Query 017863
Match_columns 365
No_of_seqs 212 out of 587
Neff 3.6
Searched_HMMs 46136
Date Fri Mar 29 04:05:00 2013
Command hhsearch -i /work/01045/syshi/csienesis_hhblits_a3m/017863.a3m -d /work/01045/syshi/HHdatabase/Cdd.hhm -o /work/01045/syshi/hhsearch_cdd/017863hhsearch_cdd -cpu 12 -v 0
No Hit Prob E-value P-value Score SS Cols Query HMM Template HMM
1 PHA02825 LAP/PHD finger-like p 99.7 2.7E-18 5.8E-23 154.1 5.9 100 236-364 4-103 (162)
2 PHA02862 5L protein; Provision 99.6 9.4E-17 2E-21 142.7 3.7 64 241-321 3-66 (156)
3 smart00744 RINGv The RING-vari 99.6 2.8E-16 6.1E-21 115.7 3.3 49 242-301 1-49 (49)
4 PF12906 RINGv: RING-variant d 99.6 3.3E-16 7.1E-21 114.5 1.2 47 243-300 1-47 (47)
5 KOG3053 Uncharacterized conser 99.6 2.5E-15 5.4E-20 143.7 4.9 97 235-356 15-119 (293)
6 KOG1609 Protein involved in mR 99.5 9.2E-15 2E-19 136.2 4.3 69 232-309 70-138 (323)
7 COG5183 SSM4 Protein involved 99.3 7.2E-13 1.6E-17 141.4 3.5 62 238-310 10-71 (1175)
8 PF13639 zf-RING_2: Ring finge 97.6 2E-05 4.4E-10 55.6 1.0 43 242-301 2-44 (44)
9 PF12678 zf-rbx1: RING-H2 zinc 97.0 0.00048 1E-08 54.3 2.3 54 240-301 19-73 (73)
10 KOG4628 Predicted E3 ubiquitin 96.8 0.00095 2.1E-08 67.2 3.6 52 241-308 230-281 (348)
11 COG5243 HRD1 HRD ubiquitin lig 96.7 0.0019 4.1E-08 66.1 4.5 60 237-303 284-343 (491)
12 PHA02929 N1R/p28-like protein; 96.5 0.0022 4.8E-08 61.5 3.7 57 239-308 173-230 (238)
13 cd00162 RING RING-finger (Real 96.5 0.0028 6E-08 42.3 3.0 44 242-303 1-44 (45)
14 PF13920 zf-C3HC4_3: Zinc fing 96.3 0.0026 5.6E-08 46.1 2.2 47 240-305 2-48 (50)
15 PF12861 zf-Apc11: Anaphase-pr 96.1 0.0079 1.7E-07 50.0 4.1 61 240-305 21-82 (85)
16 smart00184 RING Ring finger. E 95.9 0.0077 1.7E-07 38.7 2.8 39 243-300 1-39 (39)
17 PF11793 FANCL_C: FANCL C-term 95.8 0.0032 7E-08 49.5 0.8 56 240-305 2-66 (70)
18 COG5540 RING-finger-containing 95.6 0.0096 2.1E-07 59.7 3.4 49 239-304 322-371 (374)
19 PLN03208 E3 ubiquitin-protein 95.5 0.012 2.7E-07 55.1 3.5 49 239-305 17-79 (193)
20 KOG0802 E3 ubiquitin ligase [P 95.4 0.0098 2.1E-07 62.2 2.9 51 239-304 290-340 (543)
21 PHA02926 zinc finger-like prot 95.3 0.017 3.6E-07 55.8 3.8 62 239-309 169-234 (242)
22 PF00097 zf-C3HC4: Zinc finger 95.2 0.016 3.4E-07 39.9 2.3 41 243-300 1-41 (41)
23 smart00504 Ubox Modified RING 94.6 0.04 8.8E-07 40.6 3.4 44 241-304 2-45 (63)
24 COG5219 Uncharacterized conser 93.9 0.02 4.3E-07 64.3 0.6 55 239-305 1468-1523(1525)
25 PF13923 zf-C3HC4_2: Zinc fing 93.6 0.041 8.8E-07 38.1 1.6 39 243-300 1-39 (39)
26 KOG0823 Predicted E3 ubiquitin 91.6 0.18 4E-06 48.6 3.6 51 237-305 44-95 (230)
27 KOG0828 Predicted E3 ubiquitin 91.3 0.14 3E-06 54.4 2.7 60 239-304 570-633 (636)
28 KOG1493 Anaphase-promoting com 90.0 0.1 2.2E-06 43.2 0.3 60 242-306 22-82 (84)
29 KOG0827 Predicted E3 ubiquitin 90.0 0.23 4.9E-06 51.5 2.8 23 279-301 29-52 (465)
30 TIGR00599 rad18 DNA repair pro 89.2 0.26 5.7E-06 50.7 2.6 49 237-305 23-71 (397)
31 KOG0804 Cytoplasmic Zn-finger 88.6 0.24 5.2E-06 52.0 1.8 48 238-303 173-220 (493)
32 PF14570 zf-RING_4: RING/Ubox 87.2 0.44 9.5E-06 35.9 2.1 46 243-305 1-48 (48)
33 COG5194 APC11 Component of SCF 85.7 0.5 1.1E-05 39.5 1.8 25 279-305 57-81 (88)
34 PF14634 zf-RING_5: zinc-RING 85.7 0.72 1.6E-05 32.8 2.4 43 243-302 2-44 (44)
35 KOG1785 Tyrosine kinase negati 83.2 0.46 1E-05 49.6 0.7 53 240-310 369-421 (563)
36 PLN02189 cellulose synthase 82.9 0.8 1.7E-05 52.3 2.5 56 239-308 33-90 (1040)
37 KOG0317 Predicted E3 ubiquitin 82.7 1.3 2.9E-05 44.1 3.6 50 236-305 235-284 (293)
38 COG5175 MOT2 Transcriptional r 81.8 1.1 2.4E-05 46.1 2.7 53 236-305 10-64 (480)
39 PF15227 zf-C3HC4_4: zinc fing 80.0 1 2.2E-05 32.2 1.4 40 243-300 1-42 (42)
40 PLN02436 cellulose synthase A 79.2 1.3 2.8E-05 50.9 2.4 56 239-308 35-92 (1094)
41 KOG4445 Uncharacterized conser 79.1 1.1 2.4E-05 45.3 1.8 57 234-305 109-186 (368)
42 PF04564 U-box: U-box domain; 79.1 1.6 3.5E-05 34.2 2.3 63 240-321 4-69 (73)
43 KOG1645 RING-finger-containing 78.9 1.5 3.2E-05 45.9 2.6 53 239-304 3-55 (463)
44 KOG0825 PHD Zn-finger protein 78.6 0.72 1.6E-05 51.6 0.3 32 270-308 143-174 (1134)
45 KOG4265 Predicted E3 ubiquitin 78.5 2.8 6E-05 42.9 4.4 50 238-306 288-337 (349)
46 PF13445 zf-RING_UBOX: RING-ty 78.0 1.6 3.5E-05 31.7 1.9 41 243-298 1-43 (43)
47 TIGR00570 cdk7 CDK-activating 77.2 2.5 5.5E-05 42.5 3.6 52 240-305 3-54 (309)
48 PF05883 Baculo_RING: Baculovi 77.2 1.1 2.4E-05 40.2 1.0 43 240-292 26-69 (134)
49 KOG2930 SCF ubiquitin ligase, 74.6 2 4.4E-05 37.5 1.9 24 279-304 84-107 (114)
50 PHA03164 hypothetical protein; 73.6 2.2 4.7E-05 35.6 1.8 25 341-365 57-81 (88)
51 KOG0320 Predicted E3 ubiquitin 70.5 13 0.00028 35.2 6.3 49 238-304 129-177 (187)
52 PF08746 zf-RING-like: RING-li 67.4 2.9 6.4E-05 30.3 1.1 22 279-300 22-43 (43)
53 PLN02638 cellulose synthase A 65.0 5.2 0.00011 46.2 3.0 58 239-309 16-74 (1079)
54 KOG1428 Inhibitor of type V ad 62.9 6.2 0.00014 47.5 3.1 53 238-305 3484-3544(3738)
55 KOG1952 Transcription factor N 61.8 6.5 0.00014 44.5 3.0 59 236-308 187-250 (950)
56 PLN02195 cellulose synthase A 61.6 7.3 0.00016 44.6 3.4 54 239-305 5-59 (977)
57 KOG1734 Predicted RING-contain 60.8 3.3 7.2E-05 41.5 0.5 59 238-304 222-280 (328)
58 PF10367 Vps39_2: Vacuolar sor 59.5 3.3 7.1E-05 33.1 0.2 33 239-287 77-109 (109)
59 KOG0801 Predicted E3 ubiquitin 59.3 4.3 9.3E-05 38.2 0.9 26 238-273 175-200 (205)
60 COG5432 RAD18 RING-finger-cont 56.6 5.3 0.00011 40.6 1.1 49 240-308 25-73 (391)
61 PF14569 zf-UDP: Zinc-binding 55.8 12 0.00026 31.2 2.8 59 239-309 8-66 (80)
62 PF10272 Tmpp129: Putative tra 54.7 8.8 0.00019 39.4 2.4 35 269-306 307-352 (358)
63 KOG2164 Predicted E3 ubiquitin 54.2 32 0.00069 37.1 6.4 49 240-306 186-237 (513)
64 KOG2177 Predicted E3 ubiquitin 54.0 6.7 0.00015 34.3 1.2 49 237-305 10-58 (386)
65 KOG1039 Predicted E3 ubiquitin 51.9 11 0.00024 38.5 2.5 62 238-309 159-225 (344)
66 KOG1002 Nucleotide excision re 51.6 8.5 0.00018 41.9 1.7 53 235-305 531-586 (791)
67 PLN02400 cellulose synthase 50.3 9.5 0.0002 44.2 2.0 58 239-309 35-93 (1085)
68 KOG1941 Acetylcholine receptor 48.8 8.2 0.00018 40.6 1.1 51 239-303 364-414 (518)
69 PF05290 Baculo_IE-1: Baculovi 45.1 17 0.00036 33.1 2.3 56 239-307 79-134 (140)
70 PF07800 DUF1644: Protein of u 45.0 24 0.00053 32.8 3.4 40 240-292 2-49 (162)
71 PF09889 DUF2116: Uncharacteri 42.0 22 0.00048 27.9 2.3 10 295-304 4-13 (59)
72 PLN02915 cellulose synthase A 41.6 18 0.00039 41.9 2.4 57 239-308 14-71 (1044)
73 PF01440 Gemini_AL2: Geminivir 40.2 4.8 0.0001 36.2 -1.8 34 265-301 31-64 (134)
74 KOG3899 Uncharacterized conser 37.7 21 0.00046 36.4 2.0 34 270-306 322-366 (381)
75 KOG0287 Postreplication repair 33.5 17 0.00036 37.8 0.5 47 239-305 22-68 (442)
76 KOG0956 PHD finger protein AF1 33.4 23 0.00049 39.8 1.5 59 240-306 117-183 (900)
77 PF13894 zf-C2H2_4: C2H2-type 33.3 18 0.00039 21.1 0.5 11 296-306 2-12 (24)
78 smart00249 PHD PHD zinc finger 29.7 16 0.00034 24.4 -0.2 30 242-286 1-30 (47)
79 KOG1973 Chromatin remodeling p 29.4 15 0.00032 35.8 -0.5 37 267-304 232-269 (274)
80 PF10571 UPF0547: Uncharacteri 29.3 25 0.00054 23.3 0.7 13 293-305 13-25 (26)
81 KOG0802 E3 ubiquitin ligase [P 28.5 29 0.00063 36.8 1.3 47 235-305 474-520 (543)
82 PF04641 Rtf2: Rtf2 RING-finge 28.0 46 0.001 32.0 2.5 52 238-306 111-162 (260)
83 KOG4443 Putative transcription 26.8 33 0.00071 38.1 1.4 30 270-301 37-75 (694)
84 KOG0824 Predicted E3 ubiquitin 23.8 57 0.0012 33.3 2.4 42 240-305 7-53 (324)
85 COG5236 Uncharacterized conser 23.3 1E+02 0.0022 32.5 4.0 54 236-307 57-110 (493)
86 PF00096 zf-C2H2: Zinc finger, 23.1 33 0.00071 20.6 0.3 11 296-306 2-12 (23)
87 PF06305 DUF1049: Protein of u 23.0 59 0.0013 24.5 1.8 22 340-361 18-39 (68)
88 PF09607 BrkDBD: Brinker DNA-b 22.2 45 0.00097 26.3 1.0 13 280-292 37-49 (58)
89 PF08113 CoxIIa: Cytochrome c 20.4 33 0.00071 24.5 -0.1 17 349-365 14-30 (34)
No 1
>PHA02825 LAP/PHD finger-like protein; Provisional
Probab=99.73 E-value=2.7e-18 Score=154.06 Aligned_cols=100 Identities=21% Similarity=0.503 Sum_probs=73.3
Q ss_pred CCCCCCceeEcccCCcccccccccccCCCccccccccCcCccccccHHHHHHHHHHhCCccccccccccccccccCchhh
Q 017863 236 NPDGERVCRICHLGSEQLLETTATASTTVNLIQLGCGCKDELGVAHSDCAEAWFKLKGNRLCEICGQSAKNITGVGDYRF 315 (365)
Q Consensus 236 s~e~E~~CRICh~~~e~~~e~~~~~~~s~~LI~lPC~CKGSLkyVH~~CLe~W~k~Kgn~~CEICk~~y~nV~~~~~~~f 315 (365)
....++.||||+++.+ .+..||+|+|+++|||++||++|+..+++..||+|+++|..... .+.
T Consensus 4 ~s~~~~~CRIC~~~~~--------------~~~~PC~CkGs~k~VH~sCL~rWi~~s~~~~CeiC~~~Y~i~~~---~kp 66 (162)
T PHA02825 4 VSLMDKCCWICKDEYD--------------VVTNYCNCKNENKIVHKECLEEWINTSKNKSCKICNGPYNIKKN---YKK 66 (162)
T ss_pred cCCCCCeeEecCCCCC--------------CccCCcccCCCchHHHHHHHHHHHhcCCCCcccccCCeEEEEEe---cCC
Confidence 3456899999997743 13469999999999999999999999999999999999976653 233
Q ss_pred HHHHhhhhhccCCCcccccceeeccchHHHHHHHHHHHHHhhheeeecc
Q 017863 316 MEEWNERRFIASSSASERGGCWRGQPFCNFLMACLVIAFVLPWFFRVNM 364 (365)
Q Consensus 316 leeW~~~rf~~s~~~~~~rrfW~g~~fcNFLLAcmViAFVi~WlF~f~v 364 (365)
+.+|.+.. +.| ..+...+.+.|++.+.+---|.+||+
T Consensus 67 l~~W~~~~----------~dc--~~~~l~~~llcl~~~~i~~~l~~~~i 103 (162)
T PHA02825 67 CTKWRCSF----------RDC--HDSAIVNSLLCLIVGGITYLLVSFNI 103 (162)
T ss_pred CccccccC----------cch--hhHHHHHHHHHHHHhhhhheeeehhh
Confidence 56887542 111 23555677777777776555556654
No 2
>PHA02862 5L protein; Provisional
Probab=99.64 E-value=9.4e-17 Score=142.66 Aligned_cols=64 Identities=25% Similarity=0.643 Sum_probs=52.7
Q ss_pred CceeEcccCCcccccccccccCCCccccccccCcCccccccHHHHHHHHHHhCCccccccccccccccccCchhhHHHHh
Q 017863 241 RVCRICHLGSEQLLETTATASTTVNLIQLGCGCKDELGVAHSDCAEAWFKLKGNRLCEICGQSAKNITGVGDYRFMEEWN 320 (365)
Q Consensus 241 ~~CRICh~~~e~~~e~~~~~~~s~~LI~lPC~CKGSLkyVH~~CLe~W~k~Kgn~~CEICk~~y~nV~~~~~~~fleeW~ 320 (365)
.+||||+++.++ .. .||+|+|+++|||+.||++|++.+++..||+|+++|..-+. .+.+.+|.
T Consensus 3 diCWIC~~~~~e-------------~~-~PC~C~GS~K~VHq~CL~~WIn~S~k~~CeLCkteY~Ik~~---yKpf~kW~ 65 (156)
T PHA02862 3 DICWICNDVCDE-------------RN-NFCGCNEEYKVVHIKCMQLWINYSKKKECNLCKTKYNIKKT---YVSFKKWN 65 (156)
T ss_pred CEEEEecCcCCC-------------Cc-ccccccCcchhHHHHHHHHHHhcCCCcCccCCCCeEEEEEc---cccHHHhh
Confidence 589999998642 13 59999999999999999999999999999999999975443 23456886
Q ss_pred h
Q 017863 321 E 321 (365)
Q Consensus 321 ~ 321 (365)
+
T Consensus 66 ~ 66 (156)
T PHA02862 66 W 66 (156)
T ss_pred c
Confidence 4
No 3
>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=99.61 E-value=2.8e-16 Score=115.71 Aligned_cols=49 Identities=39% Similarity=0.934 Sum_probs=41.7
Q ss_pred ceeEcccCCcccccccccccCCCccccccccCcCccccccHHHHHHHHHHhCCccccccc
Q 017863 242 VCRICHLGSEQLLETTATASTTVNLIQLGCGCKDELGVAHSDCAEAWFKLKGNRLCEICG 301 (365)
Q Consensus 242 ~CRICh~~~e~~~e~~~~~~~s~~LI~lPC~CKGSLkyVH~~CLe~W~k~Kgn~~CEICk 301 (365)
+||||++..+ .+.++.+||.|+|+++|||+.||++|+..+++.+||||+
T Consensus 1 ~CrIC~~~~~-----------~~~~l~~PC~C~G~~~~vH~~Cl~~W~~~~~~~~C~iC~ 49 (49)
T smart00744 1 ICRICHDEGD-----------EGDPLVSPCRCKGSLKYVHQECLERWINESGNKTCEICK 49 (49)
T ss_pred CccCCCCCCC-----------CCCeeEeccccCCchhHHHHHHHHHHHHHcCCCcCCCCC
Confidence 5999998332 123456699999999999999999999999999999996
No 4
>PF12906 RINGv: RING-variant domain; PDB: 2D8S_A 1VYX_A.
Probab=99.58 E-value=3.3e-16 Score=114.48 Aligned_cols=47 Identities=43% Similarity=0.969 Sum_probs=37.0
Q ss_pred eeEcccCCcccccccccccCCCccccccccCcCccccccHHHHHHHHHHhCCcccccc
Q 017863 243 CRICHLGSEQLLETTATASTTVNLIQLGCGCKDELGVAHSDCAEAWFKLKGNRLCEIC 300 (365)
Q Consensus 243 CRICh~~~e~~~e~~~~~~~s~~LI~lPC~CKGSLkyVH~~CLe~W~k~Kgn~~CEIC 300 (365)
||||++++++ .. +|..||+|+|+++|||+.||++|+..+++..||+|
T Consensus 1 CrIC~~~~~~----------~~-~li~pC~C~Gs~~~vH~~CL~~W~~~~~~~~C~~C 47 (47)
T PF12906_consen 1 CRICLEGEEE----------DE-PLISPCRCKGSMKYVHRSCLERWIRESGNRKCEIC 47 (47)
T ss_dssp ETTTTEE-SS----------SS--EE-SSS-SSCCGSEECCHHHHHHHHHT-SB-TTT
T ss_pred CeEeCCcCCC----------CC-ceecccccCCCcchhHHHHHHHHHHhcCCCcCCCC
Confidence 9999998764 23 45569999999999999999999999999999998
No 5
>KOG3053 consensus Uncharacterized conserved protein [Function unknown]
Probab=99.56 E-value=2.5e-15 Score=143.75 Aligned_cols=97 Identities=22% Similarity=0.366 Sum_probs=72.0
Q ss_pred cCCCCCCceeEcccCCcccccccccccCCCccccccccCcCccccccHHHHHHHHHHhC------Ccccccccccccccc
Q 017863 235 ENPDGERVCRICHLGSEQLLETTATASTTVNLIQLGCGCKDELGVAHSDCAEAWFKLKG------NRLCEICGQSAKNIT 308 (365)
Q Consensus 235 es~e~E~~CRICh~~~e~~~e~~~~~~~s~~LI~lPC~CKGSLkyVH~~CLe~W~k~Kg------n~~CEICk~~y~nV~ 308 (365)
++.+.|+.||||+.++++. .-..|+.||.|+|+.+|||+.||.+|+.+|. ...|++|..+|..+.
T Consensus 15 ~~~e~eR~CWiCF~TdeDn---------~~a~WV~PCrCRGt~KWVHqsCL~rWiDEK~~~n~~q~V~C~QCqTEYiiv~ 85 (293)
T KOG3053|consen 15 DNQELERCCWICFATDEDN---------RLAAWVHPCRCRGTTKWVHQSCLSRWIDEKQRGNPLQTVSCPQCQTEYIIVF 85 (293)
T ss_pred CccccceeEEEEeccCccc---------chhhhcccccccCccHHHHHHHHHHHHhHHhcCCCCceeechhhcchheeec
Confidence 3456899999999998752 2234888999999999999999999999874 369999999999887
Q ss_pred ccC--chhhHHHHhhhhhccCCCcccccceeeccchHHHHHHHHHHHHHh
Q 017863 309 GVG--DYRFMEEWNERRFIASSSASERGGCWRGQPFCNFLMACLVIAFVL 356 (365)
Q Consensus 309 ~~~--~~~fleeW~~~rf~~s~~~~~~rrfW~g~~fcNFLLAcmViAFVi 356 (365)
|.. ..+.++.-.. . -.++|+||++.++.+++.
T Consensus 86 P~l~~~~~~Le~~d~-------------~---i~r~cp~l~~g~~v~~iY 119 (293)
T KOG3053|consen 86 PQLGPFDRVLERLDI-------------L---IFRLCPFLAAGIFVGSIY 119 (293)
T ss_pred cccChHHHHHHHhhh-------------H---HhhcChHHHHHHHhheee
Confidence 642 2233322221 1 235899999988766543
No 6
>KOG1609 consensus Protein involved in mRNA turnover and stability [RNA processing and modification]
Probab=99.51 E-value=9.2e-15 Score=136.17 Aligned_cols=69 Identities=38% Similarity=0.782 Sum_probs=56.5
Q ss_pred CCccCCCCCCceeEcccCCcccccccccccCCCccccccccCcCccccccHHHHHHHHHHhCCccccccccccccccc
Q 017863 232 GFRENPDGERVCRICHLGSEQLLETTATASTTVNLIQLGCGCKDELGVAHSDCAEAWFKLKGNRLCEICGQSAKNITG 309 (365)
Q Consensus 232 ~~~es~e~E~~CRICh~~~e~~~e~~~~~~~s~~LI~lPC~CKGSLkyVH~~CLe~W~k~Kgn~~CEICk~~y~nV~~ 309 (365)
...+.+.+++.||||+...+.. ...++..||.|+|+++|||+.|+++|+..|++..||+|++.|++...
T Consensus 70 ~~~~~~~~~~~cRIc~~~~~~~---------~~~~l~~pC~C~g~l~~vH~~cl~~W~~~~~~~~CeiC~~~~~~~~~ 138 (323)
T KOG1609|consen 70 SLEESPSSGPICRICHEEDEES---------NGLLLISPCSCKGSLAYVHRSCLEKWFSIKGNITCEICKSFFINVGT 138 (323)
T ss_pred ccccCCCCCCcEEEEecccccc---------cccccccCccccCcHHHHHHHHHHhhhccccCeeeecccccceecce
Confidence 3444556678999999987641 11145669999999999999999999999999999999999987754
No 7
>COG5183 SSM4 Protein involved in mRNA turnover and stability [RNA processing and modification]
Probab=99.32 E-value=7.2e-13 Score=141.39 Aligned_cols=62 Identities=26% Similarity=0.614 Sum_probs=52.4
Q ss_pred CCCCceeEcccCCcccccccccccCCCccccccccCcCccccccHHHHHHHHHHhCCcccccccccccccccc
Q 017863 238 DGERVCRICHLGSEQLLETTATASTTVNLIQLGCGCKDELGVAHSDCAEAWFKLKGNRLCEICGQSAKNITGV 310 (365)
Q Consensus 238 e~E~~CRICh~~~e~~~e~~~~~~~s~~LI~lPC~CKGSLkyVH~~CLe~W~k~Kgn~~CEICk~~y~nV~~~ 310 (365)
++.+.||||+.+.-. +.||+ +||+|+||++|+|++||-.|...++++.|+||||+|+...-|
T Consensus 10 ~d~~~CRICr~e~~~----------d~pLf-hPCKC~GSIkYiH~eCL~eW~~~s~~~kCdiChy~~~Fk~IY 71 (1175)
T COG5183 10 EDKRSCRICRTEDIR----------DDPLF-HPCKCSGSIKYIHRECLMEWMECSGTKKCDICHYEYKFKDIY 71 (1175)
T ss_pred ccchhceeecCCCCC----------CCcCc-ccccccchhHHHHHHHHHHHHhcCCCcceeeecceeeeeeec
Confidence 456899999988653 35555 599999999999999999999999999999999999754433
No 8
>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=97.61 E-value=2e-05 Score=55.63 Aligned_cols=43 Identities=33% Similarity=0.804 Sum_probs=33.0
Q ss_pred ceeEcccCCcccccccccccCCCccccccccCcCccccccHHHHHHHHHHhCCccccccc
Q 017863 242 VCRICHLGSEQLLETTATASTTVNLIQLGCGCKDELGVAHSDCAEAWFKLKGNRLCEICG 301 (365)
Q Consensus 242 ~CRICh~~~e~~~e~~~~~~~s~~LI~lPC~CKGSLkyVH~~CLe~W~k~Kgn~~CEICk 301 (365)
.|-||++.... ...++.+||. ..+|.+|+.+|++.+ ..|++|+
T Consensus 2 ~C~IC~~~~~~----------~~~~~~l~C~-----H~fh~~Ci~~~~~~~--~~CP~CR 44 (44)
T PF13639_consen 2 ECPICLEEFED----------GEKVVKLPCG-----HVFHRSCIKEWLKRN--NSCPVCR 44 (44)
T ss_dssp CETTTTCBHHT----------TSCEEEETTS-----EEEEHHHHHHHHHHS--SB-TTTH
T ss_pred CCcCCChhhcC----------CCeEEEccCC-----CeeCHHHHHHHHHhC--CcCCccC
Confidence 58899988753 3456777864 599999999999885 4899995
No 9
>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=96.96 E-value=0.00048 Score=54.31 Aligned_cols=54 Identities=26% Similarity=0.602 Sum_probs=32.9
Q ss_pred CCceeEcccCCcccc-cccccccCCCccccccccCcCccccccHHHHHHHHHHhCCccccccc
Q 017863 240 ERVCRICHLGSEQLL-ETTATASTTVNLIQLGCGCKDELGVAHSDCAEAWFKLKGNRLCEICG 301 (365)
Q Consensus 240 E~~CRICh~~~e~~~-e~~~~~~~s~~LI~lPC~CKGSLkyVH~~CLe~W~k~Kgn~~CEICk 301 (365)
+..|-||+....++. +.+. ....-++...+|.- ..|..||++|++.+ .+|++|+
T Consensus 19 ~d~C~IC~~~l~~~~~~~~~-~~~~~~i~~~~C~H-----~FH~~Ci~~Wl~~~--~~CP~CR 73 (73)
T PF12678_consen 19 DDNCAICREPLEDPCPECQA-PQDECPIVWGPCGH-----IFHFHCISQWLKQN--NTCPLCR 73 (73)
T ss_dssp CSBETTTTSBTTSTTCCHHH-CTTTS-EEEETTSE-----EEEHHHHHHHHTTS--SB-TTSS
T ss_pred CCcccccChhhhChhhhhcC-CccccceEecccCC-----CEEHHHHHHHHhcC--CcCCCCC
Confidence 445999998875422 1111 11112233346754 89999999999654 4899996
No 10
>KOG4628 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=96.82 E-value=0.00095 Score=67.20 Aligned_cols=52 Identities=23% Similarity=0.607 Sum_probs=41.2
Q ss_pred CceeEcccCCcccccccccccCCCccccccccCcCccccccHHHHHHHHHHhCCcccccccccccccc
Q 017863 241 RVCRICHLGSEQLLETTATASTTVNLIQLGCGCKDELGVAHSDCAEAWFKLKGNRLCEICGQSAKNIT 308 (365)
Q Consensus 241 ~~CRICh~~~e~~~e~~~~~~~s~~LI~lPC~CKGSLkyVH~~CLe~W~k~Kgn~~CEICk~~y~nV~ 308 (365)
..|-||++.-.. ++.+-.|||+. ..|..|...||... .+.|++||+..+...
T Consensus 230 ~~CaIClEdY~~----------GdklRiLPC~H-----~FH~~CIDpWL~~~-r~~CPvCK~di~~~~ 281 (348)
T KOG4628|consen 230 DTCAICLEDYEK----------GDKLRILPCSH-----KFHVNCIDPWLTQT-RTFCPVCKRDIRTDS 281 (348)
T ss_pred ceEEEeeccccc----------CCeeeEecCCC-----chhhccchhhHhhc-CccCCCCCCcCCCCC
Confidence 599999998753 34455689998 69999999999876 456999999765433
No 11
>COG5243 HRD1 HRD ubiquitin ligase complex, ER membrane component [Posttranslational modification, protein turnover, chaperones]
Probab=96.68 E-value=0.0019 Score=66.08 Aligned_cols=60 Identities=22% Similarity=0.533 Sum_probs=41.5
Q ss_pred CCCCCceeEcccCCcccccccccccCCCccccccccCcCccccccHHHHHHHHHHhCCccccccccc
Q 017863 237 PDGERVCRICHLGSEQLLETTATASTTVNLIQLGCGCKDELGVAHSDCAEAWFKLKGNRLCEICGQS 303 (365)
Q Consensus 237 ~e~E~~CRICh~~~e~~~e~~~~~~~s~~LI~lPC~CKGSLkyVH~~CLe~W~k~Kgn~~CEICk~~ 303 (365)
..+.+.|-||.++.-.+.-.+........+-++||.. ..|-+||+-|+.-++ +|+||+..
T Consensus 284 ~n~D~~C~ICmde~~h~~~~~~~~~~~~~pKrLpCGH-----ilHl~CLknW~ERqQ--TCPICr~p 343 (491)
T COG5243 284 TNSDRTCTICMDEMFHPDHEPLPRGLDMTPKRLPCGH-----ILHLHCLKNWLERQQ--TCPICRRP 343 (491)
T ss_pred cCCCCeEEEecccccCCCCccCcccccCCcccccccc-----eeeHHHHHHHHHhcc--CCCcccCc
Confidence 3467899999998432110000112234457899986 899999999996654 59999987
No 12
>PHA02929 N1R/p28-like protein; Provisional
Probab=96.53 E-value=0.0022 Score=61.50 Aligned_cols=57 Identities=19% Similarity=0.402 Sum_probs=38.4
Q ss_pred CCCceeEcccCCcccccccccccCCC-ccccccccCcCccccccHHHHHHHHHHhCCcccccccccccccc
Q 017863 239 GERVCRICHLGSEQLLETTATASTTV-NLIQLGCGCKDELGVAHSDCAEAWFKLKGNRLCEICGQSAKNIT 308 (365)
Q Consensus 239 ~E~~CRICh~~~e~~~e~~~~~~~s~-~LI~lPC~CKGSLkyVH~~CLe~W~k~Kgn~~CEICk~~y~nV~ 308 (365)
.+..|-||++...... .... -.+..||.. .+|+.|+.+|++. ..+||+|+..+..|.
T Consensus 173 ~~~eC~ICle~~~~~~------~~~~~~~vl~~C~H-----~FC~~CI~~Wl~~--~~tCPlCR~~~~~v~ 230 (238)
T PHA02929 173 KDKECAICMEKVYDKE------IKNMYFGILSNCNH-----VFCIECIDIWKKE--KNTCPVCRTPFISVI 230 (238)
T ss_pred CCCCCccCCcccccCc------cccccceecCCCCC-----cccHHHHHHHHhc--CCCCCCCCCEeeEEe
Confidence 3578999999754210 0000 013336754 8999999999975 457999999987654
No 13
>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=96.49 E-value=0.0028 Score=42.35 Aligned_cols=44 Identities=30% Similarity=0.739 Sum_probs=32.4
Q ss_pred ceeEcccCCcccccccccccCCCccccccccCcCccccccHHHHHHHHHHhCCccccccccc
Q 017863 242 VCRICHLGSEQLLETTATASTTVNLIQLGCGCKDELGVAHSDCAEAWFKLKGNRLCEICGQS 303 (365)
Q Consensus 242 ~CRICh~~~e~~~e~~~~~~~s~~LI~lPC~CKGSLkyVH~~CLe~W~k~Kgn~~CEICk~~ 303 (365)
.|.||+.... .+....||.. .+|..|+..|++. +...|++|+..
T Consensus 1 ~C~iC~~~~~------------~~~~~~~C~H-----~~c~~C~~~~~~~-~~~~Cp~C~~~ 44 (45)
T cd00162 1 ECPICLEEFR------------EPVVLLPCGH-----VFCRSCIDKWLKS-GKNTCPLCRTP 44 (45)
T ss_pred CCCcCchhhh------------CceEecCCCC-----hhcHHHHHHHHHh-CcCCCCCCCCc
Confidence 4788987752 2234446766 5899999999986 56779999875
No 14
>PF13920 zf-C3HC4_3: Zinc finger, C3HC4 type (RING finger); PDB: 2YHN_B 2YHO_G 3T6P_A 2CSY_A 2VJE_B 2VJF_B 2HDP_B 2EA5_A 2ECG_A 3EB5_A ....
Probab=96.31 E-value=0.0026 Score=46.11 Aligned_cols=47 Identities=30% Similarity=0.661 Sum_probs=34.8
Q ss_pred CCceeEcccCCcccccccccccCCCccccccccCcCccccccHHHHHHHHHHhCCccccccccccc
Q 017863 240 ERVCRICHLGSEQLLETTATASTTVNLIQLGCGCKDELGVAHSDCAEAWFKLKGNRLCEICGQSAK 305 (365)
Q Consensus 240 E~~CRICh~~~e~~~e~~~~~~~s~~LI~lPC~CKGSLkyVH~~CLe~W~k~Kgn~~CEICk~~y~ 305 (365)
+..|.||++... . .+..||... .+...|+.+|++ ....|++|+..+.
T Consensus 2 ~~~C~iC~~~~~------------~-~~~~pCgH~----~~C~~C~~~~~~--~~~~CP~Cr~~i~ 48 (50)
T PF13920_consen 2 DEECPICFENPR------------D-VVLLPCGHL----CFCEECAERLLK--RKKKCPICRQPIE 48 (50)
T ss_dssp HSB-TTTSSSBS------------S-EEEETTCEE----EEEHHHHHHHHH--TTSBBTTTTBB-S
T ss_pred cCCCccCCccCC------------c-eEEeCCCCh----HHHHHHhHHhcc--cCCCCCcCChhhc
Confidence 457999998743 2 455699852 389999999998 6788999998864
No 15
>PF12861 zf-Apc11: Anaphase-promoting complex subunit 11 RING-H2 finger
Probab=96.07 E-value=0.0079 Score=49.96 Aligned_cols=61 Identities=21% Similarity=0.469 Sum_probs=37.7
Q ss_pred CCceeEcccCCcccccccccccCCCccccccccCcCccccccHHHHHHHHHHh-CCccccccccccc
Q 017863 240 ERVCRICHLGSEQLLETTATASTTVNLIQLGCGCKDELGVAHSDCAEAWFKLK-GNRLCEICGQSAK 305 (365)
Q Consensus 240 E~~CRICh~~~e~~~e~~~~~~~s~~LI~lPC~CKGSLkyVH~~CLe~W~k~K-gn~~CEICk~~y~ 305 (365)
+..|-||....+....+-.-....-+++ =+.|+ ..+|.+|+.+|+... .+..|++|++.|.
T Consensus 21 dd~CgICr~~fdg~Cp~Ck~Pgd~Cplv--~g~C~---H~FH~hCI~kWl~~~~~~~~CPmCR~~w~ 82 (85)
T PF12861_consen 21 DDVCGICRMPFDGCCPDCKFPGDDCPLV--WGKCS---HNFHMHCILKWLSTQSSKGQCPMCRQPWK 82 (85)
T ss_pred CCceeeEecccccCCCCccCCCCCCcee--eccCc---cHHHHHHHHHHHccccCCCCCCCcCCeee
Confidence 5567788776543110000000112232 25675 489999999999874 4679999999985
No 16
>smart00184 RING Ring finger. E3 ubiquitin-protein ligase activity is intrinsic to the RING domain of c-Cbl and is likely to be a general function of this domain; Various RING fingers exhibit binding activity towards E2 ubiquitin-conjugating enzymes (Ubc' s)
Probab=95.93 E-value=0.0077 Score=38.72 Aligned_cols=39 Identities=36% Similarity=0.882 Sum_probs=29.1
Q ss_pred eeEcccCCcccccccccccCCCccccccccCcCccccccHHHHHHHHHHhCCcccccc
Q 017863 243 CRICHLGSEQLLETTATASTTVNLIQLGCGCKDELGVAHSDCAEAWFKLKGNRLCEIC 300 (365)
Q Consensus 243 CRICh~~~e~~~e~~~~~~~s~~LI~lPC~CKGSLkyVH~~CLe~W~k~Kgn~~CEIC 300 (365)
|.||+.... .+..+||.. .+|..|++.|++ .+...|++|
T Consensus 1 C~iC~~~~~-------------~~~~~~C~H-----~~c~~C~~~~~~-~~~~~CP~C 39 (39)
T smart00184 1 CPICLEELK-------------DPVVLPCGH-----TFCRSCIRKWLK-SGNNTCPIC 39 (39)
T ss_pred CCcCccCCC-------------CcEEecCCC-----hHHHHHHHHHHH-hCcCCCCCC
Confidence 678877632 245568877 589999999998 556679887
No 17
>PF11793 FANCL_C: FANCL C-terminal domain; PDB: 3K1L_A.
Probab=95.81 E-value=0.0032 Score=49.50 Aligned_cols=56 Identities=20% Similarity=0.319 Sum_probs=24.4
Q ss_pred CCceeEcccCCcccccccccccCCCccccccccCcCccccccHHHHHHHHHHhC-C--------ccccccccccc
Q 017863 240 ERVCRICHLGSEQLLETTATASTTVNLIQLGCGCKDELGVAHSDCAEAWFKLKG-N--------RLCEICGQSAK 305 (365)
Q Consensus 240 E~~CRICh~~~e~~~e~~~~~~~s~~LI~lPC~CKGSLkyVH~~CLe~W~k~Kg-n--------~~CEICk~~y~ 305 (365)
+..|.||+....... ..-.++-..+.|+ +..|..||.+||.... . -.|+.|+.+..
T Consensus 2 ~~~C~IC~~~~~~~~-------~~p~~~C~n~~C~---~~fH~~CL~~wf~~~~~~~~~~~~~~G~CP~C~~~i~ 66 (70)
T PF11793_consen 2 ELECGICYSYRLDDG-------EIPDVVCPNPSCG---KKFHLLCLSEWFLSLEKSRQSFIPIFGECPYCSSPIS 66 (70)
T ss_dssp --S-SSS--SS-TT------------B--S-TT-------B-SGGGHHHHHHHHSSS-TTT--EEE-TTT-SEEE
T ss_pred CCCCCcCCcEecCCC-------CcCceEcCCcccC---CHHHHHHHHHHHHHcccCCeeecccccCCcCCCCeee
Confidence 467999998754210 0111222224665 4899999999998532 1 26999998863
No 18
>COG5540 RING-finger-containing ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=95.62 E-value=0.0096 Score=59.68 Aligned_cols=49 Identities=22% Similarity=0.510 Sum_probs=39.0
Q ss_pred CCCceeEcccCCcccccccccccCCCccccccccCcCccccccHHHHHHHHH-HhCCcccccccccc
Q 017863 239 GERVCRICHLGSEQLLETTATASTTVNLIQLGCGCKDELGVAHSDCAEAWFK-LKGNRLCEICGQSA 304 (365)
Q Consensus 239 ~E~~CRICh~~~e~~~e~~~~~~~s~~LI~lPC~CKGSLkyVH~~CLe~W~k-~Kgn~~CEICk~~y 304 (365)
.+..|-||+...- ..+.+..+||.. -.|..|+++|+. .| ..|++|....
T Consensus 322 ~GveCaICms~fi----------K~d~~~vlPC~H-----~FH~~Cv~kW~~~y~--~~CPvCrt~i 371 (374)
T COG5540 322 KGVECAICMSNFI----------KNDRLRVLPCDH-----RFHVGCVDKWLLGYS--NKCPVCRTAI 371 (374)
T ss_pred CCceEEEEhhhhc----------ccceEEEeccCc-----eechhHHHHHHhhhc--ccCCccCCCC
Confidence 4579999998764 245588999987 799999999996 33 3599999764
No 19
>PLN03208 E3 ubiquitin-protein ligase RMA2; Provisional
Probab=95.51 E-value=0.012 Score=55.14 Aligned_cols=49 Identities=20% Similarity=0.442 Sum_probs=37.1
Q ss_pred CCCceeEcccCCcccccccccccCCCccccccccCcCccccccHHHHHHHHHHh--------------CCcccccccccc
Q 017863 239 GERVCRICHLGSEQLLETTATASTTVNLIQLGCGCKDELGVAHSDCAEAWFKLK--------------GNRLCEICGQSA 304 (365)
Q Consensus 239 ~E~~CRICh~~~e~~~e~~~~~~~s~~LI~lPC~CKGSLkyVH~~CLe~W~k~K--------------gn~~CEICk~~y 304 (365)
++..|-||++... . ++.++|.- ..+..||.+|+..+ +...|++|+..+
T Consensus 17 ~~~~CpICld~~~------------d-PVvT~CGH-----~FC~~CI~~wl~~s~~s~~~~~~~~~~k~~~~CPvCR~~I 78 (193)
T PLN03208 17 GDFDCNICLDQVR------------D-PVVTLCGH-----LFCWPCIHKWTYASNNSRQRVDQYDHKREPPKCPVCKSDV 78 (193)
T ss_pred CccCCccCCCcCC------------C-cEEcCCCc-----hhHHHHHHHHHHhccccccccccccccCCCCcCCCCCCcC
Confidence 4678999998653 2 35568865 78999999998642 346899999987
Q ss_pred c
Q 017863 305 K 305 (365)
Q Consensus 305 ~ 305 (365)
.
T Consensus 79 s 79 (193)
T PLN03208 79 S 79 (193)
T ss_pred C
Confidence 4
No 20
>KOG0802 consensus E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=95.44 E-value=0.0098 Score=62.21 Aligned_cols=51 Identities=24% Similarity=0.646 Sum_probs=38.7
Q ss_pred CCCceeEcccCCcccccccccccCCCccccccccCcCccccccHHHHHHHHHHhCCcccccccccc
Q 017863 239 GERVCRICHLGSEQLLETTATASTTVNLIQLGCGCKDELGVAHSDCAEAWFKLKGNRLCEICGQSA 304 (365)
Q Consensus 239 ~E~~CRICh~~~e~~~e~~~~~~~s~~LI~lPC~CKGSLkyVH~~CLe~W~k~Kgn~~CEICk~~y 304 (365)
....|.||++..... ..-.+..+||.- ..|..||+.|++.+ .+|++|+..+
T Consensus 290 ~~~~C~IC~e~l~~~--------~~~~~~rL~C~H-----ifh~~CL~~W~er~--qtCP~CR~~~ 340 (543)
T KOG0802|consen 290 SDELCIICLEELHSG--------HNITPKRLPCGH-----IFHDSCLRSWFERQ--QTCPTCRTVL 340 (543)
T ss_pred cCCeeeeechhhccc--------cccccceeeccc-----chHHHHHHHHHHHh--CcCCcchhhh
Confidence 467999999988641 112245679976 89999999999885 4599999943
No 21
>PHA02926 zinc finger-like protein; Provisional
Probab=95.32 E-value=0.017 Score=55.75 Aligned_cols=62 Identities=23% Similarity=0.471 Sum_probs=41.6
Q ss_pred CCCceeEcccCCcccccccccccCCCccccccccCcCccccccHHHHHHHHHHhC----Cccccccccccccccc
Q 017863 239 GERVCRICHLGSEQLLETTATASTTVNLIQLGCGCKDELGVAHSDCAEAWFKLKG----NRLCEICGQSAKNITG 309 (365)
Q Consensus 239 ~E~~CRICh~~~e~~~e~~~~~~~s~~LI~lPC~CKGSLkyVH~~CLe~W~k~Kg----n~~CEICk~~y~nV~~ 309 (365)
.+..|-||++..-.. ... ....-.++. ||.. .....|+.+|.+.+. .+.||+|+..|..+.+
T Consensus 169 kE~eCgICmE~I~eK-~~~--~eRrFGIL~-~CnH-----sFCl~CIr~Wr~~r~~~~~~rsCPiCR~~f~~I~p 234 (242)
T PHA02926 169 KEKECGICYEVVYSK-RLE--NDRYFGLLD-SCNH-----IFCITCINIWHRTRRETGASDNCPICRTRFRNITM 234 (242)
T ss_pred CCCCCccCccccccc-ccc--ccccccccC-CCCc-----hHHHHHHHHHHHhccccCcCCcCCCCcceeeeecc
Confidence 478999999874210 000 001112343 7876 689999999998752 4679999999987765
No 22
>PF00097 zf-C3HC4: Zinc finger, C3HC4 type (RING finger); InterPro: IPR018957 Zinc finger (Znf) domains are relatively small protein motifs which contain multiple finger-like protrusions that make tandem contacts with their target molecule. Some of these domains bind zinc, but many do not; instead binding other metals such as iron, or no metal at all. For example, some family members form salt bridges to stabilise the finger-like folds. They were first identified as a DNA-binding motif in transcription factor TFIIIA from Xenopus laevis (African clawed frog), however they are now recognised to bind DNA, RNA, protein and/or lipid substrates [, , , , ]. Their binding properties depend on the amino acid sequence of the finger domains and of the linker between fingers, as well as on the higher-order structures and the number of fingers. Znf domains are often found in clusters, where fingers can have different binding specificities. There are many superfamilies of Znf motifs, varying in both sequence and structure. They display considerable versatility in binding modes, even between members of the same class (e.g. some bind DNA, others protein), suggesting that Znf motifs are stable scaffolds that have evolved specialised functions. For example, Znf-containing proteins function in gene transcription, translation, mRNA trafficking, cytoskeleton organisation, epithelial development, cell adhesion, protein folding, chromatin remodelling and zinc sensing, to name but a few []. Zinc-binding motifs are stable structures, and they rarely undergo conformational changes upon binding their target. The C3HC4 type zinc-finger (RING finger) is a cysteine-rich domain of 40 to 60 residues that coordinates two zinc ions, and has the consensus sequence: C-X2-C-X(9-39)-C-X(1-3)-H-X(2-3)-C-X2-C-X(4-48)-C-X2-C where X is any amino acid []. Many proteins containing a RING finger play a key role in the ubiquitination pathway []. More information about these proteins can be found at Protein of the Month: Zinc Fingers [].; PDB: 1CHC_A 2ECW_A 2Y43_B 1V87_A 2DJB_A 2H0D_B 3RPG_C 3KNV_A 2CKL_B 1JM7_A ....
Probab=95.16 E-value=0.016 Score=39.90 Aligned_cols=41 Identities=34% Similarity=0.792 Sum_probs=32.8
Q ss_pred eeEcccCCcccccccccccCCCccccccccCcCccccccHHHHHHHHHHhCCcccccc
Q 017863 243 CRICHLGSEQLLETTATASTTVNLIQLGCGCKDELGVAHSDCAEAWFKLKGNRLCEIC 300 (365)
Q Consensus 243 CRICh~~~e~~~e~~~~~~~s~~LI~lPC~CKGSLkyVH~~CLe~W~k~Kgn~~CEIC 300 (365)
|.||++.... +.+.+||.- .++..|+.+|++.++...|++|
T Consensus 1 C~iC~~~~~~------------~~~~~~C~H-----~fC~~C~~~~~~~~~~~~CP~C 41 (41)
T PF00097_consen 1 CPICLEPFED------------PVILLPCGH-----SFCRDCLRKWLENSGSVKCPLC 41 (41)
T ss_dssp ETTTSSBCSS------------EEEETTTSE-----EEEHHHHHHHHHHTSSSBTTTT
T ss_pred CCcCCccccC------------CCEEecCCC-----cchHHHHHHHHHhcCCccCCcC
Confidence 6788887642 233568987 6999999999998888899988
No 23
>smart00504 Ubox Modified RING finger domain. Modified RING finger domain, without the full complement of Zn2+-binding ligands. Probable involvement in E2-dependent ubiquitination.
Probab=94.63 E-value=0.04 Score=40.60 Aligned_cols=44 Identities=18% Similarity=0.215 Sum_probs=34.1
Q ss_pred CceeEcccCCcccccccccccCCCccccccccCcCccccccHHHHHHHHHHhCCcccccccccc
Q 017863 241 RVCRICHLGSEQLLETTATASTTVNLIQLGCGCKDELGVAHSDCAEAWFKLKGNRLCEICGQSA 304 (365)
Q Consensus 241 ~~CRICh~~~e~~~e~~~~~~~s~~LI~lPC~CKGSLkyVH~~CLe~W~k~Kgn~~CEICk~~y 304 (365)
-.|.||..... . ++.+||. ..+-+.|+.+|++. ...|++|+..+
T Consensus 2 ~~Cpi~~~~~~------------~-Pv~~~~G-----~v~~~~~i~~~~~~--~~~cP~~~~~~ 45 (63)
T smart00504 2 FLCPISLEVMK------------D-PVILPSG-----QTYERRAIEKWLLS--HGTDPVTGQPL 45 (63)
T ss_pred cCCcCCCCcCC------------C-CEECCCC-----CEEeHHHHHHHHHH--CCCCCCCcCCC
Confidence 46889988764 2 3445774 57899999999977 56799999887
No 24
>COG5219 Uncharacterized conserved protein, contains RING Zn-finger [General function prediction only]
Probab=93.88 E-value=0.02 Score=64.31 Aligned_cols=55 Identities=25% Similarity=0.614 Sum_probs=38.2
Q ss_pred CCCceeEcccCCcccccccccccCCCcccccccc-CcCccccccHHHHHHHHHHhCCccccccccccc
Q 017863 239 GERVCRICHLGSEQLLETTATASTTVNLIQLGCG-CKDELGVAHSDCAEAWFKLKGNRLCEICGQSAK 305 (365)
Q Consensus 239 ~E~~CRICh~~~e~~~e~~~~~~~s~~LI~lPC~-CKGSLkyVH~~CLe~W~k~Kgn~~CEICk~~y~ 305 (365)
+...|.||+.-... -+ .. +=...|. || ...|-.||-+||+.+++.+|++|+.++.
T Consensus 1468 G~eECaICYsvL~~----vd---r~--lPskrC~TCk---nKFH~~CLyKWf~Ss~~s~CPlCRseit 1523 (1525)
T COG5219 1468 GHEECAICYSVLDM----VD---RS--LPSKRCATCK---NKFHTRCLYKWFASSARSNCPLCRSEIT 1523 (1525)
T ss_pred CcchhhHHHHHHHH----Hh---cc--CCccccchhh---hhhhHHHHHHHHHhcCCCCCCccccccc
Confidence 56679999865431 00 11 1111232 44 3699999999999999999999998874
No 25
>PF13923 zf-C3HC4_2: Zinc finger, C3HC4 type (RING finger); PDB: 3HCU_A 2ECI_A 2JMD_A 3HCS_B 3HCT_A 3ZTG_A 2YUR_A 3L11_A.
Probab=93.61 E-value=0.041 Score=38.05 Aligned_cols=39 Identities=26% Similarity=0.640 Sum_probs=28.3
Q ss_pred eeEcccCCcccccccccccCCCccccccccCcCccccccHHHHHHHHHHhCCcccccc
Q 017863 243 CRICHLGSEQLLETTATASTTVNLIQLGCGCKDELGVAHSDCAEAWFKLKGNRLCEIC 300 (365)
Q Consensus 243 CRICh~~~e~~~e~~~~~~~s~~LI~lPC~CKGSLkyVH~~CLe~W~k~Kgn~~CEIC 300 (365)
|.||++... .+.+.+||.- .+.+.|+++|++. ...|++|
T Consensus 1 C~iC~~~~~------------~~~~~~~CGH-----~fC~~C~~~~~~~--~~~CP~C 39 (39)
T PF13923_consen 1 CPICLDELR------------DPVVVTPCGH-----SFCKECIEKYLEK--NPKCPVC 39 (39)
T ss_dssp ETTTTSB-S------------SEEEECTTSE-----EEEHHHHHHHHHC--TSB-TTT
T ss_pred CCCCCCccc------------CcCEECCCCC-----chhHHHHHHHHHC--cCCCcCC
Confidence 678887653 3335668876 6899999999987 4789987
No 26
>KOG0823 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=91.58 E-value=0.18 Score=48.59 Aligned_cols=51 Identities=22% Similarity=0.460 Sum_probs=39.2
Q ss_pred CCCCCceeEcccCCcccccccccccCCCccccccccCcCccccccHHHHHHHHHHhCC-ccccccccccc
Q 017863 237 PDGERVCRICHLGSEQLLETTATASTTVNLIQLGCGCKDELGVAHSDCAEAWFKLKGN-RLCEICGQSAK 305 (365)
Q Consensus 237 ~e~E~~CRICh~~~e~~~e~~~~~~~s~~LI~lPC~CKGSLkyVH~~CLe~W~k~Kgn-~~CEICk~~y~ 305 (365)
+...-.|-||++... + ++..+|.. ..==.||-+|+.++.+ ..|++||....
T Consensus 44 ~~~~FdCNICLd~ak------------d-PVvTlCGH-----LFCWpClyqWl~~~~~~~~cPVCK~~Vs 95 (230)
T KOG0823|consen 44 DGGFFDCNICLDLAK------------D-PVVTLCGH-----LFCWPCLYQWLQTRPNSKECPVCKAEVS 95 (230)
T ss_pred CCCceeeeeeccccC------------C-CEEeeccc-----ceehHHHHHHHhhcCCCeeCCccccccc
Confidence 445678999998864 2 46668875 5667899999999875 56799998763
No 27
>KOG0828 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=91.34 E-value=0.14 Score=54.39 Aligned_cols=60 Identities=17% Similarity=0.381 Sum_probs=38.1
Q ss_pred CCCceeEcccCCccccccccc----ccCCCccccccccCcCccccccHHHHHHHHHHhCCcccccccccc
Q 017863 239 GERVCRICHLGSEQLLETTAT----ASTTVNLIQLGCGCKDELGVAHSDCAEAWFKLKGNRLCEICGQSA 304 (365)
Q Consensus 239 ~E~~CRICh~~~e~~~e~~~~----~~~s~~LI~lPC~CKGSLkyVH~~CLe~W~k~Kgn~~CEICk~~y 304 (365)
...+|-||...-+--.+..+. -.....-+..||+- ..|+.||++|.... +..|++|+...
T Consensus 570 ~t~dC~ICMt~I~l~~~~s~~~~~~~~~~~nYm~tPC~H-----ifH~~CL~~WMd~y-kl~CPvCR~pL 633 (636)
T KOG0828|consen 570 RTNDCVICMTPIDLRSTGSDCMVASMMVRRNYMLTPCHH-----IFHRQCLLQWMDTY-KLICPVCRCPL 633 (636)
T ss_pred ccccceEeccccceeeccCcchhhhhhhhccccccchHH-----HHHHHHHHHHHhhh-cccCCccCCCC
Confidence 457899998775432111110 00111235569986 89999999999732 25799999764
No 28
>KOG1493 consensus Anaphase-promoting complex (APC), subunit 11 [Cell cycle control, cell division, chromosome partitioning; Posttranslational modification, protein turnover, chaperones]
Probab=90.03 E-value=0.1 Score=43.18 Aligned_cols=60 Identities=18% Similarity=0.408 Sum_probs=37.7
Q ss_pred ceeEcccCCcccccccccccCCCccccccccCcCccccccHHHHHHHHHHhCC-cccccccccccc
Q 017863 242 VCRICHLGSEQLLETTATASTTVNLIQLGCGCKDELGVAHSDCAEAWFKLKGN-RLCEICGQSAKN 306 (365)
Q Consensus 242 ~CRICh~~~e~~~e~~~~~~~s~~LI~lPC~CKGSLkyVH~~CLe~W~k~Kgn-~~CEICk~~y~n 306 (365)
.|-||..+.+...-+= .--+.+=+|..+ .|+ +.+|..|+.+|+..+.+ -.|+.|+++|..
T Consensus 22 ~CGiCRm~Fdg~Cp~C-k~PgDdCPLv~G-~C~---h~fh~hCI~~wl~~~tsq~~CPmcRq~~~~ 82 (84)
T KOG1493|consen 22 TCGICRMPFDGCCPDC-KLPGDDCPLVWG-YCL---HAFHAHCILKWLNTPTSQGQCPMCRQTWQF 82 (84)
T ss_pred ccceEecccCCcCCCC-cCCCCCCccHHH-HHH---HHHHHHHHHHHhcCccccccCCcchheeEe
Confidence 7778877654211000 000112233445 664 58999999999998765 699999999863
No 29
>KOG0827 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=89.98 E-value=0.23 Score=51.52 Aligned_cols=23 Identities=35% Similarity=0.897 Sum_probs=20.4
Q ss_pred cccHHHHHHHHHHhCC-ccccccc
Q 017863 279 VAHSDCAEAWFKLKGN-RLCEICG 301 (365)
Q Consensus 279 yVH~~CLe~W~k~Kgn-~~CEICk 301 (365)
.+|..||.+||.---. +.||||+
T Consensus 29 ifh~~cl~qwfe~~Ps~R~cpic~ 52 (465)
T KOG0827|consen 29 IFHTTCLTQWFEGDPSNRGCPICQ 52 (465)
T ss_pred HHHHHHHHHHHccCCccCCCCcee
Confidence 7999999999987544 8999999
No 30
>TIGR00599 rad18 DNA repair protein rad18. This family is based on the phylogenomic analysis of JA Eisen (1999, Ph.D. Thesis, Stanford University).
Probab=89.20 E-value=0.26 Score=50.73 Aligned_cols=49 Identities=20% Similarity=0.390 Sum_probs=37.7
Q ss_pred CCCCCceeEcccCCcccccccccccCCCccccccccCcCccccccHHHHHHHHHHhCCccccccccccc
Q 017863 237 PDGERVCRICHLGSEQLLETTATASTTVNLIQLGCGCKDELGVAHSDCAEAWFKLKGNRLCEICGQSAK 305 (365)
Q Consensus 237 ~e~E~~CRICh~~~e~~~e~~~~~~~s~~LI~lPC~CKGSLkyVH~~CLe~W~k~Kgn~~CEICk~~y~ 305 (365)
-+....|.||+.... .+ +.+||.. .+...|+..|+..+ ..|++|+..+.
T Consensus 23 Le~~l~C~IC~d~~~------------~P-vitpCgH-----~FCs~CI~~~l~~~--~~CP~Cr~~~~ 71 (397)
T TIGR00599 23 LDTSLRCHICKDFFD------------VP-VLTSCSH-----TFCSLCIRRCLSNQ--PKCPLCRAEDQ 71 (397)
T ss_pred cccccCCCcCchhhh------------Cc-cCCCCCC-----chhHHHHHHHHhCC--CCCCCCCCccc
Confidence 345779999998753 22 3468876 68899999999764 47999999875
No 31
>KOG0804 consensus Cytoplasmic Zn-finger protein BRAP2 (BRCA1 associated protein) [General function prediction only]
Probab=88.59 E-value=0.24 Score=51.99 Aligned_cols=48 Identities=21% Similarity=0.549 Sum_probs=33.1
Q ss_pred CCCCceeEcccCCcccccccccccCCCccccccccCcCccccccHHHHHHHHHHhCCccccccccc
Q 017863 238 DGERVCRICHLGSEQLLETTATASTTVNLIQLGCGCKDELGVAHSDCAEAWFKLKGNRLCEICGQS 303 (365)
Q Consensus 238 e~E~~CRICh~~~e~~~e~~~~~~~s~~LI~lPC~CKGSLkyVH~~CLe~W~k~Kgn~~CEICk~~ 303 (365)
.+-+.|.+|++.++++ ..+ ++..+|.. -.|-.||.+|-.. +|++|+|.
T Consensus 173 tELPTCpVCLERMD~s--------~~g-i~t~~c~H-----sfh~~cl~~w~~~----scpvcR~~ 220 (493)
T KOG0804|consen 173 TELPTCPVCLERMDSS--------TTG-ILTILCNH-----SFHCSCLMKWWDS----SCPVCRYC 220 (493)
T ss_pred ccCCCcchhHhhcCcc--------ccc-eeeeeccc-----ccchHHHhhcccC----cChhhhhh
Confidence 3468999999998752 223 45556665 6899999999644 36666554
No 32
>PF14570 zf-RING_4: RING/Ubox like zinc-binding domain; PDB: 1E4U_A 1UR6_B.
Probab=87.24 E-value=0.44 Score=35.92 Aligned_cols=46 Identities=20% Similarity=0.470 Sum_probs=22.3
Q ss_pred eeEcccCCcccccccccccCCCccccccccCcCccccccHHHHHHHHHHhC--Cccccccccccc
Q 017863 243 CRICHLGSEQLLETTATASTTVNLIQLGCGCKDELGVAHSDCAEAWFKLKG--NRLCEICGQSAK 305 (365)
Q Consensus 243 CRICh~~~e~~~e~~~~~~~s~~LI~lPC~CKGSLkyVH~~CLe~W~k~Kg--n~~CEICk~~y~ 305 (365)
|.+|.+..+. .+.-+. ||.|. ++-|+.=|.+++. +-.|+=|+..|.
T Consensus 1 cp~C~e~~d~----------~d~~~~-PC~Cg------f~IC~~C~~~i~~~~~g~CPgCr~~Y~ 48 (48)
T PF14570_consen 1 CPLCDEELDE----------TDKDFY-PCECG------FQICRFCYHDILENEGGRCPGCREPYK 48 (48)
T ss_dssp -TTTS-B--C----------CCTT---SSTTS----------HHHHHHHTTSS-SB-TTT--B--
T ss_pred CCCccccccc----------CCCccc-cCcCC------CcHHHHHHHHHHhccCCCCCCCCCCCC
Confidence 4566666532 233455 99995 6788888998874 689999999883
No 33
>COG5194 APC11 Component of SCF ubiquitin ligase and anaphase-promoting complex [Posttranslational modification, protein turnover, chaperones / Cell division and chromosome partitioning]
Probab=85.73 E-value=0.5 Score=39.55 Aligned_cols=25 Identities=28% Similarity=0.582 Sum_probs=22.5
Q ss_pred cccHHHHHHHHHHhCCccccccccccc
Q 017863 279 VAHSDCAEAWFKLKGNRLCEICGQSAK 305 (365)
Q Consensus 279 yVH~~CLe~W~k~Kgn~~CEICk~~y~ 305 (365)
.+|.+|+.+|++.|+- |++|.++|.
T Consensus 57 aFH~HCI~rWL~Tk~~--CPld~q~w~ 81 (88)
T COG5194 57 AFHDHCIYRWLDTKGV--CPLDRQTWV 81 (88)
T ss_pred HHHHHHHHHHHhhCCC--CCCCCceeE
Confidence 7999999999999654 999999985
No 34
>PF14634 zf-RING_5: zinc-RING finger domain
Probab=85.72 E-value=0.72 Score=32.76 Aligned_cols=43 Identities=21% Similarity=0.466 Sum_probs=33.1
Q ss_pred eeEcccCCcccccccccccCCCccccccccCcCccccccHHHHHHHHHHhCCcccccccc
Q 017863 243 CRICHLGSEQLLETTATASTTVNLIQLGCGCKDELGVAHSDCAEAWFKLKGNRLCEICGQ 302 (365)
Q Consensus 243 CRICh~~~e~~~e~~~~~~~s~~LI~lPC~CKGSLkyVH~~CLe~W~k~Kgn~~CEICk~ 302 (365)
|-||+..... ...++.++|.- .+...|+.++. .....|++|++
T Consensus 2 C~~C~~~~~~----------~~~~~l~~CgH-----~~C~~C~~~~~--~~~~~CP~C~k 44 (44)
T PF14634_consen 2 CNICFEKYSE----------ERRPRLTSCGH-----IFCEKCLKKLK--GKSVKCPICRK 44 (44)
T ss_pred CcCcCccccC----------CCCeEEcccCC-----HHHHHHHHhhc--CCCCCCcCCCC
Confidence 7788887621 23466778976 89999999998 66788999974
No 35
>KOG1785 consensus Tyrosine kinase negative regulator CBL [Defense mechanisms]
Probab=83.22 E-value=0.46 Score=49.64 Aligned_cols=53 Identities=25% Similarity=0.559 Sum_probs=40.9
Q ss_pred CCceeEcccCCcccccccccccCCCccccccccCcCccccccHHHHHHHHHHhCCcccccccccccccccc
Q 017863 240 ERVCRICHLGSEQLLETTATASTTVNLIQLGCGCKDELGVAHSDCAEAWFKLKGNRLCEICGQSAKNITGV 310 (365)
Q Consensus 240 E~~CRICh~~~e~~~e~~~~~~~s~~LI~lPC~CKGSLkyVH~~CLe~W~k~Kgn~~CEICk~~y~nV~~~ 310 (365)
-..|.||-+.+. +.-|+ ||.. ..-..||-.|....+...|+.|+++.+...++
T Consensus 369 FeLCKICaendK------------dvkIE-PCGH-----LlCt~CLa~WQ~sd~gq~CPFCRcEIKGte~v 421 (563)
T KOG1785|consen 369 FELCKICAENDK------------DVKIE-PCGH-----LLCTSCLAAWQDSDEGQTCPFCRCEIKGTEPV 421 (563)
T ss_pred HHHHHHhhccCC------------Ccccc-cccc-----hHHHHHHHhhcccCCCCCCCceeeEeccccce
Confidence 357999988764 33477 9975 66678999999888888999999988654443
No 36
>PLN02189 cellulose synthase
Probab=82.94 E-value=0.8 Score=52.27 Aligned_cols=56 Identities=23% Similarity=0.519 Sum_probs=41.7
Q ss_pred CCCceeEcccCCcccccccccccCCCcccccccc-CcCcccc-ccHHHHHHHHHHhCCcccccccccccccc
Q 017863 239 GERVCRICHLGSEQLLETTATASTTVNLIQLGCG-CKDELGV-AHSDCAEAWFKLKGNRLCEICGQSAKNIT 308 (365)
Q Consensus 239 ~E~~CRICh~~~e~~~e~~~~~~~s~~LI~lPC~-CKGSLky-VH~~CLe~W~k~Kgn~~CEICk~~y~nV~ 308 (365)
...+|+||-+..+.+ ..++++. .|+ |. | |=+.|.+ .-...|+..|+.||++|+-..
T Consensus 33 ~~~~C~iCgd~vg~~--------~~g~~fv-aC~~C~----fpvCr~Cye-yer~eg~q~CpqCkt~Y~r~k 90 (1040)
T PLN02189 33 DGQVCEICGDEIGLT--------VDGDLFV-ACNECG----FPVCRPCYE-YERREGTQNCPQCKTRYKRLK 90 (1040)
T ss_pred cCccccccccccCcC--------CCCCEEE-eeccCC----Cccccchhh-hhhhcCCccCcccCCchhhcc
Confidence 355999998887642 3466787 898 73 5 8889984 344458899999999998544
No 37
>KOG0317 consensus Predicted E3 ubiquitin ligase, integral peroxisomal membrane protein [Posttranslational modification, protein turnover, chaperones]
Probab=82.66 E-value=1.3 Score=44.14 Aligned_cols=50 Identities=22% Similarity=0.585 Sum_probs=39.2
Q ss_pred CCCCCCceeEcccCCcccccccccccCCCccccccccCcCccccccHHHHHHHHHHhCCccccccccccc
Q 017863 236 NPDGERVCRICHLGSEQLLETTATASTTVNLIQLGCGCKDELGVAHSDCAEAWFKLKGNRLCEICGQSAK 305 (365)
Q Consensus 236 s~e~E~~CRICh~~~e~~~e~~~~~~~s~~LI~lPC~CKGSLkyVH~~CLe~W~k~Kgn~~CEICk~~y~ 305 (365)
.++..+.|-+|++.... +=-+||.. .+==.|+..|...|.. |++|+..+.
T Consensus 235 i~~a~~kC~LCLe~~~~-------------pSaTpCGH-----iFCWsCI~~w~~ek~e--CPlCR~~~~ 284 (293)
T KOG0317|consen 235 IPEATRKCSLCLENRSN-------------PSATPCGH-----IFCWSCILEWCSEKAE--CPLCREKFQ 284 (293)
T ss_pred CCCCCCceEEEecCCCC-------------CCcCcCcc-----hHHHHHHHHHHccccC--CCcccccCC
Confidence 44567899999998742 22469975 6677999999988766 999999885
No 38
>COG5175 MOT2 Transcriptional repressor [Transcription]
Probab=81.75 E-value=1.1 Score=46.15 Aligned_cols=53 Identities=21% Similarity=0.438 Sum_probs=37.5
Q ss_pred CCCCCCceeEcccCCcccccccccccCCCccccccccCcCccccccHHHHHHHHHHhC--Cccccccccccc
Q 017863 236 NPDGERVCRICHLGSEQLLETTATASTTVNLIQLGCGCKDELGVAHSDCAEAWFKLKG--NRLCEICGQSAK 305 (365)
Q Consensus 236 s~e~E~~CRICh~~~e~~~e~~~~~~~s~~LI~lPC~CKGSLkyVH~~CLe~W~k~Kg--n~~CEICk~~y~ 305 (365)
+.+++..|-.|.++.+- .+.-+. ||.|- | +-|---|-.++. +-+|+-|+..|.
T Consensus 10 sedeed~cplcie~mdi----------tdknf~-pc~cg----y--~ic~fc~~~irq~lngrcpacrr~y~ 64 (480)
T COG5175 10 SEDEEDYCPLCIEPMDI----------TDKNFF-PCPCG----Y--QICQFCYNNIRQNLNGRCPACRRKYD 64 (480)
T ss_pred cccccccCccccccccc----------ccCCcc-cCCcc----c--HHHHHHHHHHHhhccCCChHhhhhcc
Confidence 44567789999999864 234466 99994 4 344444877765 568999999884
No 39
>PF15227 zf-C3HC4_4: zinc finger of C3HC4-type, RING; PDB: 2EGP_A 2ECV_A 2ECJ_A 2YSL_A 2YSJ_A.
Probab=80.02 E-value=1 Score=32.16 Aligned_cols=40 Identities=28% Similarity=0.531 Sum_probs=26.7
Q ss_pred eeEcccCCcccccccccccCCCccccccccCcCccccccHHHHHHHHHHhCC--cccccc
Q 017863 243 CRICHLGSEQLLETTATASTTVNLIQLGCGCKDELGVAHSDCAEAWFKLKGN--RLCEIC 300 (365)
Q Consensus 243 CRICh~~~e~~~e~~~~~~~s~~LI~lPC~CKGSLkyVH~~CLe~W~k~Kgn--~~CEIC 300 (365)
|-||+.-.. +++.++|.. -+=+.||++|.+.... ..|++|
T Consensus 1 CpiC~~~~~-------------~Pv~l~CGH-----~FC~~Cl~~~~~~~~~~~~~CP~C 42 (42)
T PF15227_consen 1 CPICLDLFK-------------DPVSLPCGH-----SFCRSCLERLWKEPSGSGFSCPEC 42 (42)
T ss_dssp ETTTTSB-S-------------SEEE-SSSS-----EEEHHHHHHHHCCSSSST---SSS
T ss_pred CCccchhhC-------------CccccCCcC-----HHHHHHHHHHHHccCCcCCCCcCC
Confidence 667877653 357789876 5778999999987655 489887
No 40
>PLN02436 cellulose synthase A
Probab=79.21 E-value=1.3 Score=50.89 Aligned_cols=56 Identities=25% Similarity=0.529 Sum_probs=41.7
Q ss_pred CCCceeEcccCCcccccccccccCCCcccccccc-CcCcccc-ccHHHHHHHHHHhCCcccccccccccccc
Q 017863 239 GERVCRICHLGSEQLLETTATASTTVNLIQLGCG-CKDELGV-AHSDCAEAWFKLKGNRLCEICGQSAKNIT 308 (365)
Q Consensus 239 ~E~~CRICh~~~e~~~e~~~~~~~s~~LI~lPC~-CKGSLky-VH~~CLe~W~k~Kgn~~CEICk~~y~nV~ 308 (365)
...+|+||-+..+.. ..+++++ .|. |. | |=+.|.+ .-...++..|+.||++|+-..
T Consensus 35 ~~~iCqICGD~Vg~t--------~dGe~FV-ACn~C~----fpvCr~Cye-yer~eg~~~Cpqckt~Y~r~k 92 (1094)
T PLN02436 35 SGQTCQICGDEIELT--------VDGEPFV-ACNECA----FPVCRPCYE-YERREGNQACPQCKTRYKRIK 92 (1094)
T ss_pred CCccccccccccCcC--------CCCCEEE-eeccCC----Cccccchhh-hhhhcCCccCcccCCchhhcc
Confidence 356999998886642 4577887 788 63 4 8889984 344558899999999998544
No 41
>KOG4445 consensus Uncharacterized conserved protein, contains RWD domain [Function unknown]
Probab=79.11 E-value=1.1 Score=45.35 Aligned_cols=57 Identities=21% Similarity=0.483 Sum_probs=40.3
Q ss_pred ccCCCCCCceeEcccCCcccccccccccCCCccccccccCcCccccccHHHHHHHHHH---------------------h
Q 017863 234 RENPDGERVCRICHLGSEQLLETTATASTTVNLIQLGCGCKDELGVAHSDCAEAWFKL---------------------K 292 (365)
Q Consensus 234 ~es~e~E~~CRICh~~~e~~~e~~~~~~~s~~LI~lPC~CKGSLkyVH~~CLe~W~k~---------------------K 292 (365)
.++.-...+|-||+-+..+ +...+..+|-- |.|..||-+.+.. +
T Consensus 109 T~nn~p~gqCvICLygfa~----------~~~ft~T~C~H-----y~H~~ClaRyl~~~~~~lrqe~q~~~~~~qh~~~~ 173 (368)
T KOG4445|consen 109 TENNHPNGQCVICLYGFAS----------SPAFTVTACDH-----YMHFACLARYLTECLTGLRQEIQDAQKERQHMKEQ 173 (368)
T ss_pred ccCCCCCCceEEEEEeecC----------CCceeeehhHH-----HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhhh
Confidence 3445556789999887642 23367888875 9999999888742 1
Q ss_pred CCccccccccccc
Q 017863 293 GNRLCEICGQSAK 305 (365)
Q Consensus 293 gn~~CEICk~~y~ 305 (365)
-...|+||.....
T Consensus 174 ~eavcpVcre~i~ 186 (368)
T KOG4445|consen 174 VEAVCPVCRERIK 186 (368)
T ss_pred HhhhhhHhhhhcc
Confidence 1357999998764
No 42
>PF04564 U-box: U-box domain; InterPro: IPR003613 Quality control of intracellular proteins is essential for cellular homeostasis. Molecular chaperones recognise and contribute to the refolding of misfolded or unfolded proteins, whereas the ubiquitin-proteasome system mediates the degradation of such abnormal proteins. Ubiquitin-protein ligases (E3s) determine the substrate specificity for ubiquitylation and have been classified into HECT and RING-finger families. More recently, however, U-box proteins, which contain a domain (the U box) of about 70 amino acids that is conserved from yeast to humans, have been identified as a new type of E3 []. Members of the U-box family of proteins constitute a class of ubiquitin-protein ligases (E3s) distinct from the HECT-type and RING finger-containing E3 families []. Using yeast two-hybrid technology, all mammalian U-box proteins have been reported to interact with molecular chaperones or co-chaperones, including Hsp90, Hsp70, DnaJc7, EKN1, CRN, and VCP. This suggests that the function of U box-type E3s is to mediate the degradation of unfolded or misfolded proteins in conjunction with molecular chaperones as receptors that recognise such abnormal proteins [, ]. Unlike the RING finger domain, IPR001841 from INTERPRO, that is stabilised by Zn2+ ions coordinated by the cysteines and a histidine, the U-box scaffold is probably stabilised by a system of salt-bridges and hydrogen bonds. The charged and polar residues that participate in this network of bonds are more strongly conserved in the U-box proteins than in classic RING fingers, which supports their role in maintaining the stability of the U box. Thus, the U box appears to have evolved from a RING finger domain by appropriation of a new set of residues required to stabilise its structure, concomitant with the loss of the original, metal-chelating residues [].; GO: 0004842 ubiquitin-protein ligase activity, 0016567 protein ubiquitination, 0000151 ubiquitin ligase complex; PDB: 1T1H_A 2C2L_D 2C2V_V 1WGM_A 2KR4_A 3L1Z_B 3L1X_A 2KRE_A 3M63_A 2QIZ_A ....
Probab=79.09 E-value=1.6 Score=34.16 Aligned_cols=63 Identities=17% Similarity=0.174 Sum_probs=37.6
Q ss_pred CCceeEcccCCcccccccccccCCCccccccccCcCccccccHHHHHHHHHHhCCccccccccccccc--cc-cCchhhH
Q 017863 240 ERVCRICHLGSEQLLETTATASTTVNLIQLGCGCKDELGVAHSDCAEAWFKLKGNRLCEICGQSAKNI--TG-VGDYRFM 316 (365)
Q Consensus 240 E~~CRICh~~~e~~~e~~~~~~~s~~LI~lPC~CKGSLkyVH~~CLe~W~k~Kgn~~CEICk~~y~nV--~~-~~~~~fl 316 (365)
+-.|-||+.-+. + +..+||. ..+=+.|+++|++. +..+|++|+.....- .+ ...+...
T Consensus 4 ~f~CpIt~~lM~------------d-PVi~~~G-----~tyer~~I~~~l~~-~~~~~P~t~~~l~~~~l~pn~~Lk~~I 64 (73)
T PF04564_consen 4 EFLCPITGELMR------------D-PVILPSG-----HTYERSAIERWLEQ-NGGTDPFTRQPLSESDLIPNRALKSAI 64 (73)
T ss_dssp GGB-TTTSSB-S------------S-EEEETTS-----EEEEHHHHHHHHCT-TSSB-TTT-SB-SGGGSEE-HHHHHHH
T ss_pred ccCCcCcCcHhh------------C-ceeCCcC-----CEEcHHHHHHHHHc-CCCCCCCCCCcCCcccceECHHHHHHH
Confidence 446778877664 2 3445755 47899999999977 567899998876431 11 1244556
Q ss_pred HHHhh
Q 017863 317 EEWNE 321 (365)
Q Consensus 317 eeW~~ 321 (365)
++|..
T Consensus 65 ~~~~~ 69 (73)
T PF04564_consen 65 EEWCA 69 (73)
T ss_dssp HHHHH
T ss_pred HHHHH
Confidence 67753
No 43
>KOG1645 consensus RING-finger-containing E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=78.87 E-value=1.5 Score=45.91 Aligned_cols=53 Identities=26% Similarity=0.585 Sum_probs=38.7
Q ss_pred CCCceeEcccCCcccccccccccCCCccccccccCcCccccccHHHHHHHHHHhCCcccccccccc
Q 017863 239 GERVCRICHLGSEQLLETTATASTTVNLIQLGCGCKDELGVAHSDCAEAWFKLKGNRLCEICGQSA 304 (365)
Q Consensus 239 ~E~~CRICh~~~e~~~e~~~~~~~s~~LI~lPC~CKGSLkyVH~~CLe~W~k~Kgn~~CEICk~~y 304 (365)
....|-||+.+-... ....+..+-|.- .+-..|+++|+..+....|+.|+-++
T Consensus 3 ~g~tcpiclds~~~~--------g~hr~vsl~cgh-----lFgs~cie~wl~k~~~~~cp~c~~ka 55 (463)
T KOG1645|consen 3 CGTTCPICLDSYTTA--------GNHRIVSLQCGH-----LFGSQCIEKWLGKKTKMQCPLCSGKA 55 (463)
T ss_pred ccccCceeeeeeeec--------CceEEeeecccc-----cccHHHHHHHHhhhhhhhCcccCChh
Confidence 467899999987652 123344544543 68899999999755678999999876
No 44
>KOG0825 consensus PHD Zn-finger protein [General function prediction only]
Probab=78.62 E-value=0.72 Score=51.58 Aligned_cols=32 Identities=9% Similarity=0.310 Sum_probs=26.2
Q ss_pred cccCcCccccccHHHHHHHHHHhCCcccccccccccccc
Q 017863 270 GCGCKDELGVAHSDCAEAWFKLKGNRLCEICGQSAKNIT 308 (365)
Q Consensus 270 PC~CKGSLkyVH~~CLe~W~k~Kgn~~CEICk~~y~nV~ 308 (365)
+|.| |+|..|+..|-+.- .+|++|+.+|--+.
T Consensus 143 ~c~H-----~FC~~Ci~sWsR~a--qTCPiDR~EF~~v~ 174 (1134)
T KOG0825|consen 143 HTAH-----YFCEECVGSWSRCA--QTCPVDRGEFGEVK 174 (1134)
T ss_pred cccc-----ccHHHHhhhhhhhc--ccCchhhhhhheee
Confidence 6776 99999999999665 45999999995443
No 45
>KOG4265 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=78.46 E-value=2.8 Score=42.88 Aligned_cols=50 Identities=26% Similarity=0.486 Sum_probs=34.4
Q ss_pred CCCCceeEcccCCcccccccccccCCCccccccccCcCccccccHHHHHHHHHHhCCcccccccccccc
Q 017863 238 DGERVCRICHLGSEQLLETTATASTTVNLIQLGCGCKDELGVAHSDCAEAWFKLKGNRLCEICGQSAKN 306 (365)
Q Consensus 238 e~E~~CRICh~~~e~~~e~~~~~~~s~~LI~lPC~CKGSLkyVH~~CLe~W~k~Kgn~~CEICk~~y~n 306 (365)
+..+.|-||+.+.-+ -..+||+.- ..=..|++.-.-. ...|+||++.+.-
T Consensus 288 ~~gkeCVIClse~rd-------------t~vLPCRHL----CLCs~Ca~~Lr~q--~n~CPICRqpi~~ 337 (349)
T KOG4265|consen 288 ESGKECVICLSESRD-------------TVVLPCRHL----CLCSGCAKSLRYQ--TNNCPICRQPIEE 337 (349)
T ss_pred cCCCeeEEEecCCcc-------------eEEecchhh----ehhHhHHHHHHHh--hcCCCccccchHh
Confidence 557899999987542 345688742 3446798887633 3459999988753
No 46
>PF13445 zf-RING_UBOX: RING-type zinc-finger; PDB: 2CT2_A.
Probab=78.01 E-value=1.6 Score=31.75 Aligned_cols=41 Identities=27% Similarity=0.458 Sum_probs=21.8
Q ss_pred eeEcccCCcccccccccccCCCccccccccCcCccccccHHHHHHHHHHh--CCcccc
Q 017863 243 CRICHLGSEQLLETTATASTTVNLIQLGCGCKDELGVAHSDCAEAWFKLK--GNRLCE 298 (365)
Q Consensus 243 CRICh~~~e~~~e~~~~~~~s~~LI~lPC~CKGSLkyVH~~CLe~W~k~K--gn~~CE 298 (365)
|-||++ ..+ +..+++.+||.. -+=++||++|.+.+ +...|+
T Consensus 1 CpIc~e-~~~---------~~n~P~~L~CGH-----~~c~~cl~~l~~~~~~~~~kCP 43 (43)
T PF13445_consen 1 CPICKE-FST---------EENPPMVLPCGH-----VFCKDCLQKLSKKSDRNRFKCP 43 (43)
T ss_dssp -TTT-----T---------TSS-EEE-SSS------EEEHHHHHHHHHH-S-S-B--T
T ss_pred CCcccc-ccC---------CCCCCEEEeCcc-----HHHHHHHHHHHhcCCCCeeeCc
Confidence 667877 432 245678899876 68899999999865 344553
No 47
>TIGR00570 cdk7 CDK-activating kinase assembly factor MAT1. All proteins in this family for which functions are known are cyclin dependent protein kinases that are components of TFIIH, a complex that is involved in nucleotide excision repair and transcription initiation. Also known as MAT1 (menage a trois 1). This family is based on the phylogenomic analysis of JA Eisen (1999, Ph.D. Thesis, Stanford University).
Probab=77.20 E-value=2.5 Score=42.50 Aligned_cols=52 Identities=19% Similarity=0.533 Sum_probs=36.4
Q ss_pred CCceeEcccCCcccccccccccCCCccccccccCcCccccccHHHHHHHHHHhCCccccccccccc
Q 017863 240 ERVCRICHLGSEQLLETTATASTTVNLIQLGCGCKDELGVAHSDCAEAWFKLKGNRLCEICGQSAK 305 (365)
Q Consensus 240 E~~CRICh~~~e~~~e~~~~~~~s~~LI~lPC~CKGSLkyVH~~CLe~W~k~Kgn~~CEICk~~y~ 305 (365)
+..|-||....-. .+...++..+|.. -+=..|+.+.|. ++...|++|+..++
T Consensus 3 ~~~CP~Ck~~~y~--------np~~kl~i~~CGH-----~~C~sCv~~l~~-~~~~~CP~C~~~lr 54 (309)
T TIGR00570 3 DQGCPRCKTTKYR--------NPSLKLMVNVCGH-----TLCESCVDLLFV-RGSGSCPECDTPLR 54 (309)
T ss_pred CCCCCcCCCCCcc--------CcccccccCCCCC-----cccHHHHHHHhc-CCCCCCCCCCCccc
Confidence 4689999986543 1234455558865 466799999764 36678999998765
No 48
>PF05883 Baculo_RING: Baculovirus U-box/Ring-like domain; InterPro: IPR008573 This family consists of several Baculovirus proteins of around 130 residues in length. The function of this family is unknown, but it appears to be related to the U-box and ring finger domain by profile-profile comparison.
Probab=77.16 E-value=1.1 Score=40.24 Aligned_cols=43 Identities=19% Similarity=0.409 Sum_probs=28.9
Q ss_pred CCceeEcccCCcccccccccccCCCccccccccCcCcc-ccccHHHHHHHHHHh
Q 017863 240 ERVCRICHLGSEQLLETTATASTTVNLIQLGCGCKDEL-GVAHSDCAEAWFKLK 292 (365)
Q Consensus 240 E~~CRICh~~~e~~~e~~~~~~~s~~LI~lPC~CKGSL-kyVH~~CLe~W~k~K 292 (365)
...|+||+..-.. ..| .+..+|.-.-.| +..|..|+++|-+.+
T Consensus 26 ~~EC~IC~~~I~~---------~~G-vV~vt~~g~lnLEkmfc~~C~~rw~~~~ 69 (134)
T PF05883_consen 26 TVECQICFDRIDN---------NDG-VVYVTDGGTLNLEKMFCADCDKRWRRER 69 (134)
T ss_pred Ceeehhhhhhhhc---------CCC-EEEEecCCeehHHHHHHHHHHHHHHhhc
Confidence 5689999988652 124 444466655444 349999999995443
No 49
>KOG2930 consensus SCF ubiquitin ligase, Rbx1 component [Posttranslational modification, protein turnover, chaperones]
Probab=74.61 E-value=2 Score=37.51 Aligned_cols=24 Identities=21% Similarity=0.607 Sum_probs=21.0
Q ss_pred cccHHHHHHHHHHhCCcccccccccc
Q 017863 279 VAHSDCAEAWFKLKGNRLCEICGQSA 304 (365)
Q Consensus 279 yVH~~CLe~W~k~Kgn~~CEICk~~y 304 (365)
.+|..|+.+|++.+ ..|++|..+.
T Consensus 84 aFH~hCisrWlktr--~vCPLdn~eW 107 (114)
T KOG2930|consen 84 AFHFHCISRWLKTR--NVCPLDNKEW 107 (114)
T ss_pred HHHHHHHHHHHhhc--CcCCCcCcce
Confidence 79999999999776 5699999876
No 50
>PHA03164 hypothetical protein; Provisional
Probab=73.62 E-value=2.2 Score=35.56 Aligned_cols=25 Identities=28% Similarity=0.498 Sum_probs=18.1
Q ss_pred chHHHHHHHHHHHHHhhheeeeccC
Q 017863 341 PFCNFLMACLVIAFVLPWFFRVNMF 365 (365)
Q Consensus 341 ~fcNFLLAcmViAFVi~WlF~f~vf 365 (365)
+|-+++|+|++||.+++..|-+.+|
T Consensus 57 tftFlvLtgLaIamILfiifvlyvF 81 (88)
T PHA03164 57 TFTFLVLTGLAIAMILFIIFVLYVF 81 (88)
T ss_pred eeehHHHHHHHHHHHHHHHHHHHhe
Confidence 5556778999888887776655554
No 51
>KOG0320 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=70.51 E-value=13 Score=35.22 Aligned_cols=49 Identities=24% Similarity=0.515 Sum_probs=33.3
Q ss_pred CCCCceeEcccCCcccccccccccCCCccccccccCcCccccccHHHHHHHHHHhCCcccccccccc
Q 017863 238 DGERVCRICHLGSEQLLETTATASTTVNLIQLGCGCKDELGVAHSDCAEAWFKLKGNRLCEICGQSA 304 (365)
Q Consensus 238 e~E~~CRICh~~~e~~~e~~~~~~~s~~LI~lPC~CKGSLkyVH~~CLe~W~k~Kgn~~CEICk~~y 304 (365)
++-.-|-||+..... ..+...-|.. .+-.+|++.-+ |....|++|+.+.
T Consensus 129 ~~~~~CPiCl~~~se-----------k~~vsTkCGH-----vFC~~Cik~al--k~~~~CP~C~kkI 177 (187)
T KOG0320|consen 129 EGTYKCPICLDSVSE-----------KVPVSTKCGH-----VFCSQCIKDAL--KNTNKCPTCRKKI 177 (187)
T ss_pred ccccCCCceecchhh-----------ccccccccch-----hHHHHHHHHHH--HhCCCCCCccccc
Confidence 344689999998753 2234444443 56788988877 4567799999753
No 52
>PF08746 zf-RING-like: RING-like domain; InterPro: IPR014857 This is a zinc finger domain that is related to the C3HC4 RING finger domain (IPR001841 from INTERPRO). ; PDB: 3NW0_A 2CT0_A.
Probab=67.42 E-value=2.9 Score=30.26 Aligned_cols=22 Identities=32% Similarity=0.810 Sum_probs=16.3
Q ss_pred cccHHHHHHHHHHhCCcccccc
Q 017863 279 VAHSDCAEAWFKLKGNRLCEIC 300 (365)
Q Consensus 279 yVH~~CLe~W~k~Kgn~~CEIC 300 (365)
-+|..|++++|+.+.+..|+.|
T Consensus 22 r~H~~C~~~y~r~~~~~~CP~C 43 (43)
T PF08746_consen 22 RLHDDCFKKYFRHRSNPKCPNC 43 (43)
T ss_dssp EE-HHHHHHHTTT-SS-B-TTT
T ss_pred hHHHHHHHHHHhcCCCCCCcCC
Confidence 5999999999999888889987
No 53
>PLN02638 cellulose synthase A (UDP-forming), catalytic subunit
Probab=65.03 E-value=5.2 Score=46.19 Aligned_cols=58 Identities=24% Similarity=0.487 Sum_probs=40.1
Q ss_pred CCCceeEcccCCcccccccccccCCCccccccccCcCcccc-ccHHHHHHHHHHhCCccccccccccccccc
Q 017863 239 GERVCRICHLGSEQLLETTATASTTVNLIQLGCGCKDELGV-AHSDCAEAWFKLKGNRLCEICGQSAKNITG 309 (365)
Q Consensus 239 ~E~~CRICh~~~e~~~e~~~~~~~s~~LI~lPC~CKGSLky-VH~~CLe~W~k~Kgn~~CEICk~~y~nV~~ 309 (365)
...+|+||-+..+.. ..+++++ -|+=- +| |=+.|.+ .=..-|+..|+.||++|+-..+
T Consensus 16 ~~qiCqICGD~vg~~--------~~Ge~FV-AC~eC---~FPVCrpCYE-YEr~eG~q~CPqCktrYkr~kg 74 (1079)
T PLN02638 16 GGQVCQICGDNVGKT--------VDGEPFV-ACDVC---AFPVCRPCYE-YERKDGNQSCPQCKTKYKRHKG 74 (1079)
T ss_pred CCceeeecccccCcC--------CCCCEEE-EeccC---CCccccchhh-hhhhcCCccCCccCCchhhhcC
Confidence 456999998876642 3566776 56421 24 7788984 3334588999999999985543
No 54
>KOG1428 consensus Inhibitor of type V adenylyl cyclases/Neuronal presynaptic protein Highwire/PAM/RPM-1 [Signal transduction mechanisms]
Probab=62.92 E-value=6.2 Score=47.49 Aligned_cols=53 Identities=26% Similarity=0.598 Sum_probs=38.8
Q ss_pred CCCCceeEcccCCcccccccccccCCCccccccccCcCccccccHHHHHHHHHHh--------CCccccccccccc
Q 017863 238 DGERVCRICHLGSEQLLETTATASTTVNLIQLGCGCKDELGVAHSDCAEAWFKLK--------GNRLCEICGQSAK 305 (365)
Q Consensus 238 e~E~~CRICh~~~e~~~e~~~~~~~s~~LI~lPC~CKGSLkyVH~~CLe~W~k~K--------gn~~CEICk~~y~ 305 (365)
+...+|-||+.+.- ...|.|++.|.- .+|.+|.++-+..+ +-..|+||+.+..
T Consensus 3484 D~DDmCmICFTE~L----------~AAP~IqL~C~H-----iFHlqC~R~vLE~RW~GPRItF~FisCPiC~n~In 3544 (3738)
T KOG1428|consen 3484 DADDMCMICFTEAL----------SAAPAIQLDCSH-----IFHLQCCRRVLENRWLGPRITFGFISCPICKNKIN 3544 (3738)
T ss_pred ccCceEEEEehhhh----------CCCcceecCCcc-----chhHHHHHHHHHhcccCCeeEEeeeecccccchhh
Confidence 34679999987643 235678888876 89999998655443 3468999999863
No 55
>KOG1952 consensus Transcription factor NF-X1, contains NFX-type Zn2+-binding and R3H domains [Transcription]
Probab=61.85 E-value=6.5 Score=44.50 Aligned_cols=59 Identities=22% Similarity=0.491 Sum_probs=45.0
Q ss_pred CCCCCCceeEcccCCcccccccccccCCCccccccccCcCccccccHHHHHHHHHHh-----CCcccccccccccccc
Q 017863 236 NPDGERVCRICHLGSEQLLETTATASTTVNLIQLGCGCKDELGVAHSDCAEAWFKLK-----GNRLCEICGQSAKNIT 308 (365)
Q Consensus 236 s~e~E~~CRICh~~~e~~~e~~~~~~~s~~LI~lPC~CKGSLkyVH~~CLe~W~k~K-----gn~~CEICk~~y~nV~ 308 (365)
+..+-..|-||.+.... ..+.|+ |+.--+.+|..|+.+|-+.+ ..+.|+-|++.+.-++
T Consensus 187 l~~~~yeCmIC~e~I~~----------t~~~WS----C~sCYhVFHl~CI~~WArs~ek~~~~~WrCP~Cqsv~~~~~ 250 (950)
T KOG1952|consen 187 LSNRKYECMICTERIKR----------TAPVWS----CKSCYHVFHLNCIKKWARSSEKTGQDGWRCPACQSVSKTVP 250 (950)
T ss_pred HhcCceEEEEeeeeccc----------cCCcee----cchhhhhhhHHHHHHHHHHhhhccCccccCCcccchhccCC
Confidence 34456799999998764 456776 55556789999999998754 3589999998887555
No 56
>PLN02195 cellulose synthase A
Probab=61.64 E-value=7.3 Score=44.60 Aligned_cols=54 Identities=19% Similarity=0.385 Sum_probs=37.8
Q ss_pred CCCceeEcccCCcccccccccccCCCccccccccCcCcccc-ccHHHHHHHHHHhCCccccccccccc
Q 017863 239 GERVCRICHLGSEQLLETTATASTTVNLIQLGCGCKDELGV-AHSDCAEAWFKLKGNRLCEICGQSAK 305 (365)
Q Consensus 239 ~E~~CRICh~~~e~~~e~~~~~~~s~~LI~lPC~CKGSLky-VH~~CLe~W~k~Kgn~~CEICk~~y~ 305 (365)
...+|+||-+..+.+ ..++++. -|+=- +| |=+.|.+ .=..-|+..|+.||.+|+
T Consensus 5 ~~~~c~~cgd~~~~~--------~~g~~fv-aC~eC---~~pvCrpCye-yer~eg~q~CpqCkt~Yk 59 (977)
T PLN02195 5 GAPICATCGEEVGVD--------SNGEAFV-ACHEC---SYPLCKACLE-YEIKEGRKVCLRCGGPYD 59 (977)
T ss_pred CCccceecccccCcC--------CCCCeEE-EeccC---CCccccchhh-hhhhcCCccCCccCCccc
Confidence 456899998776542 3466776 56421 24 7788984 333458899999999998
No 57
>KOG1734 consensus Predicted RING-containing E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=60.80 E-value=3.3 Score=41.52 Aligned_cols=59 Identities=20% Similarity=0.513 Sum_probs=40.5
Q ss_pred CCCCceeEcccCCcccccccccccCCCccccccccCcCccccccHHHHHHHHHHhCCcccccccccc
Q 017863 238 DGERVCRICHLGSEQLLETTATASTTVNLIQLGCGCKDELGVAHSDCAEAWFKLKGNRLCEICGQSA 304 (365)
Q Consensus 238 e~E~~CRICh~~~e~~~e~~~~~~~s~~LI~lPC~CKGSLkyVH~~CLe~W~k~Kgn~~CEICk~~y 304 (365)
-+...|-||-.....+.++ +.--+..-.+-|.- -.|+.|++-|.-.-...+|+-||.+.
T Consensus 222 l~d~vCaVCg~~~~~s~~e---egvienty~LsCnH-----vFHEfCIrGWcivGKkqtCPYCKekV 280 (328)
T KOG1734|consen 222 LSDSVCAVCGQQIDVSVDE---EGVIENTYKLSCNH-----VFHEFCIRGWCIVGKKQTCPYCKEKV 280 (328)
T ss_pred CCcchhHhhcchheeecch---hhhhhhheeeeccc-----chHHHhhhhheeecCCCCCchHHHHh
Confidence 3567899997665432110 01112344556765 79999999999888888999999885
No 58
>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=59.54 E-value=3.3 Score=33.10 Aligned_cols=33 Identities=21% Similarity=0.536 Sum_probs=24.2
Q ss_pred CCCceeEcccCCcccccccccccCCCccccccccCcCccccccHHHHHH
Q 017863 239 GERVCRICHLGSEQLLETTATASTTVNLIQLGCGCKDELGVAHSDCAEA 287 (365)
Q Consensus 239 ~E~~CRICh~~~e~~~e~~~~~~~s~~LI~lPC~CKGSLkyVH~~CLe~ 287 (365)
+...|.+|+..... ......||. ..+|..|+.|
T Consensus 77 ~~~~C~vC~k~l~~-----------~~f~~~p~~-----~v~H~~C~~r 109 (109)
T PF10367_consen 77 ESTKCSVCGKPLGN-----------SVFVVFPCG-----HVVHYSCIKR 109 (109)
T ss_pred CCCCccCcCCcCCC-----------ceEEEeCCC-----eEEecccccC
Confidence 35679999998753 445666875 4899999864
No 59
>KOG0801 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=59.33 E-value=4.3 Score=38.21 Aligned_cols=26 Identities=31% Similarity=0.588 Sum_probs=19.9
Q ss_pred CCCCceeEcccCCcccccccccccCCCccccccccC
Q 017863 238 DGERVCRICHLGSEQLLETTATASTTVNLIQLGCGC 273 (365)
Q Consensus 238 e~E~~CRICh~~~e~~~e~~~~~~~s~~LI~lPC~C 273 (365)
++.-.|-||++..+. ...+-++||.|
T Consensus 175 ddkGECvICLEdL~~----------GdtIARLPCLC 200 (205)
T KOG0801|consen 175 DDKGECVICLEDLEA----------GDTIARLPCLC 200 (205)
T ss_pred ccCCcEEEEhhhccC----------CCceeccceEE
Confidence 345689999998763 34466899999
No 60
>COG5432 RAD18 RING-finger-containing E3 ubiquitin ligase [Signal transduction mechanisms]
Probab=56.61 E-value=5.3 Score=40.60 Aligned_cols=49 Identities=20% Similarity=0.468 Sum_probs=34.5
Q ss_pred CCceeEcccCCcccccccccccCCCccccccccCcCccccccHHHHHHHHHHhCCcccccccccccccc
Q 017863 240 ERVCRICHLGSEQLLETTATASTTVNLIQLGCGCKDELGVAHSDCAEAWFKLKGNRLCEICGQSAKNIT 308 (365)
Q Consensus 240 E~~CRICh~~~e~~~e~~~~~~~s~~LI~lPC~CKGSLkyVH~~CLe~W~k~Kgn~~CEICk~~y~nV~ 308 (365)
-..||||++-.. -+ ...||.. -+-.-|+.+.+... ..|++|.+.+....
T Consensus 25 ~lrC~IC~~~i~------------ip-~~TtCgH-----tFCslCIR~hL~~q--p~CP~Cr~~~~esr 73 (391)
T COG5432 25 MLRCRICDCRIS------------IP-CETTCGH-----TFCSLCIRRHLGTQ--PFCPVCREDPCESR 73 (391)
T ss_pred HHHhhhhhheee------------cc-eeccccc-----chhHHHHHHHhcCC--CCCccccccHHhhh
Confidence 468999998753 23 3447765 35567888877555 45999999987544
No 61
>PF14569 zf-UDP: Zinc-binding RING-finger; PDB: 1WEO_A.
Probab=55.81 E-value=12 Score=31.23 Aligned_cols=59 Identities=22% Similarity=0.378 Sum_probs=24.6
Q ss_pred CCCceeEcccCCcccccccccccCCCccccccccCcCccccccHHHHHHHHHHhCCccccccccccccccc
Q 017863 239 GERVCRICHLGSEQLLETTATASTTVNLIQLGCGCKDELGVAHSDCAEAWFKLKGNRLCEICGQSAKNITG 309 (365)
Q Consensus 239 ~E~~CRICh~~~e~~~e~~~~~~~s~~LI~lPC~CKGSLkyVH~~CLe~W~k~Kgn~~CEICk~~y~nV~~ 309 (365)
...+|.||-+..+. ...++++. -|+=-+ --|-+.|.+-=++ -++..|+.|+.+|+-..+
T Consensus 8 ~~qiCqiCGD~VGl--------~~~Ge~FV-AC~eC~--fPvCr~CyEYErk-eg~q~CpqCkt~ykr~kg 66 (80)
T PF14569_consen 8 NGQICQICGDDVGL--------TENGEVFV-ACHECA--FPVCRPCYEYERK-EGNQVCPQCKTRYKRHKG 66 (80)
T ss_dssp SS-B-SSS--B--B---------SSSSB---S-SSS-------HHHHHHHHH-TS-SB-TTT--B----TT
T ss_pred CCcccccccCcccc--------CCCCCEEE-EEcccC--CccchhHHHHHhh-cCcccccccCCCcccccC
Confidence 46799999877654 23466777 454211 2377889875443 478899999999976654
No 62
>PF10272 Tmpp129: Putative transmembrane protein precursor; InterPro: IPR018801 This entry consists of proteins conserved from worms to humans. They are purported to be transmembrane protein-precursors but their function is unknown.
Probab=54.66 E-value=8.8 Score=39.37 Aligned_cols=35 Identities=20% Similarity=0.524 Sum_probs=27.2
Q ss_pred ccccCcCccccccHHHHHHHHHHhC-----------Ccccccccccccc
Q 017863 269 LGCGCKDELGVAHSDCAEAWFKLKG-----------NRLCEICGQSAKN 306 (365)
Q Consensus 269 lPC~CKGSLkyVH~~CLe~W~k~Kg-----------n~~CEICk~~y~n 306 (365)
.+|.|+- .-=..|+-+||..|+ +..|+.|+++|-.
T Consensus 307 ~~C~CRP---mWC~~Cm~kwFasrQd~~~~~~Wl~~~~~CPtCRa~FCi 352 (358)
T PF10272_consen 307 QQCYCRP---MWCLECMGKWFASRQDQQHPETWLSGKCPCPTCRAKFCI 352 (358)
T ss_pred ccccccc---hHHHHHHHHHhhhcCCCCChhhhhcCCCCCCCCccccee
Confidence 3788874 345789999998874 4689999999853
No 63
>KOG2164 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=54.17 E-value=32 Score=37.09 Aligned_cols=49 Identities=22% Similarity=0.529 Sum_probs=34.6
Q ss_pred CCceeEcccCCcccccccccccCCCccccccccCcCccccccHHHHHHHHHH---hCCcccccccccccc
Q 017863 240 ERVCRICHLGSEQLLETTATASTTVNLIQLGCGCKDELGVAHSDCAEAWFKL---KGNRLCEICGQSAKN 306 (365)
Q Consensus 240 E~~CRICh~~~e~~~e~~~~~~~s~~LI~lPC~CKGSLkyVH~~CLe~W~k~---Kgn~~CEICk~~y~n 306 (365)
...|-||+..... +++- -|.. +.=-.||.+.+.. ++-..|+||...+..
T Consensus 186 ~~~CPICL~~~~~------------p~~t-~CGH-----iFC~~CiLqy~~~s~~~~~~~CPiC~s~I~~ 237 (513)
T KOG2164|consen 186 DMQCPICLEPPSV------------PVRT-NCGH-----IFCGPCILQYWNYSAIKGPCSCPICRSTITL 237 (513)
T ss_pred CCcCCcccCCCCc------------cccc-ccCc-----eeeHHHHHHHHhhhcccCCccCCchhhhccc
Confidence 6789999988642 2233 2543 5566788887754 467899999998865
No 64
>KOG2177 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=53.97 E-value=6.7 Score=34.31 Aligned_cols=49 Identities=22% Similarity=0.480 Sum_probs=37.5
Q ss_pred CCCCCceeEcccCCcccccccccccCCCccccccccCcCccccccHHHHHHHHHHhCCccccccccccc
Q 017863 237 PDGERVCRICHLGSEQLLETTATASTTVNLIQLGCGCKDELGVAHSDCAEAWFKLKGNRLCEICGQSAK 305 (365)
Q Consensus 237 ~e~E~~CRICh~~~e~~~e~~~~~~~s~~LI~lPC~CKGSLkyVH~~CLe~W~k~Kgn~~CEICk~~y~ 305 (365)
.+++..|-||++.... + ..+||.- .+=+.|+..|+. ....|+.|+..+.
T Consensus 10 ~~~~~~C~iC~~~~~~------------p-~~l~C~H-----~~c~~C~~~~~~--~~~~Cp~cr~~~~ 58 (386)
T KOG2177|consen 10 LQEELTCPICLEYFRE------------P-VLLPCGH-----NFCRACLTRSWE--GPLSCPVCRPPSR 58 (386)
T ss_pred ccccccChhhHHHhhc------------C-ccccccc-----hHhHHHHHHhcC--CCcCCcccCCchh
Confidence 4568899999998753 2 4458876 566899999998 7789999995433
No 65
>KOG1039 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=51.89 E-value=11 Score=38.50 Aligned_cols=62 Identities=16% Similarity=0.359 Sum_probs=40.5
Q ss_pred CCCCceeEcccCCcccccccccccCCCccccccccCcCccccccHHHHHHHHHHhC-----Cccccccccccccccc
Q 017863 238 DGERVCRICHLGSEQLLETTATASTTVNLIQLGCGCKDELGVAHSDCAEAWFKLKG-----NRLCEICGQSAKNITG 309 (365)
Q Consensus 238 e~E~~CRICh~~~e~~~e~~~~~~~s~~LI~lPC~CKGSLkyVH~~CLe~W~k~Kg-----n~~CEICk~~y~nV~~ 309 (365)
..+..|-||.+...... +. ...--|..+|.- ..=..|+.+|...+. .+.|++|+..-..+-+
T Consensus 159 s~~k~CGICme~i~ek~-~~----~~rfgilpnC~H-----~~Cl~Cir~wr~~~q~~~~~sksCP~CRv~s~~v~p 225 (344)
T KOG1039|consen 159 SSEKECGICMETINEKA-AS----ERRFGILPNCNH-----SFCLNCIRKWRQATQFESKTSKSCPFCRVPSSFVNP 225 (344)
T ss_pred cccccceehhhhccccc-hh----hhhcccCCCcch-----hhhhcHhHhhhhhhccccccccCCCcccCccccccc
Confidence 45889999999875421 00 000113335764 455789999997776 6899999987655443
No 66
>KOG1002 consensus Nucleotide excision repair protein RAD16 [Replication, recombination and repair]
Probab=51.62 E-value=8.5 Score=41.94 Aligned_cols=53 Identities=23% Similarity=0.525 Sum_probs=38.9
Q ss_pred cCCCCCCceeEcccCCcccccccccccCCCccccccccCcCccccccHHHHHHHHHH---hCCccccccccccc
Q 017863 235 ENPDGERVCRICHLGSEQLLETTATASTTVNLIQLGCGCKDELGVAHSDCAEAWFKL---KGNRLCEICGQSAK 305 (365)
Q Consensus 235 es~e~E~~CRICh~~~e~~~e~~~~~~~s~~LI~lPC~CKGSLkyVH~~CLe~W~k~---Kgn~~CEICk~~y~ 305 (365)
+...++..|-+||+..+ +.|+.-|+. ..-+-|+..++.. ..+.+|+.|+-...
T Consensus 531 ~enk~~~~C~lc~d~ae-------------d~i~s~ChH-----~FCrlCi~eyv~~f~~~~nvtCP~C~i~Ls 586 (791)
T KOG1002|consen 531 DENKGEVECGLCHDPAE-------------DYIESSCHH-----KFCRLCIKEYVESFMENNNVTCPVCHIGLS 586 (791)
T ss_pred ccccCceeecccCChhh-------------hhHhhhhhH-----HHHHHHHHHHHHhhhcccCCCCcccccccc
Confidence 34567899999998864 357767775 4668899888653 45689999997653
No 67
>PLN02400 cellulose synthase
Probab=50.32 E-value=9.5 Score=44.19 Aligned_cols=58 Identities=19% Similarity=0.440 Sum_probs=39.4
Q ss_pred CCCceeEcccCCcccccccccccCCCccccccccCcCcccc-ccHHHHHHHHHHhCCccccccccccccccc
Q 017863 239 GERVCRICHLGSEQLLETTATASTTVNLIQLGCGCKDELGV-AHSDCAEAWFKLKGNRLCEICGQSAKNITG 309 (365)
Q Consensus 239 ~E~~CRICh~~~e~~~e~~~~~~~s~~LI~lPC~CKGSLky-VH~~CLe~W~k~Kgn~~CEICk~~y~nV~~ 309 (365)
...+|+||-+..+.. ..++++. -|.=- +| |=+.|.+ .=..-|+..|+.||.+|+-..+
T Consensus 35 ~gqiCqICGD~VG~t--------~dGe~FV-AC~eC---aFPVCRpCYE-YERkeGnq~CPQCkTrYkR~Kg 93 (1085)
T PLN02400 35 NGQICQICGDDVGVT--------ETGDVFV-ACNEC---AFPVCRPCYE-YERKDGTQCCPQCKTRYRRHKG 93 (1085)
T ss_pred CCceeeecccccCcC--------CCCCEEE-EEccC---CCccccchhh-eecccCCccCcccCCccccccC
Confidence 356999998877642 3566776 56421 23 7788874 2233478999999999985544
No 68
>KOG1941 consensus Acetylcholine receptor-associated protein of the synapse (rapsyn) [Extracellular structures]
Probab=48.79 E-value=8.2 Score=40.62 Aligned_cols=51 Identities=24% Similarity=0.480 Sum_probs=40.6
Q ss_pred CCCceeEcccCCcccccccccccCCCccccccccCcCccccccHHHHHHHHHHhCCccccccccc
Q 017863 239 GERVCRICHLGSEQLLETTATASTTVNLIQLGCGCKDELGVAHSDCAEAWFKLKGNRLCEICGQS 303 (365)
Q Consensus 239 ~E~~CRICh~~~e~~~e~~~~~~~s~~LI~lPC~CKGSLkyVH~~CLe~W~k~Kgn~~CEICk~~ 303 (365)
-+-.|-.|-+.-+. ..+.|-.+||.. ..|..||...+...+++.||-|..-
T Consensus 364 ~~L~Cg~CGe~~Gl---------k~e~LqALpCsH-----IfH~rCl~e~L~~n~~rsCP~Crkl 414 (518)
T KOG1941|consen 364 TELYCGLCGESIGL---------KNERLQALPCSH-----IFHLRCLQEILENNGTRSCPNCRKL 414 (518)
T ss_pred HhhhhhhhhhhhcC---------CcccccccchhH-----HHHHHHHHHHHHhCCCCCCccHHHH
Confidence 35688888766543 235566789986 9999999999988999999999943
No 69
>PF05290 Baculo_IE-1: Baculovirus immediate-early protein (IE-0); InterPro: IPR007954 This entry contains the Baculovirus immediate-early protein IE-0.
Probab=45.13 E-value=17 Score=33.12 Aligned_cols=56 Identities=20% Similarity=0.376 Sum_probs=40.7
Q ss_pred CCCceeEcccCCcccccccccccCCCccccccccCcCccccccHHHHHHHHHHhCCccccccccccccc
Q 017863 239 GERVCRICHLGSEQLLETTATASTTVNLIQLGCGCKDELGVAHSDCAEAWFKLKGNRLCEICGQSAKNI 307 (365)
Q Consensus 239 ~E~~CRICh~~~e~~~e~~~~~~~s~~LI~lPC~CKGSLkyVH~~CLe~W~k~Kgn~~CEICk~~y~nV 307 (365)
.--.|-||++...+ ...+. |=.|-| -+.---=|+.-|--..-...|++|+..|+..
T Consensus 79 ~lYeCnIC~etS~e-----------e~FLK-PneCCg-Y~iCn~Cya~LWK~~~~ypvCPvCkTSFKss 134 (140)
T PF05290_consen 79 KLYECNICKETSAE-----------ERFLK-PNECCG-YSICNACYANLWKFCNLYPVCPVCKTSFKSS 134 (140)
T ss_pred CceeccCcccccch-----------hhcCC-cccccc-hHHHHHHHHHHHHHcccCCCCCccccccccc
Confidence 34579999998642 34455 878877 2334556788898777788999999999743
No 70
>PF07800 DUF1644: Protein of unknown function (DUF1644); InterPro: IPR012866 This family consists of sequences found in a number of hypothetical plant proteins of unknown function. The region of interest contains nine highly conserved cysteine residues and is approximately 160 amino acids in length, which probably represent a zinc-binding domain.
Probab=44.98 E-value=24 Score=32.81 Aligned_cols=40 Identities=28% Similarity=0.625 Sum_probs=26.0
Q ss_pred CCceeEcccCCcccccccccccCCCcccc-----cccc---CcCccccccHHHHHHHHHHh
Q 017863 240 ERVCRICHLGSEQLLETTATASTTVNLIQ-----LGCG---CKDELGVAHSDCAEAWFKLK 292 (365)
Q Consensus 240 E~~CRICh~~~e~~~e~~~~~~~s~~LI~-----lPC~---CKGSLkyVH~~CLe~W~k~K 292 (365)
+..|-||++---. ..||. .+|+ |.. .|-|..||++..+..
T Consensus 2 d~~CpICme~PHN-----------AVLLlCSS~~kgcRpymc~T--s~rhSNCLdqfkka~ 49 (162)
T PF07800_consen 2 DVTCPICMEHPHN-----------AVLLLCSSHEKGCRPYMCDT--SYRHSNCLDQFKKAY 49 (162)
T ss_pred CccCceeccCCCc-----------eEEEEeccccCCccccccCC--ccchhHHHHHHHHHh
Confidence 5679999876431 22332 2333 544 589999999998753
No 71
>PF09889 DUF2116: Uncharacterized protein containing a Zn-ribbon (DUF2116); InterPro: IPR019216 This entry contains various hypothetical prokaryotic proteins whose functions are unknown. They contain a conserved zinc ribbon motif in the N-terminal part and a predicted transmembrane segment in the C-terminal part.
Probab=42.04 E-value=22 Score=27.88 Aligned_cols=10 Identities=30% Similarity=1.135 Sum_probs=7.9
Q ss_pred cccccccccc
Q 017863 295 RLCEICGQSA 304 (365)
Q Consensus 295 ~~CEICk~~y 304 (365)
+.|.+||...
T Consensus 4 kHC~~CG~~I 13 (59)
T PF09889_consen 4 KHCPVCGKPI 13 (59)
T ss_pred CcCCcCCCcC
Confidence 6799999664
No 72
>PLN02915 cellulose synthase A [UDP-forming], catalytic subunit
Probab=41.65 E-value=18 Score=41.90 Aligned_cols=57 Identities=21% Similarity=0.437 Sum_probs=39.5
Q ss_pred CCCceeEcccCCcccccccccccCCCccccccccCcCcccc-ccHHHHHHHHHHhCCcccccccccccccc
Q 017863 239 GERVCRICHLGSEQLLETTATASTTVNLIQLGCGCKDELGV-AHSDCAEAWFKLKGNRLCEICGQSAKNIT 308 (365)
Q Consensus 239 ~E~~CRICh~~~e~~~e~~~~~~~s~~LI~lPC~CKGSLky-VH~~CLe~W~k~Kgn~~CEICk~~y~nV~ 308 (365)
+..+|.||-+..+.. ..++++. -|+=- +| |-+.|.+ .=..-|+..|+.||++|+-..
T Consensus 14 ~~~~c~iCGd~vg~~--------~~Ge~FV-AC~eC---~fpvCr~cye-ye~~~g~~~cp~c~t~y~~~~ 71 (1044)
T PLN02915 14 DAKTCRVCGDEVGVK--------EDGQPFV-ACHVC---GFPVCKPCYE-YERSEGNQCCPQCNTRYKRHK 71 (1044)
T ss_pred CcchhhccccccCcC--------CCCCEEE-EeccC---CCccccchhh-hhhhcCCccCCccCCchhhhc
Confidence 567999998876642 3466776 56421 24 7788984 333457899999999998544
No 73
>PF01440 Gemini_AL2: Geminivirus AL2 protein; InterPro: IPR000942 Geminiviruses are characterised by a genome of circular single-stranded DNA encapsidated in twinned (geminate) quasi-isometric particles, from which the group derives its name []. Most geminiviruses can be divided into two subgroups on the basis of host range and/or insect vector: i.e. those that infect dicotyledenous plants and are transmitted by the same whitefly species, and those that infect monocotyledenous plants and are transmitted by different leafhopper vectors. The genomes of the whitefly-transmitted African cassava mosaic virus, Tomato golden mosaic virus (TGMV) and Bean golden mosaic virus (BGMV) possess a bipartite genome. By contrast, only a single DNA component has been identified for the leafhopper-transmitted Maize streak virus (MSV) and Wheat dwarf virus (WDV) [, ]. Beet curly top virus (BCTV), and Tobacco yellow dwarf virus belong to a third possible subgroup. Like MSV and WDV, BCTV is transmitted by a specific leafhopper species, yet like the whitefly-transmitted geminiviruses it has a host range confined to dicotyledenous plants. Sequence comparison of the whitefly-transmitted Squash leaf curl virus (SqLCV) and Tomato yellow leaf curl virus (TYLCV) with the genomic components of TGMV and BGMV reveals a close evolutionary relationship [, , ]. Amino acid sequence alignments of Potato yellow mosaic virus (PYMV) proteins with those encoded by other geminiviruses show that PYMV is closely related to geminiviruses isolated from the New World, especially in the putative coat protein gene regions []. Comparison of MSV DNA-encoded proteins with those of other geminiviruses infecting monocotyledonous plants, including Panicum streak virus [] and Miscanthus streak virus (MiSV) [], reveal high levels of similarity.; GO: 0005198 structural molecule activity, 0019028 viral capsid
Probab=40.17 E-value=4.8 Score=36.21 Aligned_cols=34 Identities=29% Similarity=0.639 Sum_probs=28.6
Q ss_pred ccccccccCcCccccccHHHHHHHHHHhCCccccccc
Q 017863 265 NLIQLGCGCKDELGVAHSDCAEAWFKLKGNRLCEICG 301 (365)
Q Consensus 265 ~LI~lPC~CKGSLkyVH~~CLe~W~k~Kgn~~CEICk 301 (365)
.-|.|||.|. -|+|..|....|..+|+-.|---.
T Consensus 31 RRIDL~CGCS---yyihinC~~hGFTHRGthhCsS~~ 64 (134)
T PF01440_consen 31 RRIDLPCGCS---YYIHINCHNHGFTHRGTHHCSSSR 64 (134)
T ss_pred CccccCCCCE---EEeecccCCCCcCCCcCccCCCcC
Confidence 4578899997 589999999999999988876544
No 74
>KOG3899 consensus Uncharacterized conserved protein [Function unknown]
Probab=37.71 E-value=21 Score=36.43 Aligned_cols=34 Identities=21% Similarity=0.494 Sum_probs=26.3
Q ss_pred cccCcCccccccHHHHHHHHHHh-----------CCcccccccccccc
Q 017863 270 GCGCKDELGVAHSDCAEAWFKLK-----------GNRLCEICGQSAKN 306 (365)
Q Consensus 270 PC~CKGSLkyVH~~CLe~W~k~K-----------gn~~CEICk~~y~n 306 (365)
-|-|+- .--+.||-+||.-+ ++.+|+.|+..|-.
T Consensus 322 nc~crp---~wc~~cla~~f~~rq~~v~r~~~~~~~~~cp~cr~~fci 366 (381)
T KOG3899|consen 322 NCICRP---LWCRSCLAQIFIGRQDNVYRYEYHRGSAQCPTCRKNFCI 366 (381)
T ss_pred cccccc---HHHHHHHHHHHhhcccchhHHHHHhcCCCCcchhhceEE
Confidence 456764 56689999999754 56799999999853
No 75
>KOG0287 consensus Postreplication repair protein RAD18 [Replication, recombination and repair]
Probab=33.54 E-value=17 Score=37.85 Aligned_cols=47 Identities=21% Similarity=0.427 Sum_probs=33.9
Q ss_pred CCCceeEcccCCcccccccccccCCCccccccccCcCccccccHHHHHHHHHHhCCccccccccccc
Q 017863 239 GERVCRICHLGSEQLLETTATASTTVNLIQLGCGCKDELGVAHSDCAEAWFKLKGNRLCEICGQSAK 305 (365)
Q Consensus 239 ~E~~CRICh~~~e~~~e~~~~~~~s~~LI~lPC~CKGSLkyVH~~CLe~W~k~Kgn~~CEICk~~y~ 305 (365)
+--.|-|||+-.. -++|. ||.. -+-.-|++..+..+ ..|+.|..+|+
T Consensus 22 ~lLRC~IC~eyf~------------ip~it-pCsH-----tfCSlCIR~~L~~~--p~CP~C~~~~~ 68 (442)
T KOG0287|consen 22 DLLRCGICFEYFN------------IPMIT-PCSH-----TFCSLCIRKFLSYK--PQCPTCCVTVT 68 (442)
T ss_pred HHHHHhHHHHHhc------------Cceec-cccc-----hHHHHHHHHHhccC--CCCCceecccc
Confidence 3457999998764 33454 9764 34567888888555 56999999985
No 76
>KOG0956 consensus PHD finger protein AF10 [General function prediction only]
Probab=33.40 E-value=23 Score=39.80 Aligned_cols=59 Identities=15% Similarity=0.279 Sum_probs=38.8
Q ss_pred CCceeEcccCCcccccccccccCCCccccccccCcCccccccHHHHHHHHH---H-----hCCcccccccccccc
Q 017863 240 ERVCRICHLGSEQLLETTATASTTVNLIQLGCGCKDELGVAHSDCAEAWFK---L-----KGNRLCEICGQSAKN 306 (365)
Q Consensus 240 E~~CRICh~~~e~~~e~~~~~~~s~~LI~lPC~CKGSLkyVH~~CLe~W~k---~-----Kgn~~CEICk~~y~n 306 (365)
-+.|.||.+...+. + ...+--+ -|.=.|--+.+|..|+++-=. + ..-++|--|+|-|.-
T Consensus 117 nKtCYIC~E~Grpn-k-----A~~GACM--tCNKs~CkqaFHVTCAQ~~GLLCEE~gn~~dNVKYCGYCk~HfsK 183 (900)
T KOG0956|consen 117 NKTCYICNEEGRPN-K-----AAKGACM--TCNKSGCKQAFHVTCAQRAGLLCEEEGNISDNVKYCGYCKYHFSK 183 (900)
T ss_pred cceeeeecccCCcc-c-----cccccce--ecccccchhhhhhhHhhhhccceeccccccccceechhHHHHHHH
Confidence 57999999886542 1 1223223 476556567999999986521 1 224799999999853
No 77
>PF13894 zf-C2H2_4: C2H2-type zinc finger; PDB: 2ELX_A 2EPP_A 2DLK_A 1X6H_A 2EOU_A 2EMB_A 2GQJ_A 2CSH_A 2WBT_B 2ELM_A ....
Probab=33.28 E-value=18 Score=21.10 Aligned_cols=11 Identities=45% Similarity=1.105 Sum_probs=7.5
Q ss_pred ccccccccccc
Q 017863 296 LCEICGQSAKN 306 (365)
Q Consensus 296 ~CEICk~~y~n 306 (365)
.|++|+..|..
T Consensus 2 ~C~~C~~~~~~ 12 (24)
T PF13894_consen 2 QCPICGKSFRS 12 (24)
T ss_dssp E-SSTS-EESS
T ss_pred CCcCCCCcCCc
Confidence 59999999964
No 78
>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 KOG1973 consensus Chromatin remodeling protein, contains PHD Zn-finger [Chromatin structure and dynamics]
Probab=29.44 E-value=15 Score=35.84 Aligned_cols=37 Identities=24% Similarity=0.373 Sum_probs=28.8
Q ss_pred ccccccCcCcc-ccccHHHHHHHHHHhCCcccccccccc
Q 017863 267 IQLGCGCKDEL-GVAHSDCAEAWFKLKGNRLCEICGQSA 304 (365)
Q Consensus 267 I~lPC~CKGSL-kyVH~~CLe~W~k~Kgn~~CEICk~~y 304 (365)
+. .|.|.+-- .|+|..|.=-=..-+|.+.|+-|...-
T Consensus 232 Mi-~CDn~~C~~eWFH~~CVGL~~~PkgkWyC~~C~~~~ 269 (274)
T KOG1973|consen 232 MI-GCDNPGCPIEWFHFTCVGLKTKPKGKWYCPRCKAEN 269 (274)
T ss_pred cc-ccCCCCCCcceEEEeccccccCCCCcccchhhhhhh
Confidence 44 69998876 999999965444457889999998764
No 80
>PF10571 UPF0547: Uncharacterised protein family UPF0547; InterPro: IPR018886 This domain may well be a type of zinc-finger as it carries two pairs of highly conserved cysteine residues though with no accompanying histidines. Several members are annotated as putative helicases.
Probab=29.27 E-value=25 Score=23.28 Aligned_cols=13 Identities=23% Similarity=0.754 Sum_probs=10.6
Q ss_pred CCccccccccccc
Q 017863 293 GNRLCEICGQSAK 305 (365)
Q Consensus 293 gn~~CEICk~~y~ 305 (365)
..+.|+.|||.|.
T Consensus 13 ~~~~Cp~CG~~F~ 25 (26)
T PF10571_consen 13 SAKFCPHCGYDFE 25 (26)
T ss_pred hcCcCCCCCCCCc
Confidence 4578999999984
No 81
>KOG0802 consensus E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=28.49 E-value=29 Score=36.77 Aligned_cols=47 Identities=26% Similarity=0.661 Sum_probs=34.1
Q ss_pred cCCCCCCceeEcccCCcccccccccccCCCccccccccCcCccccccHHHHHHHHHHhCCccccccccccc
Q 017863 235 ENPDGERVCRICHLGSEQLLETTATASTTVNLIQLGCGCKDELGVAHSDCAEAWFKLKGNRLCEICGQSAK 305 (365)
Q Consensus 235 es~e~E~~CRICh~~~e~~~e~~~~~~~s~~LI~lPC~CKGSLkyVH~~CLe~W~k~Kgn~~CEICk~~y~ 305 (365)
+..+.+..||||.... . . -+. ||. |..|+..|...+ ..|+.|+....
T Consensus 474 ~l~~~~~~~~~~~~~~-~-----------~-~~~-~~~--------~~~~l~~~~~~~--~~~pl~~~~~~ 520 (543)
T KOG0802|consen 474 QLREPNDVCAICYQEM-S-----------A-RIT-PCS--------HALCLRKWLYVQ--EVCPLCHTYMK 520 (543)
T ss_pred hhhcccCcchHHHHHH-H-----------h-ccc-ccc--------chhHHHhhhhhc--cccCCCchhhh
Confidence 3445678999998876 2 1 122 565 999999999876 45999987764
No 82
>PF04641 Rtf2: Rtf2 RING-finger
Probab=28.02 E-value=46 Score=31.98 Aligned_cols=52 Identities=19% Similarity=0.536 Sum_probs=32.3
Q ss_pred CCCCceeEcccCCcccccccccccCCCccccccccCcCccccccHHHHHHHHHHhCCcccccccccccc
Q 017863 238 DGERVCRICHLGSEQLLETTATASTTVNLIQLGCGCKDELGVAHSDCAEAWFKLKGNRLCEICGQSAKN 306 (365)
Q Consensus 238 e~E~~CRICh~~~e~~~e~~~~~~~s~~LI~lPC~CKGSLkyVH~~CLe~W~k~Kgn~~CEICk~~y~n 306 (365)
...-+|-|+...... ...-..|. ||.| -+-..+|+.- +....|++|+..|..
T Consensus 111 ~~~~~CPvt~~~~~~--------~~~fv~l~-~cG~-----V~s~~alke~---k~~~~Cp~c~~~f~~ 162 (260)
T PF04641_consen 111 EGRFICPVTGKEFNG--------KHKFVYLR-PCGC-----VFSEKALKEL---KKSKKCPVCGKPFTE 162 (260)
T ss_pred CceeECCCCCcccCC--------ceeEEEEc-CCCC-----EeeHHHHHhh---cccccccccCCcccc
Confidence 344566666655531 01122344 9999 6677777665 345679999999974
No 83
>KOG4443 consensus Putative transcription factor HALR/MLL3, involved in embryonic development [General function prediction only]
Probab=26.79 E-value=33 Score=38.12 Aligned_cols=30 Identities=30% Similarity=0.738 Sum_probs=24.4
Q ss_pred cccCcCccccccHHHHHHHHHHh---------CCccccccc
Q 017863 270 GCGCKDELGVAHSDCAEAWFKLK---------GNRLCEICG 301 (365)
Q Consensus 270 PC~CKGSLkyVH~~CLe~W~k~K---------gn~~CEICk 301 (365)
-|+|.| ++.|..|+..|+... ..+.||-|+
T Consensus 37 ac~~c~--~~yH~~cvt~~~~~~~l~~gWrC~~crvCe~c~ 75 (694)
T KOG4443|consen 37 ACSDCG--QKYHPYCVTSWAQHAVLSGGWRCPSCRVCEACG 75 (694)
T ss_pred hhhhhc--ccCCcchhhHHHhHHHhcCCcccCCceeeeecc
Confidence 488887 689999999999765 247888888
No 84
>KOG0824 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=23.82 E-value=57 Score=33.31 Aligned_cols=42 Identities=26% Similarity=0.590 Sum_probs=27.7
Q ss_pred CCceeEcccCCcccccccccccCCCccccccccCcCccccccHHHHHHHHHHhC-----Cccccccccccc
Q 017863 240 ERVCRICHLGSEQLLETTATASTTVNLIQLGCGCKDELGVAHSDCAEAWFKLKG-----NRLCEICGQSAK 305 (365)
Q Consensus 240 E~~CRICh~~~e~~~e~~~~~~~s~~LI~lPC~CKGSLkyVH~~CLe~W~k~Kg-----n~~CEICk~~y~ 305 (365)
.+.|-|||.+.- -+..+||. |+-|- +=+|| .+.|.+|..++.
T Consensus 7 ~~eC~IC~nt~n-------------~Pv~l~C~--------HkFCy---iCiKGsy~ndk~~CavCR~pid 53 (324)
T KOG0824|consen 7 KKECLICYNTGN-------------CPVNLYCF--------HKFCY---ICIKGSYKNDKKTCAVCRFPID 53 (324)
T ss_pred CCcceeeeccCC-------------cCcccccc--------chhhh---hhhcchhhcCCCCCceecCCCC
Confidence 467999998753 13556664 66663 22333 467999999874
No 85
>COG5236 Uncharacterized conserved protein, contains RING Zn-finger [General function prediction only]
Probab=23.35 E-value=1e+02 Score=32.47 Aligned_cols=54 Identities=19% Similarity=0.430 Sum_probs=37.2
Q ss_pred CCCCCCceeEcccCCcccccccccccCCCccccccccCcCccccccHHHHHHHHHHhCCccccccccccccc
Q 017863 236 NPDGERVCRICHLGSEQLLETTATASTTVNLIQLGCGCKDELGVAHSDCAEAWFKLKGNRLCEICGQSAKNI 307 (365)
Q Consensus 236 s~e~E~~CRICh~~~e~~~e~~~~~~~s~~LI~lPC~CKGSLkyVH~~CLe~W~k~Kgn~~CEICk~~y~nV 307 (365)
..+++..|-||-.+..- . -.+||.-+ +-.-|+-+-...-..+.|.+|+.+...|
T Consensus 57 tDEen~~C~ICA~~~TY-----------s--~~~PC~H~-----~CH~Ca~RlRALY~~K~C~~CrTE~e~V 110 (493)
T COG5236 57 TDEENMNCQICAGSTTY-----------S--ARYPCGHQ-----ICHACAVRLRALYMQKGCPLCRTETEAV 110 (493)
T ss_pred cccccceeEEecCCceE-----------E--EeccCCch-----HHHHHHHHHHHHHhccCCCccccccceE
Confidence 34567899999887532 1 24699863 3345776666666778899999987544
No 86
>PF00096 zf-C2H2: Zinc finger, C2H2 type; InterPro: IPR007087 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 C2H2 zinc finger is the classical zinc finger domain. The two conserved cysteines and histidines co-ordinate a zinc ion. The following pattern describes the zinc finger: #-X-C-X(1-5)-C-X3-#-X5-#-X2-H-X(3-6)-[H/C], where X can be any amino acid, and numbers in brackets indicate the number of residues. The positions marked # are those that are important for the stable fold of the zinc finger. The final position can be either his or cys. The C2H2 zinc finger is composed of two short beta strands followed by an alpha helix. The amino terminal part of the helix binds the major groove in DNA binding zinc fingers. The accepted consensus binding sequence for Sp1 is usually defined by the asymmetric hexanucleotide core GGGCGG but this sequence does not include, among others, the GAG (=CTC) repeat that constitutes a high-affinity site for Sp1 binding to the wt1 promoter []. This entry represents the classical C2H2 zinc finger domain. More information about these proteins can be found at Protein of the Month: Zinc Fingers [].; GO: 0008270 zinc ion binding, 0005622 intracellular; PDB: 2D9H_A 2EPC_A 1SP1_A 1VA3_A 2WBT_B 2ELR_A 2YTP_A 2YTT_A 1VA1_A 2ELO_A ....
Probab=23.11 E-value=33 Score=20.59 Aligned_cols=11 Identities=45% Similarity=1.011 Sum_probs=9.3
Q ss_pred ccccccccccc
Q 017863 296 LCEICGQSAKN 306 (365)
Q Consensus 296 ~CEICk~~y~n 306 (365)
.|++|+..|..
T Consensus 2 ~C~~C~~~f~~ 12 (23)
T PF00096_consen 2 KCPICGKSFSS 12 (23)
T ss_dssp EETTTTEEESS
T ss_pred CCCCCCCccCC
Confidence 59999999963
No 87
>PF06305 DUF1049: Protein of unknown function (DUF1049); InterPro: IPR010445 This entry consists of several hypothetical bacterial proteins of unknown function.
Probab=22.99 E-value=59 Score=24.45 Aligned_cols=22 Identities=14% Similarity=0.566 Sum_probs=17.3
Q ss_pred cchHHHHHHHHHHHHHhhheee
Q 017863 340 QPFCNFLMACLVIAFVLPWFFR 361 (365)
Q Consensus 340 ~~fcNFLLAcmViAFVi~WlF~ 361 (365)
-|+..++++++++++++.|++.
T Consensus 18 ~pl~l~il~~f~~G~llg~l~~ 39 (68)
T PF06305_consen 18 LPLGLLILIAFLLGALLGWLLS 39 (68)
T ss_pred chHHHHHHHHHHHHHHHHHHHH
Confidence 3666777888889999998864
No 88
>PF09607 BrkDBD: Brinker DNA-binding domain; InterPro: IPR018586 This DNA-binding domain is the first approx. 100 residues of the N-terminal end of Brinker. The structure of this domain in complex with DNA consists of four alpha-helices that contain a helix-turn-helix DNA recognition motif specific for GC-rich DNA. The Brinker nuclear repressor is a major element of the Drosophila Decapentaplegic morphogen signalling pathway []. ; PDB: 2GLO_A.
Probab=22.15 E-value=45 Score=26.29 Aligned_cols=13 Identities=15% Similarity=0.281 Sum_probs=10.4
Q ss_pred ccHHHHHHHHHHh
Q 017863 280 AHSDCAEAWFKLK 292 (365)
Q Consensus 280 VH~~CLe~W~k~K 292 (365)
||+.|.++|++.+
T Consensus 37 V~r~~Vr~W~kqe 49 (58)
T PF09607_consen 37 VSRRQVRKWRKQE 49 (58)
T ss_dssp S-HHHHHHHHTTH
T ss_pred ccHHHHHHHHHHH
Confidence 7999999999764
No 89
>PF08113 CoxIIa: Cytochrome c oxidase subunit IIa family; InterPro: IPR012538 This family consists of the cytochrome c oxidase subunit IIa family. The bax-type cytochrome c oxidase from Thermus thermophilus is known as a two subunit enzyme. From its crystal structure, it was discovered that an additional transmembrane helix, subunit IIa, spans the membrane. This subunit consists of 34 residues forming one helix across the membrane. The presence of this subunit seems to be important for the function of cytochrome c oxidases [].; PDB: 2QPD_C 3QJR_C 3EH5_C 3BVD_C 3S39_C 3QJU_C 3QJS_C 4EV3_C 3QJT_C 4FA7_C ....
Probab=20.38 E-value=33 Score=24.54 Aligned_cols=17 Identities=24% Similarity=0.475 Sum_probs=10.7
Q ss_pred HHHHHHHhhheeeeccC
Q 017863 349 CLVIAFVLPWFFRVNMF 365 (365)
Q Consensus 349 cmViAFVi~WlF~f~vf 365 (365)
-+....++.||.+|.+|
T Consensus 14 iLt~~ILvFWfgvf~~f 30 (34)
T PF08113_consen 14 ILTAFILVFWFGVFALF 30 (34)
T ss_dssp HHHHHHHHHHHHHHHHH
T ss_pred HHHHHHHHHHHHHHHhh
Confidence 33344556788888765
Done!