Query 044854
Match_columns 393
No_of_seqs 150 out of 168
Neff 3.4
Searched_HMMs 46136
Date Fri Mar 29 07:23:34 2013
Command hhsearch -i /work/01045/syshi/csienesis_hhblits_a3m/044854.a3m -d /work/01045/syshi/HHdatabase/Cdd.hhm -o /work/01045/syshi/hhsearch_cdd/044854hhsearch_cdd -cpu 12 -v 0
No Hit Prob E-value P-value Score SS Cols Query HMM Template HMM
1 PF00612 IQ: IQ calmodulin-bin 95.5 0.0087 1.9E-07 37.3 1.8 20 133-152 1-20 (21)
2 smart00015 IQ Short calmodulin 94.7 0.022 4.9E-07 37.0 2.0 21 132-152 2-22 (26)
3 PF13360 PQQ_2: PQQ-like domai 68.6 18 0.0004 31.9 6.7 74 294-367 12-97 (238)
4 TIGR03300 assembly_YfgL outer 67.6 21 0.00045 34.8 7.4 50 312-361 320-376 (377)
5 PRK11138 outer membrane biogen 67.4 23 0.00049 35.1 7.7 81 287-367 268-356 (394)
6 PRK11138 outer membrane biogen 64.9 25 0.00054 34.8 7.4 114 249-363 266-393 (394)
7 cd02885 IPP_Isomerase Isopente 63.7 33 0.00071 30.3 7.2 74 298-391 6-92 (165)
8 TIGR03300 assembly_YfgL outer 61.0 40 0.00087 32.8 7.9 77 292-368 258-342 (377)
9 PF13360 PQQ_2: PQQ-like domai 58.1 46 0.001 29.4 7.2 90 278-367 39-143 (238)
10 PF02375 JmjN: jmjN domain; I 56.8 5.7 0.00012 28.2 1.0 17 368-384 3-19 (34)
11 PF08763 Ca_chan_IQ: Voltage g 52.0 10 0.00022 27.5 1.7 19 134-152 10-28 (35)
12 TIGR02150 IPP_isom_1 isopenten 51.6 85 0.0018 27.7 7.8 59 312-392 29-88 (158)
13 COG4632 EpsL Exopolysaccharide 43.1 34 0.00074 35.0 4.3 63 289-357 156-220 (320)
14 PF13570 PQQ_3: PQQ-like domai 42.4 33 0.00073 23.5 3.1 15 313-327 22-36 (40)
15 PRK03759 isopentenyl-diphospha 40.5 1.2E+02 0.0025 27.5 7.0 59 313-391 37-96 (184)
16 KOG0377 Protein serine/threoni 36.8 19 0.00042 39.0 1.6 22 133-154 17-38 (631)
17 PF01453 B_lectin: D-mannose b 36.2 1.7E+02 0.0037 24.8 7.0 63 287-350 20-90 (114)
18 smart00545 JmjN Small domain f 35.5 24 0.00053 26.1 1.5 17 368-384 5-21 (42)
19 PF13344 Hydrolase_6: Haloacid 34.5 23 0.00049 29.5 1.4 59 316-390 1-59 (101)
20 COG2323 Predicted membrane pro 34.1 14 0.00029 36.0 0.0 46 338-393 88-134 (224)
21 smart00701 PGRP Animal peptido 34.0 1E+02 0.0022 27.4 5.5 57 313-383 64-122 (142)
22 PF15537 Toxin_59: Putative to 33.5 47 0.001 30.1 3.3 58 312-370 50-116 (125)
23 PF13509 S1_2: S1 domain; PDB: 33.5 44 0.00096 25.6 2.8 34 248-292 13-48 (61)
24 KOG4427 E3 ubiquitin protein l 33.4 21 0.00046 40.8 1.4 24 131-154 28-51 (1096)
25 PF10411 DsbC_N: Disulfide bon 33.3 73 0.0016 24.3 3.9 27 287-325 25-51 (57)
26 cd00216 PQQ_DH Dehydrogenases 30.9 1.6E+02 0.0034 30.8 7.1 92 276-367 62-186 (488)
27 PF00235 Profilin: Profilin; 30.5 13 0.00029 31.1 -0.6 43 338-384 9-52 (121)
28 cd00148 PROF Profilin binds ac 29.5 39 0.00084 29.4 2.1 44 338-384 9-53 (127)
29 PF13128 DUF3954: Protein of u 29.5 57 0.0012 25.4 2.7 20 348-367 10-30 (50)
30 cd03676 Nudix_hydrolase_3 Memb 29.1 1.8E+02 0.0039 25.9 6.3 58 313-391 37-98 (180)
31 cd05727 Ig2_Contactin-2-like S 28.6 1.3E+02 0.0027 25.5 4.9 33 296-329 35-67 (96)
32 KOG0942 E3 ubiquitin protein l 28.5 27 0.00058 40.5 1.1 22 131-152 27-48 (1001)
33 cd04970 Ig6_Contactin_like Six 28.5 1.5E+02 0.0033 22.8 5.1 59 296-354 18-82 (85)
34 PRK14464 ribosomal RNA large s 24.4 61 0.0013 33.3 2.7 26 364-389 284-309 (344)
35 COG2335 Secreted and surface p 24.1 1.7E+02 0.0037 28.1 5.4 62 286-363 114-177 (187)
36 PF09500 YiiD_Cterm: Putative 24.1 26 0.00056 31.8 0.0 38 349-386 74-116 (144)
37 smart00108 B_lectin Bulb-type 23.8 2.2E+02 0.0048 23.6 5.5 16 314-329 56-71 (114)
38 cd04904 ACT_AAAH ACT domain of 23.3 49 0.0011 25.9 1.4 23 369-393 10-32 (74)
39 TIGR03075 PQQ_enz_alc_DH PQQ-d 23.1 3.4E+02 0.0074 29.1 8.0 96 273-368 67-193 (527)
40 KOG1539 WD repeat protein [Gen 22.8 1.8E+02 0.0038 33.9 6.0 84 299-387 252-348 (910)
41 cd00216 PQQ_DH Dehydrogenases 21.5 4.2E+02 0.0091 27.7 8.2 75 288-363 369-456 (488)
42 COG1520 FOG: WD40-like repeat 20.9 3.7E+02 0.008 26.5 7.3 29 339-367 144-174 (370)
43 COG4787 FlgF Flagellar basal b 20.6 2.1E+02 0.0045 28.7 5.3 75 295-373 69-156 (251)
44 TIGR03074 PQQ_membr_DH membran 20.5 3.9E+02 0.0084 30.5 8.1 55 313-367 261-347 (764)
No 1
>PF00612 IQ: IQ calmodulin-binding motif; InterPro: IPR000048 The IQ motif is an extremely basic unit of about 23 amino acids, whose conserved core usually fits the consensus A-x(3)-I-Q-x(2)-F-R-x(4)-K-K. The IQ motif, which can be present in one or more copies, serves as a binding site for different EF-hand proteins including the essential and regulatory myosin light chains, calmodulin (CaM), and CaM-like proteins [, ].Many IQ motifs are protein kinase C (PKC) phosphorylation sites [, ]. Resolution of the 3D structure of scallop myosin has shown that the IQ motif forms a basic amphipathic helix []. Some proteins known to contain an IQ motif are listed below: A number of conventional and unconventional myosins. Neuromodulin (GAP-43). This protein is associated with nerve growth. It is a major component of the motile "growth cones" that form the tips of elongating axons. Neurogranin (NG/p17). Acts as a "third messenger" substrate of protein kinase C-mediated molecular cascades during synaptic development and remodeling. Sperm surface protein Sp17. Ras GTPase-activating-like protein IQGAP1. IQGAP1 contains 4 IQ motifs. This entry covers the entire IQ motif.; GO: 0005515 protein binding; PDB: 2DFS_A 2IX7_C 1OE9_A 1W7J_A 1W7I_A 1KQM_A 1KK7_A 1WDC_A 1DFL_A 1B7T_A ....
Probab=95.53 E-value=0.0087 Score=37.30 Aligned_cols=20 Identities=25% Similarity=0.522 Sum_probs=17.9
Q ss_pred HHHHHHHHHhhhhhhhhhcc
Q 044854 133 NAAAVKLQKVYKSYRTRRNL 152 (393)
Q Consensus 133 ~~AA~~iQk~Yr~yRtRR~l 152 (393)
..||++||+.||+|..|+++
T Consensus 1 ~~aai~iQ~~~R~~~~Rk~~ 20 (21)
T PF00612_consen 1 RKAAIIIQSYWRGYLARKRY 20 (21)
T ss_dssp HHHHHHHHHHHHHHHHHHHH
T ss_pred CHHHHHHHHHHHHHHHHHhc
Confidence 37999999999999999874
No 2
>smart00015 IQ Short calmodulin-binding motif containing conserved Ile and Gln residues. Calmodulin-binding motif.
Probab=94.72 E-value=0.022 Score=36.98 Aligned_cols=21 Identities=29% Similarity=0.572 Sum_probs=19.3
Q ss_pred HHHHHHHHHHhhhhhhhhhcc
Q 044854 132 LNAAAVKLQKVYKSYRTRRNL 152 (393)
Q Consensus 132 ~~~AA~~iQk~Yr~yRtRR~l 152 (393)
...||++||+.||||..|++.
T Consensus 2 ~~~aa~~IQa~~Rg~~~r~~y 22 (26)
T smart00015 2 LTRAAIIIQAAWRGYLARKRY 22 (26)
T ss_pred HHHHHHHHHHHHHHHHHHHhh
Confidence 468999999999999999986
No 3
>PF13360 PQQ_2: PQQ-like domain; PDB: 3HXJ_B 1YIQ_A 1KV9_A 3Q54_A 2YH3_A 3PRW_A 3P1L_A 3Q7M_A 3Q7O_A 3Q7N_A ....
Probab=68.59 E-value=18 Score=31.94 Aligned_cols=74 Identities=27% Similarity=0.361 Sum_probs=48.6
Q ss_pred CCeEEEccC-----Cceee-ccCCCEEEEEEeCCCceEEeecCCCCccccccCCC----CccceeeeEEEe--cceEEEE
Q 044854 294 NGKLLYRQS-----GIPVE-TTEGSKWIFVLSTTRALYVGPKKKGSFQHSSFLSG----GATTAAGRLVAH--NGILEAI 361 (393)
Q Consensus 294 dGrLvy~~s-----G~~vd-Tt~~~kwIFVmdtsg~LYVG~KkkG~FqHSSFLaG----g~V~AAG~I~V~--nG~Lk~I 361 (393)
+|+.+|..+ +.++. +...+..+||.+.++.||+=....|....+.=+.+ .++...|.|.+- +|.|..|
T Consensus 12 tG~~~W~~~~~~~~~~~~~~~~~~~~~v~~~~~~~~l~~~d~~tG~~~W~~~~~~~~~~~~~~~~~~v~v~~~~~~l~~~ 91 (238)
T PF13360_consen 12 TGKELWSYDLGPGIGGPVATAVPDGGRVYVASGDGNLYALDAKTGKVLWRFDLPGPISGAPVVDGGRVYVGTSDGSLYAL 91 (238)
T ss_dssp TTEEEEEEECSSSCSSEEETEEEETTEEEEEETTSEEEEEETTTSEEEEEEECSSCGGSGEEEETTEEEEEETTSEEEEE
T ss_pred CCCEEEEEECCCCCCCccceEEEeCCEEEEEcCCCEEEEEECCCCCEEEEeeccccccceeeecccccccccceeeeEec
Confidence 788888752 33332 23245678888888999988877776654332222 245666777654 6889888
Q ss_pred cCCCCC
Q 044854 362 WPYSGH 367 (393)
Q Consensus 362 sp~SGH 367 (393)
+..+|+
T Consensus 92 d~~tG~ 97 (238)
T PF13360_consen 92 DAKTGK 97 (238)
T ss_dssp ETTTSC
T ss_pred ccCCcc
Confidence 888886
No 4
>TIGR03300 assembly_YfgL outer membrane assembly lipoprotein YfgL. Members of this protein family are YfgL, a lipoprotein component of a complex that acts protein insertion into the bacterial outer membrane. Other members of this complex are NlpB, YfiO, and YaeT. This protein contains multiple copies of a repeat that, in other contexts, are associated with binding of the coenzyme PQQ.
Probab=67.64 E-value=21 Score=34.76 Aligned_cols=50 Identities=20% Similarity=0.200 Sum_probs=34.7
Q ss_pred CEEEEEEeCCCceEEeecCCCCcccc-----ccCCCCccceeeeEEEe--cceEEEE
Q 044854 312 SKWIFVLSTTRALYVGPKKKGSFQHS-----SFLSGGATTAAGRLVAH--NGILEAI 361 (393)
Q Consensus 312 ~kwIFVmdtsg~LYVG~KkkG~FqHS-----SFLaGg~V~AAG~I~V~--nG~Lk~I 361 (393)
+..+||.+.+|.||+-....|...-+ +-....|+++-|.|.|- ||.|..+
T Consensus 320 g~~l~~~~~~G~l~~~d~~tG~~~~~~~~~~~~~~~sp~~~~~~l~v~~~dG~l~~~ 376 (377)
T TIGR03300 320 GGYLVVGDFEGYLHWLSREDGSFVARLKTDGSGIASPPVVVGDGLLVQTRDGDLYAF 376 (377)
T ss_pred CCEEEEEeCCCEEEEEECCCCCEEEEEEcCCCccccCCEEECCEEEEEeCCceEEEe
Confidence 45789999999999988777877632 22333556666666664 7887664
No 5
>PRK11138 outer membrane biogenesis protein BamB; Provisional
Probab=67.42 E-value=23 Score=35.14 Aligned_cols=81 Identities=17% Similarity=0.249 Sum_probs=50.7
Q ss_pred eEEEEEeCCeEEEccC-CceeeccCCCEEEEEEeCCCceEEeecCCCCccc-cccC----CCCccceeeeEEEe--cceE
Q 044854 287 VFEVVVENGKLLYRQS-GIPVETTEGSKWIFVLSTTRALYVGPKKKGSFQH-SSFL----SGGATTAAGRLVAH--NGIL 358 (393)
Q Consensus 287 ~YeV~IedGrLvy~~s-G~~vdTt~~~kwIFVmdtsg~LYVG~KkkG~FqH-SSFL----aGg~V~AAG~I~V~--nG~L 358 (393)
-|-+-..+|+++|++. +.+..-.-.+..+||.+.+|.||+=..+.|...= ...+ ...++++-|.|.+- +|.|
T Consensus 268 l~ald~~tG~~~W~~~~~~~~~~~~~~~~vy~~~~~g~l~ald~~tG~~~W~~~~~~~~~~~sp~v~~g~l~v~~~~G~l 347 (394)
T PRK11138 268 LVALDLRSGQIVWKREYGSVNDFAVDGGRIYLVDQNDRVYALDTRGGVELWSQSDLLHRLLTAPVLYNGYLVVGDSEGYL 347 (394)
T ss_pred EEEEECCCCCEEEeecCCCccCcEEECCEEEEEcCCCeEEEEECCCCcEEEcccccCCCcccCCEEECCEEEEEeCCCEE
Confidence 3333444777777753 1110001134579999999999998877775431 1112 23567777888774 7999
Q ss_pred EEEcCCCCC
Q 044854 359 EAIWPYSGH 367 (393)
Q Consensus 359 k~Isp~SGH 367 (393)
..|++.+|.
T Consensus 348 ~~ld~~tG~ 356 (394)
T PRK11138 348 HWINREDGR 356 (394)
T ss_pred EEEECCCCC
Confidence 999888875
No 6
>PRK11138 outer membrane biogenesis protein BamB; Provisional
Probab=64.87 E-value=25 Score=34.85 Aligned_cols=114 Identities=19% Similarity=0.172 Sum_probs=64.2
Q ss_pred CceEEeecCCCCccC---CCCCCchhhhhhhhhcCCcccceeEEEEEeCCeEEEccCC--ceeeccC--CCEEEEEEeCC
Q 044854 249 PFFYWLDVGDGKEVN---LEKCPRAVLQRQCITYLGPQERQVFEVVVENGKLLYRQSG--IPVETTE--GSKWIFVLSTT 321 (393)
Q Consensus 249 ~FFyWLD~GeGk~v~---le~cpR~~L~~q~VkYLspeERe~YeV~IedGrLvy~~sG--~~vdTt~--~~kwIFVmdts 321 (393)
.-+|-||.-.|+.+= +..+. .-......-|+.-..-.-|-+-..+|+++|..+. ....++. .+..+||.+.+
T Consensus 266 g~l~ald~~tG~~~W~~~~~~~~-~~~~~~~~vy~~~~~g~l~ald~~tG~~~W~~~~~~~~~~~sp~v~~g~l~v~~~~ 344 (394)
T PRK11138 266 GNLVALDLRSGQIVWKREYGSVN-DFAVDGGRIYLVDQNDRVYALDTRGGVELWSQSDLLHRLLTAPVLYNGYLVVGDSE 344 (394)
T ss_pred CeEEEEECCCCCEEEeecCCCcc-CcEEECCEEEEEcCCCeEEEEECCCCcEEEcccccCCCcccCCEEECCEEEEEeCC
Confidence 456778887887531 11111 1111122334444444445555557888886542 1111111 13468999999
Q ss_pred CceEEeecCCCCccccccC-----CCCccceeeeEEEe--cceEEEEcC
Q 044854 322 RALYVGPKKKGSFQHSSFL-----SGGATTAAGRLVAH--NGILEAIWP 363 (393)
Q Consensus 322 g~LYVG~KkkG~FqHSSFL-----aGg~V~AAG~I~V~--nG~Lk~Isp 363 (393)
|.||+=..+.|.+--+.-+ ...|+++-|+|.|- +|.|..|..
T Consensus 345 G~l~~ld~~tG~~~~~~~~~~~~~~s~P~~~~~~l~v~t~~G~l~~~~~ 393 (394)
T PRK11138 345 GYLHWINREDGRFVAQQKVDSSGFLSEPVVADDKLLIQARDGTVYAITR 393 (394)
T ss_pred CEEEEEECCCCCEEEEEEcCCCcceeCCEEECCEEEEEeCCceEEEEeC
Confidence 9999876666776543322 22567777888774 788887753
No 7
>cd02885 IPP_Isomerase Isopentenyl diphosphate (IPP) isomerase, a member of the Nudix hydrolase superfamily, is a key enzyme in the isoprenoid biosynthetic pathway. Isoprenoids comprise a large family of natural products including sterols, carotenoids, dolichols and prenylated proteins. These compounds are synthesized from two precursors: isopentenyl diphosphate (IPP) and dimethylallyl diphosphate (DMAPP). IPP isomerase catalyzes the interconversion of IPP and DMAPP by a stereoselective antarafacial transposition of hydrogen. The enzyme requires one Mn2+ or Mg2+ ion in its active site to fold into an active conformation and also contains the Nudix motif, a highly conserved 23-residue block (GX5EX7REUXEEXGU, where U = I, L or V), that functions as a metal binding and catalytic site. The metal binding site is present within the active site and plays structural and catalytical roles. IPP isomerase is well represented in several bacteria, archaebacteria and eukaryotes, including fungi, mamm
Probab=63.71 E-value=33 Score=30.32 Aligned_cols=74 Identities=18% Similarity=0.159 Sum_probs=48.3
Q ss_pred EEccCCceeeccCC------------CEEEEEEeCCCceEEeecCCCCccccccCCCCccceeeeEEEecceEEEEcCCC
Q 044854 298 LYRQSGIPVETTEG------------SKWIFVLSTTRALYVGPKKKGSFQHSSFLSGGATTAAGRLVAHNGILEAIWPYS 365 (393)
Q Consensus 298 vy~~sG~~vdTt~~------------~kwIFVmdtsg~LYVG~KkkG~FqHSSFLaGg~V~AAG~I~V~nG~Lk~Isp~S 365 (393)
+|+++|+++.+... ...++|.+.+|++++.+...+...+ .|.... |-+
T Consensus 6 ~~d~~~~~~g~~~r~~~~~~~~~~~~~v~v~i~~~~~~iLl~kR~~~~~~~----Pg~w~~----------------~~g 65 (165)
T cd02885 6 LVDEDDNPIGTAEKLEAHLKGTLLHRAFSVFLFNSKGRLLLQRRALSKYTF----PGLWTN----------------TCC 65 (165)
T ss_pred EECCCCCCccccCHHHHhhcCCcceeEEEEEEEcCCCcEEEEeccCCCccC----CCcccc----------------ccc
Confidence 57777777765431 2358899999999998764333211 232221 124
Q ss_pred CCCCCCHHHHHHHHHHHH-HcCCCCCC
Q 044854 366 GHYHPTEENFREFISFLE-ENHVDLTN 391 (393)
Q Consensus 366 GHYRPt~enf~~fl~~L~-e~GVDLs~ 391 (393)
||-.|++.-...+++.+. |-|+..+.
T Consensus 66 G~ie~GEt~~eaa~REl~EEtGl~~~~ 92 (165)
T cd02885 66 SHPLPGEGVKDAAQRRLREELGITGDL 92 (165)
T ss_pred CCCCCCCCHHHHHHHHHHHHhCCCccc
Confidence 888888888888888886 46887653
No 8
>TIGR03300 assembly_YfgL outer membrane assembly lipoprotein YfgL. Members of this protein family are YfgL, a lipoprotein component of a complex that acts protein insertion into the bacterial outer membrane. Other members of this complex are NlpB, YfiO, and YaeT. This protein contains multiple copies of a repeat that, in other contexts, are associated with binding of the coenzyme PQQ.
Probab=61.00 E-value=40 Score=32.83 Aligned_cols=77 Identities=14% Similarity=0.282 Sum_probs=46.6
Q ss_pred EeCCeEEEccCCceeec-cCCCEEEEEEeCCCceEEeecCCCCcccc--ccC---CCCccceeeeEEE--ecceEEEEcC
Q 044854 292 VENGKLLYRQSGIPVET-TEGSKWIFVLSTTRALYVGPKKKGSFQHS--SFL---SGGATTAAGRLVA--HNGILEAIWP 363 (393)
Q Consensus 292 IedGrLvy~~sG~~vdT-t~~~kwIFVmdtsg~LYVG~KkkG~FqHS--SFL---aGg~V~AAG~I~V--~nG~Lk~Isp 363 (393)
.++|+++|..+..-..+ .-.+..+||.+.+|.||+=....|....+ .+- ...++++.|.|.+ .+|.|..+++
T Consensus 258 ~~tG~~~W~~~~~~~~~p~~~~~~vyv~~~~G~l~~~d~~tG~~~W~~~~~~~~~~ssp~i~g~~l~~~~~~G~l~~~d~ 337 (377)
T TIGR03300 258 LRSGRVLWKRDASSYQGPAVDDNRLYVTDADGVVVALDRRSGSELWKNDELKYRQLTAPAVVGGYLVVGDFEGYLHWLSR 337 (377)
T ss_pred CCCCcEEEeeccCCccCceEeCCEEEEECCCCeEEEEECCCCcEEEccccccCCccccCEEECCEEEEEeCCCEEEEEEC
Confidence 34677777654111111 01245799999999999988777765432 121 1244566666666 3799988888
Q ss_pred CCCCC
Q 044854 364 YSGHY 368 (393)
Q Consensus 364 ~SGHY 368 (393)
.+|-.
T Consensus 338 ~tG~~ 342 (377)
T TIGR03300 338 EDGSF 342 (377)
T ss_pred CCCCE
Confidence 77743
No 9
>PF13360 PQQ_2: PQQ-like domain; PDB: 3HXJ_B 1YIQ_A 1KV9_A 3Q54_A 2YH3_A 3PRW_A 3P1L_A 3Q7M_A 3Q7O_A 3Q7N_A ....
Probab=58.10 E-value=46 Score=29.42 Aligned_cols=90 Identities=24% Similarity=0.419 Sum_probs=50.3
Q ss_pred hcCCcccceeEEEEEeCCeEEEccCC-ceeec--cCCCEEEEEEeCCCceEEeecCCCCccccccC---------CCCcc
Q 044854 278 TYLGPQERQVFEVVVENGKLLYRQSG-IPVET--TEGSKWIFVLSTTRALYVGPKKKGSFQHSSFL---------SGGAT 345 (393)
Q Consensus 278 kYLspeERe~YeV~IedGrLvy~~sG-~~vdT--t~~~kwIFVmdtsg~LYVG~KkkG~FqHSSFL---------aGg~V 345 (393)
-|..-.+..-|-+-+.+|+++|..+- .++.. .-.+.-+||.+.++.||+=..+.|........ .....
T Consensus 39 v~~~~~~~~l~~~d~~tG~~~W~~~~~~~~~~~~~~~~~~v~v~~~~~~l~~~d~~tG~~~W~~~~~~~~~~~~~~~~~~ 118 (238)
T PF13360_consen 39 VYVASGDGNLYALDAKTGKVLWRFDLPGPISGAPVVDGGRVYVGTSDGSLYALDAKTGKVLWSIYLTSSPPAGVRSSSSP 118 (238)
T ss_dssp EEEEETTSEEEEEETTTSEEEEEEECSSCGGSGEEEETTEEEEEETTSEEEEEETTTSCEEEEEEE-SSCTCSTB--SEE
T ss_pred EEEEcCCCEEEEEECCCCCEEEEeeccccccceeeecccccccccceeeeEecccCCcceeeeeccccccccccccccCc
Confidence 34443444444444458888887641 11111 11234578888888888888777777765311 11222
Q ss_pred ceee-eEEE-e-cceEEEEcCCCCC
Q 044854 346 TAAG-RLVA-H-NGILEAIWPYSGH 367 (393)
Q Consensus 346 ~AAG-~I~V-~-nG~Lk~Isp~SGH 367 (393)
...| .+.+ . +|.|..+++.+|.
T Consensus 119 ~~~~~~~~~~~~~g~l~~~d~~tG~ 143 (238)
T PF13360_consen 119 AVDGDRLYVGTSSGKLVALDPKTGK 143 (238)
T ss_dssp EEETTEEEEEETCSEEEEEETTTTE
T ss_pred eEecCEEEEEeccCcEEEEecCCCc
Confidence 2233 2333 3 7889988888875
No 10
>PF02375 JmjN: jmjN domain; InterPro: IPR003349 Jumonji protein is required for neural tube formation in mice [].There is evidence of domain swapping within the jumonji family of transcription factors []. This domain is often associated with JmjC (see IPR003347 from INTERPRO).; PDB: 2XML_A 2W2I_C 3DXT_A 3DXU_A 2OX0_B 2OQ6_B 2WWJ_A 2Q8D_A 3PDQ_A 2YBK_A ....
Probab=56.85 E-value=5.7 Score=28.23 Aligned_cols=17 Identities=29% Similarity=0.716 Sum_probs=11.6
Q ss_pred CCCCHHHHHHHHHHHHH
Q 044854 368 YHPTEENFREFISFLEE 384 (393)
Q Consensus 368 YRPt~enf~~fl~~L~e 384 (393)
|+||.++|..|+++++.
T Consensus 3 f~Pt~eEF~dp~~yi~~ 19 (34)
T PF02375_consen 3 FYPTMEEFKDPIKYISS 19 (34)
T ss_dssp E---HHHHS-HHHHHHH
T ss_pred ccCCHHHHhCHHHHHHH
Confidence 78999999999999875
No 11
>PF08763 Ca_chan_IQ: Voltage gated calcium channel IQ domain; InterPro: IPR014873 Ca2+ ions are unique in that they not only carry charge but they are also the most widely used of diffusible second messengers. Voltage-dependent Ca2+ channels (VDCC) are a family of molecules that allow cells to couple electrical activity to intracellular Ca2+ signalling. The opening and closing of these channels by depolarizing stimuli, such as action potentials, allows Ca2+ ions to enter neurons down a steep electrochemical gradient, producing transient intracellular Ca2+ signals. Many of the processes that occur in neurons, including transmitter release, gene transcription and metabolism are controlled by Ca2+ influx occurring simultaneously at different cellular locales. The pore is formed by the alpha-1 subunit which incorporates the conduction pore, the voltage sensor and gating apparatus, and the known sites of channel regulation by second messengers, drugs, and toxins []. The activity of this pore is modulated by 4 tightly-coupled subunits: an intracellular beta subunit; a transmembrane gamma subunit; and a disulphide-linked complex of alpha-2 and delta subunits, which are proteolytically cleaved from the same gene product. Properties of the protein including gating voltage-dependence, G protein modulation and kinase susceptibility can be influenced by these subunits. Voltage-gated calcium channels are classified as T, L, N, P, Q and R, and are distinguished by their sensitivity to pharmacological blocks, single-channel conductance kinetics, and voltage-dependence. On the basis of their voltage activation properties, the voltage-gated calcium classes can be further divided into two broad groups: the low (T-type) and high (L, N, P, Q and R-type) threshold-activated channels. The voltage-gated calcium channel alpha 1 subunit contains an IQ domain, named for its isoleucine-glutamine (IQ) motif, which interacts with hydrophobic pockets of Ca2+/calmodulin []. The interaction regulates two self-regulatory calcium dependent feedback mechanisms, calcium dependent inactivation (CDI), and calcium-dependent facilitation (CDF). ; PDB: 3OXQ_F 2F3Z_B 3G43_E 2F3Y_B 2BE6_D 3DVM_B 3BXK_D 2VAY_B 3DVK_B 3BXL_B ....
Probab=52.02 E-value=10 Score=27.48 Aligned_cols=19 Identities=16% Similarity=0.492 Sum_probs=17.0
Q ss_pred HHHHHHHHhhhhhhhhhcc
Q 044854 134 AAAVKLQKVYKSYRTRRNL 152 (393)
Q Consensus 134 ~AA~~iQk~Yr~yRtRR~l 152 (393)
=||..||..||.++.||+-
T Consensus 10 YAt~lI~dyfr~~K~rk~~ 28 (35)
T PF08763_consen 10 YATLLIQDYFRQFKKRKEQ 28 (35)
T ss_dssp HHHHHHHHHHHHHHHHHHH
T ss_pred HHHHHHHHHHHHHHHHHHH
Confidence 4899999999999999863
No 12
>TIGR02150 IPP_isom_1 isopentenyl-diphosphate delta-isomerase, type 1. This model represents type 1 of two non-homologous families of the enzyme isopentenyl-diphosphate delta-isomerase (IPP isomerase). IPP is an essential building block for many compounds, including enzyme cofactors, sterols, and prenyl groups. This inzyme interconverts isopentenyl diphosphate and dimethylallyl diphosphate.
Probab=51.64 E-value=85 Score=27.72 Aligned_cols=59 Identities=19% Similarity=0.229 Sum_probs=36.6
Q ss_pred CEEEEEEeCCCceEEeecCCCCccccccCCCCccceeeeEEEecceEEEEcCCCCCCCCCHHHHHHHHHHHH-HcCCCCC
Q 044854 312 SKWIFVLSTTRALYVGPKKKGSFQHSSFLSGGATTAAGRLVAHNGILEAIWPYSGHYHPTEENFREFISFLE-ENHVDLT 390 (393)
Q Consensus 312 ~kwIFVmdtsg~LYVG~KkkG~FqHSSFLaGg~V~AAG~I~V~nG~Lk~Isp~SGHYRPt~enf~~fl~~L~-e~GVDLs 390 (393)
+..++|+|.+|++++.+...+... ..|.....+ +||--+++ ....++.|+ |-|+++.
T Consensus 29 ~v~v~v~~~~g~vLl~kR~~~k~~----~PG~W~~~~----------------gG~v~~GE--~eaa~REl~EE~Gl~~~ 86 (158)
T TIGR02150 29 AFSVFLFNEEGQLLLQRRALSKIT----WPGVWTNSC----------------CSHPLPGE--LEAAIRRLREELGIPAD 86 (158)
T ss_pred EEEEEEEcCCCeEEEEeccCCCcC----CCCCccccc----------------cCCCCccc--HHHHHHHHHHHHCCCcc
Confidence 567899999999999866433221 123322211 25666666 377777775 6788876
Q ss_pred CC
Q 044854 391 NV 392 (393)
Q Consensus 391 ~V 392 (393)
.+
T Consensus 87 ~~ 88 (158)
T TIGR02150 87 DV 88 (158)
T ss_pred cc
Confidence 43
No 13
>COG4632 EpsL Exopolysaccharide biosynthesis protein related to N-acetylglucosamine-1-phosphodiester alpha-N-acetylglucosaminidase [Carbohydrate transport and metabolism]
Probab=43.06 E-value=34 Score=34.97 Aligned_cols=63 Identities=17% Similarity=0.215 Sum_probs=40.9
Q ss_pred EEEEeCCeEEEccCCceeeccCCCEEEEEEeCCCceEEeecCCCCccccccCCCC-cc-ceeeeEEEecce
Q 044854 289 EVVVENGKLLYRQSGIPVETTEGSKWIFVLSTTRALYVGPKKKGSFQHSSFLSGG-AT-TAAGRLVAHNGI 357 (393)
Q Consensus 289 eV~IedGrLvy~~sG~~vdTt~~~kwIFVmdtsg~LYVG~KkkG~FqHSSFLaGg-~V-~AAG~I~V~nG~ 357 (393)
-++|.||+|+|.+|=.-+. ..+-.|+++.+|+|-|+-.... -+-+++++ .+ .+-|-+.|+||+
T Consensus 156 GfqisdGklvkp~dw~~~t---~ae~~~aftkdG~lkVyg~~sp---a~ll~sngaeasf~fgp~LIkdgk 220 (320)
T COG4632 156 GFQISDGKLVKPYDWAGYT---GAEACVAFTKDGTLKVYGRESP---ADLLISNGAEASFAFGPWLIKDGK 220 (320)
T ss_pred EEEEeCCeEeecCChhhhc---cccceEEEccCCcEEEcCCCCh---HHHHHhccceeeeeeccEEEecCC
Confidence 6788999999976533332 2344788888999999953211 12234443 33 677888888885
No 14
>PF13570 PQQ_3: PQQ-like domain; PDB: 3HXJ_B 3Q54_A.
Probab=42.44 E-value=33 Score=23.53 Aligned_cols=15 Identities=20% Similarity=0.248 Sum_probs=9.3
Q ss_pred EEEEEEeCCCceEEe
Q 044854 313 KWIFVLSTTRALYVG 327 (393)
Q Consensus 313 kwIFVmdtsg~LYVG 327 (393)
..+||.+.+|+||+=
T Consensus 22 g~vyv~~~dg~l~al 36 (40)
T PF13570_consen 22 GRVYVGTGDGNLYAL 36 (40)
T ss_dssp SEEEEE-TTSEEEEE
T ss_pred CEEEEEcCCCEEEEE
Confidence 357777777777763
No 15
>PRK03759 isopentenyl-diphosphate delta-isomerase; Provisional
Probab=40.49 E-value=1.2e+02 Score=27.55 Aligned_cols=59 Identities=20% Similarity=0.216 Sum_probs=38.3
Q ss_pred EEEEEEeCCCceEEeecCCCCccccccCCCCccceeeeEEEecceEEEEcCCCCCCCCCHHHHHHHHHHHH-HcCCCCCC
Q 044854 313 KWIFVLSTTRALYVGPKKKGSFQHSSFLSGGATTAAGRLVAHNGILEAIWPYSGHYHPTEENFREFISFLE-ENHVDLTN 391 (393)
Q Consensus 313 kwIFVmdtsg~LYVG~KkkG~FqHSSFLaGg~V~AAG~I~V~nG~Lk~Isp~SGHYRPt~enf~~fl~~L~-e~GVDLs~ 391 (393)
..++|++.+|++++.+...+.. +| -|.... +-.||-.|++.-....++.|. |-|++..+
T Consensus 37 v~v~i~~~~g~vLL~rR~~~~~---~~-PG~w~~----------------~~gG~ve~GEt~~~aa~REl~EEtGl~~~~ 96 (184)
T PRK03759 37 FSCYLFDADGRLLVTRRALSKK---TW-PGVWTN----------------SCCGHPQPGESLEDAVIRRCREELGVEITD 96 (184)
T ss_pred EEEEEEcCCCeEEEEEccCCCC---CC-CCcccc----------------cccCCCCCCCCHHHHHHHHHHHHhCCCccc
Confidence 4688888888888886533221 11 232221 123899999888888888886 57887654
No 16
>KOG0377 consensus Protein serine/threonine phosphatase RDGC/PPEF, contains STphosphatase and EF-hand domains [Signal transduction mechanisms]
Probab=36.77 E-value=19 Score=38.99 Aligned_cols=22 Identities=32% Similarity=0.442 Sum_probs=19.1
Q ss_pred HHHHHHHHHhhhhhhhhhccCC
Q 044854 133 NAAAVKLQKVYKSYRTRRNLAD 154 (393)
Q Consensus 133 ~~AA~~iQk~Yr~yRtRR~la~ 154 (393)
-+||..|||-||.|-.|+++.-
T Consensus 17 ikaAilIQkWYRr~~ARle~rr 38 (631)
T KOG0377|consen 17 IKAAILIQKWYRRYEARLEARR 38 (631)
T ss_pred HHHHHHHHHHHHHHHHHHHHHH
Confidence 4799999999999999987653
No 17
>PF01453 B_lectin: D-mannose binding lectin; InterPro: IPR001480 A bulb lectin super-family (Amaryllidaceae, Orchidaceae and Aliaceae) contains a ~115-residue-long domain whose overall three dimensional fold is very similar to that of [, ]: Dictyostelium discoideum comitin, an actin binding protein Curculigo latifolia curculin, a sweet tasting and taste-modifying protein This domain generally binds mannose, but in at least one protein, curculin, it is apparently devoid of mannose-binding activity. Each bulb-type lectin domain consists of three sequential beta-sheet subdomains (I, II, III) that are inter-related by pseudo three-fold symmetry. The three subdomains are flat four-stranded, antiparrallel beta-sheets. Together they form a 12-stranded beta-barrel in which the barrel axis coincides with the pseudo 3-fold axis.; GO: 0005529 sugar binding; PDB: 3M7H_A 3M7J_B 3MEZ_D 1DLP_A 1BWU_D 1KJ1_A 1B2P_A 1XD6_A 2DPF_C 2D04_B ....
Probab=36.19 E-value=1.7e+02 Score=24.85 Aligned_cols=63 Identities=19% Similarity=0.310 Sum_probs=39.7
Q ss_pred eEEEEEe-CCeEE-EccCCceeecc----CCC--EEEEEEeCCCceEEeecCCCCccccccCCCCccceeee
Q 044854 287 VFEVVVE-NGKLL-YRQSGIPVETT----EGS--KWIFVLSTTRALYVGPKKKGSFQHSSFLSGGATTAAGR 350 (393)
Q Consensus 287 ~YeV~Ie-dGrLv-y~~sG~~vdTt----~~~--kwIFVmdtsg~LYVG~KkkG~FqHSSFLaGg~V~AAG~ 350 (393)
.|.+++. ||.|+ |+.+|..+=.+ ..+ ...-+|..+|+|.+-.. .+..-=+||-.-..+...|+
T Consensus 20 ~~~L~l~~dGnLvl~~~~~~~iWss~~t~~~~~~~~~~~L~~~GNlvl~d~-~~~~lW~Sf~~ptdt~L~~q 90 (114)
T PF01453_consen 20 NYTLILQSDGNLVLYDSNGSVIWSSNNTSGRGNSGCYLVLQDDGNLVLYDS-SGNVLWQSFDYPTDTLLPGQ 90 (114)
T ss_dssp TEEEEEETTSEEEEEETTTEEEEE--S-TTSS-SSEEEEEETTSEEEEEET-TSEEEEESTTSSS-EEEEEE
T ss_pred cccceECCCCeEEEEcCCCCEEEEecccCCccccCeEEEEeCCCCEEEEee-cceEEEeecCCCccEEEecc
Confidence 4888886 99885 77666666322 222 56677777899999874 44444556666555555544
No 18
>smart00545 JmjN Small domain found in the jumonji family of transcription factors. To date, this domain always co-occurs with the JmjC domain (although the reverse is not true).
Probab=35.53 E-value=24 Score=26.07 Aligned_cols=17 Identities=24% Similarity=0.731 Sum_probs=15.3
Q ss_pred CCCCHHHHHHHHHHHHH
Q 044854 368 YHPTEENFREFISFLEE 384 (393)
Q Consensus 368 YRPt~enf~~fl~~L~e 384 (393)
|+||.++|..++.|++.
T Consensus 5 f~Pt~eEF~Dp~~yi~~ 21 (42)
T smart00545 5 FYPTMEEFKDPLAYISK 21 (42)
T ss_pred EcCCHHHHHCHHHHHHH
Confidence 79999999999999874
No 19
>PF13344 Hydrolase_6: Haloacid dehalogenase-like hydrolase; PDB: 2HO4_B 1YV9_A 1WVI_B 3EPR_A 2P27_A 2OYC_A 2CFT_A 2P69_A 2CFS_A 2CFR_A ....
Probab=34.45 E-value=23 Score=29.45 Aligned_cols=59 Identities=19% Similarity=0.232 Sum_probs=38.8
Q ss_pred EEEeCCCceEEeecCCCCccccccCCCCccceeeeEEEecceEEEEcCCCCCCCCCHHHHHHHHHHHHHcCCCCC
Q 044854 316 FVLSTTRALYVGPKKKGSFQHSSFLSGGATTAAGRLVAHNGILEAIWPYSGHYHPTEENFREFISFLEENHVDLT 390 (393)
Q Consensus 316 FVmdtsg~LYVG~KkkG~FqHSSFLaGg~V~AAG~I~V~nG~Lk~Isp~SGHYRPt~enf~~fl~~L~e~GVDLs 390 (393)
|++|.+|.||.|.+ .+-| ++-+--.|+-.+-.+.-++|.|.+ .-..+...|+..|++.+
T Consensus 1 ~l~D~dGvl~~g~~---------~ipg-a~e~l~~L~~~g~~~~~lTNns~~------s~~~~~~~L~~~Gi~~~ 59 (101)
T PF13344_consen 1 FLFDLDGVLYNGNE---------PIPG-AVEALDALRERGKPVVFLTNNSSR------SREEYAKKLKKLGIPVD 59 (101)
T ss_dssp EEEESTTTSEETTE---------E-TT-HHHHHHHHHHTTSEEEEEES-SSS-------HHHHHHHHHHTTTT--
T ss_pred CEEeCccEeEeCCC---------cCcC-HHHHHHHHHHcCCCEEEEeCCCCC------CHHHHHHHHHhcCcCCC
Confidence 78999999998743 3333 345555555566789999998764 23456677888888764
No 20
>COG2323 Predicted membrane protein [Function unknown]
Probab=34.07 E-value=14 Score=36.02 Aligned_cols=46 Identities=20% Similarity=0.434 Sum_probs=33.8
Q ss_pred ccCCCCccceeeeEEEecceEEEEcCCCCCCCCCHHHHHHHHHHHHHcCC-CCCCCC
Q 044854 338 SFLSGGATTAAGRLVAHNGILEAIWPYSGHYHPTEENFREFISFLEENHV-DLTNVK 393 (393)
Q Consensus 338 SFLaGg~V~AAG~I~V~nG~Lk~Isp~SGHYRPt~enf~~fl~~L~e~GV-DLs~Vk 393 (393)
.||.|.|+ +.|+||+|.. .+-|-..-+...+...|+++|| ++++|+
T Consensus 88 ~~l~G~P~-----vlI~nGki~e-----~~Lkk~rlt~ddL~~~LR~kgi~~l~dV~ 134 (224)
T COG2323 88 KLLEGKPT-----VLIENGKIDE-----ENLKKSRLTIDDLLMKLRQKGIFDLADVE 134 (224)
T ss_pred HhhcCCCE-----EEEeCCeEcH-----HHHHHhcCCHHHHHHHHHHcCCCcHHHhh
Confidence 48888886 6899999975 3333334456678899999998 777764
No 21
>smart00701 PGRP Animal peptidoglycan recognition proteins homologous to Bacteriophage T3 lysozyme. The bacteriophage molecule, but not its moth homologue, has been shown to have N-acetylmuramoyl-L-alanine amidase activity. One member of this family, Tag7, is a cytokine.
Probab=33.97 E-value=1e+02 Score=27.43 Aligned_cols=57 Identities=19% Similarity=0.222 Sum_probs=32.8
Q ss_pred EEEEEEeCCCceEEeecC--CCCccccccCCCCccceeeeEEEecceEEEEcCCCCCCCCCHHHHHHHHHHHH
Q 044854 313 KWIFVLSTTRALYVGPKK--KGSFQHSSFLSGGATTAAGRLVAHNGILEAIWPYSGHYHPTEENFREFISFLE 383 (393)
Q Consensus 313 kwIFVmdtsg~LYVG~Kk--kG~FqHSSFLaGg~V~AAG~I~V~nG~Lk~Isp~SGHYRPt~enf~~fl~~L~ 383 (393)
-+=|+++.+|++|.|..- .|. |.. | .-++.|.|. .| -.-..+.||.+.+......|.
T Consensus 64 gYhflI~~dG~IyeGR~~~~~ga--h~~---g---~N~~sigI~-----~i-G~~~~~~pt~~q~~al~~Li~ 122 (142)
T smart00701 64 GYNFLVGGDGKVYEGRGWNVVGA--HTG---G---YNDISLGIA-----FI-GNFTDKLPTDAALDAAQDLLA 122 (142)
T ss_pred CCeEEEcCCCEEEECCCCCcccc--ccc---C---CCCCeEEEE-----EE-eCCCCCCCcHHHHHHHHHHHH
Confidence 567999999999999763 122 211 1 112223222 11 122457899888877666554
No 22
>PF15537 Toxin_59: Putative toxin 59
Probab=33.52 E-value=47 Score=30.08 Aligned_cols=58 Identities=22% Similarity=0.317 Sum_probs=35.1
Q ss_pred CEEEEEEeCCCceEEeecC----CCCccccccCC----CCccceeeeEEE-ecceEEEEcCCCCCCCC
Q 044854 312 SKWIFVLSTTRALYVGPKK----KGSFQHSSFLS----GGATTAAGRLVA-HNGILEAIWPYSGHYHP 370 (393)
Q Consensus 312 ~kwIFVmdtsg~LYVG~Kk----kG~FqHSSFLa----Gg~V~AAG~I~V-~nG~Lk~Isp~SGHYRP 370 (393)
+.--||.|...+.|+--.. .+.-+|--++. -.+++--|++.= .||.|.- .-+||||--
T Consensus 50 G~~eFVFDP~~~~Fa~G~~~~~~~~~~~H~~la~~iGA~~s~vvGGr~~R~~~G~l~T-newSGHyg~ 116 (125)
T PF15537_consen 50 GSIEFVFDPKTNRFAVGSPRDYGIDVSGHDQLARAIGADESTVVGGRFSRGPNGELST-NEWSGHYGS 116 (125)
T ss_pred CCccEEEcCCcCeEeecCCcccccccchHHHHHHhcCCCCCeeEeeEEEecCCCCEee-ccccccccc
Confidence 4557888877665554322 35556654433 235666677766 5776643 568999954
No 23
>PF13509 S1_2: S1 domain; PDB: 3GO5_A.
Probab=33.49 E-value=44 Score=25.60 Aligned_cols=34 Identities=41% Similarity=0.582 Sum_probs=20.9
Q ss_pred CCceEEeecCCCCccCCC--CCCchhhhhhhhhcCCcccceeEEEEE
Q 044854 248 QPFFYWLDVGDGKEVNLE--KCPRAVLQRQCITYLGPQERQVFEVVV 292 (393)
Q Consensus 248 q~FFyWLD~GeGk~v~le--~cpR~~L~~q~VkYLspeERe~YeV~I 292 (393)
.+|.|+||.|+++++-|+ +||. ..++-+.++|+|
T Consensus 13 ~~~g~fL~~~~~~~vlLp~~e~~~-----------~~~~Gd~v~VFv 48 (61)
T PF13509_consen 13 NEFGYFLDDGEGKEVLLPKSEVPE-----------PLKVGDEVEVFV 48 (61)
T ss_dssp -SSEEEEEETT-EEEEEEGGG-----------------TTSEEEEEE
T ss_pred eCCEEEEECCCCCEEEechHHcCC-----------CCCCCCEEEEEE
Confidence 368899999999998875 4551 245667778876
No 24
>KOG4427 consensus E3 ubiquitin protein ligase [Posttranslational modification, protein turnover, chaperones]
Probab=33.43 E-value=21 Score=40.84 Aligned_cols=24 Identities=33% Similarity=0.416 Sum_probs=21.5
Q ss_pred hHHHHHHHHHHhhhhhhhhhccCC
Q 044854 131 ELNAAAVKLQKVYKSYRTRRNLAD 154 (393)
Q Consensus 131 ~~~~AA~~iQk~Yr~yRtRR~la~ 154 (393)
..++||..||++.|||=+|+.++.
T Consensus 28 rr~~aa~~iq~~lrsyl~Rkk~~~ 51 (1096)
T KOG4427|consen 28 RREAAALFIQRVLRSYLVRKKAQI 51 (1096)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHH
Confidence 567999999999999999998765
No 25
>PF10411 DsbC_N: Disulfide bond isomerase protein N-terminus; InterPro: IPR018950 This is the N-terminal domain of the disulphide bond isomerase DsbC. The whole molecule is V-shaped, where each arm is a DsbC monomer of two domains linked by a hinge; and the N-termini of each monomer join to form the dimer interface at the base of the V, so are vital for dimerisation []. DsbC is required for disulphide bond formation and functions as a disulphide bond isomerase during oxidative protein-folding in bacterial periplasm. It also has chaperone activity []. ; PDB: 1EEJ_B 2IYJ_A 1TJD_A 1JZD_B 1JZO_A 1G0T_B 1T3B_A.
Probab=33.27 E-value=73 Score=24.27 Aligned_cols=27 Identities=33% Similarity=0.773 Sum_probs=16.1
Q ss_pred eEEEEEeCCeEEEccCCceeeccCCCEEEEEEeCCCceE
Q 044854 287 VFEVVVENGKLLYRQSGIPVETTEGSKWIFVLSTTRALY 325 (393)
Q Consensus 287 ~YeV~IedGrLvy~~sG~~vdTt~~~kwIFVmdtsg~LY 325 (393)
-|+|.+.+|.++|. +++++++|+ |+||
T Consensus 25 lyeV~~~~~~i~Y~--------~~dg~yli~----G~l~ 51 (57)
T PF10411_consen 25 LYEVVLKGGGILYV--------DEDGRYLIQ----GQLY 51 (57)
T ss_dssp EEEEEE-TTEEEEE--------ETTSSEEEE----S-EE
T ss_pred eEEEEECCCeEEEE--------cCCCCEEEE----eEEE
Confidence 58888877777765 345555554 5555
No 26
>cd00216 PQQ_DH Dehydrogenases with pyrrolo-quinoline quinone (PQQ) as cofactor, like ethanol, methanol, and membrane bound glucose dehydrogenases. The alignment model contains an 8-bladed beta-propeller.
Probab=30.91 E-value=1.6e+02 Score=30.75 Aligned_cols=92 Identities=16% Similarity=0.163 Sum_probs=57.0
Q ss_pred hhhcCCcccceeEEEEEeCCeEEEccCCcee-------ecc-----CCCEEEEEEeCCCceEEeecCCCCcc--------
Q 044854 276 CITYLGPQERQVFEVVVENGKLLYRQSGIPV-------ETT-----EGSKWIFVLSTTRALYVGPKKKGSFQ-------- 335 (393)
Q Consensus 276 ~VkYLspeERe~YeV~IedGrLvy~~sG~~v-------dTt-----~~~kwIFVmdtsg~LYVG~KkkG~Fq-------- 335 (393)
..-|+......-|-+-...|+++|..+-..- -.. .++.-+||-+.+|.||+=..+.|...
T Consensus 62 g~vy~~~~~g~l~AlD~~tG~~~W~~~~~~~~~~~~~~~~~~g~~~~~~~~V~v~~~~g~v~AlD~~TG~~~W~~~~~~~ 141 (488)
T cd00216 62 GDMYFTTSHSALFALDAATGKVLWRYDPKLPADRGCCDVVNRGVAYWDPRKVFFGTFDGRLVALDAETGKQVWKFGNNDQ 141 (488)
T ss_pred CEEEEeCCCCcEEEEECCCChhhceeCCCCCccccccccccCCcEEccCCeEEEecCCCeEEEEECCCCCEeeeecCCCC
Confidence 3456666555555555568888887532110 000 01257888888999998766544432
Q ss_pred --ccccCCCCccceeeeEEEe-----------cceEEEEcCCCCC
Q 044854 336 --HSSFLSGGATTAAGRLVAH-----------NGILEAIWPYSGH 367 (393)
Q Consensus 336 --HSSFLaGg~V~AAG~I~V~-----------nG~Lk~Isp~SGH 367 (393)
+.-.+.+.+++..|.+.+- +|.|..|+..+|.
T Consensus 142 ~~~~~~i~ssP~v~~~~v~vg~~~~~~~~~~~~g~v~alD~~TG~ 186 (488)
T cd00216 142 VPPGYTMTGAPTIVKKLVIIGSSGAEFFACGVRGALRAYDVETGK 186 (488)
T ss_pred cCcceEecCCCEEECCEEEEeccccccccCCCCcEEEEEECCCCc
Confidence 1112566778887877763 5788999888875
No 27
>PF00235 Profilin: Profilin; InterPro: IPR002097 Profilin is a small eukaryotic protein that binds to monomeric actin (G-actin) in a 1:1 ratio thus preventing the polymerisation of actin into filaments (F-actin). It can also in certain circumstance promote actin polymerisation. Profilin also binds to polyphosphoinositides such as PIP2. Overall sequence similarity among profilin from organisms which belong to different phyla (ranging from fungi to mammals) is low, but the N-terminal region is relatively well conserved. That region is thought to be involved in the binding to actin. A protein structurally similar to profilin is present in the genome of Variola virus and Vaccinia virus (gene A42R). Some of the proteins in this family are allergens. Allergies are hypersensitivity reactions of the immune system to specific substances called allergens (such as pollen, stings, drugs, or food) that, in most people, result in no symptoms. A nomenclature system has been established for antigens (allergens) that cause IgE-mediated atopic allergies in humans [WHO/IUIS Allergen Nomenclature Subcommittee King T.P., Hoffmann D., Loewenstein H., Marsh D.G., Platts-Mills T.A.E., Thomas W. Bull. World Health Organ. 72:797-806(1994)]. This nomenclature system is defined by a designation that is composed of the first three letters of the genus; a space; the first letter of the species name; a space and an arabic number. In the event that two species names have identical designations, they are discriminated from one another by adding one or more letters (as necessary) to each species designation. The allergens in this family include allergens with the following designations: Ara t 8, Bet v 2, Cyn d 12, Hel a 2, Mer a 1 and Phl p 11.; GO: 0003779 actin binding, 0007010 cytoskeleton organization, 0015629 actin cytoskeleton; PDB: 1ACF_A 3NEC_C 2V8F_B 2V8C_A 2VK3_A 2JKF_A 2JKG_A 1F2K_B 2ACG_A 1YPR_B ....
Probab=30.49 E-value=13 Score=31.09 Aligned_cols=43 Identities=19% Similarity=0.389 Sum_probs=33.7
Q ss_pred ccCCCCccceeeeEEEecceEEEEcCCCCCC-CCCHHHHHHHHHHHHH
Q 044854 338 SFLSGGATTAAGRLVAHNGILEAIWPYSGHY-HPTEENFREFISFLEE 384 (393)
Q Consensus 338 SFLaGg~V~AAG~I~V~nG~Lk~Isp~SGHY-RPt~enf~~fl~~L~e 384 (393)
.+++-+.+..|+.+- .||. +|..|+.+ .++++++..+++.|++
T Consensus 9 ~L~~~~~~~~aaI~~-~dG~---vwA~s~~f~~~~~~E~~~i~~~f~~ 52 (121)
T PF00235_consen 9 QLIGTGNITKAAIIG-SDGS---VWASSPGFSNISPEEAKAIIKAFNN 52 (121)
T ss_dssp HHHTTSSESEEEEEE-TTSS---EEEEETTGGGCSHHHHHHHHHHHHS
T ss_pred HhcccCcEeEEEEEc-CCCC---EEEecCCCCCCCHHHHHHHHHHhcC
Confidence 345556688888888 9995 45556668 9999999999998876
No 28
>cd00148 PROF Profilin binds actin monomers, membrane polyphosphoinositides such as PI(4,5)P2, and poly-L-proline. Profilin can inhibit actin polymerization into F-actin by binding to monomeric actin (G-actin) and terminal F-actin subunits, but - as a regulator of the cytoskeleton - it may also promote actin polymerization. It plays a role in the assembly of branched actin filament networks, by activating WASP via binding to WASP's proline rich domain. Profilin may link the cytoskeleton with major signalling pathways by interacting with components of the phosphatidylinositol cycle and Ras pathway.
Probab=29.49 E-value=39 Score=29.39 Aligned_cols=44 Identities=18% Similarity=0.397 Sum_probs=35.6
Q ss_pred ccCCCCccceeeeEEEecceEEEEcCCCCC-CCCCHHHHHHHHHHHHH
Q 044854 338 SFLSGGATTAAGRLVAHNGILEAIWPYSGH-YHPTEENFREFISFLEE 384 (393)
Q Consensus 338 SFLaGg~V~AAG~I~V~nG~Lk~Isp~SGH-YRPt~enf~~fl~~L~e 384 (393)
++++-+.+..|..+..++|. +|..|.- +.++++++..++..+++
T Consensus 9 ~L~~~g~~~~aAI~g~d~g~---vwA~s~~~f~~t~~E~~~i~~~f~d 53 (127)
T cd00148 9 NLLGTGKVDSAAIVGHDDGS---VWAASAGGFNLTPEEVGTLVAGFKD 53 (127)
T ss_pred HHhhcCCcCEEEEEecCCCC---eEEecCCCCccCHHHHHHHHHHccC
Confidence 36666678888888887686 4777888 99999999999997764
No 29
>PF13128 DUF3954: Protein of unknown function (DUF3954)
Probab=29.49 E-value=57 Score=25.42 Aligned_cols=20 Identities=30% Similarity=0.443 Sum_probs=13.2
Q ss_pred eeeEEEecceEEEEc-CCCCC
Q 044854 348 AGRLVAHNGILEAIW-PYSGH 367 (393)
Q Consensus 348 AG~I~V~nG~Lk~Is-p~SGH 367 (393)
-|..+|+||.|..|. |.|||
T Consensus 10 ngiYiV~~G~v~~i~pP~sGf 30 (50)
T PF13128_consen 10 NGIYIVKDGEVTFIEPPESGF 30 (50)
T ss_pred CeEEEEECCeEEEcCCCCCCc
Confidence 466677788888874 45554
No 30
>cd03676 Nudix_hydrolase_3 Members of the Nudix hydrolase superfamily catalyze the hydrolysis of NUcleoside DIphosphates linked to other moieties, X. Enzymes belong to this superfamily requires a divalent cation, such as Mg2+ or Mn2+, for their activity and contain a highly conserved 23-residue nudix motif (GX5EX7REUXEEXGU, where U = I, L or V), which functions as a metal binding and catalytic site. Substrates of nudix hydrolases include intact and oxidatively damaged nucleoside triphosphates, dinucleoside polyphosphates, nucleotide-sugars and dinucleotide enzymes. These substrates are metabolites or cell signaling molecules that require regulation during different stages of the cell cycle or during periods of stress. In general, the role of the nudix hydrolase is to sanitize the nucleotide pools and to maintain cell viability, thereby serving as surveillance & "house-cleaning" enzymes. Substrate specificity is used to define families within the superfamily. Differences in substrate spe
Probab=29.10 E-value=1.8e+02 Score=25.94 Aligned_cols=58 Identities=10% Similarity=0.044 Sum_probs=36.7
Q ss_pred EEEEEEeCC--CceEEeecCCCCccccccCCCCc-cceeeeEEEecceEEEEcCCCCCCCCCHHHHHHHHHHHH-HcCCC
Q 044854 313 KWIFVLSTT--RALYVGPKKKGSFQHSSFLSGGA-TTAAGRLVAHNGILEAIWPYSGHYHPTEENFREFISFLE-ENHVD 388 (393)
Q Consensus 313 kwIFVmdts--g~LYVG~KkkG~FqHSSFLaGg~-V~AAG~I~V~nG~Lk~Isp~SGHYRPt~enf~~fl~~L~-e~GVD 388 (393)
-|+||.+.+ +.||+.+....... | -|.. .++| ||-.|.+.-...+++.|+ |-|++
T Consensus 37 ~~~~~~~~~~~~~l~lqrRs~~K~~---~-Pg~wd~~~~-----------------G~v~~gE~~~~aA~REl~EE~Gl~ 95 (180)
T cd03676 37 LNGYVRDEDGGLRIWIPRRSPTKAT---W-PGMLDNLVA-----------------GGLGHGEGPEETLVKECDEEAGLP 95 (180)
T ss_pred EEEEEEcCCCCeEEEEEeccCCCCC---C-CCceeeecc-----------------cCCCCCCCHHHHHHHHHHHHhCCC
Confidence 457888876 89999987544322 2 3333 2333 455566666777888886 57887
Q ss_pred CCC
Q 044854 389 LTN 391 (393)
Q Consensus 389 Ls~ 391 (393)
...
T Consensus 96 ~~~ 98 (180)
T cd03676 96 EDL 98 (180)
T ss_pred HHH
Confidence 543
No 31
>cd05727 Ig2_Contactin-2-like Second Ig domain of the neural cell adhesion molecule contactin-2 and similar proteins. Ig2_Contactin-2-like: second Ig domain of the neural cell adhesion molecule contactin-2. Contactins are comprised of six Ig domains followed by four fibronectin type III (FnIII) domains anchored to the membrane by glycosylphosphatidylinositol. Contactin-2 (aliases TAG-1, axonin-1) facilitates cell adhesion by homophilic binding between molecules in apposed membranes. The first four Ig domains form the intermolecular binding fragment which arranges as a compact U-shaped module by contacts between Ig domains 1 and 4, and domains 2 and 3. It has been proposed that a linear zipper-like array forms, from contactin-2 molecules alternatively provided by the two apposed membranes.
Probab=28.60 E-value=1.3e+02 Score=25.48 Aligned_cols=33 Identities=21% Similarity=0.284 Sum_probs=22.8
Q ss_pred eEEEccCCceeeccCCCEEEEEEeCCCceEEeec
Q 044854 296 KLLYRQSGIPVETTEGSKWIFVLSTTRALYVGPK 329 (393)
Q Consensus 296 rLvy~~sG~~vdTt~~~kwIFVmdtsg~LYVG~K 329 (393)
.+.|.+++.+.....+.. .||...+|+||+..-
T Consensus 35 ~~~W~k~~~~~~~~~d~r-~~~~~~~G~L~fs~v 67 (96)
T cd05727 35 SYRWLLNEFPNFIPEDGR-RFVSQTNGNLYIAKV 67 (96)
T ss_pred EEEEEECCcccccccCCC-eEEeCCCCcEEEeec
Confidence 556888888754433333 467778999999964
No 32
>KOG0942 consensus E3 ubiquitin protein ligase [Posttranslational modification, protein turnover, chaperones]
Probab=28.54 E-value=27 Score=40.45 Aligned_cols=22 Identities=32% Similarity=0.576 Sum_probs=19.3
Q ss_pred hHHHHHHHHHHhhhhhhhhhcc
Q 044854 131 ELNAAAVKLQKVYKSYRTRRNL 152 (393)
Q Consensus 131 ~~~~AA~~iQk~Yr~yRtRR~l 152 (393)
.++.+|++||+..||||.|++-
T Consensus 27 k~e~~av~vQs~~Rg~~~r~~~ 48 (1001)
T KOG0942|consen 27 KQEKNAVKVQSFWRGFRVRHNQ 48 (1001)
T ss_pred HHhccchHHHHHHHHHHHHHHH
Confidence 4668999999999999999764
No 33
>cd04970 Ig6_Contactin_like Sixth Ig domain of contactin. Ig6_Contactin_like: Sixth Ig domain of contactins. Contactins are neural cell adhesion molecules and are comprised of six Ig domains followed by four fibronectin type III(FnIII) domains anchored to the membrane by glycosylphosphatidylinositol. The first four Ig domains form the intermolecular binding fragment, which arranges as a compact U-shaped module via contacts between Ig domains 1 and 4, and between Ig domains 2 and 3. Contactin-2 (TAG-1, axonin-1) may play a part in the neuronal processes of neurite outgrowth, axon guidance and fasciculation, and neuronal migration. This group also includes contactin-1 and contactin-5. The different contactins show different expression patterns in the central nervous system. During development and in adulthood, contactin-2 is transiently expressed in subsets of central and peripheral neurons. Contactin-5 is expressed specifically in the rat postnatal nervous system, peaking at about 3 week
Probab=28.50 E-value=1.5e+02 Score=22.76 Aligned_cols=59 Identities=12% Similarity=0.253 Sum_probs=38.6
Q ss_pred eEEEccCCceeeccCC-CE--EEEEEeCCCceEEee---cCCCCccccccCCCCccceeeeEEEe
Q 044854 296 KLLYRQSGIPVETTEG-SK--WIFVLSTTRALYVGP---KKKGSFQHSSFLSGGATTAAGRLVAH 354 (393)
Q Consensus 296 rLvy~~sG~~vdTt~~-~k--wIFVmdtsg~LYVG~---KkkG~FqHSSFLaGg~V~AAG~I~V~ 354 (393)
.+.|.++|.+++.... +. -+++.+.+|.|.|.. .+.|.+...-=...+.+.+...|.|.
T Consensus 18 ~~~W~~~g~~i~~~~~~~~~~~~~~~~~~~~L~I~~v~~~D~G~Y~C~a~n~~g~~~~~~~l~V~ 82 (85)
T cd04970 18 TFTWSFNGVPIDFDKDGGHYRRVGGKDSNGDLMIRNAQLKHAGKYTCTAQTVVDSLSASADLIVR 82 (85)
T ss_pred EEEEEECCeEeeccCCCccEEEEecccccceEEEccCCHHhCeeeEEEEecCCCcEEEEEEEEEE
Confidence 4578889999875432 21 245566778998885 36798887644444556666666664
No 34
>PRK14464 ribosomal RNA large subunit methyltransferase N; Provisional
Probab=24.37 E-value=61 Score=33.32 Aligned_cols=26 Identities=15% Similarity=0.160 Sum_probs=23.6
Q ss_pred CCCCCCCCHHHHHHHHHHHHHcCCCC
Q 044854 364 YSGHYHPTEENFREFISFLEENHVDL 389 (393)
Q Consensus 364 ~SGHYRPt~enf~~fl~~L~e~GVDL 389 (393)
.+.|.+|+.+...+|.+.|+.+||..
T Consensus 284 g~~~~rp~~~~i~~f~~~L~~~gi~~ 309 (344)
T PRK14464 284 GDAYRRPSGERIVAMARYLHRRGVLT 309 (344)
T ss_pred CCCccCCCHHHHHHHHHHHHHCCceE
Confidence 46899999999999999999999864
No 35
>COG2335 Secreted and surface protein containing fasciclin-like repeats [Cell envelope biogenesis, outer membrane]
Probab=24.06 E-value=1.7e+02 Score=28.13 Aligned_cols=62 Identities=23% Similarity=0.320 Sum_probs=42.0
Q ss_pred eeEEEEEeCCeEEEccC--CceeeccCCCEEEEEEeCCCceEEeecCCCCccccccCCCCccceeeeEEEecceEEEEcC
Q 044854 286 QVFEVVVENGKLLYRQS--GIPVETTEGSKWIFVLSTTRALYVGPKKKGSFQHSSFLSGGATTAAGRLVAHNGILEAIWP 363 (393)
Q Consensus 286 e~YeV~IedGrLvy~~s--G~~vdTt~~~kwIFVmdtsg~LYVG~KkkG~FqHSSFLaGg~V~AAG~I~V~nG~Lk~Isp 363 (393)
.--.++|.+|++.-++. ..-+.|.++...-+-++.++ +||+ .+.....-|.+.||+|..|+.
T Consensus 114 ~iLtYHVv~Gk~~~~~l~~~~~v~t~~G~~~~i~~~~~~-~~Vn---------------~a~v~~~di~a~NgvIhvID~ 177 (187)
T COG2335 114 KILTYHVVEGKITAADLKSSGSVKTVQGADLKIKVTGGG-VYVN---------------DATVTIADINASNGVIHVIDK 177 (187)
T ss_pred eeeEEEEEcCcccHHHhhccccceeecCceEEEEEcCCc-EEEe---------------eeEEEeccEeccCcEEEEEee
Confidence 34567788999874432 34466666666666655544 9988 444555678889999999874
No 36
>PF09500 YiiD_Cterm: Putative thioesterase (yiiD_Cterm); InterPro: IPR012660 This entry consists of a broadly distributed uncharacterised domain found often as a standalone protein. The member from is described from crystallography work as a putative thioesterase. About half of the members of this family are fused to an N-terminal acetyltransferase domain (IPR000182 from INTERPRO). The function of these proteins are unknown. ; PDB: 1T82_C.
Probab=24.05 E-value=26 Score=31.85 Aligned_cols=38 Identities=21% Similarity=0.520 Sum_probs=19.3
Q ss_pred eeEEEecceEEEEcCCCCCCC-----CCHHHHHHHHHHHHHcC
Q 044854 349 GRLVAHNGILEAIWPYSGHYH-----PTEENFREFISFLEENH 386 (393)
Q Consensus 349 G~I~V~nG~Lk~Isp~SGHYR-----Pt~enf~~fl~~L~e~G 386 (393)
|.|+|.+|.|+++-|..|.++ |+++....|++-|++.|
T Consensus 74 ~~IVi~~~~i~Y~~Pv~~d~~A~~~~~~~~~~~~~~~~l~~~g 116 (144)
T PF09500_consen 74 GDIVIADSNIRYLKPVTGDFTARCSLPEPEDWERFLQTLARGG 116 (144)
T ss_dssp -EEEEEEEEEEE-S---S--EEEEE-------S---GGGGCTS
T ss_pred CcEEEEeCceEEcCCCCCCcEEEEeccccchhHHHHHHHHcCC
Confidence 899999999999999999985 67788888888887655
No 37
>smart00108 B_lectin Bulb-type mannose-specific lectin.
Probab=23.76 E-value=2.2e+02 Score=23.59 Aligned_cols=16 Identities=13% Similarity=0.079 Sum_probs=11.2
Q ss_pred EEEEEeCCCceEEeec
Q 044854 314 WIFVLSTTRALYVGPK 329 (393)
Q Consensus 314 wIFVmdtsg~LYVG~K 329 (393)
.-.+|+.+|+|++-..
T Consensus 56 ~~l~l~~dGnLvl~~~ 71 (114)
T smart00108 56 CTLTLQSDGNLVLYDG 71 (114)
T ss_pred EEEEEeCCCCEEEEeC
Confidence 5567777888887543
No 38
>cd04904 ACT_AAAH ACT domain of the nonheme iron-dependent, aromatic amino acid hydroxylases (AAAH). ACT domain of the nonheme iron-dependent, aromatic amino acid hydroxylases (AAAH): Phenylalanine hydroxylases (PAH), tyrosine hydroxylases (TH) and tryptophan hydroxylases (TPH), both peripheral (TPH1) and neuronal (TPH2) enzymes. This family of enzymes shares a common catalytic mechanism, in which dioxygen is used by an active site containing a single, reduced iron atom to hydroxylate an unactivated aromatic substrate, concomitant with a two-electron oxidation of tetrahydropterin (BH4) cofactor to its quinonoid dihydropterin form. PAH catalyzes the hydroxylation of L-Phe to L-Tyr, the first step in the catabolic degradation of L-Phe; TH catalyses the hydroxylation of L-Tyr to 3,4-dihydroxyphenylalanine, the rate limiting step in the biosynthesis of catecholamines; and TPH catalyses the hydroxylation of L-Trp to 5-hydroxytryptophan, the rate limiting step in the biosynthesis of 5-hydroxy
Probab=23.34 E-value=49 Score=25.88 Aligned_cols=23 Identities=22% Similarity=0.352 Sum_probs=19.7
Q ss_pred CCCHHHHHHHHHHHHHcCCCCCCCC
Q 044854 369 HPTEENFREFISFLEENHVDLTNVK 393 (393)
Q Consensus 369 RPt~enf~~fl~~L~e~GVDLs~Vk 393 (393)
+|+. +...++.|+++||+|++|+
T Consensus 10 ~pG~--L~~vL~~f~~~~iNlt~Ie 32 (74)
T cd04904 10 EVGA--LARALKLFEEFGVNLTHIE 32 (74)
T ss_pred CCcH--HHHHHHHHHHCCCcEEEEE
Confidence 5664 9999999999999998763
No 39
>TIGR03075 PQQ_enz_alc_DH PQQ-dependent dehydrogenase, methanol/ethanol family. This protein family has a phylogenetic distribution very similar to that coenzyme PQQ biosynthesis enzymes, as shown by partial phylogenetic profiling. Genes in this family often are found adjacent to the PQQ biosynthesis genes themselves. An unusual, strained disulfide bond between adjacent Cys residues contributes to PQQ-binding, as does a Trp residue that is part of a PQQ enzyme repeat (see pfam01011). Characterized members include the dehydrogenase subunit of a membrane-anchored, three subunit alcohol (ethanol) dehydrogenase of Gluconobacter suboxydans, a homodimeric ethanol dehydrogenase in Pseudomonas aeruginosa, and the large subunit of an alpha2/beta2 heterotetrameric methanol dehydrogenase in Methylobacterium extorquens.
Probab=23.07 E-value=3.4e+02 Score=29.07 Aligned_cols=96 Identities=14% Similarity=0.191 Sum_probs=58.9
Q ss_pred hhhhhhcCCcccceeEEEEEeCCeEEEccCCce-ee--------ccCC-----CEEEEEEeCCCceEEeecCCCCcc---
Q 044854 273 QRQCITYLGPQERQVFEVVVENGKLLYRQSGIP-VE--------TTEG-----SKWIFVLSTTRALYVGPKKKGSFQ--- 335 (393)
Q Consensus 273 ~~q~VkYLspeERe~YeV~IedGrLvy~~sG~~-vd--------Tt~~-----~kwIFVmdtsg~LYVG~KkkG~Fq--- 335 (393)
....+-|++-....-|-+-...|+++|..+-.. .. +..+ +.-|||.+.+|.||+=..+.|...
T Consensus 67 v~~g~vyv~s~~g~v~AlDa~TGk~lW~~~~~~~~~~~~~~~~~~~~rg~av~~~~v~v~t~dg~l~ALDa~TGk~~W~~ 146 (527)
T TIGR03075 67 VVDGVMYVTTSYSRVYALDAKTGKELWKYDPKLPDDVIPVMCCDVVNRGVALYDGKVFFGTLDARLVALDAKTGKVVWSK 146 (527)
T ss_pred EECCEEEEECCCCcEEEEECCCCceeeEecCCCCcccccccccccccccceEECCEEEEEcCCCEEEEEECCCCCEEeec
Confidence 334566765444444444455899998864211 00 0011 235888888999998766555442
Q ss_pred ----c--cccCCCCccceeeeEEEe--------cceEEEEcCCCCCC
Q 044854 336 ----H--SSFLSGGATTAAGRLVAH--------NGILEAIWPYSGHY 368 (393)
Q Consensus 336 ----H--SSFLaGg~V~AAG~I~V~--------nG~Lk~Isp~SGHY 368 (393)
+ .....+.|+++-|.|.|- +|.|..++..+|.-
T Consensus 147 ~~~~~~~~~~~tssP~v~~g~Vivg~~~~~~~~~G~v~AlD~~TG~~ 193 (527)
T TIGR03075 147 KNGDYKAGYTITAAPLVVKGKVITGISGGEFGVRGYVTAYDAKTGKL 193 (527)
T ss_pred ccccccccccccCCcEEECCEEEEeecccccCCCcEEEEEECCCCce
Confidence 1 112345677777877774 58999999999864
No 40
>KOG1539 consensus WD repeat protein [General function prediction only]
Probab=22.80 E-value=1.8e+02 Score=33.88 Aligned_cols=84 Identities=19% Similarity=0.343 Sum_probs=50.4
Q ss_pred EccCCceeeccCC-CEEEEEEeCCCceEEeec---CCCCccccccCCCCccc-eee-----eEEEe---cceEEEEcCCC
Q 044854 299 YRQSGIPVETTEG-SKWIFVLSTTRALYVGPK---KKGSFQHSSFLSGGATT-AAG-----RLVAH---NGILEAIWPYS 365 (393)
Q Consensus 299 y~~sG~~vdTt~~-~kwIFVmdtsg~LYVG~K---kkG~FqHSSFLaGg~V~-AAG-----~I~V~---nG~Lk~Isp~S 365 (393)
++.+|.|+=.+.. +-.|++-|.+++=.++.- .-|...-..||.|.||+ .|| .+-|- ||.=+.+.-.+
T Consensus 252 FrtDG~p~las~~~~G~m~~wDLe~kkl~~v~~nah~~sv~~~~fl~~epVl~ta~~DnSlk~~vfD~~dg~pR~LR~R~ 331 (910)
T KOG1539|consen 252 FRTDGNPLLASGRSNGDMAFWDLEKKKLINVTRNAHYGSVTGATFLPGEPVLVTAGADNSLKVWVFDSGDGVPRLLRSRG 331 (910)
T ss_pred eccCCCeeEEeccCCceEEEEEcCCCeeeeeeeccccCCcccceecCCCceEeeccCCCceeEEEeeCCCCcchheeecc
Confidence 3344555433332 244666676655444432 24555667899999865 344 23333 48778888889
Q ss_pred CCCCCCHHHHHHHHHHHHHcCC
Q 044854 366 GHYHPTEENFREFISFLEENHV 387 (393)
Q Consensus 366 GHYRPt~enf~~fl~~L~e~GV 387 (393)
|||.|+ .+|+|..++|.
T Consensus 332 GHs~Pp-----~~irfy~~~g~ 348 (910)
T KOG1539|consen 332 GHSAPP-----SCIRFYGSQGH 348 (910)
T ss_pred CCCCCc-----hheeeeccCcE
Confidence 999998 35566655553
No 41
>cd00216 PQQ_DH Dehydrogenases with pyrrolo-quinoline quinone (PQQ) as cofactor, like ethanol, methanol, and membrane bound glucose dehydrogenases. The alignment model contains an 8-bladed beta-propeller.
Probab=21.53 E-value=4.2e+02 Score=27.69 Aligned_cols=75 Identities=12% Similarity=0.029 Sum_probs=46.4
Q ss_pred EEEEEeCCeEEEccCCc----------eeec---cCCCEEEEEEeCCCceEEeecCCCCccccccCCCCccceeeeEEEe
Q 044854 288 FEVVVENGKLLYRQSGI----------PVET---TEGSKWIFVLSTTRALYVGPKKKGSFQHSSFLSGGATTAAGRLVAH 354 (393)
Q Consensus 288 YeV~IedGrLvy~~sG~----------~vdT---t~~~kwIFVmdtsg~LYVG~KkkG~FqHSSFLaGg~V~AAG~I~V~ 354 (393)
+-+-..+|+++|.++-. +.-+ .-.+..+||-+.+|.||+=..+.|...=+ +--|+++.++=.+.+.
T Consensus 369 ~AlD~~tG~~~W~~~~~~~~~~~~~g~~~~~~~~~~~g~~v~~g~~dG~l~ald~~tG~~lW~-~~~~~~~~a~P~~~~~ 447 (488)
T cd00216 369 AALDPKTGKVVWEKREGTIRDSWNIGFPHWGGSLATAGNLVFAGAADGYFRAFDATTGKELWK-FRTPSGIQATPMTYEV 447 (488)
T ss_pred EEEeCCCCcEeeEeeCCccccccccCCcccCcceEecCCeEEEECCCCeEEEEECCCCceeeE-EECCCCceEcCEEEEe
Confidence 33334599999987522 1111 01345799999999999998888877643 3335555554444455
Q ss_pred cceEEEEcC
Q 044854 355 NGILEAIWP 363 (393)
Q Consensus 355 nG~Lk~Isp 363 (393)
+|++-....
T Consensus 448 ~g~~yv~~~ 456 (488)
T cd00216 448 NGKQYVGVM 456 (488)
T ss_pred CCEEEEEEE
Confidence 666655554
No 42
>COG1520 FOG: WD40-like repeat [Function unknown]
Probab=20.94 E-value=3.7e+02 Score=26.55 Aligned_cols=29 Identities=17% Similarity=0.302 Sum_probs=19.7
Q ss_pred cCCCCccceeeeEEEe--cceEEEEcCCCCC
Q 044854 339 FLSGGATTAAGRLVAH--NGILEAIWPYSGH 367 (393)
Q Consensus 339 FLaGg~V~AAG~I~V~--nG~Lk~Isp~SGH 367 (393)
...+.++..-|.+.+. +|.+..|.+..|=
T Consensus 144 ~~~~~~v~~~~~v~~~s~~g~~~al~~~tG~ 174 (370)
T COG1520 144 YYASPPVVGDGTVYVGTDDGHLYALNADTGT 174 (370)
T ss_pred EEecCcEEcCcEEEEecCCCeEEEEEccCCc
Confidence 3456667777777776 5788777777663
No 43
>COG4787 FlgF Flagellar basal body rod protein [Cell motility and secretion]
Probab=20.60 E-value=2.1e+02 Score=28.71 Aligned_cols=75 Identities=24% Similarity=0.425 Sum_probs=47.2
Q ss_pred CeEEEccCCceeec-cCCCEEEEEEeCC--------CceEEeecCCCCcc-ccccCCCCccceeeeEEEe---cceEEEE
Q 044854 295 GKLLYRQSGIPVET-TEGSKWIFVLSTT--------RALYVGPKKKGSFQ-HSSFLSGGATTAAGRLVAH---NGILEAI 361 (393)
Q Consensus 295 GrLvy~~sG~~vdT-t~~~kwIFVmdts--------g~LYVG~KkkG~Fq-HSSFLaGg~V~AAG~I~V~---nG~Lk~I 361 (393)
|.|.|- |.++|- ..+.-|+=|.+++ |+|-|+.+..-..| |--+--|+|++--=..+|+ ||.|.++
T Consensus 69 G~l~~T--gR~LDvaiq~DGwlaVq~~dG~EaYTRnG~~qI~a~g~lTiqg~pViG~ggpI~vPp~~~v~I~~DGtIsa~ 146 (251)
T COG4787 69 GSLDYT--GRPLDVAIQGDGWLAVQDADGSEAYTRNGNIQIDATGQLTIQGHPVIGEGGPITVPPGAKVTIAADGTISAL 146 (251)
T ss_pred cccccc--CCcceEEEccCceEEEEcCCCcchheecCceEECcccceecCCCeeecCCCccccCCCceEEEecCceEEec
Confidence 555443 555553 2456788888775 56667766555555 4333347777665555554 9999999
Q ss_pred cCCCCCCCCCHH
Q 044854 362 WPYSGHYHPTEE 373 (393)
Q Consensus 362 sp~SGHYRPt~e 373 (393)
.+ ||=-++.+
T Consensus 147 ~~--g~~~~~va 156 (251)
T COG4787 147 NP--GDPANTVA 156 (251)
T ss_pred cC--CCCCCcee
Confidence 98 88666654
No 44
>TIGR03074 PQQ_membr_DH membrane-bound PQQ-dependent dehydrogenase, glucose/quinate/shikimate family. This protein family has a phylogenetic distribution very similar to that coenzyme PQQ biosynthesis enzymes, as shown by partial phylogenetic profiling. Members of this family have several predicted transmembrane helices in the N-terminal region, and include the quinoprotein glucose dehydrogenase (EC 1.1.5.2) of Escherichia coli and the quinate/shikimate dehydrogenase of Acinetobacter sp. ADP1 (EC 1.1.99.25). Sequences closely related except for the absense of the N-terminal hydrophobic region, scoring in the gray zone between the trusted and noise cutoffs, include PQQ-dependent glycerol (EC 1.1.99.22) and and other polyol (sugar alcohol) dehydrogenases.
Probab=20.51 E-value=3.9e+02 Score=30.46 Aligned_cols=55 Identities=15% Similarity=0.208 Sum_probs=39.2
Q ss_pred EEEEEEeCCCceEEeecCCCCcccc--------------------ccCCCCccceeeeEEEe------------cceEEE
Q 044854 313 KWIFVLSTTRALYVGPKKKGSFQHS--------------------SFLSGGATTAAGRLVAH------------NGILEA 360 (393)
Q Consensus 313 kwIFVmdtsg~LYVG~KkkG~FqHS--------------------SFLaGg~V~AAG~I~V~------------nG~Lk~ 360 (393)
.-|||.+.+|+||+=..+.|...-+ -...+.++++-|.++|- +|.|++
T Consensus 261 ~rV~~~T~Dg~LiALDA~TGk~~W~fg~~G~vdl~~~~g~~~~g~~~~ts~P~V~~g~VIvG~~v~d~~~~~~~~G~I~A 340 (764)
T TIGR03074 261 RRIILPTSDARLIALDADTGKLCEDFGNNGTVDLTAGMGTTPPGYYYPTSPPLVAGTTVVIGGRVADNYSTDEPSGVIRA 340 (764)
T ss_pred CEEEEecCCCeEEEEECCCCCEEEEecCCCceeeecccCcCCCcccccccCCEEECCEEEEEecccccccccCCCcEEEE
Confidence 3689999999999987766665421 01345567777777774 588999
Q ss_pred EcCCCCC
Q 044854 361 IWPYSGH 367 (393)
Q Consensus 361 Isp~SGH 367 (393)
++..+|.
T Consensus 341 ~Da~TGk 347 (764)
T TIGR03074 341 FDVNTGA 347 (764)
T ss_pred EECCCCc
Confidence 9988885
Done!