensus 345 ~il~l~glpr~~~~~ilahe~~h 367 (368)
||||||||||++|||||||||||
T Consensus 81 ~Ilvl~GLPrll~gsiLAHE~mH 103 (212)
T PF12315_consen 81 AILVLYGLPRLLTGSILAHELMH 103 (212)
T ss_pred EEEEECCCCHHHHhhHHHHHHHH
Confidence 99999999999999999999999
No 2
>KOG2272 consensus Focal adhesion protein PINCH-1, contains LIM domains [Signal transduction mechanisms; Cytoskeleton]
Probab=99.95 E-value=3.9e-30 Score=235.26 Aligned_cols=166 Identities=25% Similarity=0.541 Sum_probs=149.4
Q ss_pred CCCccccCCcccccCceEeecCceecCCCcccCCCCCCCCCceeeccCCccccccccccc-----ccccccccCccccCC
Q 017657 112 GYRICAGCNNEIGHGRFLNCLDVFWHPECFCCHACHQPITDIEFSTSENRPYHKSCYREH-----YHPKCDVCKHFIPSN 186 (368)
Q Consensus 112 ~~~~C~~C~~~I~~g~~v~a~g~~wH~~CF~C~~C~~~L~~~~f~~~dg~~yC~~cy~~~-----f~p~C~~C~~~I~~~ 186 (368)
++|.|++|++.| .|++|.+|+.+|||.||+|..|++.|.+..|+...|+.+|..|..+. -...|..|+..|..
T Consensus 72 faPcC~kC~EFi-iGrVikamnnSwHp~CF~Cd~Cn~~Lad~gf~rnqgr~LC~~Cn~k~Ka~~~g~YvC~KCh~~iD~- 149 (332)
T KOG2272|consen 72 FAPCCGKCGEFI-IGRVIKAMNNSWHPACFRCDLCNKHLADQGFYRNQGRALCRECNQKEKAKGRGRYVCQKCHAHIDE- 149 (332)
T ss_pred hchhhcccccch-hhHHHHhhccccCcccchhHHHHHHHhhhhhHhhcchHHhhhhhhhhcccccceeehhhhhhhccc-
Confidence 678999999999 89999999999999999999999999999999999999999998763 24579999999986
Q ss_pred CCcceEEccccccccccCCCCccCCCCccCCCCCcCCCCCceEEccCCcccccchhhhhccCCCCCCcchHhHHHHHHHh
Q 017657 187 HGGLIEYRAHPFWVQKYCPSHEHDGTPRCCSCERMEPQDTAYVALDDGRKLCLECLDSAIMDTNECQPLYLDIQEFYESI 266 (368)
Q Consensus 187 ~~~~i~~~~~pfw~~~yC~~h~H~~Cf~C~~C~r~l~~~~~f~~~~dg~~~C~~C~~~~v~~~~~C~~c~~~I~~f~e~~ 266 (368)
..+.+++.|| |+.+|.|..|++.|..+.+-+ .|.+||+.|+++ |..++|..|+
T Consensus 150 --~~l~fr~d~y----------H~yHFkCt~C~keL~sdaRev---k~eLyClrChD~--mgipiCgaC~---------- 202 (332)
T KOG2272|consen 150 --QPLTFRGDPY----------HPYHFKCTTCGKELTSDAREV---KGELYCLRCHDK--MGIPICGACR---------- 202 (332)
T ss_pred --ccccccCCCC----------Cccceecccccccccchhhhh---ccceeccccccc--cCCccccccc----------
Confidence 4799999886 888899999999998887754 789999999999 9999999999
Q ss_pred ccccccccchhhHhHHHHHhhh----------cCCCCCCCCCcccCCcccccceeeee
Q 017657 267 HMKLEQQIPLLLVERQALNEAR----------DGEKNGYYHMPETRGLCLSEEQTVTT 314 (368)
Q Consensus 267 ~~~i~~~~p~~lv~~~aLn~~~----------~~e~~g~~~~~~~~G~~~~E~~~~~~ 314 (368)
.||+.++ +.|||++| |++|.||+|| |++|++|||+||+.-
T Consensus 203 -rpIeerv------i~amgKhWHveHFvCa~CekPFlGHrHY-EkkGlaYCe~h~~qL 252 (332)
T KOG2272|consen 203 -RPIEERV------IFAMGKHWHVEHFVCAKCEKPFLGHRHY-EKKGLAYCETHYHQL 252 (332)
T ss_pred -CchHHHH------HHHhccccchhheeehhcCCcccchhhh-hhcCchhHHHHHHHH
Confidence 5556677 89999999 4568999999 999999999999765
No 3
>KOG1701 consensus Focal adhesion adaptor protein Paxillin and related LIM proteins [Signal transduction mechanisms]
Probab=99.88 E-value=8e-25 Score=213.43 Aligned_cols=165 Identities=21% Similarity=0.453 Sum_probs=139.4
Q ss_pred CCCccccCCcccc-cCceEeecCceecCCCcccCCCCCCCCCceeeccCCcccccccccccccccccccCccccCCCCcc
Q 017657 112 GYRICAGCNNEIG-HGRFLNCLDVFWHPECFCCHACHQPITDIEFSTSENRPYHKSCYREHYHPKCDVCKHFIPSNHGGL 190 (368)
Q Consensus 112 ~~~~C~~C~~~I~-~g~~v~a~g~~wH~~CF~C~~C~~~L~~~~f~~~dg~~yC~~cy~~~f~p~C~~C~~~I~~~~~~~ 190 (368)
.+.+|.+|+|.|. .+..+.||++.||..||+|..|++.|.++.||..|+++||+.||.+. ..||.+|++.|.+ .+
T Consensus 273 ~~~iC~~C~K~V~g~~~ac~Am~~~fHv~CFtC~~C~r~L~Gq~FY~v~~k~~CE~cyq~t-lekC~~Cg~~I~d---~i 348 (468)
T KOG1701|consen 273 YFGICAFCHKTVSGQGLAVEAMDQLFHVQCFTCRTCRRQLAGQSFYQVDGKPYCEGCYQDT-LEKCNKCGEPIMD---RI 348 (468)
T ss_pred hhhhhhhcCCcccCcchHHHHhhhhhcccceehHhhhhhhccccccccCCcccchHHHHHH-HHHHhhhhhHHHH---HH
Confidence 4569999999994 24568999999999999999999999999999999999999999875 7899999999995 57
Q ss_pred eEEccccccccccCCCCccCCCCccCCCCCcCCCCCceEEccCCcccccchhhhhccCCCCCCcchHhHHHHHHHhcccc
Q 017657 191 IEYRAHPFWVQKYCPSHEHDGTPRCCSCERMEPQDTAYVALDDGRKLCLECLDSAIMDTNECQPLYLDIQEFYESIHMKL 270 (368)
Q Consensus 191 i~~~~~pfw~~~yC~~h~H~~Cf~C~~C~r~l~~~~~f~~~~dg~~~C~~C~~~~v~~~~~C~~c~~~I~~f~e~~~~~i 270 (368)
+.+.++. ||++||+|.+|.|.| .|..|....++++||..||++ .+.++|..|.++| ||-
T Consensus 349 LrA~Gka----------yHp~CF~Cv~C~r~l-dgipFtvd~~n~v~Cv~dfh~--kfAPrCs~C~~PI--------~P~ 407 (468)
T KOG1701|consen 349 LRALGKA----------YHPGCFTCVVCARCL-DGIPFTVDSQNNVYCVPDFHK--KFAPRCSVCGNPI--------LPR 407 (468)
T ss_pred HHhcccc----------cCCCceEEEEecccc-CCccccccCCCceeeehhhhh--hcCcchhhccCCc--------cCC
Confidence 7777654 599999999999998 799999999999999999999 7899999999888 455
Q ss_pred ccccchhhHhHHHHHhhhcCCCCCCCCCcccCCcccc
Q 017657 271 EQQIPLLLVERQALNEARDGEKNGYYHMPETRGLCLS 307 (368)
Q Consensus 271 ~~~~p~~lv~~~aLn~~~~~e~~g~~~~~~~~G~~~~ 307 (368)
+++-. .|.+.||++-.|.+... . |-.|+-||
T Consensus 408 ~G~~e--tvRvvamdr~fHv~CY~---C-EDCg~~LS 438 (468)
T KOG1701|consen 408 DGKDE--TVRVVAMDRDFHVNCYK---C-EDCGLLLS 438 (468)
T ss_pred CCCcc--eEEEEEcccccccccee---h-hhcCcccc
Confidence 54321 25678888888776532 2 66788777
No 4
>KOG1701 consensus Focal adhesion adaptor protein Paxillin and related LIM proteins [Signal transduction mechanisms]
Probab=99.77 E-value=4.3e-20 Score=180.50 Aligned_cols=127 Identities=25% Similarity=0.551 Sum_probs=108.7
Q ss_pred cCCCCCCCccccCCcccccCceEeecCceecCCCcccCCCCCCCCCceeec-cCCcccccccccccccccccccCccccC
Q 017657 107 IQFPEGYRICAGCNNEIGHGRFLNCLDVFWHPECFCCHACHQPITDIEFST-SENRPYHKSCYREHYHPKCDVCKHFIPS 185 (368)
Q Consensus 107 ~~~~~~~~~C~~C~~~I~~g~~v~a~g~~wH~~CF~C~~C~~~L~~~~f~~-~dg~~yC~~cy~~~f~p~C~~C~~~I~~ 185 (368)
..+.....+|..|++.| ..++|.|+|+.||+.||+|.+|.+.|.+..|.+ .++++||..||++.|+|+|.+|+++|..
T Consensus 328 ~cyq~tlekC~~Cg~~I-~d~iLrA~GkayHp~CF~Cv~C~r~ldgipFtvd~~n~v~Cv~dfh~kfAPrCs~C~~PI~P 406 (468)
T KOG1701|consen 328 GCYQDTLEKCNKCGEPI-MDRILRALGKAYHPGCFTCVVCARCLDGIPFTVDSQNNVYCVPDFHKKFAPRCSVCGNPILP 406 (468)
T ss_pred HHHHHHHHHHhhhhhHH-HHHHHHhcccccCCCceEEEEeccccCCccccccCCCceeeehhhhhhcCcchhhccCCccC
Confidence 34445678899999999 689999999999999999999999999999987 5789999999999999999999999998
Q ss_pred CCCc----ceEEccccccccccCCCCccCCCCccCCCCCcCC---CCCceEEccCCcccccchhhhh
Q 017657 186 NHGG----LIEYRAHPFWVQKYCPSHEHDGTPRCCSCERMEP---QDTAYVALDDGRKLCLECLDSA 245 (368)
Q Consensus 186 ~~~~----~i~~~~~pfw~~~yC~~h~H~~Cf~C~~C~r~l~---~~~~f~~~~dg~~~C~~C~~~~ 245 (368)
.++. .|..+++ .||.+|++|..|+.+|. .+...+.+ ||.++|+.|+...
T Consensus 407 ~~G~~etvRvvamdr----------~fHv~CY~CEDCg~~LS~e~e~qgCyPl-d~HllCk~Ch~~R 462 (468)
T KOG1701|consen 407 RDGKDETVRVVAMDR----------DFHVNCYKCEDCGLLLSSEEEGQGCYPL-DGHLLCKTCHLKR 462 (468)
T ss_pred CCCCcceEEEEEccc----------cccccceehhhcCccccccCCCCcceec-cCceeechhhhhh
Confidence 7533 3455554 45999999999998876 36678887 9999999999753
No 5
>KOG4577 consensus Transcription factor LIM3, contains LIM and HOX domains [Transcription]
Probab=99.73 E-value=7.7e-20 Score=170.47 Aligned_cols=122 Identities=30% Similarity=0.639 Sum_probs=106.9
Q ss_pred CCCccccCCcccccCceEeecCceecCCCcccCCCCCCCCCceeeccCCcccccccccccccccccccCccccCCCCcce
Q 017657 112 GYRICAGCNNEIGHGRFLNCLDVFWHPECFCCHACHQPITDIEFSTSENRPYHKSCYREHYHPKCDVCKHFIPSNHGGLI 191 (368)
Q Consensus 112 ~~~~C~~C~~~I~~g~~v~a~g~~wH~~CF~C~~C~~~L~~~~f~~~dg~~yC~~cy~~~f~p~C~~C~~~I~~~~~~~i 191 (368)
..++|++|.+.|.+.-+++++++.||..|++|+.|..+|.+..|. ++|..||+.+|.++|+.+|..|...|++.. ++
T Consensus 32 eip~CagC~q~IlDrFilKvl~R~wHs~CLkCs~C~~qL~drCFs-R~~s~yCkedFfKrfGTKCsaC~~GIpPtq--VV 108 (383)
T KOG4577|consen 32 EIPICAGCDQHILDRFILKVLDRHWHSSCLKCSDCHDQLADRCFS-REGSVYCKEDFFKRFGTKCSACQEGIPPTQ--VV 108 (383)
T ss_pred ccccccchHHHHHHHHHHHHHhhhhhhhhcchhhhhhHHHHHHhh-cCCceeehHHHHHHhCCcchhhcCCCChHH--HH
Confidence 679999999999555557899999999999999999999986655 788999999999999999999999999853 33
Q ss_pred EEccccccccccCCCCccCCCCccCCCCCcCCCCCceEEccCCcccccchhhhh
Q 017657 192 EYRAHPFWVQKYCPSHEHDGTPRCCSCERMEPQDTAYVALDDGRKLCLECLDSA 245 (368)
Q Consensus 192 ~~~~~pfw~~~yC~~h~H~~Cf~C~~C~r~l~~~~~f~~~~dg~~~C~~C~~~~ 245 (368)
.+...| .||..||.|..|.|.|..|+.|+.+.|++++|+..|+++
T Consensus 109 -RkAqd~--------VYHl~CF~C~iC~R~L~TGdEFYLmeD~rLvCK~DYE~A 153 (383)
T KOG4577|consen 109 -RKAQDF--------VYHLHCFACFICKRQLATGDEFYLMEDARLVCKDDYETA 153 (383)
T ss_pred -HHhhcc--------eeehhhhhhHhhhcccccCCeeEEeccceeehhhhHHHH
Confidence 333332 579999999999999999999999999999999999985
No 6
>KOG1703 consensus Adaptor protein Enigma and related PDZ-LIM proteins [Signal transduction mechanisms; Cytoskeleton]
Probab=99.68 E-value=2.3e-17 Score=169.75 Aligned_cols=226 Identities=48% Similarity=0.836 Sum_probs=196.9
Q ss_pred CCCccccCCcccccCceEeecCceecCCCcccCCCCCCCCCceeeccCCcccccccccc-cccccccccCccccCCCCcc
Q 017657 112 GYRICAGCNNEIGHGRFLNCLDVFWHPECFCCHACHQPITDIEFSTSENRPYHKSCYRE-HYHPKCDVCKHFIPSNHGGL 190 (368)
Q Consensus 112 ~~~~C~~C~~~I~~g~~v~a~g~~wH~~CF~C~~C~~~L~~~~f~~~dg~~yC~~cy~~-~f~p~C~~C~~~I~~~~~~~ 190 (368)
...+|.+|.-.|..+..+ ||.|..|..++.. +-..+|.. ...+.+.++...|..+..+.
T Consensus 133 ~~~~~~~~~~~~~~~~~~----------~~~~~~~~~p~~~----------~~~~~~~~~~~~~~~~v~~~~~~~~~~~~ 192 (479)
T KOG1703|consen 133 LDSICGGCNSAIEHGRSV----------CFQCKRCSEPLSG----------FPKPSYHESGRSKNEDVEEASSPSSRAGL 192 (479)
T ss_pred ccccccCCCcccccccch----------hhhhcccccccCC----------ccccccccccccccccccccccccccccc
Confidence 456789999888666655 8889998888822 22334444 35678999999999887788
Q ss_pred eEEccccccccccCCCCccCCCCccCCCCCcCCCCCceEEccCCcccccchhhhhccCCCCCCcchHhHHHHHHHhcccc
Q 017657 191 IEYRAHPFWVQKYCPSHEHDGTPRCCSCERMEPQDTAYVALDDGRKLCLECLDSAIMDTNECQPLYLDIQEFYESIHMKL 270 (368)
Q Consensus 191 i~~~~~pfw~~~yC~~h~H~~Cf~C~~C~r~l~~~~~f~~~~dg~~~C~~C~~~~v~~~~~C~~c~~~I~~f~e~~~~~i 270 (368)
+.++.++||.++||+.|.++.+..|..|.+.++.+..++.+.+++.+|.+|....+|+++++++.+.++..++++..+++
T Consensus 193 ~~~~~~~~~~~~~~~~~e~~~tp~~~~~~r~e~~~~~~~~l~~~~~~~~~~~~~~~~~~p~~~p~~~~~~~~~~~~~~~~ 272 (479)
T KOG1703|consen 193 ILSRSHPFWKQKYCPSHENDGTPKCCSCERLEPLDTRYVELADGRALCLECMGSASMDSPECQPLVSAPRPASEGLHMKV 272 (479)
T ss_pred cccccchhhhhcccccccCCCCCCcccccccccccccceecccchhhhhhccCCcccCCCccCcceeccccccccccccc
Confidence 99999999999999999999999999999988778889999999999999998788999999999999999999999999
Q ss_pred ccccchhhHhHHHHHhhhcCCCCCCCCCcccCCcccccceeeeeeeccCcCCCCCcceeeeeccccccccceEEEEEEec
Q 017657 271 EQQIPLLLVERQALNEARDGEKNGYYHMPETRGLCLSEEQTVTTVLWRPRFGPGNQARNIITEPYKLTRRCDVTAILILY 350 (368)
Q Consensus 271 ~~~~p~~lv~~~aLn~~~~~e~~g~~~~~~~~G~~~~E~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~v~~il~l~ 350 (368)
++..++++++..+++++.+..+....|. .++++|.++.++++++ ..+.+|.++..+....|+|++|++++
T Consensus 273 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~-~~~p~c~~c~~~i~~~---------~~i~~~~~~~h~~~~~c~~~~~~~~~ 342 (479)
T KOG1703|consen 273 EKELPLLLVESEALKKLREEEKPAEYHN-VTRPLCLSCNQKIRSV---------KVIVALGKEWHPEHFSCEVCAIVILD 342 (479)
T ss_pred ccccchhhcccccccccccccccccccc-cccccccccccCcccc---------eeEeeccccccccceeeccccccccC
Confidence 9999999999999999998877665454 8899999999999654 44678888899999999999999999
Q ss_pred CCcHHHHHHHHhhhccc
Q 017657 351 GLPRFVICLALSNVCTR 367 (368)
Q Consensus 351 glpr~~~~~ilahe~~h 367 (368)
|+|++.+|.||+||+||
T Consensus 343 ~~~~~~~g~~~c~~~~~ 359 (479)
T KOG1703|consen 343 GGPRELDGKILCHECFH 359 (479)
T ss_pred CCccccCCCccHHHHHH
Confidence 99999999999999997
No 7
>KOG2272 consensus Focal adhesion protein PINCH-1, contains LIM domains [Signal transduction mechanisms; Cytoskeleton]
Probab=99.68 E-value=3.4e-18 Score=157.07 Aligned_cols=129 Identities=20% Similarity=0.493 Sum_probs=112.9
Q ss_pred CcccCCCccCCCCCCCccccCCcccccCceEeecCceecCCCcccCCCCCCCCCceeeccCCcccccccccccccccccc
Q 017657 99 HTYQHFPVIQFPEGYRICAGCNNEIGHGRFLNCLDVFWHPECFCCHACHQPITDIEFSTSENRPYHKSCYREHYHPKCDV 178 (368)
Q Consensus 99 ~~~~p~~~~~~~~~~~~C~~C~~~I~~g~~v~a~g~~wH~~CF~C~~C~~~L~~~~f~~~dg~~yC~~cy~~~f~p~C~~ 178 (368)
..|.+ ..+-..+.++|+.|.++| .+++|.+||+.||.++|+|+.|.+|+-+...+...|.+||+.+|.++|+..|..
T Consensus 183 eLyCl--rChD~mgipiCgaC~rpI-eervi~amgKhWHveHFvCa~CekPFlGHrHYEkkGlaYCe~h~~qLfG~~CF~ 259 (332)
T KOG2272|consen 183 ELYCL--RCHDKMGIPICGACRRPI-EERVIFAMGKHWHVEHFVCAKCEKPFLGHRHYEKKGLAYCETHYHQLFGNLCFI 259 (332)
T ss_pred ceecc--ccccccCCcccccccCch-HHHHHHHhccccchhheeehhcCCcccchhhhhhcCchhHHHHHHHHhhhhhee
Confidence 34444 344557889999999999 799999999999999999999999999989999999999999999999999999
Q ss_pred cCccccCCCCcceEEccccccccccCCCCccCCCCccCCCCCcCCCCCceEEccCCcccccchhhh
Q 017657 179 CKHFIPSNHGGLIEYRAHPFWVQKYCPSHEHDGTPRCCSCERMEPQDTAYVALDDGRKLCLECLDS 244 (368)
Q Consensus 179 C~~~I~~~~~~~i~~~~~pfw~~~yC~~h~H~~Cf~C~~C~r~l~~~~~f~~~~dg~~~C~~C~~~ 244 (368)
|+..|.|. ++.+.++. |=+.||.|+.|.+.|...++|+.+ |-.++|+.||++
T Consensus 260 C~~~i~G~---vv~al~Ka----------wCv~cf~Cs~Cdkkl~~K~Kf~E~-DmkP~CKkCy~r 311 (332)
T KOG2272|consen 260 CNRVIGGD---VVSALNKA----------WCVECFSCSTCDKKLTQKNKFYEF-DMKPVCKKCYDR 311 (332)
T ss_pred cCCccCcc---HHHHhhhh----------hccccccccccccccccccceeee-ccchHHHHHHhh
Confidence 99999964 57666543 356789999999999888999876 889999999986
No 8
>KOG1703 consensus Adaptor protein Enigma and related PDZ-LIM proteins [Signal transduction mechanisms; Cytoskeleton]
Probab=99.67 E-value=2.9e-17 Score=168.96 Aligned_cols=167 Identities=19% Similarity=0.329 Sum_probs=134.5
Q ss_pred CCCccccCCcccccC-ceEeecCceecCCCcccCCCCCCCCCceeeccCCcccccccccccccccccccCccccCCCCcc
Q 017657 112 GYRICAGCNNEIGHG-RFLNCLDVFWHPECFCCHACHQPITDIEFSTSENRPYHKSCYREHYHPKCDVCKHFIPSNHGGL 190 (368)
Q Consensus 112 ~~~~C~~C~~~I~~g-~~v~a~g~~wH~~CF~C~~C~~~L~~~~f~~~dg~~yC~~cy~~~f~p~C~~C~~~I~~~~~~~ 190 (368)
..+.|..|+..| .+ +++.++++.||+.+|.|..|+..+....|...+|++||..||.+.+.|+|..|+++|.++ .
T Consensus 302 ~~p~c~~c~~~i-~~~~~i~~~~~~~h~~~~~c~~~~~~~~~~~~~~~~g~~~c~~~~~~~~~p~C~~C~~~i~~~---~ 377 (479)
T KOG1703|consen 302 TRPLCLSCNQKI-RSVKVIVALGKEWHPEHFSCEVCAIVILDGGPRELDGKILCHECFHAPFRPNCKRCLLPILEE---G 377 (479)
T ss_pred ccccccccccCc-ccceeEeeccccccccceeeccccccccCCCccccCCCccHHHHHHHhhCccccccCCchHHh---H
Confidence 458999999999 56 999999999999999999999999998999999999999999999999999999999975 3
Q ss_pred eEEccccccccccCCCCccCCCCccCCCCCcCCCCCceEEccCCcccccchhhhhccCCCCCCcchHhHHHHHHHhcccc
Q 017657 191 IEYRAHPFWVQKYCPSHEHDGTPRCCSCERMEPQDTAYVALDDGRKLCLECLDSAIMDTNECQPLYLDIQEFYESIHMKL 270 (368)
Q Consensus 191 i~~~~~pfw~~~yC~~h~H~~Cf~C~~C~r~l~~~~~f~~~~dg~~~C~~C~~~~v~~~~~C~~c~~~I~~f~e~~~~~i 270 (368)
|.+.+ .+||+.||.|..|++.+. +..|+ +.+|.+||..||.. .++..|..|..+|..+.
T Consensus 378 v~a~~----------~~wH~~cf~C~~C~~~~~-~~~~~-~~~~~pyce~~~~~--~~~~~~~~~~~p~~~~~------- 436 (479)
T KOG1703|consen 378 VCALG----------RLWHPECFVCADCGKPLK-NSSFF-ESDGEPYCEDHYKK--LFTTKCDYCKKPVEFGS------- 436 (479)
T ss_pred hhhcc----------CeechhceeeecccCCCC-CCccc-ccCCccchhhhHhh--hccccchhccchhHhhh-------
Confidence 55554 468999999999988874 55555 56999999999999 45578999987775332
Q ss_pred ccccchhhHhHHHHHhhhcCCC---------CCCCCCcccCCccccccee
Q 017657 271 EQQIPLLLVERQALNEARDGEK---------NGYYHMPETRGLCLSEEQT 311 (368)
Q Consensus 271 ~~~~p~~lv~~~aLn~~~~~e~---------~g~~~~~~~~G~~~~E~~~ 311 (368)
.. ++|++.-|+... +..+.++++.+.+||..+.
T Consensus 437 --~~------ie~~~~~~h~~~F~c~~c~~~l~~~~~~~~~~~p~c~~~~ 478 (479)
T KOG1703|consen 437 --RQ------IEADGSPFHGDCFRCANCMKKLTKKTFFETLDKPLCQKHF 478 (479)
T ss_pred --hH------hhccCccccccceehhhhhccccCCceeecCCccccccCC
Confidence 11 455555554431 2333567888999987654
No 9
>KOG1044 consensus Actin-binding LIM Zn-finger protein Limatin involved in axon guidance [Signal transduction mechanisms; Cytoskeleton]
Probab=99.62 E-value=1.1e-16 Score=161.44 Aligned_cols=119 Identities=28% Similarity=0.659 Sum_probs=105.8
Q ss_pred CCCCccccCCcccccCceEeecCceecCCCcccCCCCCCCCCceeeccCCcccccccccccccccccccCccccCCCCcc
Q 017657 111 EGYRICAGCNNEIGHGRFLNCLDVFWHPECFCCHACHQPITDIEFSTSENRPYHKSCYREHYHPKCDVCKHFIPSNHGGL 190 (368)
Q Consensus 111 ~~~~~C~~C~~~I~~g~~v~a~g~~wH~~CF~C~~C~~~L~~~~f~~~dg~~yC~~cy~~~f~p~C~~C~~~I~~~~~~~ 190 (368)
.+...|++|++.|..|+.+.|+++.||..||+|..|+..|.+ +|..+||.|||+.||.+.|+.+|..|.++|.+ ++
T Consensus 131 ~~ps~cagc~~~lk~gq~llald~qwhv~cfkc~~c~~vL~g-ey~skdg~pyce~dy~~~fgvkc~~c~~fisg---kv 206 (670)
T KOG1044|consen 131 YGPSTCAGCGEELKNGQALLALDKQWHVSCFKCKSCSAVLNG-EYMSKDGVPYCEKDYQAKFGVKCEECEKFISG---KV 206 (670)
T ss_pred cCCccccchhhhhhccceeeeeccceeeeeeehhhhcccccc-eeeccCCCcchhhhhhhhcCeehHHhhhhhhh---hh
Confidence 356789999999988999999999999999999999998876 78889999999999999999999999999996 46
Q ss_pred eEEccccccccccCCCCccCCCCccCCCCCcCCCCCceEEccCCcccccchhhh
Q 017657 191 IEYRAHPFWVQKYCPSHEHDGTPRCCSCERMEPQDTAYVALDDGRKLCLECLDS 244 (368)
Q Consensus 191 i~~~~~pfw~~~yC~~h~H~~Cf~C~~C~r~l~~~~~f~~~~dg~~~C~~C~~~ 244 (368)
+.+-+ +|||+.|-+|+.|+.+|..|..-+ +....++-..|-..
T Consensus 207 Lqag~----------kh~HPtCARCsRCgqmF~eGEEMY-lQGs~iWHP~C~qa 249 (670)
T KOG1044|consen 207 LQAGD----------KHFHPTCARCSRCGQMFGEGEEMY-LQGSEIWHPDCKQA 249 (670)
T ss_pred hhccC----------cccCcchhhhhhhccccccchhee-eccccccCCccccc
Confidence 76665 488999999999999998888766 66778888888753
No 10
>KOG1044 consensus Actin-binding LIM Zn-finger protein Limatin involved in axon guidance [Signal transduction mechanisms; Cytoskeleton]
Probab=99.61 E-value=4.3e-16 Score=157.22 Aligned_cols=161 Identities=17% Similarity=0.319 Sum_probs=132.3
Q ss_pred CCCccccCCcccccCceEeecCceecCCCcccCCCCCCCCCceeeccCCcccccccccccccccccccCccccCCCCcce
Q 017657 112 GYRICAGCNNEIGHGRFLNCLDVFWHPECFCCHACHQPITDIEFSTSENRPYHKSCYREHYHPKCDVCKHFIPSNHGGLI 191 (368)
Q Consensus 112 ~~~~C~~C~~~I~~g~~v~a~g~~wH~~CF~C~~C~~~L~~~~f~~~dg~~yC~~cy~~~f~p~C~~C~~~I~~~~~~~i 191 (368)
....|.+|.+.. .|+++++.++.||..||+|..|+..|....|+..++. +++++ ..|..+|.++ ++
T Consensus 15 ~~i~c~~c~~kc-~gevlrv~d~~fhi~cf~c~~cg~~la~~gff~k~~~--------~~ygt--~~c~~~~~ge---vv 80 (670)
T KOG1044|consen 15 QGIKCDKCRKKC-SGEVLRVNDNHFHINCFQCKKCGRNLAEGGFFTKPEN--------RLYGT--DDCRAFVEGE---VV 80 (670)
T ss_pred cceehhhhCCcc-ccceeEeeccccceeeeeccccCCCcccccceecccc--------eeecc--cchhhhccce---eE
Confidence 456799999999 7999999999999999999999999999999987775 44455 6788889864 57
Q ss_pred EEccccccccccCCCCccCCCCccCCCCCcCCCCCceEEccCCcccccchhhhhc------cCCCCCCcchHhHHHHHHH
Q 017657 192 EYRAHPFWVQKYCPSHEHDGTPRCCSCERMEPQDTAYVALDDGRKLCLECLDSAI------MDTNECQPLYLDIQEFYES 265 (368)
Q Consensus 192 ~~~~~pfw~~~yC~~h~H~~Cf~C~~C~r~l~~~~~f~~~~dg~~~C~~C~~~~v------~~~~~C~~c~~~I~~f~e~ 265 (368)
.+.++. ||+.||.|+.|..+++.|++. .+.....+|..|-...- .+...|++|..+|..
T Consensus 81 sa~gkt----------yh~~cf~cs~ck~pf~~g~~v-t~~gk~~~c~~c~~~~~~~p~~~~~ps~cagc~~~lk~---- 145 (670)
T KOG1044|consen 81 STLGKT----------YHPKCFSCSTCKSPFKSGDKV-TFSGKECLCQTCSQPMPVSPAESYGPSTCAGCGEELKN---- 145 (670)
T ss_pred ecccce----------eccccceecccCCCCCCCCee-eecchhhhhhhhcCcccCCcccccCCccccchhhhhhc----
Confidence 888754 599999999999999999885 46677799999976421 155689999988864
Q ss_pred hccccccccchhhHhHHHHHhhhcCC--------CCCCCCCcccCCcccccceeee
Q 017657 266 IHMKLEQQIPLLLVERQALNEARDGE--------KNGYYHMPETRGLCLSEEQTVT 313 (368)
Q Consensus 266 ~~~~i~~~~p~~lv~~~aLn~~~~~e--------~~g~~~~~~~~G~~~~E~~~~~ 313 (368)
+|. .-||.++|+.- ...++.|+.++|++|||.+|+.
T Consensus 146 ------gq~------llald~qwhv~cfkc~~c~~vL~gey~skdg~pyce~dy~~ 189 (670)
T KOG1044|consen 146 ------GQA------LLALDKQWHVSCFKCKSCSAVLNGEYMSKDGVPYCEKDYQA 189 (670)
T ss_pred ------cce------eeeeccceeeeeeehhhhcccccceeeccCCCcchhhhhhh
Confidence 666 67899999764 2455678999999999999964
No 11
>PF00412 LIM: LIM domain; InterPro: IPR001781 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 LIM-type zinc finger (Znf) domains. LIM domains coordinate one or more zinc atoms, and are named after the three proteins (LIN-11, Isl1 and MEC-3) in which they were first found. They consist of two zinc-binding motifs that resemble GATA-like Znf's, however the residues holding the zinc atom(s) are variable, involving Cys, His, Asp or Glu residues. LIM domains are involved in proteins with differing functions, including gene expression, and cytoskeleton organisation and development [, ]. Protein containing LIM Znf domains include: Caenorhabditis elegans mec-3; a protein required for the differentiation of the set of six touch receptor neurons in this nematode. C. elegans. lin-11; a protein required for the asymmetric division of vulval blast cells. Vertebrate insulin gene enhancer binding protein isl-1. Isl-1 binds to one of the two cis-acting protein-binding domains of the insulin gene. Vertebrate homeobox proteins lim-1, lim-2 (lim-5) and lim3. Vertebrate lmx-1, which acts as a transcriptional activator by binding to the FLAT element; a beta-cell-specific transcriptional enhancer found in the insulin gene. Mammalian LH-2, a transcriptional regulatory protein involved in the control of cell differentiation in developing lymphoid and neural cell types. Drosophila melanogaster (Fruit fly) protein apterous, required for the normal development of the wing and halter imaginal discs. Vertebrate protein kinases LIMK-1 and LIMK-2. Mammalian rhombotins. Rhombotin 1 (RBTN1 or TTG-1) and rhombotin-2 (RBTN2 or TTG-2) are proteins of about 160 amino acids whose genes are disrupted by chromosomal translocations in T-cell leukemia. Mammalian and avian cysteine-rich protein (CRP), a 192 amino-acid protein of unknown function. Seems to interact with zyxin. Mammalian cysteine-rich intestinal protein (CRIP), a small protein which seems to have a role in zinc absorption and may function as an intracellular zinc transport protein. Vertebrate paxillin, a cytoskeletal focal adhesion protein. Mus musculus (Mouse) testin which should not be confused with rat testin which is a thiol protease homologue (see IPR000169 from INTERPRO). Helianthus annuus (Common sunflower) pollen specific protein SF3. Chicken zyxin. Zyxin is a low-abundance adhesion plaque protein which has been shown to interact with CRP. Yeast protein LRG1 which is involved in sporulation []. Saccharomyces cerevisiae (Baker's yeast) rho-type GTPase activating protein RGA1/DBM1. C. elegans homeobox protein ceh-14. C. elegans homeobox protein unc-97. S. cerevisiae hypothetical protein YKR090w. C. elegans hypothetical proteins C28H8.6. These proteins generally contain two tandem copies of the LIM domain in their N-terminal section. Zyxin and paxillin are exceptions in that they contain respectively three and four LIM domains at their C-terminal extremity. In apterous, isl-1, LH-2, lin-11, lim-1 to lim-3, lmx-1 and ceh-14 and mec-3 there is a homeobox domain some 50 to 95 amino acids after the LIM domains. LIM domains contain seven conserved cysteine residues and a histidine. The arrangement followed by these conserved residues is: C-x(2)-C-x(16,23)-H-x(2)-[CH]-x(2)-C-x(2)-C-x(16,21)-C-x(2,3)-[CHD] LIM domains bind two zinc ions []. LIM does not bind DNA, rather it seems to act as an interface for protein-protein interaction. More information about these proteins can be found at Protein of the Month: Zinc Fingers [].; GO: 0008270 zinc ion binding; PDB: 2CO8_A 2EGQ_A 2CUR_A 3IXE_B 1CTL_A 1B8T_A 1X62_A 2DFY_C 1IML_A 2CUQ_A ....
Probab=99.32 E-value=7.3e-13 Score=97.12 Aligned_cols=57 Identities=37% Similarity=1.023 Sum_probs=52.0
Q ss_pred cccCCcccccCceE-eecCceecCCCcccCCCCCCCCCceeeccCCcccccccccccc
Q 017657 116 CAGCNNEIGHGRFL-NCLDVFWHPECFCCHACHQPITDIEFSTSENRPYHKSCYREHY 172 (368)
Q Consensus 116 C~~C~~~I~~g~~v-~a~g~~wH~~CF~C~~C~~~L~~~~f~~~dg~~yC~~cy~~~f 172 (368)
|.+|+++|..+..+ .++|+.||++||+|..|+++|.+..|+..+|++||+.||.++|
T Consensus 1 C~~C~~~I~~~~~~~~~~~~~~H~~Cf~C~~C~~~l~~~~~~~~~~~~~C~~c~~~~f 58 (58)
T PF00412_consen 1 CARCGKPIYGTEIVIKAMGKFWHPECFKCSKCGKPLNDGDFYEKDGKPYCKDCYQKRF 58 (58)
T ss_dssp BTTTSSBESSSSEEEEETTEEEETTTSBETTTTCBTTTSSEEEETTEEEEHHHHHHHT
T ss_pred CCCCCCCccCcEEEEEeCCcEEEccccccCCCCCccCCCeeEeECCEEECHHHHhhhC
Confidence 88999999766655 6999999999999999999999888999999999999998865
No 12
>KOG1700 consensus Regulatory protein MLP and related LIM proteins [Signal transduction mechanisms; Cytoskeleton]
Probab=98.75 E-value=1.9e-09 Score=98.96 Aligned_cols=121 Identities=22% Similarity=0.450 Sum_probs=89.8
Q ss_pred CCCCccccCCcccccCceEeecCceecCCCcccCCCCCCCCCceeeccCCccccccccccccccc---------------
Q 017657 111 EGYRICAGCNNEIGHGRFLNCLDVFWHPECFCCHACHQPITDIEFSTSENRPYHKSCYREHYHPK--------------- 175 (368)
Q Consensus 111 ~~~~~C~~C~~~I~~g~~v~a~g~~wH~~CF~C~~C~~~L~~~~f~~~dg~~yC~~cy~~~f~p~--------------- 175 (368)
.....|..|++.++..+.+...|..||+.||+|..|...|....+..+++.+||+.||...+.|+
T Consensus 5 ~~~~kc~~c~k~vy~~e~~~~~g~~~hk~c~~c~~~~k~l~~~~~~~~e~~~yc~~~~~~~~~~~~~~~~~~~~~~~~~~ 84 (200)
T KOG1700|consen 5 GTTDKCNACGKTVYFVEKVQKDGVDFHKECFKCEKCKKTLTLSGYSEHEGVPYCKNCHVAQFGPKGGGFGKGFQKAGGLG 84 (200)
T ss_pred cccchhhhccCcchHHHHHhccCcchhhhHHhccccccccccccccccccccccccchHhhhCcccccccccccccCCCC
Confidence 45568999999998887778899999999999999999999999999999999999766554433
Q ss_pred --------------------------ccccCccccCCCCcceEEccccccccccCCCCccCCCCccCCCCCcCCCCCceE
Q 017657 176 --------------------------CDVCKHFIPSNHGGLIEYRAHPFWVQKYCPSHEHDGTPRCCSCERMEPQDTAYV 229 (368)
Q Consensus 176 --------------------------C~~C~~~I~~~~~~~i~~~~~pfw~~~yC~~h~H~~Cf~C~~C~r~l~~~~~f~ 229 (368)
|..|++++-+.. -+...+ .-||..||+|+.|+..|.. ..|.
T Consensus 85 ~~~~~~~~~~~~~~~~~~~~~g~~~~c~~c~k~vy~~E--k~~~~~----------~~~hk~cfrc~~~~~~ls~-~~~~ 151 (200)
T KOG1700|consen 85 KDGKSLNESKPNQSAKFQVFAGEKEKCARCQKTVYPLE--KVTGNG----------LEFHKSCFRCTHCGKKLSP-KNYA 151 (200)
T ss_pred cccccccccccccchhHHhhhccccccccccceeeehH--HHhhhh----------hhhhhhheeecccccccCC-cchh
Confidence 333433333211 111111 3479999999999998854 4454
Q ss_pred EccCCcccccchhhhh
Q 017657 230 ALDDGRKLCLECLDSA 245 (368)
Q Consensus 230 ~~~dg~~~C~~C~~~~ 245 (368)
...|.++|...+..+
T Consensus 152 -~~~g~l~~~~~~~~~ 166 (200)
T KOG1700|consen 152 -ALEGVLYCKHHFAQL 166 (200)
T ss_pred -hcCCccccchhhhee
Confidence 457888887776653
No 13
>PF00412 LIM: LIM domain; InterPro: IPR001781 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 LIM-type zinc finger (Znf) domains. LIM domains coordinate one or more zinc atoms, and are named after the three proteins (LIN-11, Isl1 and MEC-3) in which they were first found. They consist of two zinc-binding motifs that resemble GATA-like Znf's, however the residues holding the zinc atom(s) are variable, involving Cys, His, Asp or Glu residues. LIM domains are involved in proteins with differing functions, including gene expression, and cytoskeleton organisation and development [, ]. Protein containing LIM Znf domains include: Caenorhabditis elegans mec-3; a protein required for the differentiation of the set of six touch receptor neurons in this nematode. C. elegans. lin-11; a protein required for the asymmetric division of vulval blast cells. Vertebrate insulin gene enhancer binding protein isl-1. Isl-1 binds to one of the two cis-acting protein-binding domains of the insulin gene. Vertebrate homeobox proteins lim-1, lim-2 (lim-5) and lim3. Vertebrate lmx-1, which acts as a transcriptional activator by binding to the FLAT element; a beta-cell-specific transcriptional enhancer found in the insulin gene. Mammalian LH-2, a transcriptional regulatory protein involved in the control of cell differentiation in developing lymphoid and neural cell types. Drosophila melanogaster (Fruit fly) protein apterous, required for the normal development of the wing and halter imaginal discs. Vertebrate protein kinases LIMK-1 and LIMK-2. Mammalian rhombotins. Rhombotin 1 (RBTN1 or TTG-1) and rhombotin-2 (RBTN2 or TTG-2) are proteins of about 160 amino acids whose genes are disrupted by chromosomal translocations in T-cell leukemia. Mammalian and avian cysteine-rich protein (CRP), a 192 amino-acid protein of unknown function. Seems to interact with zyxin. Mammalian cysteine-rich intestinal protein (CRIP), a small protein which seems to have a role in zinc absorption and may function as an intracellular zinc transport protein. Vertebrate paxillin, a cytoskeletal focal adhesion protein. Mus musculus (Mouse) testin which should not be confused with rat testin which is a thiol protease homologue (see IPR000169 from INTERPRO). Helianthus annuus (Common sunflower) pollen specific protein SF3. Chicken zyxin. Zyxin is a low-abundance adhesion plaque protein which has been shown to interact with CRP. Yeast protein LRG1 which is involved in sporulation []. Saccharomyces cerevisiae (Baker's yeast) rho-type GTPase activating protein RGA1/DBM1. C. elegans homeobox protein ceh-14. C. elegans homeobox protein unc-97. S. cerevisiae hypothetical protein YKR090w. C. elegans hypothetical proteins C28H8.6. These proteins generally contain two tandem copies of the LIM domain in their N-terminal section. Zyxin and paxillin are exceptions in that they contain respectively three and four LIM domains at their C-terminal extremity. In apterous, isl-1, LH-2, lin-11, lim-1 to lim-3, lmx-1 and ceh-14 and mec-3 there is a homeobox domain some 50 to 95 amino acids after the LIM domains. LIM domains contain seven conserved cysteine residues and a histidine. The arrangement followed by these conserved residues is: C-x(2)-C-x(16,23)-H-x(2)-[CH]-x(2)-C-x(2)-C-x(16,21)-C-x(2,3)-[CHD] LIM domains bind two zinc ions []. LIM does not bind DNA, rather it seems to act as an interface for protein-protein interaction. More information about these proteins can be found at Protein of the Month: Zinc Fingers [].; GO: 0008270 zinc ion binding; PDB: 2CO8_A 2EGQ_A 2CUR_A 3IXE_B 1CTL_A 1B8T_A 1X62_A 2DFY_C 1IML_A 2CUQ_A ....
Probab=98.54 E-value=7.3e-08 Score=70.38 Aligned_cols=57 Identities=19% Similarity=0.445 Sum_probs=44.3
Q ss_pred ccccCccccCCCCcceEEccccccccccCCCCccCCCCccCCCCCcCCCCCceEEccCCcccccchhhhh
Q 017657 176 CDVCKHFIPSNHGGLIEYRAHPFWVQKYCPSHEHDGTPRCCSCERMEPQDTAYVALDDGRKLCLECLDSA 245 (368)
Q Consensus 176 C~~C~~~I~~~~~~~i~~~~~pfw~~~yC~~h~H~~Cf~C~~C~r~l~~~~~f~~~~dg~~~C~~C~~~~ 245 (368)
|..|+++|.+.. .++.+.++ .||+.||+|..|++.|..+. |+ ..+|++||..||.+.
T Consensus 1 C~~C~~~I~~~~-~~~~~~~~----------~~H~~Cf~C~~C~~~l~~~~-~~-~~~~~~~C~~c~~~~ 57 (58)
T PF00412_consen 1 CARCGKPIYGTE-IVIKAMGK----------FWHPECFKCSKCGKPLNDGD-FY-EKDGKPYCKDCYQKR 57 (58)
T ss_dssp BTTTSSBESSSS-EEEEETTE----------EEETTTSBETTTTCBTTTSS-EE-EETTEEEEHHHHHHH
T ss_pred CCCCCCCccCcE-EEEEeCCc----------EEEccccccCCCCCccCCCe-eE-eECCEEECHHHHhhh
Confidence 789999999753 22346654 36999999999999986554 65 468899999999863
No 14
>smart00132 LIM Zinc-binding domain present in Lin-11, Isl-1, Mec-3. Zinc-binding domain family. Some LIM domains bind protein partners via tyrosine-containing motifs. LIM domains are found in many key regulators of developmental pathways.
Probab=98.37 E-value=2.7e-07 Score=61.40 Aligned_cols=37 Identities=46% Similarity=1.106 Sum_probs=33.2
Q ss_pred ccccCCcccccC-ceEeecCceecCCCcccCCCCCCCC
Q 017657 115 ICAGCNNEIGHG-RFLNCLDVFWHPECFCCHACHQPIT 151 (368)
Q Consensus 115 ~C~~C~~~I~~g-~~v~a~g~~wH~~CF~C~~C~~~L~ 151 (368)
.|.+|+++|..+ ..+.++++.||+.||+|..|+.+|.
T Consensus 1 ~C~~C~~~i~~~~~~~~~~~~~~H~~Cf~C~~C~~~L~ 38 (39)
T smart00132 1 KCAGCGKPIRGGELVLRALGKVWHPECFKCSKCGKPLG 38 (39)
T ss_pred CccccCCcccCCcEEEEeCCccccccCCCCcccCCcCc
Confidence 489999999655 7788999999999999999999885
No 15
>KOG4577 consensus Transcription factor LIM3, contains LIM and HOX domains [Transcription]
Probab=97.53 E-value=1.1e-05 Score=76.45 Aligned_cols=77 Identities=22% Similarity=0.464 Sum_probs=61.8
Q ss_pred CCcccCCCccCCCCCCCccccCCcccccCceE-eecCceecCCCcccCCCCCCCC-Cceee-ccCCcccccccccccccc
Q 017657 98 AHTYQHFPVIQFPEGYRICAGCNNEIGHGRFL-NCLDVFWHPECFCCHACHQPIT-DIEFS-TSENRPYHKSCYREHYHP 174 (368)
Q Consensus 98 ~~~~~p~~~~~~~~~~~~C~~C~~~I~~g~~v-~a~g~~wH~~CF~C~~C~~~L~-~~~f~-~~dg~~yC~~cy~~~f~p 174 (368)
+++|.- ..+|..+.-+|..|...|.+.++| +|.+..||..||.|..|++.|. +.+|+ +.|+++.|+++|.+--..
T Consensus 79 ~s~yCk--edFfKrfGTKCsaC~~GIpPtqVVRkAqd~VYHl~CF~C~iC~R~L~TGdEFYLmeD~rLvCK~DYE~Ak~k 156 (383)
T KOG4577|consen 79 GSVYCK--EDFFKRFGTKCSACQEGIPPTQVVRKAQDFVYHLHCFACFICKRQLATGDEFYLMEDARLVCKDDYETAKQK 156 (383)
T ss_pred Cceeeh--HHHHHHhCCcchhhcCCCChHHHHHHhhcceeehhhhhhHhhhcccccCCeeEEeccceeehhhhHHHHHhc
Confidence 344444 566788899999999999777877 5889999999999999999996 44555 578899999999876555
Q ss_pred cc
Q 017657 175 KC 176 (368)
Q Consensus 175 ~C 176 (368)
-|
T Consensus 157 ~~ 158 (383)
T KOG4577|consen 157 HC 158 (383)
T ss_pred cc
Confidence 44
No 16
>KOG1700 consensus Regulatory protein MLP and related LIM proteins [Signal transduction mechanisms; Cytoskeleton]
Probab=97.44 E-value=3.4e-05 Score=70.98 Aligned_cols=64 Identities=19% Similarity=0.444 Sum_probs=56.9
Q ss_pred CCCCCCccccCCcccccCceEeecCceecCCCcccCCCCCCCCCceeeccCCcccccccccccc
Q 017657 109 FPEGYRICAGCNNEIGHGRFLNCLDVFWHPECFCCHACHQPITDIEFSTSENRPYHKSCYREHY 172 (368)
Q Consensus 109 ~~~~~~~C~~C~~~I~~g~~v~a~g~~wH~~CF~C~~C~~~L~~~~f~~~dg~~yC~~cy~~~f 172 (368)
+......|..|++.+++.+.+...+..||..||+|+.|+..|+...+....+.+||...+.+++
T Consensus 104 ~~g~~~~c~~c~k~vy~~Ek~~~~~~~~hk~cfrc~~~~~~ls~~~~~~~~g~l~~~~~~~~~~ 167 (200)
T KOG1700|consen 104 FAGEKEKCARCQKTVYPLEKVTGNGLEFHKSCFRCTHCGKKLSPKNYAALEGVLYCKHHFAQLF 167 (200)
T ss_pred hhccccccccccceeeehHHHhhhhhhhhhhheeecccccccCCcchhhcCCccccchhhheee
Confidence 3346788999999999888899999999999999999999999999999999999987776654
No 17
>KOG1702 consensus Nebulin repeat protein [Cytoskeleton]
Probab=97.30 E-value=2.7e-05 Score=70.68 Aligned_cols=59 Identities=22% Similarity=0.598 Sum_probs=54.1
Q ss_pred CccccCCcccccCceEeecCceecCCCcccCCCCCCCCCceeeccCCcccccccccccc
Q 017657 114 RICAGCNNEIGHGRFLNCLDVFWHPECFCCHACHQPITDIEFSTSENRPYHKSCYREHY 172 (368)
Q Consensus 114 ~~C~~C~~~I~~g~~v~a~g~~wH~~CF~C~~C~~~L~~~~f~~~dg~~yC~~cy~~~f 172 (368)
..|..|++.+++-+.++++++.||..||.|..|+.+|....|--.+.++||..+|.+..
T Consensus 5 ~n~~~cgk~vYPvE~v~cldk~whk~cfkce~c~mtlnmKnyKgy~kkpycn~hYpkq~ 63 (264)
T KOG1702|consen 5 CNREDCGKTVYPVEEVKCLDKVWHKQCFKCEVCGMTLNMKNYKGYDKKPYCNPHYPKQV 63 (264)
T ss_pred chhhhhccccccHHHHhhHHHHHHHHhheeeeccCChhhhhccccccCCCcCcccccce
Confidence 56889999998889999999999999999999999999989888899999999998753
No 18
>smart00132 LIM Zinc-binding domain present in Lin-11, Isl-1, Mec-3. Zinc-binding domain family. Some LIM domains bind protein partners via tyrosine-containing motifs. LIM domains are found in many key regulators of developmental pathways.
Probab=97.16 E-value=0.00031 Score=46.36 Aligned_cols=37 Identities=19% Similarity=0.329 Sum_probs=28.3
Q ss_pred cccccCccccCCCCcceEEccccccccccCCCCccCCCCccCCCCCcC
Q 017657 175 KCDVCKHFIPSNHGGLIEYRAHPFWVQKYCPSHEHDGTPRCCSCERME 222 (368)
Q Consensus 175 ~C~~C~~~I~~~~~~~i~~~~~pfw~~~yC~~h~H~~Cf~C~~C~r~l 222 (368)
+|..|+++|.+.. ..+.+.+. .||..||+|..|++.|
T Consensus 1 ~C~~C~~~i~~~~-~~~~~~~~----------~~H~~Cf~C~~C~~~L 37 (39)
T smart00132 1 KCAGCGKPIRGGE-LVLRALGK----------VWHPECFKCSKCGKPL 37 (39)
T ss_pred CccccCCcccCCc-EEEEeCCc----------cccccCCCCcccCCcC
Confidence 5889999998741 34555443 4699999999999876
No 19
>KOG0490 consensus Transcription factor, contains HOX domain [General function prediction only]
Probab=97.01 E-value=8.6e-05 Score=68.83 Aligned_cols=114 Identities=23% Similarity=0.442 Sum_probs=86.9
Q ss_pred cCCcccccCceEeecCceecCCCcccCCCCCCCC--CceeeccCCcccccccccc--cccccccccCccccCCCCcceEE
Q 017657 118 GCNNEIGHGRFLNCLDVFWHPECFCCHACHQPIT--DIEFSTSENRPYHKSCYRE--HYHPKCDVCKHFIPSNHGGLIEY 193 (368)
Q Consensus 118 ~C~~~I~~g~~v~a~g~~wH~~CF~C~~C~~~L~--~~~f~~~dg~~yC~~cy~~--~f~p~C~~C~~~I~~~~~~~i~~ 193 (368)
+|+..|.+-..+.+.+..||..|..|..|...+. ...|.. +|..||..+|.. .+..+|..|...|...+ .
T Consensus 1 ~~~~~~~~~~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~-~g~~~~~~d~~~~~~~~~rr~rt~~~~~ql~-----~ 74 (235)
T KOG0490|consen 1 GCGRQILDRYLLRVLDRYWHASCLKCAECDNPLGVGDTCFSK-DGSIYCKRDYQREFKFSKRCARCKFTISQLD-----E 74 (235)
T ss_pred CCCccccchHHhhcccHHHHHHHHhhhhhcchhccCCCcccC-CCcccccccchhhhhccccccCCCCCcCHHH-----H
Confidence 4677774444566779999999999999999997 666777 999999999998 78889999999986432 2
Q ss_pred ccccccccccCCCCccCCCCccCCCCCcCCCCCceEEccCCcccccchhhh
Q 017657 194 RAHPFWVQKYCPSHEHDGTPRCCSCERMEPQDTAYVALDDGRKLCLECLDS 244 (368)
Q Consensus 194 ~~~pfw~~~yC~~h~H~~Cf~C~~C~r~l~~~~~f~~~~dg~~~C~~C~~~ 244 (368)
..+.| ... |-.||.|..|.+.+..+..+.+....+..|...+..
T Consensus 75 ler~f------~~~-h~Pd~~~r~~la~~~~~~e~rVqvwFqnrrak~r~~ 118 (235)
T KOG0490|consen 75 LERAF------EKV-HLPCFACRECLALLLTGDEFRVQVWFQNRRAKDRKE 118 (235)
T ss_pred HHHhh------cCC-CcCccchHHHHhhcCCCCeeeeehhhhhhcHhhhhh
Confidence 22222 223 888999999999877777776554558888877754
No 20
>smart00726 UIM Ubiquitin-interacting motif. Present in proteasome subunit S5a and other ubiquitin-associated proteins.
Probab=75.38 E-value=2.3 Score=26.16 Aligned_cols=20 Identities=40% Similarity=0.582 Sum_probs=14.0
Q ss_pred cchHHHHHHHhhhhhhhccC
Q 017657 44 ENEDIDRAIALSLLEENQKG 63 (368)
Q Consensus 44 ~~e~~~~aia~sl~e~~~~~ 63 (368)
++++|..||++|+.|.+...
T Consensus 2 EDe~Lq~Ai~lSl~e~e~~~ 21 (26)
T smart00726 2 EDEDLQLALELSLQEAEESX 21 (26)
T ss_pred hHHHHHHHHHHhHHHhhhcc
Confidence 56778888888887665433
No 21
>PF02809 UIM: Ubiquitin interaction motif; InterPro: IPR003903 The Ubiquitin Interacting Motif (UIM), or 'LALAL-motif', is a stretch of about 20 amino acid residues, which was first described in the 26S proteasome subunit PSD4/RPN-10 that is known to recognise ubiquitin [,]. In addition, the UIM is found, often in tandem or triplet arrays, in a variety of proteins either involved in ubiquitination and ubiquitin metabolism, or known to interact with ubiquitin-like modifiers. Among the UIM proteins are two different subgroups of the UBP (ubiquitin carboxy-terminal hydrolase) family of deubiquitinating enzymes, one F-box protein, one family of HECT-containing ubiquitin-ligases (E3s) from plants, and several proteins containing ubiquitin-associated UBA and/or UBX domains []. In most of these proteins, the UIM occurs in multiple copies and in association with other domains such as UBA (IPR015940 from INTERPRO), UBX (IPR001012 from INTERPRO), ENTH, EH (IPR000261 from INTERPRO), VHS (IPR002014 from INTERPRO), SH3 (IPR001452 from INTERPRO), HECT (IPR000569 from INTERPRO), VWFA (IPR002035 from INTERPRO), EF-hand calcium-binding, WD-40 (IPR001680 from INTERPRO), F-box (IPR001810 from INTERPRO), LIM (IPR001781 from INTERPRO), protein kinase (IPR000719 from INTERPRO), ankyrin (IPR002110 from INTERPRO), PX (IPR001683 from INTERPRO), phosphatidylinositol 3- and 4-kinase (IPR000403 from INTERPRO), C2 (IPR000008 from INTERPRO), OTU (IPR003323 from INTERPRO), dnaJ (IPR001623 from INTERPRO), RING-finger (IPR001841 from INTERPRO) or FYVE-finger (IPR017455 from INTERPRO). UIMs have been shown to bind ubiquitin and to serve as a specific targeting signal important for monoubiquitination. Thus, UIMs may have several functions in ubiquitin metabolism each of which may require different numbers of UIMs [, , ]. The UIM is unlikely to form an independent folding domain. Instead, based on the spacing of the conserved residues, the motif probably forms a short alpha-helix that can be embedded into different protein folds []. Some proteins known to contain an UIM are listed below: Eukaryotic PSD4/RPN-10/S5, a multi-ubiquitin binding subunit of the 26S proteasome. Vertebrate Machado-Joseph disease protein 1 (Ataxin-3), which acts as a histone-binding protein that regulates transcription; defects in Ataxin-3 cause the neurodegenerative disorder Machado-Joseph disease (MJD). Vertebrate epsin and epsin2. Vertebrate hepatocyte growth factor-regulated tyrosine kinase substrate (HRS). Mammalian epidermal growth factor receptor substrate 15 (EPS15), which is involved in cell growth regulation. Mammalian epidermal growth factor receptor substrate EPS15R. Drosophila melanogaster (Fruit fly) liquid facets (lqf), an epsin. Yeast VPS27 vacuolar sorting protein, which is required for membrane traffic to the vacuole. ; PDB: 2KDE_A 2KDF_A 1YX6_A 1YX5_A 1YX4_A 1P9C_A 1UEL_B 1P9D_S 2KLZ_A.
Probab=72.56 E-value=1.9 Score=24.24 Aligned_cols=16 Identities=50% Similarity=0.800 Sum_probs=11.1
Q ss_pred CcchHHHHHHHhhhhh
Q 017657 43 QENEDIDRAIALSLLE 58 (368)
Q Consensus 43 ~~~e~~~~aia~sl~e 58 (368)
.|++++.+||++|+.|
T Consensus 2 ~Ed~~L~~Al~~S~~e 17 (18)
T PF02809_consen 2 DEDEDLQRALEMSLEE 17 (18)
T ss_dssp HHHHHHHHHHHHHHHH
T ss_pred chHHHHHHHHHhhhcc
Confidence 3566777788877754
No 22
>PF14835 zf-RING_6: zf-RING of BARD1-type protein; PDB: 1JM7_B.
Probab=71.03 E-value=4.1 Score=30.72 Aligned_cols=46 Identities=17% Similarity=0.372 Sum_probs=22.6
Q ss_pred cccCCCCCCCCCceeeccCCcccccccccccccccccccCccccCC
Q 017657 141 FCCHACHQPITDIEFSTSENRPYHKSCYREHYHPKCDVCKHFIPSN 186 (368)
Q Consensus 141 F~C~~C~~~L~~~~f~~~dg~~yC~~cy~~~f~p~C~~C~~~I~~~ 186 (368)
.+|+.|..-|...--...=...||..|....++..|.+|+.|-...
T Consensus 8 LrCs~C~~~l~~pv~l~~CeH~fCs~Ci~~~~~~~CPvC~~Paw~q 53 (65)
T PF14835_consen 8 LRCSICFDILKEPVCLGGCEHIFCSSCIRDCIGSECPVCHTPAWIQ 53 (65)
T ss_dssp TS-SSS-S--SS-B---SSS--B-TTTGGGGTTTB-SSS--B-S-S
T ss_pred cCCcHHHHHhcCCceeccCccHHHHHHhHHhcCCCCCCcCChHHHH
Confidence 4677777666543233345578999999888889999999887644
No 23
>KOG1280 consensus Uncharacterized conserved protein containing ZZ-type Zn-finger [General function prediction only]
Probab=64.79 E-value=4.3 Score=40.18 Aligned_cols=73 Identities=22% Similarity=0.370 Sum_probs=43.9
Q ss_pred CCccccCCcccccCceEeecCceecCCCcccCCCCCCCCCceeeccCCcccccccccccc--------cccccccCcccc
Q 017657 113 YRICAGCNNEIGHGRFLNCLDVFWHPECFCCHACHQPITDIEFSTSENRPYHKSCYREHY--------HPKCDVCKHFIP 184 (368)
Q Consensus 113 ~~~C~~C~~~I~~g~~v~a~g~~wH~~CF~C~~C~~~L~~~~f~~~dg~~yC~~cy~~~f--------~p~C~~C~~~I~ 184 (368)
...|.+|++.-.. ..|++|-.|. +.-+|..||..-+ +|.|..|...-.
T Consensus 8 ~v~CdgC~k~~~t------------~rrYkCL~C~------------DyDlC~sCyen~~tt~~H~~dHPmqcil~~~df 63 (381)
T KOG1280|consen 8 GVSCDGCGKTAFT------------FRRYKCLRCS------------DYDLCFSCYENGATTPIHDEDHPMQCILSRVDF 63 (381)
T ss_pred Cceecccccccee------------eeeeEeeeec------------chhHHHHHhhcCCCCcccCCCCceeEEeeccce
Confidence 4568899886422 2345555552 1236777776543 556666654332
Q ss_pred CCCCcceEEccccccccccCCCCccCCCCccCCCCCc
Q 017657 185 SNHGGLIEYRAHPFWVQKYCPSHEHDGTPRCCSCERM 221 (368)
Q Consensus 185 ~~~~~~i~~~~~pfw~~~yC~~h~H~~Cf~C~~C~r~ 221 (368)
-+.|.+.++ .|+-+.+|+|-.|++.
T Consensus 64 -----eL~f~Ge~i-------~~y~~qSftCPyC~~~ 88 (381)
T KOG1280|consen 64 -----ELYFGGEPI-------SHYDPQSFTCPYCGIM 88 (381)
T ss_pred -----eeEecCccc-------cccccccccCCccccc
Confidence 244555554 4677889999999974
No 24
>PF14471 DUF4428: Domain of unknown function (DUF4428)
Probab=62.69 E-value=4.8 Score=28.82 Aligned_cols=30 Identities=23% Similarity=0.678 Sum_probs=22.2
Q ss_pred ccCCCCCcCCCCCceEEccCCcccccchhhhh
Q 017657 214 RCCSCERMEPQDTAYVALDDGRKLCLECLDSA 245 (368)
Q Consensus 214 ~C~~C~r~l~~~~~f~~~~dg~~~C~~C~~~~ 245 (368)
.|..|++.+..-.++ .+.|| .+|..|+.++
T Consensus 1 ~C~iCg~kigl~~~~-k~~DG-~iC~~C~~Kl 30 (51)
T PF14471_consen 1 KCAICGKKIGLFKRF-KIKDG-YICKDCLKKL 30 (51)
T ss_pred CCCccccccccccce-eccCc-cchHHHHHHh
Confidence 488898866544443 46788 7999999885
No 25
>PF01421 Reprolysin: Reprolysin (M12B) family zinc metalloprotease This Prosite motif covers only the active site.; InterPro: IPR001590 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. Metalloproteases are the most diverse of the four main types of protease, with more than 50 families identified to date. In these enzymes, a divalent cation, usually zinc, activates the water molecule. The metal ion is held in place by amino acid ligands, usually three in number. The known metal ligands are His, Glu, Asp or Lys and at least one other residue is required for catalysis, which may play an electrophillic role. Of the known metalloproteases, around half contain an HEXXH motif, which has been shown in crystallographic studies to form part of the metal-binding site []. The HEXXH motif is relatively common, but can be more stringently defined for metalloproteases as 'abXHEbbHbc', where 'a' is most often valine or threonine and forms part of the S1' subsite in thermolysin and neprilysin, 'b' is an uncharged residue, and 'c' a hydrophobic residue. Proline is never found in this site, possibly because it would break the helical structure adopted by this motif in metalloproteases []. This group of metallopeptidases belong to the MEROPS peptidase family M12, subfamily M12B (adamalysin family, clan (MA(M)). The protein fold of the peptidase domain for members of this family resembles that of thermolysin, the type example for clan MA and the predicted active site residues for members of this family and thermolysin occur in the motif HEXXH []. The adamalysins are zinc dependent endopeptidases found in snake venom. There are some mammalian proteins such as P78325 from SWISSPROT, and fertilin Q28472 from SWISSPROT. Fertilin and closely related proteins appear to not have some active site residues and may not be active enzymes. CD156 (also called ADAM8 (3.4.24 from EC) or MS2 human) has been implicated in extravasation of leukocytes. CD molecules are leucocyte antigens on cell surfaces. CD antigens nomenclature is updated at Protein Reviews On The Web (http://prow.nci.nih.gov/). ; GO: 0004222 metalloendopeptidase activity, 0006508 proteolysis; PDB: 2E3X_A 2W15_A 2W14_A 2W13_A 2W12_A 1ND1_A 3K7L_A 2DW2_A 2DW0_B 2DW1_A ....
Probab=60.84 E-value=6 Score=35.77 Aligned_cols=24 Identities=4% Similarity=-0.009 Sum_probs=19.2
Q ss_pred EEEEEecCCcHHHHHHHHhhhccc
Q 017657 344 TAILILYGLPRFVICLALSNVCTR 367 (368)
Q Consensus 344 ~~il~l~glpr~~~~~ilahe~~h 367 (368)
-+|....+-.-+.++.|+|||++|
T Consensus 118 ~~i~~~~~~~~~~~a~~~AHelGH 141 (199)
T PF01421_consen 118 CGIVEDHSRSGLSFAVIIAHELGH 141 (199)
T ss_dssp EEEEE-SSSSHHHHHHHHHHHHHH
T ss_pred CcEeeeccchhHHHHHHHHHHHHH
Confidence 456666667788999999999998
No 26
>PF12773 DZR: Double zinc ribbon
Probab=59.99 E-value=8 Score=26.91 Aligned_cols=18 Identities=22% Similarity=0.587 Sum_probs=8.0
Q ss_pred cccccchhhhhccCCCCC
Q 017657 235 RKLCLECLDSAIMDTNEC 252 (368)
Q Consensus 235 ~~~C~~C~~~~v~~~~~C 252 (368)
..+|..|...+-.+...|
T Consensus 29 ~~~C~~Cg~~~~~~~~fC 46 (50)
T PF12773_consen 29 KKICPNCGAENPPNAKFC 46 (50)
T ss_pred CCCCcCCcCCCcCCcCcc
Confidence 445555554433333333
No 27
>PRK14873 primosome assembly protein PriA; Provisional
Probab=58.01 E-value=7.5 Score=42.29 Aligned_cols=38 Identities=21% Similarity=0.508 Sum_probs=28.0
Q ss_pred ccCCCCCCCCCceeeccCCcccccccccccccccccccCcc
Q 017657 142 CCHACHQPITDIEFSTSENRPYHKSCYREHYHPKCDVCKHF 182 (368)
Q Consensus 142 ~C~~C~~~L~~~~f~~~dg~~yC~~cy~~~f~p~C~~C~~~ 182 (368)
+|..|+.+|. |...++.+.|..|-......+|..|+..
T Consensus 394 ~C~~C~~~L~---~h~~~~~l~Ch~CG~~~~p~~Cp~Cgs~ 431 (665)
T PRK14873 394 RCRHCTGPLG---LPSAGGTPRCRWCGRAAPDWRCPRCGSD 431 (665)
T ss_pred ECCCCCCcee---EecCCCeeECCCCcCCCcCccCCCCcCC
Confidence 6778877774 4445677889999666556689999875
No 28
>PF10083 DUF2321: Uncharacterized protein conserved in bacteria (DUF2321); InterPro: IPR016891 This entry is represented by Bacteriophage 'Lactobacillus prophage Lj928', Orf-Ljo1454. The characteristics of the protein distribution suggest prophage matches in addition to the phage matches. There is currently no experimental data for members of this group or their homologues, nor do they exhibit features indicative of any function.
Probab=57.31 E-value=5.5 Score=35.14 Aligned_cols=55 Identities=16% Similarity=0.356 Sum_probs=37.9
Q ss_pred cccccccccccccccccccCccccCCC--CcceEEccccccccccCCCCccCCCCccCCCCCcCCCCCce
Q 017657 161 RPYHKSCYREHYHPKCDVCKHFIPSNH--GGLIEYRAHPFWVQKYCPSHEHDGTPRCCSCERMEPQDTAY 228 (368)
Q Consensus 161 ~~yC~~cy~~~f~p~C~~C~~~I~~~~--~~~i~~~~~pfw~~~yC~~h~H~~Cf~C~~C~r~l~~~~~f 228 (368)
.-||..|-.+. -..|..|+.+|.|.. +|++.+.. ||+.- .-|..||++.|+....
T Consensus 28 ~~fC~kCG~~t-I~~Cp~C~~~IrG~y~v~gv~~~g~-----------~~~~P-sYC~~CGkpyPWt~~~ 84 (158)
T PF10083_consen 28 EKFCSKCGAKT-ITSCPNCSTPIRGDYHVEGVFGLGG-----------HYEAP-SYCHNCGKPYPWTENA 84 (158)
T ss_pred HHHHHHhhHHH-HHHCcCCCCCCCCceecCCeeeeCC-----------CCCCC-hhHHhCCCCCchHHHH
Confidence 45899997665 568999999999862 35555532 23322 2499999999876543
No 29
>PF13699 DUF4157: Domain of unknown function (DUF4157)
Probab=56.97 E-value=3.5 Score=32.17 Aligned_cols=11 Identities=9% Similarity=-0.149 Sum_probs=9.4
Q ss_pred HHHHHhhhccc
Q 017657 357 ICLALSNVCTR 367 (368)
Q Consensus 357 ~~~ilahe~~h 367 (368)
.-.+||||++|
T Consensus 61 ~~~llaHEl~H 71 (79)
T PF13699_consen 61 GRALLAHELAH 71 (79)
T ss_pred cchhHhHHHHH
Confidence 44799999998
No 30
>PF08219 TOM13: Outer membrane protein TOM13; InterPro: IPR013262 The TOM13 family of proteins are mitochondrial outer membrane proteins that mediate the assembly of beta-barrel proteins [].; GO: 0005741 mitochondrial outer membrane
Probab=56.71 E-value=4.8 Score=31.22 Aligned_cols=32 Identities=9% Similarity=0.038 Sum_probs=19.5
Q ss_pred ccccceEEEEEEecCCcHHHHHHHHhhhcccC
Q 017657 337 LTRRCDVTAILILYGLPRFVICLALSNVCTRR 368 (368)
Q Consensus 337 ~~~~~~v~~il~l~glpr~~~~~ilahe~~h~ 368 (368)
+.+.+.++-+|=.--==.|=||.|+|||+.+|
T Consensus 32 ~~~~~aINL~LPFiNG~MLGFGEl~AhE~~fr 63 (77)
T PF08219_consen 32 ILRSAAINLVLPFINGMMLGFGELFAHEIAFR 63 (77)
T ss_pred HHHHhhhhhhhhhhhhhhHhHHHHHHHHHHHH
Confidence 34555555443222222688999999998764
No 31
>KOG0320 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=56.27 E-value=3.7 Score=37.07 Aligned_cols=48 Identities=19% Similarity=0.508 Sum_probs=37.2
Q ss_pred CCCcccCCCCCCCCCce-eeccCCcccccccccccc--cccccccCccccC
Q 017657 138 PECFCCHACHQPITDIE-FSTSENRPYHKSCYREHY--HPKCDVCKHFIPS 185 (368)
Q Consensus 138 ~~CF~C~~C~~~L~~~~-f~~~dg~~yC~~cy~~~f--~p~C~~C~~~I~~ 185 (368)
..||.|..|-....... +...-|.+||+.|.+... ..+|..|++.|..
T Consensus 129 ~~~~~CPiCl~~~sek~~vsTkCGHvFC~~Cik~alk~~~~CP~C~kkIt~ 179 (187)
T KOG0320|consen 129 EGTYKCPICLDSVSEKVPVSTKCGHVFCSQCIKDALKNTNKCPTCRKKITH 179 (187)
T ss_pred ccccCCCceecchhhccccccccchhHHHHHHHHHHHhCCCCCCcccccch
Confidence 35788888877776544 667889999999987753 5689999998874
No 32
>PF14634 zf-RING_5: zinc-RING finger domain
Probab=56.25 E-value=13 Score=25.33 Aligned_cols=42 Identities=17% Similarity=0.305 Sum_probs=28.8
Q ss_pred cCCCCCcCCCCCceEEccCCcccccchhhhhccCCCCCCcch
Q 017657 215 CCSCERMEPQDTAYVALDDGRKLCLECLDSAIMDTNECQPLY 256 (368)
Q Consensus 215 C~~C~r~l~~~~~f~~~~dg~~~C~~C~~~~v~~~~~C~~c~ 256 (368)
|..|.+.......++.+.=|..+|..|...+......|-.|.
T Consensus 2 C~~C~~~~~~~~~~~l~~CgH~~C~~C~~~~~~~~~~CP~C~ 43 (44)
T PF14634_consen 2 CNICFEKYSEERRPRLTSCGHIFCEKCLKKLKGKSVKCPICR 43 (44)
T ss_pred CcCcCccccCCCCeEEcccCCHHHHHHHHhhcCCCCCCcCCC
Confidence 667776664455667778899999999988653344555543
No 33
>PF14471 DUF4428: Domain of unknown function (DUF4428)
Probab=55.25 E-value=4.5 Score=28.95 Aligned_cols=29 Identities=21% Similarity=0.472 Sum_probs=21.7
Q ss_pred ccCCCCCCCCCce-eeccCCccccccccccc
Q 017657 142 CCHACHQPITDIE-FSTSENRPYHKSCYREH 171 (368)
Q Consensus 142 ~C~~C~~~L~~~~-f~~~dg~~yC~~cy~~~ 171 (368)
.|..|+..++... +-..|| ..|.+|+.+.
T Consensus 1 ~C~iCg~kigl~~~~k~~DG-~iC~~C~~Kl 30 (51)
T PF14471_consen 1 KCAICGKKIGLFKRFKIKDG-YICKDCLKKL 30 (51)
T ss_pred CCCccccccccccceeccCc-cchHHHHHHh
Confidence 4788888887433 667788 6899998765
No 34
>PF11781 RRN7: RNA polymerase I-specific transcription initiation factor Rrn7; InterPro: IPR021752 Rrn7 is a transcription binding factor that associates strongly with both Rrn6 and Rrn11 to form a complex which itself binds the TATA-binding protein and is required for transcription by the core domain of the RNA PolI promoter [],[].
Probab=54.25 E-value=8 Score=25.63 Aligned_cols=25 Identities=20% Similarity=0.367 Sum_probs=17.7
Q ss_pred cccCCCCCCCCCceeeccCCccccccccc
Q 017657 141 FCCHACHQPITDIEFSTSENRPYHKSCYR 169 (368)
Q Consensus 141 F~C~~C~~~L~~~~f~~~dg~~yC~~cy~ 169 (368)
+.|..|+.. .|...||..||..|-.
T Consensus 9 ~~C~~C~~~----~~~~~dG~~yC~~cG~ 33 (36)
T PF11781_consen 9 EPCPVCGSR----WFYSDDGFYYCDRCGH 33 (36)
T ss_pred CcCCCCCCe----EeEccCCEEEhhhCce
Confidence 347777653 5777899999987754
No 35
>TIGR00595 priA primosomal protein N'. All proteins in this family for which functions are known are components of the primosome which is involved in replication, repair, and recombination.This family is based on the phylogenomic analysis of JA Eisen (1999, Ph.D. Thesis, Stanford University).
Probab=53.56 E-value=10 Score=39.73 Aligned_cols=38 Identities=21% Similarity=0.561 Sum_probs=26.6
Q ss_pred ccCCCCCCCCCceeeccCCccccccccccc-ccccccccCcc
Q 017657 142 CCHACHQPITDIEFSTSENRPYHKSCYREH-YHPKCDVCKHF 182 (368)
Q Consensus 142 ~C~~C~~~L~~~~f~~~dg~~yC~~cy~~~-f~p~C~~C~~~ 182 (368)
+|..|+.+|. |...++.+.|..|-.+. ....|..|+..
T Consensus 224 ~C~~C~~~l~---~h~~~~~l~Ch~Cg~~~~~~~~Cp~C~s~ 262 (505)
T TIGR00595 224 CCPNCDVSLT---YHKKEGKLRCHYCGYQEPIPKTCPQCGSE 262 (505)
T ss_pred CCCCCCCceE---EecCCCeEEcCCCcCcCCCCCCCCCCCCC
Confidence 5677776663 55567788899885543 45689999764
No 36
>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=53.56 E-value=9.4 Score=30.53 Aligned_cols=30 Identities=20% Similarity=0.456 Sum_probs=20.9
Q ss_pred CCCccccCCcccccCceEee-cCceecCCCc
Q 017657 112 GYRICAGCNNEIGHGRFLNC-LDVFWHPECF 141 (368)
Q Consensus 112 ~~~~C~~C~~~I~~g~~v~a-~g~~wH~~CF 141 (368)
....|..|+++|+.+.++.. .|..+|..|+
T Consensus 77 ~~~~C~vC~k~l~~~~f~~~p~~~v~H~~C~ 107 (109)
T PF10367_consen 77 ESTKCSVCGKPLGNSVFVVFPCGHVVHYSCI 107 (109)
T ss_pred CCCCccCcCCcCCCceEEEeCCCeEEecccc
Confidence 35679999999966555544 3566787775
No 37
>PF05572 Peptidase_M43: Pregnancy-associated plasma protein-A; InterPro: IPR008754 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. Metalloproteases are the most diverse of the four main types of protease, with more than 50 families identified to date. In these enzymes, a divalent cation, usually zinc, activates the water molecule. The metal ion is held in place by amino acid ligands, usually three in number. The known metal ligands are His, Glu, Asp or Lys and at least one other residue is required for catalysis, which may play an electrophillic role. Of the known metalloproteases, around half contain an HEXXH motif, which has been shown in crystallographic studies to form part of the metal-binding site []. The HEXXH motif is relatively common, but can be more stringently defined for metalloproteases as 'abXHEbbHbc', where 'a' is most often valine or threonine and forms part of the S1' subsite in thermolysin and neprilysin, 'b' is an uncharged residue, and 'c' a hydrophobic residue. Proline is never found in this site, possibly because it would break the helical structure adopted by this motif in metalloproteases []. This group of metallopeptidases belong to the MEROPS peptidase M43 (cytophagalysin family, clan MA(M)), subfamily M43. The predicted active site residues for members of this family and thermolysin, the type example for clan MA, occur in the motif HEXXH. The type example of this family is the pregnancy-associated plasma protein A (PAPP-A), which cleaves insulin-like growth factor (IGF) binding protein-4 (IGFBP-4), causing a dramatic reduction in its affinity for IGF-I and -II. Through this mechanism, PAPP-A is a regulator of IGF bioactivity in several systems, including the Homo sapiens ovary and the cardiovascular system [, , , ].; PDB: 3LUN_A 3LUM_B 2J83_A 2CKI_A.
Probab=53.34 E-value=5.5 Score=35.04 Aligned_cols=45 Identities=13% Similarity=0.181 Sum_probs=25.0
Q ss_pred CCCcceeeeeccccccccceEEEEEEecC-C----cHHHHHHHHhhhccc
Q 017657 323 PGNQARNIITEPYKLTRRCDVTAILILYG-L----PRFVICLALSNVCTR 367 (368)
Q Consensus 323 ~~~~~~~~~~~~~~~~~~~~v~~il~l~g-l----pr~~~~~ilahe~~h 367 (368)
++..+.+.+.-|.-......+..|++.+. | +..-.|.+|+||++|
T Consensus 30 g~~~~~G~A~~P~~~~~~~~~~~vv~~~~~l~~~~~~~~~g~TltHEvGH 79 (154)
T PF05572_consen 30 GGTSILGYAYFPWSGMSDNGTDGVVINYRYLGGNNSQYNFGKTLTHEVGH 79 (154)
T ss_dssp TS-EESEEE--TTS-GGG-SEEEEGGGSSSSTT--TTS-SSHHHHHHHHH
T ss_pred CCCCCCeEEeCCCCCCCCCCCCEEEEcCcccCCCCCccccccchhhhhhh
Confidence 44455677777765333445556655432 2 345668999999998
No 38
>KOG0320 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=52.78 E-value=6.6 Score=35.49 Aligned_cols=50 Identities=24% Similarity=0.533 Sum_probs=36.8
Q ss_pred CCCCccCCCCCcCCCCCceEEccCCcccccchhhhhccCCCCCCcchHhHH
Q 017657 210 DGTPRCCSCERMEPQDTAYVALDDGRKLCLECLDSAIMDTNECQPLYLDIQ 260 (368)
Q Consensus 210 ~~Cf~C~~C~r~l~~~~~f~~~~dg~~~C~~C~~~~v~~~~~C~~c~~~I~ 260 (368)
..||.|-.|=........+ .-+=|.++|.+|.+.++.-+..|--|.+.|.
T Consensus 129 ~~~~~CPiCl~~~sek~~v-sTkCGHvFC~~Cik~alk~~~~CP~C~kkIt 178 (187)
T KOG0320|consen 129 EGTYKCPICLDSVSEKVPV-STKCGHVFCSQCIKDALKNTNKCPTCRKKIT 178 (187)
T ss_pred ccccCCCceecchhhcccc-ccccchhHHHHHHHHHHHhCCCCCCcccccc
Confidence 4568888886433222222 2357899999999999999999999997664
No 39
>cd04267 ZnMc_ADAM_like Zinc-dependent metalloprotease, ADAM_like or reprolysin_like subgroup. The adamalysin_like or ADAM family of metalloproteases contains proteolytic domains from snake venoms, proteases from the mammalian reproductive tract, and the tumor necrosis factor alpha convertase, TACE. ADAMs (A Disintegrin And Metalloprotease) are glycoproteins, which play roles in cell signaling, cell fusion, and cell-cell interactions.
Probab=52.77 E-value=6.4 Score=35.28 Aligned_cols=24 Identities=8% Similarity=0.210 Sum_probs=17.0
Q ss_pred EEEEEecCCcHHHHHHHHhhhcccC
Q 017657 344 TAILILYGLPRFVICLALSNVCTRR 368 (368)
Q Consensus 344 ~~il~l~glpr~~~~~ilahe~~h~ 368 (368)
.+|....+- .+..+.|+|||++|.
T Consensus 121 ~~v~~~~~~-~~~~~~~~aHElGH~ 144 (192)
T cd04267 121 VGVVEDTGF-TLLTALTMAHELGHN 144 (192)
T ss_pred eEEEecCCc-ceeehhhhhhhHHhh
Confidence 355544443 577889999999993
No 40
>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=52.76 E-value=10 Score=30.34 Aligned_cols=12 Identities=33% Similarity=0.778 Sum_probs=6.7
Q ss_pred ccccccCccccC
Q 017657 174 PKCDVCKHFIPS 185 (368)
Q Consensus 174 p~C~~C~~~I~~ 185 (368)
..|.+|+++|..
T Consensus 79 ~~C~vC~k~l~~ 90 (109)
T PF10367_consen 79 TKCSVCGKPLGN 90 (109)
T ss_pred CCccCcCCcCCC
Confidence 456666665553
No 41
>COG4357 Zinc finger domain containing protein (CHY type) [Function unknown]
Probab=52.10 E-value=2.4 Score=34.38 Aligned_cols=50 Identities=22% Similarity=0.513 Sum_probs=31.9
Q ss_pred cccCCcccccCceEeecCceecCCCcccCCCCCCCCCceeeccCCccccc
Q 017657 116 CAGCNNEIGHGRFLNCLDVFWHPECFCCHACHQPITDIEFSTSENRPYHK 165 (368)
Q Consensus 116 C~~C~~~I~~g~~v~a~g~~wH~~CF~C~~C~~~L~~~~f~~~dg~~yC~ 165 (368)
|..|...+..-.+....-..+++.+-.|.+|...|+-.+|...+.=|||.
T Consensus 38 Cy~CHdel~~Hpf~p~~~~~~~~~~iiCGvC~~~LT~~EY~~~~~Cp~C~ 87 (105)
T COG4357 38 CYHCHDELEDHPFEPWGLQEFNPKAIICGVCRKLLTRAEYGMCGSCPYCQ 87 (105)
T ss_pred HHHHHhHHhcCCCccCChhhcCCccEEhhhhhhhhhHHHHhhcCCCCCcC
Confidence 56666666444455555566788888888888888766666555444443
No 42
>cd04270 ZnMc_TACE_like Zinc-dependent metalloprotease; TACE_like subfamily. TACE, the tumor-necrosis factor-alpha converting enzyme, releases soluble TNF-alpha from transmembrane pro-TNF-alpha.
Probab=51.41 E-value=7 Score=36.96 Aligned_cols=20 Identities=20% Similarity=0.135 Sum_probs=15.6
Q ss_pred ecCC--cHHHHHHHHhhhcccC
Q 017657 349 LYGL--PRFVICLALSNVCTRR 368 (368)
Q Consensus 349 l~gl--pr~~~~~ilahe~~h~ 368 (368)
.||- |..++..++||||+|.
T Consensus 157 ~~~~~~~~~~~a~t~AHElGHn 178 (244)
T cd04270 157 NYGKRVPTKESDLVTAHELGHN 178 (244)
T ss_pred ccCCccchhHHHHHHHHHHHHh
Confidence 3554 6677889999999993
No 43
>PF13240 zinc_ribbon_2: zinc-ribbon domain
Probab=51.20 E-value=9.7 Score=22.62 Aligned_cols=8 Identities=50% Similarity=1.306 Sum_probs=4.4
Q ss_pred cccCCccc
Q 017657 116 CAGCNNEI 123 (368)
Q Consensus 116 C~~C~~~I 123 (368)
|..|+..|
T Consensus 2 Cp~CG~~~ 9 (23)
T PF13240_consen 2 CPNCGAEI 9 (23)
T ss_pred CcccCCCC
Confidence 55555555
No 44
>PRK14559 putative protein serine/threonine phosphatase; Provisional
Probab=50.92 E-value=15 Score=39.90 Aligned_cols=9 Identities=44% Similarity=0.914 Sum_probs=6.0
Q ss_pred ccccCCccc
Q 017657 115 ICAGCNNEI 123 (368)
Q Consensus 115 ~C~~C~~~I 123 (368)
+|..|+..+
T Consensus 3 ~Cp~Cg~~n 11 (645)
T PRK14559 3 ICPQCQFEN 11 (645)
T ss_pred cCCCCCCcC
Confidence 577777665
No 45
>KOG1813 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=50.61 E-value=8.6 Score=37.41 Aligned_cols=45 Identities=22% Similarity=0.434 Sum_probs=33.3
Q ss_pred CcccCCCCCCCCCceeeccCCcccccccccccc--cccccccCccccC
Q 017657 140 CFCCHACHQPITDIEFSTSENRPYHKSCYREHY--HPKCDVCKHFIPS 185 (368)
Q Consensus 140 CF~C~~C~~~L~~~~f~~~dg~~yC~~cy~~~f--~p~C~~C~~~I~~ 185 (368)
=|.|..|++.... .....-+..+|+.|....+ +++|..|++.+.+
T Consensus 241 Pf~c~icr~~f~~-pVvt~c~h~fc~~ca~~~~qk~~~c~vC~~~t~g 287 (313)
T KOG1813|consen 241 PFKCFICRKYFYR-PVVTKCGHYFCEVCALKPYQKGEKCYVCSQQTHG 287 (313)
T ss_pred Ccccccccccccc-chhhcCCceeehhhhccccccCCcceeccccccc
Confidence 4788888877654 2334567789999987765 4699999998876
No 46
>PF08394 Arc_trans_TRASH: Archaeal TRASH domain; InterPro: IPR013603 This region is found in the C terminus of a number of archaeal transcriptional regulators. It is thought to function as a metal-sensing regulatory module [].
Probab=50.09 E-value=10 Score=25.42 Aligned_cols=29 Identities=31% Similarity=0.804 Sum_probs=19.5
Q ss_pred cccCCcccccC--ceEeecCceecCCCcccCCCCC
Q 017657 116 CAGCNNEIGHG--RFLNCLDVFWHPECFCCHACHQ 148 (368)
Q Consensus 116 C~~C~~~I~~g--~~v~a~g~~wH~~CF~C~~C~~ 148 (368)
|.-|+++| .| .++...++.|+ |.|..|..
T Consensus 1 Cd~CG~~I-~~eP~~~k~~~~~y~---fCC~tC~~ 31 (37)
T PF08394_consen 1 CDYCGGEI-TGEPIVVKIGNKVYY---FCCPTCLS 31 (37)
T ss_pred CCccCCcc-cCCEEEEEECCeEEE---EECHHHHH
Confidence 77899998 44 34567888887 45555543
No 47
>PF09943 DUF2175: Uncharacterized protein conserved in archaea (DUF2175); InterPro: IPR018686 This family of various hypothetical archaeal proteins has no known function.
Probab=49.31 E-value=5.3 Score=32.80 Aligned_cols=28 Identities=29% Similarity=0.470 Sum_probs=15.6
Q ss_pred ccccCCcccccCceEeec-CceecCCCcc
Q 017657 115 ICAGCNNEIGHGRFLNCL-DVFWHPECFC 142 (368)
Q Consensus 115 ~C~~C~~~I~~g~~v~a~-g~~wH~~CF~ 142 (368)
.|..|+++|+.|+..++. +..-|-.||+
T Consensus 4 kC~iCg~~I~~gqlFTF~~kG~VH~~C~~ 32 (101)
T PF09943_consen 4 KCYICGKPIYEGQLFTFTKKGPVHYECFR 32 (101)
T ss_pred EEEecCCeeeecceEEEecCCcEeHHHHH
Confidence 466666666666655543 2344555553
No 48
>COG2888 Predicted Zn-ribbon RNA-binding protein with a function in translation [Translation, ribosomal structure and biogenesis]
Probab=49.13 E-value=6.7 Score=29.03 Aligned_cols=27 Identities=26% Similarity=0.492 Sum_probs=14.5
Q ss_pred ccCCCCCcCCCCCceEEccCCcccccchhhhh
Q 017657 214 RCCSCERMEPQDTAYVALDDGRKLCLECLDSA 245 (368)
Q Consensus 214 ~C~~C~r~l~~~~~f~~~~dg~~~C~~C~~~~ 245 (368)
+|.+|++.+..+..++ .+.|..|-+..
T Consensus 11 ~CtSCg~~i~p~e~~v-----~F~CPnCGe~~ 37 (61)
T COG2888 11 VCTSCGREIAPGETAV-----KFPCPNCGEVE 37 (61)
T ss_pred eeccCCCEeccCCcee-----EeeCCCCCcee
Confidence 5666666554455544 34566665443
No 49
>PF01447 Peptidase_M4: Thermolysin metallopeptidase, catalytic domain This Prosite motif covers only the active site. This is family M4 in the peptidase classification. ; InterPro: IPR013856 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. Metalloproteases are the most diverse of the four main types of protease, with more than 50 families identified to date. In these enzymes, a divalent cation, usually zinc, activates the water molecule. The metal ion is held in place by amino acid ligands, usually three in number. The known metal ligands are His, Glu, Asp or Lys and at least one other residue is required for catalysis, which may play an electrophillic role. Of the known metalloproteases, around half contain an HEXXH motif, which has been shown in crystallographic studies to form part of the metal-binding site []. The HEXXH motif is relatively common, but can be more stringently defined for metalloproteases as 'abXHEbbHbc', where 'a' is most often valine or threonine and forms part of the S1' subsite in thermolysin and neprilysin, 'b' is an uncharged residue, and 'c' a hydrophobic residue. Proline is never found in this site, possibly because it would break the helical structure adopted by this motif in metalloproteases []. This group of metallopeptidases that belong to the MEROPS peptidase family M4 (thermolysin family, clan MA(E)). The protein fold of the peptidase domain of thermolysin, is the type example for members of the clan MA. The thermolysin family is composed only of secreted eubacterial endopeptidases. The zinc-binding residues are H-142, H-146 and E-166, with E-143 acting as the catalytic residue. Thermolysin also contains 4 calcium-binding sites, which contribute to its unusual thermostability. The family also includes enzymes from a number of pathogens, including Legionella and Listeria, and the protein pseudolysin, all with a substrate specificity for an aromatic residue in the P1' position. Three-dimensional structure analysis has shown that the enzymes undergo a hinge-bend motion during catalysis. Pseudolysin has a broader specificity, acting on large molecules such as elastin and collagen, possibly due to its wider active site cleft []. This entry represents a domain found in peptidase M4 family members.; GO: 0004222 metalloendopeptidase activity; PDB: 3NQX_A 3NQZ_B 3NQY_B 1BQB_A 1U4G_A 1EZM_A 3DBK_A 1ESP_A 1NPC_A 1LND_E ....
Probab=46.86 E-value=6.5 Score=34.55 Aligned_cols=10 Identities=10% Similarity=-0.051 Sum_probs=8.8
Q ss_pred HHHHhhhccc
Q 017657 358 CLALSNVCTR 367 (368)
Q Consensus 358 ~~ilahe~~h 367 (368)
=-|+||||+|
T Consensus 136 lDVvaHEltH 145 (150)
T PF01447_consen 136 LDVVAHELTH 145 (150)
T ss_dssp HHHHHHHHHH
T ss_pred cceeeecccc
Confidence 3699999999
No 50
>PF06114 DUF955: Domain of unknown function (DUF955); InterPro: IPR010359 This is a family of bacterial and viral proteins with undetermined function. A conserved H-E-X-X-H motif is suggestive of a catalytic active site and shows similarity to IPR001915 from INTERPRO.; PDB: 3DTE_A 3DTK_A 3DTI_A.
Probab=46.85 E-value=14 Score=29.37 Aligned_cols=24 Identities=17% Similarity=0.048 Sum_probs=20.0
Q ss_pred EEEEEecCCcHHHHHHHHhhhccc
Q 017657 344 TAILILYGLPRFVICLALSNVCTR 367 (368)
Q Consensus 344 ~~il~l~glpr~~~~~ilahe~~h 367 (368)
.-|+|=..++-.-.-.+||||++|
T Consensus 29 ~~I~in~~~~~~~~~f~laHELgH 52 (122)
T PF06114_consen 29 PIIFINSNLSPERQRFTLAHELGH 52 (122)
T ss_dssp TEEEEESSS-HHHHHHHHHHHHHH
T ss_pred CEEEECCCCCHHHHHHHHHHHHHH
Confidence 457777889999999999999998
No 51
>PF01863 DUF45: Protein of unknown function DUF45; InterPro: IPR002725 Members of this family are found in some archaebacteria, as well as Helicobacter pylori. The proteins are 190-240 amino acids long, with the C terminus being the most conserved region, containing three conserved histidines.
Probab=45.50 E-value=13 Score=33.57 Aligned_cols=26 Identities=19% Similarity=0.062 Sum_probs=21.5
Q ss_pred eEEEEEEecCCcHHHHHHHHhhhccc
Q 017657 342 DVTAILILYGLPRFVICLALSNVCTR 367 (368)
Q Consensus 342 ~v~~il~l~glpr~~~~~ilahe~~h 367 (368)
.++-=+-|.-+|.-+--+|++|||+|
T Consensus 149 ~I~ln~~L~~~P~~~idYVvvHEL~H 174 (205)
T PF01863_consen 149 NITLNWRLVMAPPEVIDYVVVHELCH 174 (205)
T ss_pred cEEeecccccCCccHHHHHHHHHHHH
Confidence 44444567779999999999999999
No 52
>PF01435 Peptidase_M48: Peptidase family M48 This is family M48 in the peptidase classification. ; InterPro: IPR001915 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. Metalloproteases are the most diverse of the four main types of protease, with more than 50 families identified to date. In these enzymes, a divalent cation, usually zinc, activates the water molecule. The metal ion is held in place by amino acid ligands, usually three in number. The known metal ligands are His, Glu, Asp or Lys and at least one other residue is required for catalysis, which may play an electrophillic role. Of the known metalloproteases, around half contain an HEXXH motif, which has been shown in crystallographic studies to form part of the metal-binding site []. The HEXXH motif is relatively common, but can be more stringently defined for metalloproteases as 'abXHEbbHbc', where 'a' is most often valine or threonine and forms part of the S1' subsite in thermolysin and neprilysin, 'b' is an uncharged residue, and 'c' a hydrophobic residue. Proline is never found in this site, possibly because it would break the helical structure adopted by this motif in metalloproteases []. This group of metallopeptidases belong to MEROPS peptidase family M48 (Ste24 endopeptidase family, clan M-); members of both subfamily are represented. The members of this set of proteins are mostly described as probable protease htpX homologue (3.4.24 from EC) or CAAX prenyl protease 1, which proteolytically removes the C-terminal three residues of farnesylated proteins. They are integral membrane proteins associated with the endoplasmic reticulum and Golgi, binding one zinc ion per subunit. In Saccharomyces cerevisiae (Baker's yeast) Ste24p is required for the first NH2-terminal proteolytic processing event within the a-factor precursor, which takes place after COOH-terminal CAAX modification is complete. The Ste24p contains multiple predicted membrane spans, a zinc metalloprotease motif (HEXXH), and a COOH-terminal ER retrieval signal (KKXX). The HEXXH protease motif is critical for Ste24p activity, since Ste24p fails to function when conserved residues within this motif are mutated. The Ste24p homologues occur in a diverse group of organisms, including Escherichia coli, Schizosaccharomyces pombe (Fission yeast), Haemophilus influenzae, and Homo sapiens (Human), which indicates that the gene is highly conserved throughout evolution. Ste24p and the proteins related to it define a subfamily of proteins that are likely to function as intracellular, membrane-associated zinc metalloproteases []. HtpX is a zinc-dependent endoprotease member of the membrane-localized proteolytic system in E. coli, which participates in the proteolytic quality control of membrane proteins in conjunction with FtsH, a membrane-bound and ATP-dependent protease. Biochemical characterisation revealed that HtpX undergoes self-degradation upon cell disruption or membrane solubilization. It can also degraded casein and cleaves solubilized membrane proteins, for example, SecY []. Expression of HtpX in the plasma membrane is under the control of CpxR, with the metalloproteinase active site of HtpX located on the cytosolic side of the membrane. This suggests a potential role for HtpX in the response to mis-folded proteins [].; GO: 0004222 metalloendopeptidase activity, 0006508 proteolysis, 0016020 membrane; PDB: 3CQB_A 3C37_B.
Probab=45.08 E-value=7.2 Score=35.38 Aligned_cols=23 Identities=17% Similarity=0.254 Sum_probs=15.4
Q ss_pred EEEEecCCcHHH----HHHHHhhhccc
Q 017657 345 AILILYGLPRFV----ICLALSNVCTR 367 (368)
Q Consensus 345 ~il~l~glpr~~----~~~ilahe~~h 367 (368)
.|+|-.||=..+ --+|||||++|
T Consensus 73 ~I~v~~~ll~~~~~~el~aVlaHElgH 99 (226)
T PF01435_consen 73 RIVVTSGLLESLSEDELAAVLAHELGH 99 (226)
T ss_dssp EEEEEHHHHHHSSHHHHHHHHHHHHHH
T ss_pred EEEEeChhhhcccHHHHHHHHHHHHHH
Confidence 455555554433 34899999998
No 53
>PF14446 Prok-RING_1: Prokaryotic RING finger family 1
Probab=44.36 E-value=14 Score=26.88 Aligned_cols=30 Identities=17% Similarity=0.439 Sum_probs=17.0
Q ss_pred CCCccccCCcccccC-ceEe--ecCceecCCCc
Q 017657 112 GYRICAGCNNEIGHG-RFLN--CLDVFWHPECF 141 (368)
Q Consensus 112 ~~~~C~~C~~~I~~g-~~v~--a~g~~wH~~CF 141 (368)
...+|..|+++|..+ .+|. .-+..||.+|.
T Consensus 4 ~~~~C~~Cg~~~~~~dDiVvCp~CgapyHR~C~ 36 (54)
T PF14446_consen 4 EGCKCPVCGKKFKDGDDIVVCPECGAPYHRDCW 36 (54)
T ss_pred cCccChhhCCcccCCCCEEECCCCCCcccHHHH
Confidence 356899999998533 4432 12344444443
No 54
>smart00504 Ubox Modified RING finger domain. Modified RING finger domain, without the full complement of Zn2+-binding ligands. Probable involvement in E2-dependent ubiquitination.
Probab=44.31 E-value=19 Score=25.84 Aligned_cols=42 Identities=10% Similarity=0.033 Sum_probs=30.3
Q ss_pred CccCCCCCcCCCCCceEEccCCcccccchhhhhccCCCCCCcchH
Q 017657 213 PRCCSCERMEPQDTAYVALDDGRKLCLECLDSAIMDTNECQPLYL 257 (368)
Q Consensus 213 f~C~~C~r~l~~~~~f~~~~dg~~~C~~C~~~~v~~~~~C~~c~~ 257 (368)
|.|..|+..+. .. +....|+.||+.|..+.+.....|--|..
T Consensus 2 ~~Cpi~~~~~~--~P-v~~~~G~v~~~~~i~~~~~~~~~cP~~~~ 43 (63)
T smart00504 2 FLCPISLEVMK--DP-VILPSGQTYERRAIEKWLLSHGTDPVTGQ 43 (63)
T ss_pred cCCcCCCCcCC--CC-EECCCCCEEeHHHHHHHHHHCCCCCCCcC
Confidence 57999998763 34 44678999999999987665555655553
No 55
>PF13920 zf-C3HC4_3: Zinc finger, C3HC4 type (RING finger); PDB: 2YHN_B 2YHO_G 3T6P_A 2CSY_A 2VJE_B 2VJF_B 2HDP_B 2EA5_A 2ECG_A 3EB5_A ....
Probab=44.14 E-value=13 Score=25.85 Aligned_cols=42 Identities=19% Similarity=0.480 Sum_probs=28.1
Q ss_pred ccCCCCCCCCCceeeccCCcc-ccccccccc--ccccccccCcccc
Q 017657 142 CCHACHQPITDIEFSTSENRP-YHKSCYREH--YHPKCDVCKHFIP 184 (368)
Q Consensus 142 ~C~~C~~~L~~~~f~~~dg~~-yC~~cy~~~--f~p~C~~C~~~I~ 184 (368)
.|..|....... .+..=|.. +|..|+.+. ...+|..|.++|.
T Consensus 4 ~C~iC~~~~~~~-~~~pCgH~~~C~~C~~~~~~~~~~CP~Cr~~i~ 48 (50)
T PF13920_consen 4 ECPICFENPRDV-VLLPCGHLCFCEECAERLLKRKKKCPICRQPIE 48 (50)
T ss_dssp B-TTTSSSBSSE-EEETTCEEEEEHHHHHHHHHTTSBBTTTTBB-S
T ss_pred CCccCCccCCce-EEeCCCChHHHHHHhHHhcccCCCCCcCChhhc
Confidence 566776665543 33345666 999998776 4678999999886
No 56
>PF06689 zf-C4_ClpX: ClpX C4-type zinc finger; InterPro: IPR010603 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 ClpX heat shock protein of Escherichia coli is a member of the universally conserved Hsp100 family of proteins, and possesses a putative zinc finger motif of the C4 type []. This presumed zinc binding domain (ZBD) is found at the N terminus of the ClpX protein. ClpX is an ATPase which functions both as a substrate specificity component of the ClpXP protease and as a molecular chaperone. ZBD is a member of the treble clef zinc finger family, a motif known to facilitate protein-ligand, protein-DNA, and protein-protein interactions and forms a constitutive dimer that is essential for the degradation of some, but not all, ClpX substrates []. More information about these proteins can be found at Protein of the Month: Zinc Fingers [].; GO: 0008270 zinc ion binding, 0016887 ATPase activity, 0046983 protein dimerization activity, 0006200 ATP catabolic process, 0019538 protein metabolic process; PDB: 2DS8_B 2DS6_B 2DS5_A 1OVX_A 2DS7_A.
Probab=44.08 E-value=19 Score=24.40 Aligned_cols=31 Identities=29% Similarity=0.676 Sum_probs=20.7
Q ss_pred ccCCCCCcCCCCCceEEccCCcccccchhhh
Q 017657 214 RCCSCERMEPQDTAYVALDDGRKLCLECLDS 244 (368)
Q Consensus 214 ~C~~C~r~l~~~~~f~~~~dg~~~C~~C~~~ 244 (368)
+|+-|+|......+.+.-.++-..|..|...
T Consensus 3 ~CSFCgr~~~~v~~li~g~~~~~IC~~Cv~~ 33 (41)
T PF06689_consen 3 RCSFCGRPESEVGRLISGPNGAYICDECVEQ 33 (41)
T ss_dssp B-TTT--BTTTSSSEEEES-SEEEEHHHHHH
T ss_pred CccCCCCCHHHHhceecCCCCcEECHHHHHH
Confidence 5999999887666766555578899999875
No 57
>KOG2199 consensus Signal transducing adaptor protein STAM/STAM2 [Signal transduction mechanisms]
Probab=43.91 E-value=13 Score=37.72 Aligned_cols=26 Identities=42% Similarity=0.542 Sum_probs=22.1
Q ss_pred CCCCcchHHHHHHHhhhhhhhccCCC
Q 017657 40 PLEQENEDIDRAIALSLLEENQKGEN 65 (368)
Q Consensus 40 ~~~~~~e~~~~aia~sl~e~~~~~~~ 65 (368)
.++.|.|||..||++||.|..+.++.
T Consensus 161 ~~k~EeEdiaKAi~lSL~E~~~Q~k~ 186 (462)
T KOG2199|consen 161 SSKQEEEDIAKAIELSLKEQEKQKKL 186 (462)
T ss_pred cccccHHHHHHHHHhhHHHHhhchhh
Confidence 34789999999999999998877664
No 58
>PF00645 zf-PARP: Poly(ADP-ribose) polymerase and DNA-Ligase Zn-finger region; InterPro: IPR001510 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 PARP (Poly(ADP) polymerase) type zinc finger domains. NAD(+) ADP-ribosyltransferase(2.4.2.30 from EC) [, ] is a eukaryotic enzyme that catalyses the covalent attachment of ADP-ribose units from NAD(+) to various nuclear acceptor proteins. This post-translational modification of nuclear proteins is dependent on DNA. It appears to be involved in the regulation of various important cellular processes such as differentiation, proliferation and tumour transformation as well as in the regulation of the molecular events involved in the recovery of the cell from DNA damage. Structurally, NAD(+) ADP-ribosyltransferase consists of three distinct domains: an N-terminal zinc-dependent DNA-binding domain, a central automodification domain and a C-terminal NAD-binding domain. The DNA-binding region contains a pair of PARP-type zinc finger domains which have been shown to bind DNA in a zinc-dependent manner. The PARP-type zinc finger domains seem to bind specifically to single-stranded DNA and to act as a DNA nick sensor. DNA ligase III [] contains, in its N-terminal section, a single copy of a zinc finger highly similar to those of PARP. More information about these proteins can be found at Protein of the Month: Zinc Fingers [].; GO: 0003677 DNA binding, 0008270 zinc ion binding; PDB: 1UW0_A 3OD8_D 3ODA_A 4AV1_A 2DMJ_A 4DQY_D 2L30_A 2CS2_A 2L31_A 3ODE_B ....
Probab=43.41 E-value=9.3 Score=29.55 Aligned_cols=18 Identities=33% Similarity=0.896 Sum_probs=13.2
Q ss_pred CCCCccccCCcccccCce
Q 017657 111 EGYRICAGCNNEIGHGRF 128 (368)
Q Consensus 111 ~~~~~C~~C~~~I~~g~~ 128 (368)
.+-..|.+|++.|..|..
T Consensus 5 s~Ra~Ck~C~~~I~kg~l 22 (82)
T PF00645_consen 5 SGRAKCKGCKKKIAKGEL 22 (82)
T ss_dssp SSTEBETTTSCBE-TTSE
T ss_pred CCCccCcccCCcCCCCCE
Confidence 456789999999976643
No 59
>COG1451 Predicted metal-dependent hydrolase [General function prediction only]
Probab=42.26 E-value=10 Score=35.58 Aligned_cols=26 Identities=15% Similarity=0.051 Sum_probs=21.9
Q ss_pred eEEEEEEecCCcHHHHHHHHhhhccc
Q 017657 342 DVTAILILYGLPRFVICLALSNVCTR 367 (368)
Q Consensus 342 ~v~~il~l~glpr~~~~~ilahe~~h 367 (368)
+++==+.|-.+|.-+..+|++|||+|
T Consensus 160 ~i~~~~~l~~~p~~~i~YVvvHELaH 185 (223)
T COG1451 160 EIRFNWRLVMAPEEVIDYVVVHELAH 185 (223)
T ss_pred cEEeehhhhcCCHHHHHHHHHHHHHH
Confidence 44445667899999999999999998
No 60
>COG2191 Formylmethanofuran dehydrogenase subunit E [Energy production and conversion]
Probab=41.91 E-value=13 Score=34.40 Aligned_cols=16 Identities=19% Similarity=0.443 Sum_probs=11.2
Q ss_pred eccCCccccccccccc
Q 017657 156 STSENRPYHKSCYREH 171 (368)
Q Consensus 156 ~~~dg~~yC~~cy~~~ 171 (368)
...+|++.|+.||.+.
T Consensus 188 ~~~ng~~vC~~C~~~~ 203 (206)
T COG2191 188 VVLNGKPVCKPCAEKK 203 (206)
T ss_pred hhcCCceecccccccc
Confidence 3457788888887643
No 61
>PF10235 Cript: Microtubule-associated protein CRIPT; InterPro: IPR019367 The CRIPT protein is a cytoskeletal protein involved in microtubule production. This C-terminal domain is essential for binding to the PDZ3 domain of the SAP90 protein, one of a super-family of PDZ-containing proteins that play an important role in coupling the membrane ion channels with their signalling partners [].
Probab=41.18 E-value=16 Score=29.38 Aligned_cols=24 Identities=21% Similarity=0.515 Sum_probs=17.1
Q ss_pred CcccccccccccccccccccCccccC
Q 017657 160 NRPYHKSCYREHYHPKCDVCKHFIPS 185 (368)
Q Consensus 160 g~~yC~~cy~~~f~p~C~~C~~~I~~ 185 (368)
|.-||..|..+ .-.|.-|++.|.+
T Consensus 58 g~~YCq~CAYk--kGiCamCGKki~d 81 (90)
T PF10235_consen 58 GAKYCQTCAYK--KGICAMCGKKILD 81 (90)
T ss_pred CCccChhhhcc--cCcccccCCeecc
Confidence 55688888554 3478888888864
No 62
>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=39.67 E-value=13 Score=24.10 Aligned_cols=39 Identities=15% Similarity=0.502 Sum_probs=17.2
Q ss_pred cCCCCCCCCCceeeccCCcccccccccccc---cccccccCc
Q 017657 143 CHACHQPITDIEFSTSENRPYHKSCYREHY---HPKCDVCKH 181 (368)
Q Consensus 143 C~~C~~~L~~~~f~~~dg~~yC~~cy~~~f---~p~C~~C~~ 181 (368)
|..|...+........=|..||..|..+.+ ..+|..|+.
T Consensus 2 C~iC~~~~~~~~~~~~C~H~~c~~C~~~~~~~~~~~Cp~C~~ 43 (45)
T cd00162 2 CPICLEEFREPVVLLPCGHVFCRSCIDKWLKSGKNTCPLCRT 43 (45)
T ss_pred CCcCchhhhCceEecCCCChhcHHHHHHHHHhCcCCCCCCCC
Confidence 445555442222222244556666654332 234555544
No 63
>PF06677 Auto_anti-p27: Sjogren's syndrome/scleroderma autoantigen 1 (Autoantigen p27); InterPro: IPR009563 The proteins in this entry are functionally uncharacterised and include several proteins that characterise Sjogren's syndrome/scleroderma autoantigen 1 (Autoantigen p27). It is thought that the potential association of anti-p27 with anti-centromere antibodies suggests that autoantigen p27 might play a role in mitosis [].
Probab=39.55 E-value=21 Score=24.39 Aligned_cols=21 Identities=29% Similarity=0.771 Sum_probs=14.6
Q ss_pred cCCCCCcCCCCCceEEccCCcccccch
Q 017657 215 CCSCERMEPQDTAYVALDDGRKLCLEC 241 (368)
Q Consensus 215 C~~C~r~l~~~~~f~~~~dg~~~C~~C 241 (368)
|..|+.++ +..++|+.+|..|
T Consensus 20 Cp~C~~PL------~~~k~g~~~Cv~C 40 (41)
T PF06677_consen 20 CPDCGTPL------MRDKDGKIYCVSC 40 (41)
T ss_pred cCCCCCee------EEecCCCEECCCC
Confidence 66677655 3346888999877
No 64
>COG4784 Putative Zn-dependent protease [General function prediction only]
Probab=37.99 E-value=31 Score=34.52 Aligned_cols=44 Identities=16% Similarity=0.113 Sum_probs=28.6
Q ss_pred ceeeeeeeccCcCCCCCcceeeeeccccccccceEEEEEEecCCcHHHH-----HHHHhhhccc
Q 017657 309 EQTVTTVLWRPRFGPGNQARNIITEPYKLTRRCDVTAILILYGLPRFVI-----CLALSNVCTR 367 (368)
Q Consensus 309 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~v~~il~l~glpr~~~-----~~ilahe~~h 367 (368)
.+|+-||+.+|.|..=.-+- --|+|--||=.|+- .++|||||.|
T Consensus 86 q~YriTilnSP~INAFALPG---------------GYlYitRGLlAland~sEvAAVl~HEmgH 134 (479)
T COG4784 86 QTYRITILNSPNINAFALPG---------------GYLYITRGLLALANDSSEVAAVLAHEMGH 134 (479)
T ss_pred ceEEEEEecCCCccccccCC---------------ceEEEehhHHHHcCCHHHHHHHHHhhhhh
Confidence 56788999999872110010 12566667766653 4799999999
No 65
>TIGR02420 dksA RNA polymerase-binding protein DksA. The model that is the basis for this family describes a small, pleiotropic protein, DksA (DnaK suppressor A), originally named as a multicopy suppressor of temperature sensitivity of dnaKJ mutants. DksA mutants are defective in quorum sensing, virulence, etc. DksA is now understood to bind RNA polymerase directly and modulate its response to small molecules to control the level of transcription of rRNA. Nearly all members of this family are in the Proteobacteria. Whether the closest homologs outside the Proteobacteria function equivalently is unknown. The low value set for the noise cutoff allows identification of possible DksA proteins from outside the proteobacteria. TIGR02419 describes a closely related family of short sequences usually found in prophage regions of proteobacterial genomes or in known phage.
Probab=37.69 E-value=7.9 Score=32.02 Aligned_cols=31 Identities=35% Similarity=0.760 Sum_probs=18.8
Q ss_pred CCCCccccCCcccccCceEeecCceecCCCcccCCCC
Q 017657 111 EGYRICAGCNNEIGHGRFLNCLDVFWHPECFCCHACH 147 (368)
Q Consensus 111 ~~~~~C~~C~~~I~~g~~v~a~g~~wH~~CF~C~~C~ 147 (368)
.+.+.|..|+++|. -..+.+ -|++..|..|.
T Consensus 78 g~yG~C~~Cge~I~-~~RL~a-----~P~a~~Cv~Cq 108 (110)
T TIGR02420 78 GEYGYCEECGEEIG-LRRLEA-----RPTATLCIDCK 108 (110)
T ss_pred CCCCchhccCCccc-HHHHhh-----CCCccccHHhH
Confidence 35679999999994 333333 24444555553
No 66
>cd04269 ZnMc_adamalysin_II_like Zinc-dependent metalloprotease; adamalysin_II_like subfamily. Adamalysin II is a snake venom zinc endopeptidase. This subfamily contains other snake venom metalloproteinases, as well as membrane-anchored metalloproteases belonging to the ADAM family. ADAMs (A Disintegrin And Metalloprotease) are glycoproteins, which play roles in cell signaling, cell fusion, and cell-cell interactions.
Probab=37.64 E-value=25 Score=31.45 Aligned_cols=15 Identities=0% Similarity=0.157 Sum_probs=12.6
Q ss_pred HHHHHHHHhhhcccC
Q 017657 354 RFVICLALSNVCTRR 368 (368)
Q Consensus 354 r~~~~~ilahe~~h~ 368 (368)
.+.+..|+|||++|.
T Consensus 128 ~~~~a~~~AHElGH~ 142 (194)
T cd04269 128 LLLFAVTMAHELGHN 142 (194)
T ss_pred hHHHHHHHHHHHHhh
Confidence 467789999999993
No 67
>PF13920 zf-C3HC4_3: Zinc finger, C3HC4 type (RING finger); PDB: 2YHN_B 2YHO_G 3T6P_A 2CSY_A 2VJE_B 2VJF_B 2HDP_B 2EA5_A 2ECG_A 3EB5_A ....
Probab=37.54 E-value=25 Score=24.38 Aligned_cols=43 Identities=23% Similarity=0.435 Sum_probs=30.6
Q ss_pred ccCCCCCcCCCCCceEEccCCcc-cccchhhhhccCCCCCCcchHhH
Q 017657 214 RCCSCERMEPQDTAYVALDDGRK-LCLECLDSAIMDTNECQPLYLDI 259 (368)
Q Consensus 214 ~C~~C~r~l~~~~~f~~~~dg~~-~C~~C~~~~v~~~~~C~~c~~~I 259 (368)
.|..|.... . ..+.+.=|.. +|..|..+.......|--|+.+|
T Consensus 4 ~C~iC~~~~-~--~~~~~pCgH~~~C~~C~~~~~~~~~~CP~Cr~~i 47 (50)
T PF13920_consen 4 ECPICFENP-R--DVVLLPCGHLCFCEECAERLLKRKKKCPICRQPI 47 (50)
T ss_dssp B-TTTSSSB-S--SEEEETTCEEEEEHHHHHHHHHTTSBBTTTTBB-
T ss_pred CCccCCccC-C--ceEEeCCCChHHHHHHhHHhcccCCCCCcCChhh
Confidence 577777543 2 2445678888 99999999877788888888665
No 68
>PRK05580 primosome assembly protein PriA; Validated
Probab=36.32 E-value=27 Score=38.09 Aligned_cols=38 Identities=18% Similarity=0.408 Sum_probs=24.8
Q ss_pred ccCCCCCCCCCceeeccCCccccccccccc-ccccccccCcc
Q 017657 142 CCHACHQPITDIEFSTSENRPYHKSCYREH-YHPKCDVCKHF 182 (368)
Q Consensus 142 ~C~~C~~~L~~~~f~~~dg~~yC~~cy~~~-f~p~C~~C~~~ 182 (368)
+|..|+.+|. |....+.+.|..|-... ...+|..|+..
T Consensus 392 ~C~~C~~~l~---~h~~~~~l~Ch~Cg~~~~~~~~Cp~Cg~~ 430 (679)
T PRK05580 392 ECPHCDASLT---LHRFQRRLRCHHCGYQEPIPKACPECGST 430 (679)
T ss_pred CCCCCCCcee---EECCCCeEECCCCcCCCCCCCCCCCCcCC
Confidence 5666666653 44456777888885543 45588888765
No 69
>PRK14890 putative Zn-ribbon RNA-binding protein; Provisional
Probab=35.89 E-value=15 Score=27.24 Aligned_cols=13 Identities=38% Similarity=0.749 Sum_probs=8.3
Q ss_pred cccccccCccccC
Q 017657 173 HPKCDVCKHFIPS 185 (368)
Q Consensus 173 ~p~C~~C~~~I~~ 185 (368)
.++|..|+..|.+
T Consensus 7 ~~~CtSCg~~i~~ 19 (59)
T PRK14890 7 PPKCTSCGIEIAP 19 (59)
T ss_pred CccccCCCCcccC
Confidence 4567777766664
No 70
>COG1645 Uncharacterized Zn-finger containing protein [General function prediction only]
Probab=35.87 E-value=20 Score=30.78 Aligned_cols=21 Identities=24% Similarity=0.774 Sum_probs=14.2
Q ss_pred cCCCCCCCCCceeeccCCcccccccc
Q 017657 143 CHACHQPITDIEFSTSENRPYHKSCY 168 (368)
Q Consensus 143 C~~C~~~L~~~~f~~~dg~~yC~~cy 168 (368)
|..|+.|| | ..+|..||.-|-
T Consensus 31 Cp~Cg~PL----F-~KdG~v~CPvC~ 51 (131)
T COG1645 31 CPKCGTPL----F-RKDGEVFCPVCG 51 (131)
T ss_pred CcccCCcc----e-eeCCeEECCCCC
Confidence 56666665 2 278888887774
No 71
>PF12674 Zn_ribbon_2: Putative zinc ribbon domain
Probab=35.46 E-value=18 Score=28.45 Aligned_cols=31 Identities=26% Similarity=0.528 Sum_probs=21.4
Q ss_pred ccCCCCCcCCCCCceEEccCCc---ccccchhhh
Q 017657 214 RCCSCERMEPQDTAYVALDDGR---KLCLECLDS 244 (368)
Q Consensus 214 ~C~~C~r~l~~~~~f~~~~dg~---~~C~~C~~~ 244 (368)
.|.+|+-++.....+.+..||. -||.-||..
T Consensus 2 ~CQSCGMPl~~~~~~Gte~dGs~s~~YC~yCy~~ 35 (81)
T PF12674_consen 2 FCQSCGMPLSKDEDFGTEADGSKSEDYCSYCYQN 35 (81)
T ss_pred cCCcCcCccCCccccccccCCCCchhHHHHHhcC
Confidence 3888998876555444455554 699999975
No 72
>PRK01345 heat shock protein HtpX; Provisional
Probab=35.26 E-value=14 Score=36.38 Aligned_cols=22 Identities=9% Similarity=0.057 Sum_probs=15.2
Q ss_pred EEEecCCcHHHH----HHHHhhhccc
Q 017657 346 ILILYGLPRFVI----CLALSNVCTR 367 (368)
Q Consensus 346 il~l~glpr~~~----~~ilahe~~h 367 (368)
|+|-.||=+.|+ -+|||||++|
T Consensus 109 V~vt~gLL~~L~~dEL~aVlAHElgH 134 (317)
T PRK01345 109 VAATTGLLQRLSPEEVAGVMAHELAH 134 (317)
T ss_pred EEechHHHhhCCHHHHHHHHHHHHHH
Confidence 444446655544 6899999998
No 73
>KOG1702 consensus Nebulin repeat protein [Cytoskeleton]
Probab=34.78 E-value=11 Score=34.89 Aligned_cols=37 Identities=16% Similarity=0.156 Sum_probs=27.2
Q ss_pred CccCCCCccCCCCCcCCCCCceEEccCCcccccchhhhh
Q 017657 207 HEHDGTPRCCSCERMEPQDTAYVALDDGRKLCLECLDSA 245 (368)
Q Consensus 207 h~H~~Cf~C~~C~r~l~~~~~f~~~~dg~~~C~~C~~~~ 245 (368)
.||..||.|..|+-.+. =.+|- -.+.++||-.+|.+-
T Consensus 26 ~whk~cfkce~c~mtln-mKnyK-gy~kkpycn~hYpkq 62 (264)
T KOG1702|consen 26 VWHKQCFKCEVCGMTLN-MKNYK-GYDKKPYCNPHYPKQ 62 (264)
T ss_pred HHHHHhheeeeccCChh-hhhcc-ccccCCCcCcccccc
Confidence 47999999999997653 22332 237899999999753
No 74
>PF01258 zf-dskA_traR: Prokaryotic dksA/traR C4-type zinc finger; InterPro: IPR000962 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 domains identified in zinc finger-containing members of the DksA/TraR family. DksA is a critical component of the rRNA transcription initiation machinery that potentiates the regulation of rRNA promoters by ppGpp and the initiating NTP. In delta-dksA mutants, rRNA promoters are unresponsive to changes in amino acid availability, growth rate, or growth phase. In vitro, DksA binds to RNAP, reduces open complex lifetime, inhibits rRNA promoter activity, and amplifies effects of ppGpp and the initiating NTP on rRNA transcription [, ]. The dksA gene product suppresses the temperature-sensitive growth and filamentation of a dnaK deletion mutant of Escherichia coli. Gene knockout [] and deletion [] experiments have shown the gene to be non-essential, mutations causing a mild sensitivity to UV light, but not affecting DNA recombination []. In Pseudomonas aeruginosa, dksA is a novel regulator involved in the post-transcriptional control of extracellular virulence factor production []. The proteins contain a C-terminal region thought to fold into a 4-cysteine zinc finger. Other proteins found to contain a similar zinc finger domain include: the traR gene products encoded on the E. coli F and R100 plasmids [, ] the traR gene products encoded on Salmonella spp. plasmids pED208 and pSLT the dnaK suppressor hypothetical proteins from bacteria and bacteriophage FHL4, LIM proteins from Homo sapiens (Human) and Mus musculus (Mouse) [] More information about these proteins can be found at Protein of the Month: Zinc Fingers [].; GO: 0008270 zinc ion binding; PDB: 2GVI_A 2KQ9_A 2KGO_A 1TJL_I.
Probab=34.38 E-value=4.6 Score=26.48 Aligned_cols=26 Identities=19% Similarity=0.545 Sum_probs=10.0
Q ss_pred cCCCCCCCCCceeeccCCcccccccc
Q 017657 143 CHACHQPITDIEFSTSENRPYHKSCY 168 (368)
Q Consensus 143 C~~C~~~L~~~~f~~~dg~~yC~~cy 168 (368)
|..|+.++.........+..+|..|+
T Consensus 6 C~~CGe~I~~~Rl~~~p~~~~C~~C~ 31 (36)
T PF01258_consen 6 CEDCGEPIPEERLVAVPGATLCVECQ 31 (36)
T ss_dssp -TTTSSBEEHHHHHHCTTECS-HHHH
T ss_pred ccccCChHHHHHHHhCCCcEECHHHh
Confidence 33344333333333334445555554
No 75
>COG5152 Uncharacterized conserved protein, contains RING and CCCH-type Zn-fingers [General function prediction only]
Probab=33.94 E-value=11 Score=34.75 Aligned_cols=44 Identities=20% Similarity=0.460 Sum_probs=25.7
Q ss_pred CcccCCCCCCCCCceeeccCCcccccccccccc--cccccccCcccc
Q 017657 140 CFCCHACHQPITDIEFSTSENRPYHKSCYREHY--HPKCDVCKHFIP 184 (368)
Q Consensus 140 CF~C~~C~~~L~~~~f~~~dg~~yC~~cy~~~f--~p~C~~C~~~I~ 184 (368)
=|.|..|.+.... ..+..-|..+|..|+.+.+ ++.|.+|++.-.
T Consensus 196 PF~C~iCKkdy~s-pvvt~CGH~FC~~Cai~~y~kg~~C~~Cgk~t~ 241 (259)
T COG5152 196 PFLCGICKKDYES-PVVTECGHSFCSLCAIRKYQKGDECGVCGKATY 241 (259)
T ss_pred ceeehhchhhccc-hhhhhcchhHHHHHHHHHhccCCcceecchhhc
Confidence 3677777665433 2333456677777766543 456666665544
No 76
>PRK00420 hypothetical protein; Validated
Probab=33.92 E-value=27 Score=29.25 Aligned_cols=26 Identities=23% Similarity=0.342 Sum_probs=19.4
Q ss_pred ccCCCCCcCCCCCceEEccCCcccccchhhhh
Q 017657 214 RCCSCERMEPQDTAYVALDDGRKLCLECLDSA 245 (368)
Q Consensus 214 ~C~~C~r~l~~~~~f~~~~dg~~~C~~C~~~~ 245 (368)
.|..|+.++ +.+.+|..+|..|-...
T Consensus 25 ~CP~Cg~pL------f~lk~g~~~Cp~Cg~~~ 50 (112)
T PRK00420 25 HCPVCGLPL------FELKDGEVVCPVHGKVY 50 (112)
T ss_pred CCCCCCCcc------eecCCCceECCCCCCee
Confidence 477788655 44579999999998753
No 77
>COG1645 Uncharacterized Zn-finger containing protein [General function prediction only]
Probab=33.78 E-value=24 Score=30.37 Aligned_cols=25 Identities=24% Similarity=0.505 Sum_probs=19.5
Q ss_pred ccCCCCCcCCCCCceEEccCCcccccchhhhh
Q 017657 214 RCCSCERMEPQDTAYVALDDGRKLCLECLDSA 245 (368)
Q Consensus 214 ~C~~C~r~l~~~~~f~~~~dg~~~C~~C~~~~ 245 (368)
.|..|+.+| |. +||.+||..|-.+.
T Consensus 30 hCp~Cg~PL------F~-KdG~v~CPvC~~~~ 54 (131)
T COG1645 30 HCPKCGTPL------FR-KDGEVFCPVCGYRE 54 (131)
T ss_pred hCcccCCcc------ee-eCCeEECCCCCceE
Confidence 388899877 43 79999999998543
No 78
>PF14891 Peptidase_M91: Effector protein
Probab=33.66 E-value=15 Score=32.82 Aligned_cols=10 Identities=10% Similarity=0.036 Sum_probs=8.9
Q ss_pred HHHHhhhccc
Q 017657 358 CLALSNVCTR 367 (368)
Q Consensus 358 ~~ilahe~~h 367 (368)
-.+|||||.|
T Consensus 104 ~v~L~HEL~H 113 (174)
T PF14891_consen 104 FVVLYHELIH 113 (174)
T ss_pred HHHHHHHHHH
Confidence 4899999998
No 79
>PRK03982 heat shock protein HtpX; Provisional
Probab=32.80 E-value=16 Score=35.40 Aligned_cols=22 Identities=9% Similarity=0.191 Sum_probs=14.8
Q ss_pred EEEecCCcHHH----HHHHHhhhccc
Q 017657 346 ILILYGLPRFV----ICLALSNVCTR 367 (368)
Q Consensus 346 il~l~glpr~~----~~~ilahe~~h 367 (368)
|.|--||=..| --+|||||++|
T Consensus 110 V~vt~gLl~~l~~~El~AVlAHElgH 135 (288)
T PRK03982 110 VAVTEGILNLLNEDELEGVIAHELTH 135 (288)
T ss_pred EEeehHHHhhCCHHHHHHHHHHHHHH
Confidence 44555554433 56899999998
No 80
>PRK03001 M48 family peptidase; Provisional
Probab=32.61 E-value=16 Score=35.27 Aligned_cols=22 Identities=14% Similarity=0.184 Sum_probs=15.2
Q ss_pred EEEecCCcHHH----HHHHHhhhccc
Q 017657 346 ILILYGLPRFV----ICLALSNVCTR 367 (368)
Q Consensus 346 il~l~glpr~~----~~~ilahe~~h 367 (368)
|.|--||=+.| --+|||||++|
T Consensus 109 Ivvt~gLl~~l~~~El~aVlAHElgH 134 (283)
T PRK03001 109 VAATTGILRVLSEREIRGVMAHELAH 134 (283)
T ss_pred EEecHHHHhhCCHHHHHHHHHHHHHH
Confidence 55555554443 45899999998
No 81
>PF13834 DUF4193: Domain of unknown function (DUF4193)
Probab=31.01 E-value=15 Score=30.08 Aligned_cols=28 Identities=25% Similarity=0.650 Sum_probs=19.0
Q ss_pred CccCCCCCcCCCCCceEEccCCcccccch
Q 017657 213 PRCCSCERMEPQDTAYVALDDGRKLCLEC 241 (368)
Q Consensus 213 f~C~~C~r~l~~~~~f~~~~dg~~~C~~C 241 (368)
|.|.+|--+-.+ .+-....+|.++|..|
T Consensus 71 FTCssCFLV~HR-SqLa~~~~g~~iC~DC 98 (99)
T PF13834_consen 71 FTCSSCFLVHHR-SQLAREKDGQPICRDC 98 (99)
T ss_pred eeeeeeeeEech-hhhccccCCCEecccc
Confidence 899999754322 2223345899999998
No 82
>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=30.87 E-value=41 Score=22.00 Aligned_cols=36 Identities=22% Similarity=0.540 Sum_probs=23.2
Q ss_pred cCCCCCcCCCCCceEEccCCcccccchhhhhccCCCCC
Q 017657 215 CCSCERMEPQDTAYVALDDGRKLCLECLDSAIMDTNEC 252 (368)
Q Consensus 215 C~~C~r~l~~~~~f~~~~dg~~~C~~C~~~~v~~~~~C 252 (368)
|..|...+ .+..+...=|..+|.+|..+.+.....|
T Consensus 1 C~iC~~~~--~~~~~~~~CGH~fC~~C~~~~~~~~~~C 36 (39)
T PF13923_consen 1 CPICLDEL--RDPVVVTPCGHSFCKECIEKYLEKNPKC 36 (39)
T ss_dssp ETTTTSB---SSEEEECTTSEEEEHHHHHHHHHCTSB-
T ss_pred CCCCCCcc--cCcCEECCCCCchhHHHHHHHHHCcCCC
Confidence 55666544 3355567889999999998765544444
No 83
>COG2191 Formylmethanofuran dehydrogenase subunit E [Energy production and conversion]
Probab=30.53 E-value=21 Score=32.89 Aligned_cols=30 Identities=20% Similarity=0.619 Sum_probs=22.6
Q ss_pred CccCCCCCcCCCCCceEEccCCcccccchhhh
Q 017657 213 PRCCSCERMEPQDTAYVALDDGRKLCLECLDS 244 (368)
Q Consensus 213 f~C~~C~r~l~~~~~f~~~~dg~~~C~~C~~~ 244 (368)
-+|..|+-++.... ..+.+|+++|..|+..
T Consensus 173 v~C~kCGE~~~e~~--~~~~ng~~vC~~C~~~ 202 (206)
T COG2191 173 VRCSKCGELFMEPR--AVVLNGKPVCKPCAEK 202 (206)
T ss_pred eeccccCcccccch--hhhcCCceeccccccc
Confidence 47999998764332 3456999999999975
No 84
>PRK01265 heat shock protein HtpX; Provisional
Probab=30.52 E-value=19 Score=35.75 Aligned_cols=23 Identities=13% Similarity=0.007 Sum_probs=17.2
Q ss_pred EEEEecCCcHHHH----HHHHhhhccc
Q 017657 345 AILILYGLPRFVI----CLALSNVCTR 367 (368)
Q Consensus 345 ~il~l~glpr~~~----~~ilahe~~h 367 (368)
.|.|-.||=+.|+ .+|||||++|
T Consensus 124 ~Ivvt~gLl~~l~~~El~aVlAHElgH 150 (324)
T PRK01265 124 RIAITLPLLKILNRDEIKAVAGHELGH 150 (324)
T ss_pred EEEEehHHHhhCCHHHHHHHHHHHHHH
Confidence 4677677655554 6899999998
No 85
>COG1198 PriA Primosomal protein N' (replication factor Y) - superfamily II helicase [DNA replication, recombination, and repair]
Probab=30.01 E-value=44 Score=36.81 Aligned_cols=39 Identities=18% Similarity=0.407 Sum_probs=26.4
Q ss_pred cccCCCCCCCCCceeeccCCcccccccccc-cccccccccCcc
Q 017657 141 FCCHACHQPITDIEFSTSENRPYHKSCYRE-HYHPKCDVCKHF 182 (368)
Q Consensus 141 F~C~~C~~~L~~~~f~~~dg~~yC~~cy~~-~f~p~C~~C~~~ 182 (368)
++|..|+.+|+ |....+.+.|..|-.+ .....|..|+..
T Consensus 445 ~~Cp~Cd~~lt---~H~~~~~L~CH~Cg~~~~~p~~Cp~Cgs~ 484 (730)
T COG1198 445 AECPNCDSPLT---LHKATGQLRCHYCGYQEPIPQSCPECGSE 484 (730)
T ss_pred ccCCCCCcceE---EecCCCeeEeCCCCCCCCCCCCCCCCCCC
Confidence 46777877764 4445678888888665 334478888776
No 86
>PRK04897 heat shock protein HtpX; Provisional
Probab=29.87 E-value=19 Score=35.14 Aligned_cols=17 Identities=6% Similarity=-0.089 Sum_probs=12.9
Q ss_pred CCcHHHHHHHHhhhccc
Q 017657 351 GLPRFVICLALSNVCTR 367 (368)
Q Consensus 351 glpr~~~~~ilahe~~h 367 (368)
.|+..=-.+|||||++|
T Consensus 131 ~l~~~El~aVlAHElgH 147 (298)
T PRK04897 131 IMNREELEGVIGHEISH 147 (298)
T ss_pred hCCHHHHHHHHHHHHHH
Confidence 34555557899999998
No 87
>COG0501 HtpX Zn-dependent protease with chaperone function [Posttranslational modification, protein turnover, chaperones]
Probab=29.54 E-value=19 Score=34.33 Aligned_cols=23 Identities=13% Similarity=0.169 Sum_probs=15.3
Q ss_pred EEEEecCCcHHHH----HHHHhhhccc
Q 017657 345 AILILYGLPRFVI----CLALSNVCTR 367 (368)
Q Consensus 345 ~il~l~glpr~~~----~~ilahe~~h 367 (368)
.|.|--||=..|+ -+|||||++|
T Consensus 141 ~V~vt~gLl~~l~~dEl~aVlaHElgH 167 (302)
T COG0501 141 RVVVTTGLLDLLNDDELEAVLAHELGH 167 (302)
T ss_pred eEEecHHHHhhCCHHHHHHHHHHHHHH
Confidence 3445555544444 5899999999
No 88
>PF06037 DUF922: Bacterial protein of unknown function (DUF922); InterPro: IPR010321 This entry consists of several hypothetical bacterial proteins of unknown function.
Probab=29.47 E-value=68 Score=28.41 Aligned_cols=23 Identities=22% Similarity=0.225 Sum_probs=17.8
Q ss_pred EEEEecCCcHH----------------HHHHHHhhhccc
Q 017657 345 AILILYGLPRF----------------VICLALSNVCTR 367 (368)
Q Consensus 345 ~il~l~glpr~----------------~~~~ilahe~~h 367 (368)
-+-|-|=||++ +...|-+||.+|
T Consensus 58 ~l~itytlPr~~~~~~~~~~~~~~W~~~~a~l~~HE~~H 96 (161)
T PF06037_consen 58 KLDITYTLPRWSRRAKAPPELRQRWDRFSAGLRRHEEVH 96 (161)
T ss_pred EEEEEEECCCccccCCCCHHHHHHHHHHHHHHHHHHHHH
Confidence 45567888987 366789999988
No 89
>PF13688 Reprolysin_5: Metallo-peptidase family M12; PDB: 2FV5_B 3EWJ_A 3KME_A 3L0T_B 1BKC_E 3G42_D 2I47_D 2FV9_B 3LEA_A 1ZXC_B ....
Probab=29.42 E-value=24 Score=31.49 Aligned_cols=16 Identities=6% Similarity=0.173 Sum_probs=12.4
Q ss_pred CcHHHHHHHHhhhccc
Q 017657 352 LPRFVICLALSNVCTR 367 (368)
Q Consensus 352 lpr~~~~~ilahe~~h 367 (368)
.|-.....++|||++|
T Consensus 137 ~~~~~~~~~~AHEiGH 152 (196)
T PF13688_consen 137 PPTYNGAITFAHEIGH 152 (196)
T ss_dssp --HHHHHHHHHHHHHH
T ss_pred CCCCceehhhHHhHHH
Confidence 3467778999999998
No 90
>PRK14714 DNA polymerase II large subunit; Provisional
Probab=28.87 E-value=62 Score=37.66 Aligned_cols=9 Identities=22% Similarity=0.486 Sum_probs=4.9
Q ss_pred ccCCCCCcC
Q 017657 214 RCCSCERME 222 (368)
Q Consensus 214 ~C~~C~r~l 222 (368)
.|..|+..+
T Consensus 694 ~CPsCGaev 702 (1337)
T PRK14714 694 VCPDCGAEV 702 (1337)
T ss_pred eCccCCCcc
Confidence 455666544
No 91
>PRK02391 heat shock protein HtpX; Provisional
Probab=28.72 E-value=20 Score=34.97 Aligned_cols=22 Identities=18% Similarity=0.255 Sum_probs=14.6
Q ss_pred EEEecCCcHHH----HHHHHhhhccc
Q 017657 346 ILILYGLPRFV----ICLALSNVCTR 367 (368)
Q Consensus 346 il~l~glpr~~----~~~ilahe~~h 367 (368)
|+|-.||=+.| --+|||||++|
T Consensus 118 V~vt~gLl~~L~~~El~aVlaHElgH 143 (296)
T PRK02391 118 VCVTTGLMRRLDPDELEAVLAHELSH 143 (296)
T ss_pred EEecHHHHhhCCHHHHHHHHHHHHHH
Confidence 33435554444 46899999998
No 92
>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=28.62 E-value=27 Score=23.45 Aligned_cols=40 Identities=20% Similarity=0.374 Sum_probs=25.7
Q ss_pred ccCCCCCcCCCCCceEEccCCcccccchhhhhccCCCCCC
Q 017657 214 RCCSCERMEPQDTAYVALDDGRKLCLECLDSAIMDTNECQ 253 (368)
Q Consensus 214 ~C~~C~r~l~~~~~f~~~~dg~~~C~~C~~~~v~~~~~C~ 253 (368)
.|..|...+..++..+.+.=|..+|..|..+.+.....|-
T Consensus 2 ~C~IC~~~~~~~~~~~~l~C~H~fh~~Ci~~~~~~~~~CP 41 (44)
T PF13639_consen 2 ECPICLEEFEDGEKVVKLPCGHVFHRSCIKEWLKRNNSCP 41 (44)
T ss_dssp CETTTTCBHHTTSCEEEETTSEEEEHHHHHHHHHHSSB-T
T ss_pred CCcCCChhhcCCCeEEEccCCCeeCHHHHHHHHHhCCcCC
Confidence 3667776665566666677788888888876554444443
No 93
>PF04228 Zn_peptidase: Putative neutral zinc metallopeptidase; InterPro: IPR007343 Members of this family of bacterial proteins are described as hypothetical proteins or zinc metallopeptidases. The majority have a HExxH zinc-binding motif characteristic of neutral zinc metallopeptidases, however there is no evidence to support their function as metallopeptidases.
Probab=28.33 E-value=23 Score=34.64 Aligned_cols=15 Identities=13% Similarity=0.213 Sum_probs=11.6
Q ss_pred HHHHHHHHhhhcccC
Q 017657 354 RFVICLALSNVCTRR 368 (368)
Q Consensus 354 r~~~~~ilahe~~h~ 368 (368)
.+.--+|||||+.|+
T Consensus 167 ~~a~ayVlAHEyGHH 181 (292)
T PF04228_consen 167 DFAQAYVLAHEYGHH 181 (292)
T ss_pred HHHHHHHHHHHHHHH
Confidence 345568999999994
No 94
>PRK00420 hypothetical protein; Validated
Probab=27.76 E-value=38 Score=28.38 Aligned_cols=10 Identities=0% Similarity=-0.114 Sum_probs=5.5
Q ss_pred cCCccccccc
Q 017657 158 SENRPYHKSC 167 (368)
Q Consensus 158 ~dg~~yC~~c 167 (368)
.+|..||..|
T Consensus 37 k~g~~~Cp~C 46 (112)
T PRK00420 37 KDGEVVCPVH 46 (112)
T ss_pred CCCceECCCC
Confidence 4555555554
No 95
>KOG2932 consensus E3 ubiquitin ligase involved in ubiquitination of E-cadherin complex [Posttranslational modification, protein turnover, chaperones]
Probab=27.39 E-value=28 Score=34.20 Aligned_cols=42 Identities=19% Similarity=0.448 Sum_probs=20.0
Q ss_pred cCCCCCCCCCceeeccCCcccccccccccccccccccCcccc
Q 017657 143 CHACHQPITDIEFSTSENRPYHKSCYREHYHPKCDVCKHFIP 184 (368)
Q Consensus 143 C~~C~~~L~~~~f~~~dg~~yC~~cy~~~f~p~C~~C~~~I~ 184 (368)
|..|+.+|.-.+-.+--+..+|.+|...--...|..|...|.
T Consensus 93 Cd~Cd~PI~IYGRmIPCkHvFCl~CAr~~~dK~Cp~C~d~Vq 134 (389)
T KOG2932|consen 93 CDRCDFPIAIYGRMIPCKHVFCLECARSDSDKICPLCDDRVQ 134 (389)
T ss_pred ecccCCcceeeecccccchhhhhhhhhcCccccCcCcccHHH
Confidence 444444443322222333445555544333456777777664
No 96
>PLN03208 E3 ubiquitin-protein ligase RMA2; Provisional
Probab=26.04 E-value=45 Score=30.64 Aligned_cols=12 Identities=50% Similarity=1.074 Sum_probs=7.0
Q ss_pred ccccccCccccC
Q 017657 174 PKCDVCKHFIPS 185 (368)
Q Consensus 174 p~C~~C~~~I~~ 185 (368)
++|..|...|..
T Consensus 69 ~~CPvCR~~Is~ 80 (193)
T PLN03208 69 PKCPVCKSDVSE 80 (193)
T ss_pred CcCCCCCCcCCh
Confidence 456666666654
No 97
>COG5148 RPN10 26S proteasome regulatory complex, subunit RPN10/PSMD4 [Posttranslational modification, protein turnover, chaperones]
Probab=25.76 E-value=30 Score=31.72 Aligned_cols=32 Identities=31% Similarity=0.465 Sum_probs=20.0
Q ss_pred chHHHHHHHhhhhhhhccCCCccCCcccccch
Q 017657 45 NEDIDRAIALSLLEENQKGENVIDKESQVEED 76 (368)
Q Consensus 45 ~e~~~~aia~sl~e~~~~~~~~~~~~~~~~ed 76 (368)
+.++.-|+.+|++|+-++.+.......+..+|
T Consensus 207 DpELA~AlrLSmeEek~rQe~~~qk~~ee~e~ 238 (243)
T COG5148 207 DPELAEALRLSMEEEKKRQEVAAQKSSEETED 238 (243)
T ss_pred CHHHHHHHHhhHHHHHHHHHHHHHhhhhccch
Confidence 45777889999988877665443333333333
No 98
>KOG0490 consensus Transcription factor, contains HOX domain [General function prediction only]
Probab=25.65 E-value=19 Score=32.96 Aligned_cols=52 Identities=15% Similarity=0.284 Sum_probs=40.4
Q ss_pred CccCCCCccCCCCCcCCCCCceEEccCCcccccchhhhhccCCCCCCcchHhH
Q 017657 207 HEHDGTPRCCSCERMEPQDTAYVALDDGRKLCLECLDSAIMDTNECQPLYLDI 259 (368)
Q Consensus 207 h~H~~Cf~C~~C~r~l~~~~~f~~~~dg~~~C~~C~~~~v~~~~~C~~c~~~I 259 (368)
.||..|..|..|...+..+...+.. +|..||...+.........|..|...|
T Consensus 18 ~~~~~~~~~~~~~~~~~~~~~~~~~-~g~~~~~~d~~~~~~~~~rr~rt~~~~ 69 (235)
T KOG0490|consen 18 YWHASCLKCAECDNPLGVGDTCFSK-DGSIYCKRDYQREFKFSKRCARCKFTI 69 (235)
T ss_pred HHHHHHHhhhhhcchhccCCCcccC-CCcccccccchhhhhccccccCCCCCc
Confidence 4799999999999877534555545 999999999987445667888888776
No 99
>cd00203 ZnMc Zinc-dependent metalloprotease. This super-family of metalloproteases contains two major branches, the astacin-like proteases and the adamalysin/reprolysin-like proteases. Both branches have wide phylogenetic distribution, and contain sub-families, which are involved in vertebrate development and disease.
Probab=25.45 E-value=31 Score=29.69 Aligned_cols=13 Identities=0% Similarity=-0.228 Sum_probs=11.5
Q ss_pred HHHHHHHhhhccc
Q 017657 355 FVICLALSNVCTR 367 (368)
Q Consensus 355 ~~~~~ilahe~~h 367 (368)
..+..++|||++|
T Consensus 94 ~~~~~~~~HElGH 106 (167)
T cd00203 94 KEGAQTIAHELGH 106 (167)
T ss_pred ccchhhHHHHHHH
Confidence 4678999999998
No 100
>PF10460 Peptidase_M30: Peptidase M30; InterPro: IPR019501 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. Metalloproteases are the most diverse of the four main types of protease, with more than 50 families identified to date. In these enzymes, a divalent cation, usually zinc, activates the water molecule. The metal ion is held in place by amino acid ligands, usually three in number. The known metal ligands are His, Glu, Asp or Lys and at least one other residue is required for catalysis, which may play an electrophillic role. Of the known metalloproteases, around half contain an HEXXH motif, which has been shown in crystallographic studies to form part of the metal-binding site []. The HEXXH motif is relatively common, but can be more stringently defined for metalloproteases as 'abXHEbbHbc', where 'a' is most often valine or threonine and forms part of the S1' subsite in thermolysin and neprilysin, 'b' is an uncharged residue, and 'c' a hydrophobic residue. Proline is never found in this site, possibly because it would break the helical structure adopted by this motif in metalloproteases []. This family contains metallopeptidases belonging to MEROPS peptidase family M30 (hyicolysin family, clan MA). Hyicolysin has a zinc ion which is liganded by two histidine and one glutamate residue.
Probab=25.36 E-value=25 Score=35.45 Aligned_cols=12 Identities=8% Similarity=0.149 Sum_probs=10.1
Q ss_pred HHHHHHhhhccc
Q 017657 356 VICLALSNVCTR 367 (368)
Q Consensus 356 ~~~~ilahe~~h 367 (368)
.+=++||||++|
T Consensus 138 ~~~sTlAHEfQH 149 (366)
T PF10460_consen 138 TVYSTLAHEFQH 149 (366)
T ss_pred HHHHHHHHHHHH
Confidence 356899999999
No 101
>cd04272 ZnMc_salivary_gland_MPs Zinc-dependent metalloprotease, salivary_gland_MPs. Metalloproteases secreted by the salivary glands of arthropods.
Probab=25.10 E-value=28 Score=32.07 Aligned_cols=13 Identities=0% Similarity=0.089 Sum_probs=11.1
Q ss_pred HHHHHHHhhhccc
Q 017657 355 FVICLALSNVCTR 367 (368)
Q Consensus 355 ~~~~~ilahe~~h 367 (368)
+....++|||++|
T Consensus 143 ~~~~~~~AHElGH 155 (220)
T cd04272 143 YYGVYTMTHELAH 155 (220)
T ss_pred cccHHHHHHHHHH
Confidence 4567999999998
No 102
>KOG3624 consensus M13 family peptidase [Amino acid transport and metabolism]
Probab=25.03 E-value=32 Score=37.43 Aligned_cols=14 Identities=14% Similarity=-0.028 Sum_probs=12.1
Q ss_pred HHHHHHHhhhcccC
Q 017657 355 FVICLALSNVCTRR 368 (368)
Q Consensus 355 ~~~~~ilahe~~h~ 368 (368)
-..|.|||||++|-
T Consensus 516 g~iG~vigHEl~H~ 529 (687)
T KOG3624|consen 516 GGIGFVIGHELTHG 529 (687)
T ss_pred HHHHHHHHHHHhhc
Confidence 46899999999993
No 103
>smart00731 SprT SprT homologues. Predicted to have roles in transcription elongation. Contains a conserved HExxH motif, indicating a metalloprotease function.
Probab=24.74 E-value=32 Score=29.73 Aligned_cols=14 Identities=14% Similarity=-0.083 Sum_probs=10.6
Q ss_pred HHHHHHHHhhhccc
Q 017657 354 RFVICLALSNVCTR 367 (368)
Q Consensus 354 r~~~~~ilahe~~h 367 (368)
....-.||+|||.|
T Consensus 56 ~~~l~~~l~HEm~H 69 (146)
T smart00731 56 RDRLRETLLHELCH 69 (146)
T ss_pred HHHHHhhHHHHHHH
Confidence 33445699999998
No 104
>PRK04023 DNA polymerase II large subunit; Validated
Probab=24.43 E-value=80 Score=35.97 Aligned_cols=37 Identities=19% Similarity=0.266 Sum_probs=19.3
Q ss_pred cccCCCCCCCCCceeeccCCcccccccccccccccccccCccccC
Q 017657 141 FCCHACHQPITDIEFSTSENRPYHKSCYREHYHPKCDVCKHFIPS 185 (368)
Q Consensus 141 F~C~~C~~~L~~~~f~~~dg~~yC~~cy~~~f~p~C~~C~~~I~~ 185 (368)
|+|..|+.. ......|..|-.+.-...|..|+..+..
T Consensus 639 frCP~CG~~--------Te~i~fCP~CG~~~~~y~CPKCG~El~~ 675 (1121)
T PRK04023 639 RRCPFCGTH--------TEPVYRCPRCGIEVEEDECEKCGREPTP 675 (1121)
T ss_pred ccCCCCCCC--------CCcceeCccccCcCCCCcCCCCCCCCCc
Confidence 556666554 1222356666544444556666665554
No 105
>cd02249 ZZ Zinc finger, ZZ type. Zinc finger present in dystrophin, CBP/p300 and many other proteins. The ZZ motif coordinates one or two zinc ions and most likely participates in ligand binding or molecular scaffolding. Many proteins containing ZZ motifs have other zinc-binding motifs as well, and the majority serve as scaffolds in pathways involving acetyltransferase, protein kinase, or ubiqitin-related activity. ZZ proteins can be grouped into the following functional classes: chromatin modifying, cytoskeletal scaffolding, ubiquitin binding or conjugating, and membrane receptor or ion-channel modifying proteins.
Probab=24.19 E-value=53 Score=22.53 Aligned_cols=8 Identities=38% Similarity=1.036 Sum_probs=4.2
Q ss_pred cccchhhh
Q 017657 237 LCLECLDS 244 (368)
Q Consensus 237 ~C~~C~~~ 244 (368)
+|..|+..
T Consensus 25 LC~~Cf~~ 32 (46)
T cd02249 25 LCSSCYAK 32 (46)
T ss_pred CHHHHHCc
Confidence 45555543
No 106
>smart00291 ZnF_ZZ Zinc-binding domain, present in Dystrophin, CREB-binding protein. Putative zinc-binding domain present in dystrophin-like proteins, and CREB-binding protein/p300 homologues. The ZZ in dystrophin appears to bind calmodulin. A missense mutation of one of the conserved cysteines in dystrophin results in a patient with Duchenne muscular dystrophy [3].
Probab=24.06 E-value=57 Score=22.21 Aligned_cols=9 Identities=33% Similarity=1.032 Sum_probs=5.1
Q ss_pred ccccchhhh
Q 017657 236 KLCLECLDS 244 (368)
Q Consensus 236 ~~C~~C~~~ 244 (368)
-+|..||.+
T Consensus 28 dlC~~Cf~~ 36 (44)
T smart00291 28 DLCQSCFAK 36 (44)
T ss_pred cchHHHHhC
Confidence 356666654
No 107
>KOG0957 consensus PHD finger protein [General function prediction only]
Probab=23.95 E-value=1.9e+02 Score=30.43 Aligned_cols=140 Identities=19% Similarity=0.359 Sum_probs=63.9
Q ss_pred CCCCccccCCccc--ccCceEeec--CceecCCCcccCCCCCCCCCceeeccCCcccccccccccccccccccCccccCC
Q 017657 111 EGYRICAGCNNEI--GHGRFLNCL--DVFWHPECFCCHACHQPITDIEFSTSENRPYHKSCYREHYHPKCDVCKHFIPSN 186 (368)
Q Consensus 111 ~~~~~C~~C~~~I--~~g~~v~a~--g~~wH~~CF~C~~C~~~L~~~~f~~~dg~~yC~~cy~~~f~p~C~~C~~~I~~~ 186 (368)
....+|..|-..- ..+++|.+. |-.-|..|+--.. +..|....-.-...--||+.|-.-...|.|.-|-...
T Consensus 117 kk~~iCcVClg~rs~da~ei~qCd~CGi~VHEgCYGv~d-n~si~s~~s~~stepWfCeaC~~Gvs~P~CElCPn~~--- 192 (707)
T KOG0957|consen 117 KKAVICCVCLGQRSVDAGEILQCDKCGINVHEGCYGVLD-NVSIPSGSSDCSTEPWFCEACLYGVSLPHCELCPNRF--- 192 (707)
T ss_pred ccceEEEEeecCccccccceeeccccCceeccccccccc-ccccCCCCccCCCCchhhhhHhcCCCCCccccCCCcC---
Confidence 3455888886532 224555432 3444555542210 0111110000011234899997777779999885432
Q ss_pred CCcceEEccccccccccCCCCccCCCC--ccCCCCCcCCCCCceEEccCCcccccchhhhhccCCCCCCcchHhH
Q 017657 187 HGGLIEYRAHPFWVQKYCPSHEHDGTP--RCCSCERMEPQDTAYVALDDGRKLCLECLDSAIMDTNECQPLYLDI 259 (368)
Q Consensus 187 ~~~~i~~~~~pfw~~~yC~~h~H~~Cf--~C~~C~r~l~~~~~f~~~~dg~~~C~~C~~~~v~~~~~C~~c~~~I 259 (368)
|+..-.+-.-|....|.---|---| .=.-|+..+ ..-.|. +-|...|..|-+.+++.+.+|-.|-.-+
T Consensus 193 --GifKetDigrWvH~iCALYvpGVafg~~~~l~~Vtl-~em~ys--k~Gak~Cs~Ced~~fARtGvci~CdaGM 262 (707)
T KOG0957|consen 193 --GIFKETDIGRWVHAICALYVPGVAFGQTHTLCGVTL-EEMDYS--KFGAKTCSACEDKIFARTGVCIRCDAGM 262 (707)
T ss_pred --CcccccchhhHHHHHHHhhcCccccccccccccccH-HHhhhh--hhccchhccccchhhhhcceeeeccchh
Confidence 1111111111322222100000000 011222222 111232 4677888888888888888887776544
No 108
>PRK05457 heat shock protein HtpX; Provisional
Probab=23.57 E-value=30 Score=33.51 Aligned_cols=17 Identities=12% Similarity=0.126 Sum_probs=13.8
Q ss_pred CCcHHHHHHHHhhhccc
Q 017657 351 GLPRFVICLALSNVCTR 367 (368)
Q Consensus 351 glpr~~~~~ilahe~~h 367 (368)
.|++-=--+|||||+.|
T Consensus 128 ~L~~~El~aVlAHElgH 144 (284)
T PRK05457 128 NMSRDEVEAVLAHEISH 144 (284)
T ss_pred hCCHHHHHHHHHHHHHH
Confidence 46666667899999998
No 109
>PF10263 SprT-like: SprT-like family; InterPro: IPR006640 This is a family of uncharacterised bacterial proteins which includes Escherichia coli SprT (P39902 from SWISSPROT). SprT is described as a regulator of bolA gene in stationary phase []. The majority of members contain the metallopeptidase zinc binding signature which has a HExxH motif, however there is no evidence for them being metallopeptidases.
Probab=23.26 E-value=36 Score=29.24 Aligned_cols=16 Identities=13% Similarity=-0.018 Sum_probs=13.6
Q ss_pred CcHHHHHHHHhhhccc
Q 017657 352 LPRFVICLALSNVCTR 367 (368)
Q Consensus 352 lpr~~~~~ilahe~~h 367 (368)
.|.-..-.+|+|||.|
T Consensus 55 ~~~~~~~~tL~HEm~H 70 (157)
T PF10263_consen 55 NPEEELIDTLLHEMAH 70 (157)
T ss_pred hHHHHHHHHHHHHHHH
Confidence 5666778999999998
No 110
>cd04273 ZnMc_ADAMTS_like Zinc-dependent metalloprotease, ADAMTS_like subgroup. ADAMs (A Disintegrin And Metalloprotease) are glycoproteins, which play roles in cell signaling, cell fusion, and cell-cell interactions. This particular subfamily represents domain architectures that combine ADAM-like metalloproteinases with thrombospondin type-1 repeats. ADAMTS (a disintegrin and metalloproteinase with thrombospondin motifs) proteinases are inhibited by TIMPs (tissue inhibitors of metalloproteinases), and they play roles in coagulation, angiogenesis, development and progression of arthritis. They hydrolyze the von Willebrand factor precursor and various components of the extracellular matrix.
Probab=23.23 E-value=14 Score=33.78 Aligned_cols=14 Identities=0% Similarity=0.038 Sum_probs=11.4
Q ss_pred HHHHHHHhhhcccC
Q 017657 355 FVICLALSNVCTRR 368 (368)
Q Consensus 355 ~~~~~ilahe~~h~ 368 (368)
+.+..|+|||++|.
T Consensus 138 ~~~a~~~aHElGH~ 151 (207)
T cd04273 138 LSSAFTIAHELGHV 151 (207)
T ss_pred ceeEEeeeeechhh
Confidence 45678999999993
No 111
>smart00235 ZnMc Zinc-dependent metalloprotease. Neutral zinc metallopeptidases. This alignment represents a subset of known subfamilies. Highest similarity occurs in the HExxH zinc-binding site/ active site.
Probab=23.20 E-value=27 Score=29.47 Aligned_cols=10 Identities=0% Similarity=-0.253 Sum_probs=8.4
Q ss_pred HHHhhhcccC
Q 017657 359 LALSNVCTRR 368 (368)
Q Consensus 359 ~ilahe~~h~ 368 (368)
.+++||+||.
T Consensus 88 ~~~~HEigHa 97 (140)
T smart00235 88 GVAAHELGHA 97 (140)
T ss_pred ccHHHHHHHH
Confidence 3899999993
No 112
>PF06524 NOA36: NOA36 protein; InterPro: IPR010531 This family consists of several NOA36 proteins which contain 29 highly conserved cysteine residues. The function of this protein is unknown.; GO: 0008270 zinc ion binding, 0005634 nucleus
Probab=23.12 E-value=66 Score=30.97 Aligned_cols=66 Identities=29% Similarity=0.567 Sum_probs=37.5
Q ss_pred CCcccCCCCCCCCCceeeccCCcccccccccccc--cccccccCccccCCCCcceEEccccccccccCCCCccCCCCccC
Q 017657 139 ECFCCHACHQPITDIEFSTSENRPYHKSCYREHY--HPKCDVCKHFIPSNHGGLIEYRAHPFWVQKYCPSHEHDGTPRCC 216 (368)
Q Consensus 139 ~CF~C~~C~~~L~~~~f~~~dg~~yC~~cy~~~f--~p~C~~C~~~I~~~~~~~i~~~~~pfw~~~yC~~h~H~~Cf~C~ 216 (368)
.|+.-..|..||.+..... |+.-.+..- .-+|..|..++-..+ .|-.|..|..- -...|+|.
T Consensus 112 kCl~~HaC~Cpl~da~C~E------C~R~vw~hGGrif~CsfC~~flCEDD---------QFEHQAsCQvL-e~E~~KC~ 175 (314)
T PF06524_consen 112 KCLSTHACTCPLQDAVCIE------CERGVWDHGGRIFKCSFCDNFLCEDD---------QFEHQASCQVL-ESETFKCQ 175 (314)
T ss_pred cccccccccCcCCCcEeee------eecccccCCCeEEEeecCCCeeeccc---------hhhhhhhhhhh-hccccccc
Confidence 4777778888887643222 111112111 137888888876532 23344455333 34568999
Q ss_pred CCCC
Q 017657 217 SCER 220 (368)
Q Consensus 217 ~C~r 220 (368)
+|.|
T Consensus 176 SCNr 179 (314)
T PF06524_consen 176 SCNR 179 (314)
T ss_pred cccc
Confidence 9987
No 113
>KOG0978 consensus E3 ubiquitin ligase involved in syntaxin degradation [Posttranslational modification, protein turnover, chaperones]
Probab=22.99 E-value=21 Score=38.90 Aligned_cols=26 Identities=23% Similarity=0.643 Sum_probs=15.5
Q ss_pred ccccccccccc---cccccccCccccCCC
Q 017657 162 PYHKSCYREHY---HPKCDVCKHFIPSNH 187 (368)
Q Consensus 162 ~yC~~cy~~~f---~p~C~~C~~~I~~~~ 187 (368)
.||..|-..++ ..+|..|+.....++
T Consensus 664 ~FC~~Cvq~r~etRqRKCP~Cn~aFganD 692 (698)
T KOG0978|consen 664 VFCEECVQTRYETRQRKCPKCNAAFGAND 692 (698)
T ss_pred HHHHHHHHHHHHHhcCCCCCCCCCCCccc
Confidence 45555544443 347888887776654
No 114
>PRK03072 heat shock protein HtpX; Provisional
Probab=22.98 E-value=30 Score=33.55 Aligned_cols=23 Identities=13% Similarity=0.046 Sum_probs=15.0
Q ss_pred EEEEecCCcH----HHHHHHHhhhccc
Q 017657 345 AILILYGLPR----FVICLALSNVCTR 367 (368)
Q Consensus 345 ~il~l~glpr----~~~~~ilahe~~h 367 (368)
+|.|--||=+ -=--+|||||+.|
T Consensus 111 ~v~vt~gLl~~l~~~El~aVlAHElgH 137 (288)
T PRK03072 111 AVCCTEGILQILNERELRGVLGHELSH 137 (288)
T ss_pred EEEecHHHHHhCCHHHHHHHHHHHHHH
Confidence 3444444444 4446899999998
No 115
>PF05502 Dynactin_p62: Dynactin p62 family; InterPro: IPR008603 Dynactin is a multi-subunit complex and a required cofactor for most, or all, o f the cellular processes powered by the microtubule-based motor cytoplasmic dyn ein. p62 binds directly to the Arp1 subunit of dynactin [, ].
Probab=22.68 E-value=66 Score=33.71 Aligned_cols=41 Identities=20% Similarity=0.396 Sum_probs=26.9
Q ss_pred CCCccccCCcccccCceEeecCceecCCCcccCCCCCCCCCc
Q 017657 112 GYRICAGCNNEIGHGRFLNCLDVFWHPECFCCHACHQPITDI 153 (368)
Q Consensus 112 ~~~~C~~C~~~I~~g~~v~a~g~~wH~~CF~C~~C~~~L~~~ 153 (368)
..-.|..|-..+ ...-+...+..-...||.|..|..+|...
T Consensus 25 ~~~yCp~CL~~~-p~~e~~~~~nrC~r~Cf~CP~C~~~L~~~ 65 (483)
T PF05502_consen 25 DSYYCPNCLFEV-PSSEARSEKNRCSRNCFDCPICFSPLSVR 65 (483)
T ss_pred ceeECccccccC-ChhhheeccceeccccccCCCCCCcceeE
Confidence 445678887776 33333344444456899999999998643
No 116
>PF14569 zf-UDP: Zinc-binding RING-finger; PDB: 1WEO_A.
Probab=22.65 E-value=51 Score=25.82 Aligned_cols=21 Identities=14% Similarity=0.390 Sum_probs=7.7
Q ss_pred ccccchhhh-hccCCCCCCcch
Q 017657 236 KLCLECLDS-AIMDTNECQPLY 256 (368)
Q Consensus 236 ~~C~~C~~~-~v~~~~~C~~c~ 256 (368)
+.|+.||+- .-.+...|-.|.
T Consensus 37 PvCr~CyEYErkeg~q~CpqCk 58 (80)
T PF14569_consen 37 PVCRPCYEYERKEGNQVCPQCK 58 (80)
T ss_dssp ---HHHHHHHHHTS-SB-TTT-
T ss_pred ccchhHHHHHhhcCcccccccC
Confidence 457777752 223445555555
No 117
>cd02340 ZZ_NBR1_like Zinc finger, ZZ type. Zinc finger present in Drosophila ref(2)P, NBR1, Human sequestosome 1 and related proteins. The ZZ motif coordinates two zinc ions and most likely participates in ligand binding or molecular scaffolding. Drosophila ref(2)P appears to control the multiplication of sigma rhabdovirus. NBR1 (Next to BRCA1 gene 1 protein) interacts with fasciculation and elongation protein zeta-1 (FEZ1) and calcium and integrin binding protein (CIB), and may function in cell signalling pathways. Sequestosome 1 is a phosphotyrosine independent ligand for the Lck SH2 domain and binds noncovalently to ubiquitin via its UBA domain.
Probab=22.51 E-value=51 Score=22.53 Aligned_cols=11 Identities=36% Similarity=0.643 Sum_probs=8.1
Q ss_pred cccccCccccC
Q 017657 175 KCDVCKHFIPS 185 (368)
Q Consensus 175 ~C~~C~~~I~~ 185 (368)
.|.+|+.+|.+
T Consensus 2 ~Cd~C~~~i~G 12 (43)
T cd02340 2 ICDGCQGPIVG 12 (43)
T ss_pred CCCCCCCcCcC
Confidence 57888887764
No 118
>KOG4739 consensus Uncharacterized protein involved in synaptonemal complex formation [Cell cycle control, cell division, chromosome partitioning; General function prediction only]
Probab=21.85 E-value=55 Score=30.95 Aligned_cols=34 Identities=21% Similarity=0.402 Sum_probs=25.9
Q ss_pred Cceee-ccCCcccccccccccccccccccCccccC
Q 017657 152 DIEFS-TSENRPYHKSCYREHYHPKCDVCKHFIPS 185 (368)
Q Consensus 152 ~~~f~-~~dg~~yC~~cy~~~f~p~C~~C~~~I~~ 185 (368)
...|+ ..-..++|..|...-+.+.|..|++.|..
T Consensus 15 ~~~f~LTaC~HvfC~~C~k~~~~~~C~lCkk~ir~ 49 (233)
T KOG4739|consen 15 QDPFFLTACRHVFCEPCLKASSPDVCPLCKKSIRI 49 (233)
T ss_pred CCceeeeechhhhhhhhcccCCccccccccceeee
Confidence 33444 35667899999888877799999999864
No 119
>PRK02870 heat shock protein HtpX; Provisional
Probab=21.85 E-value=35 Score=34.04 Aligned_cols=23 Identities=13% Similarity=0.180 Sum_probs=16.2
Q ss_pred EEEEecCCcHHH----HHHHHhhhccc
Q 017657 345 AILILYGLPRFV----ICLALSNVCTR 367 (368)
Q Consensus 345 ~il~l~glpr~~----~~~ilahe~~h 367 (368)
.|.|-.||=+.| -.+|||||++|
T Consensus 157 ~Ivvt~GLL~~L~~dEL~aVlAHELgH 183 (336)
T PRK02870 157 MVAITTGLLEKLDRDELQAVMAHELSH 183 (336)
T ss_pred EEEEehHHhhhCCHHHHHHHHHHHHHH
Confidence 455555655544 46899999998
No 120
>cd02336 ZZ_RSC8 Zinc finger, ZZ type. Zinc finger present in RSC8 and related proteins. RSC8 is a component of the RSC complex, which is closely related to the SWI/SNF complex and is involved in remodeling chromatin structure. The ZZ motif coordinates a zinc ion and most likely participates in ligand binding or molecular scaffolding.
Probab=21.85 E-value=77 Score=22.04 Aligned_cols=30 Identities=23% Similarity=0.559 Sum_probs=17.7
Q ss_pred ccCCCCCcCCCCCceEEccC-Ccccccchhhh
Q 017657 214 RCCSCERMEPQDTAYVALDD-GRKLCLECLDS 244 (368)
Q Consensus 214 ~C~~C~r~l~~~~~f~~~~d-g~~~C~~C~~~ 244 (368)
.|.+|+.-.+ ..+|-.++. +.-+|..||.+
T Consensus 2 ~C~~Cg~D~t-~vryh~~~~~~~dLC~~CF~~ 32 (45)
T cd02336 2 HCFTCGNDCT-RVRYHNLKAKKYDLCPSCYQE 32 (45)
T ss_pred cccCCCCccC-ceEEEecCCCccccChHHHhC
Confidence 5777777663 455543322 35677777765
No 121
>PF04502 DUF572: Family of unknown function (DUF572) ; InterPro: IPR007590 This entry represents eukaryotic proteins with undetermined function belonging to the CWC16 family.
Probab=21.65 E-value=50 Score=32.66 Aligned_cols=20 Identities=25% Similarity=0.296 Sum_probs=15.7
Q ss_pred CCCccccCCcccccCceEee
Q 017657 112 GYRICAGCNNEIGHGRFLNC 131 (368)
Q Consensus 112 ~~~~C~~C~~~I~~g~~v~a 131 (368)
+...|.+|+..|+.|...++
T Consensus 39 f~i~C~~C~~~I~kG~rFNA 58 (324)
T PF04502_consen 39 FNIWCNTCGEYIYKGVRFNA 58 (324)
T ss_pred ccCcCCCCccccccceeeee
Confidence 66789999999987766655
No 122
>cd04268 ZnMc_MMP_like Zinc-dependent metalloprotease, MMP_like subfamily. This group contains matrix metalloproteinases (MMPs), serralysins, and the astacin_like family of proteases.
Probab=21.30 E-value=36 Score=29.30 Aligned_cols=12 Identities=0% Similarity=-0.166 Sum_probs=10.0
Q ss_pred HHHHHhhhcccC
Q 017657 357 ICLALSNVCTRR 368 (368)
Q Consensus 357 ~~~ilahe~~h~ 368 (368)
.-.+++||++|.
T Consensus 94 ~~~~~~HEiGHa 105 (165)
T cd04268 94 LRNTAEHELGHA 105 (165)
T ss_pred HHHHHHHHHHHH
Confidence 458999999993
No 123
>PRK11827 hypothetical protein; Provisional
Probab=21.05 E-value=54 Score=24.34 Aligned_cols=14 Identities=36% Similarity=0.598 Sum_probs=11.7
Q ss_pred cccccccchhhHhH
Q 017657 268 MKLEQQIPLLLVER 281 (368)
Q Consensus 268 ~~i~~~~p~~lv~~ 281 (368)
-||...+|++|++.
T Consensus 36 YPI~dgIPVlL~de 49 (60)
T PRK11827 36 FPLRDGIPVLLETE 49 (60)
T ss_pred ccccCCccccCHHH
Confidence 57889999999874
No 124
>PF00413 Peptidase_M10: Matrixin This Prosite motif covers only the active site.; InterPro: IPR001818 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. Metalloproteases are the most diverse of the four main types of protease, with more than 50 families identified to date. In these enzymes, a divalent cation, usually zinc, activates the water molecule. The metal ion is held in place by amino acid ligands, usually three in number. The known metal ligands are His, Glu, Asp or Lys and at least one other residue is required for catalysis, which may play an electrophillic role. Of the known metalloproteases, around half contain an HEXXH motif, which has been shown in crystallographic studies to form part of the metal-binding site []. The HEXXH motif is relatively common, but can be more stringently defined for metalloproteases as 'abXHEbbHbc', where 'a' is most often valine or threonine and forms part of the S1' subsite in thermolysin and neprilysin, 'b' is an uncharged residue, and 'c' a hydrophobic residue. Proline is never found in this site, possibly because it would break the helical structure adopted by this motif in metalloproteases []. This group of metallopeptidases belong to the MEROPS peptidase family M10 (clan MA(M)). The protein fold of the peptidase domain for members of this family resembles that of thermolysin, the type example for clan MA. Sequences having this domain are extracellular metalloproteases, such as collagenase and stromelysin, which degrade the extracellular matrix, are known as matrixins. They are zinc-dependent, calcium-activated proteases synthesised as inactive precursors (zymogens), which are proteolytically cleaved to yield the active enzyme [, ]. All matrixins and related proteins possess 2 domains: an N-terminal domain, and a zinc-binding active site domain. The N-terminal domain peptide, cleaved during the activation step, includes a conserved PRCGVPDV octapeptide, known as the cysteine switch, whose Cys residue chelates the active site zinc atom, rendering the enzyme inactive [, ]. The active enzyme degrades components of the extracellular matrix, playing a role in the initial steps of tissue remodelling during morphogenesis, wound healing, angiogenesis and tumour invasion [, ].; GO: 0004222 metalloendopeptidase activity, 0008270 zinc ion binding, 0006508 proteolysis, 0031012 extracellular matrix; PDB: 1Q3A_C 3V96_B 1HV5_D 1CXV_A 1SRP_A 1FBL_A 1ZVX_A 1JH1_A 1I76_A 2OY4_A ....
Probab=20.77 E-value=35 Score=28.98 Aligned_cols=12 Identities=0% Similarity=-0.269 Sum_probs=9.9
Q ss_pred HHHHHHhhhccc
Q 017657 356 VICLALSNVCTR 367 (368)
Q Consensus 356 ~~~~ilahe~~h 367 (368)
-..+||+||++|
T Consensus 104 ~~~~v~~HEiGH 115 (154)
T PF00413_consen 104 DLQSVAIHEIGH 115 (154)
T ss_dssp EHHHHHHHHHHH
T ss_pred hhhhhhhhcccc
Confidence 345899999998
No 125
>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=20.73 E-value=63 Score=26.83 Aligned_cols=25 Identities=24% Similarity=0.628 Sum_probs=17.9
Q ss_pred ccCCCCCcCCCCCceEEccCCcccccchhhh
Q 017657 214 RCCSCERMEPQDTAYVALDDGRKLCLECLDS 244 (368)
Q Consensus 214 ~C~~C~r~l~~~~~f~~~~dg~~~C~~C~~~ 244 (368)
.|.+|++ +||-|...-+.|..|-..
T Consensus 11 ~Cp~CG~------kFYDLnk~PivCP~CG~~ 35 (108)
T PF09538_consen 11 TCPSCGA------KFYDLNKDPIVCPKCGTE 35 (108)
T ss_pred cCCCCcc------hhccCCCCCccCCCCCCc
Confidence 6888875 567676655668888764
No 126
>PF08273 Prim_Zn_Ribbon: Zinc-binding domain of primase-helicase; InterPro: IPR013237 This entry is represented by bacteriophage T7 Gp4. The characteristics of the protein distribution suggest prophage matches in addition to the phage matches. This entry represents a zinc binding domain found in the N-terminal region of the bacteriophage T7 Gp4 and P4 alpha protein. P4 is a multifunctional protein with origin recognition, helicase and primase activities [, , ].; GO: 0003896 DNA primase activity, 0004386 helicase activity, 0008270 zinc ion binding; PDB: 1NUI_B.
Probab=20.71 E-value=81 Score=21.42 Aligned_cols=17 Identities=29% Similarity=0.819 Sum_probs=11.7
Q ss_pred CCceEEccC----Ccccccch
Q 017657 225 DTAYVALDD----GRKLCLEC 241 (368)
Q Consensus 225 ~~~f~~~~d----g~~~C~~C 241 (368)
.++|-.+.| |..+|..|
T Consensus 12 ~DrFri~~d~~~~G~~~C~~C 32 (40)
T PF08273_consen 12 KDRFRIFDDKDGRGTWICRQC 32 (40)
T ss_dssp TTTEEEETT----S-EEETTT
T ss_pred ccccccCcCcccCCCEECCCC
Confidence 456665666 88999888
No 127
>PHA00527 hypothetical protein
Probab=20.21 E-value=91 Score=25.83 Aligned_cols=9 Identities=22% Similarity=0.534 Sum_probs=8.1
Q ss_pred HHHhhhccc
Q 017657 359 LALSNVCTR 367 (368)
Q Consensus 359 ~ilahe~~h 367 (368)
|.||||++|
T Consensus 75 ~T~~HECAH 83 (129)
T PHA00527 75 ATLVHECAH 83 (129)
T ss_pred HHHHHHHHH
Confidence 789999998
No 128
>cd02335 ZZ_ADA2 Zinc finger, ZZ type. Zinc finger present in ADA2, a putative transcriptional adaptor, and related proteins. The ZZ motif coordinates two zinc ions and most likely participates in ligand binding or molecular scaffolding.
Probab=20.18 E-value=77 Score=22.13 Aligned_cols=7 Identities=71% Similarity=1.763 Sum_probs=3.6
Q ss_pred cccchhh
Q 017657 237 LCLECLD 243 (368)
Q Consensus 237 ~C~~C~~ 243 (368)
+|..|+.
T Consensus 26 LC~~Cf~ 32 (49)
T cd02335 26 LCLECFS 32 (49)
T ss_pred hhHHhhh
Confidence 4555554
No 129
>KOG2935 consensus Ataxin 3/Josephin [General function prediction only]
Probab=20.17 E-value=1.3e+02 Score=28.97 Aligned_cols=35 Identities=46% Similarity=0.600 Sum_probs=22.5
Q ss_pred CCCcchHHHHHHHhhhhhhhccCCCccCCcccccchHHHHHHHHhhcc
Q 017657 41 LEQENEDIDRAIALSLLEENQKGENVIDKESQVEEDEQLARAIQESLN 88 (368)
Q Consensus 41 ~~~~~e~~~~aia~sl~e~~~~~~~~~~~~~~~~edE~lar~lqes~~ 88 (368)
.|.+.+|+.+|.++|..|- ..+||.+.++++-++.
T Consensus 215 ~dq~e~d~a~a~a~s~~et-------------~~ede~lrsaie~s~~ 249 (315)
T KOG2935|consen 215 VDQDEEDLARALALSRQET-------------EMEDEDLRSAIELSMQ 249 (315)
T ss_pred cccchHHHHHHHHHHHhhh-------------hcccHHHHHHHHhhhh
Confidence 3677888877777775432 2366677777766643
No 130
>PF10886 DUF2685: Protein of unknown function (DUF2685); InterPro: IPR024362 This is a family of uncharacterised bacteriophage proteins. Their function in unknown.
Probab=20.13 E-value=64 Score=23.46 Aligned_cols=24 Identities=25% Similarity=0.439 Sum_probs=13.4
Q ss_pred ccccCCcccccCceEeecCceecC
Q 017657 115 ICAGCNNEIGHGRFLNCLDVFWHP 138 (368)
Q Consensus 115 ~C~~C~~~I~~g~~v~a~g~~wH~ 138 (368)
+|..|+.+|.....+.-.+..-|+
T Consensus 3 ~CvVCKqpi~~a~~v~T~~G~VH~ 26 (54)
T PF10886_consen 3 ICVVCKQPIDDALVVETESGPVHP 26 (54)
T ss_pred eeeeeCCccCcceEEEcCCCccCc
Confidence 577777777544444444444444
No 131
>KOG3002 consensus Zn finger protein [General function prediction only]
Probab=20.09 E-value=61 Score=31.80 Aligned_cols=44 Identities=23% Similarity=0.503 Sum_probs=29.7
Q ss_pred cccCCCCCCCCCceeeccCCcccccccccccccccccccCccccC
Q 017657 141 FCCHACHQPITDIEFSTSENRPYHKSCYREHYHPKCDVCKHFIPS 185 (368)
Q Consensus 141 F~C~~C~~~L~~~~f~~~dg~~yC~~cy~~~f~p~C~~C~~~I~~ 185 (368)
+.|..|...|....|.=.+|.+.|..|-.++ ..+|..|..+|..
T Consensus 49 leCPvC~~~l~~Pi~QC~nGHlaCssC~~~~-~~~CP~Cr~~~g~ 92 (299)
T KOG3002|consen 49 LDCPVCFNPLSPPIFQCDNGHLACSSCRTKV-SNKCPTCRLPIGN 92 (299)
T ss_pred ccCchhhccCcccceecCCCcEehhhhhhhh-cccCCcccccccc
Confidence 4556666666655566667777777776443 6788888888873
No 132
>cd06164 S2P-M50_SpoIVFB_CBS SpoIVFB Site-2 protease (S2P), a zinc metalloprotease (MEROPS family M50B), regulates intramembrane proteolysis (RIP), and is involved in the pro-sigmaK pathway of bacterial spore formation. In this subgroup, SpoIVFB (sporulation protein, stage IV cell wall formation, F locus, promoter-distal B) contains two tandem repeats of the cystathionine beta-synthase (CBS pair) domain. SpoIVFB is one of 4 proteins involved in endospore formation; the others are SpoIVFA (sporulation protein, stage IV cell wall formation, F locus, promoter-proximal A), BofA (bypass-of-forespore A), and SpoIVB (sporulation protein, stage IV cell wall formation, B locus). SpoIVFB is negatively regulated by SpoIVFA and BofA and activated by SpoIVB. It is thought that SpoIVFB, SpoIVFA, and BofA are located in the mother-cell membrane that surrounds the forespore and that SpoIVB is secreted from the forespore into the space between the two where it activates SpoIVFB. It has been proposed tha
Probab=20.02 E-value=45 Score=31.18 Aligned_cols=20 Identities=20% Similarity=0.252 Sum_probs=15.2
Q ss_pred EecCCcH--HHHHHHHhhhccc
Q 017657 348 ILYGLPR--FVICLALSNVCTR 367 (368)
Q Consensus 348 ~l~glpr--~~~~~ilahe~~h 367 (368)
.+.|+.- +++.+|+.||++|
T Consensus 42 ~~~g~~~~~~l~~~v~iHElgH 63 (227)
T cd06164 42 WLLGLAAALLLFASVLLHELGH 63 (227)
T ss_pred HHHHHHHHHHHHHHHHHHHHHH
Confidence 3455543 5889999999999
Done!