Query 007381
Match_columns 605
No_of_seqs 317 out of 1512
Neff 6.3
Searched_HMMs 46136
Date Thu Mar 28 22:49:16 2013
Command hhsearch -i /work/01045/syshi/csienesis_hhblits_a3m/007381.a3m -d /work/01045/syshi/HHdatabase/Cdd.hhm -o /work/01045/syshi/hhsearch_cdd/007381hhsearch_cdd -cpu 12 -v 0
No Hit Prob E-value P-value Score SS Cols Query HMM Template HMM
1 KOG1471 Phosphatidylinositol t 100.0 8E-44 1.7E-48 373.8 24.6 276 70-348 6-286 (317)
2 KOG1470 Phosphatidylinositol t 100.0 3.8E-35 8.2E-40 302.8 19.4 217 86-323 27-244 (324)
3 PF00650 CRAL_TRIO: CRAL/TRIO 100.0 1.5E-29 3.2E-34 237.9 10.4 157 155-321 2-159 (159)
4 smart00516 SEC14 Domain in hom 99.9 2.3E-27 5.1E-32 222.7 15.2 154 156-323 5-158 (158)
5 cd00170 SEC14 Sec14p-like lipi 99.9 2.6E-24 5.7E-29 199.1 15.1 144 165-321 14-157 (157)
6 PF13716 CRAL_TRIO_2: Divergen 99.4 2.8E-13 6.1E-18 127.1 3.4 139 164-324 6-146 (149)
7 PF03765 CRAL_TRIO_N: CRAL/TRI 98.6 6.5E-08 1.4E-12 76.0 5.2 47 85-132 1-55 (55)
8 KOG4406 CDC42 Rho GTPase-activ 98.1 1.7E-05 3.8E-10 84.7 9.9 127 167-314 89-215 (467)
9 COG4064 MtrG Tetrahydromethano 84.5 1.2 2.5E-05 36.7 3.3 25 517-541 11-35 (75)
10 PRK01026 tetrahydromethanopter 81.4 1.8 3.8E-05 36.5 3.4 25 517-541 11-35 (77)
11 TIGR01149 mtrG N5-methyltetrah 80.9 1.9 4E-05 35.6 3.2 25 517-541 8-32 (70)
12 PF04210 MtrG: Tetrahydrometha 75.2 2.9 6.3E-05 34.5 2.8 25 517-541 8-32 (70)
13 PF10805 DUF2730: Protein of u 65.0 69 0.0015 28.6 9.7 17 459-475 9-25 (106)
14 PF14555 UBA_4: UBA-like domai 54.6 41 0.00088 24.9 5.4 36 86-130 2-37 (43)
15 KOG1962 B-cell receptor-associ 48.6 85 0.0018 31.8 8.2 73 521-593 114-191 (216)
16 PF02845 CUE: CUE domain; Int 47.4 60 0.0013 23.7 5.3 38 86-131 3-40 (42)
17 PHA01750 hypothetical protein 46.4 99 0.0022 25.5 6.6 42 553-596 30-71 (75)
18 KOG0612 Rho-associated, coiled 45.3 74 0.0016 39.6 8.3 46 523-576 443-491 (1317)
19 TIGR02132 phaR_Bmeg polyhydrox 43.8 85 0.0018 30.8 7.0 74 519-593 70-154 (189)
20 smart00546 CUE Domain that may 42.5 67 0.0014 23.5 4.9 37 86-130 4-40 (43)
21 TIGR03752 conj_TIGR03752 integ 42.1 1.5E+02 0.0032 33.5 9.6 73 518-590 56-135 (472)
22 TIGR03185 DNA_S_dndD DNA sulfu 41.7 1.2E+02 0.0025 35.8 9.3 67 521-589 391-457 (650)
23 PRK00117 recX recombination re 40.1 35 0.00076 32.2 3.9 99 27-132 53-153 (157)
24 PF05377 FlaC_arch: Flagella a 39.7 89 0.0019 24.9 5.3 35 561-595 1-35 (55)
25 PF08317 Spc7: Spc7 kinetochor 37.2 1.9E+02 0.004 31.0 9.3 75 522-596 178-252 (325)
26 COG1340 Uncharacterized archae 37.0 2.7E+02 0.0058 29.6 10.0 65 523-596 109-173 (294)
27 PF10368 YkyA: Putative cell-w 36.7 1.5E+02 0.0032 29.7 7.9 78 520-597 31-112 (204)
28 KOG3313 Molecular chaperone Pr 34.2 1.9E+02 0.0041 28.4 7.7 62 535-596 22-86 (187)
29 PF01496 V_ATPase_I: V-type AT 34.0 1.6E+02 0.0035 35.2 9.1 64 531-594 204-271 (759)
30 PF12718 Tropomyosin_1: Tropom 33.9 1.7E+02 0.0037 27.6 7.4 69 520-588 34-108 (143)
31 PRK09039 hypothetical protein; 33.8 3.5E+02 0.0075 29.3 10.7 19 462-480 29-47 (343)
32 PF13080 DUF3926: Protein of u 33.5 37 0.0008 25.4 2.2 22 570-594 13-34 (44)
33 PF10212 TTKRSYEDQ: Predicted 32.7 2.4E+02 0.0051 32.3 9.3 35 552-586 461-509 (518)
34 KOG0249 LAR-interacting protei 32.3 2.7E+02 0.0059 33.1 9.7 75 519-593 171-249 (916)
35 PF11221 Med21: Subunit 21 of 31.7 4E+02 0.0086 25.0 9.5 61 526-594 78-138 (144)
36 PF14712 Snapin_Pallidin: Snap 30.0 1.3E+02 0.0027 25.8 5.4 31 564-594 11-41 (92)
37 PHA00687 hypothetical protein 29.7 1.2E+02 0.0025 23.2 4.3 30 545-574 9-48 (56)
38 PF04740 LXG: LXG domain of WX 28.9 2.4E+02 0.0052 27.5 7.9 114 450-583 47-161 (204)
39 PF13234 rRNA_proc-arch: rRNA- 28.7 2E+02 0.0043 29.7 7.6 70 523-595 182-263 (268)
40 PF11802 CENP-K: Centromere-as 28.4 3.8E+02 0.0083 28.1 9.3 38 521-558 52-89 (268)
41 PF05276 SH3BP5: SH3 domain-bi 28.2 4.3E+02 0.0094 27.2 9.7 53 528-582 98-150 (239)
42 PRK14136 recX recombination re 27.7 76 0.0016 33.9 4.2 25 108-132 278-302 (309)
43 PF10158 LOH1CR12: Tumour supp 27.5 2.1E+02 0.0046 26.7 6.7 63 524-587 52-114 (131)
44 PF03961 DUF342: Protein of un 26.7 3E+02 0.0065 30.8 9.1 55 522-576 342-398 (451)
45 PRK10884 SH3 domain-containing 26.5 4.9E+02 0.011 26.2 9.6 71 527-597 92-169 (206)
46 PF01102 Glycophorin_A: Glycop 26.4 86 0.0019 29.0 3.9 33 452-484 63-95 (122)
47 TIGR02132 phaR_Bmeg polyhydrox 26.4 2E+02 0.0044 28.3 6.5 12 571-582 142-153 (189)
48 PLN03214 probable enoyl-CoA hy 26.2 2.1E+02 0.0045 29.8 7.3 21 579-599 250-270 (278)
49 PHA02562 46 endonuclease subun 25.2 2E+02 0.0044 32.6 7.6 74 520-594 298-371 (562)
50 PF15175 SPATA24: Spermatogene 24.9 1.9E+02 0.0041 27.6 5.8 58 520-581 2-59 (153)
51 PF04880 NUDE_C: NUDE protein, 24.8 92 0.002 30.3 3.9 32 550-582 4-35 (166)
52 PF05276 SH3BP5: SH3 domain-bi 24.5 3.9E+02 0.0085 27.5 8.6 74 523-596 144-227 (239)
53 PRK06569 F0F1 ATP synthase sub 24.4 99 0.0022 29.8 4.0 96 454-571 9-106 (155)
54 PF05529 Bap31: B-cell recepto 24.2 2.2E+02 0.0048 27.8 6.7 62 522-584 119-184 (192)
55 PF15294 Leu_zip: Leucine zipp 24.1 2E+02 0.0044 30.3 6.5 61 528-599 190-250 (278)
56 PRK14137 recX recombination re 23.1 1.8E+02 0.0039 28.9 5.8 27 109-135 156-182 (195)
57 COG1842 PspA Phage shock prote 22.7 8.1E+02 0.018 25.0 10.5 50 521-576 59-108 (225)
58 PF12297 EVC2_like: Ellis van 22.5 3.9E+02 0.0084 29.9 8.5 21 455-475 68-88 (429)
59 PF05335 DUF745: Protein of un 22.5 1.4E+02 0.003 29.7 4.8 31 549-579 140-177 (188)
60 PF11068 YlqD: YlqD protein; 22.0 4.6E+02 0.0099 24.5 7.8 50 548-597 15-72 (131)
61 PF15027 DUF4525: Domain of un 22.0 86 0.0019 29.2 2.9 23 519-541 84-106 (138)
62 PF14282 FlxA: FlxA-like prote 21.9 3.8E+02 0.0082 23.9 7.1 52 518-570 16-68 (106)
63 smart00787 Spc7 Spc7 kinetocho 21.8 4.7E+02 0.01 28.0 8.9 74 522-595 173-260 (312)
64 PRK09261 phospho-2-dehydro-3-d 21.6 4.2E+02 0.0091 28.9 8.5 67 160-237 205-272 (349)
65 PF09789 DUF2353: Uncharacteri 21.6 3.7E+02 0.0081 29.0 8.0 61 518-578 23-97 (319)
66 PF06103 DUF948: Bacterial pro 21.4 4E+02 0.0086 22.6 6.9 43 554-596 27-69 (90)
67 TIGR00034 aroFGH phospho-2-deh 21.1 1.6E+02 0.0034 32.1 5.2 68 159-237 199-266 (344)
68 PF12718 Tropomyosin_1: Tropom 20.8 3.4E+02 0.0073 25.6 6.8 58 525-586 11-68 (143)
69 KOG1838 Alpha/beta hydrolase [ 20.8 7.1E+02 0.015 27.8 10.2 90 168-282 121-216 (409)
70 PF11471 Sugarporin_N: Maltopo 20.8 1.1E+02 0.0025 24.6 3.1 12 525-536 29-40 (60)
71 COG5104 PRP40 Splicing factor 20.7 2.6E+02 0.0056 31.4 6.6 32 548-579 323-354 (590)
72 COG1382 GimC Prefoldin, chaper 20.7 2.1E+02 0.0045 26.4 5.1 20 559-578 26-45 (119)
No 1
>KOG1471 consensus Phosphatidylinositol transfer protein SEC14 and related proteins [Lipid transport and metabolism]
Probab=100.00 E-value=8e-44 Score=373.79 Aligned_cols=276 Identities=44% Similarity=0.745 Sum_probs=244.6
Q ss_pred ccccccccCCCC--HHHHHHHHHHHHHHHhCCCCCCCCCcHHHHHHHHHHcCCCHHHHHHHHHHHHHHHHhcCCCccccc
Q 007381 70 RVSSVSIEDVRD--VEELQAVDAFRQSLIMDELLPERHDDYHMMLRFLKARKFDIDKAKHMWAEMLQWRKEFGVDTIMED 147 (605)
Q Consensus 70 ~v~s~~ied~~d--~eE~~~l~efRq~L~~~~~Lp~~~dD~~~LLRFLrArkfDvekA~~~l~~~l~WRk~~~~d~i~~d 147 (605)
.++.+..+++.+ +.+.+.++++| |+..+++++...+|+++|||||||++||+++|+++|.+++.||++++.+.|..+
T Consensus 6 ~~~~~~~~~~~~~~~~~~~~i~~lr-~~~~~~~l~~~~~~d~~LlRfLra~~f~ve~a~~~l~~~l~~r~~~~~d~i~~~ 84 (317)
T KOG1471|consen 6 MLAKVAKEELNEITESEEAVIAQLR-WLLQKPHLPNKYDDDFNLLRFLRARKFDVEKAKQMLKRYLNWRKRNKLDEIFED 84 (317)
T ss_pred ccccccccccCCCcHHHHHHHHHHH-HHhhccCCCCCCCCHHHHHHHHHHccCCHHHHHHHHHHHHHHHHHhCCccHhhc
Confidence 444444544444 56677888888 888899999755555799999999999999999999999999999999999876
Q ss_pred cchHHHHHHHhccCcccccCCCCCCcEEEEecCccCcchhhhcCCHHHHHHHHHHHHHHHHhhhChhhhhhhcCCCCcEE
Q 007381 148 FEFKEINEVLSYYPHGYHGVDKEGRPVYIERLGKVDSNKLMQVTTMDRYIRYHVQGFEKAFAVKFPACTIAAKRHIDSST 227 (605)
Q Consensus 148 ~~~~el~~v~k~~p~~~~G~Dk~GRPV~i~rlg~~dp~kl~~~~t~~~~lr~~v~~~E~~~~~~~pacs~~~~~~i~~~t 227 (605)
......+.+++|++++|+|++|+||++.+.|..|...++..+...++.++++..+|+.+..+++.|.....++++|++
T Consensus 85 --~~~~~~~~~~~~~~~~~~~~~g~~v~~~~~g~~~~~~l~~~~~~~~~~~~~~~~~e~~~~~~~e~~~~~~~~~~~g~~ 162 (317)
T KOG1471|consen 85 --FEEDDELLKYYPQGLHGVDKEGRPVYIERLGKIDPKGLLKRTGSLDYLKYHFKEFEKVFKLVLELELKTGERQISGIV 162 (317)
T ss_pred --cccchhhhhhccccccccCCCCCEEEEeccCCCCcccceeeccHHHHHHHHHHHHHHHHHHHHHHHHHHhcCCcceeE
Confidence 233444556889999999999999999999999999999999999999999999999999999999888788999999
Q ss_pred EEEECCCCCCCCcchhHHHHHHHHHHHhccccccccceEEEEecChHHHHHHHHHHhcCChhhhccEEEeCCCchhHHHh
Q 007381 228 SILDVQGVGLKNFSKNARELILRLQKIDGDNYPETLHQMFIINAGPGFRLLWNTVKSFLDPKTTSKIHVLGNKYQSKLLE 307 (605)
Q Consensus 228 iIiDl~G~sl~~~~~~~~~lik~i~kilq~~YPerL~~I~IVNaP~~f~~lw~ivKpFL~~kT~~KI~~lg~~~~~~L~e 307 (605)
+|+|++|+++.|+....+.+++.++.++|++||++++++||||+|++|+.+|++|+|||+++|++||++++.++.++|.+
T Consensus 163 ~I~Dl~G~~~~~~~~~~~~~~~~~~~~~q~~yPe~l~~~~iIN~P~~f~~~~~~ikpfL~~kt~~ki~~~~~~~~~~L~k 242 (317)
T KOG1471|consen 163 TIFDLKGVSLSHLLKPAPTLLKKILKILQDNYPERLKRIHIINAPTIFSALWKVVKPFLDEKTRKKIHVLHSKDKESLLK 242 (317)
T ss_pred EEEECCCCcchhHHHHHHHHHHHHHHHHHHhCHHhhceEEEEcCchhHHHHHHHHhccCCHHHHhhheecCCCchhhhhh
Confidence 99999999999999999999999999999999999999999999999999999999999999999999777778899999
Q ss_pred hcCCCCCCcccCCCcCCCC---CCCCccCCCCcccceeecCCCC
Q 007381 308 IIDARELPEFLGGTCNCAD---QGGCLRSDKGPWQIVKVLNSDG 348 (605)
Q Consensus 308 ~Id~s~LP~eyGGt~~~~~---~~gcl~~d~g~w~~~~~~~~~~ 348 (605)
+|++++||.+|||+|.+.+ .++|..++.++|..........
T Consensus 243 ~i~~~~LP~~yGG~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 286 (317)
T KOG1471|consen 243 YIPPEVLPEEYGGTCGDLDDPNGGGCDLSDEGPWKEPEIKKGKQ 286 (317)
T ss_pred hCCHhhCccccCCCccccccccCCcCcccccccccccccccccc
Confidence 9999999999999999974 5779999999997755444333
No 2
>KOG1470 consensus Phosphatidylinositol transfer protein PDR16 and related proteins [Lipid transport and metabolism]
Probab=100.00 E-value=3.8e-35 Score=302.79 Aligned_cols=217 Identities=30% Similarity=0.464 Sum_probs=183.1
Q ss_pred HHHHHHHHHHHhCCC-CCCCCCcHHHHHHHHHHcCCCHHHHHHHHHHHHHHHHhcCCCccccccchHHHHHHHhccCccc
Q 007381 86 QAVDAFRQSLIMDEL-LPERHDDYHMMLRFLKARKFDIDKAKHMWAEMLQWRKEFGVDTIMEDFEFKEINEVLSYYPHGY 164 (605)
Q Consensus 86 ~~l~efRq~L~~~~~-Lp~~~dD~~~LLRFLrArkfDvekA~~~l~~~l~WRk~~~~d~i~~d~~~~el~~v~k~~p~~~ 164 (605)
..+.+.+..+..... .....+| .++|||||||+||+++|.+|+.++|.||+.+++..+ ....++..-+..+.+++
T Consensus 27 ~k~~~~~~~~~pl~~~~~~~~~d-~cllRfLrAr~wnv~kA~kml~~tL~WR~~~~~~~~---~~~~Ev~~e~~tGK~yi 102 (324)
T KOG1470|consen 27 DKINSVKKLLGPLTEKESKWCSD-ACLLRFLRARKWNVKKASKMLSNTLKWRRSFGPEEV---IEADEVAAELETGKAYI 102 (324)
T ss_pred HHHHHHHHhhcchhhhhHhcCcH-HHHHHHHHHcCCcHHHHHHHHHHHhHHHHhcCCccc---cCHHHHHHHhhcCcEEE
Confidence 455666665521111 1112345 699999999999999999999999999999998772 23455666667788888
Q ss_pred ccCCCCCCcEEEEecCccCcchhhhcCCHHHHHHHHHHHHHHHHhhhChhhhhhhcCCCCcEEEEEECCCCCCCCcchhH
Q 007381 165 HGVDKEGRPVYIERLGKVDSNKLMQVTTMDRYIRYHVQGFEKAFAVKFPACTIAAKRHIDSSTSILDVQGVGLKNFSKNA 244 (605)
Q Consensus 165 ~G~Dk~GRPV~i~rlg~~dp~kl~~~~t~~~~lr~~v~~~E~~~~~~~pacs~~~~~~i~~~tiIiDl~G~sl~~~~~~~ 244 (605)
.|.|++||||+|+++....++. .+.+++.|+.|++||.++..+ +..++++++++|++|++++|.+
T Consensus 103 ~G~D~~gRPVl~~~~~~~~qn~----~t~~~~~r~~Vy~mE~Ai~~l--------p~~qe~~~~L~D~~~fs~sN~d--- 167 (324)
T KOG1470|consen 103 LGHDKDGRPVLYLRPRPHRQNT----KTQKELERLLVYTLENAILFL--------PPGQEQFVWLFDLTGFSMSNPD--- 167 (324)
T ss_pred ecccCCCCeEEEEecCCCCCCC----CCHHHHHHHHHHHHHHHHHhC--------CCCcceEEEEEecccCcccCCC---
Confidence 9999999999999887666665 699999999999999999753 4457889999999999999888
Q ss_pred HHHHHHHHHHhccccccccceEEEEecChHHHHHHHHHHhcCChhhhccEEEeCCCchhHHHhhcCCCCCCcccCCCcC
Q 007381 245 RELILRLQKIDGDNYPETLHQMFIINAGPGFRLLWNTVKSFLDPKTTSKIHVLGNKYQSKLLEIIDARELPEFLGGTCN 323 (605)
Q Consensus 245 ~~lik~i~kilq~~YPerL~~I~IVNaP~~f~~lw~ivKpFL~~kT~~KI~~lg~~~~~~L~e~Id~s~LP~eyGGt~~ 323 (605)
....+.+++++|+||||||+..+|+|+||+|..+|+++||||||+|++||.|..+. ..|.++||+++||..|||+..
T Consensus 168 ~~~~k~~~~~lq~hYPErLg~a~l~~~P~iF~~~wkiikpflDp~t~~Kv~F~~~~--~~l~~~~d~~~l~s~~GG~~~ 244 (324)
T KOG1470|consen 168 IKFLKELLHILQDHYPERLGKALLVNAPWIFQPFWKIIKPFLDPKTASKVKFVEPK--DDLSEYFDESQLPSLFGGKLL 244 (324)
T ss_pred cHHHHHHHHHHHHhChHHhhhhhhcCChHHHHHHHHHhhhccChhhhceeEEecCh--hHHHhhCCccccchhhCCCcc
Confidence 68889999999999999999999999999999999999999999999999999874 569999999999999999643
No 3
>PF00650 CRAL_TRIO: CRAL/TRIO domain; InterPro: IPR001251 This entry defines the C-terminal of various retinaldehyde/retinal-binding proteins that may be functional components of the visual cycle. Cellular retinaldehyde-binding protein (CRALBP) carries 11-cis-retinol or 11-cis-retinaldehyde as endogenous ligands and may function as a substrate carrier protein that modulates interaction of these retinoids with visual cycle enzymes []. The multidomain protein Trio binds the LAR transmembrane tyrosine phosphatase, contains a protein kinase domain, and has separate rac-specific and rho-specific guanine nucleotide exchange factor domains []. Trio is a multifunctional protein that integrates and amplifies signals involved in coordinating actin remodeling, which is necessary for cell migration and growth. Other members of the family are transfer proteins that include, guanine nucleotide exchange factor that may function as an effector of RAC1, phosphatidylinositol/phosphatidylcholine transfer protein that is required for the transport of secretory proteins from the golgi complex and alpha-tocopherol transfer protein that enhances the transfer of the ligand between separate membranes.; PDB: 1OIZ_A 1R5L_A 1OIP_A 3HX3_A 3HY5_A 1OLM_E 1O6U_E 3Q8G_A 3B7Q_B 3B7Z_A ....
Probab=99.96 E-value=1.5e-29 Score=237.87 Aligned_cols=157 Identities=37% Similarity=0.586 Sum_probs=131.0
Q ss_pred HHHhccCcccccCCCCCCcEEEEecCccCcchhhhcCCHHHHHHHHHHHHHHHHhhhChhhhhhhcCCCCcEEEEEECCC
Q 007381 155 EVLSYYPHGYHGVDKEGRPVYIERLGKVDSNKLMQVTTMDRYIRYHVQGFEKAFAVKFPACTIAAKRHIDSSTSILDVQG 234 (605)
Q Consensus 155 ~v~k~~p~~~~G~Dk~GRPV~i~rlg~~dp~kl~~~~t~~~~lr~~v~~~E~~~~~~~pacs~~~~~~i~~~tiIiDl~G 234 (605)
++.+.++++++|+|++||||++++++++|+.. .+.+++++++++.+|.+++... ...+++|+++|+|++|
T Consensus 2 ~~~~~~~~~~~g~D~~gr~v~~~~~~~~~~~~----~~~~~~~~~~~~~~E~~~~~~~------~~~~~~~~~~iiD~~g 71 (159)
T PF00650_consen 2 EILKSGPFYLHGRDKDGRPVIYIRLGRFDPKK----FSPEDVIRFFVYLLERMLKRMP------EGGQVEGIVVIIDLSG 71 (159)
T ss_dssp HHHTTSCEEEEEE-TTS-EEEEEEGTT--HHT----S-HHHHHHHHHHHHHHHHHTHH------HTSHHH-EEEEEE-TT
T ss_pred HHHCCeeEEECCCCCCcCEEEEEEcccCCCCc----CCHHHHHHHHHHHHHHHHhhhc------ccccceeEEEEEeCCC
Confidence 35788999999999999999999999999986 5789999999999999986421 1356899999999999
Q ss_pred CCCCCcchhHHHHHHHHHHHhccccccccceEEEEecChHHHHHHHHHHhcCChhhhccEEEeCC-CchhHHHhhcCCCC
Q 007381 235 VGLKNFSKNARELILRLQKIDGDNYPETLHQMFIINAGPGFRLLWNTVKSFLDPKTTSKIHVLGN-KYQSKLLEIIDARE 313 (605)
Q Consensus 235 ~sl~~~~~~~~~lik~i~kilq~~YPerL~~I~IVNaP~~f~~lw~ivKpFL~~kT~~KI~~lg~-~~~~~L~e~Id~s~ 313 (605)
++++++.......++.++.++|++||++++++||||+|++|+.+|+++++||+++|++||+++++ ++.+.|.++||+++
T Consensus 72 ~~~~~~~~~~~~~~k~~~~~~~~~yP~rl~~i~iin~p~~~~~~~~~~~~~l~~~~~~ki~~~~~~~~~~~l~~~i~~~~ 151 (159)
T PF00650_consen 72 FSLSNFDWWPISFLKKIIQLLQDHYPERLGKIYIINAPWFFRVLWKIVKPFLSPKTREKIVFHSGSDWKAKLKEYIDPEQ 151 (159)
T ss_dssp --HHHHHCHHHHHHHHHHHHHHHHSTTTEEEEEEES--TTHHHHHHHHGGGS-HHHHCTEEEECTTCHCHHHCCCSTGGG
T ss_pred ceEeccccchhhhhhhhhhhhcccCCccceeEEEEecChhhhhhHhHHHhhcCHhhheeEEEECCcccHHHHHhhCCHhH
Confidence 99999875558999999999999999999999999999999999999999999999999999965 56579999999999
Q ss_pred CCcccCCC
Q 007381 314 LPEFLGGT 321 (605)
Q Consensus 314 LP~eyGGt 321 (605)
||.+|||+
T Consensus 152 lP~~~GG~ 159 (159)
T PF00650_consen 152 LPVEYGGT 159 (159)
T ss_dssp SBGGGTSS
T ss_pred CchhcCCC
Confidence 99999997
No 4
>smart00516 SEC14 Domain in homologues of a S. cerevisiae phosphatidylinositol transfer protein (Sec14p). Domain in homologues of a S. cerevisiae phosphatidylinositol transfer protein (Sec14p) and in RhoGAPs, RhoGEFs and the RasGAP, neurofibromin (NF1). Lipid-binding domain. The SEC14 domain of Dbl is known to associate with G protein beta/gamma subunits.
Probab=99.95 E-value=2.3e-27 Score=222.66 Aligned_cols=154 Identities=40% Similarity=0.643 Sum_probs=139.6
Q ss_pred HHhccCcccccCCCCCCcEEEEecCccCcchhhhcCCHHHHHHHHHHHHHHHHhhhChhhhhhhcCCCCcEEEEEECCCC
Q 007381 156 VLSYYPHGYHGVDKEGRPVYIERLGKVDSNKLMQVTTMDRYIRYHVQGFEKAFAVKFPACTIAAKRHIDSSTSILDVQGV 235 (605)
Q Consensus 156 v~k~~p~~~~G~Dk~GRPV~i~rlg~~dp~kl~~~~t~~~~lr~~v~~~E~~~~~~~pacs~~~~~~i~~~tiIiDl~G~ 235 (605)
...+.++++ |.|++||||+++++++++++. .+.+++++++++.+|.+++. .....++.++++|+|++|+
T Consensus 5 ~~~~~~~~~-g~D~~GrpV~~~~~~~~~~~~----~~~~~~~~~~~~~~e~~~~~------~~~~~~~~~~~~i~D~~~~ 73 (158)
T smart00516 5 GKAYIPGGR-GYDKDGRPVLIFRAGRFDLKS----VTLEELLRYLVYVLEKILQR------EKKTGGIEGFTVIFDLKGL 73 (158)
T ss_pred HHHhcCCCC-CCCCCcCEEEEEeccccccCc----CCHHHHHHHHHHHHHHHHHH------HhcCCCeeeEEEEEECCCC
Confidence 455667776 899999999999999998766 69999999999999999864 1235678999999999999
Q ss_pred CCCCcchhHHHHHHHHHHHhccccccccceEEEEecChHHHHHHHHHHhcCChhhhccEEEeCCCchhHHHhhcCCCCCC
Q 007381 236 GLKNFSKNARELILRLQKIDGDNYPETLHQMFIINAGPGFRLLWNTVKSFLDPKTTSKIHVLGNKYQSKLLEIIDARELP 315 (605)
Q Consensus 236 sl~~~~~~~~~lik~i~kilq~~YPerL~~I~IVNaP~~f~~lw~ivKpFL~~kT~~KI~~lg~~~~~~L~e~Id~s~LP 315 (605)
+++++. .+.++.++.+++++||++++++||||+|++|+.+|+++++|+++++++||+++++++.+.|.++||+++||
T Consensus 74 ~~~~~~---~~~lk~~~~~~~~~yp~~l~~i~ivn~p~~~~~~~~~~~~~l~~~~~~ki~~~~~~~~~~L~~~i~~~~lP 150 (158)
T smart00516 74 SMSNPD---LSVLRKILKILQDHYPERLGKVLIINPPWFFRVLWKIIKPFLDEKTREKIRFVGNDSKEELLEYIDPEQLP 150 (158)
T ss_pred Cccccc---HHHHHHHHHHHHHHhHHHhCeEEEECCCHHHHHHHHHHHhhcChhhhccEEEeCCCCHHHHHhhCCHhhCc
Confidence 999865 68899999999999999999999999999999999999999999999999999987778999999999999
Q ss_pred cccCCCcC
Q 007381 316 EFLGGTCN 323 (605)
Q Consensus 316 ~eyGGt~~ 323 (605)
.+|||++.
T Consensus 151 ~~~GG~~~ 158 (158)
T smart00516 151 EELGGTLD 158 (158)
T ss_pred HhhCCCCC
Confidence 99999963
No 5
>cd00170 SEC14 Sec14p-like lipid-binding domain. Found in secretory proteins, such as S. cerevisiae phosphatidylinositol transfer protein (Sec14p), and in lipid regulated proteins such as RhoGAPs, RhoGEFs and neurofibromin (NF1). SEC14 domain of Dbl is known to associate with G protein beta/gamma subunits.
Probab=99.92 E-value=2.6e-24 Score=199.15 Aligned_cols=144 Identities=40% Similarity=0.625 Sum_probs=129.0
Q ss_pred ccCCCCCCcEEEEecCccCcchhhhcCCHHHHHHHHHHHHHHHHhhhChhhhhhhcCCCCcEEEEEECCCCCCCCcchhH
Q 007381 165 HGVDKEGRPVYIERLGKVDSNKLMQVTTMDRYIRYHVQGFEKAFAVKFPACTIAAKRHIDSSTSILDVQGVGLKNFSKNA 244 (605)
Q Consensus 165 ~G~Dk~GRPV~i~rlg~~dp~kl~~~~t~~~~lr~~v~~~E~~~~~~~pacs~~~~~~i~~~tiIiDl~G~sl~~~~~~~ 244 (605)
.|.|++||||++++++..++... .+.+++++++++.+|..++... ....|+++|+|++|++++++. ..
T Consensus 14 ~~~D~~gr~V~~~~~~~~~~~~~---~~~~~~~~~~~~~~e~~~~~~~--------~~~~~~~~i~D~~~~~~~~~~-~~ 81 (157)
T cd00170 14 GGRDKEGRPVLIIRAGNKDLSKS---LDSEELLRYLVYTLEKLLQEDD--------EQVEGFVVIIDLKGLSLSHLL-PD 81 (157)
T ss_pred CCCCCCcCEEEEEecCCcchhhc---CCHHHHHHHHHHHHHHHHhhhh--------hcccceEEEEECCCCChhccc-hh
Confidence 45799999999999997666553 3458999999999999987522 223799999999999999987 56
Q ss_pred HHHHHHHHHHhccccccccceEEEEecChHHHHHHHHHHhcCChhhhccEEEeCCCchhHHHhhcCCCCCCcccCCC
Q 007381 245 RELILRLQKIDGDNYPETLHQMFIINAGPGFRLLWNTVKSFLDPKTTSKIHVLGNKYQSKLLEIIDARELPEFLGGT 321 (605)
Q Consensus 245 ~~lik~i~kilq~~YPerL~~I~IVNaP~~f~~lw~ivKpFL~~kT~~KI~~lg~~~~~~L~e~Id~s~LP~eyGGt 321 (605)
.+.++.++++++++||++++++||||+|++|+.+|+++++|+++++++||++++++ .+.|.++||+++||.+|||+
T Consensus 82 ~~~~k~~~~~~~~~yp~~l~~v~ivn~p~~~~~~~~~~~~~l~~~~~~ki~~~~~~-~~~L~~~i~~~~Lp~~~GG~ 157 (157)
T cd00170 82 PSLLKKILKILQDNYPERLKAVYIINPPWFFKVLWKIVKPFLSEKTRKKIVFLGSD-KEELLKYIDKEQLPEEYGGT 157 (157)
T ss_pred HHHHHHHHHHHHHhChHhhCeEEEECCCHhHHHHHHHHHHhcCHhhhhhEEEecCC-HHHHHhhCChhhCcHhhCCC
Confidence 78999999999999999999999999999999999999999999999999999876 68999999999999999996
No 6
>PF13716 CRAL_TRIO_2: Divergent CRAL/TRIO domain; PDB: 2D4Q_B 3PG7_B 2E2X_B 3P7Z_B 3PEG_A.
Probab=99.36 E-value=2.8e-13 Score=127.06 Aligned_cols=139 Identities=20% Similarity=0.344 Sum_probs=94.7
Q ss_pred cccCCCCCCcEEEEecCccCcchhhhcCCHHHHHHHHHHHHHHHHhhhChhhhhhhcCCCCcEEEEEECCCCCCCCcchh
Q 007381 164 YHGVDKEGRPVYIERLGKVDSNKLMQVTTMDRYIRYHVQGFEKAFAVKFPACTIAAKRHIDSSTSILDVQGVGLKNFSKN 243 (605)
Q Consensus 164 ~~G~Dk~GRPV~i~rlg~~dp~kl~~~~t~~~~lr~~v~~~E~~~~~~~pacs~~~~~~i~~~tiIiDl~G~sl~~~~~~ 243 (605)
..|+|++||||+++..... ++. .+.+.++.|++..+...+ ...++++|+|+.|++..+-.
T Consensus 6 ~gG~d~~g~pV~~~~~~~~-~~~----~~~~~ll~yl~~~l~~~~-------------~~~~f~vVid~~~~~~~~~~-- 65 (149)
T PF13716_consen 6 PGGRDREGRPVVVFIASRL-PSS----DDLERLLLYLLSTLSEEV-------------VDKPFSVVIDHTGFSRSSEP-- 65 (149)
T ss_dssp EEEEBTTS-EEEEEEGGG--C-T----THHHHHHHHHHHHH-TTT-------------TTS-EEEEEE-TT--GGG----
T ss_pred ecccCCCcCEEEEEECCcC-cch----hhHHHHHHHHHHhhhHHh-------------cCCCEEEEEEcCCCccccCC--
Confidence 4589999999999997777 433 366677777665542111 13469999999999885532
Q ss_pred HHHHHHHHHHHhccccccccceEEEEecChHHHHHH-HHHHhcCChhh-hccEEEeCCCchhHHHhhcCCCCCCcccCCC
Q 007381 244 ARELILRLQKIDGDNYPETLHQMFIINAGPGFRLLW-NTVKSFLDPKT-TSKIHVLGNKYQSKLLEIIDARELPEFLGGT 321 (605)
Q Consensus 244 ~~~lik~i~kilq~~YPerL~~I~IVNaP~~f~~lw-~ivKpFL~~kT-~~KI~~lg~~~~~~L~e~Id~s~LP~eyGGt 321 (605)
....++.+.+.+...|+..|+++||||++++++.++ .+.+++++.+. ..||.++.+ .++|.++||+++||..+||+
T Consensus 66 ~~~~l~~~~~~l~~~~~~nl~~vyiv~p~~~~k~~~~~~~~~~~~~~~~~~kv~~~~s--l~~L~~~i~~~qL~~~lp~~ 143 (149)
T PF13716_consen 66 SLSWLKQLYKLLPRKYKKNLKKVYIVHPNWFLKKILATLLRPFVSSKFWKKKVVYVSS--LSELSKHIDPSQLPESLPGV 143 (149)
T ss_dssp -HHHHHHTTTSS-HHHHHTEEEEEEES--HHHHHHHHHTTTTGGGGTT--TTEEEESS--TCGGGGTSGGGG------HH
T ss_pred chHHHHHHHHHHHHHHhhceEEEEEECCCHHHHHHHHHHhcccccccccceEEEEECC--HHHHHhhCCHHHhcccCCCE
Confidence 367888899999999999999999999999999999 55567778888 899999966 58999999999999999998
Q ss_pred cCC
Q 007381 322 CNC 324 (605)
Q Consensus 322 ~~~ 324 (605)
+..
T Consensus 144 ~~~ 146 (149)
T PF13716_consen 144 LQY 146 (149)
T ss_dssp H--
T ss_pred Eec
Confidence 653
No 7
>PF03765 CRAL_TRIO_N: CRAL/TRIO, N-terminal domain; InterPro: IPR008273 This entry defines the N-terminal of various retinaldehyde/retinal-binding proteins that may be functional components of the visual cycle. Cellular retinaldehyde-binding protein (CRALBP) carries 11-cis-retinol or 11-cis-retinaldehyde as endogenous ligands and may function as a substrate carrier protein that modulates interaction of these retinoids with visual cycle enzymes []. The multidomain protein Trio binds the LAR transmembrane tyrosine phosphatase, contains a protein kinase domain, and has separate rac-specific and rho-specific guanine nucleotide exchange factor domains []. Trio is a multifunctional protein that integrates and amplifies signals involved in coordinating actin remodeling, which is necessary for cell migration and growth. Other members of the family are transfer proteins that include, guanine nucleotide exchange factor that may function as an effector of RAC1, phosphatidylinositol/phosphatidylcholine transfer protein that is required for the transport of secretory proteins from the golgi complex and alpha-tocopherol transfer protein that enhances the transfer of the ligand between separate membranes.; PDB: 1OIZ_A 1R5L_A 1OIP_A 3HX3_A 3HY5_A 1AUA_A 3Q8G_A 3B7Q_B 3B7Z_A 3B7N_A ....
Probab=98.60 E-value=6.5e-08 Score=76.03 Aligned_cols=47 Identities=40% Similarity=0.591 Sum_probs=37.5
Q ss_pred HHHHHHHHHHHHhC--------CCCCCCCCcHHHHHHHHHHcCCCHHHHHHHHHHH
Q 007381 85 LQAVDAFRQSLIMD--------ELLPERHDDYHMMLRFLKARKFDIDKAKHMWAEM 132 (605)
Q Consensus 85 ~~~l~efRq~L~~~--------~~Lp~~~dD~~~LLRFLrArkfDvekA~~~l~~~ 132 (605)
+++|++|++.|... ......++| .+||||||||+||+++|..||.++
T Consensus 1 k~~l~~l~~~l~~~~~~~~~~~~~~~~~~~d-~~llRFLRARkf~v~~A~~mL~~t 55 (55)
T PF03765_consen 1 KQKLKQLREHLSELDEKAPGLWDDEKEDHDD-NFLLRFLRARKFDVEKAFKMLKKT 55 (55)
T ss_dssp HHHHHHHHHHHHH--GGGTHHHTTHTSS-SH-HHHHHHHHHTTT-HHHHHHHHHHH
T ss_pred CHHHHHHHHHHHHhccchhcccccccCCCCH-HHHHHHHHHccCCHHHHHHHHHhC
Confidence 47899999999863 345556777 699999999999999999999875
No 8
>KOG4406 consensus CDC42 Rho GTPase-activating protein [Signal transduction mechanisms; Cytoskeleton]
Probab=98.06 E-value=1.7e-05 Score=84.65 Aligned_cols=127 Identities=22% Similarity=0.287 Sum_probs=98.9
Q ss_pred CCCCCCcEEEEecCccCcchhhhcCCHHHHHHHHHHHHHHHHhhhChhhhhhhcCCCCcEEEEEECCCCCCCCcchhHHH
Q 007381 167 VDKEGRPVYIERLGKVDSNKLMQVTTMDRYIRYHVQGFEKAFAVKFPACTIAAKRHIDSSTSILDVQGVGLKNFSKNARE 246 (605)
Q Consensus 167 ~Dk~GRPV~i~rlg~~dp~kl~~~~t~~~~lr~~v~~~E~~~~~~~pacs~~~~~~i~~~tiIiDl~G~sl~~~~~~~~~ 246 (605)
.|++||+|+++-..++-+..= ..-.++++|.++.++..++. -++.++=-.|+...+.. .+.
T Consensus 89 ~D~~gr~iivv~a~rlp~~~e---ld~~~li~~~v~~id~~Ve~--------------DYt~vYfh~gl~s~nkp--~l~ 149 (467)
T KOG4406|consen 89 KDKQGRKIIVVYACRLPSSSE---LDDIRLISYLVYTIDKYVEN--------------DYTLVYFHHGLPSDNKP--YLQ 149 (467)
T ss_pred ccccCCeeEEEEEecCCchhh---hhhHHHHHHHHHHHHHHHhc--------------cceeeehhcCCcccccc--hHH
Confidence 699999999998888766541 12223899999999999863 26666666666665543 345
Q ss_pred HHHHHHHHhccccccccceEEEEecChHHHHHHHHHHhcCChhhhccEEEeCCCchhHHHhhcCCCCC
Q 007381 247 LILRLQKIDGDNYPETLHQMFIINAGPGFRLLWNTVKSFLDPKTTSKIHVLGNKYQSKLLEIIDAREL 314 (605)
Q Consensus 247 lik~i~kilq~~YPerL~~I~IVNaP~~f~~lw~ivKpFL~~kT~~KI~~lg~~~~~~L~e~Id~s~L 314 (605)
++....+-+-.+|=-.++.+|+|.+-|+.+++|+++|||++.|...||+-+ ++.++|.++|.-+.|
T Consensus 150 ~l~~aYke~Dr~~~KNlKalYvvHptwfikvi~n~~kplIS~KF~rKi~Y~--n~lseL~~~l~l~rL 215 (467)
T KOG4406|consen 150 LLFDAYKELDRNFKKNLKALYVVHPTWFIKVIWNLFKPLISLKFTRKIIYF--NSLSELFEALKLNRL 215 (467)
T ss_pred HHHHHHHHHHHHHhhhhhheEEecHHHHHHHHHHHHhhhcchhhhceeEEe--ehHHHHHHhhhhhhh
Confidence 555555555567888999999999999999999999999999999999999 557999999875544
No 9
>COG4064 MtrG Tetrahydromethanopterin S-methyltransferase, subunit G [Coenzyme metabolism]
Probab=84.47 E-value=1.2 Score=36.71 Aligned_cols=25 Identities=36% Similarity=0.599 Sum_probs=22.2
Q ss_pred cchhhhHHHHHHHHHHHHHHHHHhc
Q 007381 517 LTEVDLLSSVTKRLSELEEKVDTLQ 541 (605)
Q Consensus 517 ~~~~~~~~~~~~r~~~lEekv~~L~ 541 (605)
++++|++..+.+||.++|+||+.-.
T Consensus 11 ~v~~~dfne~~kRLdeieekvef~~ 35 (75)
T COG4064 11 VVDPDDFNEIHKRLDEIEEKVEFVN 35 (75)
T ss_pred ccCHHHHHHHHHHHHHHHHHHHhhH
Confidence 5889999999999999999997643
No 10
>PRK01026 tetrahydromethanopterin S-methyltransferase subunit G; Provisional
Probab=81.40 E-value=1.8 Score=36.51 Aligned_cols=25 Identities=32% Similarity=0.496 Sum_probs=22.3
Q ss_pred cchhhhHHHHHHHHHHHHHHHHHhc
Q 007381 517 LTEVDLLSSVTKRLSELEEKVDTLQ 541 (605)
Q Consensus 517 ~~~~~~~~~~~~r~~~lEekv~~L~ 541 (605)
+++.+++..+++||.++||||+.-+
T Consensus 11 iv~~~d~~~i~~rLD~iEeKVEftn 35 (77)
T PRK01026 11 VVDPKDFKEIQKRLDEIEEKVEFTN 35 (77)
T ss_pred ecCHHHHHHHHHHHHHHHHHHHHHH
Confidence 6889999999999999999998643
No 11
>TIGR01149 mtrG N5-methyltetrahydromethanopterin:coenzyme M methyltransferase subunit G. coenzyme M methyltransferase subunit G in methanogenic archaea. This methyltranfersae is membrane-associated enzyme complex that uses methyl-transfer reaction to drive sodium-ion pump. Archaea have evolved energy-yielding pathways marked by one-carbon biochemistry featuring novel cofactors and enzymes. This transferase is involved in the transfer of 'methyl' group from N5-methyltetrahydromethanopterin to coenzyme M. In an accompanying reaction, methane is produced by two-electron reduction of the methyl moiety in methyl-coenzyme M by another enzyme methyl-coenzyme M reductase.
Probab=80.87 E-value=1.9 Score=35.57 Aligned_cols=25 Identities=44% Similarity=0.630 Sum_probs=22.1
Q ss_pred cchhhhHHHHHHHHHHHHHHHHHhc
Q 007381 517 LTEVDLLSSVTKRLSELEEKVDTLQ 541 (605)
Q Consensus 517 ~~~~~~~~~~~~r~~~lEekv~~L~ 541 (605)
+++.+++..+++||.++|+||+.-+
T Consensus 8 ~v~~~d~~~i~~rLd~iEeKVEf~~ 32 (70)
T TIGR01149 8 FVEPDEFNEVMKRLDEIEEKVEFVN 32 (70)
T ss_pred ecCHHHHHHHHHHHHHHHHHHHHHH
Confidence 5788999999999999999998643
No 12
>PF04210 MtrG: Tetrahydromethanopterin S-methyltransferase, subunit G ; InterPro: IPR005866 This model describes the N5-methyltetrahydromethanopterin: coenzyme M methyltransferase subunit G in methanogenic archaea. This methyltranferase is a membrane-associated enzyme complex that uses methyl-transfer reaction to drive a sodium-ion pump. Archaea have evolved energy-yielding pathways marked by one-carbon biochemistry featuring novel cofactors and enzymes. This transferase is involved in the transfer of a methyl group from N5-methyltetrahydromethanopterin to coenzyme M. In an accompanying reaction, methane is produced by two-electron reduction of the methyl moiety in methyl-coenzyme M by another enzyme methyl-coenzyme M reductase.; GO: 0030269 tetrahydromethanopterin S-methyltransferase activity, 0015948 methanogenesis, 0016021 integral to membrane
Probab=75.16 E-value=2.9 Score=34.52 Aligned_cols=25 Identities=36% Similarity=0.567 Sum_probs=21.9
Q ss_pred cchhhhHHHHHHHHHHHHHHHHHhc
Q 007381 517 LTEVDLLSSVTKRLSELEEKVDTLQ 541 (605)
Q Consensus 517 ~~~~~~~~~~~~r~~~lEekv~~L~ 541 (605)
+++.+++..+++||.++|+||+.-+
T Consensus 8 iv~~~~~~~i~~rLd~iEeKvEf~~ 32 (70)
T PF04210_consen 8 IVDPDDFNEIMKRLDEIEEKVEFTN 32 (70)
T ss_pred eeCHHHHHHHHHHHHHHHHHHHhHH
Confidence 4788999999999999999997543
No 13
>PF10805 DUF2730: Protein of unknown function (DUF2730); InterPro: IPR020269 This entry represents a family of various hypothetical proteins. The proteins, which include HI1498 and Gp25, from phage Mu, are currently uncharacterised.
Probab=64.99 E-value=69 Score=28.62 Aligned_cols=17 Identities=24% Similarity=0.470 Sum_probs=10.4
Q ss_pred HHHHHHHHHHHHHHHHH
Q 007381 459 WAAVMAFFMMFVTLFRS 475 (605)
Q Consensus 459 ~~~~~~~~~~~~~~~~~ 475 (605)
|..+.+++..+++++..
T Consensus 9 w~ii~a~~~~~~~~~~~ 25 (106)
T PF10805_consen 9 WGIIWAVFGIAGGIFWL 25 (106)
T ss_pred cHHHHHHHHHHHHHHHH
Confidence 45566666666666663
No 14
>PF14555 UBA_4: UBA-like domain; PDB: 2DAL_A 3BQ3_A 2L4E_A 2L4F_A 2DZL_A 2L2D_A 2DAM_A 1V92_A 3E21_A.
Probab=54.56 E-value=41 Score=24.87 Aligned_cols=36 Identities=17% Similarity=0.412 Sum_probs=26.8
Q ss_pred HHHHHHHHHHHhCCCCCCCCCcHHHHHHHHHHcCCCHHHHHHHHH
Q 007381 86 QAVDAFRQSLIMDELLPERHDDYHMMLRFLKARKFDIDKAKHMWA 130 (605)
Q Consensus 86 ~~l~efRq~L~~~~~Lp~~~dD~~~LLRFLrArkfDvekA~~~l~ 130 (605)
+.|.+|..... . ++ .....||.+.+||++.|+..+-
T Consensus 2 e~i~~F~~iTg-------~-~~-~~A~~~L~~~~wdle~Av~~y~ 37 (43)
T PF14555_consen 2 EKIAQFMSITG-------A-DE-DVAIQYLEANNWDLEAAVNAYF 37 (43)
T ss_dssp HHHHHHHHHH--------S-SH-HHHHHHHHHTTT-HHHHHHHHH
T ss_pred HHHHHHHHHHC-------c-CH-HHHHHHHHHcCCCHHHHHHHHH
Confidence 56788887762 1 33 4789999999999999998764
No 15
>KOG1962 consensus B-cell receptor-associated protein and related proteins [Defense mechanisms]
Probab=48.57 E-value=85 Score=31.84 Aligned_cols=73 Identities=21% Similarity=0.185 Sum_probs=49.2
Q ss_pred hhHHHHHHHHHHHHHH-----HHHhcCCCCCCchhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q 007381 521 DLLSSVTKRLSELEEK-----VDTLQAKPSEMPYEKEELLHAAVCRVDALEAELIATKKALHEALMRQEDLLAYIDRQ 593 (605)
Q Consensus 521 ~~~~~~~~r~~~lEek-----v~~L~~KP~~mP~EKEe~L~aa~~RvdaLE~eL~~TKKaL~~al~kQ~El~ayie~~ 593 (605)
+.++..+.+|..|++- -+....|+.+=+-.+|+=........+-||.||+++++.|+.+-.+=.+|--+.|..
T Consensus 114 ~R~~~ll~~l~~l~~~~~~~~~~~~lk~~~~~~~~~~~~~~~~~~~~~kL~~el~~~~~~Le~~~~~~~al~Kq~e~~ 191 (216)
T KOG1962|consen 114 RRLHTLLRELATLRANEKAMKENEALKKQLENSSKLEEENDKLKADLEKLETELEKKQKKLEKAQKKVDALKKQSEGL 191 (216)
T ss_pred HHHHHHHHHHHHHHhhHHHHHHHHHHHHhhhcccchhhhHHHHHhhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHc
Confidence 3466778888888871 233333334444445666777788899999999999999987655555555555443
No 16
>PF02845 CUE: CUE domain; InterPro: IPR003892 This domain may be involved in binding ubiquitin-conjugating enzymes (UBCs). CUE domains also occur in two proteins of the IL-1 signal transduction pathway, tollip and TAB2.; GO: 0005515 protein binding; PDB: 2EKF_A 1OTR_A 1P3Q_Q 1MN3_A 1WGL_A 2EJS_A 2DAE_A 2DHY_A 2DI0_A.
Probab=47.40 E-value=60 Score=23.74 Aligned_cols=38 Identities=21% Similarity=0.354 Sum_probs=27.9
Q ss_pred HHHHHHHHHHHhCCCCCCCCCcHHHHHHHHHHcCCCHHHHHHHHHH
Q 007381 86 QAVDAFRQSLIMDELLPERHDDYHMMLRFLKARKFDIDKAKHMWAE 131 (605)
Q Consensus 86 ~~l~efRq~L~~~~~Lp~~~dD~~~LLRFLrArkfDvekA~~~l~~ 131 (605)
+.|+++++.. |.. +. ..+..-|.++++|++.|...|-+
T Consensus 3 ~~v~~L~~mF------P~~-~~-~~I~~~L~~~~~~ve~ai~~LL~ 40 (42)
T PF02845_consen 3 EMVQQLQEMF------PDL-DR-EVIEAVLQANNGDVEAAIDALLE 40 (42)
T ss_dssp HHHHHHHHHS------SSS--H-HHHHHHHHHTTTTHHHHHHHHHH
T ss_pred HHHHHHHHHC------CCC-CH-HHHHHHHHHcCCCHHHHHHHHHc
Confidence 4567777665 322 33 47889999999999999998754
No 17
>PHA01750 hypothetical protein
Probab=46.43 E-value=99 Score=25.45 Aligned_cols=42 Identities=21% Similarity=0.339 Sum_probs=32.4
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHh
Q 007381 553 ELLHAAVCRVDALEAELIATKKALHEALMRQEDLLAYIDRQEEA 596 (605)
Q Consensus 553 e~L~aa~~RvdaLE~eL~~TKKaL~~al~kQ~El~ayie~~k~~ 596 (605)
.+|.+|+.-| +-+||.--++-++++-.||.+|-+-++..|++
T Consensus 30 q~lkdAvkeI--V~~ELdNL~~ei~~~kikqDnl~~qv~eik~k 71 (75)
T PHA01750 30 QALKDAVKEI--VNSELDNLKTEIEELKIKQDELSRQVEEIKRK 71 (75)
T ss_pred HHHHHHHHHH--HHHHHHHHHHHHHHHHHhHHHHHHHHHHHHHh
Confidence 5677777644 56778888888888889999988888776654
No 18
>KOG0612 consensus Rho-associated, coiled-coil containing protein kinase [Signal transduction mechanisms]
Probab=45.31 E-value=74 Score=39.63 Aligned_cols=46 Identities=30% Similarity=0.435 Sum_probs=40.5
Q ss_pred HHHHHHHHHHHHHHHHHhcCCCCCCchhHHHH---HHHHHHHHHHHHHHHHHHHHHH
Q 007381 523 LSSVTKRLSELEEKVDTLQAKPSEMPYEKEEL---LHAAVCRVDALEAELIATKKAL 576 (605)
Q Consensus 523 ~~~~~~r~~~lEekv~~L~~KP~~mP~EKEe~---L~aa~~RvdaLE~eL~~TKKaL 576 (605)
+..-++.++.|++++.+++ |+|+| |+.++.+.+..|++|..+.+||
T Consensus 443 l~~~~~~~~~~~~~~~~~~--------~~~~~~keL~e~i~~lk~~~~el~~~q~~l 491 (1317)
T KOG0612|consen 443 LVNEMQEKEKLDEKCQAVA--------ELEEMDKELEETIEKLKSEESELQREQKAL 491 (1317)
T ss_pred hhhHHHHhhhHHHHHHHHh--------hHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 5566899999999999998 77877 8999999999999999977776
No 19
>TIGR02132 phaR_Bmeg polyhydroxyalkanoic acid synthase, PhaR subunit. This model describes a protein, PhaR, localized to polyhydroxyalkanoic acid (PHA) inclusion granules in Bacillus cereus and related species. PhaR is required for PHA biosynthesis along with PhaC and may be a regulatory subunit.
Probab=43.79 E-value=85 Score=30.83 Aligned_cols=74 Identities=23% Similarity=0.309 Sum_probs=40.9
Q ss_pred hhhhHHHHHHHHHHHHHHHHHhc-----------CCCCCCchhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q 007381 519 EVDLLSSVTKRLSELEEKVDTLQ-----------AKPSEMPYEKEELLHAAVCRVDALEAELIATKKALHEALMRQEDLL 587 (605)
Q Consensus 519 ~~~~~~~~~~r~~~lEekv~~L~-----------~KP~~mP~EKEe~L~aa~~RvdaLE~eL~~TKKaL~~al~kQ~El~ 587 (605)
+.+++..+-.|+-+||+||+.|. ..--.=|.+|+++ +.-=.||.+||.-+.+-=.+|+-----|.||-
T Consensus 70 Sr~DiarvA~lvinlE~kvD~lee~fdd~~d~l~~q~eq~~~~~~~v-~~~~q~~~~l~~K~D~~L~llE~~~~~~~~~~ 148 (189)
T TIGR02132 70 TKEDIANVASLVINLEEKVDLIEEFFDDKFDELEAQQEQAPALKKDV-TKLKQDIKSLDKKLDKILELLEGQQKTQDELK 148 (189)
T ss_pred CHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhCchHHhHH-HHHHHHHHHHHHHHHHHHHHHhcCccchhHHH
Confidence 45566666666666666655443 2222456666663 55556777777776665555553333344444
Q ss_pred HHHHHH
Q 007381 588 AYIDRQ 593 (605)
Q Consensus 588 ayie~~ 593 (605)
+.|.++
T Consensus 149 ~~~~~~ 154 (189)
T TIGR02132 149 ETIQKQ 154 (189)
T ss_pred HHHHHH
Confidence 444433
No 20
>smart00546 CUE Domain that may be involved in binding ubiquitin-conjugating enzymes (UBCs). CUE domains also occur in two protein of the IL-1 signal transduction pathway, tollip and TAB2. Ponting (Biochem. J.) "Proteins of the Endoplasmic reticulum" (in press)
Probab=42.50 E-value=67 Score=23.55 Aligned_cols=37 Identities=14% Similarity=0.312 Sum_probs=27.3
Q ss_pred HHHHHHHHHHHhCCCCCCCCCcHHHHHHHHHHcCCCHHHHHHHHH
Q 007381 86 QAVDAFRQSLIMDELLPERHDDYHMMLRFLKARKFDIDKAKHMWA 130 (605)
Q Consensus 86 ~~l~efRq~L~~~~~Lp~~~dD~~~LLRFLrArkfDvekA~~~l~ 130 (605)
+.+++|++.. |.. ++ ..+.+.|+++++|++.|.+.|-
T Consensus 4 ~~v~~L~~mF------P~l-~~-~~I~~~L~~~~g~ve~~i~~LL 40 (43)
T smart00546 4 EALHDLKDMF------PNL-DE-EVIKAVLEANNGNVEATINNLL 40 (43)
T ss_pred HHHHHHHHHC------CCC-CH-HHHHHHHHHcCCCHHHHHHHHH
Confidence 4566777655 333 33 3788999999999999998874
No 21
>TIGR03752 conj_TIGR03752 integrating conjugative element protein, PFL_4705 family. Members of this protein family are found occasionally on plasmids such as the Pseudomonas putida toluene catabolic TOL plasmid pWWO_p085. Usually, however, they are found on the bacterial main chromosome in regions flanked by markers of conjugative transfer and/or transposition.
Probab=42.13 E-value=1.5e+02 Score=33.52 Aligned_cols=73 Identities=19% Similarity=0.288 Sum_probs=50.5
Q ss_pred chhhhHHHHHHHHHHHHHHHHHhcCCCCCCchhHHHHHH--HHH-----HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q 007381 518 TEVDLLSSVTKRLSELEEKVDTLQAKPSEMPYEKEELLH--AAV-----CRVDALEAELIATKKALHEALMRQEDLLAYI 590 (605)
Q Consensus 518 ~~~~~~~~~~~r~~~lEekv~~L~~KP~~mP~EKEe~L~--aa~-----~RvdaLE~eL~~TKKaL~~al~kQ~El~ayi 590 (605)
+..|.+..++-++.+|+.++..|...-...=.|.|+|-+ .++ .+|++-..||+.....|.+...+...++.-+
T Consensus 56 TP~DTlrTlva~~k~~r~~~~~l~~~N~~l~~eN~~L~~r~~~id~~i~~av~~~~~~~~~~~~ql~~~~~~~~~~l~~l 135 (472)
T TIGR03752 56 TPADTLRTLVAEVKELRKRLAKLISENEALKAENERLQKREQSIDQQIQQAVQSETQELTKEIEQLKSERQQLQGLIDQL 135 (472)
T ss_pred CccchHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhhhHHHHHHHHHHhhhHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 678889999999999999999998776666666666643 111 2344555677777777766665555555544
No 22
>TIGR03185 DNA_S_dndD DNA sulfur modification protein DndD. This model describes the DndB protein encoded by an operon associated with a sulfur-containing modification to DNA. The operon is sporadically distributed in bacteria, much like some restriction enzyme operons. DndD is described as a putative ATPase. The small number of examples known so far include species from among the Firmicutes, Actinomycetes, Proteobacteria, and Cyanobacteria.
Probab=41.70 E-value=1.2e+02 Score=35.76 Aligned_cols=67 Identities=28% Similarity=0.356 Sum_probs=43.7
Q ss_pred hhHHHHHHHHHHHHHHHHHhcCCCCCCchhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q 007381 521 DLLSSVTKRLSELEEKVDTLQAKPSEMPYEKEELLHAAVCRVDALEAELIATKKALHEALMRQEDLLAY 589 (605)
Q Consensus 521 ~~~~~~~~r~~~lEekv~~L~~KP~~mP~EKEe~L~aa~~RvdaLE~eL~~TKKaL~~al~kQ~El~ay 589 (605)
..+..+.+++.+||+..+.|..|=...|.+ +-+..-..+++.++.+|.+.+..+.....+-+++-.-
T Consensus 391 ~~~~~~~~~~~~~e~el~~l~~~l~~~~~~--e~i~~l~e~l~~l~~~l~~~~~~~~~~~~~~~~~~~~ 457 (650)
T TIGR03185 391 DAKSQLLKELRELEEELAEVDKKISTIPSE--EQIAQLLEELGEAQNELFRSEAEIEELLRQLETLKEA 457 (650)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHhcCCCh--HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 467888999999999999999998877764 2445555555555555555555544443333333333
No 23
>PRK00117 recX recombination regulator RecX; Reviewed
Probab=40.09 E-value=35 Score=32.22 Aligned_cols=99 Identities=16% Similarity=0.186 Sum_probs=51.2
Q ss_pred ccCCCChhhh--hhcccchhhHhhhccchhhhhhhcccCCCCCCCccccccccCCCCHHHHHHHHHHHHHHHhCCCCCCC
Q 007381 27 SDFENSEDER--RTRIGSLKKKALNASTKFKHSLKKKSSRRKSDGRVSSVSIEDVRDVEELQAVDAFRQSLIMDELLPER 104 (605)
Q Consensus 27 ~~~~~s~~~~--~~~~~~~~~~~~~~~~~~~~s~~k~~~~r~~~~~v~s~~ied~~d~eE~~~l~efRq~L~~~~~Lp~~ 104 (605)
.+...-+|++ ..-+.+. ...-....++++.|.+|| .+..+-.-.++++..+++..+...+..........+.
T Consensus 53 ~~~~~ldD~~~a~~~~~~~-~~~~~g~~~I~~~L~~kG----i~~~~I~~~l~~~~~d~~e~a~~~~~k~~~~~~~~~~- 126 (157)
T PRK00117 53 KEEGLLDDERFAESFVRSR-ARKGYGPRRIRQELRQKG----VDREIIEEALAELDIDWEELARELARKKFRRPLPDDA- 126 (157)
T ss_pred HHcCCCCHHHHHHHHHHHH-HhCCchHHHHHHHHHHcC----CCHHHHHHHHHHcCccHHHHHHHHHHHHcCCCCCCCH-
Confidence 3344566666 2223332 112234567889999888 3333333333443323333333333333321111110
Q ss_pred CCcHHHHHHHHHHcCCCHHHHHHHHHHH
Q 007381 105 HDDYHMMLRFLKARKFDIDKAKHMWAEM 132 (605)
Q Consensus 105 ~dD~~~LLRFLrArkfDvekA~~~l~~~ 132 (605)
..-.-+.+||..++|+.+.+...|...
T Consensus 127 -~~k~Ki~~~L~rkGF~~~~I~~~l~~~ 153 (157)
T PRK00117 127 -KEKAKLVRFLARRGFSMDVIQRVLRNA 153 (157)
T ss_pred -HHHHHHHHHHHHCCCCHHHHHHHHHhh
Confidence 112368999999999999888877665
No 24
>PF05377 FlaC_arch: Flagella accessory protein C (FlaC); InterPro: IPR008039 Although archaeal flagella appear superficially similar to those of bacteria, they are quite distinct []. In several archaea, the flagellin genes are followed immediately by the flagellar accessory genes flaCDEFGHIJ. The gene products may have a role in translocation, secretion, or assembly of the flagellum. FlaC is a protein whose exact role is unknown but it has been shown to be membrane-associated (by immuno-blotting fractionated cells) [].
Probab=39.67 E-value=89 Score=24.89 Aligned_cols=35 Identities=26% Similarity=0.444 Sum_probs=16.1
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q 007381 561 RVDALEAELIATKKALHEALMRQEDLLAYIDRQEE 595 (605)
Q Consensus 561 RvdaLE~eL~~TKKaL~~al~kQ~El~ayie~~k~ 595 (605)
||+.||.+|.+-+-.+...=.-.++|-+.||+.++
T Consensus 1 Ri~elEn~~~~~~~~i~tvk~en~~i~~~ve~i~e 35 (55)
T PF05377_consen 1 RIDELENELPRIESSINTVKKENEEISESVEKIEE 35 (55)
T ss_pred CHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 44555555554444433333333445555555443
No 25
>PF08317 Spc7: Spc7 kinetochore protein; InterPro: IPR013253 This entry consists of cell division proteins which are required for kinetochore-spindle association [].
Probab=37.25 E-value=1.9e+02 Score=30.98 Aligned_cols=75 Identities=31% Similarity=0.336 Sum_probs=47.7
Q ss_pred hHHHHHHHHHHHHHHHHHhcCCCCCCchhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHh
Q 007381 522 LLSSVTKRLSELEEKVDTLQAKPSEMPYEKEELLHAAVCRVDALEAELIATKKALHEALMRQEDLLAYIDRQEEA 596 (605)
Q Consensus 522 ~~~~~~~r~~~lEekv~~L~~KP~~mP~EKEe~L~aa~~RvdaLE~eL~~TKKaL~~al~kQ~El~ayie~~k~~ 596 (605)
.+-.+..|.+.|++.+..|...+.++=..--+-|+++=.++.+++.++.+-|+-|.+.=.+=.++-+-|+..+..
T Consensus 178 ~~~~l~~~~~~L~~e~~~Lk~~~~e~~~~D~~eL~~lr~eL~~~~~~i~~~k~~l~el~~el~~l~~~i~~~~~~ 252 (325)
T PF08317_consen 178 LLPKLRERKAELEEELENLKQLVEEIESCDQEELEALRQELAEQKEEIEAKKKELAELQEELEELEEKIEELEEQ 252 (325)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHhhhhhcCHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 355566778888999999988888765222244566666777777777766666655544445555555544433
No 26
>COG1340 Uncharacterized archaeal coiled-coil protein [Function unknown]
Probab=36.97 E-value=2.7e+02 Score=29.64 Aligned_cols=65 Identities=32% Similarity=0.385 Sum_probs=50.8
Q ss_pred HHHHHHHHHHHHHHHHHhcCCCCCCchhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHh
Q 007381 523 LSSVTKRLSELEEKVDTLQAKPSEMPYEKEELLHAAVCRVDALEAELIATKKALHEALMRQEDLLAYIDRQEEA 596 (605)
Q Consensus 523 ~~~~~~r~~~lEekv~~L~~KP~~mP~EKEe~L~aa~~RvdaLE~eL~~TKKaL~~al~kQ~El~ayie~~k~~ 596 (605)
+.+.=+.+.+||.+..+. ..|+++|.=| |.+|.-|+.+|+..+|++....--| ||.+=|+..+.+
T Consensus 109 ~~~ler~i~~Le~~~~T~-----~L~~e~E~~l---vq~I~~L~k~le~~~k~~e~~~~~~-el~aei~~lk~~ 173 (294)
T COG1340 109 IKSLEREIERLEKKQQTS-----VLTPEEEREL---VQKIKELRKELEDAKKALEENEKLK-ELKAEIDELKKK 173 (294)
T ss_pred HHHHHHHHHHHHHHHHhc-----CCChHHHHHH---HHHHHHHHHHHHHHHHHHHHHHHHH-HHHHHHHHHHHH
Confidence 466678899999998874 4688888766 6677779999999999999988775 556666666543
No 27
>PF10368 YkyA: Putative cell-wall binding lipoprotein; InterPro: IPR019454 The YkyA family of proteins contain a lipoprotein signal and a hydrolase domain. They are similar to cell wall binding proteins and might also be recognisable by a host immune defence system. It is thus likely that they function in pathways important for pathogenicity []. ; PDB: 2AP3_A.
Probab=36.72 E-value=1.5e+02 Score=29.73 Aligned_cols=78 Identities=29% Similarity=0.328 Sum_probs=55.1
Q ss_pred hhhHHHHHHHHHHHHHHHHHhcCCCCCCc----hhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q 007381 520 VDLLSSVTKRLSELEEKVDTLQAKPSEMP----YEKEELLHAAVCRVDALEAELIATKKALHEALMRQEDLLAYIDRQEE 595 (605)
Q Consensus 520 ~~~~~~~~~r~~~lEekv~~L~~KP~~mP----~EKEe~L~aa~~RvdaLE~eL~~TKKaL~~al~kQ~El~ayie~~k~ 595 (605)
+..+....+-|.+||++...|-.+=-+.. .+=......|+.-|+.=|..|.+-|++|..+--....+-.||++-+.
T Consensus 31 Ek~~~~~~k~L~~lE~~~q~lY~~ii~~~~~d~~~v~~~~~~a~~nv~~R~k~l~~Ek~ai~~a~~e~~~~~~~i~ki~d 110 (204)
T PF10368_consen 31 EKPFKEQQKKLNELEKKEQELYEQIIQLGKDDNDEVKKLSDEALKNVDEREKELKKEKEAIEKAKEEFKKAKKYIDKIED 110 (204)
T ss_dssp THHHHHHHHHHHHHHHHHHTTTTGG---G-SSHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHTT----------
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHhccCcchHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhcc
Confidence 34678889999999999999988852223 44567888999999999999999999999999999988899987764
Q ss_pred hh
Q 007381 596 AK 597 (605)
Q Consensus 596 ~k 597 (605)
.+
T Consensus 111 ~~ 112 (204)
T PF10368_consen 111 EK 112 (204)
T ss_dssp HH
T ss_pred hh
Confidence 43
No 28
>KOG3313 consensus Molecular chaperone Prefoldin, subunit 3 [Posttranslational modification, protein turnover, chaperones]
Probab=34.20 E-value=1.9e+02 Score=28.44 Aligned_cols=62 Identities=18% Similarity=0.279 Sum_probs=53.5
Q ss_pred HHHHHhcCCCCCCchhHHHHHHHHHHHHHHHHHHHHHHHHHHHH---HHHHHHHHHHHHHHHHHh
Q 007381 535 EKVDTLQAKPSEMPYEKEELLHAAVCRVDALEAELIATKKALHE---ALMRQEDLLAYIDRQEEA 596 (605)
Q Consensus 535 ekv~~L~~KP~~mP~EKEe~L~aa~~RvdaLE~eL~~TKKaL~~---al~kQ~El~ayie~~k~~ 596 (605)
|-|+...+||.--+.++..++++..---+-+|.-|.++++.|.+ .+.+=.||+.++.+++.+
T Consensus 22 edV~s~~~qp~~~~~~~l~~~~E~~~kYkfme~~l~a~~~~l~~kIPd~entLeiv~~l~~~~~~ 86 (187)
T KOG3313|consen 22 EDVESYISQPELESLEALKKLQERYGKYKFMEASLLAQKRRLKTKIPDIENTLEIVQTLIAKKDE 86 (187)
T ss_pred HHHHHHHcCcccccchHHHHHHHHHHHHHHHHHHHHHHHHHHHhhchHHHHHHHHHHHHHhCccc
Confidence 45778889999999999999999999999999999999999986 456777888888776543
No 29
>PF01496 V_ATPase_I: V-type ATPase 116kDa subunit family ; InterPro: IPR002490 ATPases (or ATP synthases) are membrane-bound enzyme complexes/ion transporters that combine ATP synthesis and/or hydrolysis with the transport of protons across a membrane. ATPases can harness the energy from a proton gradient, using the flux of ions across the membrane via the ATPase proton channel to drive the synthesis of ATP. Some ATPases work in reverse, using the energy from the hydrolysis of ATP to create a proton gradient. There are different types of ATPases, which can differ in function (ATP synthesis and/or hydrolysis), structure (e.g., F-, V- and A-ATPases, which contain rotary motors) and in the type of ions they transport [, ]. The different types include: F-ATPases (F1F0-ATPases), which are found in mitochondria, chloroplasts and bacterial plasma membranes where they are the prime producers of ATP, using the proton gradient generated by oxidative phosphorylation (mitochondria) or photosynthesis (chloroplasts). V-ATPases (V1V0-ATPases), which are primarily found in eukaryotic vacuoles and catalyse ATP hydrolysis to transport solutes and lower pH in organelles. A-ATPases (A1A0-ATPases), which are found in Archaea and function like F-ATPases (though with respect to their structure and some inhibitor responses, A-ATPases are more closely related to the V-ATPases). P-ATPases (E1E2-ATPases), which are found in bacteria and in eukaryotic plasma membranes and organelles, and function to transport a variety of different ions across membranes. E-ATPases, which are cell-surface enzymes that hydrolyse a range of NTPs, including extracellular ATP. The V-ATPases (or V1V0-ATPase) and A-ATPases (or A1A0-ATPase) are each composed of two linked complexes: the V1 or A1 complex contains the catalytic core that hydrolyses/synthesizes ATP, and the V0 or A0 complex that forms the membrane-spanning pore. The V- and A-ATPases both contain rotary motors, one that drives proton translocation across the membrane and one that drives ATP synthesis/hydrolysis [, , ]. The V- and A-ATPases more closely resemble one another in subunit structure than they do the F-ATPases, although the function of A-ATPases is closer to that of F-ATPases. This entry represents the 116kDa subunit (or subunit a) and subunit I found in the V0 or A0 complex of V- or A-ATPases, respectively. The 116kDa subunit is a transmembrane glycoprotein required for the assembly and proton transport activity of the ATPase complex. Several isoforms of the 116kDa subunit exist, providing a potential role in the differential targeting and regulation of the V-ATPase for specific organelles []. More information about this protein can be found at Protein of the Month: ATP Synthases [].; GO: 0015078 hydrogen ion transmembrane transporter activity, 0015991 ATP hydrolysis coupled proton transport, 0033177 proton-transporting two-sector ATPase complex, proton-transporting domain; PDB: 2RPW_X 2NVJ_A 2JTW_A 3RRK_A.
Probab=34.00 E-value=1.6e+02 Score=35.19 Aligned_cols=64 Identities=19% Similarity=0.311 Sum_probs=43.7
Q ss_pred HHHHHHHHHhcCCCCCCchh---HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH-HHHHHHHHHHH
Q 007381 531 SELEEKVDTLQAKPSEMPYE---KEELLHAAVCRVDALEAELIATKKALHEALMRQ-EDLLAYIDRQE 594 (605)
Q Consensus 531 ~~lEekv~~L~~KP~~mP~E---KEe~L~aa~~RvdaLE~eL~~TKKaL~~al~kQ-~El~ayie~~k 594 (605)
.++++-+..++-..-.+|.. -++++++--.|++.++.+++.|++.|.+.+.+- ++|.++-+..+
T Consensus 204 ~kv~~il~~~~f~~~~~p~~~~~p~e~~~~l~~~i~~l~~~~~~~~~~l~~~~~~~~~~l~~~~~~l~ 271 (759)
T PF01496_consen 204 EKVKKILRSFGFERYDLPEDEGTPEEAIKELEEEIEELEKELEELEEELKKLLEKYAEELEAWYEYLR 271 (759)
T ss_dssp HHHHHHHHTTT--B----GGGGG-HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
T ss_pred HHHHHHhhccCceecCCCCccccHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 46677778888888777764 468999999999999999999999999876653 45555544444
No 30
>PF12718 Tropomyosin_1: Tropomyosin like; InterPro: IPR000533 Tropomyosins [], are a family of closely related proteins present in muscle and non-muscle cells. In striated muscle, tropomyosin mediate the interactions between the troponin complex and actin so as to regulate muscle contraction []. The role of tropomyosin in smooth muscle and non-muscle tissues is not clear. Tropomyosin is an alpha-helical protein that forms a coiled-coil structure of 2 parallel helices containing 2 sets of 7 alternating actin binding sites []. There are multiple cell-specific isoforms, created by differential splicing of the messenger RNA from one gene, but the proportions of the isoforms vary between different cell types. Muscle isoforms of tropomyosin are characterised by having 284 amino acid residues and a highly conserved N-terminal region, whereas non-muscle forms are generally smaller and are heterogeneous in their N-terminal region. This entry represents tropomyosin (Tmp) 1, 2 and 3. Within the yeast Tmp1 and Tmp2, biochemical and sequence analyses indicate that Tpm2 spans four actin monomers along a filament, whereas Tpm1 spans five. Despite its shorter length, Tpm2 can compete with Tpm1 for binding to F-actin. Over-expression of Tpm2 in vivo alters the axial budding of haploids to a bipolar pattern, and this can be partially suppressed by co-over-expression of Tpm1. This suggests distinct functions for the two tropomyosins, and indicates that the ratio between them is important for correct morphogenesis [].
Probab=33.88 E-value=1.7e+02 Score=27.63 Aligned_cols=69 Identities=26% Similarity=0.288 Sum_probs=47.3
Q ss_pred hhhHHHHHHHHHHHHHHHHHhcCCCCCC---chhHHHHH---HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q 007381 520 VDLLSSVTKRLSELEEKVDTLQAKPSEM---PYEKEELL---HAAVCRVDALEAELIATKKALHEALMRQEDLLA 588 (605)
Q Consensus 520 ~~~~~~~~~r~~~lEekv~~L~~KP~~m---P~EKEe~L---~aa~~RvdaLE~eL~~TKKaL~~al~kQ~El~a 588 (605)
..++.++-++++.||.-|..+..+=.+. ..+.+... -+.-+||..||.||+.+-+.|-+|..|=.+.-.
T Consensus 34 E~EI~sL~~K~~~lE~eld~~~~~l~~~k~~lee~~~~~~~~E~l~rriq~LEeele~ae~~L~e~~ekl~e~d~ 108 (143)
T PF12718_consen 34 EQEITSLQKKNQQLEEELDKLEEQLKEAKEKLEESEKRKSNAEQLNRRIQLLEEELEEAEKKLKETTEKLREADV 108 (143)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhHHHHHHhHHHHHhhHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 3457788888888888777776553322 22333322 135578999999999999999999877665543
No 31
>PRK09039 hypothetical protein; Validated
Probab=33.80 E-value=3.5e+02 Score=29.31 Aligned_cols=19 Identities=16% Similarity=0.258 Sum_probs=12.6
Q ss_pred HHHHHHHHHHHHHHhhhhh
Q 007381 462 VMAFFMMFVTLFRSVAYRV 480 (605)
Q Consensus 462 ~~~~~~~~~~~~~~~~~~~ 480 (605)
|+.||+.||.+.-+|.+.-
T Consensus 29 ~~~f~l~~f~~~q~fLs~~ 47 (343)
T PRK09039 29 VIMFLLTVFVVAQFFLSRE 47 (343)
T ss_pred HHHHHHHHHHHHHHHHHHH
Confidence 4456777887777766553
No 32
>PF13080 DUF3926: Protein of unknown function (DUF3926)
Probab=33.45 E-value=37 Score=25.38 Aligned_cols=22 Identities=32% Similarity=0.456 Sum_probs=17.8
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHHHH
Q 007381 570 IATKKALHEALMRQEDLLAYIDRQE 594 (605)
Q Consensus 570 ~~TKKaL~~al~kQ~El~ayie~~k 594 (605)
+.+|++|. +-||||.+|...++
T Consensus 13 QsAkqmln---ILQEELssy~~E~~ 34 (44)
T PF13080_consen 13 QSAKQMLN---ILQEELSSYPQEQP 34 (44)
T ss_pred HHHHHHHH---HHHHHHHhchhhcc
Confidence 46788886 67999999997665
No 33
>PF10212 TTKRSYEDQ: Predicted coiled-coil domain-containing protein; InterPro: IPR019348 This entry represents a C-terminal 500 residue region, which contains a conserved TTKRSYEDQ motif. It is found in a family of coiled-coil domain-containing proteins that are conserved from nematodes to humans. These proteins also contain an N-terminal domain with a KLRAQ motif (IPR019343 from INTERPRO). The function of these proteins is not known.
Probab=32.68 E-value=2.4e+02 Score=32.31 Aligned_cols=35 Identities=31% Similarity=0.430 Sum_probs=27.6
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHHH--------------HHHHHHHHHHH
Q 007381 552 EELLHAAVCRVDALEAELIATKKA--------------LHEALMRQEDL 586 (605)
Q Consensus 552 Ee~L~aa~~RvdaLE~eL~~TKKa--------------L~~al~kQ~El 586 (605)
++=|+.+-.+|..||.||..|++- |.+.|++|.|=
T Consensus 461 ~eeL~~a~~~i~~LqDEL~TTr~NYE~QLs~MSEHLasmNeqL~~Q~ee 509 (518)
T PF10212_consen 461 EEELKEANQNISRLQDELETTRRNYEEQLSMMSEHLASMNEQLAKQREE 509 (518)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHhhHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 355889999999999999999984 55666666553
No 34
>KOG0249 consensus LAR-interacting protein and related proteins [General function prediction only]
Probab=32.26 E-value=2.7e+02 Score=33.11 Aligned_cols=75 Identities=24% Similarity=0.241 Sum_probs=44.1
Q ss_pred hhhhHHHHHHHHHHHHHHHHHhcCCCCCCchhHHHH----HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q 007381 519 EVDLLSSVTKRLSELEEKVDTLQAKPSEMPYEKEEL----LHAAVCRVDALEAELIATKKALHEALMRQEDLLAYIDRQ 593 (605)
Q Consensus 519 ~~~~~~~~~~r~~~lEekv~~L~~KP~~mP~EKEe~----L~aa~~RvdaLE~eL~~TKKaL~~al~kQ~El~ayie~~ 593 (605)
+.+...+=++|.-.+|++=.+=+-.=+.--.|.+++ +++|+.++..|++||+.+||-|.++.---+-|...+|++
T Consensus 171 ~~qe~naeL~rarqreemneeh~~rlsdtvdErlqlhlkermaAle~kn~L~~e~~s~kk~l~~~~~~k~rl~~d~E~L 249 (916)
T KOG0249|consen 171 QLEELNAELQRARQREKMNEEHNKRLSDTVDERLQLHLKERMAALEDKNRLEQELESVKKQLEEMRHDKDKLRTDIEDL 249 (916)
T ss_pred HHHHHHHHHHHHHHHHHhhhhhccccccccHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhhHHHH
Confidence 344455556666555554332111111111133322 579999999999999999999988765545555555443
No 35
>PF11221 Med21: Subunit 21 of Mediator complex; InterPro: IPR021384 The Mediator complex is a coactivator involved in the regulated transcription of nearly all RNA polymerase II-dependent genes. Mediator functions as a bridge to convey information from gene-specific regulatory proteins to the basal RNA polymerase II transcription machinery. The Mediator complex, having a compact conformation in its free form, is recruited to promoters by direct interactions with regulatory proteins and serves for the assembly of a functional preinitiation complex with RNA polymerase II and the general transcription factors. On recruitment the Mediator complex unfolds to an extended conformation and partially surrounds RNA polymerase II, specifically interacting with the unphosphorylated form of the C-terminal domain (CTD) of RNA polymerase II. The Mediator complex dissociates from the RNA polymerase II holoenzyme and stays at the promoter when transcriptional elongation begins. The Mediator complex is composed of at least 31 subunits: MED1, MED4, MED6, MED7, MED8, MED9, MED10, MED11, MED12, MED13, MED13L, MED14, MED15, MED16, MED17, MED18, MED19, MED20, MED21, MED22, MED23, MED24, MED25, MED26, MED27, MED29, MED30, MED31, CCNC, CDK8 and CDC2L6/CDK11. The subunits form at least three structurally distinct submodules. The head and the middle modules interact directly with RNA polymerase II, whereas the elongated tail module interacts with gene-specific regulatory proteins. Mediator containing the CDK8 module is less active than Mediator lacking this module in supporting transcriptional activation. The head module contains: MED6, MED8, MED11, SRB4/MED17, SRB5/MED18, ROX3/MED19, SRB2/MED20 and SRB6/MED22. The middle module contains: MED1, MED4, NUT1/MED5, MED7, CSE2/MED9, NUT2/MED10, SRB7/MED21 and SOH1/MED31. CSE2/MED9 interacts directly with MED4. The tail module contains: MED2, PGD1/MED3, RGR1/MED14, GAL11/MED15 and SIN4/MED16. The CDK8 module contains: MED12, MED13, CCNC and CDK8. Individual preparations of the Mediator complex lacking one or more distinct subunits have been variously termed ARC, CRSP, DRIP, PC2, SMCC and TRAP. Med21 has been known as Srb7 in yeasts, hSrb7 in humans and Trap 19 in Drosophila. The heterodimer of the two subunits Med7 and Med21 appears to act as a hinge between the middle and the tail regions of Mediator []. ; PDB: 1YKE_B 1YKH_B.
Probab=31.68 E-value=4e+02 Score=25.02 Aligned_cols=61 Identities=25% Similarity=0.388 Sum_probs=43.7
Q ss_pred HHHHHHHHHHHHHHhcCCCCCCchhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q 007381 526 VTKRLSELEEKVDTLQAKPSEMPYEKEELLHAAVCRVDALEAELIATKKALHEALMRQEDLLAYIDRQE 594 (605)
Q Consensus 526 ~~~r~~~lEekv~~L~~KP~~mP~EKEe~L~aa~~RvdaLE~eL~~TKKaL~~al~kQ~El~ayie~~k 594 (605)
++..-..+|.-++.| |.+..--|+- ..||+.||.|+...-+-|.+++.+=++|++-|+..-
T Consensus 78 Ii~kakqIe~LIdsL----Pg~~~see~Q----~~~i~~L~~E~~~~~~el~~~v~e~e~ll~~v~~~i 138 (144)
T PF11221_consen 78 IIRKAKQIEYLIDSL----PGIEVSEEEQ----LKRIKELEEENEEAEEELQEAVKEAEELLKQVQELI 138 (144)
T ss_dssp HHHHHHHHHHHHHHS----TTSSS-HHHH----HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
T ss_pred HHHHHHHHHHHHHhC----CCCCCCHHHH----HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 344444555555555 4444333332 289999999999999999999999999999887653
No 36
>PF14712 Snapin_Pallidin: Snapin/Pallidin
Probab=30.04 E-value=1.3e+02 Score=25.75 Aligned_cols=31 Identities=39% Similarity=0.447 Sum_probs=20.2
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q 007381 564 ALEAELIATKKALHEALMRQEDLLAYIDRQE 594 (605)
Q Consensus 564 aLE~eL~~TKKaL~~al~kQ~El~ayie~~k 594 (605)
.++-.|...+..|.++...|.+|.+.|++..
T Consensus 11 ~l~P~l~~~~~~l~el~~sQ~~L~~~i~~~~ 41 (92)
T PF14712_consen 11 LLEPDLDRLDQQLQELRQSQEELLQQIDRLN 41 (92)
T ss_pred HHhhhHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 4556666666666667777777766666654
No 37
>PHA00687 hypothetical protein
Probab=29.68 E-value=1.2e+02 Score=23.18 Aligned_cols=30 Identities=33% Similarity=0.471 Sum_probs=21.9
Q ss_pred CCCchhHHHHHHHH----------HHHHHHHHHHHHHHHH
Q 007381 545 SEMPYEKEELLHAA----------VCRVDALEAELIATKK 574 (605)
Q Consensus 545 ~~mP~EKEe~L~aa----------~~RvdaLE~eL~~TKK 574 (605)
...|+|--.+|+.| +.||++||.--+..|+
T Consensus 9 ttlppeamrllqqaaqtpitradplarvkaiekatervkr 48 (56)
T PHA00687 9 TTLPPEAMRLLQQAAQTPITRADPLARVKAIEKATERVKR 48 (56)
T ss_pred ccCCHHHHHHHHHHhcCCccccChHHHHHHHHHHHHHHHH
Confidence 34788888888766 6789998876665554
No 38
>PF04740 LXG: LXG domain of WXG superfamily; InterPro: IPR006829 This group of putative transposases is found in Gram-positive bacteria, mostly Bacillus members and is thought to be a Cytosolic protein. However, we have also found a Bacillus subtilis bacteriophage SPbetac2 homologue (O64023 from SWISSPROT), possibly arising as a result of horizontal transfer. More information about these proteins can be found at Protein of the Month: Transposase [].
Probab=28.95 E-value=2.4e+02 Score=27.54 Aligned_cols=114 Identities=18% Similarity=0.279 Sum_probs=68.5
Q ss_pred CCcchhhHHHHHHHHHHHHHHHHHHHhhhhhcccCCCCCCCCCCcccccccccccccccCCCCCCCCcchhhhHH-HHHH
Q 007381 450 TPEGIRARIWAAVMAFFMMFVTLFRSVAYRVTHRIPETSTGHDLNISEVAVDANEKEEFRPPSPSPSLTEVDLLS-SVTK 528 (605)
Q Consensus 450 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~-~~~~ 528 (605)
+...+..++-...+-++.++..++..+...+ +.+..-... .+ +..-+.+..+.+. .+-+
T Consensus 47 a~dsiK~y~~~vh~pll~~~~~~~~~~~~~l-~~~~~~~~~---------vd----------~~~~a~i~e~~L~~el~~ 106 (204)
T PF04740_consen 47 AYDSIKNYFSEVHIPLLQGLILLLEEYQEAL-KFIKDFQSE---------VD----------SSSNAIIDEDFLESELKK 106 (204)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH-HhHHHHHHH---------Hc----------ccccccccHHHHHHHHHH
Confidence 4445667777778888888888888776665 332221111 01 1112357777777 6678
Q ss_pred HHHHHHHHHHHhcCCCCCCchhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q 007381 529 RLSELEEKVDTLQAKPSEMPYEKEELLHAAVCRVDALEAELIATKKALHEALMRQ 583 (605)
Q Consensus 529 r~~~lEekv~~L~~KP~~mP~EKEe~L~aa~~RvdaLE~eL~~TKKaL~~al~kQ 583 (605)
.|.++++.+..+...-..+-.+=.+++.-..-..+.+...+...|+-|.+++.|=
T Consensus 107 ~l~~~~~~~~~~~~~~~~~~~~vsdiv~~~~~~~~~~~~~~~~~~~~l~~~lekL 161 (204)
T PF04740_consen 107 KLNQLKEQIEDLQDEINSILSSVSDIVSLPKPSSSSFIDSLEKAKKKLQETLEKL 161 (204)
T ss_pred HHHHHHHHHHHHHHHHhhhccchHHHHhhccchHHHHHHHHHHHHHHHHHHHHHH
Confidence 8888888888877665545444445533333334566666677777777666653
No 39
>PF13234 rRNA_proc-arch: rRNA-processing arch domain; PDB: 4A4K_E 4A4Z_A 2XGJ_B 3L9O_A.
Probab=28.74 E-value=2e+02 Score=29.65 Aligned_cols=70 Identities=19% Similarity=0.161 Sum_probs=39.6
Q ss_pred HHHHHHHHHHHHHHHHHhcCCCCCCchhH-----HHHHHHHHHHHHHHHHHHHHHH-------HHHHHHHHHHHHHHHHH
Q 007381 523 LSSVTKRLSELEEKVDTLQAKPSEMPYEK-----EELLHAAVCRVDALEAELIATK-------KALHEALMRQEDLLAYI 590 (605)
Q Consensus 523 ~~~~~~r~~~lEekv~~L~~KP~~mP~EK-----Ee~L~aa~~RvdaLE~eL~~TK-------KaL~~al~kQ~El~ayi 590 (605)
-..|++.|+||... ....++.+-|.| ..=+.+.+.|+..||..|..-. ..+++...+..+|.+-|
T Consensus 182 r~~~~~~l~el~~r---~~~giP~LDPi~DmkI~d~~~~e~~~k~~~Le~rl~~~~~~~~~~~~~~~~~~~~k~~l~~~i 258 (268)
T PF13234_consen 182 RKQVLKSLQELLKR---FPDGIPLLDPIKDMKIKDPEFVELVKKIEALEKRLSSHPLHKCPDFEEHYALYHEKAELQEEI 258 (268)
T ss_dssp HHHHHHHHHHHHHH---SSS--TCHHCHHHH----HHHHHHHHHHHHHHHHHHHSCHCCSSSHHHHHHHHHHHHHHHHHH
T ss_pred HHHHHHHHHHHHHh---CCCCCCccChHHhCCCCcHHHHHHHHHHHHHHHHHHhCCCCCCcCHHHHHHHHHHHHHHHHHH
Confidence 45566666666655 233455555533 3445566677777776665544 45666666666666666
Q ss_pred HHHHH
Q 007381 591 DRQEE 595 (605)
Q Consensus 591 e~~k~ 595 (605)
+..|+
T Consensus 259 ~~Lk~ 263 (268)
T PF13234_consen 259 KALKR 263 (268)
T ss_dssp HHHHH
T ss_pred HHHHH
Confidence 66553
No 40
>PF11802 CENP-K: Centromere-associated protein K; InterPro: IPR020993 Cenp-K is one of seven new Cenp-A-nucleosome distal (CAD) centromere components (the others being Cenp-L, Cenp-O, Cenp-P, Cenp-Q, Cenp-R and Cenp-S) that are identified as assembling on the Cenp-A nucleosome associated complex, NAC []. The Cenp-A NAC is essential, as disruption of the complex causes errors of chromosome alignment and segregation that preclude cell survival despite continued centromere-derived mitotic checkpoint signalling. Cenp-K is centromere-associated through its interaction with one or more components of the Cenp-A NAC.; GO: 0005634 nucleus
Probab=28.43 E-value=3.8e+02 Score=28.13 Aligned_cols=38 Identities=21% Similarity=0.219 Sum_probs=32.7
Q ss_pred hhHHHHHHHHHHHHHHHHHhcCCCCCCchhHHHHHHHH
Q 007381 521 DLLSSVTKRLSELEEKVDTLQAKPSEMPYEKEELLHAA 558 (605)
Q Consensus 521 ~~~~~~~~r~~~lEekv~~L~~KP~~mP~EKEe~L~aa 558 (605)
..++-.|-|+..|+..++..+.+-+++.+.++++|-+.
T Consensus 52 ~ql~ll~~~~k~L~aE~~qwqk~~peii~~n~~VL~~l 89 (268)
T PF11802_consen 52 AQLSLLMMRVKCLTAELEQWQKRTPEIIPLNPEVLLTL 89 (268)
T ss_pred hhHHHHHHHHHHHHHHHHHHHhcCCCcCCCCHHHHHHH
Confidence 35677789999999999999999999999988887644
No 41
>PF05276 SH3BP5: SH3 domain-binding protein 5 (SH3BP5); InterPro: IPR007940 The SH3 domain-binding protein inhibits the auto and transphophorylation of BTK and acts as a negative regulator of BTK-related signalling in B cells.
Probab=28.16 E-value=4.3e+02 Score=27.24 Aligned_cols=53 Identities=13% Similarity=0.081 Sum_probs=40.2
Q ss_pred HHHHHHHHHHHHhcCCCCCCchhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q 007381 528 KRLSELEEKVDTLQAKPSEMPYEKEELLHAAVCRVDALEAELIATKKALHEALMR 582 (605)
Q Consensus 528 ~r~~~lEekv~~L~~KP~~mP~EKEe~L~aa~~RvdaLE~eL~~TKKaL~~al~k 582 (605)
..+.-+|..+..-+. ..+=+..-||||.|..||..-|++-......-......
T Consensus 98 e~v~laEq~l~~~~~--~~~D~~wqEmLn~A~~kVneAE~ek~~ae~eH~~~~~~ 150 (239)
T PF05276_consen 98 EMVALAEQSLMSDSN--WTFDPAWQEMLNHATQKVNEAEQEKTRAEREHQRRARI 150 (239)
T ss_pred HHHHHHHHHHhcCCc--ccccHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 466778887776444 56889999999999999998888887777665544333
No 42
>PRK14136 recX recombination regulator RecX; Provisional
Probab=27.73 E-value=76 Score=33.87 Aligned_cols=25 Identities=24% Similarity=0.202 Sum_probs=20.6
Q ss_pred HHHHHHHHHHcCCCHHHHHHHHHHH
Q 007381 108 YHMMLRFLKARKFDIDKAKHMWAEM 132 (605)
Q Consensus 108 ~~~LLRFLrArkfDvekA~~~l~~~ 132 (605)
..-+.|||..++|+.+...+.|..+
T Consensus 278 k~K~iRfL~rRGFS~D~I~~vLk~~ 302 (309)
T PRK14136 278 RAKQARFLAARGFSSATIVKLLKVG 302 (309)
T ss_pred HHHHHHHHHHCCCCHHHHHHHHHhc
Confidence 3568999999999999888877643
No 43
>PF10158 LOH1CR12: Tumour suppressor protein; InterPro: IPR018780 This entry represents a region of 130 amino acids that is the most conserved part of some hypothetical proteins involved in loss of heterozygosity, and thus, tumour suppression []. The exact function of these proteins is not known.
Probab=27.49 E-value=2.1e+02 Score=26.72 Aligned_cols=63 Identities=16% Similarity=0.252 Sum_probs=48.0
Q ss_pred HHHHHHHHHHHHHHHHhcCCCCCCchhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q 007381 524 SSVTKRLSELEEKVDTLQAKPSEMPYEKEELLHAAVCRVDALEAELIATKKALHEALMRQEDLL 587 (605)
Q Consensus 524 ~~~~~r~~~lEekv~~L~~KP~~mP~EKEe~L~aa~~RvdaLE~eL~~TKKaL~~al~kQ~El~ 587 (605)
....+|+.+.|..+..|...-. -=..+=.-..+.+.+|+.|-..|.++...|++++.-=+.|-
T Consensus 52 ~~L~~riKevd~~~~~l~~~~~-erqk~~~k~ae~L~kv~els~~L~~~~~lL~~~v~~ie~LN 114 (131)
T PF10158_consen 52 NALAKRIKEVDQEIAKLLQQMV-ERQKRFAKFAEQLEKVNELSQQLSRCQSLLNQTVPSIETLN 114 (131)
T ss_pred HHHHHHHHHHHHHHHHHHHHHH-HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 6778999999999988876633 11344455678899999999999999999998875444333
No 44
>PF03961 DUF342: Protein of unknown function (DUF342); InterPro: IPR005646 This family of bacterial proteins has no known function. The proteins are in the region of 500-600 amino acid residues in length.
Probab=26.73 E-value=3e+02 Score=30.75 Aligned_cols=55 Identities=27% Similarity=0.393 Sum_probs=38.3
Q ss_pred hHHHHHHHHHHHHHHHHHhcC--CCCCCchhHHHHHHHHHHHHHHHHHHHHHHHHHH
Q 007381 522 LLSSVTKRLSELEEKVDTLQA--KPSEMPYEKEELLHAAVCRVDALEAELIATKKAL 576 (605)
Q Consensus 522 ~~~~~~~r~~~lEekv~~L~~--KP~~mP~EKEe~L~aa~~RvdaLE~eL~~TKKaL 576 (605)
++..+-++|.+|+..+..|.. +...+|+++.++++........|.++|.+.+.-|
T Consensus 342 ~~~~~~~~l~~l~~~l~~l~~~~~~~~~~~~~~~~~~~l~~~~~~l~~~~~~l~~~~ 398 (451)
T PF03961_consen 342 ELEELKEELEKLKKNLKKLKKLKKQGKLPPEKKEQLKKLKEKKKELKEELKELKEEL 398 (451)
T ss_pred HHHHHHHHHHHHHHHHHhhhhhcccccCCHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 455566666777777766665 4567889999888887777777777666555444
No 45
>PRK10884 SH3 domain-containing protein; Provisional
Probab=26.46 E-value=4.9e+02 Score=26.16 Aligned_cols=71 Identities=20% Similarity=0.237 Sum_probs=38.5
Q ss_pred HHHHHHHHHHHHHhcCCCCCC-------chhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhh
Q 007381 527 TKRLSELEEKVDTLQAKPSEM-------PYEKEELLHAAVCRVDALEAELIATKKALHEALMRQEDLLAYIDRQEEAK 597 (605)
Q Consensus 527 ~~r~~~lEekv~~L~~KP~~m-------P~EKEe~L~aa~~RvdaLE~eL~~TKKaL~~al~kQ~El~ayie~~k~~k 597 (605)
-.||.+||..+..|..|-.++ =.|..+-|.++=.-|..|+.|...-++-|..+-.+-++|-+-++.+++..
T Consensus 92 ~~rlp~le~el~~l~~~l~~~~~~~~~~~~~l~~~~~~~~~~~~~L~~~n~~L~~~l~~~~~~~~~l~~~~~~~~~~~ 169 (206)
T PRK10884 92 RTRVPDLENQVKTLTDKLNNIDNTWNQRTAEMQQKVAQSDSVINGLKEENQKLKNQLIVAQKKVDAANLQLDDKQRTI 169 (206)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 344455555554444333332 22334444455555666666666666666666555555666666666543
No 46
>PF01102 Glycophorin_A: Glycophorin A; InterPro: IPR001195 Proteins in this group are responsible for the molecular basis of the blood group antigens, surface markers on the outside of the red blood cell membrane. Most of these markers are proteins, but some are carbohydrates attached to lipids or proteins [Reid M.E., Lomas-Francis C. The Blood Group Antigen FactsBook Academic Press, London / San Diego, (1997)]. Glycophorin A (PAS-2) and glycophorin B (PAS-3) belong to the MNS blood group system and are associated with antigens that include M/N, S/s, U, He, Mi(a), M(c), Vw, Mur, M(g), Vr, M(e), Mt(a), St(a), Ri(a), Cl(a), Ny(a), Hut, Hil, M(v), Far, Mit, Dantu, Hop, Nob, En(a), ENKT, amongst others. Glycophorin A is the major sialoglycoprotein of the erythrocyte membrane []. Structurally, glycophorin A consists of an N-terminal extracellular domain, heavily glycosylated on serine and threonine residues, followed by a transmembrane region and a C-terminal cytoplasmic domain. Other glycophorins in this entry such as Glycophorin B and Glycophorin E represent minor sialoglycoproteins in the erythrocyte membrane.; GO: 0016021 integral to membrane; PDB: 2KPF_B 1AFO_B 2KPE_A.
Probab=26.42 E-value=86 Score=28.98 Aligned_cols=33 Identities=21% Similarity=0.126 Sum_probs=24.2
Q ss_pred cchhhHHHHHHHHHHHHHHHHHHHhhhhhcccC
Q 007381 452 EGIRARIWAAVMAFFMMFVTLFRSVAYRVTHRI 484 (605)
Q Consensus 452 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 484 (605)
.+...-|+.|+||-|+++..++-++.+|+.|+.
T Consensus 63 ~~~i~~Ii~gv~aGvIg~Illi~y~irR~~Kk~ 95 (122)
T PF01102_consen 63 EPAIIGIIFGVMAGVIGIILLISYCIRRLRKKS 95 (122)
T ss_dssp -TCHHHHHHHHHHHHHHHHHHHHHHHHHHS---
T ss_pred ccceeehhHHHHHHHHHHHHHHHHHHHHHhccC
Confidence 345688999999999998888888887777664
No 47
>TIGR02132 phaR_Bmeg polyhydroxyalkanoic acid synthase, PhaR subunit. This model describes a protein, PhaR, localized to polyhydroxyalkanoic acid (PHA) inclusion granules in Bacillus cereus and related species. PhaR is required for PHA biosynthesis along with PhaC and may be a regulatory subunit.
Probab=26.39 E-value=2e+02 Score=28.28 Aligned_cols=12 Identities=25% Similarity=0.484 Sum_probs=5.6
Q ss_pred HHHHHHHHHHHH
Q 007381 571 ATKKALHEALMR 582 (605)
Q Consensus 571 ~TKKaL~~al~k 582 (605)
+|.--|.+|.-|
T Consensus 142 ~~~~~~~~~~~~ 153 (189)
T TIGR02132 142 KTQDELKETIQK 153 (189)
T ss_pred cchhHHHHHHHH
Confidence 444445555443
No 48
>PLN03214 probable enoyl-CoA hydratase/isomerase; Provisional
Probab=26.21 E-value=2.1e+02 Score=29.82 Aligned_cols=21 Identities=14% Similarity=0.052 Sum_probs=16.9
Q ss_pred HHHHHHHHHHHHHHHHHhhhh
Q 007381 579 ALMRQEDLLAYIDRQEEAKFR 599 (605)
Q Consensus 579 al~kQ~El~ayie~~k~~k~~ 599 (605)
+=.-|+-+.+++||+++||-+
T Consensus 250 s~d~~egi~aflek~~~~~~~ 270 (278)
T PLN03214 250 EPSIIKALGGVMERLSSGKEK 270 (278)
T ss_pred CHHHHHHHHHHHHHHhhcccc
Confidence 335588899999999988854
No 49
>PHA02562 46 endonuclease subunit; Provisional
Probab=25.18 E-value=2e+02 Score=32.62 Aligned_cols=74 Identities=16% Similarity=0.284 Sum_probs=54.8
Q ss_pred hhhHHHHHHHHHHHHHHHHHhcCCCCCCchhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q 007381 520 VDLLSSVTKRLSELEEKVDTLQAKPSEMPYEKEELLHAAVCRVDALEAELIATKKALHEALMRQEDLLAYIDRQE 594 (605)
Q Consensus 520 ~~~~~~~~~r~~~lEekv~~L~~KP~~mP~EKEe~L~aa~~RvdaLE~eL~~TKKaL~~al~kQ~El~ayie~~k 594 (605)
.+.++.+...+.+|++++..|..+=.+.=...++ ++....|+..++.++...+..|++...+..+|-+=|++.+
T Consensus 298 ~~~~~~l~d~i~~l~~~l~~l~~~i~~~~~~~~~-~~~~~~~i~el~~~i~~~~~~i~~~~~~~~~l~~ei~~l~ 371 (562)
T PHA02562 298 PDRITKIKDKLKELQHSLEKLDTAIDELEEIMDE-FNEQSKKLLELKNKISTNKQSLITLVDKAKKVKAAIEELQ 371 (562)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH-HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 4567777788888888888887775544344444 7778899999999999999998887777666666665554
No 50
>PF15175 SPATA24: Spermatogenesis-associated protein 24
Probab=24.95 E-value=1.9e+02 Score=27.65 Aligned_cols=58 Identities=28% Similarity=0.353 Sum_probs=46.1
Q ss_pred hhhHHHHHHHHHHHHHHHHHhcCCCCCCchhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q 007381 520 VDLLSSVTKRLSELEEKVDTLQAKPSEMPYEKEELLHAAVCRVDALEAELIATKKALHEALM 581 (605)
Q Consensus 520 ~~~~~~~~~r~~~lEekv~~L~~KP~~mP~EKEe~L~aa~~RvdaLE~eL~~TKKaL~~al~ 581 (605)
..+|..+.+-|. ||+..+.-+|- +-.-=+|-|+=|+--|+-|=.+|++-|+|.+.|+.
T Consensus 2 keE~~~~~~~l~--~Ek~eHaKTK~--lLake~EKLqfAlgeieiL~kQl~rek~afe~a~~ 59 (153)
T PF15175_consen 2 KEEFEAVEKKLE--EEKAEHAKTKA--LLAKESEKLQFALGEIEILSKQLEREKLAFEKALG 59 (153)
T ss_pred HHHHHHHHHHHH--HHHHHHHHHHH--HHHhhHHHHHHHHhHHHHHHHHHHHHHHHHHHHHH
Confidence 357788888887 78888877762 23333578999999999999999999999988864
No 51
>PF04880 NUDE_C: NUDE protein, C-terminal conserved region; InterPro: IPR006964 This domain represents the C-terminal conserved region of NUDE proteins. Emericella nidulans (Aspergillus nidulans) NUDE, acts in the cytoplasmic dynein/dynactin pathway and is required for distribution of nuclei []. It is a homologue of the nuclear distribution protein RO11 of Neurospora crassa. NUDE interacts with the NUDF via an N-terminal coiled coil domain; this is the only domain which is absolutely required for NUDE function.; PDB: 2V66_B 2V71_B.
Probab=24.85 E-value=92 Score=30.32 Aligned_cols=32 Identities=38% Similarity=0.417 Sum_probs=26.1
Q ss_pred hHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q 007381 550 EKEELLHAAVCRVDALEAELIATKKALHEALMR 582 (605)
Q Consensus 550 EKEe~L~aa~~RvdaLE~eL~~TKKaL~~al~k 582 (605)
|=|..||.|+.|-=-||.||+. |-.|.+.+-|
T Consensus 4 D~EsklN~AIERnalLE~ELdE-KE~L~~~~QR 35 (166)
T PF04880_consen 4 DFESKLNQAIERNALLESELDE-KENLREEVQR 35 (166)
T ss_dssp HHHHHHHHHHHHHHHHHHHHHH-HHHHHHCH--
T ss_pred HHHHHHHHHHHHhHHHHHHHHH-HHHHHHHHHH
Confidence 4578899999999999999977 8888877755
No 52
>PF05276 SH3BP5: SH3 domain-binding protein 5 (SH3BP5); InterPro: IPR007940 The SH3 domain-binding protein inhibits the auto and transphophorylation of BTK and acts as a negative regulator of BTK-related signalling in B cells.
Probab=24.55 E-value=3.9e+02 Score=27.54 Aligned_cols=74 Identities=24% Similarity=0.311 Sum_probs=56.9
Q ss_pred HHHHHHHHHHHHHHHHHhc---------CCC-CCCchhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q 007381 523 LSSVTKRLSELEEKVDTLQ---------AKP-SEMPYEKEELLHAAVCRVDALEAELIATKKALHEALMRQEDLLAYIDR 592 (605)
Q Consensus 523 ~~~~~~r~~~lEekv~~L~---------~KP-~~mP~EKEe~L~aa~~RvdaLE~eL~~TKKaL~~al~kQ~El~ayie~ 592 (605)
...++.+...+|.+|..|. +|| -+|=..=+++|++.-.||..||+++..+|.--.+||-.-++|.+-|=.
T Consensus 144 H~~~~~~~~~ae~~v~~Lek~lkr~I~KSrPYfe~K~~~~~~l~~~k~~v~~Le~~v~~aK~~Y~~ALrnLE~ISeeIH~ 223 (239)
T PF05276_consen 144 HQRRARIYNEAEQRVQQLEKKLKRAIKKSRPYFELKAKFNQQLEEQKEKVEELEAKVKQAKSRYSEALRNLEQISEEIHE 223 (239)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHhhhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 4455666666676666665 333 134455688999999999999999999999999999999999999866
Q ss_pred HHHh
Q 007381 593 QEEA 596 (605)
Q Consensus 593 ~k~~ 596 (605)
+...
T Consensus 224 ~R~~ 227 (239)
T PF05276_consen 224 QRRR 227 (239)
T ss_pred HHhh
Confidence 5544
No 53
>PRK06569 F0F1 ATP synthase subunit B'; Validated
Probab=24.44 E-value=99 Score=29.76 Aligned_cols=96 Identities=16% Similarity=0.255 Sum_probs=52.5
Q ss_pred hhhHHHHHHHHHHHHHHHHHHHhhhhhcccCCCCCCCCCCcccccccccccccccCCCCCCCCcchhhh-HHHHHHHHHH
Q 007381 454 IRARIWAAVMAFFMMFVTLFRSVAYRVTHRIPETSTGHDLNISEVAVDANEKEEFRPPSPSPSLTEVDL-LSSVTKRLSE 532 (605)
Q Consensus 454 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~-~~~~~~r~~~ 532 (605)
...+++..+++|++-++-+-+.+..++++-+..+..... +. +.+++. -...-+-.++
T Consensus 9 ~~sqifw~iI~FlILy~ll~kf~~ppI~~iLe~R~~~I~--------~~--------------L~~Ae~~k~eAe~l~a~ 66 (155)
T PRK06569 9 YYSQIFWLIVTFGLLYIFVYKFITPKAEEIFNNRQTNIQ--------DN--------------ITQADTLTIEVEKLNKY 66 (155)
T ss_pred hhHHHHHHHHHHHHHHHHHHHHhHHHHHHHHHHHHHHHH--------hH--------------HHHHHHHHHHHHHHHHH
Confidence 457888888888888887888777777655543321100 00 001111 1111223344
Q ss_pred HHHHHHHhcCCCCCCchh-HHHHHHHHHHHHHHHHHHHHH
Q 007381 533 LEEKVDTLQAKPSEMPYE-KEELLHAAVCRVDALEAELIA 571 (605)
Q Consensus 533 lEekv~~L~~KP~~mP~E-KEe~L~aa~~RvdaLE~eL~~ 571 (605)
.|+.+..-..+-.+|=.| .+++-.+|..+.+++|++|..
T Consensus 67 ye~~L~~Ar~eA~~I~~e~~~~~~a~~~~~~~~~ea~L~~ 106 (155)
T PRK06569 67 YNEEIDKTNTEIDRLKKEKIDSLESEFLIKKKNLEQDLKN 106 (155)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 555555555555556566 556666666666666666643
No 54
>PF05529 Bap31: B-cell receptor-associated protein 31-like ; InterPro: IPR008417 Bap31 is a polytopic integral protein of the endoplasmic reticulum membrane and a substrate of caspase-8. Bap31 is cleaved within its cytosolic domain, generating pro-apoptotic p20 Bap31 [].; GO: 0006886 intracellular protein transport, 0005783 endoplasmic reticulum, 0016021 integral to membrane
Probab=24.18 E-value=2.2e+02 Score=27.77 Aligned_cols=62 Identities=31% Similarity=0.418 Sum_probs=35.4
Q ss_pred hHHHHHHHHHHHHHHHHHhcCCCCCCchhHHHHH----HHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q 007381 522 LLSSVTKRLSELEEKVDTLQAKPSEMPYEKEELL----HAAVCRVDALEAELIATKKALHEALMRQE 584 (605)
Q Consensus 522 ~~~~~~~r~~~lEekv~~L~~KP~~mP~EKEe~L----~aa~~RvdaLE~eL~~TKKaL~~al~kQ~ 584 (605)
.+..++++|..+|+++..+..+...--..+++.+ ...-.-|+.|+.||.++++-+ ++|-+|-
T Consensus 119 r~~~li~~l~~~~~~~~~~~kq~~~~~~~~~~~~~~~~~~~~~ei~~lk~el~~~~~~~-~~LkkQ~ 184 (192)
T PF05529_consen 119 RVHSLIKELIKLEEKLEALKKQAESASEAAEKLLKEENKKLSEEIEKLKKELEKKEKEI-EALKKQS 184 (192)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHhhhhhhhhhhhhhhhhhHHHHHHHHHHHHHHHHHH-HHHHHHH
Confidence 4567889999999999998887654444444332 222233445555555433222 2444443
No 55
>PF15294 Leu_zip: Leucine zipper
Probab=24.09 E-value=2e+02 Score=30.31 Aligned_cols=61 Identities=36% Similarity=0.468 Sum_probs=45.7
Q ss_pred HHHHHHHHHHHHhcCCCCCCchhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhhh
Q 007381 528 KRLSELEEKVDTLQAKPSEMPYEKEELLHAAVCRVDALEAELIATKKALHEALMRQEDLLAYIDRQEEAKFR 599 (605)
Q Consensus 528 ~r~~~lEekv~~L~~KP~~mP~EKEe~L~aa~~RvdaLE~eL~~TKKaL~~al~kQ~El~ayie~~k~~k~~ 599 (605)
+-+.+||.++.+|. .|=|.-+++.-.--++||.+|..| +|+-|..|++ ++..++-=++||+
T Consensus 190 q~l~dLE~k~a~lK-------~e~ek~~~d~~~~~k~L~e~L~~~---KhelL~~Qeq-L~~aekeLekKfq 250 (278)
T PF15294_consen 190 QDLSDLENKMAALK-------SELEKALQDKESQQKALEETLQSC---KHELLRVQEQ-LSLAEKELEKKFQ 250 (278)
T ss_pred cchhhHHHHHHHHH-------HHHHHHHHHHHHHHHHHHHHHHHH---HHHHHhcchh-hhcchhhHHHHhC
Confidence 55778899988884 344566777777889999999998 5677888888 6666665566655
No 56
>PRK14137 recX recombination regulator RecX; Provisional
Probab=23.11 E-value=1.8e+02 Score=28.94 Aligned_cols=27 Identities=19% Similarity=0.073 Sum_probs=22.6
Q ss_pred HHHHHHHHHcCCCHHHHHHHHHHHHHH
Q 007381 109 HMMLRFLKARKFDIDKAKHMWAEMLQW 135 (605)
Q Consensus 109 ~~LLRFLrArkfDvekA~~~l~~~l~W 135 (605)
.-+.+||..++|+.+-+...|...+.-
T Consensus 156 ~K~~~~L~rRGFs~~~I~~al~~~~~~ 182 (195)
T PRK14137 156 ASAYAFLARRGFSGAVIWPAIREVAAL 182 (195)
T ss_pred HHHHHHHHHCCCCHHHHHHHHHHHHHh
Confidence 468999999999999999888876443
No 57
>COG1842 PspA Phage shock protein A (IM30), suppresses sigma54-dependent transcription [Transcription / Signal transduction mechanisms]
Probab=22.73 E-value=8.1e+02 Score=24.98 Aligned_cols=50 Identities=26% Similarity=0.249 Sum_probs=38.4
Q ss_pred hhHHHHHHHHHHHHHHHHHhcCCCCCCchhHHHHHHHHHHHHHHHHHHHHHHHHHH
Q 007381 521 DLLSSVTKRLSELEEKVDTLQAKPSEMPYEKEELLHAAVCRVDALEAELIATKKAL 576 (605)
Q Consensus 521 ~~~~~~~~r~~~lEekv~~L~~KP~~mP~EKEe~L~aa~~RvdaLE~eL~~TKKaL 576 (605)
..+..+..+..++|++...--.+-. |++-..++.|+..||..+...+..+
T Consensus 59 ~~~~~~~~~~~k~e~~A~~Al~~g~------E~LAr~al~~~~~le~~~~~~~~~~ 108 (225)
T COG1842 59 RKLEEAQARAEKLEEKAELALQAGN------EDLAREALEEKQSLEDLAKALEAEL 108 (225)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHCCC------HHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 3577788888888888876666644 9999999999998887766555443
No 58
>PF12297 EVC2_like: Ellis van Creveld protein 2 like protein; InterPro: IPR022076 This family of proteins is found in eukaryotes. Proteins in this family are typically between 571 and 1310 amino acids in length. There are two conserved sequence motifs: LPA and ELH. EVC2 is implicated in Ellis van Creveld chondrodysplastic dwarfism in humans. Mutations in this protein can give rise to this congenital condition. LIMBIN is a protein which shares around 80% sequence homology with EVC2 and it is implicated in a similar condition in bovine chondrodysplastic dwarfism.
Probab=22.55 E-value=3.9e+02 Score=29.87 Aligned_cols=21 Identities=10% Similarity=0.218 Sum_probs=14.1
Q ss_pred hhHHHHHHHHHHHHHHHHHHH
Q 007381 455 RARIWAAVMAFFMMFVTLFRS 475 (605)
Q Consensus 455 ~~~~~~~~~~~~~~~~~~~~~ 475 (605)
.+.+++.++++|++++++|-.
T Consensus 68 agFfvaflvslVL~~l~~f~l 88 (429)
T PF12297_consen 68 AGFFVAFLVSLVLTWLCFFLL 88 (429)
T ss_pred HHHHHHHHHHHHHHHHHHHHH
Confidence 366777777777777666653
No 59
>PF05335 DUF745: Protein of unknown function (DUF745); InterPro: IPR007999 This family consists of several uncharacterised Drosophila melanogaster proteins of unknown function.
Probab=22.53 E-value=1.4e+02 Score=29.65 Aligned_cols=31 Identities=45% Similarity=0.447 Sum_probs=24.3
Q ss_pred hhHHHHHHHHHHHHHHHHHH-------HHHHHHHHHHH
Q 007381 549 YEKEELLHAAVCRVDALEAE-------LIATKKALHEA 579 (605)
Q Consensus 549 ~EKEe~L~aa~~RvdaLE~e-------L~~TKKaL~~a 579 (605)
.||-.||.+|=.||+.|... |++||++-+-+
T Consensus 140 ~eK~qLLeaAk~Rve~L~~QL~~Ar~D~~~tk~aA~kA 177 (188)
T PF05335_consen 140 AEKTQLLEAAKRRVEELQRQLQAARADYEKTKKAAYKA 177 (188)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 57999999999999999865 55666665543
No 60
>PF11068 YlqD: YlqD protein; InterPro: IPR021297 This bacterial family of proteins has no known function. ; PDB: 4DCI_C.
Probab=21.98 E-value=4.6e+02 Score=24.52 Aligned_cols=50 Identities=20% Similarity=0.302 Sum_probs=38.6
Q ss_pred chhHHHHHHHHHHHHHHHHHHHH----HHHHHHHHHH----HHHHHHHHHHHHHHHhh
Q 007381 548 PYEKEELLHAAVCRVDALEAELI----ATKKALHEAL----MRQEDLLAYIDRQEEAK 597 (605)
Q Consensus 548 P~EKEe~L~aa~~RvdaLE~eL~----~TKKaL~~al----~kQ~El~ayie~~k~~k 597 (605)
|.=||+++..--..+..+|.||+ -.||++.+.- .....|-++++..+...
T Consensus 15 e~~K~~l~~~l~~~i~~~d~el~QLefq~kr~~~e~~~~~~~~~~~i~~q~~~e~~~r 72 (131)
T PF11068_consen 15 EKWKEELLQELQEQIQQLDQELQQLEFQGKRMIKEIKKQNAQQIQSIQQQFEQEKQER 72 (131)
T ss_dssp HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHTTSSHHHHHHHHHHHHHHHHH
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhcchhhHHHHHHHHHHHHHHH
Confidence 45689999999999999999986 4788888865 55566778887776544
No 61
>PF15027 DUF4525: Domain of unknown function (DUF4525)
Probab=21.97 E-value=86 Score=29.16 Aligned_cols=23 Identities=43% Similarity=0.549 Sum_probs=19.0
Q ss_pred hhhhHHHHHHHHHHHHHHHHHhc
Q 007381 519 EVDLLSSVTKRLSELEEKVDTLQ 541 (605)
Q Consensus 519 ~~~~~~~~~~r~~~lEekv~~L~ 541 (605)
-+-.+-.+|+||..||.||+.|-
T Consensus 84 iAVLLddiLqRl~kLE~kvd~lv 106 (138)
T PF15027_consen 84 IAVLLDDILQRLVKLESKVDNLV 106 (138)
T ss_pred hhhhhhHHHHHHHHHHHHHHHHe
Confidence 34457889999999999999863
No 62
>PF14282 FlxA: FlxA-like protein
Probab=21.92 E-value=3.8e+02 Score=23.90 Aligned_cols=52 Identities=15% Similarity=0.380 Sum_probs=38.9
Q ss_pred chhhhHHHHHHHHHHHHHHHHHhcCCCCCCch-hHHHHHHHHHHHHHHHHHHHH
Q 007381 518 TEVDLLSSVTKRLSELEEKVDTLQAKPSEMPY-EKEELLHAAVCRVDALEAELI 570 (605)
Q Consensus 518 ~~~~~~~~~~~r~~~lEekv~~L~~KP~~mP~-EKEe~L~aa~~RvdaLE~eL~ 570 (605)
.....+..+-+++.+|.+++..|... ..|++ +|.+....=-.-|..||+.|.
T Consensus 16 ~~~~~I~~L~~Qi~~Lq~ql~~l~~~-~~~~~e~k~~q~q~Lq~QI~~LqaQI~ 68 (106)
T PF14282_consen 16 SSDSQIEQLQKQIKQLQEQLQELSQD-SDLDAEQKQQQIQLLQAQIQQLQAQIA 68 (106)
T ss_pred cHHHHHHHHHHHHHHHHHHHHHHHcc-cCCCHHHHHHHHHHHHHHHHHHHHHHH
Confidence 34678999999999999999999995 23454 566555555567778888875
No 63
>smart00787 Spc7 Spc7 kinetochore protein. This domain is found in cell division proteins which are required for kinetochore-spindle association.
Probab=21.82 E-value=4.7e+02 Score=28.01 Aligned_cols=74 Identities=20% Similarity=0.252 Sum_probs=44.0
Q ss_pred hHHHHHHHHHHHHHHHHHhcCCCCCCchhHHHHHHHHHHHHHH--------------HHHHHHHHHHHHHHHHHHHHHHH
Q 007381 522 LLSSVTKRLSELEEKVDTLQAKPSEMPYEKEELLHAAVCRVDA--------------LEAELIATKKALHEALMRQEDLL 587 (605)
Q Consensus 522 ~~~~~~~r~~~lEekv~~L~~KP~~mP~EKEe~L~aa~~Rvda--------------LE~eL~~TKKaL~~al~kQ~El~ 587 (605)
.+-.+.++.+.|+.++..|..-+.+|=.=.-+.|+.+=..+.. ++.+|..-+..+++.-.+..|+.
T Consensus 173 ~~~~l~~~~~~L~~e~~~L~~~~~e~~~~d~~eL~~lk~~l~~~~~ei~~~~~~l~e~~~~l~~l~~~I~~~~~~k~e~~ 252 (312)
T smart00787 173 IKPKLRDRKDALEEELRQLKQLEDELEDCDPTELDRAKEKLKKLLQEIMIKVKKLEELEEELQELESKIEDLTNKKSELN 252 (312)
T ss_pred HHHHHHHHHHHHHHHHHHHHHhHHHHHhCCHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 4667778899999999999988887722112233333344444 44455555555555555555555
Q ss_pred HHHHHHHH
Q 007381 588 AYIDRQEE 595 (605)
Q Consensus 588 ayie~~k~ 595 (605)
+-|-..++
T Consensus 253 ~~I~~ae~ 260 (312)
T smart00787 253 TEIAEAEK 260 (312)
T ss_pred HHHHHHHH
Confidence 55544443
No 64
>PRK09261 phospho-2-dehydro-3-deoxyheptonate aldolase; Validated
Probab=21.64 E-value=4.2e+02 Score=28.93 Aligned_cols=67 Identities=18% Similarity=0.324 Sum_probs=43.0
Q ss_pred cCcccccCCCCCCcEEEEecCccCcchhhhcC-CHHHHHHHHHHHHHHHHhhhChhhhhhhcCCCCcEEEEEECCCCCC
Q 007381 160 YPHGYHGVDKEGRPVYIERLGKVDSNKLMQVT-TMDRYIRYHVQGFEKAFAVKFPACTIAAKRHIDSSTSILDVQGVGL 237 (605)
Q Consensus 160 ~p~~~~G~Dk~GRPV~i~rlg~~dp~kl~~~~-t~~~~lr~~v~~~E~~~~~~~pacs~~~~~~i~~~tiIiDl~G~sl 237 (605)
.||.+.|.|++|++.++...|+-|..-+++-. +...|-+..+......+. +... ..-+|+|++.-+-
T Consensus 205 ~~H~fl~~~~~G~~~~i~t~GN~~~hlilRGg~~~pNy~~~~i~~~~~~l~----------k~~l-~~~v~VD~SH~ns 272 (349)
T PRK09261 205 APHHFLGITKDGRSAIVSTTGNPDCHVILRGGNKGPNYDAESVAEAKERLE----------KAGL-PPRIMIDCSHANS 272 (349)
T ss_pred CCceeeecCCCCcEEEEECCCCCCEEEEECCCCCCCCCCHHHHHHHHHHHH----------HcCC-CCCEEEECCCccc
Confidence 57778899999999999998887766555432 344455555444333332 1112 4678999987544
No 65
>PF09789 DUF2353: Uncharacterized coiled-coil protein (DUF2353); InterPro: IPR019179 Members of this family have been annotated as being coiled-coil domain-containing protein 149, however they currently have no known function.
Probab=21.56 E-value=3.7e+02 Score=28.95 Aligned_cols=61 Identities=26% Similarity=0.334 Sum_probs=45.1
Q ss_pred chhhhHHHHHH----HHHHHHHHHHHhc-----CCCCCCchhHH-----HHHHHHHHHHHHHHHHHHHHHHHHHH
Q 007381 518 TEVDLLSSVTK----RLSELEEKVDTLQ-----AKPSEMPYEKE-----ELLHAAVCRVDALEAELIATKKALHE 578 (605)
Q Consensus 518 ~~~~~~~~~~~----r~~~lEekv~~L~-----~KP~~mP~EKE-----e~L~aa~~RvdaLE~eL~~TKKaL~~ 578 (605)
.+.|.|.-|+. |-+.|+.+..++. .--+.+|++++ .+|..+-.|.+.|..|+..-+.=|.|
T Consensus 23 ~ErDqyKlMAEqLqer~q~LKkk~~el~~~~~~~~d~~~~~~~~~~~La~lL~~sre~Nk~L~~Ev~~Lrqkl~E 97 (319)
T PF09789_consen 23 SERDQYKLMAEQLQERYQALKKKYRELIQEAAGFGDPSIPPEKENKNLAQLLSESREQNKKLKEEVEELRQKLNE 97 (319)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHhhhhhcccCCccCCcccchhhHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 46667665544 5557888888777 34445888877 89999999999999998776655444
No 66
>PF06103 DUF948: Bacterial protein of unknown function (DUF948); InterPro: IPR009293 This family consists of bacterial sequences several of which are thought to be general stress proteins.
Probab=21.45 E-value=4e+02 Score=22.58 Aligned_cols=43 Identities=19% Similarity=0.309 Sum_probs=31.9
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHh
Q 007381 554 LLHAAVCRVDALEAELIATKKALHEALMRQEDLLAYIDRQEEA 596 (605)
Q Consensus 554 ~L~aa~~RvdaLE~eL~~TKKaL~~al~kQ~El~ayie~~k~~ 596 (605)
.|++.=..++.++.++....+=..+++.++.++++=++.+.++
T Consensus 27 ~l~~~~~ti~~l~~~~~~i~~e~~~ll~~~n~l~~dv~~k~~~ 69 (90)
T PF06103_consen 27 TLDEVNKTIDTLQEQVDPITKEINDLLHNTNELLEDVNEKLEK 69 (90)
T ss_pred HHHHHHHHHHHHHHhHHHHHHHHHHHHHHHHHHHHHHHHHHHh
Confidence 4666666777778888888888888888888888777766543
No 67
>TIGR00034 aroFGH phospho-2-dehydro-3-deoxyheptonate aldolase.
Probab=21.08 E-value=1.6e+02 Score=32.05 Aligned_cols=68 Identities=18% Similarity=0.261 Sum_probs=42.8
Q ss_pred ccCcccccCCCCCCcEEEEecCccCcchhhhcCCHHHHHHHHHHHHHHHHhhhChhhhhhhcCCCCcEEEEEECCCCCC
Q 007381 159 YYPHGYHGVDKEGRPVYIERLGKVDSNKLMQVTTMDRYIRYHVQGFEKAFAVKFPACTIAAKRHIDSSTSILDVQGVGL 237 (605)
Q Consensus 159 ~~p~~~~G~Dk~GRPV~i~rlg~~dp~kl~~~~t~~~~lr~~v~~~E~~~~~~~pacs~~~~~~i~~~tiIiDl~G~sl 237 (605)
..||.+.|.|++|++.++...|+-|..-+++-.....|.+..+......+. +.+.. -.+|+|++.-+-
T Consensus 199 ~~~H~fl~~~~~G~~~~i~t~GN~~~hlilRGg~~pNy~~~di~~~~~~l~----------~~~lp-~~vmVD~SH~ns 266 (344)
T TIGR00034 199 AAPHYFLSVTKDGQMAIVQTSGNPDGHIILRGGKKPNYSAADVAAAKKQLE----------KAGLP-PHLMIDFSHGNS 266 (344)
T ss_pred hCCceeeecCCCCcEEEEECCCCCCEEEEecCCCCCCCCHHHHHHHHHHHH----------HcCCC-CeEEEeCCCccc
Confidence 468889999999999999998887665544432224444444444333332 12222 358999987544
No 68
>PF12718 Tropomyosin_1: Tropomyosin like; InterPro: IPR000533 Tropomyosins [], are a family of closely related proteins present in muscle and non-muscle cells. In striated muscle, tropomyosin mediate the interactions between the troponin complex and actin so as to regulate muscle contraction []. The role of tropomyosin in smooth muscle and non-muscle tissues is not clear. Tropomyosin is an alpha-helical protein that forms a coiled-coil structure of 2 parallel helices containing 2 sets of 7 alternating actin binding sites []. There are multiple cell-specific isoforms, created by differential splicing of the messenger RNA from one gene, but the proportions of the isoforms vary between different cell types. Muscle isoforms of tropomyosin are characterised by having 284 amino acid residues and a highly conserved N-terminal region, whereas non-muscle forms are generally smaller and are heterogeneous in their N-terminal region. This entry represents tropomyosin (Tmp) 1, 2 and 3. Within the yeast Tmp1 and Tmp2, biochemical and sequence analyses indicate that Tpm2 spans four actin monomers along a filament, whereas Tpm1 spans five. Despite its shorter length, Tpm2 can compete with Tpm1 for binding to F-actin. Over-expression of Tpm2 in vivo alters the axial budding of haploids to a bipolar pattern, and this can be partially suppressed by co-over-expression of Tpm1. This suggests distinct functions for the two tropomyosins, and indicates that the ratio between them is important for correct morphogenesis [].
Probab=20.85 E-value=3.4e+02 Score=25.61 Aligned_cols=58 Identities=29% Similarity=0.346 Sum_probs=43.2
Q ss_pred HHHHHHHHHHHHHHHhcCCCCCCchhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q 007381 525 SVTKRLSELEEKVDTLQAKPSEMPYEKEELLHAAVCRVDALEAELIATKKALHEALMRQEDL 586 (605)
Q Consensus 525 ~~~~r~~~lEekv~~L~~KP~~mP~EKEe~L~aa~~RvdaLE~eL~~TKKaL~~al~kQ~El 586 (605)
....|..+||+++..|...-. .||+=++.=-.|+..||.||.++...|.++-.+.++-
T Consensus 11 ~a~~r~e~~e~~~K~le~~~~----~~E~EI~sL~~K~~~lE~eld~~~~~l~~~k~~lee~ 68 (143)
T PF12718_consen 11 NAQDRAEELEAKVKQLEQENE----QKEQEITSLQKKNQQLEEELDKLEEQLKEAKEKLEES 68 (143)
T ss_pred HHHHHHHHHHHHHHHHHHHHH----HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhH
Confidence 446677888888888876643 6777788777888888888888888777776665554
No 69
>KOG1838 consensus Alpha/beta hydrolase [General function prediction only]
Probab=20.84 E-value=7.1e+02 Score=27.81 Aligned_cols=90 Identities=18% Similarity=0.267 Sum_probs=63.9
Q ss_pred CCCCCcEEEEecCccCcchhhhcCCHHHHHHHHHHHHHHHHhhhChhhhhhhcCCCCcEEEEEECCCCCCCCcchh----
Q 007381 168 DKEGRPVYIERLGKVDSNKLMQVTTMDRYIRYHVQGFEKAFAVKFPACTIAAKRHIDSSTSILDVQGVGLKNFSKN---- 243 (605)
Q Consensus 168 Dk~GRPV~i~rlg~~dp~kl~~~~t~~~~lr~~v~~~E~~~~~~~pacs~~~~~~i~~~tiIiDl~G~sl~~~~~~---- 243 (605)
|....|++++-.|.-. .+.+.|++.++... .+ + .--++|++-.|++-..+..+
T Consensus 121 ~~~~~P~vvilpGltg-------~S~~~YVr~lv~~a---~~----------~---G~r~VVfN~RG~~g~~LtTpr~f~ 177 (409)
T KOG1838|consen 121 DDGTDPIVVILPGLTG-------GSHESYVRHLVHEA---QR----------K---GYRVVVFNHRGLGGSKLTTPRLFT 177 (409)
T ss_pred CCCCCcEEEEecCCCC-------CChhHHHHHHHHHH---Hh----------C---CcEEEEECCCCCCCCccCCCceee
Confidence 3456699999888643 36678998887432 21 1 24578889888766555321
Q ss_pred --HHHHHHHHHHHhccccccccceEEEEecChHHHHHHHHH
Q 007381 244 --ARELILRLQKIDGDNYPETLHQMFIINAGPGFRLLWNTV 282 (605)
Q Consensus 244 --~~~lik~i~kilq~~YPerL~~I~IVNaP~~f~~lw~iv 282 (605)
--+-++.+++.+...||.+ .++.+--+.+-.++|+-+
T Consensus 178 ag~t~Dl~~~v~~i~~~~P~a--~l~avG~S~Gg~iL~nYL 216 (409)
T KOG1838|consen 178 AGWTEDLREVVNHIKKRYPQA--PLFAVGFSMGGNILTNYL 216 (409)
T ss_pred cCCHHHHHHHHHHHHHhCCCC--ceEEEEecchHHHHHHHh
Confidence 1355778888889999998 889999888888888744
No 70
>PF11471 Sugarporin_N: Maltoporin periplasmic N-terminal extension; InterPro: IPR021570 This N-terminal domain is found in members of the sugar porin family 1.B.3 from TC, They are related to LamB - the well characterised maltoporin of Escherichia coli for which the three-dimensional structures with and without its substrate have been obtained by X-ray diffraction. The protein consists of an 18 beta-stranded beta-barrel in contrast to proteins of the general bacterial porin family (GBP) and the Rhodobacter PorCa Porin (RPP) family which consist of 16 beta-stranded beta-barrels. Although maltoporin contains a wider beta-barrel than the porins of the GBP and RPP families (1.B.1 from TC and 1.B.7 from TC), it exhibits a narrower channel, showing only 5% of the ionic conductance of the latter porins.
Probab=20.76 E-value=1.1e+02 Score=24.60 Aligned_cols=12 Identities=33% Similarity=0.772 Sum_probs=8.1
Q ss_pred HHHHHHHHHHHH
Q 007381 525 SVTKRLSELEEK 536 (605)
Q Consensus 525 ~~~~r~~~lEek 536 (605)
++=+||+.||..
T Consensus 29 tiEqRLa~LE~r 40 (60)
T PF11471_consen 29 TIEQRLAALEQR 40 (60)
T ss_pred CHHHHHHHHHHH
Confidence 355788877764
No 71
>COG5104 PRP40 Splicing factor [RNA processing and modification]
Probab=20.72 E-value=2.6e+02 Score=31.38 Aligned_cols=32 Identities=25% Similarity=0.451 Sum_probs=26.8
Q ss_pred chhHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q 007381 548 PYEKEELLHAAVCRVDALEAELIATKKALHEA 579 (605)
Q Consensus 548 P~EKEe~L~aa~~RvdaLE~eL~~TKKaL~~a 579 (605)
|..++++|++=++-|+.||.||+..+--+..+
T Consensus 323 ~l~~~d~L~~f~~~v~~lE~el~~~~~e~k~~ 354 (590)
T COG5104 323 PLDRKDILFSFIRYVRRLEKELLSAIEERKAA 354 (590)
T ss_pred cccHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 78999999999999999999998765544433
No 72
>COG1382 GimC Prefoldin, chaperonin cofactor [Posttranslational modification, protein turnover, chaperones]
Probab=20.71 E-value=2.1e+02 Score=26.41 Aligned_cols=20 Identities=40% Similarity=0.499 Sum_probs=17.4
Q ss_pred HHHHHHHHHHHHHHHHHHHH
Q 007381 559 VCRVDALEAELIATKKALHE 578 (605)
Q Consensus 559 ~~RvdaLE~eL~~TKKaL~~ 578 (605)
+-+.+.||++|.-+++||.|
T Consensus 26 ~~qk~~le~qL~E~~~al~E 45 (119)
T COG1382 26 ILQKQQLEAQLKEIEKALEE 45 (119)
T ss_pred HHHHHHHHHHHHHHHHHHHH
Confidence 56788999999999999976
Done!