Query 026158
Match_columns 242
No_of_seqs 282 out of 1193
Neff 4.6
Searched_HMMs 46136
Date Fri Mar 29 04:26:26 2013
Command hhsearch -i /work/01045/syshi/csienesis_hhblits_a3m/026158.a3m -d /work/01045/syshi/HHdatabase/Cdd.hhm -o /work/01045/syshi/hhsearch_cdd/026158hhsearch_cdd -cpu 12 -v 0
No Hit Prob E-value P-value Score SS Cols Query HMM Template HMM
1 PF12165 DUF3594: Domain of un 100.0 1.7E-91 3.6E-96 571.3 8.7 130 9-138 1-132 (137)
2 KOG1632 Uncharacterized PHD Zn 100.0 1.4E-42 3.1E-47 323.9 -1.3 231 6-237 35-294 (345)
3 KOG1973 Chromatin remodeling p 99.1 4.1E-11 9E-16 109.2 4.8 53 182-240 215-270 (274)
4 PF00628 PHD: PHD-finger; Int 99.0 2.6E-11 5.7E-16 83.2 -0.3 50 188-238 1-51 (51)
5 COG5034 TNG2 Chromatin remodel 99.0 3.5E-10 7.6E-15 102.7 4.6 50 184-238 218-270 (271)
6 smart00249 PHD PHD zinc finger 98.9 8.4E-10 1.8E-14 72.2 3.6 47 188-235 1-47 (47)
7 KOG4323 Polycomb-like PHD Zn-f 97.8 8.2E-06 1.8E-10 79.8 2.0 49 191-240 175-226 (464)
8 KOG1632 Uncharacterized PHD Zn 97.4 4.4E-05 9.6E-10 72.3 1.1 49 188-237 62-112 (345)
9 KOG1844 PHD Zn-finger proteins 97.1 0.00038 8.2E-09 67.4 3.0 51 184-237 84-134 (508)
10 KOG0825 PHD Zn-finger protein 96.9 0.00047 1E-08 71.4 2.6 55 181-237 210-265 (1134)
11 PF13831 PHD_2: PHD-finger; PD 96.9 0.0002 4.4E-09 47.1 -0.4 35 200-236 2-36 (36)
12 KOG0955 PHD finger protein BR1 96.6 0.0019 4.1E-08 68.9 4.0 58 181-241 214-272 (1051)
13 KOG4299 PHD Zn-finger protein 96.2 0.0023 5E-08 64.6 1.8 51 186-238 253-305 (613)
14 KOG0383 Predicted helicase [Ge 96.1 0.0023 5E-08 65.8 1.4 51 181-236 42-92 (696)
15 KOG1512 PHD Zn-finger protein 96.0 0.0029 6.3E-08 59.4 1.3 45 188-236 316-361 (381)
16 KOG0954 PHD finger protein [Ge 95.7 0.0049 1.1E-07 63.6 1.8 50 185-237 270-320 (893)
17 KOG2752 Uncharacterized conser 95.6 0.007 1.5E-07 57.2 2.2 35 183-218 125-165 (345)
18 KOG1245 Chromatin remodeling c 94.6 0.0063 1.4E-07 66.8 -1.3 54 184-239 1106-1159(1404)
19 KOG0957 PHD finger protein [Ge 94.6 0.033 7.1E-07 55.9 3.6 50 187-236 120-177 (707)
20 KOG0957 PHD finger protein [Ge 94.4 0.016 3.5E-07 58.0 1.1 50 186-236 544-596 (707)
21 PF07227 DUF1423: Protein of u 94.2 0.046 1E-06 53.8 3.8 54 185-238 127-192 (446)
22 KOG1244 Predicted transcriptio 94.2 0.025 5.5E-07 52.9 1.9 48 188-237 283-330 (336)
23 PF07496 zf-CW: CW-type Zinc F 93.5 0.038 8.3E-07 38.5 1.3 33 201-234 2-34 (50)
24 KOG4443 Putative transcription 93.0 0.014 3E-07 59.7 -2.2 51 186-236 145-200 (694)
25 KOG1512 PHD Zn-finger protein 92.2 0.051 1.1E-06 51.3 0.6 54 183-236 255-315 (381)
26 KOG0956 PHD finger protein AF1 91.1 0.11 2.4E-06 53.8 1.7 47 188-237 7-56 (900)
27 COG5141 PHD zinc finger-contai 90.6 0.11 2.3E-06 52.2 1.0 51 183-236 190-241 (669)
28 PF14446 Prok-RING_1: Prokaryo 90.3 0.22 4.8E-06 35.9 2.2 34 184-217 3-36 (54)
29 PF13639 zf-RING_2: Ring finge 88.5 0.071 1.5E-06 35.3 -1.4 43 188-236 2-44 (44)
30 PF07649 C1_3: C1-like domain; 85.6 0.33 7.1E-06 30.1 0.6 29 188-217 2-30 (30)
31 PF13901 DUF4206: Domain of un 82.1 1.1 2.4E-05 39.3 2.6 46 186-241 152-201 (202)
32 PF13832 zf-HC5HC2H_2: PHD-zin 81.8 0.81 1.8E-05 35.7 1.5 31 185-218 54-86 (110)
33 KOG4443 Putative transcription 80.9 0.45 9.7E-06 49.0 -0.3 53 184-236 16-69 (694)
34 KOG1473 Nucleosome remodeling 80.9 0.5 1.1E-05 51.4 0.0 58 182-239 1118-1175(1414)
35 PF13771 zf-HC5HC2H: PHD-like 77.8 1.7 3.6E-05 32.5 2.0 34 184-220 34-69 (90)
36 KOG1829 Uncharacterized conser 73.7 0.68 1.5E-05 47.2 -1.4 50 184-241 509-562 (580)
37 PF10367 Vps39_2: Vacuolar sor 69.8 4.1 8.8E-05 30.8 2.4 30 187-218 79-108 (109)
38 KOG2626 Histone H3 (Lys4) meth 67.9 6.1 0.00013 40.1 3.8 54 184-238 18-76 (544)
39 KOG4628 Predicted E3 ubiquitin 64.2 5.8 0.00013 38.2 2.8 46 187-237 230-275 (348)
40 PF00130 C1_1: Phorbol esters/ 57.2 17 0.00036 24.6 3.4 38 185-222 10-48 (53)
41 PF11793 FANCL_C: FANCL C-term 56.7 7.9 0.00017 28.6 1.8 52 187-238 3-64 (70)
42 PF12861 zf-Apc11: Anaphase-pr 56.6 4.6 9.9E-05 31.6 0.6 48 188-237 23-79 (85)
43 TIGR01562 FdhE formate dehydro 56.2 11 0.00025 35.5 3.2 53 185-237 183-260 (305)
44 PF03107 C1_2: C1 domain; Int 55.4 12 0.00026 23.2 2.3 28 188-217 2-30 (30)
45 PF12678 zf-rbx1: RING-H2 zinc 55.2 8.9 0.00019 28.4 1.9 43 189-236 22-73 (73)
46 PF07775 PaRep2b: PaRep2b prot 52.7 15 0.00033 37.1 3.6 75 19-134 119-198 (512)
47 cd04714 BAH_BAHCC1 BAH, or Bro 50.7 9.8 0.00021 30.7 1.6 21 184-205 101-121 (121)
48 PF02318 FYVE_2: FYVE-type zin 50.2 6.3 0.00014 31.7 0.4 50 185-238 53-103 (118)
49 PRK03564 formate dehydrogenase 49.6 17 0.00037 34.5 3.2 53 185-237 186-260 (309)
50 smart00109 C1 Protein kinase C 47.5 8.4 0.00018 24.9 0.6 36 185-220 10-45 (49)
51 PF04216 FdhE: Protein involve 47.3 9.5 0.00021 34.9 1.2 54 184-237 170-246 (290)
52 PF10497 zf-4CXXC_R1: Zinc-fin 44.8 19 0.00041 28.8 2.4 53 183-237 4-69 (105)
53 PF00301 Rubredoxin: Rubredoxi 42.5 25 0.00054 24.4 2.4 13 228-240 33-45 (47)
54 KOG1952 Transcription factor N 39.5 18 0.0004 38.8 2.0 55 183-237 188-244 (950)
55 PF13341 RAG2_PHD: RAG2 PHD do 39.1 15 0.00033 28.1 1.0 36 200-235 28-68 (78)
56 KOG1473 Nucleosome remodeling 39.0 23 0.00049 39.4 2.6 48 184-236 342-389 (1414)
57 KOG4218 Nuclear hormone recept 37.8 15 0.00032 36.0 0.9 28 186-213 15-43 (475)
58 cd00162 RING RING-finger (Real 36.5 11 0.00024 23.2 -0.1 42 189-237 2-43 (45)
59 cd00350 rubredoxin_like Rubred 36.1 19 0.00041 22.8 1.0 12 228-239 16-27 (33)
60 PF05402 PqqD: Coenzyme PQQ sy 35.7 40 0.00087 23.6 2.7 33 7-39 28-60 (68)
61 PF13880 Acetyltransf_13: ESCO 34.9 8.3 0.00018 29.1 -1.0 52 19-90 16-68 (70)
62 PF13717 zinc_ribbon_4: zinc-r 34.5 33 0.00072 22.3 1.9 22 188-209 4-32 (36)
63 cd00029 C1 Protein kinase C co 34.4 25 0.00053 23.0 1.3 36 185-220 10-46 (50)
64 KOG4299 PHD Zn-finger protein 33.6 27 0.00059 36.1 2.0 49 185-237 46-94 (613)
65 PF08274 PhnA_Zn_Ribbon: PhnA 33.1 20 0.00044 22.8 0.7 10 188-197 4-13 (30)
66 PF11351 DUF3154: Protein of u 32.9 23 0.00049 29.0 1.1 13 99-111 100-114 (123)
67 PF09416 UPF1_Zn_bind: RNA hel 32.8 27 0.00058 30.1 1.6 25 189-215 3-27 (152)
68 cd04120 Rab12 Rab12 subfamily. 32.5 25 0.00054 30.4 1.4 14 62-75 184-197 (202)
69 PF06452 DUF1083: Domain of un 31.8 16 0.00034 30.0 0.0 44 56-100 123-171 (185)
70 PLN02436 cellulose synthase A 31.7 38 0.00082 37.3 2.8 53 184-240 34-89 (1094)
71 PLN03208 E3 ubiquitin-protein 31.4 27 0.00059 31.1 1.5 50 184-237 16-76 (193)
72 KOG3799 Rab3 effector RIM1 and 31.3 21 0.00046 30.6 0.8 51 186-237 65-115 (169)
73 COG1773 Rubredoxin [Energy pro 29.4 35 0.00075 24.8 1.5 41 187-237 4-44 (55)
74 PF13111 DUF3962: Protein of u 29.3 15 0.00032 33.3 -0.6 34 87-127 24-57 (216)
75 PF05180 zf-DNL: DNL zinc fing 29.1 14 0.00031 27.6 -0.6 19 195-214 22-40 (66)
76 PF13922 PHD_3: PHD domain of 29.0 15 0.00033 27.7 -0.4 30 185-220 32-61 (69)
77 smart00744 RINGv The RING-vari 28.6 22 0.00048 24.5 0.3 45 189-236 2-49 (49)
78 PF05715 zf-piccolo: Piccolo Z 28.2 29 0.00064 25.7 0.9 53 187-240 3-60 (61)
79 PRK12775 putative trifunctiona 28.2 54 0.0012 35.5 3.3 54 183-238 793-847 (1006)
80 PHA03099 epidermal growth fact 27.7 18 0.0004 30.6 -0.2 23 28-51 34-56 (139)
81 cd00730 rubredoxin Rubredoxin; 27.2 37 0.0008 23.9 1.3 12 228-239 33-44 (50)
82 smart00432 MADS MADS domain. 26.7 84 0.0018 22.7 3.1 38 17-59 19-56 (59)
83 KOG2752 Uncharacterized conser 26.7 40 0.00087 32.5 1.8 52 186-241 53-104 (345)
84 PF14569 zf-UDP: Zinc-binding 26.0 16 0.00035 28.4 -0.8 51 184-238 7-60 (80)
85 PLN02400 cellulose synthase 26.0 65 0.0014 35.6 3.4 52 184-239 34-88 (1085)
86 PF13719 zinc_ribbon_5: zinc-r 25.9 64 0.0014 20.9 2.1 23 188-210 4-33 (37)
87 PF06783 UPF0239: Uncharacteri 24.9 1E+02 0.0022 24.3 3.5 36 66-132 8-43 (85)
88 PF09297 zf-NADH-PPase: NADH p 24.3 43 0.00093 20.9 1.1 25 186-210 3-29 (32)
89 CHL00174 accD acetyl-CoA carbo 24.1 29 0.00064 32.7 0.4 31 199-237 35-65 (296)
90 PF14634 zf-RING_5: zinc-RING 24.1 36 0.00078 22.4 0.7 42 189-237 2-44 (44)
91 TIGR00311 aIF-2beta translatio 23.9 45 0.00097 27.9 1.4 25 186-210 97-126 (133)
92 PF05207 zf-CSL: CSL zinc fing 23.9 29 0.00063 24.6 0.3 29 184-213 16-51 (55)
93 PF00645 zf-PARP: Poly(ADP-rib 23.5 50 0.0011 24.3 1.5 36 185-220 6-49 (82)
94 COG3896 Chloramphenicol 3-O-ph 23.5 37 0.0008 30.3 0.8 37 63-101 60-96 (205)
95 PLN02915 cellulose synthase A 23.2 76 0.0016 35.0 3.3 52 184-239 13-67 (1044)
96 PF04810 zf-Sec23_Sec24: Sec23 23.0 57 0.0012 21.5 1.5 31 203-238 3-33 (40)
97 PHA02862 5L protein; Provision 23.0 39 0.00085 29.2 0.9 47 188-237 4-50 (156)
98 TIGR00686 phnA alkylphosphonat 22.9 46 0.00099 27.3 1.2 28 187-214 3-32 (109)
99 smart00653 eIF2B_5 domain pres 22.8 49 0.0011 26.8 1.4 25 186-210 80-109 (110)
100 PF15446 zf-PHD-like: PHD/FYVE 22.6 1.2E+02 0.0026 26.9 3.8 25 195-219 117-141 (175)
101 KOG1886 BAH domain proteins [T 22.6 51 0.0011 33.1 1.7 44 189-236 173-216 (464)
102 PRK03988 translation initiatio 22.5 50 0.0011 27.8 1.4 26 186-211 102-132 (138)
103 PRK10220 hypothetical protein; 22.5 54 0.0012 27.0 1.6 29 187-215 4-34 (111)
104 KOG1941 Acetylcholine receptor 22.1 10 0.00022 37.6 -3.2 50 184-237 363-413 (518)
105 PLN02189 cellulose synthase 21.9 70 0.0015 35.2 2.7 52 184-239 32-86 (1040)
106 PF09065 Haemadin: Haemadin; 21.8 37 0.00081 20.9 0.4 9 45-53 5-13 (27)
107 PF09447 Cnl2_NKP2: Cnl2/NKP2 21.7 1.6E+02 0.0034 22.1 3.8 29 10-38 38-66 (67)
108 KOG1246 DNA-binding protein ju 21.5 68 0.0015 34.2 2.5 51 184-237 153-203 (904)
109 KOG2987 Fatty acid desaturase 21.3 82 0.0018 29.9 2.7 31 99-129 67-116 (324)
110 COG5415 Predicted integral mem 21.1 54 0.0012 30.1 1.4 24 213-239 201-224 (251)
111 PLN02638 cellulose synthase A 20.6 74 0.0016 35.1 2.6 51 184-238 15-68 (1079)
112 COG2888 Predicted Zn-ribbon RN 20.3 1.3E+02 0.0028 22.4 3.0 47 186-236 9-57 (61)
113 PHA02616 VP2/VP3; Provisional 20.3 1.4E+02 0.003 27.3 3.9 63 55-129 108-204 (259)
No 1
>PF12165 DUF3594: Domain of unknown function (DUF3594); InterPro: IPR021998 This presumed domain is functionally uncharacterised.This domain family is found in eukaryotes, and is approximately 140 amino acids in length. The family is found in association with PF00628 from PFAM.
Probab=100.00 E-value=1.7e-91 Score=571.27 Aligned_cols=130 Identities=77% Similarity=1.378 Sum_probs=128.3
Q ss_pred CCHHHHHHHHHHHHHHHHHHhhhcHHHHhhcCCcCcccceeccCCCCceeeeCCCCCCCCCCCCCCcCccccCCCccccc
Q 026158 9 RTVEEIFKDFKARRSALVRALTYDVDQFYSQCDPEKENLCLYGHPNESWEVTMPADEVPPEIPEPALGINFSRDGMCKKD 88 (242)
Q Consensus 9 ~~~~~~~~d~~~rr~~~~~alt~d~~~f~~~c~~~~~~l~lyg~~~~~w~v~~p~~~~p~~~pep~~gin~~rd~m~~~~ 88 (242)
||||+||+||++||+|||||||+|||+||+||||+||||||||+|||+|||+||+||||||||||+||||||||||+|+|
T Consensus 1 rtve~if~df~~RR~g~v~ALT~dve~Fy~~CDP~kenLCLYG~p~~~WeV~lP~eevPpeLPEPaLGINfaRDgM~r~d 80 (137)
T PF12165_consen 1 RTVEEIFRDFSGRRAGIVRALTTDVEEFYQQCDPEKENLCLYGHPDGTWEVNLPAEEVPPELPEPALGINFARDGMQRKD 80 (137)
T ss_pred CCHHHHHHHHHHHHHHHHHHHHHHHHHHHHhcCccccceEEecCCCCCeEEeCChHhCCCCCCCcccCcccccCCccHHH
Confidence 79999999999999999999999999999999999999999999999999999999999999999999999999999999
Q ss_pred ceeeeeeechhHHHHHHHHhhcc--cCchhhHHHHHhhhcCCcchhhccccc
Q 026158 89 WLSLVAVHSDCWLVAVAFYFGAR--LNGNERKRLYSLINDLPTLFEVVTGRI 138 (242)
Q Consensus 89 wl~~va~h~d~wl~~~a~~~~~~--~~~~~r~~lf~min~LPTvfEVVtgkk 138 (242)
||||||||||||||||||||||| ||+++|+|||+|||+||||||||||+.
T Consensus 81 WLslVAvHsDsWLlsvAfy~gar~~~~~~~R~rLF~mIN~lpTv~Evv~g~~ 132 (137)
T PF12165_consen 81 WLSLVAVHSDSWLLSVAFYFGARFGFDKNERKRLFSMINDLPTVFEVVTGRA 132 (137)
T ss_pred HHHHHHHhccHHHHHHHHHHHHhhccChHHHHHHHHHHhcCchHHHHHhccc
Confidence 99999999999999999999999 799999999999999999999999953
No 2
>KOG1632 consensus Uncharacterized PHD Zn-finger protein [General function prediction only]
Probab=100.00 E-value=1.4e-42 Score=323.86 Aligned_cols=231 Identities=36% Similarity=0.607 Sum_probs=196.6
Q ss_pred CCCCCHHHHHHHHHHHHHHHHHHhhhcHHHHhhcCCc----CcccceeccCCCCceeeeCCCCCCCCCCCCCCcCccccC
Q 026158 6 SSPRTVEEIFKDFKARRSALVRALTYDVDQFYSQCDP----EKENLCLYGHPNESWEVTMPADEVPPEIPEPALGINFSR 81 (242)
Q Consensus 6 ~~~~~~~~~~~d~~~rr~~~~~alt~d~~~f~~~c~~----~~~~l~lyg~~~~~w~v~~p~~~~p~~~pep~~gin~~r 81 (242)
+.+++|+++|.+|++||++++.||++++..||.+||| .++|+|+|+++++.|+|++|++++|++++++++|||+++
T Consensus 35 ~~~~~~~~~~~~~k~~~~~~~~a~~~~~~~~~~~~~p~~~~~~cd~C~~~~~~ec~~v~~~~~e~p~~~~~~c~~c~~~~ 114 (345)
T KOG1632|consen 35 PIERPVPDVFRGRKGRRGGLLKALTQRYCKCYKPCDPDDLMEQCDLCEDWYHGECWEVGTAEKEAPKEDPKVCDECKEAQ 114 (345)
T ss_pred CCCCCCcccccccccccccccHhhhhchhhcccccCchhhhhccccccccccccccccCchhhcCCccccccccccchhh
Confidence 6789999999999999999999999999999999999 789999999999999999999999999999999999999
Q ss_pred CCcccccceeeeeeechhHHHHHHHHhhccc-------CchhhHHHHHhhhcCCcchhhccccc----cccCCCCCCCCC
Q 026158 82 DGMCKKDWLSLVAVHSDCWLVAVAFYFGARL-------NGNERKRLYSLINDLPTLFEVVTGRI----SVKDNQPGADGR 150 (242)
Q Consensus 82 d~m~~~~wl~~va~h~d~wl~~~a~~~~~~~-------~~~~r~~lf~min~LPTvfEVVtgkk----q~Ke~Kss~~ss 150 (242)
|||+.+|||++|++|+|+|+++++||||+++ .+.+|+|+|.++|++||||+++++.. ..|. +++++++
T Consensus 115 ~~~~~~~~l~~~~~~~~~~~~s~s~~~~~~~~~~~~~~~~~~~~r~~~~~~~~~t~~~~~~~~~~~~~~~k~-~~~~~~~ 193 (345)
T KOG1632|consen 115 DGMSESDGLSCVCRQDDSELLSPSFYFGKRGCQFWVKLQKLGRVRLEAEKNDDPTVFEVVSGTATGELPSKD-KSSNDRG 193 (345)
T ss_pred hhhhhhccceeecccccccccccccccCCccccccccchhhhhhhhhhhhcccchhhhcccccccccccccc-ccccccc
Confidence 9999999999999999999999999999995 89999999999999999999999932 3343 4555555
Q ss_pred CCCCCCCCCCCCCcccccccc--cc----cc----cCCCCCCCCCCceecccCCCCCCCCCeEeccCCCCeeeccccccC
Q 026158 151 SKSWNSTKRSIDGQARSKHEL--LE----ES----LGEVDDAENDETFCGSCGGSYNSAQFWIGCDICERWYHGKCVKIT 220 (242)
Q Consensus 151 ~Kskssskr~se~q~K~~k~~--~d----E~----~eeedeed~~~~~C~iCg~~y~~d~~mIqCD~Ce~WfH~~CVgIt 220 (242)
.++.++.++....+....+.. .. +. ..+.+..+.+...|..||.++....+||.|+.|+.|||+.|+.++
T Consensus 194 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~cg~~~~~~~~~~~~~~~e~w~~~~~v~~~ 273 (345)
T KOG1632|consen 194 SKSKTRKKRNRESELEEKKRKHFSNEELTEPAREPVDESEAPDYSKLICDPCGLSDANKKFEICCDLCESWFHGDCVQIF 273 (345)
T ss_pred ceecccCcccccchhhhhhhhhccCcccccccccCCCcccccccccccccccCcchHHHHHHHHHHHHHHHhcccccccc
Confidence 555555554333222221111 11 11 334456677888899999988766899999999999999999999
Q ss_pred ccccCCCCe----eEcCCCCC
Q 026158 221 PAKAENIKQ----YKCPSCST 237 (242)
Q Consensus 221 ~~~a~~i~~----w~Cp~C~~ 237 (242)
++....+.. |+|++|..
T Consensus 274 ~a~~~~~~~~~~~~~c~~~~~ 294 (345)
T KOG1632|consen 274 EARKRLNEIRNEVYKCPHCTV 294 (345)
T ss_pred cchhhhhhhhccceecCceee
Confidence 999888877 99999986
No 3
>KOG1973 consensus Chromatin remodeling protein, contains PHD Zn-finger [Chromatin structure and dynamics]
Probab=99.13 E-value=4.1e-11 Score=109.20 Aligned_cols=53 Identities=28% Similarity=0.802 Sum_probs=41.3
Q ss_pred CCCCCceecccCCCCCCCCCeEeccC--CC-CeeeccccccCccccCCCCeeEcCCCCCccC
Q 026158 182 AENDETFCGSCGGSYNSAQFWIGCDI--CE-RWYHGKCVKITPAKAENIKQYKCPSCSTKKA 240 (242)
Q Consensus 182 ed~~~~~C~iCg~~y~~d~~mIqCD~--Ce-~WfH~~CVgIt~~~a~~i~~w~Cp~C~~Kr~ 240 (242)
+..+.++| +|++.. .+.||+||. |. +|||+.||||+..+. ++|+|+.|.....
T Consensus 215 d~~e~~yC-~Cnqvs--yg~Mi~CDn~~C~~eWFH~~CVGL~~~Pk---gkWyC~~C~~~~~ 270 (274)
T KOG1973|consen 215 DPDEPTYC-ICNQVS--YGKMIGCDNPGCPIEWFHFTCVGLKTKPK---GKWYCPRCKAENK 270 (274)
T ss_pred CCCCCEEE-Eecccc--cccccccCCCCCCcceEEEeccccccCCC---Ccccchhhhhhhh
Confidence 33445555 999654 469999996 99 999999999997653 4699999987543
No 4
>PF00628 PHD: PHD-finger; InterPro: IPR019787 Zinc finger (Znf) domains are relatively small protein motifs which contain multiple finger-like protrusions that make tandem contacts with their target molecule. Some of these domains bind zinc, but many do not; instead binding other metals such as iron, or no metal at all. For example, some family members form salt bridges to stabilise the finger-like folds. They were first identified as a DNA-binding motif in transcription factor TFIIIA from Xenopus laevis (African clawed frog), however they are now recognised to bind DNA, RNA, protein and/or lipid substrates [, , , , ]. Their binding properties depend on the amino acid sequence of the finger domains and of the linker between fingers, as well as on the higher-order structures and the number of fingers. Znf domains are often found in clusters, where fingers can have different binding specificities. There are many superfamilies of Znf motifs, varying in both sequence and structure. They display considerable versatility in binding modes, even between members of the same class (e.g. some bind DNA, others protein), suggesting that Znf motifs are stable scaffolds that have evolved specialised functions. For example, Znf-containing proteins function in gene transcription, translation, mRNA trafficking, cytoskeleton organisation, epithelial development, cell adhesion, protein folding, chromatin remodelling and zinc sensing, to name but a few []. Zinc-binding motifs are stable structures, and they rarely undergo conformational changes upon binding their target. This entry represents the PHD (homeodomain) zinc finger domain [,], which is a C4HC3 zinc-finger-like motif found in nuclear proteins thought to be involved in chromatin-mediated transcriptional regulation. The PHD finger motif is reminiscent of, but distinct from the C3HC4 type RING finger. The function of this domain is not yet known but in analogy with the LIM domain it could be involved in protein-protein interaction and be important for the assembly or activity of multicomponent complexes involved in transcriptional activation or repression. Alternatively, the interactions could be intra-molecular and be important in maintaining the structural integrity of the protein. In similarity to the RING finger and the LIM domain, the PHD finger is thought to bind two zinc ions. More information about these proteins can be found at Protein of the Month: Zinc Fingers [].; GO: 0005515 protein binding; PDB: 3ZVY_A 2LGG_A 3SOW_A 3SOU_B 3ASL_A 3ASK_A 3ZVZ_B 3T6R_A 2LGK_A 3SOX_B ....
Probab=99.05 E-value=2.6e-11 Score=83.17 Aligned_cols=50 Identities=38% Similarity=0.876 Sum_probs=40.4
Q ss_pred eecccCCCCCCCCCeEeccCCCCeeeccccccCccccCCC-CeeEcCCCCCc
Q 026158 188 FCGSCGGSYNSAQFWIGCDICERWYHGKCVKITPAKAENI-KQYKCPSCSTK 238 (242)
Q Consensus 188 ~C~iCg~~y~~d~~mIqCD~Ce~WfH~~CVgIt~~~a~~i-~~w~Cp~C~~K 238 (242)
+|.+|++.. .++.||+||.|+.|||..|++++....... ..|+|+.|.+|
T Consensus 1 ~C~vC~~~~-~~~~~i~C~~C~~~~H~~C~~~~~~~~~~~~~~w~C~~C~~~ 51 (51)
T PF00628_consen 1 YCPVCGQSD-DDGDMIQCDSCNRWYHQECVGPPEKAEEIPSGDWYCPNCRPK 51 (51)
T ss_dssp EBTTTTSSC-TTSSEEEBSTTSCEEETTTSTSSHSHHSHHSSSBSSHHHHHC
T ss_pred eCcCCCCcC-CCCCeEEcCCCChhhCcccCCCChhhccCCCCcEECcCCcCc
Confidence 578999944 478999999999999999999987743322 37999999754
No 5
>COG5034 TNG2 Chromatin remodeling protein, contains PhD zinc finger [Chromatin structure and dynamics]
Probab=98.99 E-value=3.5e-10 Score=102.67 Aligned_cols=50 Identities=24% Similarity=0.684 Sum_probs=40.6
Q ss_pred CCCceecccCCCCCCCCCeEecc--CCC-CeeeccccccCccccCCCCeeEcCCCCCc
Q 026158 184 NDETFCGSCGGSYNSAQFWIGCD--ICE-RWYHGKCVKITPAKAENIKQYKCPSCSTK 238 (242)
Q Consensus 184 ~~~~~C~iCg~~y~~d~~mIqCD--~Ce-~WfH~~CVgIt~~~a~~i~~w~Cp~C~~K 238 (242)
.++.+||.|+++.. +.||.|| .|+ +|||..|||+...+. ..|+|+.|..+
T Consensus 218 e~e~lYCfCqqvSy--GqMVaCDn~nCkrEWFH~~CVGLk~pPK---G~WYC~eCk~~ 270 (271)
T COG5034 218 EGEELYCFCQQVSY--GQMVACDNANCKREWFHLECVGLKEPPK---GKWYCPECKKA 270 (271)
T ss_pred cCceeEEEeccccc--ccceecCCCCCchhheeccccccCCCCC---CcEeCHHhHhc
Confidence 44455559999875 4899999 898 999999999987653 57999999753
No 6
>smart00249 PHD PHD zinc finger. The plant homeodomain (PHD) finger is a C4HC3 zinc-finger-like motif found in nuclear proteins thought to be involved in epigenetics and chromatin-mediated transcriptional regulation. The PHD finger binds two zinc ions using the so-called 'cross-brace' motif and is thus structurally related to the KOG4323 consensus Polycomb-like PHD Zn-finger protein [General function prediction only]
Probab=97.81 E-value=8.2e-06 Score=79.81 Aligned_cols=49 Identities=29% Similarity=0.710 Sum_probs=36.9
Q ss_pred ccCCCCCCCCCeEeccCCCCeeeccccc--cCccccCCCC-eeEcCCCCCccC
Q 026158 191 SCGGSYNSAQFWIGCDICERWYHGKCVK--ITPAKAENIK-QYKCPSCSTKKA 240 (242)
Q Consensus 191 iCg~~y~~d~~mIqCD~Ce~WfH~~CVg--It~~~a~~i~-~w~Cp~C~~Kr~ 240 (242)
.|+.+.. ...||+|+.|..|||..|.. ++...+.+.. .|+|..|.+++.
T Consensus 175 ~~g~~~~-~NrmlqC~~C~~~fHq~Chqp~i~~~l~~D~~~~w~C~~C~~~~~ 226 (464)
T KOG4323|consen 175 YCGGPGA-GNRMLQCDKCRQWYHQACHQPLIKDELAGDPFYEWFCDVCNRGPK 226 (464)
T ss_pred ecCCcCc-cceeeeecccccHHHHHhccCCCCHhhccCccceEeehhhccchh
Confidence 4555554 34999999999999999997 4555555443 899999997553
No 8
>KOG1632 consensus Uncharacterized PHD Zn-finger protein [General function prediction only]
Probab=97.44 E-value=4.4e-05 Score=72.25 Aligned_cols=49 Identities=31% Similarity=0.858 Sum_probs=45.0
Q ss_pred eecccCCCCCCCCCeEeccCCCCeeeccc--cccCccccCCCCeeEcCCCCC
Q 026158 188 FCGSCGGSYNSAQFWIGCDICERWYHGKC--VKITPAKAENIKQYKCPSCST 237 (242)
Q Consensus 188 ~C~iCg~~y~~d~~mIqCD~Ce~WfH~~C--VgIt~~~a~~i~~w~Cp~C~~ 237 (242)
+| .|..+++.+.+|++||.|..|||+.| |+++...++.++.|+|..|..
T Consensus 62 ~~-~~~~~~~p~~~~~~cd~C~~~~~~ec~~v~~~~~e~p~~~~~~c~~c~~ 112 (345)
T KOG1632|consen 62 YC-KCYKPCDPDDLMEQCDLCEDWYHGECWEVGTAEKEAPKEDPKVCDECKE 112 (345)
T ss_pred hh-hcccccCchhhhhccccccccccccccccCchhhcCCccccccccccch
Confidence 45 89999887779999999999999999 999999999999999999974
No 9
>KOG1844 consensus PHD Zn-finger proteins [General function prediction only]
Probab=97.05 E-value=0.00038 Score=67.39 Aligned_cols=51 Identities=27% Similarity=0.686 Sum_probs=43.2
Q ss_pred CCCceecccCCCCCCCCCeEeccCCCCeeeccccccCccccCCCCeeEcCCCCC
Q 026158 184 NDETFCGSCGGSYNSAQFWIGCDICERWYHGKCVKITPAKAENIKQYKCPSCST 237 (242)
Q Consensus 184 ~~~~~C~iCg~~y~~d~~mIqCD~Ce~WfH~~CVgIt~~~a~~i~~w~Cp~C~~ 237 (242)
.....| .|+..++.+++||||+.|..|.|.-|+|+..... .+.|.|..|..
T Consensus 84 ~~~~~c-~c~~~~~~~g~~i~c~~c~~Wqh~~C~g~~~~~~--p~~y~c~~c~~ 134 (508)
T KOG1844|consen 84 REISRC-DCGLEDDMEGLMIQCDWCGRWQHKICCGSFKSTK--PDKYVCEICTP 134 (508)
T ss_pred Cccccc-ccccccCCCceeeCCcccCcccCceeeeecCCCC--chhceeeeecc
Confidence 456678 9999876578999999999999999999887754 36799999974
No 10
>KOG0825 consensus PHD Zn-finger protein [General function prediction only]
Probab=96.94 E-value=0.00047 Score=71.44 Aligned_cols=55 Identities=22% Similarity=0.571 Sum_probs=43.9
Q ss_pred CCCCCCceecccCCCCCCCCCeEeccCCCCe-eeccccccCccccCCCCeeEcCCCCC
Q 026158 181 DAENDETFCGSCGGSYNSAQFWIGCDICERW-YHGKCVKITPAKAENIKQYKCPSCST 237 (242)
Q Consensus 181 eed~~~~~C~iCg~~y~~d~~mIqCD~Ce~W-fH~~CVgIt~~~a~~i~~w~Cp~C~~ 237 (242)
....+.+-|-+|..++. .+.||.||.|+.- ||.-|+.......+ +..|+|++|.-
T Consensus 210 ~~~~E~~~C~IC~~~Dp-EdVLLLCDsCN~~~YH~YCLDPdl~eiP-~~eWYC~NC~d 265 (1134)
T KOG0825|consen 210 GLSQEEVKCDICTVHDP-EDVLLLCDSCNKVYYHVYCLDPDLSESP-VNEWYCTNCSL 265 (1134)
T ss_pred CcccccccceeeccCCh-HHhheeecccccceeeccccCccccccc-ccceecCcchh
Confidence 34566778999999875 6799999999966 99999998665444 36799999973
No 11
>PF13831 PHD_2: PHD-finger; PDB: 2L43_A 2KU3_A.
Probab=96.87 E-value=0.0002 Score=47.14 Aligned_cols=35 Identities=20% Similarity=0.529 Sum_probs=20.0
Q ss_pred CCeEeccCCCCeeeccccccCccccCCCCeeEcCCCC
Q 026158 200 QFWIGCDICERWYHGKCVKITPAKAENIKQYKCPSCS 236 (242)
Q Consensus 200 ~~mIqCD~Ce~WfH~~CVgIt~~~a~~i~~w~Cp~C~ 236 (242)
..+|+|+.|...+|.+|.|+...... +.|+|..|.
T Consensus 2 n~ll~C~~C~v~VH~~CYGv~~~~~~--~~W~C~~C~ 36 (36)
T PF13831_consen 2 NPLLFCDNCNVAVHQSCYGVSEVPDG--DDWLCDRCE 36 (36)
T ss_dssp CEEEE-SSS--EEEHHHHT-SS--SS-------HHH-
T ss_pred CceEEeCCCCCcCChhhCCcccCCCC--CcEECCcCC
Confidence 36999999999999999999987654 359998773
No 12
>KOG0955 consensus PHD finger protein BR140/LIN-49 [General function prediction only]
Probab=96.58 E-value=0.0019 Score=68.92 Aligned_cols=58 Identities=21% Similarity=0.407 Sum_probs=45.9
Q ss_pred CCCCCCceecccCCCCCC-CCCeEeccCCCCeeeccccccCccccCCCCeeEcCCCCCccCC
Q 026158 181 DAENDETFCGSCGGSYNS-AQFWIGCDICERWYHGKCVKITPAKAENIKQYKCPSCSTKKAR 241 (242)
Q Consensus 181 eed~~~~~C~iCg~~y~~-d~~mIqCD~Ce~WfH~~CVgIt~~~a~~i~~w~Cp~C~~Kr~R 241 (242)
-+.+++..|++|...... ....|.||.|+.-+|..|+|+...+- ..|.|-.|.....|
T Consensus 214 ~~~~~D~~C~iC~~~~~~n~n~ivfCD~Cnl~VHq~Cygi~~ipe---g~WlCr~Cl~s~~~ 272 (1051)
T KOG0955|consen 214 ALLEEDAVCCICLDGECQNSNVIVFCDGCNLAVHQECYGIPFIPE---GQWLCRRCLQSPQR 272 (1051)
T ss_pred cccCCCccceeecccccCCCceEEEcCCCcchhhhhccCCCCCCC---CcEeehhhccCcCc
Confidence 445667789999876532 36899999999999999999766531 57999999987655
No 13
>KOG4299 consensus PHD Zn-finger protein [General function prediction only]
Probab=96.19 E-value=0.0023 Score=64.61 Aligned_cols=51 Identities=35% Similarity=0.763 Sum_probs=39.3
Q ss_pred CceecccCCCCCCCCCeEeccCCCCeeeccccccC--ccccCCCCeeEcCCCCCc
Q 026158 186 ETFCGSCGGSYNSAQFWIGCDICERWYHGKCVKIT--PAKAENIKQYKCPSCSTK 238 (242)
Q Consensus 186 ~~~C~iCg~~y~~d~~mIqCD~Ce~WfH~~CVgIt--~~~a~~i~~w~Cp~C~~K 238 (242)
..+|-.|++...- ...|+||.|..-||+.|+.-+ .+..+. +.|+|+.|.-|
T Consensus 253 ~~fCsaCn~~~~F-~~~i~CD~Cp~sFH~~CLePPl~~eniP~-g~W~C~ec~~k 305 (613)
T KOG4299|consen 253 EDFCSACNGSGLF-NDIICCDGCPRSFHQTCLEPPLEPENIPP-GSWFCPECKIK 305 (613)
T ss_pred HHHHHHhCCcccc-ccceeecCCchHHHHhhcCCCCCcccCCC-CccccCCCeee
Confidence 3489999998642 346999999999999999865 333333 58999999754
No 14
>KOG0383 consensus Predicted helicase [General function prediction only]
Probab=96.11 E-value=0.0023 Score=65.78 Aligned_cols=51 Identities=22% Similarity=0.559 Sum_probs=41.5
Q ss_pred CCCCCCceecccCCCCCCCCCeEeccCCCCeeeccccccCccccCCCCeeEcCCCC
Q 026158 181 DAENDETFCGSCGGSYNSAQFWIGCDICERWYHGKCVKITPAKAENIKQYKCPSCS 236 (242)
Q Consensus 181 eed~~~~~C~iCg~~y~~d~~mIqCD~Ce~WfH~~CVgIt~~~a~~i~~w~Cp~C~ 236 (242)
.++...-.|++|+.. +..|.||.|..|||..|.+....+.+... |+|++|.
T Consensus 42 ~~~~~~e~c~ic~~~----g~~l~c~tC~~s~h~~cl~~pl~~~p~~~-~~c~Rc~ 92 (696)
T KOG0383|consen 42 WDDAEQEACRICADG----GELLWCDTCPASFHASCLGPPLTPQPNGE-FICPRCF 92 (696)
T ss_pred cchhhhhhhhhhcCC----CcEEEeccccHHHHHHccCCCCCcCCccc-eeeeeec
Confidence 445666789999874 46788999999999999998877766655 9999995
No 15
>KOG1512 consensus PHD Zn-finger protein [General function prediction only]
Probab=95.98 E-value=0.0029 Score=59.41 Aligned_cols=45 Identities=27% Similarity=0.637 Sum_probs=36.9
Q ss_pred eecccCCCCCCCCCeEeccCCCCeeeccccccCccccCCCCeeEcC-CCC
Q 026158 188 FCGSCGGSYNSAQFWIGCDICERWYHGKCVKITPAKAENIKQYKCP-SCS 236 (242)
Q Consensus 188 ~C~iCg~~y~~d~~mIqCD~Ce~WfH~~CVgIt~~~a~~i~~w~Cp-~C~ 236 (242)
+|-+|++|.- ...|+.||.|++=||.-|||+..-+. +.|+|. .|.
T Consensus 316 lC~IC~~P~~-E~E~~FCD~CDRG~HT~CVGL~~lP~---G~WICD~~C~ 361 (381)
T KOG1512|consen 316 LCRICLGPVI-ESEHLFCDVCDRGPHTLCVGLQDLPR---GEWICDMRCR 361 (381)
T ss_pred hhhccCCccc-chheeccccccCCCCccccccccccC---ccchhhhHHH
Confidence 4778899876 67899999999999999999986543 579998 454
No 16
>KOG0954 consensus PHD finger protein [General function prediction only]
Probab=95.72 E-value=0.0049 Score=63.63 Aligned_cols=50 Identities=22% Similarity=0.563 Sum_probs=42.1
Q ss_pred CCceecccCCCCCC-CCCeEeccCCCCeeeccccccCccccCCCCeeEcCCCCC
Q 026158 185 DETFCGSCGGSYNS-AQFWIGCDICERWYHGKCVKITPAKAENIKQYKCPSCST 237 (242)
Q Consensus 185 ~~~~C~iCg~~y~~-d~~mIqCD~Ce~WfH~~CVgIt~~~a~~i~~w~Cp~C~~ 237 (242)
++.+|-+|+.++.. ...||.||.|..-.|..|.||..... +.|.|..|.-
T Consensus 270 edviCDvCrspD~e~~neMVfCd~Cn~cVHqaCyGIle~p~---gpWlCr~Cal 320 (893)
T KOG0954|consen 270 EDVICDVCRSPDSEEANEMVFCDKCNICVHQACYGILEVPE---GPWLCRTCAL 320 (893)
T ss_pred ccceeceecCCCccccceeEEeccchhHHHHhhhceeecCC---CCeeehhccc
Confidence 56789999998644 56899999999999999999987643 5799999863
No 17
>KOG2752 consensus Uncharacterized conserved protein, contains N-recognin-type Zn-finger [General function prediction only]
Probab=95.58 E-value=0.007 Score=57.21 Aligned_cols=35 Identities=31% Similarity=0.902 Sum_probs=28.5
Q ss_pred CCCCceecccCCCCCC-----CCCeEeccCCCCeee-ccccc
Q 026158 183 ENDETFCGSCGGSYNS-----AQFWIGCDICERWYH-GKCVK 218 (242)
Q Consensus 183 d~~~~~C~iCg~~y~~-----d~~mIqCD~Ce~WfH-~~CVg 218 (242)
.....+| .|..+|++ ++.|+||-+|+.||| -.|..
T Consensus 125 NfqG~~C-~Cd~~Ypdp~~~~e~~m~QC~iCEDWFHce~c~~ 165 (345)
T KOG2752|consen 125 NFQGLFC-KCDTPYPDPVRTEEGEMLQCVICEDWFHCEGCMQ 165 (345)
T ss_pred hhcceeE-EecCCCCCccccccceeeeEEeccchhcccccCc
Confidence 3455667 99999976 688999999999999 66654
No 18
>KOG1245 consensus Chromatin remodeling complex WSTF-ISWI, large subunit (contains heterochromatin localization, PHD and BROMO domains) [Chromatin structure and dynamics]
Probab=94.60 E-value=0.0063 Score=66.85 Aligned_cols=54 Identities=20% Similarity=0.516 Sum_probs=45.3
Q ss_pred CCCceecccCCCCCCCCCeEeccCCCCeeeccccccCccccCCCCeeEcCCCCCcc
Q 026158 184 NDETFCGSCGGSYNSAQFWIGCDICERWYHGKCVKITPAKAENIKQYKCPSCSTKK 239 (242)
Q Consensus 184 ~~~~~C~iCg~~y~~d~~mIqCD~Ce~WfH~~CVgIt~~~a~~i~~w~Cp~C~~Kr 239 (242)
....+|.+|..... ...|+-|+.|..|||.-|+......++. ..|+|+.|...+
T Consensus 1106 ~~~~~c~~cr~k~~-~~~m~lc~~c~~~~h~~C~rp~~~~~~~-~dW~C~~c~~e~ 1159 (1404)
T KOG1245|consen 1106 AVNALCKVCRRKKQ-DEKMLLCDECLSGFHLFCLRPALSSVPP-GDWMCPSCRKEH 1159 (1404)
T ss_pred cchhhhhhhhhccc-chhhhhhHhhhhhHHHHhhhhhhccCCc-CCccCCccchhh
Confidence 45678999998765 5789999999999999999987776654 579999999755
No 19
>KOG0957 consensus PHD finger protein [General function prediction only]
Probab=94.56 E-value=0.033 Score=55.86 Aligned_cols=50 Identities=22% Similarity=0.503 Sum_probs=36.9
Q ss_pred ceeccc-CCCCCCCCCeEeccCCCCeeeccccccCccc-----cC--CCCeeEcCCCC
Q 026158 187 TFCGSC-GGSYNSAQFWIGCDICERWYHGKCVKITPAK-----AE--NIKQYKCPSCS 236 (242)
Q Consensus 187 ~~C~iC-g~~y~~d~~mIqCD~Ce~WfH~~CVgIt~~~-----a~--~i~~w~Cp~C~ 236 (242)
.+||+| |+...+.+..||||.|+.-.|-.|.|+.... .. ....|+|.-|.
T Consensus 120 ~iCcVClg~rs~da~ei~qCd~CGi~VHEgCYGv~dn~si~s~~s~~stepWfCeaC~ 177 (707)
T KOG0957|consen 120 VICCVCLGQRSVDAGEILQCDKCGINVHEGCYGVLDNVSIPSGSSDCSTEPWFCEACL 177 (707)
T ss_pred eEEEEeecCccccccceeeccccCceecccccccccccccCCCCccCCCCchhhhhHh
Confidence 489999 4444445789999999999999999987221 11 12579998885
No 20
>KOG0957 consensus PHD finger protein [General function prediction only]
Probab=94.40 E-value=0.016 Score=57.97 Aligned_cols=50 Identities=24% Similarity=0.614 Sum_probs=39.3
Q ss_pred CceecccCCCCCCCCCeEeccCCCCeeeccccccCccccCCC---CeeEcCCCC
Q 026158 186 ETFCGSCGGSYNSAQFWIGCDICERWYHGKCVKITPAKAENI---KQYKCPSCS 236 (242)
Q Consensus 186 ~~~C~iCg~~y~~d~~mIqCD~Ce~WfH~~CVgIt~~~a~~i---~~w~Cp~C~ 236 (242)
...|++|.+..+ ....++||.|..-||..|+.-+-...+.- -.|.|..|.
T Consensus 544 ~ysCgiCkks~d-QHll~~CDtC~lhYHlGCL~PPLTR~Pkk~kn~gWqCsECd 596 (707)
T KOG0957|consen 544 NYSCGICKKSTD-QHLLTQCDTCHLHYHLGCLSPPLTRLPKKNKNFGWQCSECD 596 (707)
T ss_pred ceeeeeeccchh-hHHHhhcchhhceeeccccCCccccCcccccCcceeecccc
Confidence 456999999875 67899999999999999998554443321 269999993
No 21
>PF07227 DUF1423: Protein of unknown function (DUF1423); InterPro: IPR004082 A total of 715 potential protein-coding genes have been identified in the nucleotide sequence of Arabidopsis thaliana chromosome 5, with an average gene density of 1 gene per 4001 bp []. Amongst the gene products is a well-conserved family of 130.7kDa proteins that share no sequence similarity with any other known proteins, other than in plants. The sequences are characterised by an N-terminal domain of variable length, a central cysteine-rich region and a relatively acidic C-terminal domain. The sequences may possess a PHD finger.
Probab=94.24 E-value=0.046 Score=53.76 Aligned_cols=54 Identities=26% Similarity=0.699 Sum_probs=36.2
Q ss_pred CCceecccCCCCCC--CCCeEeccCCCCeeeccccc--------cCcccc-C-CCCeeEcCCCCCc
Q 026158 185 DETFCGSCGGSYNS--AQFWIGCDICERWYHGKCVK--------ITPAKA-E-NIKQYKCPSCSTK 238 (242)
Q Consensus 185 ~~~~C~iCg~~y~~--d~~mIqCD~Ce~WfH~~CVg--------It~~~a-~-~i~~w~Cp~C~~K 238 (242)
...-|++|++-+.. +-.||.||.|.-|-|..|.- .+.... . ....|+|..|..+
T Consensus 127 ~~C~C~iC~kfD~~~n~~~Wi~Cd~CgH~cH~dCALr~~~i~~G~s~~g~~g~~d~~f~C~~C~~~ 192 (446)
T PF07227_consen 127 RRCMCCICSKFDDNKNTCSWIGCDVCGHWCHLDCALRHELIGTGPSVKGSIGTLDMQFHCRACGKT 192 (446)
T ss_pred ccCCccccCCcccCCCCeeEEeccCCCceehhhhhcccccccCCccCCCCCccCceEEEccCCCCh
Confidence 45567889873322 45699999999999999962 111111 1 1138999999864
No 22
>KOG1244 consensus Predicted transcription factor Requiem/NEURO-D4 [Transcription]
Probab=94.21 E-value=0.025 Score=52.86 Aligned_cols=48 Identities=29% Similarity=0.676 Sum_probs=38.0
Q ss_pred eecccCCCCCCCCCeEeccCCCCeeeccccccCccccCCCCeeEcCCCCC
Q 026158 188 FCGSCGGSYNSAQFWIGCDICERWYHGKCVKITPAKAENIKQYKCPSCST 237 (242)
Q Consensus 188 ~C~iCg~~y~~d~~mIqCD~Ce~WfH~~CVgIt~~~a~~i~~w~Cp~C~~ 237 (242)
+|.+||...+ ++..+.||.|++=||.-|+.-+-...+. ..|.|..|..
T Consensus 283 ~csicgtsen-ddqllfcddcdrgyhmyclsppm~eppe-gswsc~KOG~ 330 (336)
T KOG1244|consen 283 YCSICGTSEN-DDQLLFCDDCDRGYHMYCLSPPMVEPPE-GSWSCHLCLE 330 (336)
T ss_pred eeccccCcCC-CceeEeecccCCceeeEecCCCcCCCCC-CchhHHHHHH
Confidence 4668888887 5678899999999999999765544443 6799999963
No 23
>PF07496 zf-CW: CW-type Zinc Finger; InterPro: IPR011124 Zinc finger (Znf) domains are relatively small protein motifs which contain multiple finger-like protrusions that make tandem contacts with their target molecule. Some of these domains bind zinc, but many do not; instead binding other metals such as iron, or no metal at all. For example, some family members form salt bridges to stabilise the finger-like folds. They were first identified as a DNA-binding motif in transcription factor TFIIIA from Xenopus laevis (African clawed frog), however they are now recognised to bind DNA, RNA, protein and/or lipid substrates [, , , , ]. Their binding properties depend on the amino acid sequence of the finger domains and of the linker between fingers, as well as on the higher-order structures and the number of fingers. Znf domains are often found in clusters, where fingers can have different binding specificities. There are many superfamilies of Znf motifs, varying in both sequence and structure. They display considerable versatility in binding modes, even between members of the same class (e.g. some bind DNA, others protein), suggesting that Znf motifs are stable scaffolds that have evolved specialised functions. For example, Znf-containing proteins function in gene transcription, translation, mRNA trafficking, cytoskeleton organisation, epithelial development, cell adhesion, protein folding, chromatin remodelling and zinc sensing, to name but a few []. Zinc-binding motifs are stable structures, and they rarely undergo conformational changes upon binding their target. This entry represents a CW-type zinc finger motif, named for its conserved cysteine and tryptophan residues. It is predicted to be a highly specialised mononuclear four-cysteine (C4) zinc finger that plays a role in DNA binding and/or promoting protein-protein interactions in complicated eukaryotic processes including chromatin methylation status and early embryonic development. Weak homology to members of IPR001965 from INTERPRO further evidences these predictions. The domain is found exclusively in vertebrates, vertebrate-infecting parasites and higher plants []. More information about these proteins can be found at Protein of the Month: Zinc Fingers [].; GO: 0008270 zinc ion binding; PDB: 2RR4_A 2E61_A 2L7P_A.
Probab=93.48 E-value=0.038 Score=38.50 Aligned_cols=33 Identities=24% Similarity=0.787 Sum_probs=16.7
Q ss_pred CeEeccCCCCeeeccccccCccccCCCCeeEcCC
Q 026158 201 FWIGCDICERWYHGKCVKITPAKAENIKQYKCPS 234 (242)
Q Consensus 201 ~mIqCD~Ce~WfH~~CVgIt~~~a~~i~~w~Cp~ 234 (242)
.|||||.|.+|=... .++........+.|+|..
T Consensus 2 ~WVQCd~C~KWR~lp-~~~~~~~~~~~d~W~C~~ 34 (50)
T PF07496_consen 2 YWVQCDSCLKWRRLP-EEVDPIREELPDPWYCSM 34 (50)
T ss_dssp EEEE-TTT--EEEE--CCHHCTSCCSSTT--GGG
T ss_pred eEEECCCCCceeeCC-hhhCcccccCCCeEEcCC
Confidence 699999999998776 444331111224799986
No 24
>KOG4443 consensus Putative transcription factor HALR/MLL3, involved in embryonic development [General function prediction only]
Probab=92.99 E-value=0.014 Score=59.66 Aligned_cols=51 Identities=35% Similarity=0.853 Sum_probs=39.9
Q ss_pred CceecccCCCCCCC--CCeEeccCCCCeeeccccccCccccC--CCC-eeEcCCCC
Q 026158 186 ETFCGSCGGSYNSA--QFWIGCDICERWYHGKCVKITPAKAE--NIK-QYKCPSCS 236 (242)
Q Consensus 186 ~~~C~iCg~~y~~d--~~mIqCD~Ce~WfH~~CVgIt~~~a~--~i~-~w~Cp~C~ 236 (242)
..+|++|...|... ..|++|++|.+|.|+.|.++...... .++ .|.|.-|+
T Consensus 145 ~~~cPvc~~~Y~~~e~~~~~~c~~c~rwsh~~c~~~sdd~~~q~~vD~~~~CS~CR 200 (694)
T KOG4443|consen 145 LSYCPVCLIVYQDSESLPMVCCSICQRWSHGGCDGISDDKYMQAQVDLQYKCSTCR 200 (694)
T ss_pred cccCchHHHhhhhccchhhHHHHHhcccccCCCCccchHHHHHHhhhhhcccceee
Confidence 46788999888653 44799999999999999998766422 124 79999996
No 25
>KOG1512 consensus PHD Zn-finger protein [General function prediction only]
Probab=92.18 E-value=0.051 Score=51.26 Aligned_cols=54 Identities=24% Similarity=0.447 Sum_probs=41.6
Q ss_pred CCCCceecccCCCCC-----CCCCeEeccCCCCeeeccccccCccccCCCC--eeEcCCCC
Q 026158 183 ENDETFCGSCGGSYN-----SAQFWIGCDICERWYHGKCVKITPAKAENIK--QYKCPSCS 236 (242)
Q Consensus 183 d~~~~~C~iCg~~y~-----~d~~mIqCD~Ce~WfH~~CVgIt~~~a~~i~--~w~Cp~C~ 236 (242)
......|++|-.... ..+.||.|..|..-+|..|+.++...+..++ .|.|.+|.
T Consensus 255 ~~~~~~~~~~~~~~~~~~~~r~~S~I~C~~C~~~~HP~Ci~M~~elv~~~KTY~W~C~~C~ 315 (381)
T KOG1512|consen 255 NQRRNERKHFWDIQTNIIQSRRNSWIVCKPCATRPHPYCVAMIPELVGQYKTYFWKCSSCE 315 (381)
T ss_pred CcchhhhhhhhcchhhhhhhhhccceeecccccCCCCcchhcCHHHHhHHhhcchhhcccH
Confidence 355667888854332 1468999999999999999999998876655 57888875
No 26
>KOG0956 consensus PHD finger protein AF10 [General function prediction only]
Probab=91.10 E-value=0.11 Score=53.81 Aligned_cols=47 Identities=21% Similarity=0.498 Sum_probs=36.9
Q ss_pred eecccCCCCC-CCCCeEecc--CCCCeeeccccccCccccCCCCeeEcCCCCC
Q 026158 188 FCGSCGGSYN-SAQFWIGCD--ICERWYHGKCVKITPAKAENIKQYKCPSCST 237 (242)
Q Consensus 188 ~C~iCg~~y~-~d~~mIqCD--~Ce~WfH~~CVgIt~~~a~~i~~w~Cp~C~~ 237 (242)
-||+|...-. .+..+|-|| .|..-.|..|.||..-+. ..|||..|..
T Consensus 7 GCCVCSDErGWaeNPLVYCDG~nCsVAVHQaCYGIvqVPt---GpWfCrKCes 56 (900)
T KOG0956|consen 7 GCCVCSDERGWAENPLVYCDGHNCSVAVHQACYGIVQVPT---GPWFCRKCES 56 (900)
T ss_pred ceeeecCcCCCccCceeeecCCCceeeeehhcceeEecCC---Cchhhhhhhh
Confidence 3889965321 156899999 899999999999987642 5799999974
No 27
>COG5141 PHD zinc finger-containing protein [General function prediction only]
Probab=90.59 E-value=0.11 Score=52.20 Aligned_cols=51 Identities=24% Similarity=0.503 Sum_probs=39.9
Q ss_pred CCCCceecccCCCCCC-CCCeEeccCCCCeeeccccccCccccCCCCeeEcCCCC
Q 026158 183 ENDETFCGSCGGSYNS-AQFWIGCDICERWYHGKCVKITPAKAENIKQYKCPSCS 236 (242)
Q Consensus 183 d~~~~~C~iCg~~y~~-d~~mIqCD~Ce~WfH~~CVgIt~~~a~~i~~w~Cp~C~ 236 (242)
+.-+..|.+|....++ ..-.|-||+|+.-.|..|.||.--+. +.|.|-.|.
T Consensus 190 d~~d~~C~~c~~t~~eN~naiVfCdgC~i~VHq~CYGI~f~pe---G~WlCrkCi 241 (669)
T COG5141 190 DEFDDICTKCTSTHNENSNAIVFCDGCEICVHQSCYGIQFLPE---GFWLCRKCI 241 (669)
T ss_pred hhhhhhhHhccccccCCcceEEEecCcchhhhhhcccceecCc---chhhhhhhc
Confidence 3455678889887764 35688899999999999999976532 579999986
No 28
>PF14446 Prok-RING_1: Prokaryotic RING finger family 1
Probab=90.31 E-value=0.22 Score=35.88 Aligned_cols=34 Identities=24% Similarity=0.583 Sum_probs=29.9
Q ss_pred CCCceecccCCCCCCCCCeEeccCCCCeeecccc
Q 026158 184 NDETFCGSCGGSYNSAQFWIGCDICERWYHGKCV 217 (242)
Q Consensus 184 ~~~~~C~iCg~~y~~d~~mIqCD~Ce~WfH~~CV 217 (242)
.....|.+|+++..+++.-|.|..|..-||..|.
T Consensus 3 ~~~~~C~~Cg~~~~~~dDiVvCp~CgapyHR~C~ 36 (54)
T PF14446_consen 3 YEGCKCPVCGKKFKDGDDIVVCPECGAPYHRDCW 36 (54)
T ss_pred ccCccChhhCCcccCCCCEEECCCCCCcccHHHH
Confidence 3457899999998767889999999999999998
No 29
>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=88.46 E-value=0.071 Score=35.32 Aligned_cols=43 Identities=21% Similarity=0.563 Sum_probs=31.9
Q ss_pred eecccCCCCCCCCCeEeccCCCCeeeccccccCccccCCCCeeEcCCCC
Q 026158 188 FCGSCGGSYNSAQFWIGCDICERWYHGKCVKITPAKAENIKQYKCPSCS 236 (242)
Q Consensus 188 ~C~iCg~~y~~d~~mIqCD~Ce~WfH~~CVgIt~~~a~~i~~w~Cp~C~ 236 (242)
.|++|...+..+...+... |+-.||.+|+.--... ...||.|+
T Consensus 2 ~C~IC~~~~~~~~~~~~l~-C~H~fh~~Ci~~~~~~-----~~~CP~CR 44 (44)
T PF13639_consen 2 ECPICLEEFEDGEKVVKLP-CGHVFHRSCIKEWLKR-----NNSCPVCR 44 (44)
T ss_dssp CETTTTCBHHTTSCEEEET-TSEEEEHHHHHHHHHH-----SSB-TTTH
T ss_pred CCcCCChhhcCCCeEEEcc-CCCeeCHHHHHHHHHh-----CCcCCccC
Confidence 3899999887667777777 9999999998644332 24888884
No 30
>PF07649 C1_3: C1-like domain; InterPro: IPR011424 This short domain is rich in cysteines and histidines. The pattern of conservation is similar to that found in IPR002219 from INTERPRO. C1 domains are protein kinase C-like zinc finger structures. Diacylglycerol (DAG) kinases (DGKs) have a two or three commonly conserved cysteine-rich C1 domains []. DGKs modulate the balance between the two signaling lipids, DAG and phosphatidic acid (PA), by phosphorylating DAG to yield PA []. The PKD (protein kinase D) family are novel DAG receptors. They have twin C1 domains, designated C1a and C1b, which bind DAG or phorbol esters. Individual C1 domains differ in ligand-binding activity and selectivity []. ; GO: 0047134 protein-disulfide reductase activity, 0055114 oxidation-reduction process; PDB: 1V5N_A.
Probab=85.62 E-value=0.33 Score=30.15 Aligned_cols=29 Identities=24% Similarity=0.763 Sum_probs=12.7
Q ss_pred eecccCCCCCCCCCeEeccCCCCeeecccc
Q 026158 188 FCGSCGGSYNSAQFWIGCDICERWYHGKCV 217 (242)
Q Consensus 188 ~C~iCg~~y~~d~~mIqCD~Ce~WfH~~CV 217 (242)
.|.+|+++... ..+-.|..|+-.+|..|+
T Consensus 2 ~C~~C~~~~~~-~~~Y~C~~Cdf~lH~~Ca 30 (30)
T PF07649_consen 2 RCDACGKPIDG-GWFYRCSECDFDLHEECA 30 (30)
T ss_dssp --TTTS----S---EEE-TTT-----HHHH
T ss_pred cCCcCCCcCCC-CceEECccCCCccChhcC
Confidence 47889998763 578889999999999985
No 31
>PF13901 DUF4206: Domain of unknown function (DUF4206)
Probab=82.13 E-value=1.1 Score=39.35 Aligned_cols=46 Identities=22% Similarity=0.651 Sum_probs=33.9
Q ss_pred CceecccCCCCC----CCCCeEeccCCCCeeeccccccCccccCCCCeeEcCCCCCccCC
Q 026158 186 ETFCGSCGGSYN----SAQFWIGCDICERWYHGKCVKITPAKAENIKQYKCPSCSTKKAR 241 (242)
Q Consensus 186 ~~~C~iCg~~y~----~d~~mIqCD~Ce~WfH~~CVgIt~~~a~~i~~w~Cp~C~~Kr~R 241 (242)
+-+|.+|+...- ..+.-+.|+.|..-||-.|..- =.||.|.+.+.|
T Consensus 152 GfiCe~C~~~~~IfPF~~~~~~~C~~C~~v~H~~C~~~----------~~CpkC~R~~~r 201 (202)
T PF13901_consen 152 GFICEICNSDDIIFPFQIDTTVRCPKCKSVFHKSCFRK----------KSCPKCARRQKR 201 (202)
T ss_pred CCCCccCCCCCCCCCCCCCCeeeCCcCccccchhhcCC----------CCCCCcHhHhcc
Confidence 456778876421 1346789999999999999962 129999987766
No 32
>PF13832 zf-HC5HC2H_2: PHD-zinc-finger like domain
Probab=81.78 E-value=0.81 Score=35.66 Aligned_cols=31 Identities=29% Similarity=0.620 Sum_probs=26.3
Q ss_pred CCceecccCCCCCCCCCeEeccC--CCCeeeccccc
Q 026158 185 DETFCGSCGGSYNSAQFWIGCDI--CERWYHGKCVK 218 (242)
Q Consensus 185 ~~~~C~iCg~~y~~d~~mIqCD~--Ce~WfH~~CVg 218 (242)
....|.+|++.. +..|+|.. |..+||..|.-
T Consensus 54 ~~~~C~iC~~~~---G~~i~C~~~~C~~~fH~~CA~ 86 (110)
T PF13832_consen 54 FKLKCSICGKSG---GACIKCSHPGCSTAFHPTCAR 86 (110)
T ss_pred cCCcCcCCCCCC---ceeEEcCCCCCCcCCCHHHHH
Confidence 456799999973 47999997 99999999974
No 33
>KOG4443 consensus Putative transcription factor HALR/MLL3, involved in embryonic development [General function prediction only]
Probab=80.95 E-value=0.45 Score=49.01 Aligned_cols=53 Identities=30% Similarity=0.557 Sum_probs=40.5
Q ss_pred CCCceecccCCCCCC-CCCeEeccCCCCeeeccccccCccccCCCCeeEcCCCC
Q 026158 184 NDETFCGSCGGSYNS-AQFWIGCDICERWYHGKCVKITPAKAENIKQYKCPSCS 236 (242)
Q Consensus 184 ~~~~~C~iCg~~y~~-d~~mIqCD~Ce~WfH~~CVgIt~~~a~~i~~w~Cp~C~ 236 (242)
.....|.+|+..... .+.|+.|..|..-||.-||.+-...+....-|.|+.|+
T Consensus 16 ~~~~mc~l~~s~G~~~ag~m~ac~~c~~~yH~~cvt~~~~~~~l~~gWrC~~cr 69 (694)
T KOG4443|consen 16 IVCLMCPLCGSSGKGRAGRLLACSDCGQKYHPYCVTSWAQHAVLSGGWRCPSCR 69 (694)
T ss_pred hhhhhhhhhccccccccCcchhhhhhcccCCcchhhHHHhHHHhcCCcccCCce
Confidence 445567788765432 46799999999999999999766665555669999996
No 34
>KOG1473 consensus Nucleosome remodeling factor, subunit NURF301/BPTF [Chromatin structure and dynamics; Transcription]
Probab=80.92 E-value=0.5 Score=51.43 Aligned_cols=58 Identities=24% Similarity=0.589 Sum_probs=49.6
Q ss_pred CCCCCceecccCCCCCCCCCeEeccCCCCeeeccccccCccccCCCCeeEcCCCCCcc
Q 026158 182 AENDETFCGSCGGSYNSAQFWIGCDICERWYHGKCVKITPAKAENIKQYKCPSCSTKK 239 (242)
Q Consensus 182 ed~~~~~C~iCg~~y~~d~~mIqCD~Ce~WfH~~CVgIt~~~a~~i~~w~Cp~C~~Kr 239 (242)
-.....+|.+|..+|+.+...|.|-.|..|+|..-|.+.....+..-.+.|-.|++-+
T Consensus 1118 kp~~~p~~~i~~~p~~pg~~~i~~~~~~~~~~~~~v~ln~s~~p~~~~~k~~~~~ri~ 1175 (1414)
T KOG1473|consen 1118 KPTLSPVCFICTLPYNPGLTYIHCTVCMTWGHKEAVKLNSSPIPEVVGFKCCQCRRIR 1175 (1414)
T ss_pred CCCCCccccceeeccCCCCCcceEEEeeccCcceeEecCCCcchHHhhhhHHhhhccC
Confidence 3456678999999999999999999999999999999988876665578998887644
No 35
>PF13771 zf-HC5HC2H: PHD-like zinc-binding domain
Probab=77.80 E-value=1.7 Score=32.51 Aligned_cols=34 Identities=26% Similarity=0.579 Sum_probs=27.0
Q ss_pred CCCceecccCCCCCCCCCeEecc--CCCCeeeccccccC
Q 026158 184 NDETFCGSCGGSYNSAQFWIGCD--ICERWYHGKCVKIT 220 (242)
Q Consensus 184 ~~~~~C~iCg~~y~~d~~mIqCD--~Ce~WfH~~CVgIt 220 (242)
.....|.+|++++ +-.|+|. .|...||..|.-..
T Consensus 34 ~~~~~C~~C~~~~---Ga~i~C~~~~C~~~fH~~CA~~~ 69 (90)
T PF13771_consen 34 RRKLKCSICKKKG---GACIGCSHPGCSRSFHVPCARKA 69 (90)
T ss_pred HhCCCCcCCCCCC---CeEEEEeCCCCCcEEChHHHccC
Confidence 3445799999873 3789998 69999999998543
No 36
>KOG1829 consensus Uncharacterized conserved protein, contains C1, PH and RUN domains [Signal transduction mechanisms]
Probab=73.73 E-value=0.68 Score=47.19 Aligned_cols=50 Identities=22% Similarity=0.566 Sum_probs=34.1
Q ss_pred CCCceecccCCCCC----CCCCeEeccCCCCeeeccccccCccccCCCCeeEcCCCCCccCC
Q 026158 184 NDETFCGSCGGSYN----SAQFWIGCDICERWYHGKCVKITPAKAENIKQYKCPSCSTKKAR 241 (242)
Q Consensus 184 ~~~~~C~iCg~~y~----~d~~mIqCD~Ce~WfH~~CVgIt~~~a~~i~~w~Cp~C~~Kr~R 241 (242)
....+|.+|..+.- ....-.-|+.|..|||-+|...... .||.|.+.+.|
T Consensus 509 ~~gfiCe~Cq~~~iiyPF~~~~~~rC~~C~avfH~~C~~r~s~--------~CPrC~R~q~r 562 (580)
T KOG1829|consen 509 GKGFICELCQHNDIIYPFETRNTRRCSTCLAVFHKKCLRRKSP--------CCPRCERRQKR 562 (580)
T ss_pred cCeeeeeeccCCCcccccccccceeHHHHHHHHHHHHHhccCC--------CCCchHHHHHH
Confidence 44556777743221 0334578999999999999976543 29999976554
No 37
>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=69.75 E-value=4.1 Score=30.81 Aligned_cols=30 Identities=27% Similarity=0.450 Sum_probs=23.0
Q ss_pred ceecccCCCCCCCCCeEeccCCCCeeeccccc
Q 026158 187 TFCGSCGGSYNSAQFWIGCDICERWYHGKCVK 218 (242)
Q Consensus 187 ~~C~iCg~~y~~d~~mIqCD~Ce~WfH~~CVg 218 (242)
..|.+|+++-..+.|.+..+ +.-||..|..
T Consensus 79 ~~C~vC~k~l~~~~f~~~p~--~~v~H~~C~~ 108 (109)
T PF10367_consen 79 TKCSVCGKPLGNSVFVVFPC--GHVVHYSCIK 108 (109)
T ss_pred CCccCcCCcCCCceEEEeCC--CeEEeccccc
Confidence 46999999987666666644 4889999974
No 38
>KOG2626 consensus Histone H3 (Lys4) methyltransferase complex, subunit CPS60/ASH2/BRE2 [Chromatin structure and dynamics; Transcription]
Probab=67.94 E-value=6.1 Score=40.09 Aligned_cols=54 Identities=20% Similarity=0.574 Sum_probs=37.1
Q ss_pred CCCceecccCCCCCCCCCeEeccCCCCeeeccccccCcc---ccCCC--CeeEcCCCCCc
Q 026158 184 NDETFCGSCGGSYNSAQFWIGCDICERWYHGKCVKITPA---KAENI--KQYKCPSCSTK 238 (242)
Q Consensus 184 ~~~~~C~iCg~~y~~d~~mIqCD~Ce~WfH~~CVgIt~~---~a~~i--~~w~Cp~C~~K 238 (242)
...++| .|+...+....-+||-.|-+|||..|...... ..+.+ ..|.|..|...
T Consensus 18 ~~~~~~-y~e~~r~l~~~elqcs~clk~~~~~~~~~~~~~~s~~pf~t~y~fvc~~c~~~ 76 (544)
T KOG2626|consen 18 KQATVC-YCEGERNLGIVELQCSTCLKWFHLPTLEAFHLIKSSLPFMTSYEFVCKECTPS 76 (544)
T ss_pred cCcccc-ccccccccCceeeEeeecccccccccccccccccccCCcccceeEEeccccCc
Confidence 344556 89988777778899999999999855432221 11111 47999999753
No 39
>KOG4628 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=64.19 E-value=5.8 Score=38.25 Aligned_cols=46 Identities=20% Similarity=0.497 Sum_probs=33.5
Q ss_pred ceecccCCCCCCCCCeEeccCCCCeeeccccccCccccCCCCeeEcCCCCC
Q 026158 187 TFCGSCGGSYNSAQFWIGCDICERWYHGKCVKITPAKAENIKQYKCPSCST 237 (242)
Q Consensus 187 ~~C~iCg~~y~~d~~mIqCD~Ce~WfH~~CVgIt~~~a~~i~~w~Cp~C~~ 237 (242)
..|++|-..|..|+- +.==-|.--||..||.---... .-+||-|.+
T Consensus 230 ~~CaIClEdY~~Gdk-lRiLPC~H~FH~~CIDpWL~~~----r~~CPvCK~ 275 (348)
T KOG4628|consen 230 DTCAICLEDYEKGDK-LRILPCSHKFHVNCIDPWLTQT----RTFCPVCKR 275 (348)
T ss_pred ceEEEeecccccCCe-eeEecCCCchhhccchhhHhhc----CccCCCCCC
Confidence 679999999975433 3337899899999997443321 257999986
No 40
>PF00130 C1_1: Phorbol esters/diacylglycerol binding domain (C1 domain); InterPro: IPR002219 Diacylglycerol (DAG) is an important second messenger. Phorbol esters (PE) are analogues of DAG and potent tumour promoters that cause a variety of physiological changes when administered to both cells and tissues. DAG activates a family of serine/threonine protein kinases, collectively known as protein kinase C (PKC) []. Phorbol esters can directly stimulate PKC. The N-terminal region of PKC, known as C1, has been shown [] to bind PE and DAG in a phospholipid and zinc-dependent fashion. The C1 region contains one or two copies (depending on the isozyme of PKC) of a cysteine-rich domain, which is about 50 amino-acid residues long, and which is essential for DAG/PE-binding. The DAG/PE-binding domain binds two zinc ions; the ligands of these metal ions are probably the six cysteines and two histidines that are conserved in this domain.; GO: 0035556 intracellular signal transduction; PDB: 1RFH_A 2FNF_X 3PFQ_A 1PTQ_A 1PTR_A 2VRW_B 1XA6_A 2ENN_A 1TBN_A 1TBO_A ....
Probab=57.15 E-value=17 Score=24.57 Aligned_cols=38 Identities=26% Similarity=0.550 Sum_probs=27.8
Q ss_pred CCceecccCCCCC-CCCCeEeccCCCCeeeccccccCcc
Q 026158 185 DETFCGSCGGSYN-SAQFWIGCDICERWYHGKCVKITPA 222 (242)
Q Consensus 185 ~~~~C~iCg~~y~-~d~~mIqCD~Ce~WfH~~CVgIt~~ 222 (242)
..+.|.+|++.-- ....-..|..|..-.|-+|....+.
T Consensus 10 ~~~~C~~C~~~i~g~~~~g~~C~~C~~~~H~~C~~~~~~ 48 (53)
T PF00130_consen 10 KPTYCDVCGKFIWGLGKQGYRCSWCGLVCHKKCLSKVPP 48 (53)
T ss_dssp STEB-TTSSSBECSSSSCEEEETTTT-EEETTGGCTSSS
T ss_pred CCCCCcccCcccCCCCCCeEEECCCCChHhhhhhhhcCC
Confidence 4578999998762 2456789999999999999975543
No 41
>PF11793 FANCL_C: FANCL C-terminal domain; PDB: 3K1L_A.
Probab=56.75 E-value=7.9 Score=28.57 Aligned_cols=52 Identities=21% Similarity=0.325 Sum_probs=19.4
Q ss_pred ceecccCCCCC--CCCCeEecc--CCCCeeeccccccC-----cc-ccCCCCeeEcCCCCCc
Q 026158 187 TFCGSCGGSYN--SAQFWIGCD--ICERWYHGKCVKIT-----PA-KAENIKQYKCPSCSTK 238 (242)
Q Consensus 187 ~~C~iCg~~y~--~d~~mIqCD--~Ce~WfH~~CVgIt-----~~-~a~~i~~w~Cp~C~~K 238 (242)
.-|++|..... +...-+.|+ .|..-||..|+--- .. ..-......||.|...
T Consensus 3 ~~C~IC~~~~~~~~~~p~~~C~n~~C~~~fH~~CL~~wf~~~~~~~~~~~~~~G~CP~C~~~ 64 (70)
T PF11793_consen 3 LECGICYSYRLDDGEIPDVVCPNPSCGKKFHLLCLSEWFLSLEKSRQSFIPIFGECPYCSSP 64 (70)
T ss_dssp -S-SSS--SS-TT-----B--S-TT----B-SGGGHHHHHHHHSSS-TTT--EEE-TTT-SE
T ss_pred CCCCcCCcEecCCCCcCceEcCCcccCCHHHHHHHHHHHHHcccCCeeecccccCCcCCCCe
Confidence 34999986533 234567898 99999999998521 11 1111235789999863
No 42
>PF12861 zf-Apc11: Anaphase-promoting complex subunit 11 RING-H2 finger
Probab=56.62 E-value=4.6 Score=31.63 Aligned_cols=48 Identities=19% Similarity=0.512 Sum_probs=28.8
Q ss_pred eecccCCCCCC---------CCCeEeccCCCCeeeccccccCccccCCCCeeEcCCCCC
Q 026158 188 FCGSCGGSYNS---------AQFWIGCDICERWYHGKCVKITPAKAENIKQYKCPSCST 237 (242)
Q Consensus 188 ~C~iCg~~y~~---------d~~mIqCD~Ce~WfH~~CVgIt~~~a~~i~~w~Cp~C~~ 237 (242)
.|++|+.++++ ++--|.-..|.--||..|+.--..... .+=.||.|++
T Consensus 23 ~CgICr~~fdg~Cp~Ck~Pgd~Cplv~g~C~H~FH~hCI~kWl~~~~--~~~~CPmCR~ 79 (85)
T PF12861_consen 23 VCGICRMPFDGCCPDCKFPGDDCPLVWGKCSHNFHMHCILKWLSTQS--SKGQCPMCRQ 79 (85)
T ss_pred ceeeEecccccCCCCccCCCCCCceeeccCccHHHHHHHHHHHcccc--CCCCCCCcCC
Confidence 48888776652 111222236898999999863222111 2358999986
No 43
>TIGR01562 FdhE formate dehydrogenase accessory protein FdhE. The only sequence scoring between trusted and noise is that from Aquifex aeolicus, which shows certain structural differences from the proteobacterial forms in the alignment. However it is notable that A. aeolicus also has a sequence scoring above trusted to the alpha subunit of formate dehydrogenase (TIGR01553).
Probab=56.21 E-value=11 Score=35.51 Aligned_cols=53 Identities=26% Similarity=0.666 Sum_probs=31.8
Q ss_pred CCceecccCCCC----------CCCCCeEeccCCCCeeec---cccccCccc------c------CCCCeeEcCCCCC
Q 026158 185 DETFCGSCGGSY----------NSAQFWIGCDICERWYHG---KCVKITPAK------A------ENIKQYKCPSCST 237 (242)
Q Consensus 185 ~~~~C~iCg~~y----------~~d~~mIqCD~Ce~WfH~---~CVgIt~~~------a------~~i~~w~Cp~C~~ 237 (242)
...+|++||..- ..+..+..|..|+.-+|. +|..-...+ . ..+....|..|..
T Consensus 183 ~~~~CPvCGs~P~~s~~~~~~~~~G~RyL~CslC~teW~~~R~~C~~Cg~~~~l~y~~~e~~~~~~~~r~e~C~~C~~ 260 (305)
T TIGR01562 183 SRTLCPACGSPPVASMVRQGGKETGLRYLSCSLCATEWHYVRVKCSHCEESKHLAYLSLEHDAEKAVLKAETCDSCQG 260 (305)
T ss_pred CCCcCCCCCChhhhhhhcccCCCCCceEEEcCCCCCcccccCccCCCCCCCCceeeEeecCCCCCcceEEeecccccc
Confidence 345899998642 235679999999943355 454321111 1 1234568999974
No 44
>PF03107 C1_2: C1 domain; InterPro: IPR004146 This short domain is rich in cysteines and histidines. The pattern of conservation is similar to that found in DAG_PE-bind (IPR002219 from INTERPRO), therefore we have termed this domain DC1 for divergent C1 domain. This domain probably also binds to two zinc ions. The function of proteins with this domain is uncertain, however this domain may bind to molecules such as diacylglycerol. This family are found in plant proteins.
Probab=55.43 E-value=12 Score=23.19 Aligned_cols=28 Identities=25% Similarity=0.725 Sum_probs=22.3
Q ss_pred eecccCCCCCCCCC-eEeccCCCCeeecccc
Q 026158 188 FCGSCGGSYNSAQF-WIGCDICERWYHGKCV 217 (242)
Q Consensus 188 ~C~iCg~~y~~d~~-mIqCD~Ce~WfH~~CV 217 (242)
.|.+|++.-+ ++ .-.|+.|.--+|.+|+
T Consensus 2 ~C~~C~~~~~--~~~~Y~C~~c~f~lh~~Ca 30 (30)
T PF03107_consen 2 WCDVCRRKID--GFYFYHCSECCFTLHVRCA 30 (30)
T ss_pred CCCCCCCCcC--CCEeEEeCCCCCeEcCccC
Confidence 4888988765 34 7788999988899885
No 45
>PF12678 zf-rbx1: RING-H2 zinc finger; InterPro: IPR024766 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 domain constitutes a conserved region found in proteins that participate in diverse functions relevant to chromosome metabolism and cell cycle control [].The domain contains 8 cysteine/ histidine residues which are proposed to be the conserved residues involved in zinc binding.; PDB: 4A0C_D 4A0L_I 4A0K_B 2ECL_A 1LDK_C 3RTR_F 3DQV_Y 1U6G_B 1LDJ_B 2HYE_D ....
Probab=55.17 E-value=8.9 Score=28.35 Aligned_cols=43 Identities=21% Similarity=0.515 Sum_probs=27.4
Q ss_pred ecccCCCCCC---------CCCeEeccCCCCeeeccccccCccccCCCCeeEcCCCC
Q 026158 189 CGSCGGSYNS---------AQFWIGCDICERWYHGKCVKITPAKAENIKQYKCPSCS 236 (242)
Q Consensus 189 C~iCg~~y~~---------d~~mIqCD~Ce~WfH~~CVgIt~~~a~~i~~w~Cp~C~ 236 (242)
|++|..+..+ ++..|.=..|+--||..|+.--... .-.||.|+
T Consensus 22 C~IC~~~l~~~~~~~~~~~~~~~i~~~~C~H~FH~~Ci~~Wl~~-----~~~CP~CR 73 (73)
T PF12678_consen 22 CAICREPLEDPCPECQAPQDECPIVWGPCGHIFHFHCISQWLKQ-----NNTCPLCR 73 (73)
T ss_dssp ETTTTSBTTSTTCCHHHCTTTS-EEEETTSEEEEHHHHHHHHTT-----SSB-TTSS
T ss_pred ccccChhhhChhhhhcCCccccceEecccCCCEEHHHHHHHHhc-----CCcCCCCC
Confidence 9999988732 2344444579999999999632221 13899885
No 46
>PF07775 PaRep2b: PaRep2b protein; InterPro: IPR011689 This is a group of proteins, expressed in the crenarchaeon Pyrobaculum aerophilum, whose members are variable in length and level of conservation. The presence of numerous frameshifts and internal stop codons in multiple alignments are thought to indicate that most family members are no longer functional [].
Probab=52.72 E-value=15 Score=37.08 Aligned_cols=75 Identities=27% Similarity=0.517 Sum_probs=59.2
Q ss_pred HHHHHHHHHHhhhcHHHHhhcCCcCcccceeccCCCCceeeeCCCCCCCCCCCCCCcCccccCCCcccccceeeeeeech
Q 026158 19 KARRSALVRALTYDVDQFYSQCDPEKENLCLYGHPNESWEVTMPADEVPPEIPEPALGINFSRDGMCKKDWLSLVAVHSD 98 (242)
Q Consensus 19 ~~rr~~~~~alt~d~~~f~~~c~~~~~~l~lyg~~~~~w~v~~p~~~~p~~~pep~~gin~~rd~m~~~~wl~~va~h~d 98 (242)
..|++.||+||--++|. |+ | ++.|-|.|-.. ||.|+--+
T Consensus 119 AErlAsILrAlG~~aEv--------k~----~---g~~W~V~l~Td--------------------------~IaAirh~ 157 (512)
T PF07775_consen 119 AERLASILRALGAEAEV--------KK----Y---GGEWRVVLTTD--------------------------SIAAIRHP 157 (512)
T ss_pred HHHHHHHHHhcCCeeEE--------EE----c---CCeEEEEEEeC--------------------------cchhcccH
Confidence 46899999999876652 22 2 67899998654 34777789
Q ss_pred hHHHHHHHHhhcc-----cCchhhHHHHHhhhcCCcchhhc
Q 026158 99 CWLVAVAFYFGAR-----LNGNERKRLYSLINDLPTLFEVV 134 (242)
Q Consensus 99 ~wl~~~a~~~~~~-----~~~~~r~~lf~min~LPTvfEVV 134 (242)
.||=+|.-|.-.. ++.+.|.||..-|..-|.+-|+.
T Consensus 158 ewl~AV~~fVeel~~~G~I~~~~~~~L~~~ieaGPN~ve~A 198 (512)
T PF07775_consen 158 EWLEAVRAFVEELHEKGVISEEQYERLLKKIEAGPNVVEIA 198 (512)
T ss_pred HHHHHHHHHHHHHhhcccccHHHHHHHHHHHhcCCCCCccc
Confidence 9999998887654 69999999999999999886653
No 47
>cd04714 BAH_BAHCC1 BAH, or Bromo Adjacent Homology domain, as present in mammalian BAHCC1 and similar proteins. BAHCC1 stands for BAH domain and coiled-coil containing 1. BAH domains are found in a variety of proteins playing roles in transcriptional silencing and the remodeling of chromatin. It is assumed that in most or all of these instances the BAH domain mediates protein-protein interactions.
Probab=50.72 E-value=9.8 Score=30.68 Aligned_cols=21 Identities=29% Similarity=0.695 Sum_probs=18.2
Q ss_pred CCCceecccCCCCCCCCCeEec
Q 026158 184 NDETFCGSCGGSYNSAQFWIGC 205 (242)
Q Consensus 184 ~~~~~C~iCg~~y~~d~~mIqC 205 (242)
.+..+| +|..+|+.+..||+|
T Consensus 101 ~~~d~~-~Ce~~yn~~~~~~~c 121 (121)
T cd04714 101 DGVDFY-YCAGTYNPDTGMLKC 121 (121)
T ss_pred cCCCEE-EEeccCCCCcCcccC
Confidence 455677 999999999999998
No 48
>PF02318 FYVE_2: FYVE-type zinc finger; InterPro: IPR003315 This entry represents the zinc-binding domain found in rabphilin Rab3A. The small G protein Rab3A plays an important role in the regulation of neurotransmitter release. The crystal structure of the small G protein Rab3A complexed with the effector domain of rabphilin-3A shows that the effector domain of rabphilin-3A contacts Rab3A in two distinct areas. The first interface involves the Rab3A switch I and switch II regions, which are sensitive to the nucleotide-binding state of Rab3A. The second interface consists of a deep pocket in Rab3A that interacts with a SGAWFF structural element of rabphilin-3A. Sequence and structure analysis, and biochemical data suggest that this pocket, or Rab complementarity-determining region (RabCDR), establishes a specific interaction between each Rab protein and its effectors. It has been suggested that RabCDRs could be major determinants of effector specificity during vesicle trafficking and fusion [].; GO: 0008270 zinc ion binding, 0017137 Rab GTPase binding, 0006886 intracellular protein transport; PDB: 2CSZ_A 2ZET_C 1ZBD_B 3BC1_B 2CJS_C 2A20_A.
Probab=50.16 E-value=6.3 Score=31.67 Aligned_cols=50 Identities=20% Similarity=0.449 Sum_probs=34.2
Q ss_pred CCceecccCCCCCC-CCCeEeccCCCCeeeccccccCccccCCCCeeEcCCCCCc
Q 026158 185 DETFCGSCGGSYNS-AQFWIGCDICERWYHGKCVKITPAKAENIKQYKCPSCSTK 238 (242)
Q Consensus 185 ~~~~C~iCg~~y~~-d~~mIqCD~Ce~WfH~~CVgIt~~~a~~i~~w~Cp~C~~K 238 (242)
+...|..|+.+..- +..-..|..|...+=.+|-...... ..|+|..|.+.
T Consensus 53 ~~~~C~~C~~~fg~l~~~~~~C~~C~~~VC~~C~~~~~~~----~~WlC~vC~k~ 103 (118)
T PF02318_consen 53 GERHCARCGKPFGFLFNRGRVCVDCKHRVCKKCGVYSKKE----PIWLCKVCQKQ 103 (118)
T ss_dssp CCSB-TTTS-BCSCTSTTCEEETTTTEEEETTSEEETSSS----CCEEEHHHHHH
T ss_pred CCcchhhhCCcccccCCCCCcCCcCCccccCccCCcCCCC----CCEEChhhHHH
Confidence 34579999886432 3345899999998888988774321 46999999754
No 49
>PRK03564 formate dehydrogenase accessory protein FdhE; Provisional
Probab=49.58 E-value=17 Score=34.50 Aligned_cols=53 Identities=26% Similarity=0.673 Sum_probs=31.4
Q ss_pred CCceecccCCCC---------CCCCCeEeccCCCCeeec---cccccCccc------c----CCCCeeEcCCCCC
Q 026158 185 DETFCGSCGGSY---------NSAQFWIGCDICERWYHG---KCVKITPAK------A----ENIKQYKCPSCST 237 (242)
Q Consensus 185 ~~~~C~iCg~~y---------~~d~~mIqCD~Ce~WfH~---~CVgIt~~~------a----~~i~~w~Cp~C~~ 237 (242)
...+|++||..- ..|..+..|..|+.-+|. .|..-.... . ..+....|..|..
T Consensus 186 ~~~~CPvCGs~P~~s~v~~~~~~G~RyL~CslC~teW~~~R~~C~~Cg~~~~l~y~~~~~~~~~~r~e~C~~C~~ 260 (309)
T PRK03564 186 QRQFCPVCGSMPVSSVVQIGTTQGLRYLHCNLCESEWHVVRVKCSNCEQSGKLHYWSLDSEQAAVKAESCGDCGT 260 (309)
T ss_pred CCCCCCCCCCcchhheeeccCCCCceEEEcCCCCCcccccCccCCCCCCCCceeeeeecCCCcceEeeecccccc
Confidence 346799998642 235678899999833354 454321111 0 1234588999974
No 50
>smart00109 C1 Protein kinase C conserved region 1 (C1) domains (Cysteine-rich domains). Some bind phorbol esters and diacylglycerol. Some bind RasGTP. Zinc-binding domains.
Probab=47.51 E-value=8.4 Score=24.92 Aligned_cols=36 Identities=25% Similarity=0.416 Sum_probs=27.0
Q ss_pred CCceecccCCCCCCCCCeEeccCCCCeeeccccccC
Q 026158 185 DETFCGSCGGSYNSAQFWIGCDICERWYHGKCVKIT 220 (242)
Q Consensus 185 ~~~~C~iCg~~y~~d~~mIqCD~Ce~WfH~~CVgIt 220 (242)
..++|.+|++........+.|..|..-.|.+|....
T Consensus 10 ~~~~C~~C~~~i~~~~~~~~C~~C~~~~H~~C~~~v 45 (49)
T smart00109 10 KPTKCCVCRKSIWGSFQGLRCSWCKVKCHKKCAEKV 45 (49)
T ss_pred CCCCccccccccCcCCCCcCCCCCCchHHHHHHhhc
Confidence 356799998876532136789999999999998643
No 51
>PF04216 FdhE: Protein involved in formate dehydrogenase formation; InterPro: IPR006452 This family of sequences describe an accessory protein required for the assembly of formate dehydrogenase of certain proteobacteria although not present in the final complex []. The exact nature of the function of FdhE in the assembly of the complex is unknown, but considering the presence of selenocysteine, molybdopterin, iron-sulphur clusters and cytochrome b556, it is likely to be involved in the insertion of cofactors. ; GO: 0005737 cytoplasm; PDB: 2FIY_B.
Probab=47.34 E-value=9.5 Score=34.93 Aligned_cols=54 Identities=20% Similarity=0.585 Sum_probs=25.3
Q ss_pred CCCceecccCCCC-------CC--CCCeEeccCCC-Ceeec--cccccCc-----------cccCCCCeeEcCCCCC
Q 026158 184 NDETFCGSCGGSY-------NS--AQFWIGCDICE-RWYHG--KCVKITP-----------AKAENIKQYKCPSCST 237 (242)
Q Consensus 184 ~~~~~C~iCg~~y-------~~--d~~mIqCD~Ce-~WfH~--~CVgIt~-----------~~a~~i~~w~Cp~C~~ 237 (242)
....+|++||... .. |..+..|..|+ .|-+. .|..--. +..+......|..|..
T Consensus 170 w~~g~CPvCGs~P~~s~l~~~~~~G~R~L~Cs~C~t~W~~~R~~Cp~Cg~~~~~~l~~~~~e~~~~~rve~C~~C~~ 246 (290)
T PF04216_consen 170 WQRGYCPVCGSPPVLSVLRGGEREGKRYLHCSLCGTEWRFVRIKCPYCGNTDHEKLEYFTVEGEPAYRVEVCESCGS 246 (290)
T ss_dssp TT-SS-TTT---EEEEEEE------EEEEEETTT--EEE--TTS-TTT---SS-EEE--------SEEEEEETTTTE
T ss_pred ccCCcCCCCCCcCceEEEecCCCCccEEEEcCCCCCeeeecCCCCcCCCCCCCcceeeEecCCCCcEEEEECCcccc
Confidence 4456899999743 11 45899999999 66333 4542211 1122235688999974
No 52
>PF10497 zf-4CXXC_R1: Zinc-finger domain of monoamine-oxidase A repressor R1; InterPro: IPR018866 R1 is a transcription factor repressor that inhibits monoamine oxidase A gene expression. This domain is a four-CXXC zinc finger putative DNA-binding domain found at the C-terminal end of R1. The domain carries 12 cysteines of which four pairs are of the CXXC type [].
Probab=44.84 E-value=19 Score=28.78 Aligned_cols=53 Identities=21% Similarity=0.515 Sum_probs=33.1
Q ss_pred CCCCceecccCCCCCCCCCeEec------cCC---CCeeeccccc----cCccccCCCCeeEcCCCCC
Q 026158 183 ENDETFCGSCGGSYNSAQFWIGC------DIC---ERWYHGKCVK----ITPAKAENIKQYKCPSCST 237 (242)
Q Consensus 183 d~~~~~C~iCg~~y~~d~~mIqC------D~C---e~WfH~~CVg----It~~~a~~i~~w~Cp~C~~ 237 (242)
......|-.|++... + ..+.| ..| ..=|=+.|+- ....++-....|.||.|..
T Consensus 4 ~~~g~~CHqCrqKt~-~-~~~~C~~~~~~~~C~~~~~~fC~~CL~~ryge~~~ev~~~~~W~CP~Crg 69 (105)
T PF10497_consen 4 SVNGKTCHQCRQKTL-D-FKTICTGHWKNSSCRGCRGKFCGGCLRNRYGENVEEVLEDPNWKCPKCRG 69 (105)
T ss_pred CCCCCCchhhcCCCC-C-CceEcCCCCCCCCCccCcceehHhHHHHHHhhhHHHHhcCCceECCCCCC
Confidence 355677888988654 2 44556 566 7667778853 2222222335799999974
No 53
>PF00301 Rubredoxin: Rubredoxin; InterPro: IPR004039 Rubredoxin is a low molecular weight iron-containing bacterial protein involved in electron transfer [, ], sometimes replacing ferredoxin as an electron carrier []. The 3-D structures of a number of rubredoxins have been solved [, ]. The fold belongs to the alpha+beta class, with 2 alpha-helices and 2-3 beta-strands. Its active site contains an iron ion which is co-ordinated by the sulphurs of four conserved cysteine residues forming an almost regular tetrahedron. The conserved cysteines reside on two loops, which are the most conserved regions of the protein. In addition, a ring of acidic residues in the proximity of the [Fe(Cys)4] centre is also well-conserved []. ; GO: 0009055 electron carrier activity, 0046872 metal ion binding; PDB: 2RDV_C 1RDV_A 1S24_A 1T9O_B 1B2J_A 1SMW_A 2PVE_B 1BFY_A 1T9P_C 1C09_C ....
Probab=42.52 E-value=25 Score=24.43 Aligned_cols=13 Identities=31% Similarity=0.976 Sum_probs=8.4
Q ss_pred CeeEcCCCCCccC
Q 026158 228 KQYKCPSCSTKKA 240 (242)
Q Consensus 228 ~~w~Cp~C~~Kr~ 240 (242)
+.|.||.|...|.
T Consensus 33 ~~w~CP~C~a~K~ 45 (47)
T PF00301_consen 33 DDWVCPVCGAPKS 45 (47)
T ss_dssp TT-B-TTTSSBGG
T ss_pred CCCcCcCCCCccc
Confidence 5799999987653
No 54
>KOG1952 consensus Transcription factor NF-X1, contains NFX-type Zn2+-binding and R3H domains [Transcription]
Probab=39.52 E-value=18 Score=38.79 Aligned_cols=55 Identities=20% Similarity=0.501 Sum_probs=38.4
Q ss_pred CCCCceecccCCCCCCCCCeEeccCCCCeeeccccccCcc--ccCCCCeeEcCCCCC
Q 026158 183 ENDETFCGSCGGSYNSAQFWIGCDICERWYHGKCVKITPA--KAENIKQYKCPSCST 237 (242)
Q Consensus 183 d~~~~~C~iCg~~y~~d~~mIqCD~Ce~WfH~~CVgIt~~--~a~~i~~w~Cp~C~~ 237 (242)
.....-|-+|-..-+....+-.|..|=.-||..|+.--.. .....+.|.||.|..
T Consensus 188 ~~~~yeCmIC~e~I~~t~~~WSC~sCYhVFHl~CI~~WArs~ek~~~~~WrCP~Cqs 244 (950)
T KOG1952|consen 188 SNRKYECMICTERIKRTAPVWSCKSCYHVFHLNCIKKWARSSEKTGQDGWRCPACQS 244 (950)
T ss_pred hcCceEEEEeeeeccccCCceecchhhhhhhHHHHHHHHHHhhhccCccccCCcccc
Confidence 3445568888665554556679999999999999964222 222236899999983
No 55
>PF13341 RAG2_PHD: RAG2 PHD domain; PDB: 2JWO_A 2V86_B 2V85_B 2V87_A 2V83_C 2V89_A 2V88_A.
Probab=39.12 E-value=15 Score=28.14 Aligned_cols=36 Identities=19% Similarity=0.509 Sum_probs=20.4
Q ss_pred CCeEeccCCC-CeeeccccccCcccc----CCCCeeEcCCC
Q 026158 200 QFWIGCDICE-RWYHGKCVKITPAKA----ENIKQYKCPSC 235 (242)
Q Consensus 200 ~~mIqCD~Ce-~WfH~~CVgIt~~~a----~~i~~w~Cp~C 235 (242)
--||-|..=+ -|.|..|..+++... +.-.+|+|..=
T Consensus 28 PAMI~cs~~~GHWvhaqCm~LsE~~L~~LSq~n~KYfC~dH 68 (78)
T PF13341_consen 28 PAMIFCSRGGGHWVHAQCMDLSETMLIQLSQENTKYFCNDH 68 (78)
T ss_dssp --EEEE-STT-EEEETGGGT--HHHHHHHHHSSS-B--TTT
T ss_pred ceEEEEeCCCceEeEeecccchHHHHHHHccCCceEEEhhh
Confidence 3599998444 999999999987653 22257999763
No 56
>KOG1473 consensus Nucleosome remodeling factor, subunit NURF301/BPTF [Chromatin structure and dynamics; Transcription]
Probab=39.03 E-value=23 Score=39.37 Aligned_cols=48 Identities=21% Similarity=0.491 Sum_probs=35.8
Q ss_pred CCCceecccCCCCCCCCCeEeccCCCCeeeccccccCccccCCCCeeEcCCCC
Q 026158 184 NDETFCGSCGGSYNSAQFWIGCDICERWYHGKCVKITPAKAENIKQYKCPSCS 236 (242)
Q Consensus 184 ~~~~~C~iCg~~y~~d~~mIqCD~Ce~WfH~~CVgIt~~~a~~i~~w~Cp~C~ 236 (242)
+-+..|-+|... +..++|+.|..-||..||......... ..|-|.-|.
T Consensus 342 ~~ddhcrf~~d~----~~~lc~Et~prvvhlEcv~hP~~~~~s-~~~e~evc~ 389 (1414)
T KOG1473|consen 342 EYDDHCRFCHDL----GDLLCCETCPRVVHLECVFHPRFAVPS-AFWECEVCN 389 (1414)
T ss_pred eecccccccCcc----cceeecccCCceEEeeecCCccccCCC-ccchhhhhh
Confidence 444567777663 468999999999999999876655443 468888886
No 57
>KOG4218 consensus Nuclear hormone receptor betaFTZ-F1 [Transcription]
Probab=37.83 E-value=15 Score=36.05 Aligned_cols=28 Identities=18% Similarity=0.657 Sum_probs=19.2
Q ss_pred CceecccCCCCCC-CCCeEeccCCCCeee
Q 026158 186 ETFCGSCGGSYNS-AQFWIGCDICERWYH 213 (242)
Q Consensus 186 ~~~C~iCg~~y~~-d~~mIqCD~Ce~WfH 213 (242)
+-+|++||..-.+ .--.+-|+.|.-.|-
T Consensus 15 ~ElCPVCGDkVSGYHYGLLTCESCKGFFK 43 (475)
T KOG4218|consen 15 GELCPVCGDKVSGYHYGLLTCESCKGFFK 43 (475)
T ss_pred ccccccccCccccceeeeeehhhhhhHHH
Confidence 3479999975432 123678999997763
No 58
>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=36.50 E-value=11 Score=23.20 Aligned_cols=42 Identities=19% Similarity=0.407 Sum_probs=27.3
Q ss_pred ecccCCCCCCCCCeEeccCCCCeeeccccccCccccCCCCeeEcCCCCC
Q 026158 189 CGSCGGSYNSAQFWIGCDICERWYHGKCVKITPAKAENIKQYKCPSCST 237 (242)
Q Consensus 189 C~iCg~~y~~d~~mIqCD~Ce~WfH~~CVgIt~~~a~~i~~w~Cp~C~~ 237 (242)
|.+|..... ..+.-..|+--||..|+...... ....||.|..
T Consensus 2 C~iC~~~~~---~~~~~~~C~H~~c~~C~~~~~~~----~~~~Cp~C~~ 43 (45)
T cd00162 2 CPICLEEFR---EPVVLLPCGHVFCRSCIDKWLKS----GKNTCPLCRT 43 (45)
T ss_pred CCcCchhhh---CceEecCCCChhcHHHHHHHHHh----CcCCCCCCCC
Confidence 677877663 22334458888999998643322 3467999974
No 59
>cd00350 rubredoxin_like Rubredoxin_like; nonheme iron binding domain containing a [Fe(SCys)4] center. The family includes rubredoxins, a small electron transfer protein, and a slightly smaller modular rubredoxin domain present in rubrerythrin and nigerythrin and detected either N- or C-terminal to such proteins as flavin reductase, NAD(P)H-nitrite reductase, and ferredoxin-thioredoxin reductase. In rubredoxin, the iron atom is coordinated by four cysteine residues (Fe(S-Cys)4), but iron can also be replaced by cobalt, nickel or zinc and believed to be involved in electron transfer. Rubrerythrins and nigerythrins are small homodimeric proteins, generally consisting of 2 domains: a rubredoxin domain C-terminal to a non-sulfur, oxo-bridged diiron site in the N-terminal rubrerythrin domain. Rubrerythrins and nigerythrins have putative peroxide activity.
Probab=36.12 E-value=19 Score=22.78 Aligned_cols=12 Identities=33% Similarity=0.971 Sum_probs=9.0
Q ss_pred CeeEcCCCCCcc
Q 026158 228 KQYKCPSCSTKK 239 (242)
Q Consensus 228 ~~w~Cp~C~~Kr 239 (242)
..|.||.|...+
T Consensus 16 ~~~~CP~Cg~~~ 27 (33)
T cd00350 16 APWVCPVCGAPK 27 (33)
T ss_pred CCCcCcCCCCcH
Confidence 359999998654
No 60
>PF05402 PqqD: Coenzyme PQQ synthesis protein D (PqqD); InterPro: IPR008792 This family contains several bacterial coenzyme PQQ synthesis protein D (PqqD) sequences. This protein is required for coenzyme pyrrolo-quinoline-quinone (PQQ) biosynthesis.; PDB: 3G2B_A.
Probab=35.67 E-value=40 Score=23.59 Aligned_cols=33 Identities=33% Similarity=0.445 Sum_probs=23.1
Q ss_pred CCCCHHHHHHHHHHHHHHHHHHhhhcHHHHhhc
Q 026158 7 SPRTVEEIFKDFKARRSALVRALTYDVDQFYSQ 39 (242)
Q Consensus 7 ~~~~~~~~~~d~~~rr~~~~~alt~d~~~f~~~ 39 (242)
.++|+++|-+.+..+=..=...+..||.+|.++
T Consensus 28 g~~t~~ei~~~l~~~y~~~~~~~~~dv~~fl~~ 60 (68)
T PF05402_consen 28 GPRTVEEIVDALAEEYDVDPEEAEEDVEEFLEQ 60 (68)
T ss_dssp SSS-HHHHHHHHHHHTT--HHHHHHHHHHHHHH
T ss_pred CCCCHHHHHHHHHHHcCCCHHHHHHHHHHHHHH
Confidence 479999999888877544445578899998764
No 61
>PF13880 Acetyltransf_13: ESCO1/2 acetyl-transferase
Probab=34.86 E-value=8.3 Score=29.05 Aligned_cols=52 Identities=23% Similarity=0.417 Sum_probs=37.7
Q ss_pred HHHHHHHHHHhhhcHHHHhhcCCcCcccceeccCCCCceeeeCCCCCCCCCCCCCC-cCccccCCCcccccce
Q 026158 19 KARRSALVRALTYDVDQFYSQCDPEKENLCLYGHPNESWEVTMPADEVPPEIPEPA-LGINFSRDGMCKKDWL 90 (242)
Q Consensus 19 ~~rr~~~~~alt~d~~~f~~~c~~~~~~l~lyg~~~~~w~v~~p~~~~p~~~pep~-~gin~~rd~m~~~~wl 90 (242)
+-||.||...|..=+-+ | -+||..-...+|.. -+|+ -|..||+.-....+||
T Consensus 16 ~~RR~GIAt~Lld~ar~----------~-~iyG~~l~~~~iAF---------SqPT~~G~~fA~~y~~~~~fl 68 (70)
T PF13880_consen 16 SHRRKGIATRLLDAARE----------N-FIYGCVLPKNEIAF---------SQPTESGKKFAKKYFGTDDFL 68 (70)
T ss_pred hhhhhhHHHHHHHHHHH----------h-ccCceEechhheEe---------cCCCHhHHHHHHHHcCCCCEE
Confidence 46999999999874332 2 46888766666653 3454 6899998888888876
No 62
>PF13717 zinc_ribbon_4: zinc-ribbon domain
Probab=34.50 E-value=33 Score=22.27 Aligned_cols=22 Identities=23% Similarity=0.658 Sum_probs=11.1
Q ss_pred eecccCCCCC-------CCCCeEeccCCC
Q 026158 188 FCGSCGGSYN-------SAQFWIGCDICE 209 (242)
Q Consensus 188 ~C~iCg~~y~-------~d~~mIqCD~Ce 209 (242)
.|+.|+..|. +.+..++|..|+
T Consensus 4 ~Cp~C~~~y~i~d~~ip~~g~~v~C~~C~ 32 (36)
T PF13717_consen 4 TCPNCQAKYEIDDEKIPPKGRKVRCSKCG 32 (36)
T ss_pred ECCCCCCEEeCCHHHCCCCCcEEECCCCC
Confidence 3555555442 134455666665
No 63
>cd00029 C1 Protein kinase C conserved region 1 (C1) . Cysteine-rich zinc binding domain. Some members of this domain family bind phorbol esters and diacylglycerol, some are reported to bind RasGTP. May occur in tandem arrangement. Diacylglycerol (DAG) is a second messenger, released by activation of Phospholipase D. Phorbol Esters (PE) can act as analogues of DAG and mimic its downstream effects in, for example, tumor promotion. Protein Kinases C are activated by DAG/PE, this activation is mediated by their N-terminal conserved region (C1). DAG/PE binding may be phospholipid dependent. C1 domains may also mediate DAG/PE signals in chimaerins (a family of Rac GTPase activating proteins), RasGRPs (exchange factors for Ras/Rap1), and Munc13 isoforms (scaffolding proteins involved in exocytosis).
Probab=34.44 E-value=25 Score=22.95 Aligned_cols=36 Identities=28% Similarity=0.530 Sum_probs=27.0
Q ss_pred CCceecccCCCCCC-CCCeEeccCCCCeeeccccccC
Q 026158 185 DETFCGSCGGSYNS-AQFWIGCDICERWYHGKCVKIT 220 (242)
Q Consensus 185 ~~~~C~iCg~~y~~-d~~mIqCD~Ce~WfH~~CVgIt 220 (242)
..++|.+|++.... ......|+.|..-.|.+|...-
T Consensus 10 ~~~~C~~C~~~i~~~~~~~~~C~~C~~~~H~~C~~~v 46 (50)
T cd00029 10 KPTFCDVCRKSIWGLFKQGLRCSWCKVKCHKKCADKV 46 (50)
T ss_pred CCCChhhcchhhhccccceeEcCCCCCchhhhhhccC
Confidence 35679899886642 1466789999999999998643
No 64
>KOG4299 consensus PHD Zn-finger protein [General function prediction only]
Probab=33.57 E-value=27 Score=36.12 Aligned_cols=49 Identities=24% Similarity=0.512 Sum_probs=35.6
Q ss_pred CCceecccCCCCCCCCCeEeccCCCCeeeccccccCccccCCCCeeEcCCCCC
Q 026158 185 DETFCGSCGGSYNSAQFWIGCDICERWYHGKCVKITPAKAENIKQYKCPSCST 237 (242)
Q Consensus 185 ~~~~C~iCg~~y~~d~~mIqCD~Ce~WfH~~CVgIt~~~a~~i~~w~Cp~C~~ 237 (242)
..+.|++|.+.. ...+|+.|..-||..|.+....+......|.|..|..
T Consensus 46 ~~ts~~~~~~~g----n~~~~~~~~~s~h~~~~~~~~sp~~~~~~~~~~~~~~ 94 (613)
T KOG4299|consen 46 AATSCGICKSGG----NLLCCDHCPASFHLECDKPPLSPDLKGSEINCSRCPK 94 (613)
T ss_pred hhhhcchhhhcC----CccccccCccccchhccCcccCcccccccccccCCCc
Confidence 367899998854 4569999999999999997766322224566666654
No 65
>PF08274 PhnA_Zn_Ribbon: PhnA Zinc-Ribbon ; InterPro: IPR013987 The PhnA protein family includes the uncharacterised Escherichia coli protein PhnA and its homologues. The E. coli phnA gene is part of a large operon associated with alkylphosphonate uptake and carbon-phosphorus bond cleavage []. The protein is not related to the characterised phosphonoacetate hydrolase designated PhnA []. This entry represents the N-terminal domain of PhnA, which is predicted to form a zinc-ribbon.; PDB: 2AKL_A.
Probab=33.06 E-value=20 Score=22.82 Aligned_cols=10 Identities=40% Similarity=1.049 Sum_probs=2.2
Q ss_pred eecccCCCCC
Q 026158 188 FCGSCGGSYN 197 (242)
Q Consensus 188 ~C~iCg~~y~ 197 (242)
.|+.|+..|.
T Consensus 4 ~Cp~C~se~~ 13 (30)
T PF08274_consen 4 KCPLCGSEYT 13 (30)
T ss_dssp --TTT-----
T ss_pred CCCCCCCcce
Confidence 4677776653
No 66
>PF11351 DUF3154: Protein of unknown function (DUF3154); InterPro: IPR021497 This family of proteins with unknown function appears to be restricted to Proteobacteria.
Probab=32.93 E-value=23 Score=28.97 Aligned_cols=13 Identities=62% Similarity=1.152 Sum_probs=11.4
Q ss_pred hHHH--HHHHHhhcc
Q 026158 99 CWLV--AVAFYFGAR 111 (242)
Q Consensus 99 ~wl~--~~a~~~~~~ 111 (242)
-||| .|.||+|+|
T Consensus 100 w~Llg~~vlgy~~~R 114 (123)
T PF11351_consen 100 WWLLGAGVLGYFGAR 114 (123)
T ss_pred HHHHHHHHhhhHHHh
Confidence 4777 899999998
No 67
>PF09416 UPF1_Zn_bind: RNA helicase (UPF2 interacting domain); InterPro: IPR018999 UPF1 (or regulator of nonsense transcripts 1 homologue) is an essential RNA helicase that detects mRNAs containing premature stop codons and triggers their degradation. This domain contains 3 zinc binding motifs and forms interactions with another protein (UPF2) that is also involved nonsense-mediated mRNA decay (NMD) []. ; GO: 0003677 DNA binding, 0004386 helicase activity, 0005524 ATP binding, 0008270 zinc ion binding, 0000184 nuclear-transcribed mRNA catabolic process, nonsense-mediated decay, 0005737 cytoplasm; PDB: 2IYK_B 2WJY_A 2WJV_A 2XZL_A.
Probab=32.81 E-value=27 Score=30.09 Aligned_cols=25 Identities=24% Similarity=0.870 Sum_probs=15.4
Q ss_pred ecccCCCCCCCCCeEeccCCCCeeecc
Q 026158 189 CGSCGGSYNSAQFWIGCDICERWYHGK 215 (242)
Q Consensus 189 C~iCg~~y~~d~~mIqCD~Ce~WfH~~ 215 (242)
|..||-.. -.-.+.|..|++||=..
T Consensus 3 C~YCG~~~--p~~vv~C~~c~kWFCNg 27 (152)
T PF09416_consen 3 CAYCGIHD--PSCVVKCNTCNKWFCNG 27 (152)
T ss_dssp -TTT------CCCEEEETTTTEEEES-
T ss_pred ccccCCCC--cccEeEcCCCCcEeecC
Confidence 66787543 24789999999999553
No 68
>cd04120 Rab12 Rab12 subfamily. Rab12 was first identified in canine cells, where it was localized to the Golgi complex. The specific function of Rab12 remains unknown, and inconsistent results about its cellular localization have been reported. More recent studies have identified Rab12 associated with post-Golgi vesicles, or with other small vesicle-like structures but not with the Golgi complex. Most Rab GTPases contain a lipid modification site at the C-terminus, with sequence motifs CC, CXC, or CCX. Lipid binding is essential for membrane attachment, a key feature of most Rab proteins. GTPase activating proteins (GAPs) interact with GTP-bound Rab and accelerate the hydrolysis of GTP to GDP. Guanine nucleotide exchange factors (GEFs) interact with GDP-bound Rabs to promote the formation of the GTP-bound state. Rabs are further regulated by guanine nucleotide dissociation inhibitors (GDIs), which facilitate Rab recycling by masking C-terminal lipid binding and promoting cytosolic
Probab=32.46 E-value=25 Score=30.39 Aligned_cols=14 Identities=50% Similarity=1.118 Sum_probs=12.1
Q ss_pred CCCCCCCCCCCCCc
Q 026158 62 PADEVPPEIPEPAL 75 (242)
Q Consensus 62 p~~~~p~~~pep~~ 75 (242)
|..|+|||||.|-.
T Consensus 184 ~~~~~~~~~~~~~~ 197 (202)
T cd04120 184 PEPEIPPELPPPRP 197 (202)
T ss_pred CCCCCCcCCCCCCC
Confidence 78899999999864
No 69
>PF06452 DUF1083: Domain of unknown function (DUF1083); InterPro: IPR010502 This entry represents the family 9 carbohydrate-binding module (CBD9), which exhibit an immunoglobulin-like beta-sandwich fold, with an additional beta-strand at the N terminus []. Bacterial extracellular cellulases and hemicellulases are involved in the hydrolysis of the major structural polysaccharides of plant cell walls. These are usually modular enzymes that contain catalytic and non-catalytic domains. The CBD9 domain binds to cellulose, xylan, as well as to a range of soluble di- and mono-saccharides, and is found in cellulose- and xylan-degrading enzymes, such as endo-1,4-beta-xylanase (3.2.1.8 from EC) [].; GO: 0004553 hydrolase activity, hydrolyzing O-glycosyl compounds, 0030246 carbohydrate binding, 0016052 carbohydrate catabolic process; PDB: 1I82_A 1I8A_A 1I8U_A.
Probab=31.82 E-value=16 Score=30.04 Aligned_cols=44 Identities=25% Similarity=0.596 Sum_probs=26.3
Q ss_pred ceeeeCCCCCC-CCCCCCCCcCcccc----CCCcccccceeeeeeechhH
Q 026158 56 SWEVTMPADEV-PPEIPEPALGINFS----RDGMCKKDWLSLVAVHSDCW 100 (242)
Q Consensus 56 ~w~v~~p~~~~-p~~~pep~~gin~~----rd~m~~~~wl~~va~h~d~w 100 (242)
++|+.+|-..+ +|+.... +|+||. .++=.|.-|++...+..+.|
T Consensus 123 ~~E~~IP~~~l~~~~~g~~-~g~~~~~~d~~~~~~r~~~~~w~~~~~~~~ 171 (185)
T PF06452_consen 123 TVEIAIPWSALFPPQPGDK-FGFNFAVNDNDDGGKREGWISWSDPSGPSF 171 (185)
T ss_dssp EEEEEEE-SS-----TTEE-EEEEEEEEEE-TTS-EEEEEESS-SSS-TT
T ss_pred EEEEEechHHcCCCCCCCE-EEEEEEEEECCCCCcceEEEEEcCCCCcCc
Confidence 57999999998 4444333 888888 45566888988877776664
No 70
>PLN02436 cellulose synthase A
Probab=31.68 E-value=38 Score=37.34 Aligned_cols=53 Identities=19% Similarity=0.483 Sum_probs=38.6
Q ss_pred CCCceecccCCCC---CCCCCeEeccCCCCeeeccccccCccccCCCCeeEcCCCCCccC
Q 026158 184 NDETFCGSCGGSY---NSAQFWIGCDICERWYHGKCVKITPAKAENIKQYKCPSCSTKKA 240 (242)
Q Consensus 184 ~~~~~C~iCg~~y---~~d~~mIqCD~Ce~WfH~~CVgIt~~~a~~i~~w~Cp~C~~Kr~ 240 (242)
....+|.+||..- .+++..|.|..|.-=.--.|......+ ..=.||.|..+--
T Consensus 34 ~~~~iCqICGD~Vg~t~dGe~FVACn~C~fpvCr~Cyeyer~e----g~~~Cpqckt~Y~ 89 (1094)
T PLN02436 34 LSGQTCQICGDEIELTVDGEPFVACNECAFPVCRPCYEYERRE----GNQACPQCKTRYK 89 (1094)
T ss_pred cCCccccccccccCcCCCCCEEEeeccCCCccccchhhhhhhc----CCccCcccCCchh
Confidence 4455899998652 337789999999987777888655443 4578999986433
No 71
>PLN03208 E3 ubiquitin-protein ligase RMA2; Provisional
Probab=31.44 E-value=27 Score=31.13 Aligned_cols=50 Identities=16% Similarity=0.444 Sum_probs=30.9
Q ss_pred CCCceecccCCCCCCCCCeEeccCCCCeeeccccccCc-------ccc----CCCCeeEcCCCCC
Q 026158 184 NDETFCGSCGGSYNSAQFWIGCDICERWYHGKCVKITP-------AKA----ENIKQYKCPSCST 237 (242)
Q Consensus 184 ~~~~~C~iCg~~y~~d~~mIqCD~Ce~WfH~~CVgIt~-------~~a----~~i~~w~Cp~C~~ 237 (242)
.+...|++|.....+ ..+ -.|+-.|+..|+.--. ... .......||.|..
T Consensus 16 ~~~~~CpICld~~~d--PVv--T~CGH~FC~~CI~~wl~~s~~s~~~~~~~~~~k~~~~CPvCR~ 76 (193)
T PLN03208 16 GGDFDCNICLDQVRD--PVV--TLCGHLFCWPCIHKWTYASNNSRQRVDQYDHKREPPKCPVCKS 76 (193)
T ss_pred CCccCCccCCCcCCC--cEE--cCCCchhHHHHHHHHHHhccccccccccccccCCCCcCCCCCC
Confidence 345679999987652 222 3688888888885210 000 0113578999986
No 72
>KOG3799 consensus Rab3 effector RIM1 and related proteins, contain Rab3a binding domain [Intracellular trafficking, secretion, and vesicular transport]
Probab=31.34 E-value=21 Score=30.65 Aligned_cols=51 Identities=16% Similarity=0.488 Sum_probs=37.4
Q ss_pred CceecccCCCCCCCCCeEeccCCCCeeeccccccCccccCCCCeeEcCCCCC
Q 026158 186 ETFCGSCGGSYNSAQFWIGCDICERWYHGKCVKITPAKAENIKQYKCPSCST 237 (242)
Q Consensus 186 ~~~C~iCg~~y~~d~~mIqCD~Ce~WfH~~CVgIt~~~a~~i~~w~Cp~C~~ 237 (242)
+..|.+|.+.-..|+.=--|.-|..=|-..|-|-....... -.|.|..|..
T Consensus 65 datC~IC~KTKFADG~GH~C~YCq~r~CARCGGrv~lrsNK-v~wvcnlc~k 115 (169)
T KOG3799|consen 65 DATCGICHKTKFADGCGHNCSYCQTRFCARCGGRVSLRSNK-VMWVCNLCRK 115 (169)
T ss_pred CcchhhhhhcccccccCcccchhhhhHHHhcCCeeeeccCc-eEEeccCCcH
Confidence 35799999987666666678888888888888754444332 3699999975
No 73
>COG1773 Rubredoxin [Energy production and conversion]
Probab=29.42 E-value=35 Score=24.76 Aligned_cols=41 Identities=22% Similarity=0.472 Sum_probs=23.0
Q ss_pred ceecccCCCCCCCCCeEeccCCCCeeeccccccCccccCCCCeeEcCCCCC
Q 026158 187 TFCGSCGGSYNSAQFWIGCDICERWYHGKCVKITPAKAENIKQYKCPSCST 237 (242)
Q Consensus 187 ~~C~iCg~~y~~d~~mIqCD~Ce~WfH~~CVgIt~~~a~~i~~w~Cp~C~~ 237 (242)
..|.+|+-.|+...-.-.|++ |-|..-+..+ +.|.||.|.-
T Consensus 4 ~~C~~CG~vYd~e~Gdp~~gi--------~pgT~fedlP--d~w~CP~Cg~ 44 (55)
T COG1773 4 WRCSVCGYVYDPEKGDPRCGI--------APGTPFEDLP--DDWVCPECGV 44 (55)
T ss_pred eEecCCceEeccccCCccCCC--------CCCCchhhCC--CccCCCCCCC
Confidence 357788877765332222333 3333323333 5799999984
No 74
>PF13111 DUF3962: Protein of unknown function (DUF3962)
Probab=29.33 E-value=15 Score=33.26 Aligned_cols=34 Identities=26% Similarity=0.686 Sum_probs=27.1
Q ss_pred ccceeeeeeechhHHHHHHHHhhcccCchhhHHHHHhhhcC
Q 026158 87 KDWLSLVAVHSDCWLVAVAFYFGARLNGNERKRLYSLINDL 127 (242)
Q Consensus 87 ~~wl~~va~h~d~wl~~~a~~~~~~~~~~~r~~lf~min~L 127 (242)
.+|+.||-.|-|.|++-+-+ +.-++||+.|..|.
T Consensus 24 ~~W~~ll~~~~~~~~l~~Kl-------~~l~erL~~mFsdI 57 (216)
T PF13111_consen 24 IEWLDLLEIHYKTFLLTSKL-------KRLNERLYDMFSDI 57 (216)
T ss_pred HHHHHHHHHhccccccHHHH-------HHHHHHHHHHHHHH
Confidence 68999999999999998765 23457888886553
No 75
>PF05180 zf-DNL: DNL zinc finger; InterPro: IPR007853 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 DNL-type zinc finger is found in Tim15, a zinc finger protein essential for protein import into mitochondria. Mitochondrial functions rely on the correct transport of resident proteins synthesized in the cytosol to mitochondria. Protein import into mitochondria is mediated by membrane protein complexes, protein translocators, in the outer and inner mitochondrial membranes, in cooperation with their assistant proteins in the cytosol, intermembrane space and matrix. Proteins destined to the mitochondrial matrix cross the outer membrane with the aid of the outer membrane translocator, the tOM40 complex, and then the inner membrane with the aid of the inner membrane translocator, the TIM23 complex, and mitochondrial motor and chaperone (MMC) proteins including mitochondrial heat- shock protein 70 (mtHsp70), and translocase in the inner mitochondrial membrane (Tim)15. Tim15 is also known as zinc finger motif (Zim)17 or mtHsp70 escort protein (Hep)1. Tim15 contains a zinc-finger motif (CXXC and CXXC) of ~100 residues, which has been named DNL after a short C-terminal motif of D(N/H)L [, , ]. The DNL-type zinc finger is an L-shaped molecule. The two CXXC motifs are located at the end of the L, and are sandwiched by two- stranded antiparallel beta-sheets. Two short alpha-helices constitute another leg of the L. The outer (convex) face of the L has a large acidic groove, which is lined with five acidic residues, whereas the inner (concave) face of the L has two positively charged residues, next to the CXXC motifs []. This entry represents the DNL-type zinc finger.; GO: 0008270 zinc ion binding; PDB: 2E2Z_A.
Probab=29.07 E-value=14 Score=27.60 Aligned_cols=19 Identities=21% Similarity=0.508 Sum_probs=12.1
Q ss_pred CCCCCCCeEeccCCCCeeec
Q 026158 195 SYNSAQFWIGCDICERWYHG 214 (242)
Q Consensus 195 ~y~~d~~mIqCD~Ce~WfH~ 214 (242)
.|..|.-.|+|++|+.| |.
T Consensus 22 aY~~GvViv~C~gC~~~-Hl 40 (66)
T PF05180_consen 22 AYHKGVVIVQCPGCKNR-HL 40 (66)
T ss_dssp HHHTSEEEEE-TTS--E-EE
T ss_pred HHhCCeEEEECCCCcce-ee
Confidence 45557889999999987 54
No 76
>PF13922 PHD_3: PHD domain of transcriptional enhancer, Asx
Probab=28.99 E-value=15 Score=27.72 Aligned_cols=30 Identities=23% Similarity=0.610 Sum_probs=24.3
Q ss_pred CCceecccCCCCCCCCCeEeccCCCCeeeccccccC
Q 026158 185 DETFCGSCGGSYNSAQFWIGCDICERWYHGKCVKIT 220 (242)
Q Consensus 185 ~~~~C~iCg~~y~~d~~mIqCD~Ce~WfH~~CVgIt 220 (242)
-..-| .|+.. -||-|..|+..-|-.|+|-+
T Consensus 32 ~~~~C-~C~Lk-----AMi~Cq~CGAFCHDDCIgps 61 (69)
T PF13922_consen 32 TSNKC-ACSLK-----AMIMCQGCGAFCHDDCIGPS 61 (69)
T ss_pred ccccc-ccchH-----HHHHHhhccchhccccccHH
Confidence 33446 78874 69999999999999999855
No 77
>smart00744 RINGv The RING-variant domain is a C4HC3 zinc-finger like motif found in a number of cellular and viral proteins. Some of these proteins have been shown both in vivo and in vitro to have ubiquitin E3 ligase activity. The RING-variant domain is reminiscent of both the RING and the PHD domains and may represent an evolutionary intermediate. To describe this domain the term PHD/LAP domain has been used in the past. Extended description: The RING-variant (RINGv) domain contains a C4HC3 zinc-finger-like motif similar to the PHD domain, while some of the spacing between the Cys/His residues follow a pattern somewhat closer to that found in the RING domain. The RINGv domain, similar to the RING, PHD and LIM domains, is thought to bind two zinc ions co-ordinated by the highly conserved Cys and His residues. RING variant domain: C-x (2) -C-x(10-45)-C-x (1) -C-x (7) -H-x(2)-C-x(11-25)-C-x(2)-C As opposed to a PHD: C-x(1-2) -C-x (7-13)-C-x(2-4)-C-x(4-5)-H-x(2)-C-x(10-21)-C-x(2)-C Class
Probab=28.61 E-value=22 Score=24.50 Aligned_cols=45 Identities=16% Similarity=0.449 Sum_probs=24.5
Q ss_pred ecccCCCCCCCCCeEe-cc--CCCCeeeccccccCccccCCCCeeEcCCCC
Q 026158 189 CGSCGGSYNSAQFWIG-CD--ICERWYHGKCVKITPAKAENIKQYKCPSCS 236 (242)
Q Consensus 189 C~iCg~~y~~d~~mIq-CD--~Ce~WfH~~CVgIt~~~a~~i~~w~Cp~C~ 236 (242)
|-+|....++++.+|. |. +--.|+|..|+.---.... .-.|+.|.
T Consensus 2 CrIC~~~~~~~~~l~~PC~C~G~~~~vH~~Cl~~W~~~~~---~~~C~iC~ 49 (49)
T smart00744 2 CRICHDEGDEGDPLVSPCRCKGSLKYVHQECLERWINESG---NKTCEICK 49 (49)
T ss_pred ccCCCCCCCCCCeeEeccccCCchhHHHHHHHHHHHHHcC---CCcCCCCC
Confidence 5567663333445554 22 2237999999974332211 23677763
No 78
>PF05715 zf-piccolo: Piccolo Zn-finger; InterPro: IPR008899 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 (predicted) zinc finger is found in the bassoon and piccolo proteins, both of which are components of the presynaptic cytoskeletal matrix (PCM) assembled at the active zone of neurotransmitter release, where Piccolo plays a role in the trafficking of synaptic vesicles (SVs) [, , ]. The Piccolo zinc fingers were found to interact with the dual prenylated rab3A and VAMP2/Synaptobrevin II receptor PRA1. There are eight conserved cysteines in Piccolo-type zinc fingers, suggesting that they coordinates two zinc ligands. More information about these proteins can be found at Protein of the Month: Zinc Fingers [].; GO: 0046872 metal ion binding, 0045202 synapse
Probab=28.23 E-value=29 Score=25.68 Aligned_cols=53 Identities=21% Similarity=0.596 Sum_probs=29.2
Q ss_pred ceecccCCCCCC----CCCeEeccCCCCeeeccccccCcc-ccCCCCeeEcCCCCCccC
Q 026158 187 TFCGSCGGSYNS----AQFWIGCDICERWYHGKCVKITPA-KAENIKQYKCPSCSTKKA 240 (242)
Q Consensus 187 ~~C~iCg~~y~~----d~~mIqCD~Ce~WfH~~CVgIt~~-~a~~i~~w~Cp~C~~Kr~ 240 (242)
..|++|....+- .-.+-.|-.|..-.-.-| |..+. -..+.+.|.|-.|..+|+
T Consensus 3 ~~CPlCkt~~n~gsk~~pNyntCT~Ck~~VCnlC-GFNP~Phl~E~~eWLCLnCQ~qRa 60 (61)
T PF05715_consen 3 SLCPLCKTTLNVGSKDPPNYNTCTECKSQVCNLC-GFNPTPHLTEVKEWLCLNCQMQRA 60 (61)
T ss_pred ccCCcccchhhcCCCCCCCccHHHHHhhhhhccc-CCCCCccccccceeeeecchhhhc
Confidence 457777653321 123445666654333333 44442 222347899999998875
No 79
>PRK12775 putative trifunctional 2-polyprenylphenol hydroxylase/glutamate synthase subunit beta/ferritin domain-containing protein; Provisional
Probab=28.18 E-value=54 Score=35.53 Aligned_cols=54 Identities=24% Similarity=0.551 Sum_probs=40.7
Q ss_pred CCCCceecccCCCCCCCCCeEeccCCC-CeeeccccccCccccCCCCeeEcCCCCCc
Q 026158 183 ENDETFCGSCGGSYNSAQFWIGCDICE-RWYHGKCVKITPAKAENIKQYKCPSCSTK 238 (242)
Q Consensus 183 d~~~~~C~iCg~~y~~d~~mIqCD~Ce-~WfH~~CVgIt~~~a~~i~~w~Cp~C~~K 238 (242)
+.....|+.|.+|-.+++.+|+|-.-+ .|--..|-.+...-+-. --.||.|..|
T Consensus 793 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~--~~~~~~~~~~ 847 (1006)
T PRK12775 793 ETGVATCPKCHRPLEGDEEYVCCATSELQWRCDDCGKVSEGFAFP--YGMCPACGGK 847 (1006)
T ss_pred cCCCccCcccCCCCCCCceeEEecCcceeeehhhhccccccccCC--cCcCcccccc
Confidence 456678999999998899999998666 77777787776553321 2479999864
No 80
>PHA03099 epidermal growth factor-like protein (EGF-like protein); Provisional
Probab=27.73 E-value=18 Score=30.64 Aligned_cols=23 Identities=35% Similarity=0.699 Sum_probs=20.2
Q ss_pred HhhhcHHHHhhcCCcCcccceecc
Q 026158 28 ALTYDVDQFYSQCDPEKENLCLYG 51 (242)
Q Consensus 28 alt~d~~~f~~~c~~~~~~l~lyg 51 (242)
--|+|+-+ ++.|.+++.+.||+|
T Consensus 34 ~~~~~~~~-i~~Cp~ey~~YClHG 56 (139)
T PHA03099 34 NATTDIPA-IRLCGPEGDGYCLHG 56 (139)
T ss_pred cCccCCcc-cccCChhhCCEeECC
Confidence 34778888 899999999999998
No 81
>cd00730 rubredoxin Rubredoxin; nonheme iron binding domains containing a [Fe(SCys)4] center. Rubredoxins are small nonheme iron proteins. The iron atom is coordinated by four cysteine residues (Fe(S-Cys)4), but iron can also be replaced by cobalt, nickel or zinc. They are believed to be involved in electron transfer.
Probab=27.16 E-value=37 Score=23.86 Aligned_cols=12 Identities=33% Similarity=1.013 Sum_probs=9.9
Q ss_pred CeeEcCCCCCcc
Q 026158 228 KQYKCPSCSTKK 239 (242)
Q Consensus 228 ~~w~Cp~C~~Kr 239 (242)
+.|.||.|...+
T Consensus 33 ~~w~CP~C~a~K 44 (50)
T cd00730 33 DDWVCPVCGAGK 44 (50)
T ss_pred CCCCCCCCCCcH
Confidence 579999998754
No 82
>smart00432 MADS MADS domain.
Probab=26.67 E-value=84 Score=22.65 Aligned_cols=38 Identities=24% Similarity=0.503 Sum_probs=24.3
Q ss_pred HHHHHHHHHHHHhhhcHHHHhhcCCcCcccceeccCCCCceee
Q 026158 17 DFKARRSALVRALTYDVDQFYSQCDPEKENLCLYGHPNESWEV 59 (242)
Q Consensus 17 d~~~rr~~~~~alt~d~~~f~~~c~~~~~~l~lyg~~~~~w~v 59 (242)
-|+.||+||++-- .++.-+||-+-- |-+|+..+..+++
T Consensus 19 tf~kRk~gl~kKa----~Els~Lc~~~v~-~iv~sp~g~~~~~ 56 (59)
T smart00432 19 TFSKRRNGLFKKA----HELSVLCDAEVA-LIVFSPTGKLYEF 56 (59)
T ss_pred hhHhhhhhHHHHH----HHHhhccCCeEE-EEEECCCCCeeec
Confidence 3899999999865 567789986433 2235544444433
No 83
>KOG2752 consensus Uncharacterized conserved protein, contains N-recognin-type Zn-finger [General function prediction only]
Probab=26.67 E-value=40 Score=32.49 Aligned_cols=52 Identities=15% Similarity=0.267 Sum_probs=38.2
Q ss_pred CceecccCCCCCCCCCeEeccCCCCeeeccccccCccccCCCCeeEcCCCCCccCC
Q 026158 186 ETFCGSCGGSYNSAQFWIGCDICERWYHGKCVKITPAKAENIKQYKCPSCSTKKAR 241 (242)
Q Consensus 186 ~~~C~iCg~~y~~d~~mIqCD~Ce~WfH~~CVgIt~~~a~~i~~w~Cp~C~~Kr~R 241 (242)
..+| +|-..+...+.++.|-.|.-|+|..-..+..-.. ..|.|.=|..|-+|
T Consensus 53 Q~l~-sClTC~P~~~~agvC~~C~~~CH~~H~lveL~tK---R~FrCDCg~sk~g~ 104 (345)
T KOG2752|consen 53 QALF-SCLTCTPAPEMAGVCYACSLSCHDGHELVELYTK---RNFRCDCGNSKFGR 104 (345)
T ss_pred ccee-EeecccCChhhceeEEEeeeeecCCceeeecccc---CCcccccccccccc
Confidence 4556 7777776566999999999999998887655432 46888777665554
No 84
>PF14569 zf-UDP: Zinc-binding RING-finger; PDB: 1WEO_A.
Probab=26.05 E-value=16 Score=28.36 Aligned_cols=51 Identities=20% Similarity=0.579 Sum_probs=23.6
Q ss_pred CCCceecccCCCC---CCCCCeEeccCCCCeeeccccccCccccCCCCeeEcCCCCCc
Q 026158 184 NDETFCGSCGGSY---NSAQFWIGCDICERWYHGKCVKITPAKAENIKQYKCPSCSTK 238 (242)
Q Consensus 184 ~~~~~C~iCg~~y---~~d~~mIqCD~Ce~WfH~~CVgIt~~~a~~i~~w~Cp~C~~K 238 (242)
.+..+|.+|+..- .+++.+|.|..|..-.--.|......+ ..=.||.|..+
T Consensus 7 ~~~qiCqiCGD~VGl~~~Ge~FVAC~eC~fPvCr~CyEYErke----g~q~CpqCkt~ 60 (80)
T PF14569_consen 7 LNGQICQICGDDVGLTENGEVFVACHECAFPVCRPCYEYERKE----GNQVCPQCKTR 60 (80)
T ss_dssp -SS-B-SSS--B--B-SSSSB--S-SSS-----HHHHHHHHHT----S-SB-TTT--B
T ss_pred cCCcccccccCccccCCCCCEEEEEcccCCccchhHHHHHhhc----CcccccccCCC
Confidence 4566899998643 237789999999987777887665443 45689999853
No 85
>PLN02400 cellulose synthase
Probab=26.00 E-value=65 Score=35.60 Aligned_cols=52 Identities=19% Similarity=0.549 Sum_probs=38.7
Q ss_pred CCCceecccCCCC---CCCCCeEeccCCCCeeeccccccCccccCCCCeeEcCCCCCcc
Q 026158 184 NDETFCGSCGGSY---NSAQFWIGCDICERWYHGKCVKITPAKAENIKQYKCPSCSTKK 239 (242)
Q Consensus 184 ~~~~~C~iCg~~y---~~d~~mIqCD~Ce~WfH~~CVgIt~~~a~~i~~w~Cp~C~~Kr 239 (242)
.+..+|.+||..- .+++..|.|..|.-=.--.|......+ ..=.||.|..+-
T Consensus 34 ~~gqiCqICGD~VG~t~dGe~FVAC~eCaFPVCRpCYEYERke----Gnq~CPQCkTrY 88 (1085)
T PLN02400 34 LNGQICQICGDDVGVTETGDVFVACNECAFPVCRPCYEYERKD----GTQCCPQCKTRY 88 (1085)
T ss_pred cCCceeeecccccCcCCCCCEEEEEccCCCccccchhheeccc----CCccCcccCCcc
Confidence 4556899998643 237789999999988788888665543 457899998643
No 86
>PF13719 zinc_ribbon_5: zinc-ribbon domain
Probab=25.91 E-value=64 Score=20.92 Aligned_cols=23 Identities=17% Similarity=0.538 Sum_probs=11.9
Q ss_pred eecccCCCCCC-------CCCeEeccCCCC
Q 026158 188 FCGSCGGSYNS-------AQFWIGCDICER 210 (242)
Q Consensus 188 ~C~iCg~~y~~-------d~~mIqCD~Ce~ 210 (242)
.|+.|+..|.- .+.++.|-.|+.
T Consensus 4 ~CP~C~~~f~v~~~~l~~~~~~vrC~~C~~ 33 (37)
T PF13719_consen 4 TCPNCQTRFRVPDDKLPAGGRKVRCPKCGH 33 (37)
T ss_pred ECCCCCceEEcCHHHcccCCcEEECCCCCc
Confidence 46666654421 234666666653
No 87
>PF06783 UPF0239: Uncharacterised protein family (UPF0239); InterPro: IPR009621 This is a group of transmembrane proteins of unknown function.; GO: 0016021 integral to membrane
Probab=24.93 E-value=1e+02 Score=24.25 Aligned_cols=36 Identities=33% Similarity=0.682 Sum_probs=25.9
Q ss_pred CCCCCCCCCcCccccCCCcccccceeeeeeechhHHHHHHHHhhcccCchhhHHHHHhhhcCCcchh
Q 026158 66 VPPEIPEPALGINFSRDGMCKKDWLSLVAVHSDCWLVAVAFYFGARLNGNERKRLYSLINDLPTLFE 132 (242)
Q Consensus 66 ~p~~~pep~~gin~~rd~m~~~~wl~~va~h~d~wl~~~a~~~~~~~~~~~r~~lf~min~LPTvfE 132 (242)
-|||.|||.+ ++. ||--..|+|| +|+||==|--|+-
T Consensus 8 sp~ei~Eet~--------------~e~--------llRYGLf~GA---------IFQliCilAiI~~ 43 (85)
T PF06783_consen 8 SPPEIPEETF--------------FEN--------LLRYGLFVGA---------IFQLICILAIILP 43 (85)
T ss_pred CCccCCcchH--------------HHH--------HHHHHHHHHH---------HHHHHHHHheeee
Confidence 4888888864 322 5667789998 6788877777774
No 88
>PF09297 zf-NADH-PPase: NADH pyrophosphatase zinc ribbon domain; InterPro: IPR015376 This domain has a zinc ribbon structure and is often found between two NUDIX domains.; GO: 0016787 hydrolase activity, 0046872 metal ion binding; PDB: 1VK6_A 2GB5_A.
Probab=24.30 E-value=43 Score=20.86 Aligned_cols=25 Identities=28% Similarity=0.797 Sum_probs=14.1
Q ss_pred CceecccCCCCC--CCCCeEeccCCCC
Q 026158 186 ETFCGSCGGSYN--SAQFWIGCDICER 210 (242)
Q Consensus 186 ~~~C~iCg~~y~--~d~~mIqCD~Ce~ 210 (242)
..+|+.||.+-. .++...+|..|..
T Consensus 3 ~rfC~~CG~~t~~~~~g~~r~C~~Cg~ 29 (32)
T PF09297_consen 3 HRFCGRCGAPTKPAPGGWARRCPSCGH 29 (32)
T ss_dssp TSB-TTT--BEEE-SSSS-EEESSSS-
T ss_pred CcccCcCCccccCCCCcCEeECCCCcC
Confidence 357999987652 2567788888874
No 89
>CHL00174 accD acetyl-CoA carboxylase beta subunit; Reviewed
Probab=24.13 E-value=29 Score=32.75 Aligned_cols=31 Identities=23% Similarity=0.577 Sum_probs=20.0
Q ss_pred CCCeEeccCCCCeeeccccccCccccCCCCeeEcCCCCC
Q 026158 199 AQFWIGCDICERWYHGKCVKITPAKAENIKQYKCPSCST 237 (242)
Q Consensus 199 d~~mIqCD~Ce~WfH~~CVgIt~~~a~~i~~w~Cp~C~~ 237 (242)
++.|+.|+.|..-.+.+ ..+. ..++||.|.-
T Consensus 35 ~~lw~kc~~C~~~~~~~-------~l~~-~~~vcp~c~~ 65 (296)
T CHL00174 35 KHLWVQCENCYGLNYKK-------FLKS-KMNICEQCGY 65 (296)
T ss_pred CCCeeECCCccchhhHH-------HHHH-cCCCCCCCCC
Confidence 56899999998532221 1111 3589999973
No 90
>PF14634 zf-RING_5: zinc-RING finger domain
Probab=24.06 E-value=36 Score=22.42 Aligned_cols=42 Identities=29% Similarity=0.627 Sum_probs=27.8
Q ss_pred ecccCCCCCC-CCCeEeccCCCCeeeccccccCccccCCCCeeEcCCCCC
Q 026158 189 CGSCGGSYNS-AQFWIGCDICERWYHGKCVKITPAKAENIKQYKCPSCST 237 (242)
Q Consensus 189 C~iCg~~y~~-d~~mIqCD~Ce~WfH~~CVgIt~~~a~~i~~w~Cp~C~~ 237 (242)
|.+|.+.|++ ..++| -.|.-.|...|+.-.. .....||.|.+
T Consensus 2 C~~C~~~~~~~~~~~l--~~CgH~~C~~C~~~~~-----~~~~~CP~C~k 44 (44)
T PF14634_consen 2 CNICFEKYSEERRPRL--TSCGHIFCEKCLKKLK-----GKSVKCPICRK 44 (44)
T ss_pred CcCcCccccCCCCeEE--cccCCHHHHHHHHhhc-----CCCCCCcCCCC
Confidence 7889988832 23333 3677778888886544 13578998863
No 91
>TIGR00311 aIF-2beta translation initiation factor aIF-2, beta subunit, putative.
Probab=23.87 E-value=45 Score=27.89 Aligned_cols=25 Identities=16% Similarity=0.500 Sum_probs=16.2
Q ss_pred CceecccCCCCCC-----CCCeEeccCCCC
Q 026158 186 ETFCGSCGGSYNS-----AQFWIGCDICER 210 (242)
Q Consensus 186 ~~~C~iCg~~y~~-----d~~mIqCD~Ce~ 210 (242)
-++|..|+.|+.. ...++.|+.|+.
T Consensus 97 yVlC~~C~sPdT~l~k~~r~~~l~C~ACGa 126 (133)
T TIGR00311 97 YVICRECNRPDTRIIKEGRVSLLKCEACGA 126 (133)
T ss_pred eEECCCCCCCCcEEEEeCCeEEEecccCCC
Confidence 3678888887742 233567777764
No 92
>PF05207 zf-CSL: CSL zinc finger; InterPro: IPR007872 Zinc finger (Znf) domains are relatively small protein motifs which contain multiple finger-like protrusions that make tandem contacts with their target molecule. Some of these domains bind zinc, but many do not; instead binding other metals such as iron, or no metal at all. For example, some family members form salt bridges to stabilise the finger-like folds. They were first identified as a DNA-binding motif in transcription factor TFIIIA from Xenopus laevis (African clawed frog), however they are now recognised to bind DNA, RNA, protein and/or lipid substrates [, , , , ]. Their binding properties depend on the amino acid sequence of the finger domains and of the linker between fingers, as well as on the higher-order structures and the number of fingers. Znf domains are often found in clusters, where fingers can have different binding specificities. There are many superfamilies of Znf motifs, varying in both sequence and structure. They display considerable versatility in binding modes, even between members of the same class (e.g. some bind DNA, others protein), suggesting that Znf motifs are stable scaffolds that have evolved specialised functions. For example, Znf-containing proteins function in gene transcription, translation, mRNA trafficking, cytoskeleton organisation, epithelial development, cell adhesion, protein folding, chromatin remodelling and zinc sensing, to name but a few []. Zinc-binding motifs are stable structures, and they rarely undergo conformational changes upon binding their target. This entry represents a probable zinc binding motif that contains four cysteines and may chelate zinc, known as the DPH-type after the diphthamide (DPH) biosynthesis protein in which it was first characterised, including the proteins DPH3 and DPH4. This domain is also found associated with N-terminal domain of heat shock protein DnaJ IPR001623 from INTERPRO domain. Diphthamide is a unique post-translationally modified histidine residue found only in translation elongation factor 2 (eEF-2). It is conserved from archaea to humans and serves as the target for diphteria toxin and Pseudomonas exotoxin A. These two toxins catalyse the transfer of ADP-ribose to diphtamide on eEF-2, thus inactivating eEF-2, halting cellular protein synthesis, and causing cell death []. The biosynthesis of diphtamide is dependent on at least five proteins, DPH1 to -5, and a still unidentified amidating enzyme. DPH3 and DPH4 share a conserved region, which encode a putative zinc finger, the DPH-type or CSL-type (after the conserved motif of the final cysteine) zinc finger [, ]. The function of this motif is unknown. More information about these proteins can be found at Protein of the Month: Zinc Fingers [].; PDB: 2L6L_A 1WGE_A 2JR7_A 1YOP_A 1YWS_A.
Probab=23.86 E-value=29 Score=24.59 Aligned_cols=29 Identities=28% Similarity=0.833 Sum_probs=18.6
Q ss_pred CCCceecccCCCCC-------CCCCeEeccCCCCeee
Q 026158 184 NDETFCGSCGGSYN-------SAQFWIGCDICERWYH 213 (242)
Q Consensus 184 ~~~~~C~iCg~~y~-------~d~~mIqCD~Ce~WfH 213 (242)
.-...| -||..+. .+...|+|+.|.-|.+
T Consensus 16 ~~~y~C-RCG~~f~i~e~~l~~~~~iv~C~sCSL~I~ 51 (55)
T PF05207_consen 16 VYSYPC-RCGGEFEISEEDLEEGEVIVQCDSCSLWIR 51 (55)
T ss_dssp EEEEEE-TTSSEEEEEHHHHHCT--EEEETTTTEEEE
T ss_pred EEEEcC-CCCCEEEEcchhccCcCEEEECCCCccEEE
Confidence 344456 7887552 1457899999998865
No 93
>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=23.54 E-value=50 Score=24.35 Aligned_cols=36 Identities=22% Similarity=0.481 Sum_probs=20.6
Q ss_pred CCceecccCCCCCCCCCeEecc--------CCCCeeeccccccC
Q 026158 185 DETFCGSCGGSYNSAQFWIGCD--------ICERWYHGKCVKIT 220 (242)
Q Consensus 185 ~~~~C~iCg~~y~~d~~mIqCD--------~Ce~WfH~~CVgIt 220 (242)
+-..|-.|++.-..+..-|+-. .-..|||..|+...
T Consensus 6 ~Ra~Ck~C~~~I~kg~lRiG~~~~~~~~~~~~~~W~H~~C~~~~ 49 (82)
T PF00645_consen 6 GRAKCKGCKKKIAKGELRIGKIVPSPEGDGDIPKWYHWDCFFKK 49 (82)
T ss_dssp STEBETTTSCBE-TTSEEEEEEEEETTSSCEEEEEEEHHHHHHT
T ss_pred CCccCcccCCcCCCCCEEEEEEecccccCCCCCceECccccccc
Confidence 3445777876554443333321 22379999998643
No 94
>COG3896 Chloramphenicol 3-O-phosphotransferase [Defense mechanisms]
Probab=23.47 E-value=37 Score=30.29 Aligned_cols=37 Identities=32% Similarity=0.452 Sum_probs=32.2
Q ss_pred CCCCCCCCCCCCcCccccCCCcccccceeeeeeechhHH
Q 026158 63 ADEVPPEIPEPALGINFSRDGMCKKDWLSLVAVHSDCWL 101 (242)
Q Consensus 63 ~~~~p~~~pep~~gin~~rd~m~~~~wl~~va~h~d~wl 101 (242)
-|.|||++--|+.| |-+||-.+.|=+.+|.||--.=+
T Consensus 60 ~e~lpp~~~d~a~g--~~~~~~v~~dg~~~v~v~~gpi~ 96 (205)
T COG3896 60 WEALPPEQLDLARG--YTWDSAVEADGLEWVTVHPGPIL 96 (205)
T ss_pred HHhCCHHhhccccc--cccccccccCCceeeEeechhHH
Confidence 37899999888877 99999999999999999986654
No 95
>PLN02915 cellulose synthase A [UDP-forming], catalytic subunit
Probab=23.23 E-value=76 Score=34.97 Aligned_cols=52 Identities=23% Similarity=0.594 Sum_probs=38.0
Q ss_pred CCCceecccCCCC---CCCCCeEeccCCCCeeeccccccCccccCCCCeeEcCCCCCcc
Q 026158 184 NDETFCGSCGGSY---NSAQFWIGCDICERWYHGKCVKITPAKAENIKQYKCPSCSTKK 239 (242)
Q Consensus 184 ~~~~~C~iCg~~y---~~d~~mIqCD~Ce~WfH~~CVgIt~~~a~~i~~w~Cp~C~~Kr 239 (242)
....+|.+||..- .+|+..|.|..|.-=.--.|......+ ..=.||.|..+-
T Consensus 13 ~~~~~c~iCGd~vg~~~~Ge~FVAC~eC~fpvCr~cyeye~~~----g~~~cp~c~t~y 67 (1044)
T PLN02915 13 ADAKTCRVCGDEVGVKEDGQPFVACHVCGFPVCKPCYEYERSE----GNQCCPQCNTRY 67 (1044)
T ss_pred CCcchhhccccccCcCCCCCEEEEeccCCCccccchhhhhhhc----CCccCCccCCch
Confidence 3556899998643 236789999999987778888665543 357899998643
No 96
>PF04810 zf-Sec23_Sec24: Sec23/Sec24 zinc finger; InterPro: IPR006895 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. COPII (coat protein complex II)-coated vesicles carry proteins from the endoplasmic reticulum (ER) to the Golgi complex []. COPII-coated vesicles form on the ER by the stepwise recruitment of three cytosolic components: Sar1-GTP to initiate coat formation, Sec23/24 heterodimer to select SNARE and cargo molecules, and Sec13/31 to induce coat polymerisation and membrane deformation []. Sec23 p and Sec24p are structurally related, folding into five distinct domains: a beta-barrel, a zinc-finger, an alpha/beta trunk domain (IPR006896 from INTERPRO), an all-helical region (IPR006900 from INTERPRO), and a C-terminal gelsolin-like domain (IPR007123 from INTERPRO). This entry describes an approximately 55-residue Sec23/24 zinc-binding domain, which lies against the beta-barrel at the periphery of the complex. More information about these proteins can be found at Protein of the Month: Zinc Fingers [].; GO: 0008270 zinc ion binding, 0006886 intracellular protein transport, 0006888 ER to Golgi vesicle-mediated transport, 0030127 COPII vesicle coat; PDB: 3EFO_B 3EG9_B 3EGD_A 2YRC_A 2NUP_A 2YRD_A 3EGX_A 2NUT_A 3EH1_A 1PD0_A ....
Probab=23.04 E-value=57 Score=21.45 Aligned_cols=31 Identities=26% Similarity=0.560 Sum_probs=13.2
Q ss_pred EeccCCCCeeeccccccCccccCCCCeeEcCCCCCc
Q 026158 203 IGCDICERWYHGKCVKITPAKAENIKQYKCPSCSTK 238 (242)
Q Consensus 203 IqCD~Ce~WfH~~CVgIt~~~a~~i~~w~Cp~C~~K 238 (242)
|.|..|..-.-.-|.-.. ..+.|+|+.|..+
T Consensus 3 ~rC~~C~aylNp~~~~~~-----~~~~w~C~~C~~~ 33 (40)
T PF04810_consen 3 VRCRRCRAYLNPFCQFDD-----GGKTWICNFCGTK 33 (40)
T ss_dssp -B-TTT--BS-TTSEEET-----TTTEEEETTT--E
T ss_pred cccCCCCCEECCcceEcC-----CCCEEECcCCCCc
Confidence 556666654333332222 1257999999764
No 97
>PHA02862 5L protein; Provisional
Probab=23.00 E-value=39 Score=29.23 Aligned_cols=47 Identities=23% Similarity=0.505 Sum_probs=27.0
Q ss_pred eecccCCCCCCCCCeEeccCCCCeeeccccccCccccCCCCeeEcCCCCC
Q 026158 188 FCGSCGGSYNSAQFWIGCDICERWYHGKCVKITPAKAENIKQYKCPSCST 237 (242)
Q Consensus 188 ~C~iCg~~y~~d~~mIqCD~Ce~WfH~~CVgIt~~~a~~i~~w~Cp~C~~ 237 (242)
.|=+|...++.+...=.|-+--+|.|.+|+..--... ..=.|+.|..
T Consensus 4 iCWIC~~~~~e~~~PC~C~GS~K~VHq~CL~~WIn~S---~k~~CeLCkt 50 (156)
T PHA02862 4 ICWICNDVCDERNNFCGCNEEYKVVHIKCMQLWINYS---KKKECNLCKT 50 (156)
T ss_pred EEEEecCcCCCCcccccccCcchhHHHHHHHHHHhcC---CCcCccCCCC
Confidence 4666666554333333355556799999986322211 3457888874
No 98
>TIGR00686 phnA alkylphosphonate utilization operon protein PhnA. The protein family includes an uncharacterized member designated phnA in Escherichia coli, part of a large operon associated with alkylphosphonate uptake and carbon-phosphorus bond cleavage. This protein is not related to the characterized phosphonoacetate hydrolase designated PhnA by Kulakova, et al. (2001, 1997).
Probab=22.92 E-value=46 Score=27.32 Aligned_cols=28 Identities=21% Similarity=0.584 Sum_probs=20.8
Q ss_pred ceecccCCCCCC-CCCeEeccCCC-Ceeec
Q 026158 187 TFCGSCGGSYNS-AQFWIGCDICE-RWYHG 214 (242)
Q Consensus 187 ~~C~iCg~~y~~-d~~mIqCD~Ce-~WfH~ 214 (242)
..|+.|+..|.- ++.+.-|..|. +|-..
T Consensus 3 p~CP~C~seytY~dg~~~iCpeC~~EW~~~ 32 (109)
T TIGR00686 3 PPCPKCNSEYTYHDGTQLICPSCLYEWNEN 32 (109)
T ss_pred CcCCcCCCcceEecCCeeECcccccccccc
Confidence 469999887732 56678899997 88555
No 99
>smart00653 eIF2B_5 domain present in translation initiation factor eIF2B and eIF5.
Probab=22.76 E-value=49 Score=26.75 Aligned_cols=25 Identities=24% Similarity=0.797 Sum_probs=18.1
Q ss_pred CceecccCCCCCC-----CCCeEeccCCCC
Q 026158 186 ETFCGSCGGSYNS-----AQFWIGCDICER 210 (242)
Q Consensus 186 ~~~C~iCg~~y~~-----d~~mIqCD~Ce~ 210 (242)
-++|..|+.|+.. ...++.|+.|+.
T Consensus 80 yVlC~~C~spdT~l~k~~r~~~l~C~aCGa 109 (110)
T smart00653 80 YVLCPECGSPDTELIKENRLFFLKCEACGA 109 (110)
T ss_pred cEECCCCCCCCcEEEEeCCeEEEEccccCC
Confidence 4789999998742 344667888863
No 100
>PF15446 zf-PHD-like: PHD/FYVE-zinc-finger like domain
Probab=22.60 E-value=1.2e+02 Score=26.86 Aligned_cols=25 Identities=20% Similarity=0.371 Sum_probs=20.2
Q ss_pred CCCCCCCeEeccCCCCeeecccccc
Q 026158 195 SYNSAQFWIGCDICERWYHGKCVKI 219 (242)
Q Consensus 195 ~y~~d~~mIqCD~Ce~WfH~~CVgI 219 (242)
.++.+..|..|..|.+-||+..+--
T Consensus 117 vnN~~nVLFRC~~C~RawH~~HLP~ 141 (175)
T PF15446_consen 117 VNNPDNVLFRCTSCHRAWHFEHLPP 141 (175)
T ss_pred ccChhheEEecCCccceeehhhCCC
Confidence 3455778999999999999988754
No 101
>KOG1886 consensus BAH domain proteins [Transcription]
Probab=22.58 E-value=51 Score=33.14 Aligned_cols=44 Identities=11% Similarity=-0.180 Sum_probs=36.1
Q ss_pred ecccCCCCCCCCCeEeccCCCCeeeccccccCccccCCCCeeEcCCCC
Q 026158 189 CGSCGGSYNSAQFWIGCDICERWYHGKCVKITPAKAENIKQYKCPSCS 236 (242)
Q Consensus 189 C~iCg~~y~~d~~mIqCD~Ce~WfH~~CVgIt~~~a~~i~~w~Cp~C~ 236 (242)
|+.|++.+.+...+.+|..|..|+|.+|++.+... +..+|..|+
T Consensus 173 ~~~~~k~e~d~~~~kt~~~~~~~~~p~~~~t~~~~----~~~~~~~~s 216 (464)
T KOG1886|consen 173 FGDGQKLEIDMLVPKTGPRRGTLPDPKKVQTLNAA----ASKRSQQKS 216 (464)
T ss_pred hhcccccCCccchhhhcccCCCCCCcccccccccc----ccceecccc
Confidence 55899999888889999999999999999988732 457777763
No 102
>PRK03988 translation initiation factor IF-2 subunit beta; Validated
Probab=22.55 E-value=50 Score=27.79 Aligned_cols=26 Identities=19% Similarity=0.571 Sum_probs=18.5
Q ss_pred CceecccCCCCCC-----CCCeEeccCCCCe
Q 026158 186 ETFCGSCGGSYNS-----AQFWIGCDICERW 211 (242)
Q Consensus 186 ~~~C~iCg~~y~~-----d~~mIqCD~Ce~W 211 (242)
-++|..|+.|+.. ...++.|+.|+..
T Consensus 102 yVlC~~C~spdT~l~k~~r~~~l~C~ACGa~ 132 (138)
T PRK03988 102 YVICPECGSPDTKLIKEGRIWVLKCEACGAE 132 (138)
T ss_pred cEECCCCCCCCcEEEEcCCeEEEEcccCCCC
Confidence 4789999998742 3456778888754
No 103
>PRK10220 hypothetical protein; Provisional
Probab=22.46 E-value=54 Score=26.98 Aligned_cols=29 Identities=21% Similarity=0.607 Sum_probs=21.4
Q ss_pred ceecccCCCCCC-CCCeEeccCCC-Ceeecc
Q 026158 187 TFCGSCGGSYNS-AQFWIGCDICE-RWYHGK 215 (242)
Q Consensus 187 ~~C~iCg~~y~~-d~~mIqCD~Ce-~WfH~~ 215 (242)
..|+.|+..|.- ++.+.-|..|. +|-...
T Consensus 4 P~CP~C~seytY~d~~~~vCpeC~hEW~~~~ 34 (111)
T PRK10220 4 PHCPKCNSEYTYEDNGMYICPECAHEWNDAE 34 (111)
T ss_pred CcCCCCCCcceEcCCCeEECCcccCcCCccc
Confidence 469999887632 56678899997 896654
No 104
>KOG1941 consensus Acetylcholine receptor-associated protein of the synapse (rapsyn) [Extracellular structures]
Probab=22.07 E-value=10 Score=37.64 Aligned_cols=50 Identities=26% Similarity=0.653 Sum_probs=37.6
Q ss_pred CCCceecccCCCCCCCCCeEeccCCCCeeeccccc-cCccccCCCCeeEcCCCCC
Q 026158 184 NDETFCGSCGGSYNSAQFWIGCDICERWYHGKCVK-ITPAKAENIKQYKCPSCST 237 (242)
Q Consensus 184 ~~~~~C~iCg~~y~~d~~mIqCD~Ce~WfH~~CVg-It~~~a~~i~~w~Cp~C~~ 237 (242)
.-+.+|+.||+.++--..-+|---|.--||.+|.. +-... ..-.||.|.+
T Consensus 363 e~~L~Cg~CGe~~Glk~e~LqALpCsHIfH~rCl~e~L~~n----~~rsCP~Crk 413 (518)
T KOG1941|consen 363 ETELYCGLCGESIGLKNERLQALPCSHIFHLRCLQEILENN----GTRSCPNCRK 413 (518)
T ss_pred HHhhhhhhhhhhhcCCcccccccchhHHHHHHHHHHHHHhC----CCCCCccHHH
Confidence 45678999999886555667888899999999996 33222 2367999984
No 105
>PLN02189 cellulose synthase
Probab=21.87 E-value=70 Score=35.20 Aligned_cols=52 Identities=21% Similarity=0.568 Sum_probs=37.7
Q ss_pred CCCceecccCCCC---CCCCCeEeccCCCCeeeccccccCccccCCCCeeEcCCCCCcc
Q 026158 184 NDETFCGSCGGSY---NSAQFWIGCDICERWYHGKCVKITPAKAENIKQYKCPSCSTKK 239 (242)
Q Consensus 184 ~~~~~C~iCg~~y---~~d~~mIqCD~Ce~WfH~~CVgIt~~~a~~i~~w~Cp~C~~Kr 239 (242)
.+..+|.+|+..- .+|+..|.|..|.-=.--.|......+ ..=.||.|..+-
T Consensus 32 ~~~~~C~iCgd~vg~~~~g~~fvaC~~C~fpvCr~Cyeyer~e----g~q~CpqCkt~Y 86 (1040)
T PLN02189 32 LDGQVCEICGDEIGLTVDGDLFVACNECGFPVCRPCYEYERRE----GTQNCPQCKTRY 86 (1040)
T ss_pred ccCccccccccccCcCCCCCEEEeeccCCCccccchhhhhhhc----CCccCcccCCch
Confidence 3455899998753 236788999999977777888655443 457899998643
No 106
>PF09065 Haemadin: Haemadin; InterPro: IPR015150 Members of this family adopt a secondary structure consisting of five short beta-strands (beta1-beta5), which are arranged in two antiparallel distorted sheets formed by strands beta1-beta4-beta5 and beta2-beta3 facing each other. This beta-sandwich is stabilised by six enclosed cysteines arranged in a [1-2, 3-5, 4-6] disulphide pairing resulting in a disulphide-rich hydrophobic core that is largely inaccessible to bulk solvent. The close proximity of disulphide bonds [3-5] and [4-6] organises haemadin into four distinct loops. The N-terminal segment of this domain binds to the active site of thrombin, inhibiting it []. ; PDB: 1E0F_K.
Probab=21.85 E-value=37 Score=20.95 Aligned_cols=9 Identities=56% Similarity=1.431 Sum_probs=5.9
Q ss_pred ccceeccCC
Q 026158 45 ENLCLYGHP 53 (242)
Q Consensus 45 ~~l~lyg~~ 53 (242)
|.+||||..
T Consensus 5 ekiclygqs 13 (27)
T PF09065_consen 5 EKICLYGQS 13 (27)
T ss_dssp SSEE-TTEE
T ss_pred ceeeEeccc
Confidence 568999863
No 107
>PF09447 Cnl2_NKP2: Cnl2/NKP2 family protein; InterPro: IPR018565 This entry includes the Cnl2 kinetochore protein [].
Probab=21.68 E-value=1.6e+02 Score=22.08 Aligned_cols=29 Identities=17% Similarity=0.540 Sum_probs=26.6
Q ss_pred CHHHHHHHHHHHHHHHHHHhhhcHHHHhh
Q 026158 10 TVEEIFKDFKARRSALVRALTYDVDQFYS 38 (242)
Q Consensus 10 ~~~~~~~d~~~rr~~~~~alt~d~~~f~~ 38 (242)
.|..+|++....|+..+-++...++.+++
T Consensus 38 ~ir~LYr~Lq~qR~~~~d~V~~nI~~e~~ 66 (67)
T PF09447_consen 38 QIRSLYRDLQAQREQVLDKVRENIDQEFK 66 (67)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHc
Confidence 67999999999999999999999998875
No 108
>KOG1246 consensus DNA-binding protein jumonji/RBP2/SMCY, contains JmjC domain [General function prediction only]
Probab=21.48 E-value=68 Score=34.25 Aligned_cols=51 Identities=24% Similarity=0.694 Sum_probs=39.2
Q ss_pred CCCceecccCCCCCCCCCeEeccCCCCeeeccccccCccccCCCCeeEcCCCCC
Q 026158 184 NDETFCGSCGGSYNSAQFWIGCDICERWYHGKCVKITPAKAENIKQYKCPSCST 237 (242)
Q Consensus 184 ~~~~~C~iCg~~y~~d~~mIqCD~Ce~WfH~~CVgIt~~~a~~i~~w~Cp~C~~ 237 (242)
.....|-.|.+.... ... .|++|.+=||..|.......... ..|.|+.|..
T Consensus 153 ~~~~~~~~~~k~~~~-~~~-~~~~~~~~~~~~~~~~~~~~~~~-~~~~~~~~~~ 203 (904)
T KOG1246|consen 153 IDYPQCNTCSKGKEE-KLL-LCDSCDDSYHTYCLRPPLTRVPD-GDWRCPKCIP 203 (904)
T ss_pred ccchhhhccccCCCc-cce-ecccccCcccccccCCCCCcCCc-CcccCCcccc
Confidence 444567788887654 344 99999999999999988777666 4688999974
No 109
>KOG2987 consensus Fatty acid desaturase [Lipid transport and metabolism]
Probab=21.27 E-value=82 Score=29.91 Aligned_cols=31 Identities=26% Similarity=0.749 Sum_probs=25.2
Q ss_pred hHHHHHHHHhhcccCc-------------------hhhHHHHHhhhcCCc
Q 026158 99 CWLVAVAFYFGARLNG-------------------NERKRLYSLINDLPT 129 (242)
Q Consensus 99 ~wl~~~a~~~~~~~~~-------------------~~r~~lf~min~LPT 129 (242)
.|+|..|.|||+-+|. .-+-|.|.|+-+||-
T Consensus 67 ~~il~~AYf~gg~iNhsl~LAIHeiSHN~aFg~~rpl~NR~~g~fANLPi 116 (324)
T KOG2987|consen 67 KWILFIAYFFGGFINHSLTLAIHEISHNLAFGTNRPLYNRIFGFFANLPI 116 (324)
T ss_pred HHHHHHHHHhhhhhchhHHHHHHHhhhhhhcccCchHHHHHHHHhhcCcc
Confidence 4888899999987643 467899999999985
No 110
>COG5415 Predicted integral membrane metal-binding protein [General function prediction only]
Probab=21.14 E-value=54 Score=30.11 Aligned_cols=24 Identities=25% Similarity=0.679 Sum_probs=17.2
Q ss_pred eccccccCccccCCCCeeEcCCCCCcc
Q 026158 213 HGKCVKITPAKAENIKQYKCPSCSTKK 239 (242)
Q Consensus 213 H~~CVgIt~~~a~~i~~w~Cp~C~~Kr 239 (242)
|..|+...+.. ++.|+|+.|..+.
T Consensus 201 hngl~~~~ek~---~~efiC~~Cn~~n 224 (251)
T COG5415 201 HNGLYRLAEKP---IIEFICPHCNHKN 224 (251)
T ss_pred ccccccccccc---chheecccchhhc
Confidence 77788776653 2479999998654
No 111
>PLN02638 cellulose synthase A (UDP-forming), catalytic subunit
Probab=20.60 E-value=74 Score=35.15 Aligned_cols=51 Identities=24% Similarity=0.612 Sum_probs=37.9
Q ss_pred CCCceecccCCCC---CCCCCeEeccCCCCeeeccccccCccccCCCCeeEcCCCCCc
Q 026158 184 NDETFCGSCGGSY---NSAQFWIGCDICERWYHGKCVKITPAKAENIKQYKCPSCSTK 238 (242)
Q Consensus 184 ~~~~~C~iCg~~y---~~d~~mIqCD~Ce~WfH~~CVgIt~~~a~~i~~w~Cp~C~~K 238 (242)
.+..+|.+||..- .+++..|.|..|.-=.--.|......+ ..=.||.|..+
T Consensus 15 ~~~qiCqICGD~vg~~~~Ge~FVAC~eC~FPVCrpCYEYEr~e----G~q~CPqCktr 68 (1079)
T PLN02638 15 GGGQVCQICGDNVGKTVDGEPFVACDVCAFPVCRPCYEYERKD----GNQSCPQCKTK 68 (1079)
T ss_pred cCCceeeecccccCcCCCCCEEEEeccCCCccccchhhhhhhc----CCccCCccCCc
Confidence 3455899998643 236789999999988888888665543 34689999863
No 112
>COG2888 Predicted Zn-ribbon RNA-binding protein with a function in translation [Translation, ribosomal structure and biogenesis]
Probab=20.30 E-value=1.3e+02 Score=22.37 Aligned_cols=47 Identities=26% Similarity=0.625 Sum_probs=27.5
Q ss_pred CceecccCCCCCCCCC--eEeccCCCCeeeccccccCccccCCCCeeEcCCCC
Q 026158 186 ETFCGSCGGSYNSAQF--WIGCDICERWYHGKCVKITPAKAENIKQYKCPSCS 236 (242)
Q Consensus 186 ~~~C~iCg~~y~~d~~--mIqCD~Ce~WfH~~CVgIt~~~a~~i~~w~Cp~C~ 236 (242)
...|-.|+..-..++. -.-|-.|.+-.-..|..-...- ..|.||.|.
T Consensus 9 ~~~CtSCg~~i~p~e~~v~F~CPnCGe~~I~Rc~~CRk~g----~~Y~Cp~CG 57 (61)
T COG2888 9 PPVCTSCGREIAPGETAVKFPCPNCGEVEIYRCAKCRKLG----NPYRCPKCG 57 (61)
T ss_pred CceeccCCCEeccCCceeEeeCCCCCceeeehhhhHHHcC----CceECCCcC
Confidence 4567778876533322 3347777755555555433221 359999995
No 113
>PHA02616 VP2/VP3; Provisional
Probab=20.26 E-value=1.4e+02 Score=27.29 Aligned_cols=63 Identities=21% Similarity=0.326 Sum_probs=41.2
Q ss_pred CceeeeCCCCCCCCCCCCCCc--------------------------CccccCCCcccc-cceeeeeee-------chhH
Q 026158 55 ESWEVTMPADEVPPEIPEPAL--------------------------GINFSRDGMCKK-DWLSLVAVH-------SDCW 100 (242)
Q Consensus 55 ~~w~v~~p~~~~p~~~pep~~--------------------------gin~~rd~m~~~-~wl~~va~h-------~d~w 100 (242)
-.||.---.+--|-.+++++. |.|=-|+|..|. -|+|.-+-. .--|
T Consensus 108 RerEllqi~aGqPld~s~gvsa~~~a~~~l~~a~ynf~YDas~LP~dGfNals~GvHrlGqWiSf~g~tGgTphYa~PdW 187 (259)
T PHA02616 108 RERELLQILAGQPLDESRGVSALSAAAGALTEAAYNFIYDASNLPKDGFNALSGGVHRLGQWISFSGETGGTPHYAIPDW 187 (259)
T ss_pred hhHHHHHHHcCCCccCCCCeehhhhhhhhhhhhhhhhhcccccCCCcCccccccccccccceEEecCCCCCCCCccchHH
Confidence 347766555666766776665 677777777764 699986532 2348
Q ss_pred HHHHHHHhhcccCchhhHHHHHhhhcCCc
Q 026158 101 LVAVAFYFGARLNGNERKRLYSLINDLPT 129 (242)
Q Consensus 101 l~~~a~~~~~~~~~~~r~~lf~min~LPT 129 (242)
+|-|. ..|-.-|+..||
T Consensus 188 iLyVL------------EeLn~di~kipt 204 (259)
T PHA02616 188 ILYVL------------EELNKDIYKIPT 204 (259)
T ss_pred HHHHH------------HHHHHHHhhcch
Confidence 88764 556666777776
Done!