Query psy2984
Match_columns 228
No_of_seqs 191 out of 425
Neff 6.0
Searched_HMMs 46136
Date Fri Aug 16 22:32:59 2013
Command hhsearch -i /work/01045/syshi/Psyhhblits/psy2984.a3m -d /work/01045/syshi/HHdatabase/Cdd.hhm -o /work/01045/syshi/hhsearch_cdd/2984hhsearch_cdd -cpu 12 -v 0
No Hit Prob E-value P-value Score SS Cols Query HMM Template HMM
1 KOG0380|consensus 100.0 8.4E-42 1.8E-46 324.8 17.0 164 58-226 317-520 (523)
2 PLN02401 diacylglycerol o-acyl 100.0 8.4E-40 1.8E-44 306.3 17.6 151 64-217 252-444 (446)
3 PLN03242 diacylglycerol o-acyl 100.0 5.7E-38 1.2E-42 291.9 15.6 145 61-208 224-410 (410)
4 COG5056 ARE1 Acyl-CoA choleste 100.0 1E-28 2.2E-33 228.4 14.9 144 66-209 322-510 (512)
5 KOG2297|consensus 99.9 8.3E-23 1.8E-27 184.0 6.5 79 1-79 216-294 (412)
6 PF03062 MBOAT: MBOAT, membran 99.0 1.4E-10 3.1E-15 103.4 3.3 93 117-209 225-321 (322)
7 PF13813 MBOAT_2: Membrane bou 95.5 0.042 9E-07 40.5 5.7 41 117-157 29-72 (83)
8 PLN02332 membrane bound O-acyl 91.9 0.095 2.1E-06 50.5 2.1 32 117-148 326-358 (465)
9 PF06570 DUF1129: Protein of u 84.0 26 0.00056 29.9 15.7 59 7-72 3-64 (206)
10 KOG2704|consensus 82.5 0.62 1.3E-05 45.0 1.2 45 111-157 327-375 (480)
11 KOG4312|consensus 75.9 2.6 5.6E-05 39.7 3.1 32 117-150 300-331 (449)
12 PF08006 DUF1700: Protein of u 71.4 54 0.0012 27.2 9.9 28 36-63 23-50 (181)
13 PF05184 SapB_1: Saposin-like 71.2 12 0.00025 23.0 4.4 32 38-69 6-37 (39)
14 PRK02868 hypothetical protein; 70.6 80 0.0017 28.3 14.5 150 6-158 40-238 (245)
15 COG5202 Predicted membrane pro 67.1 3 6.6E-05 39.6 1.5 33 117-149 334-367 (512)
16 COG1696 DltB Predicted membran 65.7 16 0.00035 35.2 6.1 45 110-154 280-328 (425)
17 PF08349 DUF1722: Protein of u 58.1 37 0.00079 26.4 6.0 52 23-74 55-106 (117)
18 PF08542 Rep_fac_C: Replicatio 57.6 46 0.001 23.9 6.1 48 23-74 8-55 (89)
19 PRK10144 formate-dependent nit 57.2 17 0.00036 29.4 3.9 39 34-72 54-92 (126)
20 PF08700 Vps51: Vps51/Vps67; 57.0 57 0.0012 23.4 6.5 39 10-48 8-48 (87)
21 TIGR03147 cyt_nit_nrfF cytochr 56.2 13 0.00028 30.0 3.1 39 34-72 54-92 (126)
22 KOG3860|consensus 54.2 19 0.0004 35.4 4.4 46 108-154 338-383 (494)
23 PRK09685 DNA-binding transcrip 50.7 33 0.00072 30.1 5.2 32 10-42 227-258 (302)
24 PF03918 CcmH: Cytochrome C bi 48.1 23 0.0005 29.1 3.5 39 35-73 55-93 (148)
25 PF09832 DUF2059: Uncharacteri 46.1 30 0.00066 23.6 3.4 36 11-46 10-48 (64)
26 KOG4444|consensus 45.8 2.5E+02 0.0055 26.4 10.1 101 15-128 46-150 (359)
27 PF12833 HTH_18: Helix-turn-he 43.8 63 0.0014 22.6 4.9 44 10-60 8-52 (81)
28 PF08776 VASP_tetra: VASP tetr 43.0 93 0.002 20.2 5.0 30 34-69 8-37 (40)
29 PF09454 Vps23_core: Vps23 cor 42.7 68 0.0015 22.7 4.8 52 40-92 8-62 (65)
30 PF04233 Phage_Mu_F: Phage Mu 39.0 46 0.001 24.8 3.7 29 40-68 1-29 (112)
31 TIGR02297 HpaA 4-hydroxyphenyl 39.0 88 0.0019 27.1 6.0 8 53-60 251-258 (287)
32 PF08747 DUF1788: Domain of un 38.6 1.2E+02 0.0026 24.2 6.2 57 13-79 9-66 (126)
33 PF10163 EnY2: Transcription f 38.1 1.6E+02 0.0035 21.6 6.7 33 37-69 14-46 (86)
34 PF02268 TFIIA_gamma_N: Transc 38.0 94 0.002 21.0 4.6 32 38-69 11-42 (49)
35 PRK10167 hypothetical protein; 37.9 93 0.002 26.2 5.6 52 23-74 96-147 (169)
36 PRK09940 transcriptional regul 35.2 99 0.0022 27.6 5.7 44 10-62 163-206 (253)
37 COG3088 CcmH Uncharacterized p 35.2 1.2E+02 0.0025 25.4 5.6 62 34-107 58-119 (153)
38 PF04761 Phage_Treg: Lactococc 32.9 89 0.0019 21.4 3.8 36 17-52 9-44 (57)
39 PF13565 HTH_32: Homeodomain-l 32.7 65 0.0014 22.3 3.4 55 15-69 6-64 (77)
40 TIGR02425 decarb_PcaC 4-carbox 32.6 1.5E+02 0.0031 23.5 5.7 60 14-74 44-107 (123)
41 PRK09978 DNA-binding transcrip 32.0 1.2E+02 0.0027 27.4 5.8 33 10-43 171-203 (274)
42 PF06260 DUF1024: Protein of u 31.8 2.2E+02 0.0047 21.3 6.0 45 23-67 26-71 (82)
43 PF07850 Renin_r: Renin recept 31.7 16 0.00034 28.3 0.0 25 186-210 52-76 (98)
44 KOG3747|consensus 31.1 5.6E+02 0.012 25.8 10.8 57 100-157 106-171 (602)
45 PRK10219 DNA-binding transcrip 30.0 1.3E+02 0.0029 22.2 4.9 34 10-44 34-68 (107)
46 PF00816 Histone_HNS: H-NS his 29.9 1.3E+02 0.0027 22.3 4.7 39 37-77 5-43 (93)
47 PLN03025 replication factor C 29.1 2.5E+02 0.0054 25.2 7.4 64 10-74 212-275 (319)
48 PF01221 Dynein_light: Dynein 28.6 1.5E+02 0.0032 21.8 4.9 36 36-71 15-50 (89)
49 smart00342 HTH_ARAC helix_turn 28.4 1.6E+02 0.0035 19.7 4.9 20 10-29 14-33 (84)
50 KOG2705|consensus 27.1 1E+02 0.0022 29.4 4.5 109 40-151 186-353 (471)
51 PF03993 DUF349: Domain of Unk 26.0 2.2E+02 0.0049 19.6 5.3 37 33-70 30-66 (77)
52 PF01323 DSBA: DSBA-like thior 25.5 2.4E+02 0.0053 22.5 6.1 42 10-52 122-163 (193)
53 PF09554 RE_HaeII: HaeII restr 25.0 1.2E+02 0.0026 28.0 4.4 45 24-68 287-335 (338)
54 PF11220 DUF3015: Protein of u 24.6 1.4E+02 0.003 24.6 4.4 50 21-70 84-136 (144)
55 PF07810 TMC: TMC domain; Int 24.3 1.1E+02 0.0023 24.1 3.5 40 187-226 62-109 (111)
56 PF12939 DUF3837: Domain of un 24.3 1.1E+02 0.0025 23.8 3.6 38 36-74 46-83 (102)
57 cd01046 Rubrerythrin_like rubr 23.7 3.5E+02 0.0076 20.9 7.1 28 12-39 21-48 (123)
58 COG1725 Predicted transcriptio 23.5 2.5E+02 0.0053 22.6 5.6 39 31-69 84-122 (125)
59 PHA02503 putative transcriptio 23.5 1.5E+02 0.0032 20.3 3.5 29 24-52 16-44 (57)
60 KOG0886|consensus 23.4 92 0.002 25.9 3.1 61 5-65 90-159 (167)
61 PF07889 DUF1664: Protein of u 23.2 2.1E+02 0.0046 23.0 5.1 42 21-67 50-91 (126)
62 PRK15186 AraC family transcrip 22.9 2.1E+02 0.0045 26.0 5.6 33 10-43 210-242 (291)
63 PRK15044 transcriptional regul 22.8 2E+02 0.0043 26.5 5.5 33 10-43 221-253 (295)
64 KOG4783|consensus 22.8 1.9E+02 0.0041 22.5 4.5 50 79-128 19-95 (102)
65 PHA03056 putative myristoylate 22.3 2E+02 0.0043 23.7 4.7 35 44-78 68-102 (165)
66 PF13625 Helicase_C_3: Helicas 21.9 2.4E+02 0.0051 22.0 5.2 32 42-74 43-74 (129)
67 PF02403 Seryl_tRNA_N: Seryl-t 21.6 3.5E+02 0.0076 20.2 8.9 59 11-69 11-82 (108)
68 PHA01351 putative minor struct 21.6 1.2E+02 0.0027 31.5 4.1 34 13-46 253-296 (1070)
69 PF04282 DUF438: Family of unk 21.3 3E+02 0.0065 19.9 5.1 35 40-76 16-50 (71)
70 CHL00149 odpA pyruvate dehydro 21.3 3.4E+02 0.0073 25.1 6.8 67 5-81 269-337 (341)
71 cd03019 DsbA_DsbA DsbA family, 21.1 3.1E+02 0.0067 21.6 5.8 34 11-45 99-132 (178)
72 PTZ00059 dynein light chain; P 21.0 2.2E+02 0.0048 21.2 4.6 36 38-73 18-53 (90)
73 PF12363 DUF3647: Phage protei 20.8 2.7E+02 0.0059 21.5 5.2 35 38-72 69-103 (113)
74 PLN02678 seryl-tRNA synthetase 20.6 7.3E+02 0.016 24.1 9.2 60 10-69 14-86 (448)
75 COG5101 CRM1 Importin beta-rel 20.1 6E+02 0.013 26.6 8.5 44 24-73 164-207 (1053)
No 1
>KOG0380|consensus
Probab=100.00 E-value=8.4e-42 Score=324.78 Aligned_cols=164 Identities=34% Similarity=0.538 Sum_probs=145.3
Q ss_pred HHHHHHHHHHHhcCCChhHHHHh--hcchhHHHHHHHHHHhhhHHHHHHHHH---HHHHHHHHH----------------
Q psy2984 58 DIVADIREIANKHCIPDQELIVL--NMDVVKATERLLKLSVSILHIHLVPIP---LLLISVLCI---------------- 116 (228)
Q Consensus 58 eII~~vk~~~~~~~iPe~e~vf~--~~~~~~~~~r~l~Ls~~~lP~~~~~ll---~~fh~~lN~---------------- 116 (228)
..++.+-.+++++++|..-.+.+ +.|.....++++++++ ||+++||| ++|||||||
T Consensus 317 g~~~l~~~i~~q~~vP~~~n~~~~~~~~~~~~~~~ll~l~i---P~il~~Ll~FY~ifh~~LNa~AEl~rFaDR~FY~DW 393 (523)
T KOG0380|consen 317 GCIFLMVFIFQQWMVPVARNSKDPPFSDASRLIERLLKLMI---PGILIWLLFFYLIFHCWLNAVAELTRFADREFYGDW 393 (523)
T ss_pred HHHHHHHHHHHHHhhHHHHHhcccccchHHHHHHHHHHHhh---hHHHHHHHHHHHHHHHHHHHHHHHHHhhHHhHHHhh
Confidence 34666667889999995322211 1146677888888888 99999999 999999999
Q ss_pred -------------------HHHHhhchhHHhhcCcchhhHHHHHHHHHHHHHHHHHhhhhhhHHHHHHHHHhhHHHHHHh
Q psy2984 117 -------------------ISCRHLYKPLVEQGYSRLTASSLVFFISAFMHEYLVSVPLRTYKIWAFMGMMGQIPLSMLS 177 (228)
Q Consensus 117 -------------------wl~rhVY~~~~~~~~sk~~A~~~vF~vSAi~HE~i~~~~~~~~~~~~f~~~~~Q~Pl~~~~ 177 (228)
||+||||+|+++.+.||.+|+++||++||++|||++++++++|++|+|.+||+|+|++.++
T Consensus 394 WNs~s~~~f~R~WN~PVH~wl~RHVY~p~~~~~~sK~~A~l~vF~vSAVfHEy~~~v~l~~Fr~~~f~~~m~Qipl~~~~ 473 (523)
T KOG0380|consen 394 WNSVSWDEFWRTWNVPVHKWLYRHVYKPMLSRGLSKSAATLAVFFVSAVFHEYVVSVPLRIFRPWMFYLFMFQIPLFFFT 473 (523)
T ss_pred hccCcHHHHHHHcCcHHHHHHHHHhhHHHHhccchhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 9999999999999999999999999999999999999999999999999999999999999
Q ss_pred hhhhhhcCCccceeehhhhhhhhhhHHHHHHHHHHHHHHhCCCCcccCC
Q psy2984 178 RHVEKKYGPRWGNIIVWSSLILGQPLCIMMYYHDFVITHFGEALLDKYS 226 (228)
Q Consensus 178 ~~~~~~~~~~~gN~~fW~~l~iG~pl~~~lY~~e~yar~~~~~~~~~~~ 226 (228)
+...++ .+.||++||+++++|||+++++|++|||+|++||+..++..
T Consensus 474 ~~~~~k--~~~gNi~~W~sliiGq~~~v~lY~~~~y~~~~~~~~~~t~~ 520 (523)
T KOG0380|consen 474 ARFFRK--RSLGNIFFWFSLIIGQPLLVLLYYHEWYARRHCPSANETLY 520 (523)
T ss_pred HHHhhc--cccchhHHHHHHHhccHHHHHHHHHHHHHHhcCCcccchhh
Confidence 877653 38999999999999999999999999999999999988754
No 2
>PLN02401 diacylglycerol o-acyltransferase
Probab=100.00 E-value=8.4e-40 Score=306.30 Aligned_cols=151 Identities=34% Similarity=0.560 Sum_probs=132.1
Q ss_pred HHHHHhcCCChhHHHHh--hcchhHHHHHHHHHHhhhHHHHHHHHH---HHHHHHHHH----------------------
Q psy2984 64 REIANKHCIPDQELIVL--NMDVVKATERLLKLSVSILHIHLVPIP---LLLISVLCI---------------------- 116 (228)
Q Consensus 64 k~~~~~~~iPe~e~vf~--~~~~~~~~~r~l~Ls~~~lP~~~~~ll---~~fh~~lN~---------------------- 116 (228)
.-+.++++.|-.+-... +.|...+.||+++|++ |++++||+ ++||||||+
T Consensus 252 ~~i~~q~i~P~~~ns~~~~~~~~~~~~er~lkLs~---P~~~~wLl~Fy~ifh~~LN~~AEltrFgDR~FY~DWWNs~s~ 328 (446)
T PLN02401 252 GFIIEQYINPIVQNSQHPLKGNLLYAIERVLKLSV---PNLYVWLCMFYCFFHLWLNILAELLRFGDREFYKDWWNAKTV 328 (446)
T ss_pred HHHHHHhhhhhHhhcccccchhhHHHHHHHHHHhh---HHHHHHHHHHHHHHHHHHHHHHHHHhhhhhhhhhhhhccCcH
Confidence 34566777773221111 1356678999999999 99999999 999999999
Q ss_pred -------------HHHHhhchhHHhhcCcchhhHHHHHHHHHHHHHHHHHhhhhhhHHHHHHHHHhhHHHHHHhhhhhhh
Q psy2984 117 -------------ISCRHLYKPLVEQGYSRLTASSLVFFISAFMHEYLVSVPLRTYKIWAFMGMMGQIPLSMLSRHVEKK 183 (228)
Q Consensus 117 -------------wl~rhVY~~~~~~~~sk~~A~~~vF~vSAi~HE~i~~~~~~~~~~~~f~~~~~Q~Pl~~~~~~~~~~ 183 (228)
||+||||+|++++|+||..|+++||++||++|||++++++|++|+|+|+|||+|+|++++|+.++++
T Consensus 329 ~eywR~WN~PVH~fL~RHVY~~~~~~g~sk~~A~~~vF~iSA~~HE~v~~v~~~~~r~~~f~~mm~QiPLi~~t~~l~~~ 408 (446)
T PLN02401 329 EEYWRMWNMPVHKWMVRHIYFPCLRNGISKGVAILIAFFVSAVFHELCIAVPCHMFKLWAFLGIMFQVPLVFITNYLQNK 408 (446)
T ss_pred HHHHHHcchHHHHHHHHHcChHhhhCCCChHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhc
Confidence 9999999999999999999999999999999999999999999999999999999999999976654
Q ss_pred -cCCccceeehhhh-hhhhhhHHHHHHHHHHHHHHh
Q psy2984 184 -YGPRWGNIIVWSS-LILGQPLCIMMYYHDFVITHF 217 (228)
Q Consensus 184 -~~~~~gN~~fW~~-l~iG~pl~~~lY~~e~yar~~ 217 (228)
.++.+||++||++ +++|||+++++|++||+.++.
T Consensus 409 ~~~~~lGNvifW~~f~i~Gqpl~~llY~~~~~~~~~ 444 (446)
T PLN02401 409 FKSSMVGNMIFWFFFCILGQPMCVLLYYHDLMNRKG 444 (446)
T ss_pred cCCCCcchhHHHHHHHhhhHHHHHHHHHHHHHHhhc
Confidence 3467999999999 589999999999999999875
No 3
>PLN03242 diacylglycerol o-acyltransferase; Provisional
Probab=100.00 E-value=5.7e-38 Score=291.94 Aligned_cols=145 Identities=33% Similarity=0.525 Sum_probs=126.9
Q ss_pred HHHHHHHHhcCCChhHHHHh--hcchhHHHHHHHHHHhhhHHHHHHHHH---HHHHHHHHH-------------------
Q psy2984 61 ADIREIANKHCIPDQELIVL--NMDVVKATERLLKLSVSILHIHLVPIP---LLLISVLCI------------------- 116 (228)
Q Consensus 61 ~~vk~~~~~~~iPe~e~vf~--~~~~~~~~~r~l~Ls~~~lP~~~~~ll---~~fh~~lN~------------------- 116 (228)
.....+.++++.|-.+-... ..+...++||++||++ |++++||+ ++||||||+
T Consensus 224 ~l~~~i~~q~i~P~~~ns~~~~~~~~~~~~er~lkL~~---P~~~~~Ll~Fy~ifh~~LN~~AEltrFgDR~FY~DWWNs 300 (410)
T PLN03242 224 GFMGFIIAQYVNPILRNSVHPLKGNYLYAIERVLKLSI---PNLYVWLLMFYCFFHLWLNIVAELLCFGDREFYKDWWNA 300 (410)
T ss_pred HHHHHHHHHHhhHHHHHhcchhhcchHHHHHHHHHHhH---HHHHHHHHHHHHHHHHHHHHHHHHHHhhhhhhhhhhhcc
Confidence 34445677777774222111 1356789999999999 99999999 999999999
Q ss_pred ----------------HHHHhhchhHHhhcCcchhhHHHHHHHHHHHHHHHHHhhhhhhHHHHHHHHHhhHHHHHHhhhh
Q psy2984 117 ----------------ISCRHLYKPLVEQGYSRLTASSLVFFISAFMHEYLVSVPLRTYKIWAFMGMMGQIPLSMLSRHV 180 (228)
Q Consensus 117 ----------------wl~rhVY~~~~~~~~sk~~A~~~vF~vSAi~HE~i~~~~~~~~~~~~f~~~~~Q~Pl~~~~~~~ 180 (228)
||+||||+|++++|+||..|+++||++||++|||++++++|++|+|+|+|||+|+|++++|+..
T Consensus 301 ~s~~eywR~WN~PVH~fl~RHVY~p~~~~g~sk~~A~~~vF~iSA~~HE~v~~v~~~~~r~~~f~~mm~QiPL~~~t~~l 380 (410)
T PLN03242 301 SEVSEYWRLWNMPVHYWLVRHVYFPCLRLGMPKQLAILVVFFISAVFHEVCIAVPCHMIRGWAFLGIMFQVPLVLVTKVL 380 (410)
T ss_pred CcHHHHHHHcchHHHHHHHHHcChHhHhCCCChHHHHHHHHHHHHHHHHHHHHHHHhHHHHHHHHHHHHHHHHHHHHHHH
Confidence 9999999999999999999999999999999999999999999999999999999999999976
Q ss_pred hhh-cCCccceeehhhhh-hhhhhHHHHHH
Q psy2984 181 EKK-YGPRWGNIIVWSSL-ILGQPLCIMMY 208 (228)
Q Consensus 181 ~~~-~~~~~gN~~fW~~l-~iG~pl~~~lY 208 (228)
+++ .|+.+||++||+++ ++|||+++++|
T Consensus 381 ~~~~~~~~lGNvifW~~~~i~Gqpl~~llY 410 (410)
T PLN03242 381 QRKFPSSMVGNMIFWFFFCIVGQPMCVLLY 410 (410)
T ss_pred hhcccCCccchhHHHHHHHHhhHhHHHhhC
Confidence 653 46889999999995 89999999998
No 4
>COG5056 ARE1 Acyl-CoA cholesterol acyltransferase [Lipid metabolism]
Probab=99.96 E-value=1e-28 Score=228.40 Aligned_cols=144 Identities=22% Similarity=0.356 Sum_probs=126.7
Q ss_pred HHHhcCCChhHHHHhhcc------hhHHHHHHHHHHhhhHHHHHHHHH---HHHHHHHHH--------------------
Q psy2984 66 IANKHCIPDQELIVLNMD------VVKATERLLKLSVSILHIHLVPIP---LLLISVLCI-------------------- 116 (228)
Q Consensus 66 ~~~~~~iPe~e~vf~~~~------~~~~~~r~l~Ls~~~lP~~~~~ll---~~fh~~lN~-------------------- 116 (228)
.++.+.+|..--+.+-.+ ....++..+.++.+++|.++++++ .+|+|.|||
T Consensus 322 ~~d~ymvPva~r~i~~~~~~~~~~~~~~i~~~~~l~~~mipfivlyll~FY~Ifd~iLN~vAEiTrFaDr~FYgdWWNcv 401 (512)
T COG5056 322 VADQYMVPVAMRAIDFENVTDASGTYIAIENWINLLFDMIPFIVLYLLFFYLIFDCILNAVAEITRFADRYFYGDWWNCV 401 (512)
T ss_pred HHHHHhhHHHHHHHhhhccccccchhhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhccchhhhhccc
Confidence 677888886443322222 236778888888999998888888 899999999
Q ss_pred ---------------HHHHhhchhHHh-hcCcchhhHHHHHHHHHHHHHHHHHhhhhhhHHHHHHHHHhhHHHHHHhhhh
Q psy2984 117 ---------------ISCRHLYKPLVE-QGYSRLTASSLVFFISAFMHEYLVSVPLRTYKIWAFMGMMGQIPLSMLSRHV 180 (228)
Q Consensus 117 ---------------wl~rhVY~~~~~-~~~sk~~A~~~vF~vSAi~HE~i~~~~~~~~~~~~f~~~~~Q~Pl~~~~~~~ 180 (228)
||.||||+|+++ ++.||..|+++||++||++||++|+++++++|+|+++.||.|+|++.+|+..
T Consensus 402 sw~eFsr~WNkPVh~fLlRHVYhssis~~~lsKS~AtL~tFfiSsvvHE~vm~~i~~K~rgy~l~fqllQiPli~lt~tk 481 (512)
T COG5056 402 SWDEFSRIWNKPVHKFLLRHVYHSSISGFKLSKSQATLFTFFISSVVHELVMSIITKKARGYLLFFQLLQIPLIALTNTK 481 (512)
T ss_pred cHHHHHHHhCcHHHHHHHHHhhcccccccccchhhhhHHHHhHHHHHHHHHHHHHHHHHHHHHHHHHHHhhhHHHHHhhH
Confidence 999999999996 7899999999999999999999999999999999999999999999999987
Q ss_pred hhhcCCccceeehhhhhhhhhhHHHHHHH
Q psy2984 181 EKKYGPRWGNIIVWSSLILGQPLCIMMYY 209 (228)
Q Consensus 181 ~~~~~~~~gN~~fW~~l~iG~pl~~~lY~ 209 (228)
.+|.++.+||++||++++.|+++++.+|.
T Consensus 482 F~rrr~~LGNv~FW~gic~gPSvm~~lYi 510 (512)
T COG5056 482 FKRRRPILGNVFFWFGICVGPSVMCTLYI 510 (512)
T ss_pred HHHcCcccccchhhhHHHhhHHHHHHHHh
Confidence 77778999999999999999999988884
No 5
>KOG2297|consensus
Probab=99.87 E-value=8.3e-23 Score=183.97 Aligned_cols=79 Identities=42% Similarity=0.709 Sum_probs=77.3
Q ss_pred CCCCCCCCCChHHHHHHHhhcCchHHHHHHHHHHhHHHHHHHHHHHHHHHHcCCChhHHHHHHHHHHHhcCCChhHHHH
Q psy2984 1 MEFVPPNKRSDEYFRTVFEEKGLADIVKLHMAQASQEAKKELQEQLEEQISEGASIKDIVADIREIANKHCIPDQELIV 79 (228)
Q Consensus 1 leffP~~kRs~~~f~~~F~~~gL~el~~~~~k~~~~~~kkeL~~~L~~~i~~~~~~~eII~~vk~~~~~~~iPe~e~vf 79 (228)
||||||||||.|||++||+++||+|+++|+++|+++++|||||++|++++++|.|.+|||.+||+.|+++++||+|||.
T Consensus 216 meffPpnkrs~E~Fak~Ft~agL~elvey~~~q~~~~a~kElq~~L~~q~s~e~p~~evi~~VKee~k~~nlPe~eVi~ 294 (412)
T KOG2297|consen 216 MEFFPPNKRSVEHFAKYFTDAGLKELVEYHRNQQSEGARKELQKELQEQVSEEDPVKEVILYVKEEMKRNNLPETEVIG 294 (412)
T ss_pred HHhcCCcchhHHHHHHHHhHhhHHHHHHHHHHHHHHHHHHHHHHHHHHHhccCCCHHHHHHHHHHHHHhcCCCCceEEe
Confidence 6899999999999999999999999999999999999999999999999999999999999999999999999999873
No 6
>PF03062 MBOAT: MBOAT, membrane-bound O-acyltransferase family; InterPro: IPR004299 The MBOAT (membrane bound O-acyl transferase) family of membrane proteins contains a variety of acyltransferase enzymes. A conserved histidine has been suggested to be the active site residue [].
Probab=99.02 E-value=1.4e-10 Score=103.40 Aligned_cols=93 Identities=26% Similarity=0.281 Sum_probs=75.8
Q ss_pred HHHHhhchhHH---hhcCcchhhHHHHHHHHHHHHHHHHH-hhhhhhHHHHHHHHHhhHHHHHHhhhhhhhcCCccceee
Q psy2984 117 ISCRHLYKPLV---EQGYSRLTASSLVFFISAFMHEYLVS-VPLRTYKIWAFMGMMGQIPLSMLSRHVEKKYGPRWGNII 192 (228)
Q Consensus 117 wl~rhVY~~~~---~~~~sk~~A~~~vF~vSAi~HE~i~~-~~~~~~~~~~f~~~~~Q~Pl~~~~~~~~~~~~~~~gN~~ 192 (228)
||+||||+|+. +.+.++..|+++||++||+.||+..+ ...+.+.+.++.....+.|..-.......+.+...||++
T Consensus 225 wL~~yVY~~~~~~~~~~~~~~~a~~~tf~~sa~WHg~~~~~~~~~~~~~l~~~~e~~~~~~~~~~~~~~~~~~~~~~~~~ 304 (322)
T PF03062_consen 225 WLKRYVYKPLGGSSRGKLSKFLATLATFLFSALWHGFYPGYYLWFFFNGLGLFLERLFRPLFRKFFLFSKKRRSKIGNVI 304 (322)
T ss_pred HHHHheeCcchhccccchhhHHHHHHHHHHHHHHhccchhhhHHHHHHHHHHHHHHHHHHHHhhhhhhhhccccchhhhh
Confidence 99999999995 34578999999999999999999996 666788888888888887766433333334457789999
Q ss_pred hhhhhhhhhhHHHHHHH
Q psy2984 193 VWSSLILGQPLCIMMYY 209 (228)
Q Consensus 193 fW~~l~iG~pl~~~lY~ 209 (228)
+|++.++|+++.+++|.
T Consensus 305 ~~~~~~~~~~~~~~~~~ 321 (322)
T PF03062_consen 305 FWLSACLGTSLFFSLYS 321 (322)
T ss_pred eEeEEEEEEcccccccC
Confidence 99999999998887764
No 7
>PF13813 MBOAT_2: Membrane bound O-acyl transferase family
Probab=95.49 E-value=0.042 Score=40.52 Aligned_cols=41 Identities=27% Similarity=0.053 Sum_probs=30.7
Q ss_pred HHHHhhchhHHhhc---CcchhhHHHHHHHHHHHHHHHHHhhhh
Q psy2984 117 ISCRHLYKPLVEQG---YSRLTASSLVFFISAFMHEYLVSVPLR 157 (228)
Q Consensus 117 wl~rhVY~~~~~~~---~sk~~A~~~vF~vSAi~HE~i~~~~~~ 157 (228)
-+.+..+.+....+ .+|..+.+.+|++||++||+......+
T Consensus 29 ~~~~~~~~~~~~~~~~~~~r~~~l~~aF~~SGl~H~~~~~~~~~ 72 (83)
T PF13813_consen 29 PFSSIGYFPVRRVLGSKASRYLQLFGAFLISGLMHEAGDWYMSR 72 (83)
T ss_pred HHHHHHHHHHHhcccchHHHHHHHHHHHHHHHHHHHHHHHhccC
Confidence 45555666655432 357889999999999999999877655
No 8
>PLN02332 membrane bound O-acyl transferase (MBOAT) family protein
Probab=91.93 E-value=0.095 Score=50.54 Aligned_cols=32 Identities=22% Similarity=0.174 Sum_probs=26.8
Q ss_pred HHHHhhchhHHhhcCcc-hhhHHHHHHHHHHHH
Q psy2984 117 ISCRHLYKPLVEQGYSR-LTASSLVFFISAFMH 148 (228)
Q Consensus 117 wl~rhVY~~~~~~~~sk-~~A~~~vF~vSAi~H 148 (228)
||.+|||.++.+.|..+ ..+.++||++||+-|
T Consensus 326 Wl~~YvY~rl~~~~~~~~~~~~~~t~~~sa~WH 358 (465)
T PLN02332 326 WLRHYVYERLVPKGKKPGFFQLLATQTVSAVWH 358 (465)
T ss_pred HHHHhEEeeCccCCcchhHHHHHHHHHHHHHHh
Confidence 99999999987655333 468899999999999
No 9
>PF06570 DUF1129: Protein of unknown function (DUF1129); InterPro: IPR009214 There are currently no experimental data for members of this group or their homologues. However, these proteins contain predicted integral membrane proteins (with several transmembrane segments).
Probab=84.04 E-value=26 Score=29.93 Aligned_cols=59 Identities=22% Similarity=0.405 Sum_probs=42.6
Q ss_pred CCCChHHH---HHHHhhcCchHHHHHHHHHHhHHHHHHHHHHHHHHHHcCCChhHHHHHHHHHHHhcCC
Q psy2984 7 NKRSDEYF---RTVFEEKGLADIVKLHMAQASQEAKKELQEQLEEQISEGASIKDIVADIREIANKHCI 72 (228)
Q Consensus 7 ~kRs~~~f---~~~F~~~gL~el~~~~~k~~~~~~kkeL~~~L~~~i~~~~~~~eII~~vk~~~~~~~i 72 (228)
+||++|+. +.+.++.|++ .++.++...|+.++|-|.=++|++.+|+--..++.+++..=
T Consensus 3 TkkN~~y~~~l~~~L~~~~~~-------e~~~e~~L~eil~~LleaQk~G~tA~~lfG~P~~~a~eli~ 64 (206)
T PF06570_consen 3 TKKNQEYIFDLRKYLRSSGVS-------EEEIEELLEEILPHLLEAQKKGKTARQLFGDPKEYADELIK 64 (206)
T ss_pred chHHHHHHHHHHHHHHHcCCC-------HHHHHHHHHHHHHHHHHHHhCCCcHHHHcCCHHHHHHHHhc
Confidence 56777654 3444455554 36788888999999999889999999987777766666443
No 10
>KOG2704|consensus
Probab=82.51 E-value=0.62 Score=45.02 Aligned_cols=45 Identities=18% Similarity=0.189 Sum_probs=33.3
Q ss_pred HHHHHHHHHHhhchhHHhhcCcchhhHHHHHHHHHHHHH----HHHHhhhh
Q psy2984 111 ISVLCIISCRHLYKPLVEQGYSRLTASSLVFFISAFMHE----YLVSVPLR 157 (228)
Q Consensus 111 h~~lN~wl~rhVY~~~~~~~~sk~~A~~~vF~vSAi~HE----~i~~~~~~ 157 (228)
.++=|.||.|.||.+.-+-| |..+++.||.+||+-|- |.+++..+
T Consensus 327 Ni~T~~WLR~~vYeRv~k~g--kF~~tlaT~~~SAvWHG~~pGYyltF~t~ 375 (480)
T KOG2704|consen 327 NIQTNKWLRRVVYERVEKKG--KFYRTLATFTTSAVWHGLYPGYYLTFLTS 375 (480)
T ss_pred CccHHHHHHhheEEEcCCCC--chhhhHHHHHHHHHHcccChHHHHHHHHH
Confidence 33344499999999887544 47899999999999994 55554443
No 11
>KOG4312|consensus
Probab=75.87 E-value=2.6 Score=39.67 Aligned_cols=32 Identities=13% Similarity=0.209 Sum_probs=25.7
Q ss_pred HHHHhhchhHHhhcCcchhhHHHHHHHHHHHHHH
Q psy2984 117 ISCRHLYKPLVEQGYSRLTASSLVFFISAFMHEY 150 (228)
Q Consensus 117 wl~rhVY~~~~~~~~sk~~A~~~vF~vSAi~HE~ 150 (228)
||.+|||+.-.+ .+...+.+.||.+||++|-+
T Consensus 300 wL~~yifk~~lr--~~t~~~Vl~TyavSsLLHG~ 331 (449)
T KOG4312|consen 300 WLHEYIFKRRLR--NSTACNVLFTYAVSSLLHGL 331 (449)
T ss_pred HHHHHHHHHHhc--cChHHHHHHHHHHHHHHccc
Confidence 999999996553 34466889999999999954
No 12
>PF08006 DUF1700: Protein of unknown function (DUF1700); InterPro: IPR012963 This family contains many hypothetical bacterial proteins and two putative membrane proteins (Q6GFD0 from SWISSPROT and Q6G806 from SWISSPROT).
Probab=71.43 E-value=54 Score=27.15 Aligned_cols=28 Identities=25% Similarity=0.425 Sum_probs=16.4
Q ss_pred HHHHHHHHHHHHHHHHcCCChhHHHHHH
Q psy2984 36 QEAKKELQEQLEEQISEGASIKDIVADI 63 (228)
Q Consensus 36 ~~~kkeL~~~L~~~i~~~~~~~eII~~v 63 (228)
+++-++-....+|..++|++.+||++.+
T Consensus 23 ~e~l~~Y~e~f~d~~~~G~sEeeii~~L 50 (181)
T PF08006_consen 23 EEILEYYEEYFDDAGEEGKSEEEIIAEL 50 (181)
T ss_pred HHHHHHHHHHHHHhhhCCCCHHHHHHHc
Confidence 3444444555555556667777777663
No 13
>PF05184 SapB_1: Saposin-like type B, region 1; InterPro: IPR007856 Synonym(s):cerebroside sulphate activator, CSAct Saposin B is a small non-enzymatic glycoprotein required for the breakdown of cerebroside sulphates (sulphatides) in lysosomes. Saposin B contains three intramolecular disulphide bridges, exists as a dimer and is remarkably heat, protease, and pH stable. The crystal structure of human saposin B reveals an unusual shell-like dimer consisting of a monolayer of alpha-helices enclosing a large hydrophobic cavity. Although the secondary structure of saposin B is similar to that of the known monomeric members of the saposin-like superfamily, the helices are repacked into a different tertiary arrangement to form the homodimer. A comparison of the two forms of the saposin B dimer suggests that extraction of target lipids from membranes involves a conformational change that facilitates access to the inner cavity [].; GO: 0006629 lipid metabolic process; PDB: 1N69_C 1QDM_C 4DDJ_A 2DOB_A 1OF9_A 2Z9A_A 1M12_A 2GTG_A 1SN6_A 2QYP_B ....
Probab=71.16 E-value=12 Score=23.01 Aligned_cols=32 Identities=16% Similarity=0.253 Sum_probs=27.3
Q ss_pred HHHHHHHHHHHHHHcCCChhHHHHHHHHHHHh
Q psy2984 38 AKKELQEQLEEQISEGASIKDIVADIREIANK 69 (228)
Q Consensus 38 ~kkeL~~~L~~~i~~~~~~~eII~~vk~~~~~ 69 (228)
.-+.+.+.+++.+.++.+.++|+..+......
T Consensus 6 ~C~~~v~~i~~~l~~~~t~~~I~~~l~~~C~~ 37 (39)
T PF05184_consen 6 ICKFVVKEIEKLLKNNKTEEEIKKALEKACNK 37 (39)
T ss_dssp HHHHHHHHHHHHHHSTCHHHHHHHHHHHHHTT
T ss_pred HHHHHHHHHHHHHHcCccHHHHHHHHHHHHhh
Confidence 35677888999999999999999999987754
No 14
>PRK02868 hypothetical protein; Provisional
Probab=70.60 E-value=80 Score=28.29 Aligned_cols=150 Identities=14% Similarity=0.108 Sum_probs=81.3
Q ss_pred CCCCChHHHHHHHhhcCchHHHHHHHH----HHhHHHHHHHHHHHHHHHHcCCChhHHHHHHHHHHHhcCCChhHHHHhh
Q psy2984 6 PNKRSDEYFRTVFEEKGLADIVKLHMA----QASQEAKKELQEQLEEQISEGASIKDIVADIREIANKHCIPDQELIVLN 81 (228)
Q Consensus 6 ~~kRs~~~f~~~F~~~gL~el~~~~~k----~~~~~~kkeL~~~L~~~i~~~~~~~eII~~vk~~~~~~~iPe~e~vf~~ 81 (228)
|+++.-.-+++-+.+.|=..+-|+-++ ||..-.|-..-+.+...+-.--=...++.+++........+..+.+...
T Consensus 40 p~~~~l~~l~~~~~~~~~~~l~~~v~~ms~eqq~~ll~~s~~~~~s~lig~~lL~g~il~~I~~~s~g~~v~~~~~~~~s 119 (245)
T PRK02868 40 PSDEQLSILENGIPISGSSGLFELVQNMSPEQQQILLKASAASTFSGLIGNTLLLGGILTLIQLVSAGQRVSALRAIGAS 119 (245)
T ss_pred CCHHHHHHHHhhhhccccccHHHHHHhCCHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHcCCCCCHHHHHHHH
Confidence 344433334443433333334444444 3433344444444444444333344788899998888887765555443
Q ss_pred cchhHHHHHHHHHH------------hhhHHHHHHHHH-------------HHHHHHHHH-----------------HHH
Q psy2984 82 MDVVKATERLLKLS------------VSILHIHLVPIP-------------LLLISVLCI-----------------ISC 119 (228)
Q Consensus 82 ~~~~~~~~r~l~Ls------------~~~lP~~~~~ll-------------~~fh~~lN~-----------------wl~ 119 (228)
. +...|.+.|. .+++||+++..- ++++++=.. |+.
T Consensus 120 ~---~~lp~l~lL~fl~tLlI~lG~~L~iiPGI~l~I~lsLa~vi~v~ek~~v~~Air~S~~l~~~~~~~i~p~il~Wll 196 (245)
T PRK02868 120 A---PILPKLLILIFLTTLLIQLGFMLVVVPGILLAIALSLSPVILVTEKMGIFASMRASMRLAWANMRLVAPAVLLWLL 196 (245)
T ss_pred H---HHHHHHHHHHHHHHHHHHHhHHHHHHHHHHHHHHHHHHHHHHHHcCCCHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 3 2233433333 446898888766 122222111 777
Q ss_pred HhhchhHHhh--c-CcchhhHHHHHHHHHHHHHHHHHhhhhh
Q psy2984 120 RHLYKPLVEQ--G-YSRLTASSLVFFISAFMHEYLVSVPLRT 158 (228)
Q Consensus 120 rhVY~~~~~~--~-~sk~~A~~~vF~vSAi~HE~i~~~~~~~ 158 (228)
.+.--++.-. . .+...+.++...+|+++-=..+.+.+|.
T Consensus 197 ~k~ll~ll~~~l~~~~~~v~~vi~~~l~nlls~fllIylFRl 238 (245)
T PRK02868 197 AKTLLLLLASSFAVLTPNVAAVLLNTLSNLISAILLIYLFRL 238 (245)
T ss_pred HHHHHHHHHHHHhccChHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 7777766532 2 4566777778888888776666666553
No 15
>COG5202 Predicted membrane protein [Function unknown]
Probab=67.09 E-value=3 Score=39.55 Aligned_cols=33 Identities=24% Similarity=0.263 Sum_probs=28.7
Q ss_pred HHHHhhchhHHhhc-CcchhhHHHHHHHHHHHHH
Q psy2984 117 ISCRHLYKPLVEQG-YSRLTASSLVFFISAFMHE 149 (228)
Q Consensus 117 wl~rhVY~~~~~~~-~sk~~A~~~vF~vSAi~HE 149 (228)
||..+||....+.| .+-..+++.||.+||.-|-
T Consensus 334 WLkn~vylrv~kkgkkpgF~stl~Tf~iSA~WHG 367 (512)
T COG5202 334 WLKNSVYLRVVKKGKKPGFWSTLGTFAISALWHG 367 (512)
T ss_pred hhhcceEEEEEecCCCcchHHHHHHHHHHHHHcc
Confidence 99999999888665 3557899999999999995
No 16
>COG1696 DltB Predicted membrane protein involved in D-alanine export [Cell envelope biogenesis, outer membrane]
Probab=65.74 E-value=16 Score=35.22 Aligned_cols=45 Identities=16% Similarity=0.112 Sum_probs=33.8
Q ss_pred HHHHHHHHHHHhhchhHHhh--cCcchhhH--HHHHHHHHHHHHHHHHh
Q psy2984 110 LISVLCIISCRHLYKPLVEQ--GYSRLTAS--SLVFFISAFMHEYLVSV 154 (228)
Q Consensus 110 fh~~lN~wl~rhVY~~~~~~--~~sk~~A~--~~vF~vSAi~HE~i~~~ 154 (228)
+|--||-|+.+|||.|+-.. +..|+.+. +.+|+++++-|=.-...
T Consensus 280 WHmSLS~W~rdYIyipLggsr~~~~~~~~~~l~~~~li~g~WHG~~w~f 328 (425)
T COG1696 280 WHMSLSTWFRDYIYIPLGGSRKKILRTQINFLLINFLLMGLWHGLGWTF 328 (425)
T ss_pred HHhhHHHHhhhheEeecCCcccchHHHHHHHHHHHHHHHHHHhhhhHHH
Confidence 56667779999999999842 34555555 88999999999776543
No 17
>PF08349 DUF1722: Protein of unknown function (DUF1722); InterPro: IPR013560 This domain of unknown function is found in bacteria and archaea and is homologous to the hypothetical protein ybgA from Escherichia coli.
Probab=58.06 E-value=37 Score=26.43 Aligned_cols=52 Identities=13% Similarity=0.121 Sum_probs=45.9
Q ss_pred chHHHHHHHHHHhHHHHHHHHHHHHHHHHcCCChhHHHHHHHHHHHhcCCCh
Q psy2984 23 LADIVKLHMAQASQEAKKELQEQLEEQISEGASIKDIVADIREIANKHCIPD 74 (228)
Q Consensus 23 L~el~~~~~k~~~~~~kkeL~~~L~~~i~~~~~~~eII~~vk~~~~~~~iPe 74 (228)
|.-+..|-+++.+..=|+++.+.+++--+...|...+++.++..+.++..+-
T Consensus 55 l~Hi~Gyfk~~ls~~EK~~~~~~i~~yr~g~i~l~~~l~~L~~~~~ry~~~Y 106 (117)
T PF08349_consen 55 LQHIFGYFKKKLSSEEKQHFLDLIEDYREGKIPLSVPLTLLKHLARRYPDEY 106 (117)
T ss_pred HHHHHHHHHHhCCHHHHHHHHHHHHHHHcCCccHHHHHHHHHHHHHHCCCHH
Confidence 4457788999999999999999999988888999999999999999988663
No 18
>PF08542 Rep_fac_C: Replication factor C C-terminal domain; InterPro: IPR013748 Replication factor C (RFC) is a multimeric AAA+ protein complex that loads the DNA polymerase processivity clamp PCNA (Proliferating Cell Nuclear Antigen) onto DNA using ATP to drive the reaction []. PCNA functions at multiple levels in directing DNA metabolic pathways []. When bound to DNA, PCNA organises various proteins involved in DNA replication, DNA repair, DNA modification, and chromatin modelling. Replication factor C consists of five subunits in a spiral arrangement: Rfc1, Rfc2, Rfc3, Rfc4, and Rfc5 subunits. Rfc1 and Rfc2 load the PCNA sliding clamp onto DNA, while Rfc3 binds ATP and also acts as a checkpoint sensor. The RFC complex contains four ATP sites (sites A, B, C, and D) located at subunit interfaces. In each ATP site, an arginine residue from one subunit is located near the gamma-phosphate of ATP bound in the adjacent subunit. These arginine residues act as "arginine fingers" that can potentially perform two functions: sensing that ATP is bound and catalyzing ATP hydrolysis []. This entry represents the core domain found in Rfc1-5.; GO: 0003689 DNA clamp loader activity, 0005524 ATP binding, 0006260 DNA replication, 0005663 DNA replication factor C complex; PDB: 1SXJ_B 2CHG_B 2CHV_F 2CHQ_C 1IQP_A.
Probab=57.65 E-value=46 Score=23.90 Aligned_cols=48 Identities=29% Similarity=0.440 Sum_probs=35.1
Q ss_pred chHHHHHHHHHHhHHHHHHHHHHHHHHHHcCCChhHHHHHHHHHHHhcCCCh
Q psy2984 23 LADIVKLHMAQASQEAKKELQEQLEEQISEGASIKDIVADIREIANKHCIPD 74 (228)
Q Consensus 23 L~el~~~~~k~~~~~~kkeL~~~L~~~i~~~~~~~eII~~vk~~~~~~~iPe 74 (228)
++++++...++. -++..+.+.+.+.+|-|..+|+..+.+...+..+|+
T Consensus 8 i~~i~~~~~~~~----~~~~~~~~~~l~~~G~s~~~Il~~l~~~l~~~~~~~ 55 (89)
T PF08542_consen 8 IEEILESCLNGD----FKEARKKLYELLVEGYSASDILKQLHEVLVESDIPD 55 (89)
T ss_dssp HHHHHHHHHHTC----HHHHHHHHHHHHHTT--HHHHHHHHHHHHHTSTSSH
T ss_pred HHHHHHHHHhCC----HHHHHHHHHHHHHcCCCHHHHHHHHHHHHHHhhccH
Confidence 455665555553 445666777888889999999999999999998886
No 19
>PRK10144 formate-dependent nitrite reductase complex subunit NrfF; Provisional
Probab=57.22 E-value=17 Score=29.40 Aligned_cols=39 Identities=15% Similarity=0.188 Sum_probs=33.1
Q ss_pred HhHHHHHHHHHHHHHHHHcCCChhHHHHHHHHHHHhcCC
Q psy2984 34 ASQEAKKELQEQLEEQISEGASIKDIVADIREIANKHCI 72 (228)
Q Consensus 34 ~~~~~kkeL~~~L~~~i~~~~~~~eII~~vk~~~~~~~i 72 (228)
.....-+++++++.+++.+|++-+||+++..+.--++.+
T Consensus 54 Sna~iA~dmR~~Vr~~i~~G~sd~eI~~~~v~RYG~~Vl 92 (126)
T PRK10144 54 SNAPVAVSMRHQVYSMVAEGKSEVEIIGWMTERYGDFVR 92 (126)
T ss_pred cCCHHHHHHHHHHHHHHHcCCCHHHHHHHHHHhcCCeEE
Confidence 344667899999999999999999999999887777655
No 20
>PF08700 Vps51: Vps51/Vps67; InterPro: IPR014812 The VFT tethering complex (also known as GARP complex, Golgi associated retrograde protein complex, Vps53 tethering complex) is a conserved eukaryotic docking complex which is involved in recycling of proteins from endosomes to the late Golgi. Vps51 (also known as Vps67) is a subunit of VFT and interacts with the SNARE Tlg1 [].
Probab=57.03 E-value=57 Score=23.40 Aligned_cols=39 Identities=26% Similarity=0.481 Sum_probs=26.0
Q ss_pred ChHHHHHHHhhcCchHHHHHHHHH--HhHHHHHHHHHHHHH
Q psy2984 10 SDEYFRTVFEEKGLADIVKLHMAQ--ASQEAKKELQEQLEE 48 (228)
Q Consensus 10 s~~~f~~~F~~~gL~el~~~~~k~--~~~~~kkeL~~~L~~ 48 (228)
.+++|++.++...++++..+.++. ....+.++||+.+-+
T Consensus 8 ~~~~~~~~l~~~s~~~i~~~~~~L~~~i~~~~~eLr~~V~~ 48 (87)
T PF08700_consen 8 VDEYFKDLLKNSSIKEIRQLENKLRQEIEEKDEELRKLVYE 48 (87)
T ss_pred HHHHHHHHHhhCCHHHHHHHHHHHHHHHHHHHHHHHHHHHh
Confidence 467788888899999999888774 333444444444433
No 21
>TIGR03147 cyt_nit_nrfF cytochrome c nitrite reductase, accessory protein NrfF.
Probab=56.24 E-value=13 Score=30.01 Aligned_cols=39 Identities=13% Similarity=0.225 Sum_probs=33.3
Q ss_pred HhHHHHHHHHHHHHHHHHcCCChhHHHHHHHHHHHhcCC
Q psy2984 34 ASQEAKKELQEQLEEQISEGASIKDIVADIREIANKHCI 72 (228)
Q Consensus 34 ~~~~~kkeL~~~L~~~i~~~~~~~eII~~vk~~~~~~~i 72 (228)
.....-+++++++.+++++|++-+||+++..+.--++.+
T Consensus 54 S~a~iA~dmR~~Vr~~i~~G~Sd~eI~~~~v~RYG~~Vl 92 (126)
T TIGR03147 54 SNSPIAYDLRHEVYSMVNEGKSNQQIIDFMTARFGDFVL 92 (126)
T ss_pred cCCHHHHHHHHHHHHHHHcCCCHHHHHHHHHHhcCCeEE
Confidence 344667899999999999999999999999888777655
No 22
>KOG3860|consensus
Probab=54.16 E-value=19 Score=35.40 Aligned_cols=46 Identities=24% Similarity=0.172 Sum_probs=36.3
Q ss_pred HHHHHHHHHHHHHhhchhHHhhcCcchhhHHHHHHHHHHHHHHHHHh
Q psy2984 108 LLLISVLCIISCRHLYKPLVEQGYSRLTASSLVFFISAFMHEYLVSV 154 (228)
Q Consensus 108 ~~fh~~lN~wl~rhVY~~~~~~~~sk~~A~~~vF~vSAi~HE~i~~~ 154 (228)
-.||-=+|=|+.||||-|+-+ ..++..|+++||.+=|+=|.+...+
T Consensus 338 R~fd~gfn~wLiryvYiplgG-s~~~~lat~~vFafVa~WHg~~~~l 383 (494)
T KOG3860|consen 338 RAFDRGFNKWLIRYVYIPLGG-SRSSLLATLAVFAFVALWHGIYLYL 383 (494)
T ss_pred HHHHHHHHHHHHHHeeeccCC-CccHHHHHHHHHHHHHHhhhhhHHH
Confidence 346666777999999999842 2466789999999999999876544
No 23
>PRK09685 DNA-binding transcriptional activator FeaR; Provisional
Probab=50.66 E-value=33 Score=30.11 Aligned_cols=32 Identities=19% Similarity=0.317 Sum_probs=25.4
Q ss_pred ChHHHHHHHhhcCchHHHHHHHHHHhHHHHHHH
Q psy2984 10 SDEYFRTVFEEKGLADIVKLHMAQASQEAKKEL 42 (228)
Q Consensus 10 s~~~f~~~F~~~gL~el~~~~~k~~~~~~kkeL 42 (228)
|..+|...|++.|.+ ..+|...+.-+.+++.|
T Consensus 227 S~r~L~r~Fk~~G~T-~~~yi~~~RL~~A~~lL 258 (302)
T PRK09685 227 SVRSLYRLFAEQGLV-VAQYIRNRRLDRCADDL 258 (302)
T ss_pred CHHHHHHHHHHcCCC-HHHHHHHHHHHHHHHHh
Confidence 667888888887765 77888888888888777
No 24
>PF03918 CcmH: Cytochrome C biogenesis protein; InterPro: IPR005616 Members of this family include NrfF, CcmH, CycL, Ccl2.; PDB: 2KW0_A 2HL7_A.
Probab=48.14 E-value=23 Score=29.15 Aligned_cols=39 Identities=15% Similarity=0.307 Sum_probs=29.2
Q ss_pred hHHHHHHHHHHHHHHHHcCCChhHHHHHHHHHHHhcCCC
Q psy2984 35 SQEAKKELQEQLEEQISEGASIKDIVADIREIANKHCIP 73 (228)
Q Consensus 35 ~~~~kkeL~~~L~~~i~~~~~~~eII~~vk~~~~~~~iP 73 (228)
....-+++++.+.+++++|++.+||+++..+.--++.+=
T Consensus 55 ~a~~A~dmR~~I~~~l~~G~s~~eI~~~~v~rYG~~Vl~ 93 (148)
T PF03918_consen 55 NAPIARDMRREIREMLAEGKSDEEIIDYFVERYGEFVLY 93 (148)
T ss_dssp -SHHHHHHHHHHHHHHHHT--HHHHHHHHHHHHTTT-EE
T ss_pred CcHHHHHHHHHHHHHHHcCCCHHHHHHHHHHhcCcceee
Confidence 345567799999999999999999999998888776553
No 25
>PF09832 DUF2059: Uncharacterized protein conserved in bacteria (DUF2059); InterPro: IPR018637 This entry contains proteins that have no known function. ; PDB: 2X3O_B 3OAO_A.
Probab=46.10 E-value=30 Score=23.64 Aligned_cols=36 Identities=14% Similarity=0.170 Sum_probs=24.6
Q ss_pred hHHHHHHHhhcCchHHHHHHHHH---HhHHHHHHHHHHH
Q psy2984 11 DEYFRTVFEEKGLADIVKLHMAQ---ASQEAKKELQEQL 46 (228)
Q Consensus 11 ~~~f~~~F~~~gL~el~~~~~k~---~~~~~kkeL~~~L 46 (228)
.+.++++|+++-|+++++|++.- ....+-.++.+..
T Consensus 10 ~~~y~~~ft~~El~~i~~FY~Sp~Gqk~~~~~~~~~~~~ 48 (64)
T PF09832_consen 10 APIYAEHFTEEELDAILAFYESPLGQKIVAKEPALMQAS 48 (64)
T ss_dssp HHHHHHHS-HHHHHHHHHHHHSHHHHHHHHHHHHHHHHH
T ss_pred HHHHHHHCCHHHHHHHHHHHCCHHhHHHHHHhHHHHHHH
Confidence 45689999999999999999984 3333344444433
No 26
>KOG4444|consensus
Probab=45.75 E-value=2.5e+02 Score=26.39 Aligned_cols=101 Identities=20% Similarity=0.147 Sum_probs=52.8
Q ss_pred HHHHhhcCchHHHHHHHHHHhHHHHHHHHHHHHHHHHcCCChhHHHHHHHHHHHhcCCChhHHHHhhcchhHHHHHHHHH
Q psy2984 15 RTVFEEKGLADIVKLHMAQASQEAKKELQEQLEEQISEGASIKDIVADIREIANKHCIPDQELIVLNMDVVKATERLLKL 94 (228)
Q Consensus 15 ~~~F~~~gL~el~~~~~k~~~~~~kkeL~~~L~~~i~~~~~~~eII~~vk~~~~~~~iPe~e~vf~~~~~~~~~~r~l~L 94 (228)
+|||..+..+-..|=..+-..+...+ +-..+...+.++.+.+.|.+-+|+ +.-.-|+ ++..+.|.+=..
T Consensus 46 ~E~~~qarrk~hFEStqrtcd~til~-llp~l~~~i~eeldvdsi~eqLkq--k~~Ltp~--------~KleLWeeLKI~ 114 (359)
T KOG4444|consen 46 EEHFIQARRKYHFESTQRTCDQTILE-LLPVLRMAINEELDVDSIVEQLKQ--KNQLTPK--------NKLELWEELKIK 114 (359)
T ss_pred HHHHHHHHHHHHHHhhhhHHHHHHHH-HHHHHHHHHHHHcCHHHHHHHHhh--CCCCCch--------HHHHHHHHHHHH
Confidence 35555555333333333323333333 677788888889999999998888 3322243 122222222222
Q ss_pred HhhhHHHHHHHHH----HHHHHHHHHHHHHhhchhHHh
Q psy2984 95 SVSILHIHLVPIP----LLLISVLCIISCRHLYKPLVE 128 (228)
Q Consensus 95 s~~~lP~~~~~ll----~~fh~~lN~wl~rhVY~~~~~ 128 (228)
+ .+--.+++|-. ...-.=||+ |-||+|.|...
T Consensus 115 s-ftrl~~~vysvsmLvl~lRvQlNI-Lgr~iYlD~a~ 150 (359)
T KOG4444|consen 115 S-FTRLVTVVYSVSMLVLLLRVQLNI-LGRYIYLDSAI 150 (359)
T ss_pred H-HHHHHHHHHHHHHHHHHHHHHHHH-hcchhhHHHHH
Confidence 2 11112222222 334444565 88999999875
No 27
>PF12833 HTH_18: Helix-turn-helix domain; PDB: 2K9S_A 3LSG_C 3OIO_A 1D5Y_B 3GBG_A 3OOU_A 1BL0_A 1XS9_A 3MN2_B 3MKL_B ....
Probab=43.79 E-value=63 Score=22.56 Aligned_cols=44 Identities=25% Similarity=0.404 Sum_probs=28.9
Q ss_pred ChHHHHHHHhh-cCchHHHHHHHHHHhHHHHHHHHHHHHHHHHcCCChhHHH
Q psy2984 10 SDEYFRTVFEE-KGLADIVKLHMAQASQEAKKELQEQLEEQISEGASIKDIV 60 (228)
Q Consensus 10 s~~~f~~~F~~-~gL~el~~~~~k~~~~~~kkeL~~~L~~~i~~~~~~~eII 60 (228)
|..+|..+|++ .| .-+.+|.....-+.++..|.+ ..+.|++||.
T Consensus 8 s~~~l~~~f~~~~g-~s~~~~~~~~R~~~a~~~L~~------~~~~~i~~ia 52 (81)
T PF12833_consen 8 SERYLSRIFKKETG-MSFKQYLRELRLQRAKELLRQ------NTDLSIAEIA 52 (81)
T ss_dssp -HHHHHHHHHHHHS-S-HHHHHHHHHHHHHHHHHHH------HTT--HHHHH
T ss_pred CHHHHHHHHHHHHC-cCHHHHHHHHHHHHHHHHHHH------hhcccHHHHH
Confidence 67889999999 66 457788888887777777643 2345555554
No 28
>PF08776 VASP_tetra: VASP tetramerisation domain; InterPro: IPR014885 Vasodilator-stimulated phosphoprotein (VASP) is an actin cytoskeletal regulatory protein. This region corresponds to the tetramerisation domain which forms a right handed alpha helical coiled coil structure []. ; PDB: 1USE_A 1USD_A.
Probab=42.98 E-value=93 Score=20.25 Aligned_cols=30 Identities=23% Similarity=0.417 Sum_probs=19.7
Q ss_pred HhHHHHHHHHHHHHHHHHcCCChhHHHHHHHHHHHh
Q psy2984 34 ASQEAKKELQEQLEEQISEGASIKDIVADIREIANK 69 (228)
Q Consensus 34 ~~~~~kkeL~~~L~~~i~~~~~~~eII~~vk~~~~~ 69 (228)
..|+..+|++++|+.+ -.|||+.+++...+
T Consensus 8 ~KqEIL~EvrkEl~K~------K~EIIeA~~~eL~r 37 (40)
T PF08776_consen 8 LKQEILEEVRKELQKV------KEEIIEAIRQELSR 37 (40)
T ss_dssp HHHHHHHHHHHHHHHH------HHHHHHHHHHHHHH
T ss_pred HHHHHHHHHHHHHHHH------HHHHHHHHHHHHhc
Confidence 4456666666666664 23788888887655
No 29
>PF09454 Vps23_core: Vps23 core domain; InterPro: IPR017916 The Endosomal Sorting Complex Required for Transport (ESCRT) complexes form the machinery driving protein sorting from endosomes to lysosomes. ESCRT complexes are central to receptor down-regulation, lysosome biogenesis, and budding of HIV. Yeast ESCRT-I consists of three protein subunits, VPS23, VPS28, and VPS37. In humans, ESCRT-I comprises TSG101, VPS28, and one of four potential human VPS37 homologues. The main role of ESCRT-I is to recognise ubiquitinated cargo via the UEV domain of the VPS23/TSG101 subunit. The assembly of the ESCRT-I complex is directed by the C-terminal steadiness box (SB) of VPS23, the N-terminal half of VPS28, and the C-terminal half of VPS37. The structure is primarily composed of three long, parallel helical hairpins, each corresponding to a different subunit. The additional domains and motifs extending beyond the core serve as gripping tools for ESCRT-I critical functions [, ]. This entry represents the Steadiness box domain.; PDB: 2CAZ_A 2F66_D 2F6M_A 2P22_A.
Probab=42.73 E-value=68 Score=22.74 Aligned_cols=52 Identities=21% Similarity=0.250 Sum_probs=37.7
Q ss_pred HHHHHHHHHHHHcCCChhHHHHHHHHHHHhcCCChhHHH---HhhcchhHHHHHHH
Q psy2984 40 KELQEQLEEQISEGASIKDIVADIREIANKHCIPDQELI---VLNMDVVKATERLL 92 (228)
Q Consensus 40 keL~~~L~~~i~~~~~~~eII~~vk~~~~~~~iPe~e~v---f~~~~~~~~~~r~l 92 (228)
..+.++|-|..+++..++|.|-++..-.++..+|- |.- .|++....|.-|.+
T Consensus 8 ~~l~~Ql~el~Aed~AieDtiy~L~~al~~g~I~~-d~~lK~vR~LaReQF~~Ral 62 (65)
T PF09454_consen 8 DPLSNQLYELVAEDHAIEDTIYYLDRALQRGSIDL-DTFLKQVRSLAREQFLKRAL 62 (65)
T ss_dssp SHHHHHHHHHHHHHHHHHHHHHHHHHHHHTTSS-H-HHHHHHHHHHHHHHHHHHHH
T ss_pred CHHHHHHHHHHHHHHHHHHHHHHHHHHHHcCCCCH-HHHHHHHHHHHHHHHHHHHH
Confidence 46788999999999999999999999999888873 322 24445555555543
No 30
>PF04233 Phage_Mu_F: Phage Mu protein F like protein; InterPro: IPR006528 This domain is found exclusively in phage-related proteins, internally or toward the C terminus. Some of these proteins have been identified as being involved in phage head morphogenesis [, ].
Probab=39.04 E-value=46 Score=24.80 Aligned_cols=29 Identities=17% Similarity=0.413 Sum_probs=25.1
Q ss_pred HHHHHHHHHHHHcCCChhHHHHHHHHHHH
Q psy2984 40 KELQEQLEEQISEGASIKDIVADIREIAN 68 (228)
Q Consensus 40 keL~~~L~~~i~~~~~~~eII~~vk~~~~ 68 (228)
+.+++.|.+-+.+|.+.+++...+++..+
T Consensus 1 ~~i~~~v~~~i~~G~~~~~~~~~l~~~~~ 29 (112)
T PF04233_consen 1 DRIRQAVTQGIERGKSPQEIAKRLRDRGG 29 (112)
T ss_pred ChHHHHHHHHHHcCCCHHHHHHHHHHHhC
Confidence 36789999999999999999999888853
No 31
>TIGR02297 HpaA 4-hydroxyphenylacetate catabolism regulatory protein HpaA. This putative transcriptional regulator, which contains both the substrate-binding, dimerization domain (pfam02311) and the helix-turn-helix DNA-binding domain (pfam00165) of the AraC famil, is located proximal to genes of the 4-hydroxyphenylacetate catabolism pathway.
Probab=39.04 E-value=88 Score=27.12 Aligned_cols=8 Identities=38% Similarity=0.426 Sum_probs=3.4
Q ss_pred CCChhHHH
Q psy2984 53 GASIKDIV 60 (228)
Q Consensus 53 ~~~~~eII 60 (228)
+.|++||.
T Consensus 251 ~~sI~eIA 258 (287)
T TIGR02297 251 QHSINQIA 258 (287)
T ss_pred CCCHHHHH
Confidence 34444443
No 32
>PF08747 DUF1788: Domain of unknown function (DUF1788); InterPro: IPR014858 This entry represents a putative uncharacterised protein of length around 200 amino acids.
Probab=38.65 E-value=1.2e+02 Score=24.17 Aligned_cols=57 Identities=26% Similarity=0.416 Sum_probs=33.1
Q ss_pred HHHHHHhhcC-chHHHHHHHHHHhHHHHHHHHHHHHHHHHcCCChhHHHHHHHHHHHhcCCChhHHHH
Q psy2984 13 YFRTVFEEKG-LADIVKLHMAQASQEAKKELQEQLEEQISEGASIKDIVADIREIANKHCIPDQELIV 79 (228)
Q Consensus 13 ~f~~~F~~~g-L~el~~~~~k~~~~~~kkeL~~~L~~~i~~~~~~~eII~~vk~~~~~~~iPe~e~vf 79 (228)
-+-+..++.| ++.+++.-+++..+...+.|++.|.. .+.++.++++... -++.++|+
T Consensus 9 ~~l~~l~~~~~~d~~~~~E~~~g~~~~~~~l~~~l~~-------~~~i~~~i~~~~~---~~~~~vv~ 66 (126)
T PF08747_consen 9 IFLEILEERGILDKIIEMEEKKGSDALLKQLQGILDM-------QEKIAEYIQEELE---DDDRDVVF 66 (126)
T ss_pred HHHHHHHhcChHHHHHHHHHhhhHHHHHHHHHHHhhh-------HHHHHHHHHHhcc---CCCCcEEE
Confidence 4556677765 66666655555555555555554443 5677777766633 45555554
No 33
>PF10163 EnY2: Transcription factor e(y)2; InterPro: IPR018783 Enhancer of yellow 2 (EnY2) is a small transcription factor which is combined in a complex with the TAFII40 protein []. This protein is conserved from protozoa to humans.; PDB: 4DHX_C 3FWC_P 3M99_C 3KIK_A 3KJL_C 3FWB_C 3MHS_B 3MHH_B.
Probab=38.13 E-value=1.6e+02 Score=21.65 Aligned_cols=33 Identities=21% Similarity=0.236 Sum_probs=15.2
Q ss_pred HHHHHHHHHHHHHHHcCCChhHHHHHHHHHHHh
Q psy2984 37 EAKKELQEQLEEQISEGASIKDIVADIREIANK 69 (228)
Q Consensus 37 ~~kkeL~~~L~~~i~~~~~~~eII~~vk~~~~~ 69 (228)
+-++.|++.|.+.+.+..=.++|=..+++.+++
T Consensus 14 Ge~~~L~~~L~~rL~e~GW~d~vr~~~re~i~~ 46 (86)
T PF10163_consen 14 GEYERLKELLRQRLIECGWRDEVRQLCREIIRE 46 (86)
T ss_dssp THHHHHHHHHHHHHHHTTHHHHHHHHHHHHHHH
T ss_pred CcHHHHHHHHHHHHHHCChHHHHHHHHHHHHHh
Confidence 334444444444444444444444444444444
No 34
>PF02268 TFIIA_gamma_N: Transcription initiation factor IIA, gamma subunit, helical domain; InterPro: IPR015872 Transcription factor IIA (TFIIA) is one of several factors that form part of a transcription pre-initiation complex along with RNA polymerase II, the TATA-box-binding protein (TBP) and TBP-associated factors, on the TATA-box sequence upstream of the initiation start site. After initiation, some components of the pre-initiation complex (including TFIIA) remain attached and re-initiate a subsequent round of transcription. TFIIA binds to TBP to stabilise TBP binding to the TATA element. TFIIA also inhibits the cytokine HMGB1 (high mobility group 1 protein) binding to TBP [], and can dissociate HMGB1 already bound to TBP/TATA-box. Human and Drosophila TFIIA have three subunits: two large subunits, LN/alpha and LC/beta, derived from the same gene, and a small subunit, S/gamma. Yeast TFIIA has two subunits: a large TOA1 subunit that shows sequence similarity to the N-terminal of LN/alpha and the C-terminal of LC/beta, and a small subunit, TOA2 that is highly homologous with S/gamma. The conserved regions of the large and small subunits of TFIIA combine to form two domains: a four-helix bundle (helical domain) composed of two helices from each of the N-terminal regions of TOA1 and TOA2 in yeast; and a beta-barrel (beta-barrel domain) composed of beta-sheets from the C-terminal regions of TOA1 and TOA2 []. This entry represents the alpha-helical domain found at the N-terminal of the gamma subunit of transcription factor TFIIA.; GO: 0006367 transcription initiation from RNA polymerase II promoter, 0005672 transcription factor TFIIA complex; PDB: 1NVP_D 1RM1_B 1YTF_D 1NH2_D.
Probab=37.97 E-value=94 Score=21.01 Aligned_cols=32 Identities=25% Similarity=0.328 Sum_probs=25.3
Q ss_pred HHHHHHHHHHHHHHcCCChhHHHHHHHHHHHh
Q psy2984 38 AKKELQEQLEEQISEGASIKDIVADIREIANK 69 (228)
Q Consensus 38 ~kkeL~~~L~~~i~~~~~~~eII~~vk~~~~~ 69 (228)
.=..|+.+|+|++.++.=..++...|-+.+.+
T Consensus 11 lG~aL~dtLDeli~~~~I~p~La~kVL~~FDk 42 (49)
T PF02268_consen 11 LGIALTDTLDELIQEGKITPQLAMKVLEQFDK 42 (49)
T ss_dssp HHHHHHHHHHHHHHTTSS-HHHHHHHHHHHHH
T ss_pred HHHHHHHHHHHHHHcCCCCHHHHHHHHHHHHH
Confidence 34578999999999998888888888777665
No 35
>PRK10167 hypothetical protein; Provisional
Probab=37.89 E-value=93 Score=26.23 Aligned_cols=52 Identities=6% Similarity=0.001 Sum_probs=44.9
Q ss_pred chHHHHHHHHHHhHHHHHHHHHHHHHHHHcCCChhHHHHHHHHHHHhcCCCh
Q psy2984 23 LADIVKLHMAQASQEAKKELQEQLEEQISEGASIKDIVADIREIANKHCIPD 74 (228)
Q Consensus 23 L~el~~~~~k~~~~~~kkeL~~~L~~~i~~~~~~~eII~~vk~~~~~~~iPe 74 (228)
|.-+..|-+++.+..-|+++.+.+++--....|....++.++..+.++..+-
T Consensus 96 L~Hi~GYFKk~Ls~~EKq~l~~lI~~Yr~g~vpl~vpltlL~h~~~~y~~~Y 147 (169)
T PRK10167 96 LMHVQGYFRPHIDSTERQQLAALIDSYRRGEQPLLAPLMRIKHYMALYPDAW 147 (169)
T ss_pred HHHHHHHHHhhCCHHHHHHHHHHHHHHHcCCCCHHHHHHHHHHHHHHCCcHH
Confidence 3456788899999999999999998888888999999999999999988764
No 36
>PRK09940 transcriptional regulator YdeO; Provisional
Probab=35.23 E-value=99 Score=27.65 Aligned_cols=44 Identities=14% Similarity=0.268 Sum_probs=29.7
Q ss_pred ChHHHHHHHhhcCchHHHHHHHHHHhHHHHHHHHHHHHHHHHcCCChhHHHHH
Q psy2984 10 SDEYFRTVFEEKGLADIVKLHMAQASQEAKKELQEQLEEQISEGASIKDIVAD 62 (228)
Q Consensus 10 s~~~f~~~F~~~gL~el~~~~~k~~~~~~kkeL~~~L~~~i~~~~~~~eII~~ 62 (228)
|+.+|...|++.|. -..+|....+-+.+++-|+ ++.|++||-..
T Consensus 163 S~s~l~R~FK~~G~-T~~eyl~~~Rl~~A~~LL~--------~~~sI~eIA~~ 206 (253)
T PRK09940 163 SESLLKKKLKQEQT-TFSQILLDARMQHAKNLIR--------VEGSVNKIAEQ 206 (253)
T ss_pred CHHHHHHHHHHcCC-CHHHHHHHHHHHHHHHHHc--------cCCCHHHHHHH
Confidence 56788888988885 4788888877777775432 13466666543
No 37
>COG3088 CcmH Uncharacterized protein involved in biosynthesis of c-type cytochromes [Posttranslational modification, protein turnover, chaperones]
Probab=35.19 E-value=1.2e+02 Score=25.43 Aligned_cols=62 Identities=19% Similarity=0.187 Sum_probs=43.7
Q ss_pred HhHHHHHHHHHHHHHHHHcCCChhHHHHHHHHHHHhcCCChhHHHHhhcchhHHHHHHHHHHhhhHHHHHHHHH
Q psy2984 34 ASQEAKKELQEQLEEQISEGASIKDIVADIREIANKHCIPDQELIVLNMDVVKATERLLKLSVSILHIHLVPIP 107 (228)
Q Consensus 34 ~~~~~kkeL~~~L~~~i~~~~~~~eII~~vk~~~~~~~iPe~e~vf~~~~~~~~~~r~l~Ls~~~lP~~~~~ll 107 (228)
.....-.+|..+.-|++.+|++-.+||.+.-+..-++..= ..++..+.+.|.. +|..++.+-
T Consensus 58 SnA~IA~DlR~~V~e~l~eGkS~~qIid~mVaRYG~FVly----------~Pp~~~~T~lLW~--~Pv~llllG 119 (153)
T COG3088 58 SNAPIARDLRHQVYELLQEGKSDQQIIDYMVARYGEFVLY----------KPPLTGQTLLLWG--LPVVLLLLG 119 (153)
T ss_pred hccHHHHHHHHHHHHHHHcCCcHHHHHHHHHHhhcceeee----------cCCCchhHHHHHH--hHHHHHHHH
Confidence 4455677899999999999999999999988877665442 2356666666663 165554443
No 38
>PF04761 Phage_Treg: Lactococcus bacteriophage putative transcription regulator; InterPro: IPR006848 This family represents a number of putative transcription repressor proteins found in several Lactococcus bacteriophages. Horizontal transfer may account for the presence of similar proteins in Lactococcus species [].
Probab=32.92 E-value=89 Score=21.42 Aligned_cols=36 Identities=22% Similarity=0.204 Sum_probs=27.0
Q ss_pred HHhhcCchHHHHHHHHHHhHHHHHHHHHHHHHHHHc
Q psy2984 17 VFEEKGLADIVKLHMAQASQEAKKELQEQLEEQISE 52 (228)
Q Consensus 17 ~F~~~gL~el~~~~~k~~~~~~kkeL~~~L~~~i~~ 52 (228)
|..+-=-.+=|||+++|-+...++=||++|.-++-|
T Consensus 9 h~~q~v~q~sve~yk~kl~~~s~~flq~slipql~e 44 (57)
T PF04761_consen 9 HLGQTVYQESVEFYKEKLSVDSKDFLQNSLIPQLYE 44 (57)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHhhHHHHHH
Confidence 333333456789999999999999999998877544
No 39
>PF13565 HTH_32: Homeodomain-like domain
Probab=32.74 E-value=65 Score=22.34 Aligned_cols=55 Identities=16% Similarity=0.175 Sum_probs=34.5
Q ss_pred HHHHhhcCchHHHHHHHHHHhHH-H-HHHHHHHHHHHHHcC--CChhHHHHHHHHHHHh
Q psy2984 15 RTVFEEKGLADIVKLHMAQASQE-A-KKELQEQLEEQISEG--ASIKDIVADIREIANK 69 (228)
Q Consensus 15 ~~~F~~~gL~el~~~~~k~~~~~-~-kkeL~~~L~~~i~~~--~~~~eII~~vk~~~~~ 69 (228)
-+.|.+.|++-+.+-..+..... . -.++.+.+.+.+.++ -+.++|.+.+++....
T Consensus 6 ~~ry~~~G~~gL~~~~~~~~~Grp~~~~e~~~~i~~~~~~~p~wt~~~i~~~L~~~~g~ 64 (77)
T PF13565_consen 6 LKRYREEGLEGLKDRKRRPRPGRPRKDPEQRERIIALIEEHPRWTPREIAEYLEEEFGI 64 (77)
T ss_pred HHHHHhhCchhhhcccccCCCCCCCCcHHHHHHHHHHHHhCCCCCHHHHHHHHHHHhCC
Confidence 45588889888776221121111 1 256667777777765 6888888888776543
No 40
>TIGR02425 decarb_PcaC 4-carboxymuconolactone decarboxylase. Members of this family are 4-carboxymuconolactone decarboxylase, which catalyzes the third step in the catabolism of protocatechuate (and therefore the fourth step in the catabolism of para-hydroxybenzoate, of 3-hydroxybenzoate, of vanillate, etc.). Most members of this family are encoded within protocatechuate catabolism operons. This protein is sometimes found as a fusion protein with other enzymes of the pathway, as in Rhodococcus opacus, Streptomyces avermitilis, and Caulobacter crescentus.
Probab=32.63 E-value=1.5e+02 Score=23.48 Aligned_cols=60 Identities=22% Similarity=0.326 Sum_probs=42.7
Q ss_pred HHHHHhhcCchHH----HHHHHHHHhHHHHHHHHHHHHHHHHcCCChhHHHHHHHHHHHhcCCCh
Q psy2984 14 FRTVFEEKGLADI----VKLHMAQASQEAKKELQEQLEEQISEGASIKDIVADIREIANKHCIPD 74 (228)
Q Consensus 14 f~~~F~~~gL~el----~~~~~k~~~~~~kkeL~~~L~~~i~~~~~~~eII~~vk~~~~~~~iPe 74 (228)
|.+.++..||+.= +....- .......+++.++...++.|.+.+||.+.+.+..-=.-+|-
T Consensus 44 fgdv~~r~~Ld~k~R~Litla~l-aa~g~~~~l~~h~~~Al~~G~T~~ei~Evl~q~~~y~G~P~ 107 (123)
T TIGR02425 44 WGTVWTRPGLTKRERSLVTIALL-AALGRDEELAMHVRATANTGVTEDDIKEVLLHVAIYAGVPA 107 (123)
T ss_pred hhhhhccCCCCHHHHHHHHHHHH-HHCCCHHHHHHHHHHHHHcCCCHHHHHHHHHHHHHhCCHHH
Confidence 5566667777643 222222 22223678999999999999999999999998877666664
No 41
>PRK09978 DNA-binding transcriptional regulator GadX; Provisional
Probab=31.98 E-value=1.2e+02 Score=27.36 Aligned_cols=33 Identities=15% Similarity=0.129 Sum_probs=20.7
Q ss_pred ChHHHHHHHhhcCchHHHHHHHHHHhHHHHHHHH
Q psy2984 10 SDEYFRTVFEEKGLADIVKLHMAQASQEAKKELQ 43 (228)
Q Consensus 10 s~~~f~~~F~~~gL~el~~~~~k~~~~~~kkeL~ 43 (228)
|+.+|...|++.| .-..+|....+-+.+++.|+
T Consensus 171 S~~~L~R~Fk~~G-~S~~~yl~~~Rl~~A~~LL~ 203 (274)
T PRK09978 171 SPSLLKKKLREEE-TSYSQLLTECRMQRALQLIV 203 (274)
T ss_pred CHHHHHHHHHhcC-CCHHHHHHHHHHHHHHHHHH
Confidence 4556667776666 34566666666666666554
No 42
>PF06260 DUF1024: Protein of unknown function (DUF1024); InterPro: IPR009368 This entry is represented by Bacteriophage 92, Orf64. The characteristics of the protein distribution suggest prophage matches in addition to the phage matches. This family consists of several hypothetical proteins from Staphylococcus aureus, which are related to Orf64 from Staphylococcus phage 92 (Bacteriophage 92). The function of this family is unknown.
Probab=31.77 E-value=2.2e+02 Score=21.34 Aligned_cols=45 Identities=22% Similarity=0.271 Sum_probs=33.7
Q ss_pred chHHHHHHHH-HHhHHHHHHHHHHHHHHHHcCCChhHHHHHHHHHH
Q psy2984 23 LADIVKLHMA-QASQEAKKELQEQLEEQISEGASIKDIVADIREIA 67 (228)
Q Consensus 23 L~el~~~~~k-~~~~~~kkeL~~~L~~~i~~~~~~~eII~~vk~~~ 67 (228)
|+||=|=++| |++.+.++.+-+++++..+.+..-++-+.-++++.
T Consensus 26 lkEiedVYKKAqaFDeI~e~~~~~~~~~~~~~~~ldea~~im~~q~ 71 (82)
T PF06260_consen 26 LKEIEDVYKKAQAFDEILEDINNQIQEYRKEDIELDEAVGIMVEQV 71 (82)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHhcccchHHHHHHHHHHH
Confidence 5677776655 89999999999999998887766666665555543
No 43
>PF07850 Renin_r: Renin receptor-like protein; InterPro: IPR012493 The sequences featured in this family are similar to a region of the human renin receptor (Q8NG15 from SWISSPROT) that bears a putative transmembrane spanning segment []. The renin receptor is involved in intracellular signal transduction by the activation of the ERK1/ERK2 pathway, and it also serves to increase the efficiency of angiotensinogen cleavage by receptor-bound renin, therefore facilitating angiotensin II generation and action on a cell surface []. ; GO: 0004872 receptor activity, 0016021 integral to membrane; PDB: 3LC8_A 3LBS_A.
Probab=31.68 E-value=16 Score=28.34 Aligned_cols=25 Identities=36% Similarity=0.554 Sum_probs=0.0
Q ss_pred CccceeehhhhhhhhhhHHHHHHHH
Q psy2984 186 PRWGNIIVWSSLILGQPLCIMMYYH 210 (228)
Q Consensus 186 ~~~gN~~fW~~l~iG~pl~~~lY~~ 210 (228)
+..-|+++|++..++-.++...|.+
T Consensus 52 pviFnIiLW~~v~l~~all~i~~~m 76 (98)
T PF07850_consen 52 PVIFNIILWFSVVLALALLAICYAM 76 (98)
T ss_dssp -------------------------
T ss_pred hHHHHHHHHHHHHHHHHHHHHHHHh
Confidence 5568999999999999998888865
No 44
>KOG3747|consensus
Probab=31.10 E-value=5.6e+02 Score=25.76 Aligned_cols=57 Identities=19% Similarity=0.123 Sum_probs=34.9
Q ss_pred HHHHHHHH---HHHHHHHHH----HHHHhhchhHHh--hcCcchhhHHHHHHHHHHHHHHHHHhhhh
Q psy2984 100 HIHLVPIP---LLLISVLCI----ISCRHLYKPLVE--QGYSRLTASSLVFFISAFMHEYLVSVPLR 157 (228)
Q Consensus 100 P~~~~~ll---~~fh~~lN~----wl~rhVY~~~~~--~~~sk~~A~~~vF~vSAi~HE~i~~~~~~ 157 (228)
|.+++-+. ++.|..+|. =++|-+|+|--+ ..+|| .....+...+|++--++....+-
T Consensus 106 ~l~vvt~~~~~~l~~~~lk~~vG~kl~~~~l~p~~~k~~~fs~-~w~v~~~~~~~~l~~l~~~l~~d 171 (602)
T KOG3747|consen 106 PLFVVTLFFIYCLYYWVLKPIVGHKLFRNYLKPFGGKRLLFSR-LWFVSLVAKAAFLAALVAWLIFD 171 (602)
T ss_pred hHHHHHHHHHHHHHHHHHHHHhhhhHHHHHhCcccchHHHHHH-HHHHHHHHHHHHHHHHHHHHHHh
Confidence 44444333 456666887 577788888653 23566 55666666677666566666554
No 45
>PRK10219 DNA-binding transcriptional regulator SoxS; Provisional
Probab=30.00 E-value=1.3e+02 Score=22.22 Aligned_cols=34 Identities=18% Similarity=0.138 Sum_probs=21.2
Q ss_pred ChHHHHHHHhhc-CchHHHHHHHHHHhHHHHHHHHH
Q psy2984 10 SDEYFRTVFEEK-GLADIVKLHMAQASQEAKKELQE 44 (228)
Q Consensus 10 s~~~f~~~F~~~-gL~el~~~~~k~~~~~~kkeL~~ 44 (228)
|..+|...|++. |.+ ..+|.....-+.+++.|.+
T Consensus 34 S~~~l~r~f~~~~g~s-~~~~i~~~Rl~~a~~~L~~ 68 (107)
T PRK10219 34 SKWYLQRMFRTVTHQT-LGDYIRQRRLLLAAVELRT 68 (107)
T ss_pred CHHHHHHHHHHHHCcC-HHHHHHHHHHHHHHHHHHc
Confidence 556677777775 443 5566666666666666543
No 46
>PF00816 Histone_HNS: H-NS histone family Partial NMR structure.; InterPro: IPR001801 The histone-like nucleoid-structuring (H-NS) protein belongs to a family of bacterial proteins that play a role in the formation of nucleoid structure and affect gene expression under certain conditions [].; GO: 0003677 DNA binding, 0006355 regulation of transcription, DNA-dependent, 0005622 intracellular; PDB: 2LEV_A 1HNS_A 1LR1_B 1HNR_A 1NI8_A 1OV9_A 2JR1_A 3NR7_A 2L93_A 2L92_A.
Probab=29.88 E-value=1.3e+02 Score=22.26 Aligned_cols=39 Identities=31% Similarity=0.490 Sum_probs=25.1
Q ss_pred HHHHHHHHHHHHHHHcCCChhHHHHHHHHHHHhcCCChhHH
Q psy2984 37 EAKKELQEQLEEQISEGASIKDIVADIREIANKHCIPDQEL 77 (228)
Q Consensus 37 ~~kkeL~~~L~~~i~~~~~~~eII~~vk~~~~~~~iPe~e~ 77 (228)
...++|++++.+.-.+ ...+++..+++.|+++.+...|+
T Consensus 5 ~~~~~l~~~~~~~~~~--e~~~~~~~i~~~~~~~Gis~~el 43 (93)
T PF00816_consen 5 AQIKELEKEIEERRKQ--EREEAIAEIRELMAEYGISPEEL 43 (93)
T ss_dssp HHHHHHHHHHHHHHHH--CCHHHHHHHHHHHHHTT--HHHC
T ss_pred HHHHHHHHHHHHHHHH--HHHHHHHHHHHHHHHhCCCHHHh
Confidence 3345555555554333 36789999999999999886665
No 47
>PLN03025 replication factor C subunit; Provisional
Probab=29.11 E-value=2.5e+02 Score=25.24 Aligned_cols=64 Identities=13% Similarity=0.149 Sum_probs=40.3
Q ss_pred ChHHHHHHHhhcCchHHHHHHHHHHhHHHHHHHHHHHHHHHHcCCChhHHHHHHHHHHHhcCCCh
Q psy2984 10 SDEYFRTVFEEKGLADIVKLHMAQASQEAKKELQEQLEEQISEGASIKDIVADIREIANKHCIPD 74 (228)
Q Consensus 10 s~~~f~~~F~~~gL~el~~~~~k~~~~~~kkeL~~~L~~~i~~~~~~~eII~~vk~~~~~~~iPe 74 (228)
|.++..+......-+.+.++.+.... .--++-.+.|.+++++|.++.+|+..+.....+..+|+
T Consensus 212 ~~~~v~~~~~~~~~~~i~~~i~~~~~-~~~~~a~~~l~~ll~~g~~~~~Il~~l~~~~~~~~~~~ 275 (319)
T PLN03025 212 NQENVFKVCDQPHPLHVKNIVRNCLK-GKFDDACDGLKQLYDLGYSPTDIITTLFRVVKNYDMPE 275 (319)
T ss_pred CHHHHHHHcCCCCHHHHHHHHHHHHc-CCHHHHHHHHHHHHHcCCCHHHHHHHHHHHHHhcCCCH
Confidence 44444443333333344444444332 33455566788888999999999999988887777776
No 48
>PF01221 Dynein_light: Dynein light chain type 1 ; InterPro: IPR001372 Dynein is a multisubunit microtubule-dependent motor enzyme that acts as the force generating protein of eukaryotic cilia and flagella. The cytoplasmic isoform of dynein acts as a motor for the intracellular retrograde motility of vesicles and organelles along microtubules. Dynein is composed of a number of ATP-binding large subunits (see IPR004273 from INTERPRO), intermediate size subunits and small subunits. Among the small subunits, there is a family of highly conserved proteins which make up this family [, ]. Both type 1 (DLC1) and 2 (DLC2) dynein light chains have a similar two-layer alpha-beta core structure consisting of beta-alpha(2)-beta-X-beta(2) [, ].; GO: 0007017 microtubule-based process, 0005875 microtubule associated complex; PDB: 1F95_A 1F96_A 1F3C_A 3P8M_B 2XQQ_C 1RE6_A 1CMI_A 1PWK_A 1PWJ_A 4DS1_C ....
Probab=28.58 E-value=1.5e+02 Score=21.77 Aligned_cols=36 Identities=22% Similarity=0.246 Sum_probs=26.2
Q ss_pred HHHHHHHHHHHHHHHHcCCChhHHHHHHHHHHHhcC
Q psy2984 36 QEAKKELQEQLEEQISEGASIKDIVADIREIANKHC 71 (228)
Q Consensus 36 ~~~kkeL~~~L~~~i~~~~~~~eII~~vk~~~~~~~ 71 (228)
+..+++..+...+.+.+-.+.+||..++|+.+++.-
T Consensus 15 ~~~~~~~~~~~~~a~~~~~~~~eiA~~iK~~lD~~y 50 (89)
T PF01221_consen 15 EEMQEEAIELAKEALKKYQDEKEIAEFIKQELDKKY 50 (89)
T ss_dssp HHHHHHHHHHHHHHHHHCSSHHHHHHHHHHHHHHHH
T ss_pred HHHHHHHHHHHHHHHHHCCcHHHHHHHHHHHHhccc
Confidence 445666666666666666677899999999887753
No 49
>smart00342 HTH_ARAC helix_turn_helix, arabinose operon control protein.
Probab=28.42 E-value=1.6e+02 Score=19.68 Aligned_cols=20 Identities=10% Similarity=0.130 Sum_probs=10.2
Q ss_pred ChHHHHHHHhhcCchHHHHH
Q psy2984 10 SDEYFRTVFEEKGLADIVKL 29 (228)
Q Consensus 10 s~~~f~~~F~~~gL~el~~~ 29 (228)
|..++.+.|++..-...-+|
T Consensus 14 s~~~l~~~f~~~~~~s~~~~ 33 (84)
T smart00342 14 SPRHLQRLFKKETGTTPKQY 33 (84)
T ss_pred CHHHHHHHHHHHhCcCHHHH
Confidence 45566666666432334444
No 50
>KOG2705|consensus
Probab=27.07 E-value=1e+02 Score=29.41 Aligned_cols=109 Identities=16% Similarity=0.092 Sum_probs=69.6
Q ss_pred HHHHHHHHHHHHcCCChhHHHHHHHH-----------HHHhcCCChhHHHHhhcchhHHHHHHH-HHH---hhhHHHHHH
Q psy2984 40 KELQEQLEEQISEGASIKDIVADIRE-----------IANKHCIPDQELIVLNMDVVKATERLL-KLS---VSILHIHLV 104 (228)
Q Consensus 40 keL~~~L~~~i~~~~~~~eII~~vk~-----------~~~~~~iPe~e~vf~~~~~~~~~~r~l-~Ls---~~~lP~~~~ 104 (228)
+=.+.++.| .||.+++.++-.++. +.-..-+||+.......|-.++..|.. .+. .++---.-+
T Consensus 186 ~fV~Ge~~d--~~G~~p~s~~p~i~Rf~aG~fYlv~~q~g~~~ipd~Yflt~~y~n~sF~~R~~y~l~W~kf~lYKY~~c 263 (471)
T KOG2705|consen 186 SFVNGEWLD--SDGQPPKSALPSIGRFLAGCFYLVLHQWGQFWIPDQYFLTDAYNNLSFFWRWSYVLLWFKFTLYKYCAC 263 (471)
T ss_pred HHhCCeeec--CCCCCCcccchhhHhHhcccHHHHHHHhccccCchhhcCChhhhcccHHHHHHHHHHHHHHHHHHHhhh
Confidence 334444544 477888877777766 456778999887777778888888832 221 222233456
Q ss_pred HHH----HHHHH-HHHH---------------------------------------HHHHhhchhHHhhcCcchhhHHHH
Q psy2984 105 PIP----LLLIS-VLCI---------------------------------------ISCRHLYKPLVEQGYSRLTASSLV 140 (228)
Q Consensus 105 ~ll----~~fh~-~lN~---------------------------------------wl~rhVY~~~~~~~~sk~~A~~~v 140 (228)
||+ +++-- -.|- |..+|||+.+...+ ||.++.-++
T Consensus 264 WLiTEGa~Il~GLg~nG~d~~G~~~Wdgc~n~ki~l~ETg~~~~~~v~SFN~nTN~wv~~yI~kRLkfln-Nk~~S~g~t 342 (471)
T KOG2705|consen 264 WLITEGASILSGLGHNGKDAEGNDRWDGCRNLKIILWETGHDYNSVVESFNCNTNTWVKNYIHKRLKFLN-NKLASHGIT 342 (471)
T ss_pred eeeecchHhhccCCcCCcccCCCCCcccccceEEEEEecCCccceeeeeeecChhHHHHHHHHHHHHHhc-chhhhhhHH
Confidence 666 11100 0011 99999999986433 777777777
Q ss_pred HHHHHHHHHHH
Q psy2984 141 FFISAFMHEYL 151 (228)
Q Consensus 141 F~vSAi~HE~i 151 (228)
-..=|+-|-|=
T Consensus 343 L~fLAiWHGyH 353 (471)
T KOG2705|consen 343 LSFLAIWHGYH 353 (471)
T ss_pred HHHHHHHhccc
Confidence 77778988764
No 51
>PF03993 DUF349: Domain of Unknown Function (DUF349); InterPro: IPR007139 This motif is found singly or as up to five tandem repeats in a small set of bacterial proteins. There are two or three alpha-helices, and possibly a beta-strand.
Probab=26.05 E-value=2.2e+02 Score=19.61 Aligned_cols=37 Identities=22% Similarity=0.337 Sum_probs=26.2
Q ss_pred HHhHHHHHHHHHHHHHHHHcCCChhHHHHHHHHHHHhc
Q psy2984 33 QASQEAKKELQEQLEEQISEGASIKDIVADIREIANKH 70 (228)
Q Consensus 33 ~~~~~~kkeL~~~L~~~i~~~~~~~eII~~vk~~~~~~ 70 (228)
++....|++|..++.+..+ ..+.++....+++..+++
T Consensus 30 ~~n~~~K~~Li~~~~~l~~-~~d~~~~~~~~k~l~~~W 66 (77)
T PF03993_consen 30 EENLEKKEALIEEAEALAE-SEDWKEAAEEIKELQQEW 66 (77)
T ss_pred HHHHHHHHHHHHHHHHhcc-cccHHHHHHHHHHHHHHH
Confidence 3556678888888865544 455778888888877775
No 52
>PF01323 DSBA: DSBA-like thioredoxin domain; InterPro: IPR001853 DSBA is a sub-family of the Thioredoxin family []. The efficient and correct folding of bacterial disulphide bonded proteins in vivo is dependent upon a class of periplasmic oxidoreductase proteins called DsbA, after the Escherichia coli enzyme. The bacterial protein-folding factor DsbA is the most oxidizing of the thioredoxin family. DsbA catalyses disulphide-bond formation during the folding of secreted proteins. The extremely oxidizing nature of DsbA has been proposed to result from either domain motion or stabilising active-site interactions in the reduced form. DsbA's highly oxidizing nature is a result of hydrogen bond, electrostatic and helix-dipole interactions that favour the thiolate over the disulphide at the active site []. In the pathogenic bacterium Vibrio cholerae, the DsbA homologue (TcpG) is responsible for the folding, maturation and secretion of virulence factors. While the overall architecture of TcpG and DsbA is similar and the surface features are retained in TcpG, there are significant differences. For example, the kinked active site helix results from a three-residue loop in DsbA, but is caused by a proline in TcpG (making TcpG more similar to thioredoxin in this respect). Furthermore, the proposed peptide binding groove of TcpG is substantially shortened compared with that of DsbA due to a six-residue deletion. Also, the hydrophobic pocket of TcpG is more shallow and the acidic patch is much less extensive than that of E. coli DsbA [].; GO: 0015035 protein disulfide oxidoreductase activity; PDB: 3GL5_A 3DKS_D 3RPP_C 3RPN_B 1YZX_A 3L9V_C 2IMD_A 2IME_A 2IMF_A 2B3S_B ....
Probab=25.48 E-value=2.4e+02 Score=22.53 Aligned_cols=42 Identities=29% Similarity=0.313 Sum_probs=28.1
Q ss_pred ChHHHHHHHhhcCchHHHHHHHHHHhHHHHHHHHHHHHHHHHc
Q psy2984 10 SDEYFRTVFEEKGLADIVKLHMAQASQEAKKELQEQLEEQISE 52 (228)
Q Consensus 10 s~~~f~~~F~~~gL~el~~~~~k~~~~~~kkeL~~~L~~~i~~ 52 (228)
+.+.+.+.+++.|+ +-.++.+.......++++++..++....
T Consensus 122 ~~~vl~~~~~~~Gl-d~~~~~~~~~~~~~~~~~~~~~~~a~~~ 163 (193)
T PF01323_consen 122 DPDVLAEIAEEAGL-DPDEFDAALDSPEVKAALEEDTAEARQL 163 (193)
T ss_dssp SHHHHHHHHHHTT---HHHHHHHHTSHHHHHHHHHHHHHHHHT
T ss_pred CHHHHHHHHHHcCC-cHHHHHHHhcchHHHHHHHHHHHHHHHc
Confidence 55668888888998 5566666667777777777766665433
No 53
>PF09554 RE_HaeII: HaeII restriction endonuclease; InterPro: IPR019058 There are four classes of restriction endonucleases: types I, II,III and IV. All types of enzymes recognise specific short DNA sequences and carry out the endonucleolytic cleavage of DNA to give specific double-stranded fragments with terminal 5'-phosphates. They differ in their recognition sequence, subunit composition, cleavage position, and cofactor requirements [, ], as summarised below: Type I enzymes (3.1.21.3 from EC) cleave at sites remote from recognition site; require both ATP and S-adenosyl-L-methionine to function; multifunctional protein with both restriction and methylase (2.1.1.72 from EC) activities. Type II enzymes (3.1.21.4 from EC) cleave within or at short specific distances from recognition site; most require magnesium; single function (restriction) enzymes independent of methylase. Type III enzymes (3.1.21.5 from EC) cleave at sites a short distance from recognition site; require ATP (but doesn't hydrolyse it); S-adenosyl-L-methionine stimulates reaction but is not required; exists as part of a complex with a modification methylase methylase (2.1.1.72 from EC). Type IV enzymes target methylated DNA. Type II restriction endonucleases (3.1.21.4 from EC) are components of prokaryotic DNA restriction-modification mechanisms that protect the organism against invading foreign DNA. These site-specific deoxyribonucleases catalyse the endonucleolytic cleavage of DNA to give specific double-stranded fragments with terminal 5'-phosphates. Of the 3000 restriction endonucleases that have been characterised, most are homodimeric or tetrameric enzymes that cleave target DNA at sequence-specific sites close to the recognition site. For homodimeric enzymes, the recognition site is usually a palindromic sequence 4-8 bp in length. Most enzymes require magnesium ions as a cofactor for catalysis. Although they can vary in their mode of recognition, many restriction endonucleases share a similar structural core comprising four beta-strands and one alpha-helix, as well as a similar mechanism of cleavage, suggesting a common ancestral origin []. However, there is still considerable diversity amongst restriction endonucleases [, ]. The target site recognition process triggers large conformational changes of the enzyme and the target DNA, leading to the activation of the catalytic centres. Like other DNA binding proteins, restriction enzymes are capable of non-specific DNA binding as well, which is the prerequisite for efficient target site location by facilitated diffusion. Non-specific binding usually does not involve interactions with the bases but only with the DNA backbone []. This family includes Type-2 restriction enzyme NgoBI, and HaeII. They recognise the double-stranded sequence RGCGCY and cleaves after C-5.
Probab=24.96 E-value=1.2e+02 Score=27.97 Aligned_cols=45 Identities=24% Similarity=0.164 Sum_probs=30.6
Q ss_pred hHHHHHHHHH----HhHHHHHHHHHHHHHHHHcCCChhHHHHHHHHHHH
Q psy2984 24 ADIVKLHMAQ----ASQEAKKELQEQLEEQISEGASIKDIVADIREIAN 68 (228)
Q Consensus 24 ~el~~~~~k~----~~~~~kkeL~~~L~~~i~~~~~~~eII~~vk~~~~ 68 (228)
+|+++|++|. -+...-..|...|++.+.+|=|..|..+.+....+
T Consensus 287 ~~Li~WY~kaLrG~~s~~l~~~ll~~l~~ei~~EFPsv~~~~~~~f~~e 335 (338)
T PF09554_consen 287 SDLIKWYEKALRGKYSELLGEKLLETLSEEIKEEFPSVDSNDFIEFYQE 335 (338)
T ss_pred HHHHHHHHHHHccccHHHHHHHHHHHHHHHHHHhCcCccchhHHHHHHh
Confidence 5789999883 34445566778888888888777766555544433
No 54
>PF11220 DUF3015: Protein of unknown function (DUF3015); InterPro: IPR021383 This bacterial family of proteins has no known function.
Probab=24.58 E-value=1.4e+02 Score=24.59 Aligned_cols=50 Identities=12% Similarity=0.191 Sum_probs=38.7
Q ss_pred cCchHHHHHHHH--HHhHHHHHHHHHHHHHHHHcCC-ChhHHHHHHHHHHHhc
Q psy2984 21 KGLADIVKLHMA--QASQEAKKELQEQLEEQISEGA-SIKDIVADIREIANKH 70 (228)
Q Consensus 21 ~gL~el~~~~~k--~~~~~~kkeL~~~L~~~i~~~~-~~~eII~~vk~~~~~~ 70 (228)
|-|+.+++...- ......++.+|+...+.+..+. +.++++..++.++++.
T Consensus 84 E~L~ala~llgv~~~d~~~f~~~~q~nF~~if~s~~~t~~~v~~~i~~~~~~d 136 (144)
T PF11220_consen 84 EHLDALAELLGVPAEDRAAFGAVLQENFASIFPSESVTSEEVLDNIVAVMAGD 136 (144)
T ss_pred chHHHHHHHhCCCHhhHHHHHHHHHHHHHHhcccCCCCHHHHHHHHHHHHhcC
Confidence 446666666655 5677778888888888888775 8999999999988763
No 55
>PF07810 TMC: TMC domain; InterPro: IPR012496 These sequences are similar to a region conserved amongst various protein products of the transmembrane channel-like (TMC) gene family, such as Transmembrane channel-like protein 3 (Q7TN63 from SWISSPROT) and EVIN2 (Q8IU68 from SWISSPROT) - this region is termed the TMC domain []. Mutations in these genes are implicated in a number of human conditions, such as deafness and epidermodysplasia verruciformis []. TMC proteins are thought to have important cellular roles, and may be modifiers of ion channels or transporters []. ; GO: 0016021 integral to membrane
Probab=24.28 E-value=1.1e+02 Score=24.10 Aligned_cols=40 Identities=15% Similarity=0.390 Sum_probs=30.7
Q ss_pred ccceeehhhhhhhhhh--------HHHHHHHHHHHHHHhCCCCcccCC
Q psy2984 187 RWGNIIVWSSLILGQP--------LCIMMYYHDFVITHFGEALLDKYS 226 (228)
Q Consensus 187 ~~gN~~fW~~l~iG~p--------l~~~lY~~e~yar~~~~~~~~~~~ 226 (228)
.+|-.+.|+|+++.|- ++++.|...|-...+|.++..-|.
T Consensus 62 iY~Qtl~WiG~ffsPlLP~i~~ik~~i~FYvKk~sll~~c~p~~r~~r 109 (111)
T PF07810_consen 62 IYNQTLVWIGMFFSPLLPAINVIKLFILFYVKKFSLLYNCQPPQRPFR 109 (111)
T ss_pred HHcchhhhhhHHhchhHHHHHHHHHHHHHHHHHHHHHHhcCCCCCCcC
Confidence 4577899999877653 345778889999999999877664
No 56
>PF12939 DUF3837: Domain of unknown function (DUF3837); InterPro: IPR024212 This entry represents a small, compact all-alpha helical domain of unknown function. This domain is currently only found in Clostridiales species.
Probab=24.28 E-value=1.1e+02 Score=23.77 Aligned_cols=38 Identities=21% Similarity=0.306 Sum_probs=32.8
Q ss_pred HHHHHHHHHHHHHHHHcCCChhHHHHHHHHHHHhcCCCh
Q psy2984 36 QEAKKELQEQLEEQISEGASIKDIVADIREIANKHCIPD 74 (228)
Q Consensus 36 ~~~kkeL~~~L~~~i~~~~~~~eII~~vk~~~~~~~iPe 74 (228)
...-.||+..|...+..-.|.+|-+.++....+.+. ||
T Consensus 46 ~~~~~eLk~~l~~~~~~~~p~de~~k~l~~lL~~y~-~d 83 (102)
T PF12939_consen 46 DETPFELKEKLQKDIDKISPEDEREKKLISLLKDYI-PD 83 (102)
T ss_pred ccCHHHHHHHHHHhccCCCCchHHHHHHHHHHHhcC-CC
Confidence 345568888888888888999999999999999999 75
No 57
>cd01046 Rubrerythrin_like rubrerythrin-like, diiron-binding domain. Rubrerythrin-like domain, similar to rubrerythrin, a nonheme iron binding domain found in many air-sensitive bacteria and archaea, and member of a broad superfamily of ferritin-like diiron-carboxylate proteins. Rubrerythrin is thought to reduce hydrogen peroxide as part of an oxidative stress protection system. The rubrerythrin protein has two domains, a binuclear metal center located within a four-helix bundle of the rubrerythrin domain, and a rubredoxin domain. The Rubrerythrin-like domains in this CD are singular domains (no C-terminus rubredoxin domain) and are phylogenetically distinct from rubrerythrin domains of rubrerythrin-rubredoxin proteins.
Probab=23.70 E-value=3.5e+02 Score=20.92 Aligned_cols=28 Identities=18% Similarity=0.187 Sum_probs=23.3
Q ss_pred HHHHHHHhhcCchHHHHHHHHHHhHHHH
Q psy2984 12 EYFRTVFEEKGLADIVKLHMAQASQEAK 39 (228)
Q Consensus 12 ~~f~~~F~~~gL~el~~~~~k~~~~~~k 39 (228)
..|....+++|+++++++-++++.++..
T Consensus 21 ~~~a~~a~~eG~~~~A~~f~~~a~eE~~ 48 (123)
T cd01046 21 LAMARVAQREGYPEVAEELKRIAMEEAE 48 (123)
T ss_pred HHHHHHHHHCCCHHHHHHHHHHHHHHHH
Confidence 3578899999999999999998666543
No 58
>COG1725 Predicted transcriptional regulators [Transcription]
Probab=23.51 E-value=2.5e+02 Score=22.58 Aligned_cols=39 Identities=28% Similarity=0.375 Sum_probs=33.8
Q ss_pred HHHHhHHHHHHHHHHHHHHHHcCCChhHHHHHHHHHHHh
Q psy2984 31 MAQASQEAKKELQEQLEEQISEGASIKDIVADIREIANK 69 (228)
Q Consensus 31 ~k~~~~~~kkeL~~~L~~~i~~~~~~~eII~~vk~~~~~ 69 (228)
.....+.++++|+..+.++..-|-+.+||++.+++..++
T Consensus 84 ~~~~~~~~~~~l~~~I~~~~~~G~s~eei~~~~~~~~~~ 122 (125)
T COG1725 84 DQLKRELAEEELEEFIEEAKALGLSLEEILELLKEIYEE 122 (125)
T ss_pred HHHHHHHHHHHHHHHHHHHHHcCCCHHHHHHHHHHHHhc
Confidence 445777888999999999999999999999999987764
No 59
>PHA02503 putative transcription regulator; Provisional
Probab=23.46 E-value=1.5e+02 Score=20.31 Aligned_cols=29 Identities=28% Similarity=0.217 Sum_probs=22.5
Q ss_pred hHHHHHHHHHHhHHHHHHHHHHHHHHHHc
Q psy2984 24 ADIVKLHMAQASQEAKKELQEQLEEQISE 52 (228)
Q Consensus 24 ~el~~~~~k~~~~~~kkeL~~~L~~~i~~ 52 (228)
.+-|||++.|-+...++=+|++|.-++-|
T Consensus 16 q~sve~yke~l~~~s~~fl~~slipql~e 44 (57)
T PHA02503 16 QESVEFYKEKLSVYSKDFLQNSLIPQLYE 44 (57)
T ss_pred HHHHHHHHHHHHHHHHHHHHhhhhHHHHH
Confidence 45688999888888888888888776543
No 60
>KOG0886|consensus
Probab=23.36 E-value=92 Score=25.93 Aligned_cols=61 Identities=20% Similarity=0.339 Sum_probs=43.3
Q ss_pred CCCCCChHHHHHHHhhcCchHHHHHHHHHHhHHHHHHHHHHHHHHHH---------cCCChhHHHHHHHH
Q psy2984 5 PPNKRSDEYFRTVFEEKGLADIVKLHMAQASQEAKKELQEQLEEQIS---------EGASIKDIVADIRE 65 (228)
Q Consensus 5 P~~kRs~~~f~~~F~~~gL~el~~~~~k~~~~~~kkeL~~~L~~~i~---------~~~~~~eII~~vk~ 65 (228)
||-.|..+.=-.|=-.-.++|+++-.+....-+.-+||..++.|.+. |++.+.|||..+..
T Consensus 90 PpRDRKk~knikh~Gni~~deiv~iar~mr~rS~a~~l~gt~keilgt~~svgc~vDgk~Phdi~~~i~~ 159 (167)
T KOG0886|consen 90 PPRDRKKQKNIKHSGNITFDEIVEIARIMRPRSLARELSGTVKEILGTAQSVGCTVDGKHPHDIIDEINA 159 (167)
T ss_pred CcchhhhhccccccCcccHHHHHHHHHHhhhHhhhhhhhhhHHHHhchhhhcccccCCCChHHHHhhhcC
Confidence 55455443333444446788999999998888888888888888764 67788888877653
No 61
>PF07889 DUF1664: Protein of unknown function (DUF1664); InterPro: IPR012458 The members of this family are hypothetical plant proteins of unknown function. The region featured in this family is approximately 100 amino acids long.
Probab=23.15 E-value=2.1e+02 Score=23.00 Aligned_cols=42 Identities=19% Similarity=0.293 Sum_probs=21.4
Q ss_pred cCchHHHHHHHHHHhHHHHHHHHHHHHHHHHcCCChhHHHHHHHHHH
Q psy2984 21 KGLADIVKLHMAQASQEAKKELQEQLEEQISEGASIKDIVADIREIA 67 (228)
Q Consensus 21 ~gL~el~~~~~k~~~~~~kkeL~~~L~~~i~~~~~~~eII~~vk~~~ 67 (228)
++|+++.+ .-+.+||+|.+.++..=..=....|+...+++.+
T Consensus 50 kql~~vs~-----~l~~tKkhLsqRId~vd~klDe~~ei~~~i~~eV 91 (126)
T PF07889_consen 50 KQLEQVSE-----SLSSTKKHLSQRIDRVDDKLDEQKEISKQIKDEV 91 (126)
T ss_pred HHHHHHHH-----HHHHHHHHHHHHHHHHHhhHHHHHHHHHHHHHHH
Confidence 34555543 3455677777777665222233344444444433
No 62
>PRK15186 AraC family transcriptional regulator; Provisional
Probab=22.87 E-value=2.1e+02 Score=25.95 Aligned_cols=33 Identities=12% Similarity=0.176 Sum_probs=20.8
Q ss_pred ChHHHHHHHhhcCchHHHHHHHHHHhHHHHHHHH
Q psy2984 10 SDEYFRTVFEEKGLADIVKLHMAQASQEAKKELQ 43 (228)
Q Consensus 10 s~~~f~~~F~~~gL~el~~~~~k~~~~~~kkeL~ 43 (228)
|+.+|..+|+++|. ..-+|+.+.+-+.+++-|+
T Consensus 210 S~stl~R~Fk~~g~-s~~~~~~~~Rl~~A~~lL~ 242 (291)
T PRK15186 210 SCSTLKRKLKQENT-SFSEVYLNARMNKATKLLR 242 (291)
T ss_pred CHHHHHHHHHHcCC-CHHHHHHHHHHHHHHHHHH
Confidence 66778888888864 5555665555555554443
No 63
>PRK15044 transcriptional regulator SirC; Provisional
Probab=22.79 E-value=2e+02 Score=26.50 Aligned_cols=33 Identities=15% Similarity=0.165 Sum_probs=24.6
Q ss_pred ChHHHHHHHhhcCchHHHHHHHHHHhHHHHHHHH
Q psy2984 10 SDEYFRTVFEEKGLADIVKLHMAQASQEAKKELQ 43 (228)
Q Consensus 10 s~~~f~~~F~~~gL~el~~~~~k~~~~~~kkeL~ 43 (228)
|+.+|.+.|+++| ....+|+...+-+.|++.|+
T Consensus 221 S~~tL~R~Fk~eg-~T~~~y~~~~RL~~A~~LL~ 253 (295)
T PRK15044 221 SVSSLKRKLAAEE-VSFSKIYLDARMNQAIKLLR 253 (295)
T ss_pred CHHHHHHHHHHcC-CCHHHHHHHHHHHHHHHHHH
Confidence 6778899999988 45677877766666666664
No 64
>KOG4783|consensus
Probab=22.77 E-value=1.9e+02 Score=22.46 Aligned_cols=50 Identities=18% Similarity=0.078 Sum_probs=29.2
Q ss_pred HhhcchhHHHHHHHHHH--hhhHHHHHHHHH--HHHHHHHHH-----------------------HHHHhhchhHHh
Q psy2984 79 VLNMDVVKATERLLKLS--VSILHIHLVPIP--LLLISVLCI-----------------------ISCRHLYKPLVE 128 (228)
Q Consensus 79 f~~~~~~~~~~r~l~Ls--~~~lP~~~~~ll--~~fh~~lN~-----------------------wl~rhVY~~~~~ 128 (228)
+|+-+..+....+|--+ +-++|...++.+ .+|..+|.+ |+||-.|.....
T Consensus 19 ~r~qs~~s~vktlLfy~~lii~vPiatfF~lK~fvleg~lgis~~da~iySaI~aVVavHvalglyiy~A~~~~sr~ 95 (102)
T KOG4783|consen 19 TRIQSSVSIVKTLLFYCSLIIGVPIATFFALKFFVLEGYLGISEVDADIYSAICAVVAVHVALGLYIYRAIYAKSRT 95 (102)
T ss_pred hhhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhcCcchhhhHHHHHHHHHHHHHHHHHHHHHHHHHccCcc
Confidence 34444334444333333 334588888877 566666544 888888876653
No 65
>PHA03056 putative myristoylated protein; Provisional
Probab=22.31 E-value=2e+02 Score=23.69 Aligned_cols=35 Identities=23% Similarity=0.219 Sum_probs=26.0
Q ss_pred HHHHHHHHcCCChhHHHHHHHHHHHhcCCChhHHH
Q psy2984 44 EQLEEQISEGASIKDIVADIREIANKHCIPDQELI 78 (228)
Q Consensus 44 ~~L~~~i~~~~~~~eII~~vk~~~~~~~iPe~e~v 78 (228)
.-|-....++++++..++.+|-+..++.+|+.+|+
T Consensus 68 snLCKd~l~~~~p~T~~~~IK~Il~qy~IP~S~Vv 102 (165)
T PHA03056 68 VKLCKDHAEKSSPETQQMIIKHIYEQYLIPVSEVL 102 (165)
T ss_pred HHHHHHHHHcCCchHHHHHHHHHHHHhcCChhHHH
Confidence 34444555566666677889999999999998775
No 66
>PF13625 Helicase_C_3: Helicase conserved C-terminal domain
Probab=21.91 E-value=2.4e+02 Score=21.97 Aligned_cols=32 Identities=19% Similarity=0.306 Sum_probs=26.8
Q ss_pred HHHHHHHHHHcCCChhHHHHHHHHHHHhcCCCh
Q psy2984 42 LQEQLEEQISEGASIKDIVADIREIANKHCIPD 74 (228)
Q Consensus 42 L~~~L~~~i~~~~~~~eII~~vk~~~~~~~iPe 74 (228)
...+|...++.|.+.+||++.++... ++.+|+
T Consensus 43 T~~Sl~~A~~~G~~~e~i~~~L~~~S-~~~lP~ 74 (129)
T PF13625_consen 43 TPASLWRAASAGLTAEEIIEFLERYS-KNPLPQ 74 (129)
T ss_pred CHHHHHHHHHcCCCHHHHHHHHHHHc-CCCCCH
Confidence 35677888889999999999999887 667886
No 67
>PF02403 Seryl_tRNA_N: Seryl-tRNA synthetase N-terminal domain; InterPro: IPR015866 The aminoacyl-tRNA synthetases (6.1.1. from EC) catalyse the attachment of an amino acid to its cognate transfer RNA molecule in a highly specific two-step reaction. These proteins differ widely in size and oligomeric state, and have limited sequence homology []. The 20 aminoacyl-tRNA synthetases are divided into two classes, I and II. Class I aminoacyl-tRNA synthetases contain a characteristic Rossman fold catalytic domain and are mostly monomeric []. Class II aminoacyl-tRNA synthetases share an anti-parallel beta-sheet fold flanked by alpha-helices [], and are mostly dimeric or multimeric, containing at least three conserved regions [, , ]. However, tRNA binding involves an alpha-helical structure that is conserved between class I and class II synthetases. In reactions catalysed by the class I aminoacyl-tRNA synthetases, the aminoacyl group is coupled to the 2'-hydroxyl of the tRNA, while, in class II reactions, the 3'-hydroxyl site is preferred. The synthetases specific for arginine, cysteine, glutamic acid, glutamine, isoleucine, leucine, methionine, tyrosine, tryptophan and valine belong to class I synthetases. The synthetases specific for alanine, asparagine, aspartic acid, glycine, histidine, lysine, phenylalanine, proline, serine, and threonine belong to class-II synthetases []. Based on their mode of binding to the tRNA acceptor stem, both classes of tRNA synthetases have been subdivided into three subclasses, designated 1a, 1b, 1c and 2a, 2b, 2c. This entry represents the N-terminal domain of Seryl-tRNA synthetase, which consists of two helices in a long alpha-hairpin. Seryl-tRNA synthetase (6.1.1.11 from EC) exists as monomer and belongs to class IIa [].; GO: 0000166 nucleotide binding, 0004828 serine-tRNA ligase activity, 0005524 ATP binding, 0006434 seryl-tRNA aminoacylation, 0005737 cytoplasm; PDB: 3QO8_A 3QO5_A 3QO7_A 3QNE_A 3LSQ_A 3LSS_A 2DQ3_B 1SET_A 1SER_A 1SRY_B ....
Probab=21.59 E-value=3.5e+02 Score=20.18 Aligned_cols=59 Identities=17% Similarity=0.438 Sum_probs=36.0
Q ss_pred hHHHHHHHhhcC-----chHHHHHHHHH--------HhHHHHHHHHHHHHHHHHcCCChhHHHHHHHHHHHh
Q psy2984 11 DEYFRTVFEEKG-----LADIVKLHMAQ--------ASQEAKKELQEQLEEQISEGASIKDIVADIREIANK 69 (228)
Q Consensus 11 ~~~f~~~F~~~g-----L~el~~~~~k~--------~~~~~kkeL~~~L~~~i~~~~~~~eII~~vk~~~~~ 69 (228)
++.+++..+..| ++++++...+. .....++++.+++......+++..+.++.+++.-++
T Consensus 11 ~e~v~~~l~~R~~~~~~vd~i~~ld~~~r~l~~~~e~lr~~rN~~sk~I~~~~~~~~~~~~l~~e~~~lk~~ 82 (108)
T PF02403_consen 11 PEEVRENLKKRGGDEEDVDEIIELDQERRELQQELEELRAERNELSKEIGKLKKAGEDAEELKAEVKELKEE 82 (108)
T ss_dssp HHHHHHHHHHTTCCCHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHCHTTCCTHHHHHHHHHHHHH
T ss_pred HHHHHHHHHHcCCCHhhHHHHHHHHHHHHHHHHHHHHHHHHHhHHHHHHHHHhhCcccHHHHHHHHHHHHHH
Confidence 344555555543 56666666653 233445555556666666667788888888887766
No 68
>PHA01351 putative minor structural protein
Probab=21.59 E-value=1.2e+02 Score=31.49 Aligned_cols=34 Identities=32% Similarity=0.481 Sum_probs=30.5
Q ss_pred HHHHHHhhcCchH----------HHHHHHHHHhHHHHHHHHHHH
Q psy2984 13 YFRTVFEEKGLAD----------IVKLHMAQASQEAKKELQEQL 46 (228)
Q Consensus 13 ~f~~~F~~~gL~e----------l~~~~~k~~~~~~kkeL~~~L 46 (228)
.+|+.|.+-||+| +.+|...+.+.+.|+.++.++
T Consensus 253 s~reifneiglgdipfadp~f~~i~~wv~arsf~e~kdh~ket~ 296 (1070)
T PHA01351 253 SAREIFNEIGLGDLPFADPPFQLIGRWVAVRSFNEVKDHLKETI 296 (1070)
T ss_pred hHHHHHHhcCCCCCCCCCCcHHHHHHHHHHhhHHHHHHHHHhHH
Confidence 4789999999986 689999999999999999876
No 69
>PF04282 DUF438: Family of unknown function (DUF438); InterPro: IPR007380 This is a a group of uncharacterised proteins.
Probab=21.31 E-value=3e+02 Score=19.93 Aligned_cols=35 Identities=26% Similarity=0.467 Sum_probs=21.2
Q ss_pred HHHHHHHHHHHHcCCChhHHHHHHHHHHHhcCCChhH
Q psy2984 40 KELQEQLEEQISEGASIKDIVADIREIANKHCIPDQE 76 (228)
Q Consensus 40 keL~~~L~~~i~~~~~~~eII~~vk~~~~~~~iPe~e 76 (228)
+++++.+.+.+.+ .++.||-..=++.+++- +|.-|
T Consensus 16 e~vk~~F~~~~~~-Vs~~EI~~~Eq~Li~eG-~~~ee 50 (71)
T PF04282_consen 16 EEVKEEFKKLFSD-VSASEISAAEQELIQEG-MPVEE 50 (71)
T ss_pred HHHHHHHHHHHCC-CCHHHHHHHHHHHHHcC-CCHHH
Confidence 3444444444333 88888888877777754 66444
No 70
>CHL00149 odpA pyruvate dehydrogenase E1 component alpha subunit; Reviewed
Probab=21.29 E-value=3.4e+02 Score=25.14 Aligned_cols=67 Identities=13% Similarity=0.145 Sum_probs=32.7
Q ss_pred CCCCCChHHHHHHHhhcCchHHHHHHHHH--HhHHHHHHHHHHHHHHHHcCCChhHHHHHHHHHHHhcCCChhHHHHhh
Q psy2984 5 PPNKRSDEYFRTVFEEKGLADIVKLHMAQ--ASQEAKKELQEQLEEQISEGASIKDIVADIREIANKHCIPDQELIVLN 81 (228)
Q Consensus 5 P~~kRs~~~f~~~F~~~gL~el~~~~~k~--~~~~~kkeL~~~L~~~i~~~~~~~eII~~vk~~~~~~~iPe~e~vf~~ 81 (228)
|..-|+.+..++.-+.-=|..+-++..++ .+++..++++++.++. |+...+.+++.+.|+.+-++++
T Consensus 269 ~~~YR~~~e~~~~~~~DPi~~~~~~L~~~g~~~~~~~~~i~~e~~~~----------v~~a~~~a~~~p~p~~~~~~~~ 337 (341)
T CHL00149 269 PDELRSKQEKEAWVARDPIKKLKSYIIDNELASQKELNKIQREVKIE----------IEQAVQFAISSPEPNISDLKKY 337 (341)
T ss_pred CccCCCHHHHHHHhcCCHHHHHHHHHHHcCCCCHHHHHHHHHHHHHH----------HHHHHHHHHhCCCCCHHHHHhh
Confidence 44567777666544322222222222221 1233344444444433 3334456777888887776654
No 71
>cd03019 DsbA_DsbA DsbA family, DsbA subfamily; DsbA is a monomeric thiol disulfide oxidoreductase protein containing a redox active CXXC motif imbedded in a TRX fold. It is involved in the oxidative protein folding pathway in prokaryotes, and is the strongest thiol oxidant known, due to the unusual stability of the thiolate anion form of the first cysteine in the CXXC motif. The highly unstable oxidized form of DsbA directly donates disulfide bonds to reduced proteins secreted into the bacterial periplasm. This rapid and unidirectional process helps to catalyze the folding of newly-synthesized polypeptides. To regain catalytic activity, reduced DsbA is then reoxidized by the membrane protein DsbB, which generates its disulfides from oxidized quinones, which in turn are reoxidized by the electron transport chain.
Probab=21.05 E-value=3.1e+02 Score=21.59 Aligned_cols=34 Identities=21% Similarity=0.283 Sum_probs=14.9
Q ss_pred hHHHHHHHhhcCchHHHHHHHHHHhHHHHHHHHHH
Q psy2984 11 DEYFRTVFEEKGLADIVKLHMAQASQEAKKELQEQ 45 (228)
Q Consensus 11 ~~~f~~~F~~~gL~el~~~~~k~~~~~~kkeL~~~ 45 (228)
++.+++..++.|++. -++.+...+...++.+++.
T Consensus 99 ~~~l~~~a~~~Gl~~-~~~~~~~~s~~~~~~i~~~ 132 (178)
T cd03019 99 PDDIRKIFLSQGVDK-KKFDAAYNSFSVKALVAKA 132 (178)
T ss_pred HHHHHHHHHHhCCCH-HHHHHHHhCHHHHHHHHHH
Confidence 344555555555532 3444444444333333333
No 72
>PTZ00059 dynein light chain; Provisional
Probab=21.02 E-value=2.2e+02 Score=21.16 Aligned_cols=36 Identities=19% Similarity=0.209 Sum_probs=22.8
Q ss_pred HHHHHHHHHHHHHHcCCChhHHHHHHHHHHHhcCCC
Q psy2984 38 AKKELQEQLEEQISEGASIKDIVADIREIANKHCIP 73 (228)
Q Consensus 38 ~kkeL~~~L~~~i~~~~~~~eII~~vk~~~~~~~iP 73 (228)
.+++..+...+.+..-...+||..+||+.+++.-=|
T Consensus 18 mq~~a~~~~~~Al~~~~~~kdiA~~IK~~fD~~yg~ 53 (90)
T PTZ00059 18 MQQDAIDCANQALEKFNIEKDIAAYIKKEFDKKYNP 53 (90)
T ss_pred HHHHHHHHHHHHHHHcCchHHHHHHHHHHHHhhcCC
Confidence 344444444444444455689999999998876544
No 73
>PF12363 DUF3647: Phage protein ; InterPro: IPR024410 Proteins in this entry are frequently annotated as phage proteins, however there is little accompanying literature to back this up or to describe the nature of these phage proteins.
Probab=20.83 E-value=2.7e+02 Score=21.55 Aligned_cols=35 Identities=14% Similarity=0.401 Sum_probs=27.2
Q ss_pred HHHHHHHHHHHHHHcCCChhHHHHHHHHHHHhcCC
Q psy2984 38 AKKELQEQLEEQISEGASIKDIVADIREIANKHCI 72 (228)
Q Consensus 38 ~kkeL~~~L~~~i~~~~~~~eII~~vk~~~~~~~i 72 (228)
.++++.+.|.+.++++.+.++....+.+.+++..+
T Consensus 69 s~~eIe~~ie~~~e~~~~~~~l~~~vl~el~~s~~ 103 (113)
T PF12363_consen 69 SREEIEDYIEDIIEDEDDIEELFDEVLKELKKSNF 103 (113)
T ss_pred CHHHHHHHHHHHHhcchhHHHHHHHHHHHHHhChh
Confidence 78888888888888877788888888777766543
No 74
>PLN02678 seryl-tRNA synthetase
Probab=20.60 E-value=7.3e+02 Score=24.08 Aligned_cols=60 Identities=10% Similarity=0.248 Sum_probs=32.1
Q ss_pred ChHHHHHHHhhcCc-----hHHHHHHHHH----HhHHHHHHHHHHHHHHHH----cCCChhHHHHHHHHHHHh
Q psy2984 10 SDEYFRTVFEEKGL-----ADIVKLHMAQ----ASQEAKKELQEQLEEQIS----EGASIKDIVADIREIANK 69 (228)
Q Consensus 10 s~~~f~~~F~~~gL-----~el~~~~~k~----~~~~~kkeL~~~L~~~i~----~~~~~~eII~~vk~~~~~ 69 (228)
+.+.+++-.++.|. ++|+++.+++ ......+.-++++.++|. +++..+++++.+++..++
T Consensus 14 ~~~~v~~~l~~R~~~~~~id~il~ld~~~r~l~~~~e~lr~erN~~sk~I~~~k~~~~~~~~l~~~~~~Lk~e 86 (448)
T PLN02678 14 DPELIRESQRRRFASVELVDEVIALDKEWRQRQFELDSLRKEFNKLNKEVAKLKIAKEDATELIAETKELKKE 86 (448)
T ss_pred CHHHHHHHHHhhCCCHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhCCCcHHHHHHHHHHHHHH
Confidence 55566666666653 4566665552 223333334445555553 344556677666665544
No 75
>COG5101 CRM1 Importin beta-related nuclear transport receptor [Nuclear structure / Intracellular trafficking and secretion]
Probab=20.13 E-value=6e+02 Score=26.61 Aligned_cols=44 Identities=16% Similarity=0.204 Sum_probs=36.6
Q ss_pred hHHHHHHHHHHhHHHHHHHHHHHHHHHHcCCChhHHHHHHHHHHHhcCCC
Q psy2984 24 ADIVKLHMAQASQEAKKELQEQLEEQISEGASIKDIVADIREIANKHCIP 73 (228)
Q Consensus 24 ~el~~~~~k~~~~~~kkeL~~~L~~~i~~~~~~~eII~~vk~~~~~~~iP 73 (228)
.|+.+|.+.|..|.+++-|++++.-- -.+|.-.++++.++..=|
T Consensus 164 EEvFdfSaeqmTq~k~~~LkNqm~~E------F~qIF~lc~qiLE~~~~~ 207 (1053)
T COG5101 164 EEVFDFSAEQMTQVKKRLLKNQMKIE------FPQIFGLCKQILEYSRDE 207 (1053)
T ss_pred HHHHhccHHHHHHHHHHHHHHHHhhh------HHHHHHHHHHHHHhcCCh
Confidence 47899999999999999999999864 456888888888886644
Done!