Query 006039
Match_columns 663
No_of_seqs 251 out of 1830
Neff 4.5
Searched_HMMs 46136
Date Thu Mar 28 17:28:31 2013
Command hhsearch -i /work/01045/syshi/csienesis_hhblits_a3m/006039.a3m -d /work/01045/syshi/HHdatabase/Cdd.hhm -o /work/01045/syshi/hhsearch_cdd/006039hhsearch_cdd -cpu 12 -v 0
No Hit Prob E-value P-value Score SS Cols Query HMM Template HMM
1 KOG2231 Predicted E3 ubiquitin 100.0 1.3E-37 2.8E-42 348.6 6.8 480 5-607 170-669 (669)
2 COG5236 Uncharacterized conser 99.8 2.5E-21 5.3E-26 202.4 2.4 108 20-127 216-325 (493)
3 KOG2462 C2H2-type Zn-finger pr 98.7 1E-08 2.3E-13 106.2 3.5 73 26-111 163-241 (279)
4 KOG2462 C2H2-type Zn-finger pr 98.6 1.9E-08 4.2E-13 104.3 1.4 68 26-106 189-264 (279)
5 KOG3576 Ovo and related transc 98.3 6.6E-08 1.4E-12 97.0 -1.1 74 25-111 118-199 (267)
6 KOG3576 Ovo and related transc 98.3 1E-07 2.3E-12 95.6 -0.3 73 26-111 147-238 (267)
7 KOG3623 Homeobox transcription 98.3 8.7E-08 1.9E-12 109.1 -1.2 71 23-106 893-971 (1007)
8 KOG3623 Homeobox transcription 98.1 4.8E-07 1E-11 103.2 -1.1 83 18-113 204-309 (1007)
9 KOG1074 Transcriptional repres 98.0 3.4E-06 7.3E-11 97.8 2.6 80 25-117 606-700 (958)
10 PHA00733 hypothetical protein 97.9 4.4E-06 9.5E-11 78.6 1.5 73 26-111 42-125 (128)
11 KOG3608 Zn finger proteins [Ge 97.9 5.5E-06 1.2E-10 88.8 1.8 76 23-109 262-345 (467)
12 KOG3608 Zn finger proteins [Ge 97.7 4.9E-06 1.1E-10 89.1 -1.0 74 23-109 236-316 (467)
13 KOG2893 Zn finger protein [Gen 97.4 3.8E-05 8.2E-10 79.0 0.4 34 24-57 10-43 (341)
14 PHA00733 hypothetical protein 97.4 0.00011 2.4E-09 69.2 2.8 53 24-83 73-127 (128)
15 PHA02768 hypothetical protein; 97.3 0.00012 2.6E-09 60.0 2.2 39 26-71 7-47 (55)
16 PF12756 zf-C2H2_2: C2H2 type 97.3 0.0001 2.2E-09 63.4 1.2 72 26-110 1-75 (100)
17 KOG1074 Transcriptional repres 97.2 0.00015 3.2E-09 84.7 1.9 50 20-77 350-403 (958)
18 PLN03086 PRLI-interacting fact 96.9 0.0008 1.7E-08 77.0 4.3 74 19-108 448-537 (567)
19 KOG3993 Transcription factor ( 96.6 0.00027 5.8E-09 77.6 -2.1 79 21-112 264-383 (500)
20 PHA00732 hypothetical protein 96.1 0.0047 1E-07 54.0 3.0 43 25-77 2-46 (79)
21 PHA02768 hypothetical protein; 95.8 0.0029 6.3E-08 52.0 0.6 43 48-103 5-49 (55)
22 PLN03086 PRLI-interacting fact 95.8 0.0055 1.2E-07 70.4 2.7 77 25-110 479-565 (567)
23 KOG2231 Predicted E3 ubiquitin 95.6 0.0059 1.3E-07 71.1 2.0 70 32-110 157-237 (669)
24 PF05605 zf-Di19: Drought indu 95.5 0.0075 1.6E-07 48.5 1.7 32 25-57 3-40 (54)
25 PHA00732 hypothetical protein 94.6 0.021 4.6E-07 50.0 2.1 44 48-107 1-46 (79)
26 COG5189 SFP1 Putative transcri 93.8 0.043 9.4E-07 59.0 2.9 48 46-106 347-419 (423)
27 COG5189 SFP1 Putative transcri 93.2 0.039 8.5E-07 59.4 1.4 45 25-76 350-419 (423)
28 PHA00616 hypothetical protein 93.1 0.031 6.7E-07 44.2 0.4 21 25-45 2-22 (44)
29 PHA00616 hypothetical protein 92.9 0.027 5.9E-07 44.5 -0.1 28 79-112 1-28 (44)
30 PF13465 zf-H2C2_2: Zinc-finge 92.9 0.036 7.8E-07 38.6 0.5 18 40-57 2-23 (26)
31 PF00096 zf-C2H2: Zinc finger, 92.5 0.042 9E-07 36.3 0.3 20 26-45 2-21 (23)
32 PF05605 zf-Di19: Drought indu 92.4 0.055 1.2E-06 43.5 0.9 47 48-110 2-54 (54)
33 KOG2482 Predicted C2H2-type Zn 91.1 0.079 1.7E-06 57.5 0.7 21 25-45 196-216 (423)
34 KOG3993 Transcription factor ( 91.1 0.055 1.2E-06 60.1 -0.5 47 24-77 295-378 (500)
35 PF13894 zf-C2H2_4: C2H2-type 90.1 0.13 2.8E-06 33.4 0.8 20 26-45 2-21 (24)
36 PF13894 zf-C2H2_4: C2H2-type 89.3 0.13 2.9E-06 33.3 0.3 24 80-109 1-24 (24)
37 PF00096 zf-C2H2: Zinc finger, 89.2 0.12 2.5E-06 34.2 0.0 22 80-107 1-22 (23)
38 PF13912 zf-C2H2_6: C2H2-type 88.6 0.18 3.8E-06 34.6 0.6 26 79-110 1-26 (27)
39 COG5602 SIN3 Histone deacetyla 88.6 2.9 6.2E-05 50.6 10.7 61 397-457 274-336 (1163)
40 PF13912 zf-C2H2_6: C2H2-type 87.3 0.22 4.7E-06 34.2 0.4 21 25-45 2-22 (27)
41 smart00355 ZnF_C2H2 zinc finge 86.3 0.47 1E-05 30.8 1.6 20 26-45 2-21 (26)
42 COG5236 Uncharacterized conser 85.3 0.21 4.5E-06 54.5 -0.7 65 36-109 200-275 (493)
43 PF12171 zf-C2H2_jaz: Zinc-fin 84.8 0.54 1.2E-05 32.6 1.4 21 25-45 2-22 (27)
44 PF02671 PAH: Paired amphipath 84.3 3.4 7.4E-05 32.1 5.9 45 410-454 1-47 (47)
45 PF12874 zf-met: Zinc-finger o 83.3 0.44 9.5E-06 32.0 0.4 20 26-45 2-21 (25)
46 COG1198 PriA Primosomal protei 82.5 0.71 1.5E-05 55.1 2.0 60 17-96 428-490 (730)
47 PF12171 zf-C2H2_jaz: Zinc-fin 81.7 0.63 1.4E-05 32.3 0.7 22 49-77 2-23 (27)
48 KOG1146 Homeobox protein [Gene 80.6 0.24 5.3E-06 61.4 -2.7 76 22-112 1258-1355(1406)
49 PF12874 zf-met: Zinc-finger o 78.0 0.49 1.1E-05 31.8 -0.8 21 49-76 1-21 (25)
50 PRK14873 primosome assembly pr 75.9 1.3 2.8E-05 52.5 1.4 58 17-95 376-436 (665)
51 smart00451 ZnF_U1 U1-like zinc 75.0 2 4.3E-05 30.9 1.7 22 24-45 3-24 (35)
52 PF09538 FYDLN_acid: Protein o 74.3 2 4.4E-05 39.9 2.0 26 25-57 10-35 (108)
53 PF13465 zf-H2C2_2: Zinc-finge 74.0 0.98 2.1E-05 31.4 -0.1 18 71-90 6-23 (26)
54 KOG4204 Histone deacetylase co 73.3 22 0.00049 37.1 9.5 70 386-459 17-88 (231)
55 TIGR00595 priA primosomal prot 72.3 2 4.4E-05 49.1 1.8 58 17-94 206-266 (505)
56 smart00355 ZnF_C2H2 zinc finge 71.1 1.5 3.2E-05 28.4 0.2 22 81-108 2-23 (26)
57 PF09237 GAGA: GAGA factor; I 68.8 0.88 1.9E-05 37.4 -1.4 29 78-112 23-51 (54)
58 KOG4173 Alpha-SNAP protein [In 68.4 0.57 1.2E-05 48.1 -3.2 75 24-109 79-170 (253)
59 PF12756 zf-C2H2_2: C2H2 type 67.5 1.4 3E-05 37.8 -0.7 38 34-78 33-73 (100)
60 PF13909 zf-H2C2_5: C2H2-type 67.1 1.9 4.1E-05 28.9 0.1 24 80-110 1-24 (24)
61 KOG4204 Histone deacetylase co 66.7 16 0.00035 38.2 6.8 62 396-457 131-194 (231)
62 PF09237 GAGA: GAGA factor; I 66.3 3.1 6.7E-05 34.3 1.2 31 43-80 18-49 (54)
63 PRK05580 primosome assembly pr 65.8 3.2 6.9E-05 49.2 1.7 58 17-94 374-434 (679)
64 KOG2932 E3 ubiquitin ligase in 65.1 2.8 6.1E-05 45.5 1.0 83 20-111 87-173 (389)
65 smart00531 TFIIE Transcription 64.2 3.4 7.3E-05 39.8 1.2 34 47-90 98-132 (147)
66 PF13913 zf-C2HC_2: zinc-finge 62.6 4.7 0.0001 28.0 1.4 19 26-45 4-22 (25)
67 KOG3408 U1-like Zn-finger-cont 61.1 3.4 7.5E-05 39.4 0.6 23 23-45 56-78 (129)
68 TIGR02300 FYDLN_acid conserved 60.0 5.9 0.00013 38.1 2.0 26 25-57 10-35 (129)
69 KOG2893 Zn finger protein [Gen 59.6 3.4 7.4E-05 43.5 0.4 68 49-129 11-78 (341)
70 KOG1146 Homeobox protein [Gene 58.2 5.2 0.00011 50.4 1.7 68 27-107 439-540 (1406)
71 PRK04860 hypothetical protein; 53.2 6.7 0.00015 38.8 1.2 29 25-57 120-152 (160)
72 PF08044 DUF1707: Domain of un 52.1 35 0.00076 27.9 5.0 47 409-455 5-51 (53)
73 smart00451 ZnF_U1 U1-like zinc 52.1 6.3 0.00014 28.2 0.6 23 48-77 3-25 (35)
74 COG2331 Uncharacterized protei 50.5 6.8 0.00015 34.7 0.7 27 26-56 14-41 (82)
75 PF13821 DUF4187: Domain of un 48.9 9.7 0.00021 31.4 1.3 30 38-74 17-46 (55)
76 PF10581 Synapsin_N: Synapsin 44.3 13 0.00028 27.6 1.2 24 602-625 2-31 (32)
77 PRK06266 transcription initiat 44.1 10 0.00022 38.0 0.9 29 48-90 117-145 (178)
78 TIGR00373 conserved hypothetic 44.1 11 0.00025 36.8 1.2 9 49-57 110-118 (158)
79 PF12013 DUF3505: Protein of u 43.4 5.7 0.00012 36.1 -0.9 74 26-110 13-109 (109)
80 KOG2482 Predicted C2H2-type Zn 42.6 7.6 0.00017 42.8 -0.2 79 17-108 137-218 (423)
81 KOG2785 C2H2-type Zn-finger pr 42.5 14 0.00031 41.2 1.7 73 25-107 167-242 (390)
82 cd00350 rubredoxin_like Rubred 41.7 17 0.00037 26.7 1.6 25 25-57 2-26 (33)
83 PRK00464 nrdR transcriptional 40.5 9.5 0.00021 37.6 0.1 18 48-72 28-45 (154)
84 KOG4173 Alpha-SNAP protein [In 38.0 3.3 7.1E-05 42.8 -3.6 52 21-79 97-170 (253)
85 KOG2593 Transcription initiati 37.5 15 0.00032 41.7 1.0 36 46-90 126-162 (436)
86 KOG1994 Predicted RNA binding 37.4 13 0.00029 38.9 0.6 24 44-74 235-258 (268)
87 TIGR00470 sepS O-phosphoseryl- 36.0 36 0.00078 39.5 3.7 70 399-471 112-193 (533)
88 COG5112 UFD2 U1-like Zn-finger 34.5 13 0.00028 35.0 -0.0 26 23-48 54-79 (126)
89 COG5048 FOG: Zn-finger [Genera 32.6 44 0.00095 34.9 3.5 29 78-110 320-348 (467)
90 KOG2186 Cell growth-regulating 32.0 15 0.00033 39.1 -0.0 43 49-106 4-49 (276)
91 PF08328 ASL_C: Adenylosuccina 30.3 1.1E+02 0.0025 29.1 5.4 53 399-455 59-112 (115)
92 COG5048 FOG: Zn-finger [Genera 29.8 39 0.00084 35.3 2.5 61 23-90 288-362 (467)
93 PF02892 zf-BED: BED zinc fing 29.6 23 0.00049 27.0 0.6 26 22-47 14-43 (45)
94 PF00427 PBS_linker_poly: Phyc 28.9 47 0.001 32.1 2.7 51 416-470 33-99 (131)
95 PF14353 CpXC: CpXC protein 28.8 19 0.00042 33.5 0.1 10 26-35 3-12 (128)
96 PRK06253 O-phosphoseryl-tRNA s 28.8 88 0.0019 36.7 5.3 72 399-470 112-202 (529)
97 PF01286 XPA_N: XPA protein N- 28.3 18 0.00039 27.4 -0.1 26 25-56 4-29 (34)
98 PF06524 NOA36: NOA36 protein; 27.8 34 0.00073 36.8 1.7 75 25-108 143-232 (314)
99 PF09845 DUF2072: Zn-ribbon co 27.1 42 0.00091 32.6 2.0 31 23-64 1-32 (131)
100 COG3677 Transposase and inacti 26.8 30 0.00065 33.1 1.0 10 79-90 53-62 (129)
101 KOG2391 Vacuolar sorting prote 25.9 1.2E+02 0.0026 33.8 5.4 59 383-441 286-344 (365)
102 PF12767 SAGA-Tad1: Transcript 25.5 1.8E+02 0.004 30.3 6.6 56 398-472 14-69 (252)
103 PF11931 DUF3449: Domain of un 25.4 23 0.00051 36.3 0.0 39 43-89 96-135 (196)
104 PF03613 EIID-AGA: PTS system 25.3 99 0.0021 33.1 4.6 37 434-470 24-61 (264)
105 cd07357 HN_L-whirlin_R2_like S 23.0 4.9E+02 0.011 23.6 7.6 59 394-454 3-66 (81)
106 COG5602 SIN3 Histone deacetyla 22.6 3.1E+02 0.0067 34.4 8.3 67 384-454 124-192 (1163)
107 PF04959 ARS2: Arsenite-resist 22.3 22 0.00048 36.8 -0.8 27 46-79 75-101 (214)
108 PRK04860 hypothetical protein; 22.2 37 0.0008 33.7 0.7 35 47-90 118-152 (160)
109 COG1592 Rubrerythrin [Energy p 22.0 49 0.0011 33.2 1.5 9 49-57 135-143 (166)
110 PF15269 zf-C2H2_7: Zinc-finge 21.5 45 0.00098 27.1 0.9 21 25-45 21-41 (54)
111 TIGR03398 plc_access_R phospho 21.2 1.8E+02 0.004 28.3 5.0 42 431-474 90-131 (141)
112 COG1592 Rubrerythrin [Energy p 20.5 48 0.001 33.3 1.1 24 25-57 135-158 (166)
113 COG4530 Uncharacterized protei 20.2 58 0.0013 31.0 1.5 26 25-57 10-35 (129)
114 PRK12727 flagellar biosynthesi 20.2 3.6E+02 0.0078 32.1 8.1 54 397-456 267-321 (559)
115 PF12174 RST: RCD1-SRO-TAF4 (R 20.1 4.4E+02 0.0096 22.8 6.7 47 397-446 13-60 (70)
No 1
>KOG2231 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=100.00 E-value=1.3e-37 Score=348.59 Aligned_cols=480 Identities=27% Similarity=0.341 Sum_probs=301.1
Q ss_pred ccCCCCCCCCcccCCcccCCCcCCCCCCccCCchhHHhhhcCCCccCCCCCCCCCCCccccCCchhhhccccccceecCc
Q 006039 5 TKGDSVVDGTESERGGFMGHPMCEFCRTPFYGDNELYTHMSTEHYTCHICQRQHPGQYEYYKNYDDLEIHFRRDHFLCED 84 (663)
Q Consensus 5 ~~gd~~~~g~~~~~~GfkGHP~C~fC~KrF~d~deL~~HmReKHf~C~iC~k~~~~k~~YF~~~~~LekH~R~khf~Ce~ 84 (663)
..||.|+ .+++|||+|+||..+|++.++|++||+..||.|++|++. +++++||.+|.+|+.|++..||.|++
T Consensus 170 ~~gd~d~-------~s~rGhp~C~~C~~~fld~~el~rH~~~~h~~chfC~~~-~~~neyy~~~~dLe~HfR~~HflCE~ 241 (669)
T KOG2231|consen 170 MFGDPDD-------ESCRGHPLCKFCHERFLDDDELYRHLRFDHEFCHFCDYK-TGQNEYYNDYDDLEEHFRKGHFLCEE 241 (669)
T ss_pred hcCCCcc-------ccccCCccchhhhhhhccHHHHHHhhccceeheeecCcc-cccchhcccchHHHHHhhhcCccccc
Confidence 4577733 469999999999999999999999999999999999985 89999999999999999999999998
Q ss_pred cccCccccccc-ccchhhhcccccccCCCCChhhhhccccccccccccCchhhhhccCCCCCCCCCChhH--HHHHHHHH
Q 006039 85 EACLAKKFVVF-QSEAEMKRHNAIEHGGRMSRAKRNAALQIPICFRYRRNNEQEHRRGRGRTFHRESSDV--NELSMAIQ 161 (663)
Q Consensus 85 ~~C~kkKfVVF-~sesdLk~H~r~HHGek~sr~~r~~a~~i~~~f~yr~~~e~~~r~g~gr~~~r~~~d~--~~~s~ai~ 161 (663)
..|..++|+|| ..+.+|++|.+ ++.+.|.|.+.. .|+|+.....|++... ....+++.
T Consensus 242 ~~C~~~~f~~~~~~ei~lk~~~~----------------~~~~e~~~~~~~---~r~Gr~s~~~r~~~~~~~~~~~~~~~ 302 (669)
T KOG2231|consen 242 EFCRTKKFYVAFELEIELKAHNR----------------FIQHEKCYICRP---SRPGRPSSRYRGPYRRLESHFRVSDE 302 (669)
T ss_pred cccccceeeehhHHHHHHHhhcc----------------ccchheeccCCc---ccCCCCcccccCCccccccccccccc
Confidence 88999999986 89999999972 445556665432 1223222211211110 00011110
Q ss_pred H-hhhhcc--CCCCCCCCCCCCCCccCCCCcccccccccccccccCCCchhhhhHHHHhccCCC-CCCCCCCCCCCCCCC
Q 006039 162 A-SLETVG--ADSTSYDPSSSRSLVSDHGDAEDIDTLIQPFESLATTDSELASRYLQALGQNSR-TAPLEESSFPPLPMA 237 (663)
Q Consensus 162 a-s~era~--~~~sf~~iss~~~~l~~~~~~~el~~li~~~~~lf~~~s~~~~r~a~~~~~~~~-~~~~~~e~FP~Lpg~ 237 (663)
+ ..+.+. ....| -....+...++.+.+++.....+..+++......... ..+.+.+.+|..-+.
T Consensus 303 ~~~~~t~pq~~~~~~------------~~~~~~~s~~~~~~~~~~s~~~~~~~~~~~~~~s~~~~~sr~~~~a~~~~~~~ 370 (669)
T KOG2231|consen 303 ARDGSTAPQGKGNNF------------GSRRDEGSPLAGNRQELPSTANGNPSRFTSPNSSRINAASRQIRKADPAVVGQ 370 (669)
T ss_pred ccCccccCccccccC------------CccccccCcccccccccccccCCCCCcccCCccchhccccccccccccccccc
Confidence 0 011111 11111 0012233334455555555544444443322221111 123333333333221
Q ss_pred CCCCCCCCCCCCCCCc-chhhHhhhhccCCceeeeccCCCCCCCCCCCCcCCCCCCCccccccCCCC-----cccCCCCC
Q 006039 238 SSSSQQNPRSNSEGLP-NSMAAHLRRKNNRNVTVLHAGLGWPSASQRPVLSSNNSTQPRRAANIGSA-----VSQSSSGS 311 (663)
Q Consensus 238 ~~~~~~~s~~~~~~~~-nt~Aa~l~~~s~r~~~vl~ss~~~p~~~~~~~~~~s~~~~s~pa~~~~~~-----ss~~~~~~ 311 (663)
..+ .++..+.. +++..++....++...+-..+++|+..++.+...+.......|+.+.+.+ +..-.++.
T Consensus 371 ~~S-----~~~s~S~~~~~~~~~~~~~t~r~a~~~~~~~~~~~~~~~~~~~~~~s~~~~~~~~~s~~~~s~~~~rv~~~~ 445 (669)
T KOG2231|consen 371 IIS-----LAGSSSSSSTPGRSRISPVTNRSAAAPGAAAPYPAPNRGPGENSIKSLRRVPSSGRSAASQSLSSDRVEQTR 445 (669)
T ss_pred ccc-----cCCCCcCcCccccccccccccccccCCccccCccccccCcccccccccccccccccchhhccccccccccCC
Confidence 111 11222222 56666666666666554466678888888776655433222221111111 11111111
Q ss_pred CccccchhhhHhHhhhhccccccCCCCCCCCccccccCCCCCCCCCCCCC--CCCCCCCCCc--cCcCCC---CCCCCCC
Q 006039 312 RTVSCKAASAQAQVLAQSTAVSSASSRNSGNIRRITHSASAPNLANGSVE--PSVSDFPPVS--AMRTDK---MPSISQP 384 (663)
Q Consensus 312 ~~~s~~s~s~qa~~~~~~g~~p~~~~~~~gss~~i~hs~s~p~~~~~~s~--ps~~dFP~ls--Aa~~~~---~p~~~q~ 384 (663)
|-++-.-..++ . .+ -.-+..+.|.+.++.+. ++..++|+++ ...+++ |++..-.
T Consensus 446 p~a~~~~~~~~--k---~~--------------e~~~~ps~~~~ss~r~~~~~~ss~~~~~s~~~~~n~~s~~~s~~~~~ 506 (669)
T KOG2231|consen 446 PLASVVLQIAR--K---AA--------------ETPSSPSSPYNSSTRSTAQPSSSLGPQSSLPSLKNRKSSSTSAPRGH 506 (669)
T ss_pred Ccchhhhhhhh--h---cc--------------ccCCCCcchhhhhcccccCCccccCccccchhhcCccccccCCCCCC
Confidence 11100011111 0 00 01122233333333333 4566677666 333222 1122223
Q ss_pred CCCHHHHHHHHHHHHHHHHHHhcCChHHHHHHHHHHHhhhcCcccHHHHHHHHHHhchhhhHHHHHHhCCChHHHHHHHH
Q 006039 385 APSVENIQAANRSLVERMRAAFEYDEDKYTAFKDITAQYRQGLIDTRKYLEYVKQYGLSHLVLELARLCPDALKQKELIE 464 (663)
Q Consensus 385 ~~~ve~~~aank~LVe~Ir~~L~~de~~~~~Fk~~s~~yr~G~i~a~~Y~~~v~~~Gl~~lvpELarLlPD~~Kq~eL~~ 464 (663)
...+-++..+|++|||+++..|+.+|+.|.+||..+..||.++|++..|..++...|+.+++++|+||||++..+.+|+.
T Consensus 507 ~~g~p~~~~~~~~~~e~~~~~~~~~e~~~~~~k~~~~~~r~~~~~~~~~~~~~~~~~~~~~~~~~~r~~ppp~~~s~i~~ 586 (669)
T KOG2231|consen 507 SQGPPDVSSANKALGEKNIKNLGHKESPSAAPKNFSGKYRKNSIDARTNGAPVTPYGLSPLLLDGARLCPPPGLVSNIIK 586 (669)
T ss_pred CCCCCCcccchhhhhHHhhhccccccchhhCcCCCCCcccccccchhhccCcCCCcCCCccccCCCCCCCCchhcccccc
Confidence 33446889999999999999999999999999999999999999999999999999999999999999999999999999
Q ss_pred HHHHHhhcccCCCCCcccccccccccCCCccCCCcccccccccccCCCccccCCCCchhhhhhhHHHHHHHHhhcCCCCc
Q 006039 465 TYNATLQGNNQLDNDWAHISVRAKDTNGSKKSKGKSVATEACKNDKGKSTVANDSNSKHAVANNFLSTVRELQSSFKPSE 544 (663)
Q Consensus 465 a~~~~~r~~~~~~ng~~~~~~~~k~~~~~~k~k~~~~~~~~~~~~~~~~~~~~~~~~~~~~~d~~~~~~~~lq~~~~~~e 544 (663)
.+++.+.. |-|+|.+.+ .+..++..++|+.+++.+|....+++
T Consensus 587 ~~~a~~~~----------------------k~~~~~~~~---------------~~~p~s~~~~~~~~~~~~~~~~~~q~ 629 (669)
T KOG2231|consen 587 SSNALLNS----------------------KNKPKPVKY---------------PDPPDSKPRNQILTVRRLQLLDPKQA 629 (669)
T ss_pred Cccccccc----------------------ccccccccc---------------CCCCCcccccccchhhhhhhccchhh
Confidence 88866622 556666655 56899999999999999999999888
Q ss_pred ccccccccccccCCCCCcccccccccccCCCcccCCCCCCccccCCCCCCcccccccchhhcc
Q 006039 545 EDEEVLSKDGYRGAKGKSKPMVDEQLRGQNDLTSAGGGSSQTSVDRGGGGKQRKKTSKFHRVR 607 (663)
Q Consensus 545 ~~~~vl~k~~~~~~~gk~~~~~~~~~~~~~~~~~~~~~~~~~~~~~gg~~k~~kk~skf~r~r 607 (663)
++ -+|.-|+..+|++...-- .+. +...++.+|++|||++|
T Consensus 630 ~~---k~~~~~~~~~~~~~~~~~-----------~~~---------~~k~q~~~~~~~~~~~~ 669 (669)
T KOG2231|consen 630 GK---KDKFQDGSDSGNLYFLNL-----------FSE---------LDKQQELKKTHKFHRNR 669 (669)
T ss_pred hc---cccccccccccccccccc-----------ccc---------cccccccccccccccCC
Confidence 88 477799999998651110 011 13357899999999986
No 2
>COG5236 Uncharacterized conserved protein, contains RING Zn-finger [General function prediction only]
Probab=99.82 E-value=2.5e-21 Score=202.39 Aligned_cols=108 Identities=40% Similarity=0.798 Sum_probs=96.5
Q ss_pred cccCCCcCCCCCCccCCchhHHhhhcCCCccCCCCCCCCCCCccccCCchhhhccccccceecCccccCcccccccccch
Q 006039 20 GFMGHPMCEFCRTPFYGDNELYTHMSTEHYTCHICQRQHPGQYEYYKNYDDLEIHFRRDHFLCEDEACLAKKFVVFQSEA 99 (663)
Q Consensus 20 GfkGHP~C~fC~KrF~d~deL~~HmReKHf~C~iC~k~~~~k~~YF~~~~~LekH~R~khf~Ce~~~C~kkKfVVF~ses 99 (663)
||+|||+|.||.++||++++|++|||.+|+.|+||++.++..+|||.+|++|+.||+..||.|....|.-.|||||..+.
T Consensus 216 GFKGHP~C~FC~~~FYdDDEL~~HcR~~HE~ChICD~v~p~~~QYFK~Y~~Le~HF~~~hy~ct~qtc~~~k~~vf~~~~ 295 (493)
T COG5236 216 GFKGHPLCIFCKIYFYDDDELRRHCRLRHEACHICDMVGPIRYQYFKSYEDLEAHFRNAHYCCTFQTCRVGKCYVFPYHT 295 (493)
T ss_pred CcCCCchhhhccceecChHHHHHHHHhhhhhhhhhhccCccchhhhhCHHHHHHHhhcCceEEEEEEEecCcEEEeccHH
Confidence 99999999999999999999999999999999999999899999999999999999999999999999999999999999
Q ss_pred hhhcccccccCCC--CChhhhhcccccccc
Q 006039 100 EMKRHNAIEHGGR--MSRAKRNAALQIPIC 127 (663)
Q Consensus 100 dLk~H~r~HHGek--~sr~~r~~a~~i~~~ 127 (663)
+|..|....|+.. .+...+...+.+++.
T Consensus 296 el~~h~~~~h~~~~~~~~~~~~~~~s~~i~ 325 (493)
T COG5236 296 ELLEHLTRFHKVNARLSEIPRPGRCSIPVM 325 (493)
T ss_pred HHHHHHHHHhhcccccCcCCCCcccccccc
Confidence 9999999988863 333334444444443
No 3
>KOG2462 consensus C2H2-type Zn-finger protein [Transcription]
Probab=98.68 E-value=1e-08 Score=106.24 Aligned_cols=73 Identities=22% Similarity=0.471 Sum_probs=40.9
Q ss_pred cCCCCCCccCCchhHHhhhc--CCCccCCCCCCCCCCCccccCCchhhhccccc----cceecCccccCcccccccccch
Q 006039 26 MCEFCRTPFYGDNELYTHMS--TEHYTCHICQRQHPGQYEYYKNYDDLEIHFRR----DHFLCEDEACLAKKFVVFQSEA 99 (663)
Q Consensus 26 ~C~fC~KrF~d~deL~~HmR--eKHf~C~iC~k~~~~k~~YF~~~~~LekH~R~----khf~Ce~~~C~kkKfVVF~ses 99 (663)
.|+.|+|.|...-.|..|+| .-++.|.+|||. |...=-|+-|+|+ +||.|.+ |.+. |...+
T Consensus 163 ~C~~C~K~YvSmpALkMHirTH~l~c~C~iCGKa-------FSRPWLLQGHiRTHTGEKPF~C~h--C~kA----FADRS 229 (279)
T KOG2462|consen 163 SCKYCGKVYVSMPALKMHIRTHTLPCECGICGKA-------FSRPWLLQGHIRTHTGEKPFSCPH--CGKA----FADRS 229 (279)
T ss_pred cCCCCCceeeehHHHhhHhhccCCCccccccccc-------ccchHHhhcccccccCCCCccCCc--ccch----hcchH
Confidence 45555555555555555555 335555555555 5555555555554 5666665 6665 66666
Q ss_pred hhhcccccccCC
Q 006039 100 EMKRHNAIEHGG 111 (663)
Q Consensus 100 dLk~H~r~HHGe 111 (663)
+|++||++|.+.
T Consensus 230 NLRAHmQTHS~~ 241 (279)
T KOG2462|consen 230 NLRAHMQTHSDV 241 (279)
T ss_pred HHHHHHHhhcCC
Confidence 666666666544
No 4
>KOG2462 consensus C2H2-type Zn-finger protein [Transcription]
Probab=98.56 E-value=1.9e-08 Score=104.30 Aligned_cols=68 Identities=19% Similarity=0.538 Sum_probs=65.1
Q ss_pred cCCCCCCccCCchhHHhhhc----CCCccCCCCCCCCCCCccccCCchhhhccccc----cceecCccccCccccccccc
Q 006039 26 MCEFCRTPFYGDNELYTHMS----TEHYTCHICQRQHPGQYEYYKNYDDLEIHFRR----DHFLCEDEACLAKKFVVFQS 97 (663)
Q Consensus 26 ~C~fC~KrF~d~deL~~HmR----eKHf~C~iC~k~~~~k~~YF~~~~~LekH~R~----khf~Ce~~~C~kkKfVVF~s 97 (663)
.|.+|||.|..-.-|.-|+| ||||.|..|+|. |.++..|+.|+.+ ++|.|.. |.+. |..
T Consensus 189 ~C~iCGKaFSRPWLLQGHiRTHTGEKPF~C~hC~kA-------FADRSNLRAHmQTHS~~K~~qC~~--C~Ks----Fsl 255 (279)
T KOG2462|consen 189 ECGICGKAFSRPWLLQGHIRTHTGEKPFSCPHCGKA-------FADRSNLRAHMQTHSDVKKHQCPR--CGKS----FAL 255 (279)
T ss_pred ccccccccccchHHhhcccccccCCCCccCCcccch-------hcchHHHHHHHHhhcCCccccCcc--hhhH----HHH
Confidence 79999999999999999999 999999999999 9999999999987 8999999 9999 999
Q ss_pred chhhhcccc
Q 006039 98 EAEMKRHNA 106 (663)
Q Consensus 98 esdLk~H~r 106 (663)
.+.|..|..
T Consensus 256 ~SyLnKH~E 264 (279)
T KOG2462|consen 256 KSYLNKHSE 264 (279)
T ss_pred HHHHHHhhh
Confidence 999999964
No 5
>KOG3576 consensus Ovo and related transcription factors [Transcription]
Probab=98.34 E-value=6.6e-08 Score=96.96 Aligned_cols=74 Identities=23% Similarity=0.470 Sum_probs=69.4
Q ss_pred CcCCCCCCccCCchhHHhhhc----CCCccCCCCCCCCCCCccccCCchhhhccccc----cceecCccccCcccccccc
Q 006039 25 PMCEFCRTPFYGDNELYTHMS----TEHYTCHICQRQHPGQYEYYKNYDDLEIHFRR----DHFLCEDEACLAKKFVVFQ 96 (663)
Q Consensus 25 P~C~fC~KrF~d~deL~~HmR----eKHf~C~iC~k~~~~k~~YF~~~~~LekH~R~----khf~Ce~~~C~kkKfVVF~ 96 (663)
+.|..|+|.|.-.--|.+||+ -+-|.|.+|++. |.+..+|++|.|+ +||.|.. |.+. |+
T Consensus 118 ftCrvCgK~F~lQRmlnrh~kch~~vkr~lct~cgkg-------fndtfdlkrh~rthtgvrpykc~~--c~ka----ft 184 (267)
T KOG3576|consen 118 FTCRVCGKKFGLQRMLNRHLKCHSDVKRHLCTFCGKG-------FNDTFDLKRHTRTHTGVRPYKCSL--CEKA----FT 184 (267)
T ss_pred eeeehhhhhhhHHHHHHHHhhhccHHHHHHHhhccCc-------ccchhhhhhhhccccCccccchhh--hhHH----HH
Confidence 589999999999999999999 577999999998 9999999999997 8999999 9999 99
Q ss_pred cchhhhcccccccCC
Q 006039 97 SEAEMKRHNAIEHGG 111 (663)
Q Consensus 97 sesdLk~H~r~HHGe 111 (663)
....|..|.+..||.
T Consensus 185 qrcsleshl~kvhgv 199 (267)
T KOG3576|consen 185 QRCSLESHLKKVHGV 199 (267)
T ss_pred hhccHHHHHHHHcCc
Confidence 999999999998885
No 6
>KOG3576 consensus Ovo and related transcription factors [Transcription]
Probab=98.31 E-value=1e-07 Score=95.57 Aligned_cols=73 Identities=25% Similarity=0.581 Sum_probs=64.7
Q ss_pred cCCCCCCccCCchhHHhhhc----CCCccCCCCCCCCCCCccccCCchhhhccccc---------------cceecCccc
Q 006039 26 MCEFCRTPFYGDNELYTHMS----TEHYTCHICQRQHPGQYEYYKNYDDLEIHFRR---------------DHFLCEDEA 86 (663)
Q Consensus 26 ~C~fC~KrF~d~deL~~HmR----eKHf~C~iC~k~~~~k~~YF~~~~~LekH~R~---------------khf~Ce~~~ 86 (663)
+|.||+|.|.+--+|.+|+| -+||+|..|++. |..+-+|+.|.++ +-|.|++
T Consensus 147 lct~cgkgfndtfdlkrh~rthtgvrpykc~~c~ka-------ftqrcsleshl~kvhgv~~~yaykerr~kl~vced-- 217 (267)
T KOG3576|consen 147 LCTFCGKGFNDTFDLKRHTRTHTGVRPYKCSLCEKA-------FTQRCSLESHLKKVHGVQHQYAYKERRAKLYVCED-- 217 (267)
T ss_pred HHhhccCcccchhhhhhhhccccCccccchhhhhHH-------HHhhccHHHHHHHHcCchHHHHHHHhhhheeeecc--
Confidence 68999999999999999999 699999999999 9999999999865 5799999
Q ss_pred cCcccccccccchhhhcccccccCC
Q 006039 87 CLAKKFVVFQSEAEMKRHNAIEHGG 111 (663)
Q Consensus 87 C~kkKfVVF~sesdLk~H~r~HHGe 111 (663)
|+.. -.....+..|...||..
T Consensus 218 cg~t----~~~~e~~~~h~~~~hp~ 238 (267)
T KOG3576|consen 218 CGYT----SERPEVYYLHLKLHHPF 238 (267)
T ss_pred cCCC----CCChhHHHHHHHhcCCC
Confidence 9976 55666788898888864
No 7
>KOG3623 consensus Homeobox transcription factor SIP1 [Transcription]
Probab=98.30 E-value=8.7e-08 Score=109.07 Aligned_cols=71 Identities=28% Similarity=0.638 Sum_probs=65.8
Q ss_pred CCCcCCCCCCccCCchhHHhhhc----CCCccCCCCCCCCCCCccccCCchhhhccccc----cceecCccccCcccccc
Q 006039 23 GHPMCEFCRTPFYGDNELYTHMS----TEHYTCHICQRQHPGQYEYYKNYDDLEIHFRR----DHFLCEDEACLAKKFVV 94 (663)
Q Consensus 23 GHP~C~fC~KrF~d~deL~~HmR----eKHf~C~iC~k~~~~k~~YF~~~~~LekH~R~----khf~Ce~~~C~kkKfVV 94 (663)
|.|.|+.|+|.|.-...|.+|.- .+||+|.||.|. |.++.+|..|.|. +||.|.. |++.
T Consensus 893 gmyaCDqCDK~FqKqSSLaRHKYEHsGqRPyqC~iCkKA-------FKHKHHLtEHkRLHSGEKPfQCdK--ClKR---- 959 (1007)
T KOG3623|consen 893 GMYACDQCDKAFQKQSSLARHKYEHSGQRPYQCIICKKA-------FKHKHHLTEHKRLHSGEKPFQCDK--CLKR---- 959 (1007)
T ss_pred ccchHHHHHHHHHhhHHHHHhhhhhcCCCCcccchhhHh-------hhhhhhhhhhhhhccCCCcchhhh--hhhh----
Confidence 55689999999999999999875 799999999999 9999999999985 9999999 9999
Q ss_pred cccchhhhcccc
Q 006039 95 FQSEAEMKRHNA 106 (663)
Q Consensus 95 F~sesdLk~H~r 106 (663)
|.....+.+||.
T Consensus 960 FSHSGSYSQHMN 971 (1007)
T KOG3623|consen 960 FSHSGSYSQHMN 971 (1007)
T ss_pred cccccchHhhhc
Confidence 999999999984
No 8
>KOG3623 consensus Homeobox transcription factor SIP1 [Transcription]
Probab=98.09 E-value=4.8e-07 Score=103.25 Aligned_cols=83 Identities=22% Similarity=0.522 Sum_probs=74.0
Q ss_pred CCcccCCCcCCCCCCccCCchhHHhhhc------CCCccCCCCCCCCCCCccccCCchhhhccccc--------------
Q 006039 18 RGGFMGHPMCEFCRTPFYGDNELYTHMS------TEHYTCHICQRQHPGQYEYYKNYDDLEIHFRR-------------- 77 (663)
Q Consensus 18 ~~GfkGHP~C~fC~KrF~d~deL~~HmR------eKHf~C~iC~k~~~~k~~YF~~~~~LekH~R~-------------- 77 (663)
.+.|..-..|.+|++.|.....|..|++ +..|.|.+|... |..+..|++|+..
T Consensus 204 pdAfsqlltcpycdrgykrltslkeHikyrhekne~nfsC~lCsyt-------FAyRtQLErhm~~hkpg~dqa~sltqs 276 (1007)
T KOG3623|consen 204 PDAFSQLLTCPYCDRGYKRLTSLKEHIKYRHEKNEPNFSCMLCSYT-------FAYRTQLERHMQLHKPGGDQAISLTQS 276 (1007)
T ss_pred cchhhhhhcchhHHHHHHHHHHHHHHHHHHHhhCCCCCcchhhhhh-------hhhHHHHHHHHHhhcCCCcccccccch
Confidence 4567777889999999999999999987 567999999999 9999999999864
Q ss_pred ---cceecCccccCcccccccccchhhhcccccccCCCC
Q 006039 78 ---DHFLCEDEACLAKKFVVFQSEAEMKRHNAIEHGGRM 113 (663)
Q Consensus 78 ---khf~Ce~~~C~kkKfVVF~sesdLk~H~r~HHGek~ 113 (663)
+.|.|.+ |++. |..+.+|+.|+|+|.||+-
T Consensus 277 a~lRKFKCtE--CgKA----FKfKHHLKEHlRIHSGEKP 309 (1007)
T KOG3623|consen 277 ALLRKFKCTE--CGKA----FKFKHHLKEHLRIHSGEKP 309 (1007)
T ss_pred hhhccccccc--cchh----hhhHHHHHhhheeecCCCC
Confidence 4699999 9998 9999999999999999973
No 9
>KOG1074 consensus Transcriptional repressor SALM [Transcription]
Probab=97.96 E-value=3.4e-06 Score=97.84 Aligned_cols=80 Identities=25% Similarity=0.546 Sum_probs=72.2
Q ss_pred CcCCCCCCccCCchhHHhhhc----CCCccCCCCCCCCCCCccccCCchhhhccccc--------cceecC---ccccCc
Q 006039 25 PMCEFCRTPFYGDNELYTHMS----TEHYTCHICQRQHPGQYEYYKNYDDLEIHFRR--------DHFLCE---DEACLA 89 (663)
Q Consensus 25 P~C~fC~KrF~d~deL~~HmR----eKHf~C~iC~k~~~~k~~YF~~~~~LekH~R~--------khf~Ce---~~~C~k 89 (663)
-.|-+|.+...-...|..|.| ++||+|.||++. |.++-.|+.||-. -.|.|. . |.+
T Consensus 606 NqCiiC~rVlSC~saLqmHyrtHtGERPFkCKiCgRA-------FtTkGNLkaH~~vHka~p~~R~q~ScP~~~i--c~~ 676 (958)
T KOG1074|consen 606 NQCIICLRVLSCPSALQMHYRTHTGERPFKCKICGRA-------FTTKGNLKAHMSVHKAKPPARVQFSCPSTFI--CQK 676 (958)
T ss_pred cceeeeeecccchhhhhhhhhcccCcCccccccccch-------hccccchhhcccccccCccccccccCCchhh--hcc
Confidence 379999999999999999999 899999999999 9999999999976 358898 7 999
Q ss_pred ccccccccchhhhcccccccCCCCChhh
Q 006039 90 KKFVVFQSEAEMKRHNAIEHGGRMSRAK 117 (663)
Q Consensus 90 kKfVVF~sesdLk~H~r~HHGek~sr~~ 117 (663)
+ |.....|..|.++|.+..++...
T Consensus 677 k----ftn~V~lpQhIriH~~~~~s~g~ 700 (958)
T KOG1074|consen 677 K----FTNAVTLPQHIRIHLGGQISNGG 700 (958)
T ss_pred c----ccccccccceEEeecCCCCCCCc
Confidence 9 99999999999999987665553
No 10
>PHA00733 hypothetical protein
Probab=97.89 E-value=4.4e-06 Score=78.57 Aligned_cols=73 Identities=19% Similarity=0.396 Sum_probs=63.9
Q ss_pred cCCCCCCccCCchhHHhh------hc---CCCccCCCCCCCCCCCccccCCchhhhcccc--ccceecCccccCcccccc
Q 006039 26 MCEFCRTPFYGDNELYTH------MS---TEHYTCHICQRQHPGQYEYYKNYDDLEIHFR--RDHFLCEDEACLAKKFVV 94 (663)
Q Consensus 26 ~C~fC~KrF~d~deL~~H------mR---eKHf~C~iC~k~~~~k~~YF~~~~~LekH~R--~khf~Ce~~~C~kkKfVV 94 (663)
.|.+|.+.|+....|..| +. .++|.|.+|++. |.....|..|++ ..+|.|.. |.+.
T Consensus 42 ~~~~~~~~~~~~~~l~~~~~l~~~~~~~~~kPy~C~~Cgk~-------Fss~s~L~~H~r~h~~~~~C~~--CgK~---- 108 (128)
T PHA00733 42 IRAVVKTLIYNPQLLDESSYLYKLLTSKAVSPYVCPLCLMP-------FSSSVSLKQHIRYTEHSKVCPV--CGKE---- 108 (128)
T ss_pred HHHHHhhhccChhhhcchHHHHhhcccCCCCCccCCCCCCc-------CCCHHHHHHHHhcCCcCccCCC--CCCc----
Confidence 599999888877776665 22 679999999999 999999999998 57899999 9998
Q ss_pred cccchhhhcccccccCC
Q 006039 95 FQSEAEMKRHNAIEHGG 111 (663)
Q Consensus 95 F~sesdLk~H~r~HHGe 111 (663)
|.....|+.|++..|+-
T Consensus 109 F~~~~sL~~H~~~~h~~ 125 (128)
T PHA00733 109 FRNTDSTLDHVCKKHNI 125 (128)
T ss_pred cCCHHHHHHHHHHhcCc
Confidence 99999999999998874
No 11
>KOG3608 consensus Zn finger proteins [General function prediction only]
Probab=97.86 E-value=5.5e-06 Score=88.76 Aligned_cols=76 Identities=22% Similarity=0.471 Sum_probs=59.7
Q ss_pred CCCcCCCCCCccCCchhHHhhhc-----CCCccCCCCCCCCCCCccccCCchhhhccccc---cceecCccccCcccccc
Q 006039 23 GHPMCEFCRTPFYGDNELYTHMS-----TEHYTCHICQRQHPGQYEYYKNYDDLEIHFRR---DHFLCEDEACLAKKFVV 94 (663)
Q Consensus 23 GHP~C~fC~KrF~d~deL~~HmR-----eKHf~C~iC~k~~~~k~~YF~~~~~LekH~R~---khf~Ce~~~C~kkKfVV 94 (663)
.|+.|..|+-......+|..||+ +|+|+|..|++. |.+..+|.+|... --|.|++++|-.+
T Consensus 262 n~ykCplCdmtc~~~ssL~~H~r~rHs~dkpfKCd~Cd~~-------c~~esdL~kH~~~HS~~~y~C~h~~C~~s---- 330 (467)
T KOG3608|consen 262 NCYKCPLCDMTCSSASSLTTHIRYRHSKDKPFKCDECDTR-------CVRESDLAKHVQVHSKTVYQCEHPDCHYS---- 330 (467)
T ss_pred hcccccccccCCCChHHHHHHHHhhhccCCCccccchhhh-------hccHHHHHHHHHhccccceecCCCCCcHH----
Confidence 46677777777777788888777 678888888887 8888888888765 3578888888887
Q ss_pred cccchhhhccccccc
Q 006039 95 FQSEAEMKRHNAIEH 109 (663)
Q Consensus 95 F~sesdLk~H~r~HH 109 (663)
|.+...|++|++.+|
T Consensus 331 ~r~~~q~~~H~~evh 345 (467)
T KOG3608|consen 331 VRTYTQMRRHFLEVH 345 (467)
T ss_pred HHHHHHHHHHHHHhc
Confidence 888888888888777
No 12
>KOG3608 consensus Zn finger proteins [General function prediction only]
Probab=97.73 E-value=4.9e-06 Score=89.15 Aligned_cols=74 Identities=22% Similarity=0.537 Sum_probs=62.8
Q ss_pred CCCcCCCCCCccCCchhHHhhhc--CCCccCCCCCCCCCCCccccCCchhhhccccc-----cceecCccccCccccccc
Q 006039 23 GHPMCEFCRTPFYGDNELYTHMS--TEHYTCHICQRQHPGQYEYYKNYDDLEIHFRR-----DHFLCEDEACLAKKFVVF 95 (663)
Q Consensus 23 GHP~C~fC~KrF~d~deL~~HmR--eKHf~C~iC~k~~~~k~~YF~~~~~LekH~R~-----khf~Ce~~~C~kkKfVVF 95 (663)
.|+.|..|-|+|.+..-|..||. -.+|+|.+|+.. .....+|..|++. +||.|.. |... |
T Consensus 236 n~fqC~~C~KrFaTeklL~~Hv~rHvn~ykCplCdmt-------c~~~ssL~~H~r~rHs~dkpfKCd~--Cd~~----c 302 (467)
T KOG3608|consen 236 NSFQCAQCFKRFATEKLLKSHVVRHVNCYKCPLCDMT-------CSSASSLTTHIRYRHSKDKPFKCDE--CDTR----C 302 (467)
T ss_pred CchHHHHHHHHHhHHHHHHHHHHHhhhcccccccccC-------CCChHHHHHHHHhhhccCCCccccc--hhhh----h
Confidence 47788888888888888888887 678999999988 8888888888875 7899998 9998 8
Q ss_pred ccchhhhccccccc
Q 006039 96 QSEAEMKRHNAIEH 109 (663)
Q Consensus 96 ~sesdLk~H~r~HH 109 (663)
.+++||.+|...|.
T Consensus 303 ~~esdL~kH~~~HS 316 (467)
T KOG3608|consen 303 VRESDLAKHVQVHS 316 (467)
T ss_pred ccHHHHHHHHHhcc
Confidence 99999999988775
No 13
>KOG2893 consensus Zn finger protein [General function prediction only]
Probab=97.42 E-value=3.8e-05 Score=78.95 Aligned_cols=34 Identities=32% Similarity=0.936 Sum_probs=32.4
Q ss_pred CCcCCCCCCccCCchhHHhhhcCCCccCCCCCCC
Q 006039 24 HPMCEFCRTPFYGDNELYTHMSTEHYTCHICQRQ 57 (663)
Q Consensus 24 HP~C~fC~KrF~d~deL~~HmReKHf~C~iC~k~ 57 (663)
.|.|.+|.+-|-+..-|.+|++-|||+||||.+.
T Consensus 10 kpwcwycnrefddekiliqhqkakhfkchichkk 43 (341)
T KOG2893|consen 10 KPWCWYCNREFDDEKILIQHQKAKHFKCHICHKK 43 (341)
T ss_pred Cceeeecccccchhhhhhhhhhhccceeeeehhh
Confidence 4899999999999999999999999999999996
No 14
>PHA00733 hypothetical protein
Probab=97.36 E-value=0.00011 Score=69.18 Aligned_cols=53 Identities=25% Similarity=0.609 Sum_probs=49.4
Q ss_pred CCcCCCCCCccCCchhHHhhhc--CCCccCCCCCCCCCCCccccCCchhhhccccccceecC
Q 006039 24 HPMCEFCRTPFYGDNELYTHMS--TEHYTCHICQRQHPGQYEYYKNYDDLEIHFRRDHFLCE 83 (663)
Q Consensus 24 HP~C~fC~KrF~d~deL~~HmR--eKHf~C~iC~k~~~~k~~YF~~~~~LekH~R~khf~Ce 83 (663)
.+.|..|++.|.....|..|++ ..+|.|.+|++. |.....|..|+.++|-.|.
T Consensus 73 Py~C~~Cgk~Fss~s~L~~H~r~h~~~~~C~~CgK~-------F~~~~sL~~H~~~~h~~~~ 127 (128)
T PHA00733 73 PYVCPLCLMPFSSSVSLKQHIRYTEHSKVCPVCGKE-------FRNTDSTLDHVCKKHNICV 127 (128)
T ss_pred CccCCCCCCcCCCHHHHHHHHhcCCcCccCCCCCCc-------cCCHHHHHHHHHHhcCccc
Confidence 3689999999999999999998 788999999999 9999999999999998884
No 15
>PHA02768 hypothetical protein; Provisional
Probab=97.32 E-value=0.00012 Score=59.98 Aligned_cols=39 Identities=15% Similarity=0.387 Sum_probs=33.6
Q ss_pred cCCCCCCccCCchhHHhhhc--CCCccCCCCCCCCCCCccccCCchhh
Q 006039 26 MCEFCRTPFYGDNELYTHMS--TEHYTCHICQRQHPGQYEYYKNYDDL 71 (663)
Q Consensus 26 ~C~fC~KrF~d~deL~~HmR--eKHf~C~iC~k~~~~k~~YF~~~~~L 71 (663)
.|+.|++.|...+.|..||+ .++|+|..|++. |.....|
T Consensus 7 ~C~~CGK~Fs~~~~L~~H~r~H~k~~kc~~C~k~-------f~~~s~l 47 (55)
T PHA02768 7 ECPICGEIYIKRKSMITHLRKHNTNLKLSNCKRI-------SLRTGEY 47 (55)
T ss_pred CcchhCCeeccHHHHHHHHHhcCCcccCCcccce-------eccccee
Confidence 89999999999999999999 568999999998 6655444
No 16
>PF12756 zf-C2H2_2: C2H2 type zinc-finger (2 copies); PDB: 2DMI_A.
Probab=97.26 E-value=0.0001 Score=63.43 Aligned_cols=72 Identities=25% Similarity=0.433 Sum_probs=22.7
Q ss_pred cCCCCCCccCCchhHHhhhcCCCccCCCCCCCCCCCccccCCchhhhccccc---cceecCccccCcccccccccchhhh
Q 006039 26 MCEFCRTPFYGDNELYTHMSTEHYTCHICQRQHPGQYEYYKNYDDLEIHFRR---DHFLCEDEACLAKKFVVFQSEAEMK 102 (663)
Q Consensus 26 ~C~fC~KrF~d~deL~~HmReKHf~C~iC~k~~~~k~~YF~~~~~LekH~R~---khf~Ce~~~C~kkKfVVF~sesdLk 102 (663)
+|.+|+..|.+.+.|..||...|...-..... +.....|..+.+. ..+.|.. |.+. |.+...|.
T Consensus 1 ~C~~C~~~f~~~~~l~~H~~~~H~~~~~~~~~-------l~~~~~~~~~~~~~~~~~~~C~~--C~~~----f~s~~~l~ 67 (100)
T PF12756_consen 1 QCLFCDESFSSVDDLLQHMKKKHGFDIPDQKY-------LVDPNRLLNYLRKKVKESFRCPY--CNKT----FRSREALQ 67 (100)
T ss_dssp -------------------------------------------------------SSEEBSS--SS-E----ESSHHHHH
T ss_pred Cccccccccccccccccccccccccccccccc-------cccccccccccccccCCCCCCCc--cCCC----CcCHHHHH
Confidence 59999999999999999999877654332222 4455555555544 4699999 9998 99999999
Q ss_pred cccccccC
Q 006039 103 RHNAIEHG 110 (663)
Q Consensus 103 ~H~r~HHG 110 (663)
.|++.++-
T Consensus 68 ~Hm~~~~H 75 (100)
T PF12756_consen 68 EHMRSKHH 75 (100)
T ss_dssp HHHHHTTT
T ss_pred HHHcCccC
Confidence 99997643
No 17
>KOG1074 consensus Transcriptional repressor SALM [Transcription]
Probab=97.19 E-value=0.00015 Score=84.70 Aligned_cols=50 Identities=30% Similarity=0.824 Sum_probs=44.9
Q ss_pred cccCCCcCCCCCCccCCchhHHhhhc----CCCccCCCCCCCCCCCccccCCchhhhccccc
Q 006039 20 GFMGHPMCEFCRTPFYGDNELYTHMS----TEHYTCHICQRQHPGQYEYYKNYDDLEIHFRR 77 (663)
Q Consensus 20 GfkGHP~C~fC~KrF~d~deL~~HmR----eKHf~C~iC~k~~~~k~~YF~~~~~LekH~R~ 77 (663)
-|.-| .|.||.|.|..+..|..|+| ++||+|.||+.. |.++-.|+.||..
T Consensus 350 ~~~kh-kCr~CakvfgS~SaLqiHlRSHTGERPfqCnvCG~~-------FSTkGNLKvH~~r 403 (958)
T KOG1074|consen 350 PFFKH-KCRFCAKVFGSDSALQIHLRSHTGERPFQCNVCGNR-------FSTKGNLKVHFQR 403 (958)
T ss_pred ccccc-hhhhhHhhcCchhhhhhhhhccCCCCCeeecccccc-------cccccceeeeeee
Confidence 35556 89999999999999999999 899999999999 9999999999875
No 18
>PLN03086 PRLI-interacting factor K; Provisional
Probab=96.90 E-value=0.0008 Score=77.03 Aligned_cols=74 Identities=24% Similarity=0.401 Sum_probs=58.6
Q ss_pred CcccCCCcCCCCCCccCCchhHHhhhc--CCCccCCCCCCCCCCCccccCCchhhhccccc----cceecCccccCcccc
Q 006039 19 GGFMGHPMCEFCRTPFYGDNELYTHMS--TEHYTCHICQRQHPGQYEYYKNYDDLEIHFRR----DHFLCEDEACLAKKF 92 (663)
Q Consensus 19 ~GfkGHP~C~fC~KrF~d~deL~~HmR--eKHf~C~iC~k~~~~k~~YF~~~~~LekH~R~----khf~Ce~~~C~kkKf 92 (663)
.-..-|..|.+|++.|. ...|..|+. .+++.|. |++. + .+..|..|... +++.|.. |...
T Consensus 448 ~el~~H~~C~~Cgk~f~-~s~LekH~~~~Hkpv~Cp-Cg~~-------~-~R~~L~~H~~thCp~Kpi~C~f--C~~~-- 513 (567)
T PLN03086 448 EEAKNHVHCEKCGQAFQ-QGEMEKHMKVFHEPLQCP-CGVV-------L-EKEQMVQHQASTCPLRLITCRF--CGDM-- 513 (567)
T ss_pred cccccCccCCCCCCccc-hHHHHHHHHhcCCCccCC-CCCC-------c-chhHHHhhhhccCCCCceeCCC--CCCc--
Confidence 34567889999999985 688999998 6788999 9964 4 66899999874 8999999 9987
Q ss_pred ccccc----------chhhhcccccc
Q 006039 93 VVFQS----------EAEMKRHNAIE 108 (663)
Q Consensus 93 VVF~s----------esdLk~H~r~H 108 (663)
|.. ...|+.|...+
T Consensus 514 --v~~g~~~~d~~d~~s~Lt~HE~~C 537 (567)
T PLN03086 514 --VQAGGSAMDVRDRLRGMSEHESIC 537 (567)
T ss_pred --cccCccccchhhhhhhHHHHHHhc
Confidence 532 24688887765
No 19
>KOG3993 consensus Transcription factor (contains Zn finger) [Transcription]
Probab=96.62 E-value=0.00027 Score=77.61 Aligned_cols=79 Identities=23% Similarity=0.537 Sum_probs=69.4
Q ss_pred ccCCCcCCCCCCccCCchhHHhhhc----CCCccCCCCCCCCCCCccccCCchhhhccccc------------c------
Q 006039 21 FMGHPMCEFCRTPFYGDNELYTHMS----TEHYTCHICQRQHPGQYEYYKNYDDLEIHFRR------------D------ 78 (663)
Q Consensus 21 fkGHP~C~fC~KrF~d~deL~~HmR----eKHf~C~iC~k~~~~k~~YF~~~~~LekH~R~------------k------ 78 (663)
.-|.+.|..|...|-|.-.|-+|.- .--|+|..|+|. |.-..+|.-|.|. .
T Consensus 264 ~iGdyiCqLCK~kYeD~F~LAQHrC~RIV~vEYrCPEC~KV-------FsCPANLASHRRWHKPR~eaa~a~~~P~k~~~ 336 (500)
T KOG3993|consen 264 VIGDYICQLCKEKYEDAFALAQHRCPRIVHVEYRCPECDKV-------FSCPANLASHRRWHKPRPEAAKAGSPPPKQAV 336 (500)
T ss_pred cHHHHHHHHHHHhhhhHHHHhhccCCeeEEeeecCCccccc-------ccCchhhhhhhcccCCchhhhhcCCCChhhhh
Confidence 4567899999999999999999965 567999999999 9999999999773 0
Q ss_pred -------------------ceecCccccCcccccccccchhhhcccccccCCC
Q 006039 79 -------------------HFLCEDEACLAKKFVVFQSEAEMKRHNAIEHGGR 112 (663)
Q Consensus 79 -------------------hf~Ce~~~C~kkKfVVF~sesdLk~H~r~HHGek 112 (663)
-|.|.. |.++ |.....|+.|+..||...
T Consensus 337 ~~rae~~ea~rsg~dss~gi~~C~~--C~Kk----FrRqAYLrKHqlthq~~~ 383 (500)
T KOG3993|consen 337 ETRAEVQEAERSGDDSSSGIFSCHT--CGKK----FRRQAYLRKHQLTHQRAP 383 (500)
T ss_pred hhhhhhhhccccCCcccCceeecHH--hhhh----hHHHHHHHHhHHhhhccc
Confidence 389999 9999 999999999999998654
No 20
>PHA00732 hypothetical protein
Probab=96.08 E-value=0.0047 Score=54.01 Aligned_cols=43 Identities=23% Similarity=0.461 Sum_probs=36.0
Q ss_pred CcCCCCCCccCCchhHHhhhc--CCCccCCCCCCCCCCCccccCCchhhhccccc
Q 006039 25 PMCEFCRTPFYGDNELYTHMS--TEHYTCHICQRQHPGQYEYYKNYDDLEIHFRR 77 (663)
Q Consensus 25 P~C~fC~KrF~d~deL~~HmR--eKHf~C~iC~k~~~~k~~YF~~~~~LekH~R~ 77 (663)
+.|..|++.|.....|..|++ ..++.|.+|++. |. .|..|+..
T Consensus 2 y~C~~Cgk~F~s~s~Lk~H~r~~H~~~~C~~CgKs-------F~---~l~~H~~~ 46 (79)
T PHA00732 2 FKCPICGFTTVTLFALKQHARRNHTLTKCPVCNKS-------YR---RLNQHFYS 46 (79)
T ss_pred ccCCCCCCccCCHHHHHHHhhcccCCCccCCCCCE-------eC---Chhhhhcc
Confidence 469999999999999999987 456799999998 66 58888865
No 21
>PHA02768 hypothetical protein; Provisional
Probab=95.83 E-value=0.0029 Score=52.01 Aligned_cols=43 Identities=21% Similarity=0.439 Sum_probs=37.2
Q ss_pred CccCCCCCCCCCCCccccCCchhhhccccc--cceecCccccCcccccccccchhhhc
Q 006039 48 HYTCHICQRQHPGQYEYYKNYDDLEIHFRR--DHFLCEDEACLAKKFVVFQSEAEMKR 103 (663)
Q Consensus 48 Hf~C~iC~k~~~~k~~YF~~~~~LekH~R~--khf~Ce~~~C~kkKfVVF~sesdLk~ 103 (663)
-|.|.+|++. |....+|..|+++ ++|.|.. |.+. |...+.|..
T Consensus 5 ~y~C~~CGK~-------Fs~~~~L~~H~r~H~k~~kc~~--C~k~----f~~~s~l~~ 49 (55)
T PHA02768 5 GYECPICGEI-------YIKRKSMITHLRKHNTNLKLSN--CKRI----SLRTGEYIE 49 (55)
T ss_pred ccCcchhCCe-------eccHHHHHHHHHhcCCcccCCc--ccce----ecccceeEE
Confidence 4899999999 9999999999998 6899998 9987 887776653
No 22
>PLN03086 PRLI-interacting factor K; Provisional
Probab=95.76 E-value=0.0055 Score=70.37 Aligned_cols=77 Identities=17% Similarity=0.314 Sum_probs=56.2
Q ss_pred CcCCCCCCccCCchhHHhhhc----CCCccCCCCCCCCCC---CccccCCchhhhccccc---cceecCccccCcccccc
Q 006039 25 PMCEFCRTPFYGDNELYTHMS----TEHYTCHICQRQHPG---QYEYYKNYDDLEIHFRR---DHFLCEDEACLAKKFVV 94 (663)
Q Consensus 25 P~C~fC~KrF~d~deL~~HmR----eKHf~C~iC~k~~~~---k~~YF~~~~~LekH~R~---khf~Ce~~~C~kkKfVV 94 (663)
..|. |++.| ....|..|+. .+++.|.+|++.-.. ..+|=..+..|..|... +|+.|.. |++.
T Consensus 479 v~Cp-Cg~~~-~R~~L~~H~~thCp~Kpi~C~fC~~~v~~g~~~~d~~d~~s~Lt~HE~~CG~rt~~C~~--Cgk~---- 550 (567)
T PLN03086 479 LQCP-CGVVL-EKEQMVQHQASTCPLRLITCRFCGDMVQAGGSAMDVRDRLRGMSEHESICGSRTAPCDS--CGRS---- 550 (567)
T ss_pred ccCC-CCCCc-chhHHHhhhhccCCCCceeCCCCCCccccCccccchhhhhhhHHHHHHhcCCcceEccc--cCCe----
Confidence 4799 99755 6789999977 799999999997100 00111135589999876 8999988 9985
Q ss_pred cccchhhhcccccccC
Q 006039 95 FQSEAEMKRHNAIEHG 110 (663)
Q Consensus 95 F~sesdLk~H~r~HHG 110 (663)
....+|..|+...|.
T Consensus 551 -Vrlrdm~~H~~~~h~ 565 (567)
T PLN03086 551 -VMLKEMDIHQIAVHQ 565 (567)
T ss_pred -eeehhHHHHHHHhhc
Confidence 455788899887765
No 23
>KOG2231 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=95.59 E-value=0.0059 Score=71.09 Aligned_cols=70 Identities=24% Similarity=0.455 Sum_probs=58.5
Q ss_pred CccCCchhHHhhhc---------CCCccCCCCCCCCCCCccccCCchhhhccccccceecCccccC--cccccccccchh
Q 006039 32 TPFYGDNELYTHMS---------TEHYTCHICQRQHPGQYEYYKNYDDLEIHFRRDHFLCEDEACL--AKKFVVFQSEAE 100 (663)
Q Consensus 32 KrF~d~deL~~HmR---------eKHf~C~iC~k~~~~k~~YF~~~~~LekH~R~khf~Ce~~~C~--kkKfVVF~sesd 100 (663)
...|...+|..|+. +-|-.|.+|... |.....|.+|++..||.|.. |. ....++|....+
T Consensus 157 ~k~Yt~~el~~h~~~gd~d~~s~rGhp~C~~C~~~-------fld~~el~rH~~~~h~~chf--C~~~~~~neyy~~~~d 227 (669)
T KOG2231|consen 157 RKLYTRAELNLHLMFGDPDDESCRGHPLCKFCHER-------FLDDDELYRHLRFDHEFCHF--CDYKTGQNEYYNDYDD 227 (669)
T ss_pred eehehHHHHHHHHhcCCCccccccCCccchhhhhh-------hccHHHHHHhhccceeheee--cCcccccchhcccchH
Confidence 36678888999987 346789999887 99999999999999999999 95 223357999999
Q ss_pred hhcccccccC
Q 006039 101 MKRHNAIEHG 110 (663)
Q Consensus 101 Lk~H~r~HHG 110 (663)
|..|.+.+|-
T Consensus 228 Le~HfR~~Hf 237 (669)
T KOG2231|consen 228 LEEHFRKGHF 237 (669)
T ss_pred HHHHhhhcCc
Confidence 9999999885
No 24
>PF05605 zf-Di19: Drought induced 19 protein (Di19), zinc-binding; InterPro: IPR008598 This entry consists of several drought induced 19 (Di19) like and RING finger 114 proteins. Di19 has been found to be strongly expressed in both the roots and leaves of Arabidopsis thaliana during progressive drought [], whilst RING finger proteins are thought to play a role in spermatogenesis. The precise function is unknown.
Probab=95.48 E-value=0.0075 Score=48.54 Aligned_cols=32 Identities=22% Similarity=0.659 Sum_probs=24.3
Q ss_pred CcCCCCCCccCCchhHHhhhcC------CCccCCCCCCC
Q 006039 25 PMCEFCRTPFYGDNELYTHMST------EHYTCHICQRQ 57 (663)
Q Consensus 25 P~C~fC~KrF~d~deL~~HmRe------KHf~C~iC~k~ 57 (663)
+.|.+|++ ..+...|..|+.+ +.+.|.+|...
T Consensus 3 f~CP~C~~-~~~~~~L~~H~~~~H~~~~~~v~CPiC~~~ 40 (54)
T PF05605_consen 3 FTCPYCGK-GFSESSLVEHCEDEHRSESKNVVCPICSSR 40 (54)
T ss_pred cCCCCCCC-ccCHHHHHHHHHhHCcCCCCCccCCCchhh
Confidence 67999999 6788899999873 34667777664
No 25
>PHA00732 hypothetical protein
Probab=94.58 E-value=0.021 Score=49.97 Aligned_cols=44 Identities=23% Similarity=0.419 Sum_probs=37.6
Q ss_pred CccCCCCCCCCCCCccccCCchhhhccccc--cceecCccccCcccccccccchhhhccccc
Q 006039 48 HYTCHICQRQHPGQYEYYKNYDDLEIHFRR--DHFLCEDEACLAKKFVVFQSEAEMKRHNAI 107 (663)
Q Consensus 48 Hf~C~iC~k~~~~k~~YF~~~~~LekH~R~--khf~Ce~~~C~kkKfVVF~sesdLk~H~r~ 107 (663)
+|.|.+|++. |.+...|..|++. .++.|.. |++. |. .|..|++.
T Consensus 1 py~C~~Cgk~-------F~s~s~Lk~H~r~~H~~~~C~~--CgKs----F~---~l~~H~~~ 46 (79)
T PHA00732 1 MFKCPICGFT-------TVTLFALKQHARRNHTLTKCPV--CNKS----YR---RLNQHFYS 46 (79)
T ss_pred CccCCCCCCc-------cCCHHHHHHHhhcccCCCccCC--CCCE----eC---Chhhhhcc
Confidence 5899999999 9999999999974 5689999 9998 76 57888743
No 26
>COG5189 SFP1 Putative transcriptional repressor regulating G2/M transition [Transcription / Cell division and chromosome partitioning]
Probab=93.79 E-value=0.043 Score=59.04 Aligned_cols=48 Identities=27% Similarity=0.699 Sum_probs=38.7
Q ss_pred CCCccCCC--CCCCCCCCccccCCchhhhccccc-----------------------cceecCccccCcccccccccchh
Q 006039 46 TEHYTCHI--CQRQHPGQYEYYKNYDDLEIHFRR-----------------------DHFLCEDEACLAKKFVVFQSEAE 100 (663)
Q Consensus 46 eKHf~C~i--C~k~~~~k~~YF~~~~~LekH~R~-----------------------khf~Ce~~~C~kkKfVVF~sesd 100 (663)
+|+|+|.+ |+|. |++..-|+-|+.. +||.|+. |.++ |..-.-
T Consensus 347 ~KpykCpV~gC~K~-------YknqnGLKYH~lhGH~~~~~~~~p~p~~~~~F~~~~KPYrCev--C~KR----YKNlNG 413 (423)
T COG5189 347 GKPYKCPVEGCNKK-------YKNQNGLKYHMLHGHQNQKLHENPSPEKMNIFSAKDKPYRCEV--CDKR----YKNLNG 413 (423)
T ss_pred CceecCCCCCchhh-------hccccchhhhhhccccCcccCCCCCccccccccccCCceeccc--cchh----hccCcc
Confidence 58999987 7777 7777777666542 7899999 9999 999999
Q ss_pred hhcccc
Q 006039 101 MKRHNA 106 (663)
Q Consensus 101 Lk~H~r 106 (663)
|+.|..
T Consensus 414 LKYHr~ 419 (423)
T COG5189 414 LKYHRK 419 (423)
T ss_pred ceeccc
Confidence 999854
No 27
>COG5189 SFP1 Putative transcriptional repressor regulating G2/M transition [Transcription / Cell division and chromosome partitioning]
Probab=93.19 E-value=0.039 Score=59.38 Aligned_cols=45 Identities=31% Similarity=0.739 Sum_probs=39.9
Q ss_pred CcCCC--CCCccCCchhHHhhhc-----------------------CCCccCCCCCCCCCCCccccCCchhhhcccc
Q 006039 25 PMCEF--CRTPFYGDNELYTHMS-----------------------TEHYTCHICQRQHPGQYEYYKNYDDLEIHFR 76 (663)
Q Consensus 25 P~C~f--C~KrF~d~deL~~HmR-----------------------eKHf~C~iC~k~~~~k~~YF~~~~~LekH~R 76 (663)
+.|.. |+|.|.....|+.||. +|||+|.+|+|. |++..-|+-|..
T Consensus 350 ykCpV~gC~K~YknqnGLKYH~lhGH~~~~~~~~p~p~~~~~F~~~~KPYrCevC~KR-------YKNlNGLKYHr~ 419 (423)
T COG5189 350 YKCPVEGCNKKYKNQNGLKYHMLHGHQNQKLHENPSPEKMNIFSAKDKPYRCEVCDKR-------YKNLNGLKYHRK 419 (423)
T ss_pred ecCCCCCchhhhccccchhhhhhccccCcccCCCCCccccccccccCCceeccccchh-------hccCccceeccc
Confidence 46775 9999999999999986 488999999999 999999999864
No 28
>PHA00616 hypothetical protein
Probab=93.11 E-value=0.031 Score=44.16 Aligned_cols=21 Identities=24% Similarity=0.396 Sum_probs=16.1
Q ss_pred CcCCCCCCccCCchhHHhhhc
Q 006039 25 PMCEFCRTPFYGDNELYTHMS 45 (663)
Q Consensus 25 P~C~fC~KrF~d~deL~~HmR 45 (663)
++|..|++.|....+|.+|++
T Consensus 2 YqC~~CG~~F~~~s~l~~H~r 22 (44)
T PHA00616 2 YQCLRCGGIFRKKKEVIEHLL 22 (44)
T ss_pred CccchhhHHHhhHHHHHHHHH
Confidence 567777777777777777777
No 29
>PHA00616 hypothetical protein
Probab=92.95 E-value=0.027 Score=44.46 Aligned_cols=28 Identities=21% Similarity=0.374 Sum_probs=24.1
Q ss_pred ceecCccccCcccccccccchhhhcccccccCCC
Q 006039 79 HFLCEDEACLAKKFVVFQSEAEMKRHNAIEHGGR 112 (663)
Q Consensus 79 hf~Ce~~~C~kkKfVVF~sesdLk~H~r~HHGek 112 (663)
||.|.. |+.. |....+|..|++.|||++
T Consensus 1 pYqC~~--CG~~----F~~~s~l~~H~r~~hg~~ 28 (44)
T PHA00616 1 MYQCLR--CGGI----FRKKKEVIEHLLSVHKQN 28 (44)
T ss_pred CCccch--hhHH----HhhHHHHHHHHHHhcCCC
Confidence 578888 8887 999999999999999885
No 30
>PF13465 zf-H2C2_2: Zinc-finger double domain; PDB: 2EN7_A 1TF6_A 1TF3_A 2ELT_A 2EOS_A 2EN2_A 2DMD_A 2WBS_A 2WBU_A 2EM5_A ....
Probab=92.93 E-value=0.036 Score=38.55 Aligned_cols=18 Identities=33% Similarity=0.798 Sum_probs=12.6
Q ss_pred HHhhhc----CCCccCCCCCCC
Q 006039 40 LYTHMS----TEHYTCHICQRQ 57 (663)
Q Consensus 40 L~~HmR----eKHf~C~iC~k~ 57 (663)
|.+||+ +++|.|.+|++.
T Consensus 2 l~~H~~~H~~~k~~~C~~C~k~ 23 (26)
T PF13465_consen 2 LRRHMRTHTGEKPYKCPYCGKS 23 (26)
T ss_dssp HHHHHHHHSSSSSEEESSSSEE
T ss_pred HHHHhhhcCCCCCCCCCCCcCe
Confidence 455555 777888888776
No 31
>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=92.52 E-value=0.042 Score=36.34 Aligned_cols=20 Identities=30% Similarity=0.687 Sum_probs=14.9
Q ss_pred cCCCCCCccCCchhHHhhhc
Q 006039 26 MCEFCRTPFYGDNELYTHMS 45 (663)
Q Consensus 26 ~C~fC~KrF~d~deL~~HmR 45 (663)
.|..|++.|.....|..||+
T Consensus 2 ~C~~C~~~f~~~~~l~~H~~ 21 (23)
T PF00096_consen 2 KCPICGKSFSSKSNLKRHMR 21 (23)
T ss_dssp EETTTTEEESSHHHHHHHHH
T ss_pred CCCCCCCccCCHHHHHHHHh
Confidence 57777777777777777765
No 32
>PF05605 zf-Di19: Drought induced 19 protein (Di19), zinc-binding; InterPro: IPR008598 This entry consists of several drought induced 19 (Di19) like and RING finger 114 proteins. Di19 has been found to be strongly expressed in both the roots and leaves of Arabidopsis thaliana during progressive drought [], whilst RING finger proteins are thought to play a role in spermatogenesis. The precise function is unknown.
Probab=92.39 E-value=0.055 Score=43.54 Aligned_cols=47 Identities=21% Similarity=0.534 Sum_probs=37.1
Q ss_pred CccCCCCCCCCCCCccccCCchhhhccccc------cceecCccccCcccccccccchhhhcccccccC
Q 006039 48 HYTCHICQRQHPGQYEYYKNYDDLEIHFRR------DHFLCEDEACLAKKFVVFQSEAEMKRHNAIEHG 110 (663)
Q Consensus 48 Hf~C~iC~k~~~~k~~YF~~~~~LekH~R~------khf~Ce~~~C~kkKfVVF~sesdLk~H~r~HHG 110 (663)
.|.|.+|++. |. ...|..|... +.+.|.. |... +. .+|..|+..+|+
T Consensus 2 ~f~CP~C~~~-------~~-~~~L~~H~~~~H~~~~~~v~CPi--C~~~----~~--~~l~~Hl~~~H~ 54 (54)
T PF05605_consen 2 SFTCPYCGKG-------FS-ESSLVEHCEDEHRSESKNVVCPI--CSSR----VT--DNLIRHLNSQHR 54 (54)
T ss_pred CcCCCCCCCc-------cC-HHHHHHHHHhHCcCCCCCccCCC--chhh----hh--hHHHHHHHHhcC
Confidence 5899999994 54 5789999765 4688999 9876 44 399999988874
No 33
>KOG2482 consensus Predicted C2H2-type Zn-finger protein [Transcription]
Probab=91.12 E-value=0.079 Score=57.55 Aligned_cols=21 Identities=33% Similarity=0.645 Sum_probs=19.6
Q ss_pred CcCCCCCCccCCchhHHhhhc
Q 006039 25 PMCEFCRTPFYGDNELYTHMS 45 (663)
Q Consensus 25 P~C~fC~KrF~d~deL~~HmR 45 (663)
.+|-.|.+.|.++..|..|||
T Consensus 196 ~~CLyCekifrdkntLkeHMr 216 (423)
T KOG2482|consen 196 LRCLYCEKIFRDKNTLKEHMR 216 (423)
T ss_pred heeeeeccccCCcHHHHHHHH
Confidence 479999999999999999998
No 34
>KOG3993 consensus Transcription factor (contains Zn finger) [Transcription]
Probab=91.08 E-value=0.055 Score=60.05 Aligned_cols=47 Identities=21% Similarity=0.458 Sum_probs=41.1
Q ss_pred CCcCCCCCCccCCchhHHhhhc-C-----------C-------------------------CccCCCCCCCCCCCccccC
Q 006039 24 HPMCEFCRTPFYGDNELYTHMS-T-----------E-------------------------HYTCHICQRQHPGQYEYYK 66 (663)
Q Consensus 24 HP~C~fC~KrF~d~deL~~HmR-e-----------K-------------------------Hf~C~iC~k~~~~k~~YF~ 66 (663)
.|.|..|+|.|.--.+|-.|.| . . -|.|++|++. |+
T Consensus 295 EYrCPEC~KVFsCPANLASHRRWHKPR~eaa~a~~~P~k~~~~~rae~~ea~rsg~dss~gi~~C~~C~Kk-------Fr 367 (500)
T KOG3993|consen 295 EYRCPECDKVFSCPANLASHRRWHKPRPEAAKAGSPPPKQAVETRAEVQEAERSGDDSSSGIFSCHTCGKK-------FR 367 (500)
T ss_pred eecCCcccccccCchhhhhhhcccCCchhhhhcCCCChhhhhhhhhhhhhccccCCcccCceeecHHhhhh-------hH
Confidence 3789999999999999999988 0 1 1789999999 99
Q ss_pred Cchhhhccccc
Q 006039 67 NYDDLEIHFRR 77 (663)
Q Consensus 67 ~~~~LekH~R~ 77 (663)
...+|++|+..
T Consensus 368 RqAYLrKHqlt 378 (500)
T KOG3993|consen 368 RQAYLRKHQLT 378 (500)
T ss_pred HHHHHHHhHHh
Confidence 99999999765
No 35
>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=90.12 E-value=0.13 Score=33.38 Aligned_cols=20 Identities=35% Similarity=0.748 Sum_probs=12.7
Q ss_pred cCCCCCCccCCchhHHhhhc
Q 006039 26 MCEFCRTPFYGDNELYTHMS 45 (663)
Q Consensus 26 ~C~fC~KrF~d~deL~~HmR 45 (663)
.|.+|++.|.+...|..|++
T Consensus 2 ~C~~C~~~~~~~~~l~~H~~ 21 (24)
T PF13894_consen 2 QCPICGKSFRSKSELRQHMR 21 (24)
T ss_dssp E-SSTS-EESSHHHHHHHHH
T ss_pred CCcCCCCcCCcHHHHHHHHH
Confidence 57777777777777777765
No 36
>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=89.25 E-value=0.13 Score=33.29 Aligned_cols=24 Identities=33% Similarity=0.722 Sum_probs=13.4
Q ss_pred eecCccccCcccccccccchhhhccccccc
Q 006039 80 FLCEDEACLAKKFVVFQSEAEMKRHNAIEH 109 (663)
Q Consensus 80 f~Ce~~~C~kkKfVVF~sesdLk~H~r~HH 109 (663)
|.|.. |... |.+..+|..|++.||
T Consensus 1 ~~C~~--C~~~----~~~~~~l~~H~~~~H 24 (24)
T PF13894_consen 1 FQCPI--CGKS----FRSKSELRQHMRTHH 24 (24)
T ss_dssp EE-SS--TS-E----ESSHHHHHHHHHHHS
T ss_pred CCCcC--CCCc----CCcHHHHHHHHHhhC
Confidence 45555 6655 666666666666554
No 37
>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=89.25 E-value=0.12 Score=34.21 Aligned_cols=22 Identities=32% Similarity=0.623 Sum_probs=13.4
Q ss_pred eecCccccCcccccccccchhhhccccc
Q 006039 80 FLCEDEACLAKKFVVFQSEAEMKRHNAI 107 (663)
Q Consensus 80 f~Ce~~~C~kkKfVVF~sesdLk~H~r~ 107 (663)
|.|.. |++. |.+...|+.|++.
T Consensus 1 y~C~~--C~~~----f~~~~~l~~H~~~ 22 (23)
T PF00096_consen 1 YKCPI--CGKS----FSSKSNLKRHMRR 22 (23)
T ss_dssp EEETT--TTEE----ESSHHHHHHHHHH
T ss_pred CCCCC--CCCc----cCCHHHHHHHHhH
Confidence 45555 6665 6666666666654
No 38
>PF13912 zf-C2H2_6: C2H2-type zinc finger; PDB: 1JN7_A 1FU9_A 2L1O_A 1NJQ_A 2EN8_A 2EMM_A 1FV5_A 1Y0J_B 2L6Z_B.
Probab=88.57 E-value=0.18 Score=34.60 Aligned_cols=26 Identities=23% Similarity=0.569 Sum_probs=18.9
Q ss_pred ceecCccccCcccccccccchhhhcccccccC
Q 006039 79 HFLCEDEACLAKKFVVFQSEAEMKRHNAIEHG 110 (663)
Q Consensus 79 hf~Ce~~~C~kkKfVVF~sesdLk~H~r~HHG 110 (663)
+|.|.. |.+. |.+...|..|++.|+.
T Consensus 1 ~~~C~~--C~~~----F~~~~~l~~H~~~h~~ 26 (27)
T PF13912_consen 1 PFECDE--CGKT----FSSLSALREHKRSHCS 26 (27)
T ss_dssp SEEETT--TTEE----ESSHHHHHHHHCTTTT
T ss_pred CCCCCc--cCCc----cCChhHHHHHhHHhcC
Confidence 467777 7777 7777778888777653
No 39
>COG5602 SIN3 Histone deacetylase complex, SIN3 component [Chromatin structure and dynamics]
Probab=88.57 E-value=2.9 Score=50.64 Aligned_cols=61 Identities=18% Similarity=0.304 Sum_probs=55.2
Q ss_pred HHHHHHHHHhcCChHHHHHHHHHHHhhhcCcccHHHHHHHHHHhchh--hhHHHHHHhCCChH
Q 006039 397 SLVERMRAAFEYDEDKYTAFKDITAQYRQGLIDTRKYLEYVKQYGLS--HLVLELARLCPDAL 457 (663)
Q Consensus 397 ~LVe~Ir~~L~~de~~~~~Fk~~s~~yr~G~i~a~~Y~~~v~~~Gl~--~lvpELarLlPD~~ 457 (663)
..|.+|+..+..+.+.|..|.++-+.|+..+.+.+|.|..|.++=.. .|.-|..++|||-.
T Consensus 274 ~~vnkVK~r~~~~pe~y~~fl~~Lrtyq~~qr~i~ev~~~Vt~lfa~~PdLleeFk~FLPd~~ 336 (1163)
T COG5602 274 IFVNKVKVRFQNNPEMYYDFLDSLRTYQMKQRSIQEVYARVTKLFAEAPDLLEEFKEFLPDSS 336 (1163)
T ss_pred HHHHHHHHhcCCCchhHHHHHHHHHHHHhhhccHHHHHHHHHHHHhhChHHHHHHHHhCcccc
Confidence 46899999999999999999999999999999999999999766555 39999999999964
No 40
>PF13912 zf-C2H2_6: C2H2-type zinc finger; PDB: 1JN7_A 1FU9_A 2L1O_A 1NJQ_A 2EN8_A 2EMM_A 1FV5_A 1Y0J_B 2L6Z_B.
Probab=87.28 E-value=0.22 Score=34.15 Aligned_cols=21 Identities=24% Similarity=0.384 Sum_probs=17.3
Q ss_pred CcCCCCCCccCCchhHHhhhc
Q 006039 25 PMCEFCRTPFYGDNELYTHMS 45 (663)
Q Consensus 25 P~C~fC~KrF~d~deL~~HmR 45 (663)
+.|..|++.|.+...|..|++
T Consensus 2 ~~C~~C~~~F~~~~~l~~H~~ 22 (27)
T PF13912_consen 2 FECDECGKTFSSLSALREHKR 22 (27)
T ss_dssp EEETTTTEEESSHHHHHHHHC
T ss_pred CCCCccCCccCChhHHHHHhH
Confidence 368888888888888888885
No 41
>smart00355 ZnF_C2H2 zinc finger.
Probab=86.30 E-value=0.47 Score=30.80 Aligned_cols=20 Identities=30% Similarity=0.547 Sum_probs=15.1
Q ss_pred cCCCCCCccCCchhHHhhhc
Q 006039 26 MCEFCRTPFYGDNELYTHMS 45 (663)
Q Consensus 26 ~C~fC~KrF~d~deL~~HmR 45 (663)
.|..|++.|.....|..|++
T Consensus 2 ~C~~C~~~f~~~~~l~~H~~ 21 (26)
T smart00355 2 RCPECGKVFKSKSALKEHMR 21 (26)
T ss_pred CCCCCcchhCCHHHHHHHHH
Confidence 57777777777777777775
No 42
>COG5236 Uncharacterized conserved protein, contains RING Zn-finger [General function prediction only]
Probab=85.31 E-value=0.21 Score=54.51 Aligned_cols=65 Identities=25% Similarity=0.402 Sum_probs=40.5
Q ss_pred CchhHHhhhc--------CCCccCCCCCCCCCCCccccCCchhhhccccccceecCccccCccccc---ccccchhhhcc
Q 006039 36 GDNELYTHMS--------TEHYTCHICQRQHPGQYEYYKNYDDLEIHFRRDHFLCEDEACLAKKFV---VFQSEAEMKRH 104 (663)
Q Consensus 36 d~deL~~HmR--------eKHf~C~iC~k~~~~k~~YF~~~~~LekH~R~khf~Ce~~~C~kkKfV---VF~sesdLk~H 104 (663)
....|..|.. +-|-.|-+|... |.+-+.|.+|.|.+|-.|.. |.+...+ .|.+-.+|.+|
T Consensus 200 ~~~~Lr~H~~~G~~e~GFKGHP~C~FC~~~-------FYdDDEL~~HcR~~HE~ChI--CD~v~p~~~QYFK~Y~~Le~H 270 (493)
T COG5236 200 RSSTLRDHKNGGLEEEGFKGHPLCIFCKIY-------FYDDDELRRHCRLRHEACHI--CDMVGPIRYQYFKSYEDLEAH 270 (493)
T ss_pred ecccccccccCCccccCcCCCchhhhccce-------ecChHHHHHHHHhhhhhhhh--hhccCccchhhhhCHHHHHHH
Confidence 3445555654 345667777754 77777777777777777766 6654332 46666677777
Q ss_pred ccccc
Q 006039 105 NAIEH 109 (663)
Q Consensus 105 ~r~HH 109 (663)
.+..|
T Consensus 271 F~~~h 275 (493)
T COG5236 271 FRNAH 275 (493)
T ss_pred hhcCc
Confidence 65443
No 43
>PF12171 zf-C2H2_jaz: Zinc-finger double-stranded RNA-binding; InterPro: IPR022755 This zinc finger is found in archaea and eukaryotes, and is approximately 30 amino acids in length. The mammalian members of this group occur multiple times along the protein, joined by flexible linkers, and are referred to as JAZ - dsRNA-binding ZF protein - zinc-fingers. The JAZ proteins are expressed in all tissues tested and localise in the nucleus, particularly the nucleolus []. JAZ preferentially binds to double-stranded (ds) RNA or RNA/DNA hybrids rather than DNA. In addition to binding double-stranded RNA, these zinc-fingers are required for nucleolar localisation. This entry represents the multiple-adjacent-C2H2 zinc finger, JAZ. ; PDB: 4DGW_A 1ZR9_A.
Probab=84.77 E-value=0.54 Score=32.62 Aligned_cols=21 Identities=33% Similarity=0.668 Sum_probs=14.1
Q ss_pred CcCCCCCCccCCchhHHhhhc
Q 006039 25 PMCEFCRTPFYGDNELYTHMS 45 (663)
Q Consensus 25 P~C~fC~KrF~d~deL~~HmR 45 (663)
+.|..|++.|.+...|..||+
T Consensus 2 ~~C~~C~k~f~~~~~~~~H~~ 22 (27)
T PF12171_consen 2 FYCDACDKYFSSENQLKQHMK 22 (27)
T ss_dssp CBBTTTTBBBSSHHHHHCCTT
T ss_pred CCcccCCCCcCCHHHHHHHHc
Confidence 356677777777777766665
No 44
>PF02671 PAH: Paired amphipathic helix repeat; InterPro: IPR003822 This family contains the paired amphipathic helix (PAH) repeat. The family contains the eukaryotic Sin3 proteins, which have at least three PAH domains (PAH1, PAH2, and PAH3). Sin3 proteins are components of a co-repressor complex that silences transcription, playing important roles in the transition between proliferation and differentiation. Sin3 proteins are recruited to the DNA by various DNA-binding transcription factors such as the Mad family of repressors, Mnt/Rox, PLZF, MeCP2, p53, REST/NRSF, MNFbeta, Sp1, TGIF and Ume6 []. Sin3 acts as a scaffold protein that in turn recruits histone-binding proteins RbAp46/RbAp48 and histone deacetylases HDAC1/HDAC2, which deacetylate the core histones resulting in a repressed state of the chromatin []. The PAH domains are protein-protein interaction domains through which Sin3 fulfils its role as a scaffold. The PAH2 domain of Sin3 can interact with a wide range of unrelated and structurally diverse transcription factors that bind using different interaction motifs. For example, the Sin3 PAH2 domain can interact with the unrelated Mad and HBP1 factors using alternative interaction motifs that involve binding in opposite helical orientations [].; GO: 0006355 regulation of transcription, DNA-dependent, 0005634 nucleus; PDB: 1S5Q_B 2L9S_B 1G1E_B 1S5R_B 2CR7_A 2CZY_A 2LD7_B 2RMR_A 2RMS_A 1PD7_A ....
Probab=84.26 E-value=3.4 Score=32.14 Aligned_cols=45 Identities=27% Similarity=0.462 Sum_probs=38.8
Q ss_pred hHHHHHHHHHHHhhhcCcccHHHHHHHHHHhchh--hhHHHHHHhCC
Q 006039 410 EDKYTAFKDITAQYRQGLIDTRKYLEYVKQYGLS--HLVLELARLCP 454 (663)
Q Consensus 410 e~~~~~Fk~~s~~yr~G~i~a~~Y~~~v~~~Gl~--~lvpELarLlP 454 (663)
++.|.+|-.+-..|.++.|+..+=++-|..|=-. +|+-|..+.+|
T Consensus 1 p~~Y~~FL~il~~y~~~~~~~~~v~~~v~~Ll~~hpdLl~~F~~FlP 47 (47)
T PF02671_consen 1 PEVYNEFLKILNDYKKGRISRSEVIEEVSELLRGHPDLLEEFNRFLP 47 (47)
T ss_dssp HHHHHHHHHHHHHHHCTCSCHHHHHHHHHHHTTT-HHHHHHHHHHSS
T ss_pred ChHHHHHHHHHHHHHhcCCCHHHHHHHHHHHHccCHHHHHHHHhhCc
Confidence 4789999999999999999999999888766333 49999999887
No 45
>PF12874 zf-met: Zinc-finger of C2H2 type; PDB: 1ZU1_A 2KVG_A.
Probab=83.33 E-value=0.44 Score=32.04 Aligned_cols=20 Identities=30% Similarity=0.838 Sum_probs=14.2
Q ss_pred cCCCCCCccCCchhHHhhhc
Q 006039 26 MCEFCRTPFYGDNELYTHMS 45 (663)
Q Consensus 26 ~C~fC~KrF~d~deL~~HmR 45 (663)
.|..|++.|.+...|..|++
T Consensus 2 ~C~~C~~~f~s~~~~~~H~~ 21 (25)
T PF12874_consen 2 YCDICNKSFSSENSLRQHLR 21 (25)
T ss_dssp EETTTTEEESSHHHHHHHHT
T ss_pred CCCCCCCCcCCHHHHHHHHC
Confidence 47777777777777777765
No 46
>COG1198 PriA Primosomal protein N' (replication factor Y) - superfamily II helicase [DNA replication, recombination, and repair]
Probab=82.51 E-value=0.71 Score=55.13 Aligned_cols=60 Identities=23% Similarity=0.414 Sum_probs=45.7
Q ss_pred cCCcccCCCcCCCCCCccC---CchhHHhhhcCCCccCCCCCCCCCCCccccCCchhhhccccccceecCccccCccccc
Q 006039 17 ERGGFMGHPMCEFCRTPFY---GDNELYTHMSTEHYTCHICQRQHPGQYEYYKNYDDLEIHFRRDHFLCEDEACLAKKFV 93 (663)
Q Consensus 17 ~~~GfkGHP~C~fC~KrF~---d~deL~~HmReKHf~C~iC~k~~~~k~~YF~~~~~LekH~R~khf~Ce~~~C~kkKfV 93 (663)
.+.||-.--+|..|+..|. -+..|..|+......||.|++. ...|+.|.. |+....+
T Consensus 428 nRRGys~~l~C~~Cg~v~~Cp~Cd~~lt~H~~~~~L~CH~Cg~~------------------~~~p~~Cp~--Cgs~~L~ 487 (730)
T COG1198 428 NRRGYAPLLLCRDCGYIAECPNCDSPLTLHKATGQLRCHYCGYQ------------------EPIPQSCPE--CGSEHLR 487 (730)
T ss_pred ccCCccceeecccCCCcccCCCCCcceEEecCCCeeEeCCCCCC------------------CCCCCCCCC--CCCCeeE
Confidence 4678888889999997653 4556888888888999999986 235889999 9987444
Q ss_pred ccc
Q 006039 94 VFQ 96 (663)
Q Consensus 94 VF~ 96 (663)
.|.
T Consensus 488 ~~G 490 (730)
T COG1198 488 AVG 490 (730)
T ss_pred Eec
Confidence 443
No 47
>PF12171 zf-C2H2_jaz: Zinc-finger double-stranded RNA-binding; InterPro: IPR022755 This zinc finger is found in archaea and eukaryotes, and is approximately 30 amino acids in length. The mammalian members of this group occur multiple times along the protein, joined by flexible linkers, and are referred to as JAZ - dsRNA-binding ZF protein - zinc-fingers. The JAZ proteins are expressed in all tissues tested and localise in the nucleus, particularly the nucleolus []. JAZ preferentially binds to double-stranded (ds) RNA or RNA/DNA hybrids rather than DNA. In addition to binding double-stranded RNA, these zinc-fingers are required for nucleolar localisation. This entry represents the multiple-adjacent-C2H2 zinc finger, JAZ. ; PDB: 4DGW_A 1ZR9_A.
Probab=81.68 E-value=0.63 Score=32.30 Aligned_cols=22 Identities=18% Similarity=0.721 Sum_probs=15.8
Q ss_pred ccCCCCCCCCCCCccccCCchhhhccccc
Q 006039 49 YTCHICQRQHPGQYEYYKNYDDLEIHFRR 77 (663)
Q Consensus 49 f~C~iC~k~~~~k~~YF~~~~~LekH~R~ 77 (663)
|.|.+|++. |.+...|+.|++.
T Consensus 2 ~~C~~C~k~-------f~~~~~~~~H~~s 23 (27)
T PF12171_consen 2 FYCDACDKY-------FSSENQLKQHMKS 23 (27)
T ss_dssp CBBTTTTBB-------BSSHHHHHCCTTS
T ss_pred CCcccCCCC-------cCCHHHHHHHHcc
Confidence 667777776 7777777777665
No 48
>KOG1146 consensus Homeobox protein [General function prediction only]
Probab=80.59 E-value=0.24 Score=61.42 Aligned_cols=76 Identities=17% Similarity=0.330 Sum_probs=61.5
Q ss_pred cCCCcCCCCCCccCCchhHHhhhc-CCCccCCCCCCCCCCCccccCCchhhhccccc---------------------cc
Q 006039 22 MGHPMCEFCRTPFYGDNELYTHMS-TEHYTCHICQRQHPGQYEYYKNYDDLEIHFRR---------------------DH 79 (663)
Q Consensus 22 kGHP~C~fC~KrF~d~deL~~HmR-eKHf~C~iC~k~~~~k~~YF~~~~~LekH~R~---------------------kh 79 (663)
-|-..|..|++.|...-.+. |+- ..||.|..|... |.....|..|.++ +.
T Consensus 1258 sGe~~c~~~~~~~~~~~~~~-~l~~~~~~~~~~~~~~-------~~~~~~l~~~~~k~~~~~~~~~~~~~~~l~~~d~~~ 1329 (1406)
T KOG1146|consen 1258 SGEGECGAVDELLTPSFGIS-TLDVTHRYLCRQCKMA-------FDGEAPLTAHQRKFCFAGRGSGGSMPPPLRVPDCTY 1329 (1406)
T ss_pred CCcchhhhccccccCcccee-ecccchhHHHHHHHhh-------hcchhHHHHHHHHHHhccCccccCCCCcccCccccc
Confidence 35578999999999888888 877 889999999998 8888888888754 23
Q ss_pred eecCccccCcccccccccchhhhcccccccCCC
Q 006039 80 FLCEDEACLAKKFVVFQSEAEMKRHNAIEHGGR 112 (663)
Q Consensus 80 f~Ce~~~C~kkKfVVF~sesdLk~H~r~HHGek 112 (663)
| |.. |... |....-|..||++-++++
T Consensus 1330 ~-c~~--c~~~----~~~~~alqihm~~~~~~~ 1355 (1406)
T KOG1146|consen 1330 H-CLA--CEVL----LSGREALQIHMRSSAHRR 1355 (1406)
T ss_pred c-chH--HHhh----cchhHHHHHHHHHhhhcc
Confidence 4 776 6554 999999999999876654
No 49
>PF12874 zf-met: Zinc-finger of C2H2 type; PDB: 1ZU1_A 2KVG_A.
Probab=78.00 E-value=0.49 Score=31.81 Aligned_cols=21 Identities=29% Similarity=0.880 Sum_probs=12.1
Q ss_pred ccCCCCCCCCCCCccccCCchhhhcccc
Q 006039 49 YTCHICQRQHPGQYEYYKNYDDLEIHFR 76 (663)
Q Consensus 49 f~C~iC~k~~~~k~~YF~~~~~LekH~R 76 (663)
|.|.+|++. |.+...|+.|++
T Consensus 1 ~~C~~C~~~-------f~s~~~~~~H~~ 21 (25)
T PF12874_consen 1 FYCDICNKS-------FSSENSLRQHLR 21 (25)
T ss_dssp EEETTTTEE-------ESSHHHHHHHHT
T ss_pred CCCCCCCCC-------cCCHHHHHHHHC
Confidence 456666665 555555555554
No 50
>PRK14873 primosome assembly protein PriA; Provisional
Probab=75.88 E-value=1.3 Score=52.55 Aligned_cols=58 Identities=22% Similarity=0.461 Sum_probs=43.9
Q ss_pred cCCcccCCCcCCCCCCccC---CchhHHhhhcCCCccCCCCCCCCCCCccccCCchhhhccccccceecCccccCccccc
Q 006039 17 ERGGFMGHPMCEFCRTPFY---GDNELYTHMSTEHYTCHICQRQHPGQYEYYKNYDDLEIHFRRDHFLCEDEACLAKKFV 93 (663)
Q Consensus 17 ~~~GfkGHP~C~fC~KrF~---d~deL~~HmReKHf~C~iC~k~~~~k~~YF~~~~~LekH~R~khf~Ce~~~C~kkKfV 93 (663)
.+.||.....|..|+..+. -...|..|.......||.|+.. ..++.|.. |+...+.
T Consensus 376 nRrGyap~l~C~~Cg~~~~C~~C~~~L~~h~~~~~l~Ch~CG~~-------------------~~p~~Cp~--Cgs~~l~ 434 (665)
T PRK14873 376 PRRGYVPSLACARCRTPARCRHCTGPLGLPSAGGTPRCRWCGRA-------------------APDWRCPR--CGSDRLR 434 (665)
T ss_pred cCCCCCCeeEhhhCcCeeECCCCCCceeEecCCCeeECCCCcCC-------------------CcCccCCC--CcCCcce
Confidence 6789999999999997543 3446777877778889999985 13778999 9987554
Q ss_pred cc
Q 006039 94 VF 95 (663)
Q Consensus 94 VF 95 (663)
.+
T Consensus 435 ~~ 436 (665)
T PRK14873 435 AV 436 (665)
T ss_pred ee
Confidence 33
No 51
>smart00451 ZnF_U1 U1-like zinc finger. Family of C2H2-type zinc fingers, present in matrin, U1 small nuclear ribonucleoprotein C and other RNA-binding proteins.
Probab=74.96 E-value=2 Score=30.90 Aligned_cols=22 Identities=18% Similarity=0.532 Sum_probs=17.2
Q ss_pred CCcCCCCCCccCCchhHHhhhc
Q 006039 24 HPMCEFCRTPFYGDNELYTHMS 45 (663)
Q Consensus 24 HP~C~fC~KrF~d~deL~~HmR 45 (663)
-+.|+.|++.|.+...+..|+.
T Consensus 3 ~~~C~~C~~~~~~~~~~~~H~~ 24 (35)
T smart00451 3 GFYCKLCNVTFTDEISVEAHLK 24 (35)
T ss_pred CeEccccCCccCCHHHHHHHHC
Confidence 3568888888888888888876
No 52
>PF09538 FYDLN_acid: Protein of unknown function (FYDLN_acid); InterPro: IPR012644 Members of this family are bacterial proteins with a conserved motif [KR]FYDLN, sometimes flanked by a pair of CXXC motifs, followed by a long region of low complexity sequence in which roughly half the residues are Asp and Glu, including multiple runs of five or more acidic residues. The function of members of this family is unknown.
Probab=74.32 E-value=2 Score=39.94 Aligned_cols=26 Identities=23% Similarity=0.645 Sum_probs=19.5
Q ss_pred CcCCCCCCccCCchhHHhhhcCCCccCCCCCCC
Q 006039 25 PMCEFCRTPFYGDNELYTHMSTEHYTCHICQRQ 57 (663)
Q Consensus 25 P~C~fC~KrF~d~deL~~HmReKHf~C~iC~k~ 57 (663)
-.|..|+++||+. .+.|-.|..|+..
T Consensus 10 R~Cp~CG~kFYDL-------nk~PivCP~CG~~ 35 (108)
T PF09538_consen 10 RTCPSCGAKFYDL-------NKDPIVCPKCGTE 35 (108)
T ss_pred ccCCCCcchhccC-------CCCCccCCCCCCc
Confidence 4788899888884 3367778888876
No 53
>PF13465 zf-H2C2_2: Zinc-finger double domain; PDB: 2EN7_A 1TF6_A 1TF3_A 2ELT_A 2EOS_A 2EN2_A 2DMD_A 2WBS_A 2WBU_A 2EM5_A ....
Probab=74.04 E-value=0.98 Score=31.37 Aligned_cols=18 Identities=17% Similarity=0.431 Sum_probs=14.3
Q ss_pred hhccccccceecCccccCcc
Q 006039 71 LEIHFRRDHFLCEDEACLAK 90 (663)
Q Consensus 71 LekH~R~khf~Ce~~~C~kk 90 (663)
+..|..+++|.|.. |.+.
T Consensus 6 ~~~H~~~k~~~C~~--C~k~ 23 (26)
T PF13465_consen 6 MRTHTGEKPYKCPY--CGKS 23 (26)
T ss_dssp HHHHSSSSSEEESS--SSEE
T ss_pred hhhcCCCCCCCCCC--CcCe
Confidence 44555669999999 9987
No 54
>KOG4204 consensus Histone deacetylase complex, SIN3 component [Chromatin structure and dynamics]
Probab=73.29 E-value=22 Score=37.12 Aligned_cols=70 Identities=24% Similarity=0.444 Sum_probs=59.0
Q ss_pred CCHHHHHHHHHHHHHHHHHHhcCChHHHHHHHHHHHhhhcCcccHHHHHHHHHHh--chhhhHHHHHHhCCChHHH
Q 006039 386 PSVENIQAANRSLVERMRAAFEYDEDKYTAFKDITAQYRQGLIDTRKYLEYVKQY--GLSHLVLELARLCPDALKQ 459 (663)
Q Consensus 386 ~~ve~~~aank~LVe~Ir~~L~~de~~~~~Fk~~s~~yr~G~i~a~~Y~~~v~~~--Gl~~lvpELarLlPD~~Kq 459 (663)
+.++|+.+. |..|+..+..++++|.+|=+|=..|+-.-||+.+..+-|.+| |-.+|+-.+-.+||..-|.
T Consensus 17 ~t~~DAlsY----l~~VK~~f~d~p~kY~~FL~im~d~ka~~iD~~~vi~rv~eLfK~h~~Ll~gfN~fLP~~~~i 88 (231)
T KOG4204|consen 17 LTLDDALAY----LKAVKEAFQDEPEKYDEFLEIMKDFKAQRIDTPGVIARVKELLKGHPDLLLGFNTFLPPGYKI 88 (231)
T ss_pred CChHHHHHH----HHHHHHHHhcChHHHHHHHHHHHHHHhccCCHHHHHHHHHHHHccCHHHHHHHHhhCccccee
Confidence 677787765 778888999899999999999999999999999999999887 4445888888888865443
No 55
>TIGR00595 priA primosomal protein N'. All proteins in this family for which functions are known are components of the primosome which is involved in replication, repair, and recombination.This family is based on the phylogenomic analysis of JA Eisen (1999, Ph.D. Thesis, Stanford University).
Probab=72.29 E-value=2 Score=49.09 Aligned_cols=58 Identities=24% Similarity=0.469 Sum_probs=43.2
Q ss_pred cCCcccCCCcCCCCCCccC---CchhHHhhhcCCCccCCCCCCCCCCCccccCCchhhhccccccceecCccccCccccc
Q 006039 17 ERGGFMGHPMCEFCRTPFY---GDNELYTHMSTEHYTCHICQRQHPGQYEYYKNYDDLEIHFRRDHFLCEDEACLAKKFV 93 (663)
Q Consensus 17 ~~~GfkGHP~C~fC~KrF~---d~deL~~HmReKHf~C~iC~k~~~~k~~YF~~~~~LekH~R~khf~Ce~~~C~kkKfV 93 (663)
.+.||.....|..|+.... -...|..|.......||.|+.. ..-+..|.. |+...+.
T Consensus 206 nrrGya~~~~C~~Cg~~~~C~~C~~~l~~h~~~~~l~Ch~Cg~~------------------~~~~~~Cp~--C~s~~l~ 265 (505)
T TIGR00595 206 NRRGYSKNLLCRSCGYILCCPNCDVSLTYHKKEGKLRCHYCGYQ------------------EPIPKTCPQ--CGSEDLV 265 (505)
T ss_pred eCCcCCCeeEhhhCcCccCCCCCCCceEEecCCCeEEcCCCcCc------------------CCCCCCCCC--CCCCeeE
Confidence 5678888889999987543 4456778877788899999986 224678999 9887554
Q ss_pred c
Q 006039 94 V 94 (663)
Q Consensus 94 V 94 (663)
.
T Consensus 266 ~ 266 (505)
T TIGR00595 266 Y 266 (505)
T ss_pred e
Confidence 3
No 56
>smart00355 ZnF_C2H2 zinc finger.
Probab=71.10 E-value=1.5 Score=28.41 Aligned_cols=22 Identities=27% Similarity=0.590 Sum_probs=11.9
Q ss_pred ecCccccCcccccccccchhhhcccccc
Q 006039 81 LCEDEACLAKKFVVFQSEAEMKRHNAIE 108 (663)
Q Consensus 81 ~Ce~~~C~kkKfVVF~sesdLk~H~r~H 108 (663)
.|.. |.+. |.....|..|++.|
T Consensus 2 ~C~~--C~~~----f~~~~~l~~H~~~H 23 (26)
T smart00355 2 RCPE--CGKV----FKSKSALKEHMRTH 23 (26)
T ss_pred CCCC--Ccch----hCCHHHHHHHHHHh
Confidence 4544 5555 55556666665533
No 57
>PF09237 GAGA: GAGA factor; InterPro: IPR015318 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. Members of this entry bind to a 5'-GAGAG-3' DNA consensus binding site, and contain a Cys2-His2 zinc finger core as well as an N-terminal extension containing two highly basic regions. The zinc finger core binds in the DNA major groove and recognises the first three GAG bases of the consensus in a manner similar to that seen in other classical zinc finger-DNA complexes. The second basic region forms a helix that interacts in the major groove recognising the last G of the consensus, while the first basic region wraps around the DNA in the minor groove and recognises the A in the fourth position of the consensus sequence []. More information about these proteins can be found at Protein of the Month: Zinc Fingers [].; PDB: 1YUI_A 1YUJ_A.
Probab=68.82 E-value=0.88 Score=37.38 Aligned_cols=29 Identities=24% Similarity=0.397 Sum_probs=20.2
Q ss_pred cceecCccccCcccccccccchhhhcccccccCCC
Q 006039 78 DHFLCEDEACLAKKFVVFQSEAEMKRHNAIEHGGR 112 (663)
Q Consensus 78 khf~Ce~~~C~kkKfVVF~sesdLk~H~r~HHGek 112 (663)
.|..|.. |... +.+.-+|++|+.++|+.+
T Consensus 23 ~PatCP~--C~a~----~~~srnLrRHle~~H~~k 51 (54)
T PF09237_consen 23 QPATCPI--CGAV----IRQSRNLRRHLEIRHFKK 51 (54)
T ss_dssp --EE-TT--T--E----ESSHHHHHHHHHHHTTTS
T ss_pred CCCCCCc--chhh----ccchhhHHHHHHHHhccc
Confidence 6788888 8876 888899999998888765
No 58
>KOG4173 consensus Alpha-SNAP protein [Intracellular trafficking, secretion, and vesicular transport]
Probab=68.37 E-value=0.57 Score=48.12 Aligned_cols=75 Identities=27% Similarity=0.517 Sum_probs=58.5
Q ss_pred CCcCCC--CCCccCCchhHHhhhcCCC-ccCCCCCCCCCCCccccCCchhhhccccc--------------cceecCccc
Q 006039 24 HPMCEF--CRTPFYGDNELYTHMSTEH-YTCHICQRQHPGQYEYYKNYDDLEIHFRR--------------DHFLCEDEA 86 (663)
Q Consensus 24 HP~C~f--C~KrF~d~deL~~HmReKH-f~C~iC~k~~~~k~~YF~~~~~LekH~R~--------------khf~Ce~~~ 86 (663)
-+.|.. |-+.|-..+....|-...| -.|.+|.+. |-+-.-|..|..+ .-|.|...+
T Consensus 79 ~~~cqvagc~~~~d~lD~~E~hY~~~h~~sCs~C~r~-------~Pt~hLLd~HI~E~HDs~Fqa~veRG~dMy~ClvEg 151 (253)
T KOG4173|consen 79 AFACQVAGCCQVFDALDDYEHHYHTLHGNSCSFCKRA-------FPTGHLLDAHILEWHDSLFQALVERGQDMYQCLVEG 151 (253)
T ss_pred cccccccchHHHHhhhhhHHHhhhhcccchhHHHHHh-------CCchhhhhHHHHHHHHHHHHHHHHcCccHHHHHHHh
Confidence 345765 6677777777666655333 489999998 8888888888765 359999999
Q ss_pred cCcccccccccchhhhccccccc
Q 006039 87 CLAKKFVVFQSEAEMKRHNAIEH 109 (663)
Q Consensus 87 C~kkKfVVF~sesdLk~H~r~HH 109 (663)
|..+ |.+.-+.+.|+...|
T Consensus 152 Ct~K----FkT~r~RkdH~I~~H 170 (253)
T KOG4173|consen 152 CTEK----FKTSRDRKDHMIRMH 170 (253)
T ss_pred hhhh----hhhhhhhhhHHHHhc
Confidence 9999 999999999987665
No 59
>PF12756 zf-C2H2_2: C2H2 type zinc-finger (2 copies); PDB: 2DMI_A.
Probab=67.46 E-value=1.4 Score=37.77 Aligned_cols=38 Identities=21% Similarity=0.591 Sum_probs=16.7
Q ss_pred cCCchhHHhhhc---CCCccCCCCCCCCCCCccccCCchhhhcccccc
Q 006039 34 FYGDNELYTHMS---TEHYTCHICQRQHPGQYEYYKNYDDLEIHFRRD 78 (663)
Q Consensus 34 F~d~deL~~HmR---eKHf~C~iC~k~~~~k~~YF~~~~~LekH~R~k 78 (663)
+.+...|..+++ ..++.|.+|++. |.+...|..|++..
T Consensus 33 l~~~~~~~~~~~~~~~~~~~C~~C~~~-------f~s~~~l~~Hm~~~ 73 (100)
T PF12756_consen 33 LVDPNRLLNYLRKKVKESFRCPYCNKT-------FRSREALQEHMRSK 73 (100)
T ss_dssp ----------------SSEEBSSSS-E-------ESSHHHHHHHHHHT
T ss_pred cccccccccccccccCCCCCCCccCCC-------CcCHHHHHHHHcCc
Confidence 334445555544 335777777776 77777777777653
No 60
>PF13909 zf-H2C2_5: C2H2-type zinc-finger domain; PDB: 1X5W_A.
Probab=67.06 E-value=1.9 Score=28.87 Aligned_cols=24 Identities=25% Similarity=0.537 Sum_probs=15.3
Q ss_pred eecCccccCcccccccccchhhhcccccccC
Q 006039 80 FLCEDEACLAKKFVVFQSEAEMKRHNAIEHG 110 (663)
Q Consensus 80 f~Ce~~~C~kkKfVVF~sesdLk~H~r~HHG 110 (663)
|.|.. |... .. +.+|+.|++.||+
T Consensus 1 y~C~~--C~y~----t~-~~~l~~H~~~~H~ 24 (24)
T PF13909_consen 1 YKCPH--CSYS----TS-KSNLKRHLKRHHP 24 (24)
T ss_dssp EE-SS--SS-E----ES-HHHHHHHHHHHHS
T ss_pred CCCCC--CCCc----CC-HHHHHHHHHhhCc
Confidence 56777 7754 44 7788888887764
No 61
>KOG4204 consensus Histone deacetylase complex, SIN3 component [Chromatin structure and dynamics]
Probab=66.69 E-value=16 Score=38.16 Aligned_cols=62 Identities=21% Similarity=0.391 Sum_probs=53.6
Q ss_pred HHHHHHHHHHhcCChHHHHHHHHHHHhhhcCcccHHHHHHHHHH-hc-hhhhHHHHHHhCCChH
Q 006039 396 RSLVERMRAAFEYDEDKYTAFKDITAQYRQGLIDTRKYLEYVKQ-YG-LSHLVLELARLCPDAL 457 (663)
Q Consensus 396 k~LVe~Ir~~L~~de~~~~~Fk~~s~~yr~G~i~a~~Y~~~v~~-~G-l~~lvpELarLlPD~~ 457 (663)
...|.+|+..+..|++.|..|.+|=.-|+.|..+..+.|..|.. |+ -..|+-|+-+.+|+..
T Consensus 131 ~~fv~klk~rf~~~~~v~~s~l~il~~y~~~~ks~~e~~~eV~~L~~~~~DL~~ef~~~lp~~~ 194 (231)
T KOG4204|consen 131 ISFVNKLKTRFQGDDHVYKSFLEILRMYQEGNKSVSEVYQEVEALLQGHEDLLEEFSHFLPTDP 194 (231)
T ss_pred HHHHHHHHHHhcCCHHHHHHHHHHHHHHhhccchHHHHHHHHHHHHccCHHHHHHHHhhccCCc
Confidence 47899999999999999999999999999999999999977754 43 3359999998988853
No 62
>PF09237 GAGA: GAGA factor; InterPro: IPR015318 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. Members of this entry bind to a 5'-GAGAG-3' DNA consensus binding site, and contain a Cys2-His2 zinc finger core as well as an N-terminal extension containing two highly basic regions. The zinc finger core binds in the DNA major groove and recognises the first three GAG bases of the consensus in a manner similar to that seen in other classical zinc finger-DNA complexes. The second basic region forms a helix that interacts in the major groove recognising the last G of the consensus, while the first basic region wraps around the DNA in the minor groove and recognises the A in the fourth position of the consensus sequence []. More information about these proteins can be found at Protein of the Month: Zinc Fingers [].; PDB: 1YUI_A 1YUJ_A.
Probab=66.28 E-value=3.1 Score=34.32 Aligned_cols=31 Identities=26% Similarity=0.500 Sum_probs=21.7
Q ss_pred hhc-CCCccCCCCCCCCCCCccccCCchhhhccccccce
Q 006039 43 HMS-TEHYTCHICQRQHPGQYEYYKNYDDLEIHFRRDHF 80 (663)
Q Consensus 43 HmR-eKHf~C~iC~k~~~~k~~YF~~~~~LekH~R~khf 80 (663)
|++ +.|-.|.+|+.. +....+|++|+...|+
T Consensus 18 ~~~S~~PatCP~C~a~-------~~~srnLrRHle~~H~ 49 (54)
T PF09237_consen 18 KSQSEQPATCPICGAV-------IRQSRNLRRHLEIRHF 49 (54)
T ss_dssp CCTTS--EE-TTT--E-------ESSHHHHHHHHHHHTT
T ss_pred hhccCCCCCCCcchhh-------ccchhhHHHHHHHHhc
Confidence 444 788999999999 9999999999977554
No 63
>PRK05580 primosome assembly protein PriA; Validated
Probab=65.79 E-value=3.2 Score=49.22 Aligned_cols=58 Identities=24% Similarity=0.410 Sum_probs=42.1
Q ss_pred cCCcccCCCcCCCCCCcc---CCchhHHhhhcCCCccCCCCCCCCCCCccccCCchhhhccccccceecCccccCccccc
Q 006039 17 ERGGFMGHPMCEFCRTPF---YGDNELYTHMSTEHYTCHICQRQHPGQYEYYKNYDDLEIHFRRDHFLCEDEACLAKKFV 93 (663)
Q Consensus 17 ~~~GfkGHP~C~fC~KrF---~d~deL~~HmReKHf~C~iC~k~~~~k~~YF~~~~~LekH~R~khf~Ce~~~C~kkKfV 93 (663)
.+.|+.....|..|+..+ .-...|..|.......||.|+.. ...+..|.. |+...+.
T Consensus 374 nrrGy~~~~~C~~Cg~~~~C~~C~~~l~~h~~~~~l~Ch~Cg~~------------------~~~~~~Cp~--Cg~~~l~ 433 (679)
T PRK05580 374 NRRGYAPFLLCRDCGWVAECPHCDASLTLHRFQRRLRCHHCGYQ------------------EPIPKACPE--CGSTDLV 433 (679)
T ss_pred cCCCCCCceEhhhCcCccCCCCCCCceeEECCCCeEECCCCcCC------------------CCCCCCCCC--CcCCeeE
Confidence 567888889999999654 23446777777777889999986 123667998 9876444
Q ss_pred c
Q 006039 94 V 94 (663)
Q Consensus 94 V 94 (663)
.
T Consensus 434 ~ 434 (679)
T PRK05580 434 P 434 (679)
T ss_pred E
Confidence 3
No 64
>KOG2932 consensus E3 ubiquitin ligase involved in ubiquitination of E-cadherin complex [Posttranslational modification, protein turnover, chaperones]
Probab=65.12 E-value=2.8 Score=45.52 Aligned_cols=83 Identities=24% Similarity=0.444 Sum_probs=54.8
Q ss_pred cccCCCcCCCCCCccCCchhHHhhhc-CCCccCCCCCCCCCCCccccCCchhhhccc--cccceecCccc-cCccccccc
Q 006039 20 GFMGHPMCEFCRTPFYGDNELYTHMS-TEHYTCHICQRQHPGQYEYYKNYDDLEIHF--RRDHFLCEDEA-CLAKKFVVF 95 (663)
Q Consensus 20 GfkGHP~C~fC~KrF~d~deL~~HmR-eKHf~C~iC~k~~~~k~~YF~~~~~LekH~--R~khf~Ce~~~-C~kkKfVVF 95 (663)
|-+.| .|+.|++-..- |--|. -||-+|-.|.+.++.|.=|--+..-+++-+ +.--|.|.-.. |.+. |
T Consensus 87 ~p~VH-fCd~Cd~PI~I----YGRmIPCkHvFCl~CAr~~~dK~Cp~C~d~VqrIeq~~~g~iFmC~~~~GC~RT----y 157 (389)
T KOG2932|consen 87 GPRVH-FCDRCDFPIAI----YGRMIPCKHVFCLECARSDSDKICPLCDDRVQRIEQIMMGGIFMCAAPHGCLRT----Y 157 (389)
T ss_pred CcceE-eecccCCccee----eecccccchhhhhhhhhcCccccCcCcccHHHHHHHhcccceEEeecchhHHHH----H
Confidence 45566 58888865422 22233 588889999887654444444433333332 22679997765 9998 9
Q ss_pred ccchhhhcccccccCC
Q 006039 96 QSEAEMKRHNAIEHGG 111 (663)
Q Consensus 96 ~sesdLk~H~r~HHGe 111 (663)
.++.||.+|..-.|+.
T Consensus 158 LsqrDlqAHInhrH~~ 173 (389)
T KOG2932|consen 158 LSQRDLQAHINHRHGS 173 (389)
T ss_pred hhHHHHHHHhhhhhcc
Confidence 9999999998776764
No 65
>smart00531 TFIIE Transcription initiation factor IIE.
Probab=64.19 E-value=3.4 Score=39.80 Aligned_cols=34 Identities=24% Similarity=0.625 Sum_probs=21.1
Q ss_pred CCccCCCCCCCCCCCccccCCchhhhc-cccccceecCccccCcc
Q 006039 47 EHYTCHICQRQHPGQYEYYKNYDDLEI-HFRRDHFLCEDEACLAK 90 (663)
Q Consensus 47 KHf~C~iC~k~~~~k~~YF~~~~~Lek-H~R~khf~Ce~~~C~kk 90 (663)
.-|.|..|+.. |.....+.. +. ...|.|+. |+..
T Consensus 98 ~~Y~Cp~C~~~-------y~~~ea~~~~d~-~~~f~Cp~--Cg~~ 132 (147)
T smart00531 98 AYYKCPNCQSK-------YTFLEANQLLDM-DGTFTCPR--CGEE 132 (147)
T ss_pred cEEECcCCCCE-------eeHHHHHHhcCC-CCcEECCC--CCCE
Confidence 35778888776 555444443 33 44588877 8775
No 66
>PF13913 zf-C2HC_2: zinc-finger of a C2HC-type
Probab=62.62 E-value=4.7 Score=28.04 Aligned_cols=19 Identities=26% Similarity=0.599 Sum_probs=13.9
Q ss_pred cCCCCCCccCCchhHHhhhc
Q 006039 26 MCEFCRTPFYGDNELYTHMS 45 (663)
Q Consensus 26 ~C~fC~KrF~d~deL~~HmR 45 (663)
.|..|++.| ..+.|.+|+.
T Consensus 4 ~C~~CgR~F-~~~~l~~H~~ 22 (25)
T PF13913_consen 4 PCPICGRKF-NPDRLEKHEK 22 (25)
T ss_pred cCCCCCCEE-CHHHHHHHHH
Confidence 578888887 6667777764
No 67
>KOG3408 consensus U1-like Zn-finger-containing protein, probabl erole in RNA processing/splicing [RNA processing and modification]
Probab=61.05 E-value=3.4 Score=39.37 Aligned_cols=23 Identities=30% Similarity=0.512 Sum_probs=12.9
Q ss_pred CCCcCCCCCCccCCchhHHhhhc
Q 006039 23 GHPMCEFCRTPFYGDNELYTHMS 45 (663)
Q Consensus 23 GHP~C~fC~KrF~d~deL~~HmR 45 (663)
|++-|-.|.+.|.+...|..|.+
T Consensus 56 GqfyCi~CaRyFi~~~~l~~H~k 78 (129)
T KOG3408|consen 56 GQFYCIECARYFIDAKALKTHFK 78 (129)
T ss_pred ceeehhhhhhhhcchHHHHHHHh
Confidence 33445556666666666655555
No 68
>TIGR02300 FYDLN_acid conserved hypothetical protein TIGR02300. Members of this family are bacterial proteins with a conserved motif [KR]FYDLN, sometimes flanked by a pair of CXXC motifs, followed by a long region of low complexity sequence in which roughly half the residues are Asp and Glu, including multiple runs of five or more acidic residues. The function of members of this family is unknown.
Probab=60.05 E-value=5.9 Score=38.10 Aligned_cols=26 Identities=15% Similarity=0.226 Sum_probs=20.0
Q ss_pred CcCCCCCCccCCchhHHhhhcCCCccCCCCCCC
Q 006039 25 PMCEFCRTPFYGDNELYTHMSTEHYTCHICQRQ 57 (663)
Q Consensus 25 P~C~fC~KrF~d~deL~~HmReKHf~C~iC~k~ 57 (663)
..|..|+++||+. .+.|-.|..|+..
T Consensus 10 r~Cp~cg~kFYDL-------nk~p~vcP~cg~~ 35 (129)
T TIGR02300 10 RICPNTGSKFYDL-------NRRPAVSPYTGEQ 35 (129)
T ss_pred ccCCCcCcccccc-------CCCCccCCCcCCc
Confidence 5788999999873 3467788888876
No 69
>KOG2893 consensus Zn finger protein [General function prediction only]
Probab=59.56 E-value=3.4 Score=43.51 Aligned_cols=68 Identities=21% Similarity=0.312 Sum_probs=58.6
Q ss_pred ccCCCCCCCCCCCccccCCchhhhccccccceecCccccCcccccccccchhhhcccccccCCCCChhhhhccccccccc
Q 006039 49 YTCHICQRQHPGQYEYYKNYDDLEIHFRRDHFLCEDEACLAKKFVVFQSEAEMKRHNAIEHGGRMSRAKRNAALQIPICF 128 (663)
Q Consensus 49 f~C~iC~k~~~~k~~YF~~~~~LekH~R~khf~Ce~~~C~kkKfVVF~sesdLk~H~r~HHGek~sr~~r~~a~~i~~~f 128 (663)
-.|-+|.+. |.+..-|..|++.+||.|.. |-++ .-+---|..|....|.|.+.+.+....-+.++..
T Consensus 11 pwcwycnre-------fddekiliqhqkakhfkchi--chkk----l~sgpglsihcmqvhketid~ip~av~gr~~i~v 77 (341)
T KOG2893|consen 11 PWCWYCNRE-------FDDEKILIQHQKAKHFKCHI--CHKK----LFSGPGLSIHCMQVHKETIDKIPAAVHGRDNIHV 77 (341)
T ss_pred ceeeecccc-------cchhhhhhhhhhhccceeee--ehhh----hccCCCceeehhhhhhhhhhcccccccCCcceeE
Confidence 359999999 99999999999999999999 9999 6677889999999999988888777766666654
Q ss_pred c
Q 006039 129 R 129 (663)
Q Consensus 129 ~ 129 (663)
.
T Consensus 78 e 78 (341)
T KOG2893|consen 78 E 78 (341)
T ss_pred E
Confidence 3
No 70
>KOG1146 consensus Homeobox protein [General function prediction only]
Probab=58.16 E-value=5.2 Score=50.40 Aligned_cols=68 Identities=16% Similarity=0.303 Sum_probs=46.5
Q ss_pred CCCCCCccCCchhHHhhhc-----CCCccCCCCCCCCCCCccccCCchhhhccccc------------------------
Q 006039 27 CEFCRTPFYGDNELYTHMS-----TEHYTCHICQRQHPGQYEYYKNYDDLEIHFRR------------------------ 77 (663)
Q Consensus 27 C~fC~KrF~d~deL~~HmR-----eKHf~C~iC~k~~~~k~~YF~~~~~LekH~R~------------------------ 77 (663)
|.-|+..|.....|.-|+. .+-|.|..|... |+....|..|+|.
T Consensus 439 ~~~~e~~~~s~r~~~~~t~~L~S~~kt~~cpkc~~~-------yk~a~~L~vhmRskhp~~~~~~c~~gq~~~~~arg~~ 511 (1406)
T KOG1146|consen 439 LTKAEPLLESKRSLEGQTVVLHSFFKTLKCPKCNWH-------YKLAQTLGVHMRSKHPESQSAYCKAGQNHPRLARGEV 511 (1406)
T ss_pred ccchhhhhhhhcccccceeeeecccccccCCccchh-------hhhHHHhhhcccccccccchhHhHhcccccccccccc
Confidence 4555555555555555554 455667777766 6666667777664
Q ss_pred -----cceecCccccCcccccccccchhhhccccc
Q 006039 78 -----DHFLCEDEACLAKKFVVFQSEAEMKRHNAI 107 (663)
Q Consensus 78 -----khf~Ce~~~C~kkKfVVF~sesdLk~H~r~ 107 (663)
++|.|.. |... |+.+..|..|+..
T Consensus 512 ~~~~~~p~~C~~--C~~s----tttng~LsihlqS 540 (1406)
T KOG1146|consen 512 YRCPGKPYPCRA--CNYS----TTTNGNLSIHLQS 540 (1406)
T ss_pred ccCCCCccccee--eeee----eecchHHHHHHHH
Confidence 4688888 8877 9999999999864
No 71
>PRK04860 hypothetical protein; Provisional
Probab=53.20 E-value=6.7 Score=38.77 Aligned_cols=29 Identities=21% Similarity=0.537 Sum_probs=16.2
Q ss_pred CcCCCCCCccCCchhHHhhhc----CCCccCCCCCCC
Q 006039 25 PMCEFCRTPFYGDNELYTHMS----TEHYTCHICQRQ 57 (663)
Q Consensus 25 P~C~fC~KrF~d~deL~~HmR----eKHf~C~iC~k~ 57 (663)
+.|. |++ ....+.+|.+ +++|.|..|+..
T Consensus 120 Y~C~-C~~---~~~~~rrH~ri~~g~~~YrC~~C~~~ 152 (160)
T PRK04860 120 YRCK-CQE---HQLTVRRHNRVVRGEAVYRCRRCGET 152 (160)
T ss_pred EEcC-CCC---eeCHHHHHHHHhcCCccEECCCCCce
Confidence 5665 655 3344555554 455666666654
No 72
>PF08044 DUF1707: Domain of unknown function (DUF1707); InterPro: IPR012551 This domain is found in a variety of actinomycetales proteins. All of the proteins containing this domain are hypothetical and probably membrane bound or associated. Currently, it is unclear to the function of this domain.
Probab=52.07 E-value=35 Score=27.94 Aligned_cols=47 Identities=21% Similarity=0.236 Sum_probs=39.3
Q ss_pred ChHHHHHHHHHHHhhhcCcccHHHHHHHHHHhchhhhHHHHHHhCCC
Q 006039 409 DEDKYTAFKDITAQYRQGLIDTRKYLEYVKQYGLSHLVLELARLCPD 455 (663)
Q Consensus 409 de~~~~~Fk~~s~~yr~G~i~a~~Y~~~v~~~Gl~~lvpELarLlPD 455 (663)
|.++-.....+..-|..|.|+..||-+.+...--..-.-||..|+-|
T Consensus 5 d~dR~~~~~~L~~a~a~GrL~~~Ef~~R~~~a~~A~t~~eL~~l~~D 51 (53)
T PF08044_consen 5 DADRERAVDLLRAAFAEGRLSLDEFDERLDAAYAARTRGELDALFAD 51 (53)
T ss_pred HHHHHHHHHHHHHHHHCCCCCHHHHHHHHHHHHhcCcHHHHHHHHcc
Confidence 67888888899999999999999999999877777677777777644
No 73
>smart00451 ZnF_U1 U1-like zinc finger. Family of C2H2-type zinc fingers, present in matrin, U1 small nuclear ribonucleoprotein C and other RNA-binding proteins.
Probab=52.07 E-value=6.3 Score=28.25 Aligned_cols=23 Identities=17% Similarity=0.618 Sum_probs=14.6
Q ss_pred CccCCCCCCCCCCCccccCCchhhhccccc
Q 006039 48 HYTCHICQRQHPGQYEYYKNYDDLEIHFRR 77 (663)
Q Consensus 48 Hf~C~iC~k~~~~k~~YF~~~~~LekH~R~ 77 (663)
.|.|.+|++. |.+...+..|+..
T Consensus 3 ~~~C~~C~~~-------~~~~~~~~~H~~g 25 (35)
T smart00451 3 GFYCKLCNVT-------FTDEISVEAHLKG 25 (35)
T ss_pred CeEccccCCc-------cCCHHHHHHHHCh
Confidence 4667777776 6666666666543
No 74
>COG2331 Uncharacterized protein conserved in bacteria [Function unknown]
Probab=50.50 E-value=6.8 Score=34.73 Aligned_cols=27 Identities=26% Similarity=0.669 Sum_probs=13.0
Q ss_pred cCCCCCCccCCchhHHhhhcCCCc-cCCCCCC
Q 006039 26 MCEFCRTPFYGDNELYTHMSTEHY-TCHICQR 56 (663)
Q Consensus 26 ~C~fC~KrF~d~deL~~HmReKHf-~C~iC~k 56 (663)
.|..|+.+| ++.+||.+.|+ .|..|+.
T Consensus 14 ~c~~cg~~~----dvvq~~~ddplt~ce~c~a 41 (82)
T COG2331 14 ECTECGNRF----DVVQAMTDDPLTTCEECGA 41 (82)
T ss_pred eecccchHH----HHHHhcccCccccChhhCh
Confidence 455555444 45555554443 2444444
No 75
>PF13821 DUF4187: Domain of unknown function (DUF4187)
Probab=48.89 E-value=9.7 Score=31.45 Aligned_cols=30 Identities=30% Similarity=0.650 Sum_probs=23.7
Q ss_pred hhHHhhhcCCCccCCCCCCCCCCCccccCCchhhhcc
Q 006039 38 NELYTHMSTEHYTCHICQRQHPGQYEYYKNYDDLEIH 74 (663)
Q Consensus 38 deL~~HmReKHf~C~iC~k~~~~k~~YF~~~~~LekH 74 (663)
..|..++|.+|+.|..|+.. |.+..+|..|
T Consensus 17 ~~l~~YLR~~~~YC~~Cg~~-------Y~d~~dL~~~ 46 (55)
T PF13821_consen 17 DKLLSYLREEHNYCFWCGTK-------YDDEEDLERN 46 (55)
T ss_pred HHHHHHHHhhCceeeeeCCc-------cCCHHHHHhC
Confidence 35666788888888888888 8888888766
No 76
>PF10581 Synapsin_N: Synapsin N-terminal; InterPro: IPR019736 The synapsins are a family of neuron-specific phosphoproteins that coat synaptic vesicles and are involved in the binding between these vesicles and the cytoskeleton (including actin filaments). The family comprises 5 homologous proteins Ia, Ib, IIa, IIb and III. Synapsins I, II, and III are encoded by 3 different genes. The a and b isoforms of synapsin I and II are splice variants of the primary transcripts []. Synapsin I is mainly associated with regulation of neurotransmitter release from presynaptic neuron terminals []. Synapsin II, as well as being involved in neurotransmitter release, has a role in the synaptogenesis and synaptic plasticity responsible for long term potentiation []. Recent studies implicate synapsin III with a developmental role in neurite elongation and synapse formation that is distinct from the functions of synapsins I and II []. Structurally, synapsins are multidomain proteins, of which 3 domains are common to all the mammalian forms. The N-terminal `A' domain is ~30 residues long and contains a serine residue that serves as an acceptor site for protein kinase-mediated phosphorylation. This is followed by the `B' linker domain, which is ~80 residues long and is relatively poorly conserved. Domain `C' is the longest, spanning approximately 300 residues. This domain is highly conserved across all the synapsins (including those from Drosophila) and is possessed by all splice variants. The remaining six domains, D-I, are not shared by all the synapsins and differ both between the primary transcripts and the splice variants. This entry represents a conserved octapeptide in the immediate N-terminal domain, which contains the phosphorylated serine residue.
Probab=44.35 E-value=13 Score=27.59 Aligned_cols=24 Identities=38% Similarity=0.581 Sum_probs=17.6
Q ss_pred chhhcccCCcchhh------hccccCCCCC
Q 006039 602 KFHRVRLGDGSMAA------LLDLKNSDTG 625 (663)
Q Consensus 602 kf~r~rlgd~s~~~------l~d~~~~~~~ 625 (663)
.|||.||-|.+..+ +.||+++++.
T Consensus 2 n~LrRRlSDs~f~~nLPnGYm~dl~rp~p~ 31 (32)
T PF10581_consen 2 NFLRRRLSDSNFMANLPNGYMSDLQRPDPP 31 (32)
T ss_pred cHHHhhhcchhhhhcCCcchhcccCCCCCC
Confidence 49999999998765 3366666553
No 77
>PRK06266 transcription initiation factor E subunit alpha; Validated
Probab=44.08 E-value=10 Score=37.98 Aligned_cols=29 Identities=21% Similarity=0.558 Sum_probs=15.5
Q ss_pred CccCCCCCCCCCCCccccCCchhhhccccccceecCccccCcc
Q 006039 48 HYTCHICQRQHPGQYEYYKNYDDLEIHFRRDHFLCEDEACLAK 90 (663)
Q Consensus 48 Hf~C~iC~k~~~~k~~YF~~~~~LekH~R~khf~Ce~~~C~kk 90 (663)
-|.|..|+.. |...+.+. .-|.|+. |+..
T Consensus 117 ~Y~Cp~C~~r-------ytf~eA~~-----~~F~Cp~--Cg~~ 145 (178)
T PRK06266 117 FFFCPNCHIR-------FTFDEAME-----YGFRCPQ--CGEM 145 (178)
T ss_pred EEECCCCCcE-------EeHHHHhh-----cCCcCCC--CCCC
Confidence 3556666665 55444443 2456666 6654
No 78
>TIGR00373 conserved hypothetical protein TIGR00373. This family of proteins is, so far, restricted to archaeal genomes. The family appears to be distantly related to the N-terminal region of the eukaryotic transcription initiation factor IIE alpha chain.
Probab=44.07 E-value=11 Score=36.84 Aligned_cols=9 Identities=11% Similarity=0.309 Sum_probs=4.6
Q ss_pred ccCCCCCCC
Q 006039 49 YTCHICQRQ 57 (663)
Q Consensus 49 f~C~iC~k~ 57 (663)
|.|..|+..
T Consensus 110 Y~Cp~c~~r 118 (158)
T TIGR00373 110 FICPNMCVR 118 (158)
T ss_pred EECCCCCcE
Confidence 445555544
No 79
>PF12013 DUF3505: Protein of unknown function (DUF3505); InterPro: IPR022698 This family of proteins is functionally uncharacterised. This protein is found in eukaryotes. Proteins in this family are typically between 247 to 1018 amino acids in length. This region contains two segments that are likely to be C2H2 zinc binding domains.
Probab=43.42 E-value=5.7 Score=36.08 Aligned_cols=74 Identities=26% Similarity=0.405 Sum_probs=46.1
Q ss_pred cCCCCCCccCCchhHHhhhcCCCcc-CCC-CCCCCCCCccccCCchhhhccccc-----------------cceec----
Q 006039 26 MCEFCRTPFYGDNELYTHMSTEHYT-CHI-CQRQHPGQYEYYKNYDDLEIHFRR-----------------DHFLC---- 82 (663)
Q Consensus 26 ~C~fC~KrF~d~deL~~HmReKHf~-C~i-C~k~~~~k~~YF~~~~~LekH~R~-----------------khf~C---- 82 (663)
.|..|.....- .++..|++.+|.. ... .... .+++..+..|...... .-|.|
T Consensus 13 IC~~C~~av~~-~~v~~HL~~~H~~~~~~~~~~i----~~~~~~~~~l~~~~~~~~~p~~~~~Pi~gLp~~~G~~C~~~~ 87 (109)
T PF12013_consen 13 ICRQCQYAVQP-SEVESHLRKRHHILKSQERQRI----VEAIRQWPDLLPDPDDLQIPPDPSPPIPGLPVYDGYRCQCDP 87 (109)
T ss_pred EeCCCCcccCc-hHHHHHHHHhcccccHHHHHHH----HHHHHhhhhcccCccccCCCCCCCCcCCCCCCCCCeeeecCC
Confidence 58899877655 8999999966532 111 1111 1223333323221110 34889
Q ss_pred CccccCcccccccccchhhhcccccccC
Q 006039 83 EDEACLAKKFVVFQSEAEMKRHNAIEHG 110 (663)
Q Consensus 83 e~~~C~kkKfVVF~sesdLk~H~r~HHG 110 (663)
.. |... +.+...+..|++.+||
T Consensus 88 ~~--C~y~----~~~~~~m~~H~~~~Hg 109 (109)
T PF12013_consen 88 PH--CGYI----TRSKKTMRKHWRKEHG 109 (109)
T ss_pred CC--CCcE----eccHHHHHHHHHHhcC
Confidence 66 9876 8999999999999986
No 80
>KOG2482 consensus Predicted C2H2-type Zn-finger protein [Transcription]
Probab=42.56 E-value=7.6 Score=42.83 Aligned_cols=79 Identities=20% Similarity=0.320 Sum_probs=49.5
Q ss_pred cCCcccCCCcCCCCCCccC-CchhHHhhhcCCCccCCCCCCCCCCCccccCCchhhhccccc--cceecCccccCccccc
Q 006039 17 ERGGFMGHPMCEFCRTPFY-GDNELYTHMSTEHYTCHICQRQHPGQYEYYKNYDDLEIHFRR--DHFLCEDEACLAKKFV 93 (663)
Q Consensus 17 ~~~GfkGHP~C~fC~KrF~-d~deL~~HmReKHf~C~iC~k~~~~k~~YF~~~~~LekH~R~--khf~Ce~~~C~kkKfV 93 (663)
|+.+..-|-.|-||..-+. ...+...|+-..|+.= -|..+-.-.-..|..|.+. ..+.|.. |.+-
T Consensus 137 Eredt~fslqClFCn~e~lgnRs~~l~Hlf~~H~ln-------iGlpDniVyvnelLehLkekL~r~~CLy--Ceki--- 204 (423)
T KOG2482|consen 137 EREDTIFSLQCLFCNNEGLGNRSEILEHLFHVHGLN-------IGLPDNIVYVNELLEHLKEKLERLRCLY--CEKI--- 204 (423)
T ss_pred HhcCCeeeeEEEEecchhcccHHHHHHHHHHHhhhc-------cCCCcceeeHHHHHHHHHHHHhhheeee--eccc---
Confidence 3455666778999987665 4556666776555330 1111112223456666665 5678888 8877
Q ss_pred ccccchhhhcccccc
Q 006039 94 VFQSEAEMKRHNAIE 108 (663)
Q Consensus 94 VF~sesdLk~H~r~H 108 (663)
|..+..|+.||+..
T Consensus 205 -frdkntLkeHMrkK 218 (423)
T KOG2482|consen 205 -FRDKNTLKEHMRKK 218 (423)
T ss_pred -cCCcHHHHHHHHhc
Confidence 88888888888754
No 81
>KOG2785 consensus C2H2-type Zn-finger protein [General function prediction only]
Probab=42.48 E-value=14 Score=41.24 Aligned_cols=73 Identities=26% Similarity=0.288 Sum_probs=52.9
Q ss_pred CcCCCCCCccCCchhHHhhhcCCCccCCCCCCCCCCCccccCCchhhhccccc---cceecCccccCcccccccccchhh
Q 006039 25 PMCEFCRTPFYGDNELYTHMSTEHYTCHICQRQHPGQYEYYKNYDDLEIHFRR---DHFLCEDEACLAKKFVVFQSEAEM 101 (663)
Q Consensus 25 P~C~fC~KrF~d~deL~~HmReKHf~C~iC~k~~~~k~~YF~~~~~LekH~R~---khf~Ce~~~C~kkKfVVF~sesdL 101 (663)
-.|-||++.|.+..+-..||-..|-. .|=++ +|..+...|...+.. .-|.|.. |....+- |.+-...
T Consensus 167 t~CLfC~~~~k~~e~~~~HM~~~Hgf-fIPdr------eYL~D~~GLl~YLgeKV~~~~~CL~--CN~~~~~-f~sleav 236 (390)
T KOG2785|consen 167 TDCLFCDKKSKSLEENLKHMFKEHGF-FIPDR------EYLTDEKGLLKYLGEKVGIGFICLF--CNELGRP-FSSLEAV 236 (390)
T ss_pred cceeecCCCcccHHHHHHHHhhccCC-cCCch------HhhhchhHHHHHHHHHhccCceEEE--eccccCc-ccccHHH
Confidence 47999999999999999999865511 22222 577777778777765 4688988 8832111 8887788
Q ss_pred hccccc
Q 006039 102 KRHNAI 107 (663)
Q Consensus 102 k~H~r~ 107 (663)
++||+.
T Consensus 237 r~HM~~ 242 (390)
T KOG2785|consen 237 RAHMRD 242 (390)
T ss_pred HHHHhh
Confidence 888864
No 82
>cd00350 rubredoxin_like Rubredoxin_like; nonheme iron binding domain containing a [Fe(SCys)4] center. The family includes rubredoxins, a small electron transfer protein, and a slightly smaller modular rubredoxin domain present in rubrerythrin and nigerythrin and detected either N- or C-terminal to such proteins as flavin reductase, NAD(P)H-nitrite reductase, and ferredoxin-thioredoxin reductase. In rubredoxin, the iron atom is coordinated by four cysteine residues (Fe(S-Cys)4), but iron can also be replaced by cobalt, nickel or zinc and believed to be involved in electron transfer. Rubrerythrins and nigerythrins are small homodimeric proteins, generally consisting of 2 domains: a rubredoxin domain C-terminal to a non-sulfur, oxo-bridged diiron site in the N-terminal rubrerythrin domain. Rubrerythrins and nigerythrins have putative peroxide activity.
Probab=41.72 E-value=17 Score=26.70 Aligned_cols=25 Identities=20% Similarity=0.724 Sum_probs=14.6
Q ss_pred CcCCCCCCccCCchhHHhhhcCCCccCCCCCCC
Q 006039 25 PMCEFCRTPFYGDNELYTHMSTEHYTCHICQRQ 57 (663)
Q Consensus 25 P~C~fC~KrF~d~deL~~HmReKHf~C~iC~k~ 57 (663)
+.|..|+..+.... .++.|.+|+..
T Consensus 2 ~~C~~CGy~y~~~~--------~~~~CP~Cg~~ 26 (33)
T cd00350 2 YVCPVCGYIYDGEE--------APWVCPVCGAP 26 (33)
T ss_pred EECCCCCCEECCCc--------CCCcCcCCCCc
Confidence 45777775543322 56677777653
No 83
>PRK00464 nrdR transcriptional regulator NrdR; Validated
Probab=40.49 E-value=9.5 Score=37.60 Aligned_cols=18 Identities=17% Similarity=0.755 Sum_probs=11.1
Q ss_pred CccCCCCCCCCCCCccccCCchhhh
Q 006039 48 HYTCHICQRQHPGQYEYYKNYDDLE 72 (663)
Q Consensus 48 Hf~C~iC~k~~~~k~~YF~~~~~Le 72 (663)
+++|.-|+++ |..+..+.
T Consensus 28 ~~~c~~c~~~-------f~~~e~~~ 45 (154)
T PRK00464 28 RRECLACGKR-------FTTFERVE 45 (154)
T ss_pred eeeccccCCc-------ceEeEecc
Confidence 3677777776 66655443
No 84
>KOG4173 consensus Alpha-SNAP protein [Intracellular trafficking, secretion, and vesicular transport]
Probab=37.96 E-value=3.3 Score=42.80 Aligned_cols=52 Identities=29% Similarity=0.643 Sum_probs=42.1
Q ss_pred ccCCC------cCCCCCCccCCchhHHhhhcC--------------CCccCCC--CCCCCCCCccccCCchhhhcccccc
Q 006039 21 FMGHP------MCEFCRTPFYGDNELYTHMST--------------EHYTCHI--CQRQHPGQYEYYKNYDDLEIHFRRD 78 (663)
Q Consensus 21 fkGHP------~C~fC~KrF~d~deL~~HmRe--------------KHf~C~i--C~k~~~~k~~YF~~~~~LekH~R~k 78 (663)
|.-|| .|.+|.+.|-+..-|..|+.+ ..|.|.+ |.-. |.++.+-+.|+-.+
T Consensus 97 ~E~hY~~~h~~sCs~C~r~~Pt~hLLd~HI~E~HDs~Fqa~veRG~dMy~ClvEgCt~K-------FkT~r~RkdH~I~~ 169 (253)
T KOG4173|consen 97 YEHHYHTLHGNSCSFCKRAFPTGHLLDAHILEWHDSLFQALVERGQDMYQCLVEGCTEK-------FKTSRDRKDHMIRM 169 (253)
T ss_pred HHHhhhhcccchhHHHHHhCCchhhhhHHHHHHHHHHHHHHHHcCccHHHHHHHhhhhh-------hhhhhhhhhHHHHh
Confidence 77788 899999999999999999873 3488876 6555 89998888887664
Q ss_pred c
Q 006039 79 H 79 (663)
Q Consensus 79 h 79 (663)
|
T Consensus 170 H 170 (253)
T KOG4173|consen 170 H 170 (253)
T ss_pred c
Confidence 4
No 85
>KOG2593 consensus Transcription initiation factor IIE, alpha subunit [Transcription]
Probab=37.51 E-value=15 Score=41.70 Aligned_cols=36 Identities=28% Similarity=0.718 Sum_probs=25.8
Q ss_pred CCCccCCCCCCCCCCCccccCCchhhhcccc-ccceecCccccCcc
Q 006039 46 TEHYTCHICQRQHPGQYEYYKNYDDLEIHFR-RDHFLCEDEACLAK 90 (663)
Q Consensus 46 eKHf~C~iC~k~~~~k~~YF~~~~~LekH~R-~khf~Ce~~~C~kk 90 (663)
..+|.|..|.+. |...+.|..--- .--|.|.. |.-.
T Consensus 126 ~~~Y~Cp~C~kk-------yt~Lea~~L~~~~~~~F~C~~--C~ge 162 (436)
T KOG2593|consen 126 VAGYVCPNCQKK-------YTSLEALQLLDNETGEFHCEN--CGGE 162 (436)
T ss_pred cccccCCccccc-------hhhhHHHHhhcccCceEEEec--CCCc
Confidence 468999999998 655544433222 25799999 9986
No 86
>KOG1994 consensus Predicted RNA binding protein, contains G-patch and Zn-finger domains [RNA processing and modification]
Probab=37.43 E-value=13 Score=38.94 Aligned_cols=24 Identities=42% Similarity=0.890 Sum_probs=19.4
Q ss_pred hcCCCccCCCCCCCCCCCccccCCchhhhcc
Q 006039 44 MSTEHYTCHICQRQHPGQYEYYKNYDDLEIH 74 (663)
Q Consensus 44 mReKHf~C~iC~k~~~~k~~YF~~~~~LekH 74 (663)
+|..||.|.+|+-. |.+..+|..|
T Consensus 235 LR~eh~YC~fCG~~-------y~~~edl~eh 258 (268)
T KOG1994|consen 235 LRSEHYYCFFCGIK-------YKDEEDLYEH 258 (268)
T ss_pred HhccceEEEEeccc-------cCCHHHHHHh
Confidence 34788888888888 8888888888
No 87
>TIGR00470 sepS O-phosphoseryl-tRNA(Cys) synthetase. This family of archaeal proteins resembles known phenylalanyl-tRNA synthetase alpha chains. Recently, it was shown to act in a proposed pathway of tRNA(Cys) indirect aminoacylation, resulting in Cys biosynthesis from O-phosphoserine, in certain archaea. It charges tRNA(Cys) with O-phosphoserine. The pscS gene product converts the phosphoserine to Cys.
Probab=36.04 E-value=36 Score=39.51 Aligned_cols=70 Identities=19% Similarity=0.331 Sum_probs=53.4
Q ss_pred HHHHHHHhc--CChHHHHHHHHHHHhhhcCcccHHHHH-HHHHHhchh---------hhHHHHHHhCCChHHHHHHHHHH
Q 006039 399 VERMRAAFE--YDEDKYTAFKDITAQYRQGLIDTRKYL-EYVKQYGLS---------HLVLELARLCPDALKQKELIETY 466 (663)
Q Consensus 399 Ve~Ir~~L~--~de~~~~~Fk~~s~~yr~G~i~a~~Y~-~~v~~~Gl~---------~lvpELarLlPD~~Kq~eL~~a~ 466 (663)
|+.|.. || .+++.-...+.+--.|..|.|+..+-. +.-..|+.+ ++|||+-.|.|-+.+. ||+.|
T Consensus 112 ~~~i~~-~g~~~~~~~~e~lr~~lh~ykkg~idgddl~~eia~~l~~~d~~~~~ild~vfpefk~l~p~s~~~--lLRTH 188 (533)
T TIGR00470 112 IEIIEN-LGIDIDDEKKERLREVFHLYKKGAIDGDDLVFEIAKALNVSNEMGLKVLETVFPEFKDLKPESTTL--TLRSH 188 (533)
T ss_pred HHHHHH-hCCCCChhHHHHHHHHHHHhhcCCCccchhHHHHHHhhCCchHHHHHHHHHhChhhhhcChHhhCc--ccccC
Confidence 345555 65 667778888888899999999999976 444566554 6999999999988764 88888
Q ss_pred HHHhh
Q 006039 467 NATLQ 471 (663)
Q Consensus 467 ~~~~r 471 (663)
-....
T Consensus 189 TTpgq 193 (533)
T TIGR00470 189 MTSGW 193 (533)
T ss_pred ChhHH
Confidence 76643
No 88
>COG5112 UFD2 U1-like Zn-finger-containing protein [General function prediction only]
Probab=34.53 E-value=13 Score=34.96 Aligned_cols=26 Identities=23% Similarity=0.439 Sum_probs=20.5
Q ss_pred CCCcCCCCCCccCCchhHHhhhcCCC
Q 006039 23 GHPMCEFCRTPFYGDNELYTHMSTEH 48 (663)
Q Consensus 23 GHP~C~fC~KrF~d~deL~~HmReKH 48 (663)
||.-|-.|.+.|.+...|..|.+.+.
T Consensus 54 GqhYCieCaryf~t~~aL~~Hkkgkv 79 (126)
T COG5112 54 GQHYCIECARYFITEKALMEHKKGKV 79 (126)
T ss_pred ceeeeehhHHHHHHHHHHHHHhccch
Confidence 45568889999999999999987444
No 89
>COG5048 FOG: Zn-finger [General function prediction only]
Probab=32.57 E-value=44 Score=34.88 Aligned_cols=29 Identities=24% Similarity=0.457 Sum_probs=14.3
Q ss_pred cceecCccccCcccccccccchhhhcccccccC
Q 006039 78 DHFLCEDEACLAKKFVVFQSEAEMKRHNAIEHG 110 (663)
Q Consensus 78 khf~Ce~~~C~kkKfVVF~sesdLk~H~r~HHG 110 (663)
++|.|....|.+. |.....+..|...|++
T Consensus 320 ~~~~~p~~~~~~~----~~~~~~~~~~~~~~~~ 348 (467)
T COG5048 320 KPFSCPYSLCGKL----FSRNDALKRHILLHTS 348 (467)
T ss_pred CceeeeccCCCcc----ccccccccCCcccccC
Confidence 3555552225554 5555555555555543
No 90
>KOG2186 consensus Cell growth-regulating nucleolar protein [Cell cycle control, cell division, chromosome partitioning]
Probab=31.97 E-value=15 Score=39.09 Aligned_cols=43 Identities=30% Similarity=0.682 Sum_probs=30.2
Q ss_pred ccCCCCCCCCCCCccccCCchhhhccccc---cceecCccccCcccccccccchhhhcccc
Q 006039 49 YTCHICQRQHPGQYEYYKNYDDLEIHFRR---DHFLCEDEACLAKKFVVFQSEAEMKRHNA 106 (663)
Q Consensus 49 f~C~iC~k~~~~k~~YF~~~~~LekH~R~---khf~Ce~~~C~kkKfVVF~sesdLk~H~r 106 (663)
|.|.+|+-. --+..|++|+-. .-|.|-+ |+.. |.. .+++.|..
T Consensus 4 FtCnvCgEs--------vKKp~vekH~srCrn~~fSCID--C~k~----F~~-~sYknH~k 49 (276)
T KOG2186|consen 4 FTCNVCGES--------VKKPQVEKHMSRCRNAYFSCID--CGKT----FER-VSYKNHTK 49 (276)
T ss_pred Eehhhhhhh--------ccccchHHHHHhccCCeeEEee--cccc----ccc-chhhhhhh
Confidence 678888774 344567777654 4688988 9987 777 67777753
No 91
>PF08328 ASL_C: Adenylosuccinate lyase C-terminal; InterPro: IPR013539 This domain is found at the C terminus of adenylosuccinate lyase(ASL; PurB in Escherichia coli). It has been identified in bacteria, eukaryotes and archaea and is found together with the lyase domain IPR000362 from INTERPRO. ASL catalyses the cleavage of succinylaminoimidazole carboxamide ribotide to aminoimidazole carboxamide ribotide and fumarate and the cleavage of adenylosuccinate to adenylate and fumarate []. ; GO: 0004018 N6-(1,2-dicarboxyethyl)AMP AMP-lyase (fumarate-forming) activity, 0006188 IMP biosynthetic process; PDB: 2HVG_A 2QGA_C 2PTS_A 2PTR_A 2PTQ_B 3BHG_A 3GZH_A.
Probab=30.33 E-value=1.1e+02 Score=29.09 Aligned_cols=53 Identities=15% Similarity=0.313 Sum_probs=35.9
Q ss_pred HHHHHHHhcCChHHHHHHHHHHHhhhcCcccHHHHHHHHHHhchhh-hHHHHHHhCCC
Q 006039 399 VERMRAAFEYDEDKYTAFKDITAQYRQGLIDTRKYLEYVKQYGLSH-LVLELARLCPD 455 (663)
Q Consensus 399 Ve~Ir~~L~~de~~~~~Fk~~s~~yr~G~i~a~~Y~~~v~~~Gl~~-lvpELarLlPD 455 (663)
|+.|+...| -++.|..-|.+++ ...|+..++.+||+.+.+.. .--+|..|-|.
T Consensus 59 IQTvmRr~g-~~~pYE~LK~lTR---g~~it~~~l~~fI~~L~ip~~~k~~L~~ltP~ 112 (115)
T PF08328_consen 59 IQTVMRRYG-IPNPYEKLKELTR---GKKITKEDLREFIESLDIPEEAKARLLALTPA 112 (115)
T ss_dssp HHHHHHHTT--SSHHHHHHHHHT---TS---HHHHHHHHHTSSS-HHHHHHHHH--CC
T ss_pred HHHHHHHcC-CCCHHHHHHHHHc---CCCCCHHHHHHHHHhCCCCHHHHHHHHhcCcc
Confidence 566777777 4589999999984 45999999999999998763 66667777664
No 92
>COG5048 FOG: Zn-finger [General function prediction only]
Probab=29.81 E-value=39 Score=35.28 Aligned_cols=61 Identities=16% Similarity=0.275 Sum_probs=42.9
Q ss_pred CCCcCCCCCCccCCchhHHhhhc------C--CCccCC--CCCCCCCCCccccCCchhhhccccc----cceecCccccC
Q 006039 23 GHPMCEFCRTPFYGDNELYTHMS------T--EHYTCH--ICQRQHPGQYEYYKNYDDLEIHFRR----DHFLCEDEACL 88 (663)
Q Consensus 23 GHP~C~fC~KrF~d~deL~~HmR------e--KHf~C~--iC~k~~~~k~~YF~~~~~LekH~R~----khf~Ce~~~C~ 88 (663)
-.+.|..|...|.....|..|.+ + +++.|. +|++. |.....|..|... .++.|....|.
T Consensus 288 ~~~~~~~~~~~~s~~~~l~~~~~~~~h~~~~~~~~~~p~~~~~~~-------~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 360 (467)
T COG5048 288 LPIKSKQCNISFSRSSPLTRHLRSVNHSGESLKPFSCPYSLCGKL-------FSRNDALKRHILLHTSISPAKEKLLNSS 360 (467)
T ss_pred cCCCCccccCCccccccccccccccccccccCCceeeeccCCCcc-------ccccccccCCcccccCCCccccccccCc
Confidence 35678888888888888877776 3 778888 78887 8888877777665 44555554444
Q ss_pred cc
Q 006039 89 AK 90 (663)
Q Consensus 89 kk 90 (663)
..
T Consensus 361 ~~ 362 (467)
T COG5048 361 SK 362 (467)
T ss_pred cc
Confidence 43
No 93
>PF02892 zf-BED: BED zinc finger; InterPro: IPR003656 Zinc finger (Znf) domains are relatively small protein motifs which contain multiple finger-like protrusions that make tandem contacts with their target molecule. Some of these domains bind zinc, but many do not; instead binding other metals such as iron, or no metal at all. For example, some family members form salt bridges to stabilise the finger-like folds. They were first identified as a DNA-binding motif in transcription factor TFIIIA from Xenopus laevis (African clawed frog), however they are now recognised to bind DNA, RNA, protein and/or lipid substrates [, , , , ]. Their binding properties depend on the amino acid sequence of the finger domains and of the linker between fingers, as well as on the higher-order structures and the number of fingers. Znf domains are often found in clusters, where fingers can have different binding specificities. There are many superfamilies of Znf motifs, varying in both sequence and structure. They display considerable versatility in binding modes, even between members of the same class (e.g. some bind DNA, others protein), suggesting that Znf motifs are stable scaffolds that have evolved specialised functions. For example, Znf-containing proteins function in gene transcription, translation, mRNA trafficking, cytoskeleton organisation, epithelial development, cell adhesion, protein folding, chromatin remodelling and zinc sensing, to name but a few []. Zinc-binding motifs are stable structures, and they rarely undergo conformational changes upon binding their target. This entry represents predicted BED-type zinc finger domains. The BED finger which was named after the Drosophila proteins BEAF and DREF, is found in one or more copies in cellular regulatory factors and transposases from plants, animals and fungi. The BED finger is an about 50 to 60 amino acid residues domain that contains a characteristic motif with two highly conserved aromatic positions, as well as a shared pattern of cysteines and histidines that is predicted to form a zinc finger. As diverse BED fingers are able to bind DNA, it has been suggested that DNA-binding is the general function of this domain []. Some proteins known to contain a BED domain include animal, plant and fungi AC1 and Hobo-like transposases; Caenorhabditis elegans Dpy-20 protein, a predicted cuticular gene transcriptional regulator; Drosophila BEAF (boundary element-associated factor), thought to be involved in chromatin insulation; Drosophila DREF, a transcriptional regulator for S-phase genes; and tobacco 3AF1 and tomato E4/E8-BP1, light- and ethylene-regulated DNA binding proteins that contain two BED fingers. More information about these proteins can be found at Protein of the Month: Zinc Fingers [].; GO: 0003677 DNA binding; PDB: 2DJR_A 2CT5_A.
Probab=29.61 E-value=23 Score=27.01 Aligned_cols=26 Identities=15% Similarity=0.414 Sum_probs=15.1
Q ss_pred cCCCcCCCCCCccCC----chhHHhhhcCC
Q 006039 22 MGHPMCEFCRTPFYG----DNELYTHMSTE 47 (663)
Q Consensus 22 kGHP~C~fC~KrF~d----~deL~~HmReK 47 (663)
...-.|.+|++.|.. -..|..|++.+
T Consensus 14 ~~~a~C~~C~~~~~~~~~~ts~l~~HL~~~ 43 (45)
T PF02892_consen 14 KKKAKCKYCGKVIKYSSGGTSNLKRHLKKK 43 (45)
T ss_dssp SS-EEETTTTEE-----SSTHHHHHHHHHT
T ss_pred cCeEEeCCCCeEEeeCCCcHHHHHHhhhhh
Confidence 445678888876654 36788887533
No 94
>PF00427 PBS_linker_poly: Phycobilisome Linker polypeptide; InterPro: IPR001297 Phycobilisomes (PBSs) are the major light-harvesting systems in cyanobacteria and red algae. PBS is a supercomplex that is composed of a core complex and multiple peripheral rod complexes. Typically, the core consists of two or five cylinders lying on the membrane with, in most cases, multiple rods radiating from the core to form a hemidiscoidal structure. The building units of the core cylinders and the peripheral rods are trimeric and hexameric discs, in which a monomer consists of a pair of related phycobiliproteins (PBPs), such as phycorerythrins, phycoerythrocyanins, phycocyanins, and allophycocyanins. The discs are connected to each other via specific linker polypeptides to form peripheral rods or core cylinders. Linker polypeptides share a conserved domain of ~180 residues, which can be present in one or multiple copies [, , , , ].; GO: 0015979 photosynthesis, 0030089 phycobilisome; PDB: 2L8V_A 2KY4_A 3OSJ_D 2L06_A 3NPH_B 2L3W_A 3PRU_C 3OHW_A.
Probab=28.93 E-value=47 Score=32.12 Aligned_cols=51 Identities=29% Similarity=0.460 Sum_probs=29.8
Q ss_pred HHHHHHhhhcCcccHHHHHHHHHHhchhhh-------------HHHH--HHhCCChHH-HHHHHHHHHHHh
Q 006039 416 FKDITAQYRQGLIDTRKYLEYVKQYGLSHL-------------VLEL--ARLCPDALK-QKELIETYNATL 470 (663)
Q Consensus 416 Fk~~s~~yr~G~i~a~~Y~~~v~~~Gl~~l-------------vpEL--arLlPD~~K-q~eL~~a~~~~~ 470 (663)
+..+=++||+|.|++.+|. .+|+++.+ +-|| -+||=-+-. |.|+.. |...+
T Consensus 33 ~~~lESqlrng~IsVreFV---r~La~S~~yr~~f~~~~~~~R~iEl~~khlLGR~p~~~~Ei~~-~~~i~ 99 (131)
T PF00427_consen 33 LISLESQLRNGQISVREFV---RALAKSELYRKRFFEPNSNYRFIELAFKHLLGRAPYNQAEISA-YSQIL 99 (131)
T ss_dssp THHHHHHHHTTSS-HHHHH---HHHHTSHHHHHHHTTTS-HHHHHHHHHHHHCSS--SSHHHHHH-HHHHH
T ss_pred cchHHHHHHcCCCcHHHHH---HHHHcCHHHHHHHcccccchHHHHHHHHHHhCCCCCCHHHHHH-HHHHH
Confidence 7888899999999999875 34444421 1122 356666655 555544 55444
No 95
>PF14353 CpXC: CpXC protein
Probab=28.82 E-value=19 Score=33.47 Aligned_cols=10 Identities=30% Similarity=0.810 Sum_probs=6.2
Q ss_pred cCCCCCCccC
Q 006039 26 MCEFCRTPFY 35 (663)
Q Consensus 26 ~C~fC~KrF~ 35 (663)
.|..|++.|.
T Consensus 3 tCP~C~~~~~ 12 (128)
T PF14353_consen 3 TCPHCGHEFE 12 (128)
T ss_pred CCCCCCCeeE
Confidence 5677766553
No 96
>PRK06253 O-phosphoseryl-tRNA synthetase; Reviewed
Probab=28.75 E-value=88 Score=36.67 Aligned_cols=72 Identities=21% Similarity=0.396 Sum_probs=54.3
Q ss_pred HHHHHHHhc--CChHHHHHHHHHHHhhhcCcccHHHHH-HHHHHhchh---------hhHHHHHHhCCChHHH---H---
Q 006039 399 VERMRAAFE--YDEDKYTAFKDITAQYRQGLIDTRKYL-EYVKQYGLS---------HLVLELARLCPDALKQ---K--- 460 (663)
Q Consensus 399 Ve~Ir~~L~--~de~~~~~Fk~~s~~yr~G~i~a~~Y~-~~v~~~Gl~---------~lvpELarLlPD~~Kq---~--- 460 (663)
|+.|...|| .+++.-...+.+--.|..|+|+..+-. +.-..|+.+ ++|||+-.|.|-+... .
T Consensus 112 ~~~i~~~~~~~~~~~~~e~l~~~lh~ykkg~~~gddl~~e~~~~l~~~~~~~~~~l~~vfpe~k~l~p~~~~svLRtSLl 191 (529)
T PRK06253 112 IEQIEEILGRDLSEEKIESLREVLHSYKKGEIDGDDLVLEISKALEVSDEMVLKILDEVFPEFKELKPESSRLTLRSHMT 191 (529)
T ss_pred HHHHHHHhCCCCChhHHHHHHHHHHHhhcCCCccchhHHHHHHhcCCChHHHHHHHHHhChHhhhcCCccccCccccchH
Confidence 556777777 677888889999999999999999987 544566655 5999999999998653 2
Q ss_pred -HHHHHHHHHh
Q 006039 461 -ELIETYNATL 470 (663)
Q Consensus 461 -eL~~a~~~~~ 470 (663)
-|+++-..++
T Consensus 192 PGLL~tLs~Nl 202 (529)
T PRK06253 192 SGWFITLSSLL 202 (529)
T ss_pred HHHHHHHHHHH
Confidence 3445555555
No 97
>PF01286 XPA_N: XPA protein N-terminal; InterPro: IPR022652 Xeroderma pigmentosum (XP) [] is a human autosomal recessive disease, characterised by a high incidence of sunlight-induced skin cancer. Skin cells of individual's with this condition are hypersensitive to ultraviolet light, due to defects in the incision step of DNA excision repair. There are a minimum of seven genetic complementation groups involved in this pathway: XP-A to XP-G. XP-A is the most severe form of the disease and is due to defects in a 30 kDa nuclear protein called XPA (or XPAC) []. The sequence of the XPA protein is conserved from higher eukaryotes [] to yeast (gene RAD14) []. XPA is a hydrophilic protein of 247 to 296 amino-acid residues which has a C4-type zinc finger motif in its central section. This entry contains the zinc-finger containing region in the XPA protein. It is found N-terminal to PF05181 from PFAM ; PDB: 1D4U_A 1XPA_A.
Probab=28.34 E-value=18 Score=27.40 Aligned_cols=26 Identities=27% Similarity=0.829 Sum_probs=12.9
Q ss_pred CcCCCCCCccCCchhHHhhhcCCCccCCCCCC
Q 006039 25 PMCEFCRTPFYGDNELYTHMSTEHYTCHICQR 56 (663)
Q Consensus 25 P~C~fC~KrF~d~deL~~HmReKHf~C~iC~k 56 (663)
+.|..|++.|.+..-+ ++|-|.+|++
T Consensus 4 ~~C~eC~~~f~dSyL~------~~F~~~VCD~ 29 (34)
T PF01286_consen 4 PKCDECGKPFMDSYLL------NNFDLPVCDK 29 (34)
T ss_dssp EE-TTT--EES-SSCC------CCTS-S--TT
T ss_pred chHhHhCCHHHHHHHH------HhCCcccccc
Confidence 6799999988765322 5677777776
No 98
>PF06524 NOA36: NOA36 protein; InterPro: IPR010531 This family consists of several NOA36 proteins which contain 29 highly conserved cysteine residues. The function of this protein is unknown.; GO: 0008270 zinc ion binding, 0005634 nucleus
Probab=27.83 E-value=34 Score=36.79 Aligned_cols=75 Identities=24% Similarity=0.536 Sum_probs=47.0
Q ss_pred CcCCCCCCccCCchhHHhhhc------CCCccCCCCCCCCCCCccccCCch-hhhccccc--------cceecCccccCc
Q 006039 25 PMCEFCRTPFYGDNELYTHMS------TEHYTCHICQRQHPGQYEYYKNYD-DLEIHFRR--------DHFLCEDEACLA 89 (663)
Q Consensus 25 P~C~fC~KrF~d~deL~~HmR------eKHf~C~iC~k~~~~k~~YF~~~~-~LekH~R~--------khf~Ce~~~C~k 89 (663)
+.|.||. .|.-.+.-..|+. .+.|+|.-|.+. ++|--.+-+. .-..|.+. +++.|.. |+.
T Consensus 143 f~CsfC~-~flCEDDQFEHQAsCQvLe~E~~KC~SCNrl--Gq~sCLRCK~cfCddHvrrKg~ky~k~k~~PCPK--Cg~ 217 (314)
T PF06524_consen 143 FKCSFCD-NFLCEDDQFEHQASCQVLESETFKCQSCNRL--GQYSCLRCKICFCDDHVRRKGFKYEKGKPIPCPK--CGY 217 (314)
T ss_pred EEeecCC-Ceeeccchhhhhhhhhhhhcccccccccccc--cchhhhheeeeehhhhhhhcccccccCCCCCCCC--CCC
Confidence 5799995 6777777778876 578999999996 3332211111 12345443 6889998 987
Q ss_pred ccccccccchhhhcccccc
Q 006039 90 KKFVVFQSEAEMKRHNAIE 108 (663)
Q Consensus 90 kKfVVF~sesdLk~H~r~H 108 (663)
. .....+|..-.|.|
T Consensus 218 e----t~eTkdLSmStR~h 232 (314)
T PF06524_consen 218 E----TQETKDLSMSTRSH 232 (314)
T ss_pred c----ccccccceeeeecc
Confidence 6 44444555555544
No 99
>PF09845 DUF2072: Zn-ribbon containing protein (DUF2072); InterPro: IPR018645 This archaeal Zinc-ribbon containing proteins have no known function.
Probab=27.06 E-value=42 Score=32.57 Aligned_cols=31 Identities=26% Similarity=0.709 Sum_probs=0.0
Q ss_pred CCCcCCCCCCccCCch-hHHhhhcCCCccCCCCCCCCCCCccc
Q 006039 23 GHPMCEFCRTPFYGDN-ELYTHMSTEHYTCHICQRQHPGQYEY 64 (663)
Q Consensus 23 GHP~C~fC~KrF~d~d-eL~~HmReKHf~C~iC~k~~~~k~~Y 64 (663)
.| .|--|++.|-+-+ +|..- |..|+-. +|+|
T Consensus 1 PH-~Ct~Cg~~f~dgs~eil~G-------CP~CGg~---kF~y 32 (131)
T PF09845_consen 1 PH-QCTKCGRVFEDGSKEILSG-------CPECGGN---KFQY 32 (131)
T ss_pred Cc-ccCcCCCCcCCCcHHHHcc-------CcccCCc---ceEE
No 100
>COG3677 Transposase and inactivated derivatives [DNA replication, recombination, and repair]
Probab=26.76 E-value=30 Score=33.08 Aligned_cols=10 Identities=20% Similarity=0.836 Sum_probs=5.0
Q ss_pred ceecCccccCcc
Q 006039 79 HFLCEDEACLAK 90 (663)
Q Consensus 79 hf~Ce~~~C~kk 90 (663)
.|.|.. |.+.
T Consensus 53 RyrC~~--C~~t 62 (129)
T COG3677 53 RYKCKS--CGST 62 (129)
T ss_pred ccccCC--cCcc
Confidence 455555 5544
No 101
>KOG2391 consensus Vacuolar sorting protein/ubiquitin receptor VPS23 [Posttranslational modification, protein turnover, chaperones; Intracellular trafficking, secretion, and vesicular transport]
Probab=25.95 E-value=1.2e+02 Score=33.83 Aligned_cols=59 Identities=19% Similarity=0.298 Sum_probs=37.6
Q ss_pred CCCCCHHHHHHHHHHHHHHHHHHhcCChHHHHHHHHHHHhhhcCcccHHHHHHHHHHhc
Q 006039 383 QPAPSVENIQAANRSLVERMRAAFEYDEDKYTAFKDITAQYRQGLIDTRKYLEYVKQYG 441 (663)
Q Consensus 383 q~~~~ve~~~aank~LVe~Ir~~L~~de~~~~~Fk~~s~~yr~G~i~a~~Y~~~v~~~G 441 (663)
-..+++|++..+-.-|.+.|-..+-.|-.-=.+-..+-..||+|.|+-.+|+.+|..|-
T Consensus 286 ~~~~~~D~~~~~~~~l~kq~l~~~A~d~aieD~i~~L~~~~r~G~i~l~~yLr~VR~ls 344 (365)
T KOG2391|consen 286 LEALDIDEAIECTAPLYKQILECYALDLAIEDAIYSLGKSLRDGVIDLDQYLRHVRLLS 344 (365)
T ss_pred CcCCCchhhhhccchHHHHHHHhhhhhhHHHHHHHHHHHHHhcCeeeHHHHHHHHHHHH
Confidence 44555555555544444444444433434444556777889999999999999997653
No 102
>PF12767 SAGA-Tad1: Transcriptional regulator of RNA polII, SAGA, subunit; InterPro: IPR024738 The yeast Spt-Ada-Gcn5-Acetyl (SAGA) transferase complex is a multifunctional coactivator involved in multiple cellular processes [], including regulation of transcription by RNA polymerase II [, ]. It is formed of five major modular subunits and shows a high degree of structural conservation to human TFTC and STAGA []. This entry represents Ada1 (known as Tada1 in higher eukaryotes), one of the subunits that constitute the SAGA core. It also functions as a component of the SALSA and SLIK complexes. ; GO: 0070461 SAGA-type complex
Probab=25.53 E-value=1.8e+02 Score=30.32 Aligned_cols=56 Identities=9% Similarity=0.242 Sum_probs=41.0
Q ss_pred HHHHHHHHhcCChHHHHHHHHHHHhhhcCcccHHHHHHHHHHhchhhhHHHHHHhCCChHHHHHHHHHHHHHhhc
Q 006039 398 LVERMRAAFEYDEDKYTAFKDITAQYRQGLIDTRKYLEYVKQYGLSHLVLELARLCPDALKQKELIETYNATLQG 472 (663)
Q Consensus 398 LVe~Ir~~L~~de~~~~~Fk~~s~~yr~G~i~a~~Y~~~v~~~Gl~~lvpELarLlPD~~Kq~eL~~a~~~~~r~ 472 (663)
|...|..+|| .++...+.++-..|-.|.|+=.||-..+..+ | -+|.+..||..++.
T Consensus 14 lk~~l~~~LG--~~~~~~Y~~~l~~fl~~klsk~Efd~~~~~~------------L-----~~~~~~LHN~li~s 69 (252)
T PF12767_consen 14 LKSQLQKRLG--PDRWKKYFQSLKRFLSGKLSKEEFDKECRRI------------L-----GRENVHLHNQLILS 69 (252)
T ss_pred HHHHHHHHHC--hHHHHHHHHHHHHHHHhccCHHHHHHHHHHH------------h-----ChhHHHHHHHHHHH
Confidence 3445667787 5777777888889999999999998776432 1 45567778888874
No 103
>PF11931 DUF3449: Domain of unknown function (DUF3449); InterPro: IPR024598 This presumed domain is functionally uncharacterised. It has two conserved sequence motifs: PIP and CEICG and contains a zinc-finger of the C2H2-type.; PDB: 4DGW_A.
Probab=25.42 E-value=23 Score=36.32 Aligned_cols=39 Identities=36% Similarity=0.647 Sum_probs=0.0
Q ss_pred hhcCCCccCCCCCCCCCCCccccCCchhhhccccc-cceecCccccCc
Q 006039 43 HMSTEHYTCHICQRQHPGQYEYYKNYDDLEIHFRR-DHFLCEDEACLA 89 (663)
Q Consensus 43 HmReKHf~C~iC~k~~~~k~~YF~~~~~LekH~R~-khf~Ce~~~C~k 89 (663)
|--..-|.|.||+-. .|.-+..+++||.. +|-.... |+-
T Consensus 96 hGL~~ey~CEICGN~------~Y~GrkaFekHF~E~rH~~Glr--cLG 135 (196)
T PF11931_consen 96 HGLGVEYKCEICGNQ------SYKGRKAFEKHFQEWRHAYGLR--CLG 135 (196)
T ss_dssp ------------------------------------------------
T ss_pred hCCCCeeeeEeCCCc------ceecHHHHHHhcChhHHHccCh--hcC
Confidence 333677999999986 28888899999987 6655555 554
No 104
>PF03613 EIID-AGA: PTS system mannose/fructose/sorbose family IID component; InterPro: IPR004704 The phosphoenolpyruvate-dependent sugar phosphotransferase system (PTS) [, ] is a major carbohydrate transport system in bacteria. The PTS catalyses the phosphorylation of incoming sugar substrates and coupled with translocation across the cell membrane, makes the PTS a link between the uptake and metabolism of sugars. The general mechanism of the PTS is the following: a phosphoryl group from phosphoenolpyruvate (PEP) is transferred via a signal transduction pathway, to enzyme I (EI) which in turn transfers it to a phosphoryl carrier, the histidine protein (HPr). Phospho-HPr then transfers the phosphoryl group to a sugar-specific permease, a membrane-bound complex known as enzyme 2 (EII), which transports the sugar to the cell. EII consists of at least three structurally distinct domains IIA, IIB and IIC []. These can either be fused together in a single polypeptide chain or exist as two or three interactive chains, formerly called enzymes II (EII) and III (EIII). The first domain (IIA or EIIA) carries the first permease-specific phosphorylation site, a histidine which is phosphorylated by phospho-HPr. The second domain (IIB or EIIB) is phosphorylated by phospho-IIA on a cysteinyl or histidyl residue, depending on the sugar transported. Finally, the phosphoryl group is transferred from the IIB domain to the sugar substrate concomitantly with the sugar uptake processed by the IIC domain. This third domain (IIC or EIIC) forms the translocation channel and the specific substrate-binding site. An additional transmembrane domain IID, homologous to IIC, can be found in some PTSs, e.g. for mannose [, , , ]. Bacterial PTS transporters transport and concomitantly phosphorylate their sugar substrates, and typically consist of multiple subunits or protein domains.The Man family is unique in several respects among PTS permease families. It is the only PTS family in which members possess a IID protein. It is the only PTS family in which the IIB constituent is phosphorylated on a histidyl rather than a cysteyl residue. Its permease members exhibit broad specificity for a range of sugars, rather than being specific for just one or a few sugars. The mannose permease of Escherichia coli, for example, can transport and phosphorylate glucose, mannose, fructose, glucosamine,N-acetylglucosamine, and other sugars. Other members of this can transport sorbose, fructose and N-acetylglucosamine. This family is specific for the IID subunits of this family of PTS transporters.; GO: 0009401 phosphoenolpyruvate-dependent sugar phosphotransferase system, 0016021 integral to membrane
Probab=25.34 E-value=99 Score=33.06 Aligned_cols=37 Identities=19% Similarity=0.261 Sum_probs=31.6
Q ss_pred HHHHHHhchhh-hHHHHHHhCCChHHHHHHHHHHHHHh
Q 006039 434 LEYVKQYGLSH-LVLELARLCPDALKQKELIETYNATL 470 (663)
Q Consensus 434 ~~~v~~~Gl~~-lvpELarLlPD~~Kq~eL~~a~~~~~ 470 (663)
|+.+|.+|..+ +.|-|-+|.||.++++|.++-|..+-
T Consensus 24 yErmq~~gf~~~m~P~lkklY~~~e~~~~al~rh~~fF 61 (264)
T PF03613_consen 24 YERMQGLGFAYSMLPALKKLYKDKEELKEALKRHMEFF 61 (264)
T ss_pred HHHHHhHhHHHHHHHHHHHHcCCHHHHHHHHHHHHHHH
Confidence 56778888886 99999999999999999998887553
No 105
>cd07357 HN_L-whirlin_R2_like Second harmonin_N_like domain (repeat 2) of the long isoform of whirlin, and related domains. This subgroup contains the second of two harmonin_N_like domains found in the long isoform of whirlin, and related domains. Whirlin is a postsynaptic density-95/discs-large/ZO-1 (PDZ) domain-containing scaffold protein which binds various components of the Usher protein network of the inner ear and the retina: erythrocyte protein p55, usherin, VlGR1, and myosin XVa. The long isoform of whirlin contains two harmonin_N_like domains, and three PDZ protein-binding domains, PDZ1-3. The short whirlin isoform, derived from an alternative start ATG, lacks the first harmonin_N_like domain but has in common with the long isoform, this second harmonin_N_like domain (designated repeat 2, included in this subgroup) and PDZ3. This second harmonin_N_like domain is a putative protein-binding module based on its sequence similarity to the harmonin N-domain.
Probab=22.97 E-value=4.9e+02 Score=23.58 Aligned_cols=59 Identities=22% Similarity=0.341 Sum_probs=41.0
Q ss_pred HHHHHHH-HHHHHhcCChHHHHHHHHHHHhhhcCcccHHHHHHHH-HHhchh---hhHHHHHHhCC
Q 006039 394 ANRSLVE-RMRAAFEYDEDKYTAFKDITAQYRQGLIDTRKYLEYV-KQYGLS---HLVLELARLCP 454 (663)
Q Consensus 394 ank~LVe-~Ir~~L~~de~~~~~Fk~~s~~yr~G~i~a~~Y~~~v-~~~Gl~---~lvpELarLlP 454 (663)
.+.+||| ..|..| +|+-|.+-.....+|+.|.|+...+..-+ +-|.-. .|+-|+--|+.
T Consensus 3 ~~~~m~ee~Ar~lL--~e~E~~tm~yyl~eY~~~~~tVealV~aL~elLnt~~K~sLLsEiR~lI~ 66 (81)
T cd07357 3 QTRSMVEEQARHLL--SENERATLSYYLDEYRSGHISVDALVMALFELLNTHEKFSLLSEIRELIS 66 (81)
T ss_pred hHHHHHHHHHHHHc--CHHHHHHHHHHHHHHHcCCCCHHHHHHHHHHHhccHHHHHHHHHHHHhcC
Confidence 4555664 567777 68999999999999999999998876433 222221 26666665554
No 106
>COG5602 SIN3 Histone deacetylase complex, SIN3 component [Chromatin structure and dynamics]
Probab=22.60 E-value=3.1e+02 Score=34.41 Aligned_cols=67 Identities=25% Similarity=0.444 Sum_probs=51.7
Q ss_pred CCCCHHHHHHHHHHHHHHHHHHhcCChHHHHHHHHHHHhhhcCcccHHHHHHHHHHh--chhhhHHHHHHhCC
Q 006039 384 PAPSVENIQAANRSLVERMRAAFEYDEDKYTAFKDITAQYRQGLIDTRKYLEYVKQY--GLSHLVLELARLCP 454 (663)
Q Consensus 384 ~~~~ve~~~aank~LVe~Ir~~L~~de~~~~~Fk~~s~~yr~G~i~a~~Y~~~v~~~--Gl~~lvpELarLlP 454 (663)
..|.|-|+. +-+|+|...+-.+.+-|+.|-+|-++|..+.|++-+....|..| |--||+--+--.||
T Consensus 124 r~Ldv~DAl----syLe~vK~~f~~rp~iYn~FLdiMkdFKsqaiDtpgVI~RVS~LFrgYP~LIegFNtFLP 192 (1163)
T COG5602 124 RPLDVSDAL----SYLEKVKEQFSNRPEIYNNFLDIMKDFKSQAIDTPGVIERVSVLFRGYPHLIEGFNTFLP 192 (1163)
T ss_pred CCCChHHHH----HHHHHHHHHHhcCHHHHHHHHHHHHHHHhcccCcHHHHHHHHHHHcCChHHHHHHhhhCC
Confidence 345565654 56899999999999999999999999999999999999888654 54454444444444
No 107
>PF04959 ARS2: Arsenite-resistance protein 2; InterPro: IPR007042 This entry represents Arsenite-resistance protein 2 (also known as Serrate RNA effector molecule homolog) which is thought to play a role in arsenite resistance [], although does not directly confer arsenite resistance but rather modulates arsenic sensitivity []. Arsenite is a carcinogenic compound which can act as a comutagen by inhibiting DNA repair. It is also involved in cell cycle progression at S phase. ; PDB: 3AX1_A.
Probab=22.29 E-value=22 Score=36.85 Aligned_cols=27 Identities=19% Similarity=0.573 Sum_probs=17.8
Q ss_pred CCCccCCCCCCCCCCCccccCCchhhhccccccc
Q 006039 46 TEHYTCHICQRQHPGQYEYYKNYDDLEIHFRRDH 79 (663)
Q Consensus 46 eKHf~C~iC~k~~~~k~~YF~~~~~LekH~R~kh 79 (663)
+..|.|.+|+|. |.-....++|+..+|
T Consensus 75 ~~K~~C~lc~Kl-------Fkg~eFV~KHI~nKH 101 (214)
T PF04959_consen 75 EDKWRCPLCGKL-------FKGPEFVRKHIFNKH 101 (214)
T ss_dssp SEEEEE-SSS-E-------ESSHHHHHHHHHHH-
T ss_pred CCEECCCCCCcc-------cCChHHHHHHHhhcC
Confidence 345778888887 888777888877765
No 108
>PRK04860 hypothetical protein; Provisional
Probab=22.24 E-value=37 Score=33.68 Aligned_cols=35 Identities=17% Similarity=0.373 Sum_probs=22.5
Q ss_pred CCccCCCCCCCCCCCccccCCchhhhccccccceecCccccCcc
Q 006039 47 EHYTCHICQRQHPGQYEYYKNYDDLEIHFRRDHFLCEDEACLAK 90 (663)
Q Consensus 47 KHf~C~iC~k~~~~k~~YF~~~~~LekH~R~khf~Ce~~~C~kk 90 (663)
-+|.|. |+.. +.......+.|...++|.|.. |...
T Consensus 118 ~~Y~C~-C~~~------~~~~rrH~ri~~g~~~YrC~~--C~~~ 152 (160)
T PRK04860 118 FPYRCK-CQEH------QLTVRRHNRVVRGEAVYRCRR--CGET 152 (160)
T ss_pred EEEEcC-CCCe------eCHHHHHHHHhcCCccEECCC--CCce
Confidence 358887 8763 233333444444557899999 9886
No 109
>COG1592 Rubrerythrin [Energy production and conversion]
Probab=22.00 E-value=49 Score=33.23 Aligned_cols=9 Identities=22% Similarity=0.973 Sum_probs=5.3
Q ss_pred ccCCCCCCC
Q 006039 49 YTCHICQRQ 57 (663)
Q Consensus 49 f~C~iC~k~ 57 (663)
|.|.+||..
T Consensus 135 ~vC~vCGy~ 143 (166)
T COG1592 135 WVCPVCGYT 143 (166)
T ss_pred EEcCCCCCc
Confidence 556666654
No 110
>PF15269 zf-C2H2_7: Zinc-finger
Probab=21.51 E-value=45 Score=27.07 Aligned_cols=21 Identities=24% Similarity=0.442 Sum_probs=18.5
Q ss_pred CcCCCCCCccCCchhHHhhhc
Q 006039 25 PMCEFCRTPFYGDNELYTHMS 45 (663)
Q Consensus 25 P~C~fC~KrF~d~deL~~HmR 45 (663)
+.|..|......++.|+.||+
T Consensus 21 ykcfqcpftc~~kshl~nhmk 41 (54)
T PF15269_consen 21 YKCFQCPFTCNEKSHLFNHMK 41 (54)
T ss_pred ceeecCCcccchHHHHHHHHH
Confidence 579999999999999999986
No 111
>TIGR03398 plc_access_R phospholipase C accessory protein PlcR. The class of microbial phosphocholine-preferring phospholipase C enzymes described by model TIGR03396 has two members in Pseudomonas aeruginosa, one of which (PlcH) is hemolytic and can hydrolyzes sphingomyelin as well as phosphatidylcholine. This model describes PlcR, an accessory protein for PlcH with which it forms a heterodimer. The member of the family from P. aeruginosa, although not the members from various Burkholderia species, is encoded immediately downstream of phospholipase C.
Probab=21.21 E-value=1.8e+02 Score=28.26 Aligned_cols=42 Identities=26% Similarity=0.394 Sum_probs=35.6
Q ss_pred HHHHHHHHHhchhhhHHHHHHhCCChHHHHHHHHHHHHHhhccc
Q 006039 431 RKYLEYVKQYGLSHLVLELARLCPDALKQKELIETYNATLQGNN 474 (663)
Q Consensus 431 ~~Y~~~v~~~Gl~~lvpELarLlPD~~Kq~eL~~a~~~~~r~~~ 474 (663)
..|++|+++- ..+|.|..+-+||++-|+..|+..-+.+|..-
T Consensus 90 ~q~~~YaqqS--rkvi~eV~asVpD~eQq~aaid~RL~aLR~Qi 131 (141)
T TIGR03398 90 PQYLEYAQQS--RKVIAEVQASVPDPEQQQAAIDQRLQALRVQI 131 (141)
T ss_pred HHHHHHHHHH--HHHHHHHHhcCCCHHHHHHHHHHHHHHHHHHH
Confidence 4688999872 25999999999999999999999888888633
No 112
>COG1592 Rubrerythrin [Energy production and conversion]
Probab=20.52 E-value=48 Score=33.26 Aligned_cols=24 Identities=25% Similarity=0.562 Sum_probs=19.0
Q ss_pred CcCCCCCCccCCchhHHhhhcCCCccCCCCCCC
Q 006039 25 PMCEFCRTPFYGDNELYTHMSTEHYTCHICQRQ 57 (663)
Q Consensus 25 P~C~fC~KrF~d~deL~~HmReKHf~C~iC~k~ 57 (663)
+.|..||+.+.+ +-|..|.+|+..
T Consensus 135 ~vC~vCGy~~~g---------e~P~~CPiCga~ 158 (166)
T COG1592 135 WVCPVCGYTHEG---------EAPEVCPICGAP 158 (166)
T ss_pred EEcCCCCCcccC---------CCCCcCCCCCCh
Confidence 679999866543 578999999974
No 113
>COG4530 Uncharacterized protein conserved in bacteria [Function unknown]
Probab=20.24 E-value=58 Score=30.96 Aligned_cols=26 Identities=8% Similarity=0.056 Sum_probs=22.0
Q ss_pred CcCCCCCCccCCchhHHhhhcCCCccCCCCCCC
Q 006039 25 PMCEFCRTPFYGDNELYTHMSTEHYTCHICQRQ 57 (663)
Q Consensus 25 P~C~fC~KrF~d~deL~~HmReKHf~C~iC~k~ 57 (663)
-.|..|++.||+. .+.|..|..|+++
T Consensus 10 ridPetg~KFYDL-------NrdPiVsPytG~s 35 (129)
T COG4530 10 RIDPETGKKFYDL-------NRDPIVSPYTGKS 35 (129)
T ss_pred ccCccccchhhcc-------CCCccccCccccc
Confidence 5799999999983 4578999999997
No 114
>PRK12727 flagellar biosynthesis regulator FlhF; Provisional
Probab=20.19 E-value=3.6e+02 Score=32.06 Aligned_cols=54 Identities=22% Similarity=0.332 Sum_probs=36.4
Q ss_pred HHHHHHHHHhcCChHHHHHHHHHHHhhhcCcccHHHHHHHHHHhchhh-hHHHHHHhCCCh
Q 006039 397 SLVERMRAAFEYDEDKYTAFKDITAQYRQGLIDTRKYLEYVKQYGLSH-LVLELARLCPDA 456 (663)
Q Consensus 397 ~LVe~Ir~~L~~de~~~~~Fk~~s~~yr~G~i~a~~Y~~~v~~~Gl~~-lvpELarLlPD~ 456 (663)
.=|+.||..| |..+..+.. .+ .++..--..-|+++..+|++. |+-+|+.-+|..
T Consensus 267 ~El~~lR~ll---e~q~~~l~~--~~-~~~~P~~~~l~~~L~~~Gvs~~la~~L~~~l~~~ 321 (559)
T PRK12727 267 GELALMRQMI---EREMNRLTD--ER-LRGSPVRAQALELMDDYGFDAGLTRDVAMQIPAD 321 (559)
T ss_pred HHHHHHHHHH---HHHHHhhhh--hh-hccChHHHHHHHHHHHCCCCHHHHHHHHHhhhcc
Confidence 3456777777 677777753 22 333343444459999999994 888888888763
No 115
>PF12174 RST: RCD1-SRO-TAF4 (RST) plant domain; InterPro: IPR022003 This domain is found in many plant proteins including SROs and RCD1s; it is required for interaction with multiple plant transcription factors.
Probab=20.09 E-value=4.4e+02 Score=22.85 Aligned_cols=47 Identities=11% Similarity=0.295 Sum_probs=37.6
Q ss_pred HHHHHHHHHhcCChHHHHHHHHHHHhhhcCcccHHHHHHHHH-HhchhhhH
Q 006039 397 SLVERMRAAFEYDEDKYTAFKDITAQYRQGLIDTRKYLEYVK-QYGLSHLV 446 (663)
Q Consensus 397 ~LVe~Ir~~L~~de~~~~~Fk~~s~~yr~G~i~a~~Y~~~v~-~~Gl~~lv 446 (663)
.|+..|+..|. .+++..-..+..+|+.+.|+=.+|...|. -.| +.|+
T Consensus 13 ~L~~~l~~~l~--~~~~~~l~~~Y~~~k~~kIsR~~fvr~lR~IVG-D~lL 60 (70)
T PF12174_consen 13 MLFSALSKHLP--PSKMDLLQKHYEEFKKKKISREEFVRKLRQIVG-DQLL 60 (70)
T ss_pred HHHHHHHHHCC--HHHHHHHHHHHHHHHHCCCCHHHHHHHHHHHHH-HHHH
Confidence 46777888884 77888888888999999999999998886 448 5433
Done!