Query psy12529
Match_columns 39
No_of_seqs 112 out of 990
Neff 5.8
Searched_HMMs 46136
Date Fri Aug 16 21:38:43 2013
Command hhsearch -i /work/01045/syshi/Psyhhblits/psy12529.a3m -d /work/01045/syshi/HHdatabase/Cdd.hhm -o /work/01045/syshi/hhsearch_cdd/12529hhsearch_cdd -cpu 12 -v 0
No Hit Prob E-value P-value Score SS Cols Query HMM Template HMM
1 KOG1175|consensus 98.4 2E-07 4.4E-12 63.2 3.1 33 1-34 592-624 (626)
2 PTZ00237 acetyl-CoA synthetase 98.2 1.4E-06 3E-11 57.1 3.7 34 1-35 613-646 (647)
3 PRK10524 prpE propionyl-CoA sy 98.1 3.6E-06 7.7E-11 54.2 3.8 35 1-36 595-629 (629)
4 TIGR02316 propion_prpE propion 97.9 1.3E-05 2.9E-10 51.9 3.4 34 1-35 594-627 (628)
5 PLN02654 acetate-CoA ligase 97.9 2E-05 4.2E-10 51.9 3.9 34 1-34 630-664 (666)
6 TIGR01217 ac_ac_CoA_syn acetoa 97.9 1.7E-05 3.6E-10 52.0 3.4 32 1-33 616-647 (652)
7 PRK03584 acetoacetyl-CoA synth 97.6 8E-05 1.7E-09 48.4 3.5 32 1-33 615-649 (655)
8 TIGR02188 Ac_CoA_lig_AcsA acet 97.6 8.5E-05 1.8E-09 47.9 3.5 32 1-32 592-624 (625)
9 PRK00174 acetyl-CoA synthetase 97.4 0.00025 5.5E-09 45.9 3.5 36 1-36 600-635 (637)
10 PRK09188 serine/threonine prot 81.7 2.4 5.2E-05 27.3 3.3 31 1-33 318-349 (365)
11 COG5583 Uncharacterized small 71.9 3 6.6E-05 20.9 1.4 16 20-35 4-19 (54)
12 PRK04319 acetyl-CoA synthetase 63.7 7.2 0.00016 25.1 2.3 22 1-23 549-570 (570)
13 PF05952 ComX: Bacillus compet 54.1 8 0.00017 19.4 1.0 12 21-32 10-21 (57)
14 COG3077 RelB DNA-damage-induci 51.1 39 0.00085 18.2 3.5 35 1-35 34-68 (88)
15 COG0365 Acs Acyl-coenzyme A sy 45.8 14 0.0003 25.2 1.4 11 1-11 512-522 (528)
16 PRK09261 phospho-2-dehydro-3-d 43.6 26 0.00057 23.0 2.4 31 2-32 40-74 (349)
17 PF09664 DUF2399: Protein of u 43.1 58 0.0013 18.6 3.6 18 18-35 21-38 (152)
18 PF14726 RTTN_N: Rotatin, an a 40.8 46 0.001 18.0 2.8 31 2-35 29-59 (98)
19 PF14242 DUF4342: Domain of un 39.8 18 0.00039 19.1 1.0 24 16-39 8-31 (84)
20 PRK12755 phospho-2-dehydro-3-d 39.4 35 0.00076 22.5 2.5 32 2-33 41-76 (353)
21 TIGR00034 aroFGH phospho-2-deh 36.9 40 0.00087 22.2 2.5 31 2-32 35-69 (344)
22 PF03241 HpaB: 4-hydroxyphenyl 35.7 21 0.00045 21.3 1.0 35 2-37 105-141 (205)
23 PRK12822 phospho-2-dehydro-3-d 34.2 45 0.00098 22.1 2.4 32 2-33 40-75 (356)
24 PF14575 EphA2_TM: Ephrin type 33.8 19 0.00041 18.5 0.5 12 14-25 52-63 (75)
25 PRK12756 phospho-2-dehydro-3-d 31.6 54 0.0012 21.7 2.5 30 2-31 39-72 (348)
26 COG2747 FlgM Negative regulato 30.8 32 0.00068 18.7 1.1 20 19-38 55-74 (93)
27 PF02084 Bindin: Bindin; Inte 30.8 38 0.00082 21.4 1.6 18 18-35 144-161 (238)
28 COG0425 SirA Predicted redox p 30.7 16 0.00034 18.8 -0.1 31 2-35 23-53 (78)
29 COG4262 Predicted spermidine s 30.5 42 0.00091 23.2 1.9 19 16-34 489-507 (508)
30 PF06345 Drf_DAD: DRF Autoregu 30.2 24 0.00052 13.3 0.4 13 26-38 2-14 (15)
31 PF03130 HEAT_PBS: PBS lyase H 29.5 39 0.00085 13.7 1.1 15 20-34 11-25 (27)
32 TIGR02310 HpaB-2 4-hydroxyphen 29.4 69 0.0015 22.0 2.7 34 2-36 389-425 (519)
33 KOG4028|consensus 27.0 37 0.00081 20.2 1.0 30 4-33 123-152 (175)
34 COG2450 Uncharacterized conser 27.0 52 0.0011 18.9 1.6 31 4-34 57-88 (124)
35 PF11027 DUF2615: Protein of u 25.8 33 0.00071 19.0 0.6 12 1-12 18-29 (103)
36 PF05073 Baculo_p24: Baculovir 25.7 44 0.00095 20.4 1.2 12 1-12 91-102 (182)
37 PRK04966 hypothetical protein; 25.5 1.1E+02 0.0024 15.9 2.7 36 1-38 13-50 (72)
38 PF03449 GreA_GreB_N: Transcri 25.0 76 0.0017 16.1 1.9 17 22-38 25-41 (74)
39 PF12427 DUF3665: Branched-cha 24.4 31 0.00067 14.4 0.3 14 21-34 9-22 (23)
40 PF12765 Cohesin_HEAT: HEAT re 23.9 81 0.0017 14.2 1.7 18 17-34 10-27 (42)
41 PF13040 DUF3901: Protein of u 23.9 63 0.0014 15.0 1.3 15 20-34 19-33 (40)
42 PF05524 PEP-utilisers_N: PEP- 23.3 27 0.00059 18.6 -0.0 18 20-37 76-93 (123)
43 COG1029 FwdB Formylmethanofura 22.9 56 0.0012 22.3 1.4 23 14-36 405-427 (429)
44 cd07071 NR_LBD_Nurr1 The ligan 22.6 1.6E+02 0.0035 17.8 3.2 27 4-34 145-171 (238)
45 PRK00304 hypothetical protein; 21.6 1.4E+02 0.0031 15.6 2.5 35 2-38 14-49 (75)
46 PRK11509 hydrogenase-1 operon 21.4 1.3E+02 0.0027 17.1 2.5 24 14-37 45-68 (132)
47 PF07171 MlrC_C: MlrC C-termin 21.4 69 0.0015 18.7 1.4 30 4-33 20-49 (177)
48 TIGR03824 FlgM_jcvi flagellar 21.0 75 0.0016 16.6 1.4 16 23-38 64-79 (95)
49 COG0669 CoaD Phosphopantethein 20.3 1.9E+02 0.0042 17.2 3.2 28 4-34 131-158 (159)
50 PRK13586 1-(5-phosphoribosyl)- 20.1 94 0.002 18.8 1.9 20 17-36 102-121 (232)
No 1
>KOG1175|consensus
Probab=98.42 E-value=2e-07 Score=63.21 Aligned_cols=33 Identities=55% Similarity=0.700 Sum_probs=31.1
Q ss_pred ChHHHHHHHhCCCCCCCCCccCCHHHHHHHHhhc
Q psy12529 1 MRRVLRKVAVNDREVGDKSTLADEDVVDELFQNR 34 (39)
Q Consensus 1 mRr~Lr~i~~g~~~~gd~sTl~dp~vl~~I~~~~ 34 (39)
|||+||+|+.|+ .+||+||++||+++++|++..
T Consensus 592 mRr~lrki~~g~-~~~d~st~~dp~v~~~~~~~~ 624 (626)
T KOG1175|consen 592 MRRALRKIASGK-AVGDTSTLADPSVIDHLRSIL 624 (626)
T ss_pred HHHHHHHHhccC-ccccccccCChHHHHHHHHhh
Confidence 799999999998 899999999999999998764
No 2
>PTZ00237 acetyl-CoA synthetase; Provisional
Probab=98.24 E-value=1.4e-06 Score=57.08 Aligned_cols=34 Identities=9% Similarity=0.120 Sum_probs=30.6
Q ss_pred ChHHHHHHHhCCCCCCCCCccCCHHHHHHHHhhcC
Q psy12529 1 MRRVLRKVAVNDREVGDKSTLADEDVVDELFQNRP 35 (39)
Q Consensus 1 mRr~Lr~i~~g~~~~gd~sTl~dp~vl~~I~~~~~ 35 (39)
+|+.||++++|. .++|+|||+||+++++|++.++
T Consensus 613 ~R~~Lr~~~~~~-~~~~~~~~~~~~~~~~~~~~~~ 646 (647)
T PTZ00237 613 PRQIISKFLNDS-NYQLPDNVNDSEIFYKIKELYM 646 (647)
T ss_pred eHHHHHHHHcCC-CCCCCccccCHHHHHHHHHHhh
Confidence 699999999886 8999999999999999987653
No 3
>PRK10524 prpE propionyl-CoA synthetase; Provisional
Probab=98.12 E-value=3.6e-06 Score=54.21 Aligned_cols=35 Identities=26% Similarity=0.459 Sum_probs=31.3
Q ss_pred ChHHHHHHHhCCCCCCCCCccCCHHHHHHHHhhcCC
Q psy12529 1 MRRVLRKVAVNDREVGDKSTLADEDVVDELFQNRPE 36 (39)
Q Consensus 1 mRr~Lr~i~~g~~~~gd~sTl~dp~vl~~I~~~~~~ 36 (39)
+|+.||+++.|. +++|+|||+||+++++|++++.+
T Consensus 595 ~R~~L~~~~~~~-~~~~~~~~~~~~~~~~~~~~~~~ 629 (629)
T PRK10524 595 LRRAIQAIAEGR-DPGDLTTIEDPAALQQIRQALEE 629 (629)
T ss_pred HHHHHHHHHcCC-CCCCcccccCHHHHHHHHHHhhC
Confidence 589999999986 89999999999999999987653
No 4
>TIGR02316 propion_prpE propionate--CoA ligase. This family contains one of three readily separable clades of proteins in the group of acetate and propionate--CoA ligases. Characterized members of this family act on propionate. From propionyl-CoA, there is a cyclic degradation pathway: it is ligated by PrpC to the TCA cycle intermediate oxaloacetate, acted upon further by PrpD and an aconitase, then cleaved by PrpB to pyruvate and the TCA cycle intermediate succinate.
Probab=97.90 E-value=1.3e-05 Score=51.88 Aligned_cols=34 Identities=21% Similarity=0.416 Sum_probs=30.7
Q ss_pred ChHHHHHHHhCCCCCCCCCccCCHHHHHHHHhhcC
Q psy12529 1 MRRVLRKVAVNDREVGDKSTLADEDVVDELFQNRP 35 (39)
Q Consensus 1 mRr~Lr~i~~g~~~~gd~sTl~dp~vl~~I~~~~~ 35 (39)
+|+.||+++.|. +++|++|++||+++++|++.++
T Consensus 594 ~r~~L~~~~~~~-~~~~~~~~~~~~~~~~~~~~~~ 627 (628)
T TIGR02316 594 LRRSIQALAEGR-DPGDLTTIDDPGALEQVRRAME 627 (628)
T ss_pred HHHHHHHHHcCC-CCCCcccccCHHHHHHHHHHhh
Confidence 589999999986 8999999999999999988654
No 5
>PLN02654 acetate-CoA ligase
Probab=97.88 E-value=2e-05 Score=51.89 Aligned_cols=34 Identities=56% Similarity=0.773 Sum_probs=29.8
Q ss_pred ChHHHHHHHhCCC-CCCCCCccCCHHHHHHHHhhc
Q psy12529 1 MRRVLRKVAVNDR-EVGDKSTLADEDVVDELFQNR 34 (39)
Q Consensus 1 mRr~Lr~i~~g~~-~~gd~sTl~dp~vl~~I~~~~ 34 (39)
+||.||+++.|.. +++|+|||+||+++++|++..
T Consensus 630 ~r~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 664 (666)
T PLN02654 630 MRRILRKIASRQLDELGDTSTLADPGVVDQLIALA 664 (666)
T ss_pred hHHHHHHHHcCCCCCCCCcccccCHHHHHHHHHhh
Confidence 6999999999742 589999999999999998764
No 6
>TIGR01217 ac_ac_CoA_syn acetoacetyl-CoA synthase. This enzyme catalyzes the first step of the mevalonate pathway of IPP biosynthesis. Most bacteria do not use this pathway, but rather the deoxyxylulose pathway.
Probab=97.86 E-value=1.7e-05 Score=52.03 Aligned_cols=32 Identities=9% Similarity=0.223 Sum_probs=29.2
Q ss_pred ChHHHHHHHhCCCCCCCCCccCCHHHHHHHHhh
Q psy12529 1 MRRVLRKVAVNDREVGDKSTLADEDVVDELFQN 33 (39)
Q Consensus 1 mRr~Lr~i~~g~~~~gd~sTl~dp~vl~~I~~~ 33 (39)
|||.||++++|+ +++++|||+||++++++++.
T Consensus 616 ~r~~Lr~~~~~~-~~~~~~~~~~~~~l~~~~~~ 647 (652)
T TIGR01217 616 VEVAVKRVLQGT-PVDNPGAIDNPELLDLYEEL 647 (652)
T ss_pred hHHHHHHHHcCC-CCCCcccccCHHHHHHHHHH
Confidence 699999999986 89999999999999999764
No 7
>PRK03584 acetoacetyl-CoA synthetase; Provisional
Probab=97.60 E-value=8e-05 Score=48.45 Aligned_cols=32 Identities=16% Similarity=0.240 Sum_probs=28.5
Q ss_pred ChHHHHHHHhCCCCCC---CCCccCCHHHHHHHHhh
Q psy12529 1 MRRVLRKVAVNDREVG---DKSTLADEDVVDELFQN 33 (39)
Q Consensus 1 mRr~Lr~i~~g~~~~g---d~sTl~dp~vl~~I~~~ 33 (39)
+||.||+++.|. +++ |+||++||+++++|++.
T Consensus 615 ~r~~lr~~~~~~-~~~~~~~~~~~~~~~~~~~~~~~ 649 (655)
T PRK03584 615 VELPVKKLLHGR-PVKKAVNRDALANPEALDWFADL 649 (655)
T ss_pred hHHHHHHHHcCC-CCCCCCCcccccCHHHHHHHHHH
Confidence 699999999986 677 99999999999999764
No 8
>TIGR02188 Ac_CoA_lig_AcsA acetate--CoA ligase. This model describes acetate-CoA ligase (EC 6.2.1.1), also called acetyl-CoA synthetase and acetyl-activating enzyme. It catalyzes the reaction ATP + acetate + CoA = AMP + diphosphate + acetyl-CoA and belongs to the family of AMP-binding enzymes described by Pfam model pfam00501.
Probab=97.59 E-value=8.5e-05 Score=47.90 Aligned_cols=32 Identities=53% Similarity=0.835 Sum_probs=28.1
Q ss_pred ChHHHHHHHhCCC-CCCCCCccCCHHHHHHHHh
Q psy12529 1 MRRVLRKVAVNDR-EVGDKSTLADEDVVDELFQ 32 (39)
Q Consensus 1 mRr~Lr~i~~g~~-~~gd~sTl~dp~vl~~I~~ 32 (39)
+|+.||+++.|+. .++++||++||+++++|++
T Consensus 592 ~r~~l~~~~~~~~~~~~~~~~~~~p~~~~~~~~ 624 (625)
T TIGR02188 592 MRRLLRKIAAGEEEILGDTSTLEDPSVVEELIE 624 (625)
T ss_pred hHHHHHHHHcCCCCCCCCcccccCHHHHHHHHh
Confidence 5899999999863 3899999999999999975
No 9
>PRK00174 acetyl-CoA synthetase; Provisional
Probab=97.35 E-value=0.00025 Score=45.92 Aligned_cols=36 Identities=50% Similarity=0.783 Sum_probs=30.4
Q ss_pred ChHHHHHHHhCCCCCCCCCccCCHHHHHHHHhhcCC
Q psy12529 1 MRRVLRKVAVNDREVGDKSTLADEDVVDELFQNRPE 36 (39)
Q Consensus 1 mRr~Lr~i~~g~~~~gd~sTl~dp~vl~~I~~~~~~ 36 (39)
+|+.|++++.++...+++|+++||+++++|++...+
T Consensus 600 ~R~~L~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 635 (637)
T PRK00174 600 MRRILRKIAEGEEILGDTSTLADPSVVEKLIEARQN 635 (637)
T ss_pred HHHHHHHHHcCCCCCCCcccccCHHHHHHHHHHHhh
Confidence 489999999875248999999999999999987643
No 10
>PRK09188 serine/threonine protein kinase; Provisional
Probab=81.68 E-value=2.4 Score=27.31 Aligned_cols=31 Identities=23% Similarity=0.287 Sum_probs=20.3
Q ss_pred ChHHHHHHHhCCC-CCCCCCccCCHHHHHHHHhh
Q psy12529 1 MRRVLRKVAVNDR-EVGDKSTLADEDVVDELFQN 33 (39)
Q Consensus 1 mRr~Lr~i~~g~~-~~gd~sTl~dp~vl~~I~~~ 33 (39)
.|+.||.++.+.. .++|+ +.||++..++++.
T Consensus 318 ~R~~Lr~~~~~~~~~l~~~--~~~~~~~~~~~~~ 349 (365)
T PRK09188 318 RDDILRLIAMNQIDELDDL--LREPEIRGLVEAI 349 (365)
T ss_pred cHHHHHHHhhccccccccc--ccChhHHHHHHHH
Confidence 4889999998743 46777 5555555555443
No 11
>COG5583 Uncharacterized small protein [Function unknown]
Probab=71.85 E-value=3 Score=20.88 Aligned_cols=16 Identities=13% Similarity=0.401 Sum_probs=13.3
Q ss_pred ccCCHHHHHHHHhhcC
Q psy12529 20 TLADEDVVDELFQNRP 35 (39)
Q Consensus 20 Tl~dp~vl~~I~~~~~ 35 (39)
++.||+++++|+++++
T Consensus 4 s~~~~~~~ekI~~~Le 19 (54)
T COG5583 4 SIKDPEVIEKIKKALE 19 (54)
T ss_pred cccchHHHHHHHHHHh
Confidence 4789999999987763
No 12
>PRK04319 acetyl-CoA synthetase; Provisional
Probab=63.74 E-value=7.2 Score=25.08 Aligned_cols=22 Identities=45% Similarity=0.576 Sum_probs=17.7
Q ss_pred ChHHHHHHHhCCCCCCCCCccCC
Q psy12529 1 MRRVLRKVAVNDREVGDKSTLAD 23 (39)
Q Consensus 1 mRr~Lr~i~~g~~~~gd~sTl~d 23 (39)
+|+.||+.+.+. ..++++|++|
T Consensus 549 ~r~~L~~~~~~~-~~~~~~~~~~ 570 (570)
T PRK04319 549 MRRVLKAWELGL-PEGDLSTMED 570 (570)
T ss_pred hHHHHHHHHhCC-CcCccccccC
Confidence 488999998754 6788898876
No 13
>PF05952 ComX: Bacillus competence pheromone ComX; InterPro: IPR009233 Competence is the ability of a cell to take up exogenous DNA from its environment, resulting in transformation. It is widespread among bacteria and is probably an important mechanism for the horizontal transfer of genes. Cells that take up DNA inevitably acquire the nucleotides the DNA consists of, and, because nucleotides are needed for DNA and RNA synthesis and are expensive to synthesise, these may make a significant contribution to the cell's energy budget []. The lateral gene transfer caused by competence also contributes to the genetic diversity that makes evolution possible. DNA usually becomes available by the death and lysis of other cells. Competent bacteria use components of extracellular filaments called type 4 pili to create pores in their membranes and pull DNA through the pores into the cytoplasm. This process, including the development of competence and the expression of the uptake machinery, is regulated in response to cell-cell signalling and/or nutritional conditions []. Natural genetic competence in Bacillus subtilis is controlled by quorum-sensing (QS). The ComP- ComA two-component system detects the signalling molecule ComX, and this signal is transduced by a conserved phosphotransfer mechanism. ComX is synthesised as an inactive precursor and is then cleaved and modified by ComQ before export to the extracellular environment [].
Probab=54.09 E-value=8 Score=19.41 Aligned_cols=12 Identities=17% Similarity=0.487 Sum_probs=9.6
Q ss_pred cCCHHHHHHHHh
Q psy12529 21 LADEDVVDELFQ 32 (39)
Q Consensus 21 l~dp~vl~~I~~ 32 (39)
++||++++++++
T Consensus 10 v~nPevl~kl~~ 21 (57)
T PF05952_consen 10 VQNPEVLEKLKE 21 (57)
T ss_pred HHChHHHHHHHc
Confidence 468999998875
No 14
>COG3077 RelB DNA-damage-inducible protein J [DNA replication, recombination, and repair]
Probab=51.10 E-value=39 Score=18.24 Aligned_cols=35 Identities=17% Similarity=0.115 Sum_probs=25.7
Q ss_pred ChHHHHHHHhCCCCCCCCCccCCHHHHHHHHhhcC
Q psy12529 1 MRRVLRKVAVNDREVGDKSTLADEDVVDELFQNRP 35 (39)
Q Consensus 1 mRr~Lr~i~~g~~~~gd~sTl~dp~vl~~I~~~~~ 35 (39)
+|-.|++++..+.-+=|+...+|.+.+..|++..+
T Consensus 34 irm~L~~va~~~~lPfdl~~p~N~~tl~ai~e~~~ 68 (88)
T COG3077 34 IRMFLTKVAREGALPFDLRLPSNAETLQAIKELDK 68 (88)
T ss_pred HHHHHHHHHHcCCCCccccCcccHHHHHHHHHHHh
Confidence 36678888886533446666669999999988765
No 15
>COG0365 Acs Acyl-coenzyme A synthetases/AMP-(fatty) acid ligases [Lipid metabolism]
Probab=45.75 E-value=14 Score=25.22 Aligned_cols=11 Identities=45% Similarity=0.691 Sum_probs=9.8
Q ss_pred ChHHHHHHHhC
Q psy12529 1 MRRVLRKVAVN 11 (39)
Q Consensus 1 mRr~Lr~i~~g 11 (39)
|||+||+++.+
T Consensus 512 ~R~~lr~~~~~ 522 (528)
T COG0365 512 QRRLLRKILHK 522 (528)
T ss_pred HHHHHHHHHhh
Confidence 79999999983
No 16
>PRK09261 phospho-2-dehydro-3-deoxyheptonate aldolase; Validated
Probab=43.57 E-value=26 Score=23.01 Aligned_cols=31 Identities=13% Similarity=0.215 Sum_probs=24.1
Q ss_pred hHHHHHHHhCCCC----CCCCCccCCHHHHHHHHh
Q psy12529 2 RRVLRKVAVNDRE----VGDKSTLADEDVVDELFQ 32 (39)
Q Consensus 2 Rr~Lr~i~~g~~~----~gd~sTl~dp~vl~~I~~ 32 (39)
|+.+++|..|+.+ +-.|-+++||+..-+...
T Consensus 40 R~~i~~Il~g~d~rllvI~GPCSIed~e~a~eyA~ 74 (349)
T PRK09261 40 RKEIHNILHGKDDRLLVVVGPCSIHDPKAALEYAR 74 (349)
T ss_pred HHHHHHHHcCCCCCeEEEEcCCcCCCHHHHHHHHH
Confidence 7889999998542 357899999998866544
No 17
>PF09664 DUF2399: Protein of unknown function C-terminus (DUF2399); InterPro: IPR024465 This domain is found in archaeal, bacterial and eukaryotic proteins. Its function is unknown.
Probab=43.09 E-value=58 Score=18.61 Aligned_cols=18 Identities=11% Similarity=0.063 Sum_probs=14.5
Q ss_pred CCccCCHHHHHHHHhhcC
Q psy12529 18 KSTLADEDVVDELFQNRP 35 (39)
Q Consensus 18 ~sTl~dp~vl~~I~~~~~ 35 (39)
.--+|||+|+..+.+.+.
T Consensus 21 V~VvENp~Vf~~~~~~~~ 38 (152)
T PF09664_consen 21 VYVVENPAVFSALADELG 38 (152)
T ss_pred EEEEecHHHHHHHHHhcC
Confidence 446999999999987753
No 18
>PF14726 RTTN_N: Rotatin, an armadillo repeat protein, centriole functioning
Probab=40.76 E-value=46 Score=17.98 Aligned_cols=31 Identities=16% Similarity=0.113 Sum_probs=23.0
Q ss_pred hHHHHHHHhCCCCCCCCCccCCHHHHHHHHhhcC
Q psy12529 2 RRVLRKVAVNDREVGDKSTLADEDVVDELFQNRP 35 (39)
Q Consensus 2 Rr~Lr~i~~g~~~~gd~sTl~dp~vl~~I~~~~~ 35 (39)
|.+++++.. |++.++.....+|++-+....+
T Consensus 29 ~~Ll~~Lle---WFnf~~~~~~~~VL~Ll~~L~~ 59 (98)
T PF14726_consen 29 RLLLKQLLE---WFNFPPVPMKEEVLALLLRLLK 59 (98)
T ss_pred HHHHHHHHH---HhCCCCCccHHHHHHHHHHHHh
Confidence 345666663 8998998888999988876554
No 19
>PF14242 DUF4342: Domain of unknown function (DUF4342)
Probab=39.78 E-value=18 Score=19.13 Aligned_cols=24 Identities=25% Similarity=0.405 Sum_probs=18.1
Q ss_pred CCCCccCCHHHHHHHHhhcCCCCC
Q psy12529 16 GDKSTLADEDVVDELFQNRPEGNV 39 (39)
Q Consensus 16 gd~sTl~dp~vl~~I~~~~~~~~~ 39 (39)
.+.-+..-.+.++.|++.++.||+
T Consensus 8 ~e~~~~~g~~~~~~iK~li~kGNv 31 (84)
T PF14242_consen 8 TEEFQVKGEELVDKIKELIKKGNV 31 (84)
T ss_pred cceeeecHHHHHHHHHHHHHhcCe
Confidence 333445557889999999999996
No 20
>PRK12755 phospho-2-dehydro-3-deoxyheptonate aldolase; Provisional
Probab=39.40 E-value=35 Score=22.53 Aligned_cols=32 Identities=13% Similarity=0.219 Sum_probs=24.6
Q ss_pred hHHHHHHHhCCCC----CCCCCccCCHHHHHHHHhh
Q psy12529 2 RRVLRKVAVNDRE----VGDKSTLADEDVVDELFQN 33 (39)
Q Consensus 2 Rr~Lr~i~~g~~~----~gd~sTl~dp~vl~~I~~~ 33 (39)
|+.+++|..|+.+ +-.|-+++||+..-+..+.
T Consensus 41 R~~i~~Il~g~d~rllvI~GPCSI~d~~~aleyA~~ 76 (353)
T PRK12755 41 RQAIADILHGRDDRLLVVVGPCSIHDPEAALEYARR 76 (353)
T ss_pred HHHHHHHhcCCCCCeEEEeCCCCCCCHHHHHHHHHH
Confidence 7889999998532 3578999999988766443
No 21
>TIGR00034 aroFGH phospho-2-dehydro-3-deoxyheptonate aldolase.
Probab=36.94 E-value=40 Score=22.15 Aligned_cols=31 Identities=13% Similarity=0.209 Sum_probs=23.9
Q ss_pred hHHHHHHHhCCCC----CCCCCccCCHHHHHHHHh
Q psy12529 2 RRVLRKVAVNDRE----VGDKSTLADEDVVDELFQ 32 (39)
Q Consensus 2 Rr~Lr~i~~g~~~----~gd~sTl~dp~vl~~I~~ 32 (39)
|+.+++|..|+.+ +-.|-+++||+..-+...
T Consensus 35 R~~i~~Il~g~d~rllvIvGPCSIhd~~~a~eyA~ 69 (344)
T TIGR00034 35 RQEIADIIAGKDDRLLVVIGPCSIHDPEAAIEYAT 69 (344)
T ss_pred HHHHHHHhcCCCCCeEEEecCCCCCCHHHHHHHHH
Confidence 7889999998632 247899999999866543
No 22
>PF03241 HpaB: 4-hydroxyphenylacetate 3-hydroxylase C terminal; InterPro: IPR024719 This C-terminal domain is found in HpaB, which encodes part of the 4-hydroxyphenylacetate 3-hydroxylase from Escherichia coli []. The enzyme is NADH-dependent and uses FAD as the redox chromophore. This domain is also found in pyoverdin chromophore biosynthetic protein PvcC, which may play a role in one of the proposed hydroxylation steps of pyoverdine chromophore biosynthesis [] and in 4-hydroxybutyryl-CoA dehydratase (4-BUDH), a key enzyme in the metabolism of gamma-aminobutyrate [].; PDB: 3HWC_D 1U8V_D 2YYM_A 2YYI_A 2YYJ_A 2YYL_A 2YYG_A 2YYK_A.
Probab=35.73 E-value=21 Score=21.25 Aligned_cols=35 Identities=9% Similarity=0.033 Sum_probs=23.1
Q ss_pred hHHHHHHHhCCCCCCCCC--ccCCHHHHHHHHhhcCCC
Q psy12529 2 RRVLRKVAVNDREVGDKS--TLADEDVVDELFQNRPEG 37 (39)
Q Consensus 2 Rr~Lr~i~~g~~~~gd~s--Tl~dp~vl~~I~~~~~~~ 37 (39)
.++|++|..|. -..-|| .++||++-+.|.+.++..
T Consensus 105 ~eil~~l~gg~-li~~Ps~~Df~npe~~~~l~kYl~g~ 141 (205)
T PF03241_consen 105 VEILQDLGGGG-LITLPSEADFDNPEIGPYLDKYLQGA 141 (205)
T ss_dssp HHHHHHHHGGG-GTC---HHHHH-TTTHHHHHHHT-BT
T ss_pred HHHHHHHhCCC-eeeCCCHHHhCCcchhHHHHHHhccc
Confidence 46789999875 556666 678899999988877654
No 23
>PRK12822 phospho-2-dehydro-3-deoxyheptonate aldolase; Provisional
Probab=34.22 E-value=45 Score=22.11 Aligned_cols=32 Identities=13% Similarity=0.226 Sum_probs=24.6
Q ss_pred hHHHHHHHhCCCC----CCCCCccCCHHHHHHHHhh
Q psy12529 2 RRVLRKVAVNDRE----VGDKSTLADEDVVDELFQN 33 (39)
Q Consensus 2 Rr~Lr~i~~g~~~----~gd~sTl~dp~vl~~I~~~ 33 (39)
|+.+++|..|+.+ +-.|-+++||+..-+..+.
T Consensus 40 R~~I~~Il~g~d~rllvIvGPCSIhd~~~aleyA~r 75 (356)
T PRK12822 40 RQDIRNILLGKDPRLLVIIGPCSIHDPQAALEYAKR 75 (356)
T ss_pred HHHHHHHHcCCCCCeEEEEcCCcCCCHHHHHHHHHH
Confidence 7889999998542 3568999999988766543
No 24
>PF14575 EphA2_TM: Ephrin type-A receptor 2 transmembrane domain; PDB: 3KUL_A 2XVD_A 2VX1_A 2VWV_A 2VX0_A 2VWY_A 2VWZ_A 2VWW_A 2VWU_A 2VWX_A ....
Probab=33.84 E-value=19 Score=18.47 Aligned_cols=12 Identities=25% Similarity=0.199 Sum_probs=7.4
Q ss_pred CCCCCCccCCHH
Q psy12529 14 EVGDKSTLADED 25 (39)
Q Consensus 14 ~~gd~sTl~dp~ 25 (39)
.+-||.|-|||.
T Consensus 52 tYIDP~TYEDP~ 63 (75)
T PF14575_consen 52 TYIDPHTYEDPN 63 (75)
T ss_dssp ----GGGSSSHH
T ss_pred eecCcccccCHH
Confidence 467999999995
No 25
>PRK12756 phospho-2-dehydro-3-deoxyheptonate aldolase; Provisional
Probab=31.57 E-value=54 Score=21.67 Aligned_cols=30 Identities=17% Similarity=0.262 Sum_probs=23.3
Q ss_pred hHHHHHHHhCCCC----CCCCCccCCHHHHHHHH
Q psy12529 2 RRVLRKVAVNDRE----VGDKSTLADEDVVDELF 31 (39)
Q Consensus 2 Rr~Lr~i~~g~~~----~gd~sTl~dp~vl~~I~ 31 (39)
|+.+++|..|+.+ +-.|-+++||+..-+..
T Consensus 39 R~~I~~Il~g~d~rllvIvGPCSIhd~~~a~eyA 72 (348)
T PRK12756 39 RRRIEKILNGEDPRLLVIIGPCSIHDTDAALDYA 72 (348)
T ss_pred HHHHHHHhcCCCCceEEEecCCcCCCHHHHHHHH
Confidence 7889999999642 34789999999885543
No 26
>COG2747 FlgM Negative regulator of flagellin synthesis (anti-sigma28 factor) [Transcription / Cell motility and secretion / Intracellular trafficking and secretion]
Probab=30.76 E-value=32 Score=18.69 Aligned_cols=20 Identities=35% Similarity=0.360 Sum_probs=16.6
Q ss_pred CccCCHHHHHHHHhhcCCCC
Q psy12529 19 STLADEDVVDELFQNRPEGN 38 (39)
Q Consensus 19 sTl~dp~vl~~I~~~~~~~~ 38 (39)
+++-|.+=+++|++++..|+
T Consensus 55 ~~~~~~~kVeeiK~aI~~G~ 74 (93)
T COG2747 55 SSDIREEKVEELKQAIENGE 74 (93)
T ss_pred hhhhhHHHHHHHHHHHHcCC
Confidence 34468889999999999987
No 27
>PF02084 Bindin: Bindin; InterPro: IPR000775 Bindin, the major protein component of the acrosome granule of sea urchin sperm, mediates species-specific adhesion of sperm to the egg surface during fertilisation [, ]. The protein coats the acrosomal process after externalisation by the acrosome reaction; it binds to sulphated, fucose-containing polysaccharides on the vitelline-layer receptor proteoglycans that cover the egg plasma membrane. Bindins from different genera show high levels of sequence similarity in both the mature bindin domain and in the probindin precursor region. The most highly conserved region is a 42-residue segment in the central portion of the mature bindin protein. This domain may be responsible for conserved functions of bindin, while the more highly divergent flanking regions may be responsible for its species-specific properties [].; GO: 0007342 fusion of sperm to egg plasma membrane
Probab=30.76 E-value=38 Score=21.41 Aligned_cols=18 Identities=11% Similarity=0.322 Sum_probs=13.8
Q ss_pred CCccCCHHHHHHHHhhcC
Q psy12529 18 KSTLADEDVVDELFQNRP 35 (39)
Q Consensus 18 ~sTl~dp~vl~~I~~~~~ 35 (39)
+..|-||+|.+++-.+.+
T Consensus 144 LAnIgdP~VreqVLsAMq 161 (238)
T PF02084_consen 144 LANIGDPEVREQVLSAMQ 161 (238)
T ss_pred HhhcCCHHHHHHHHHHHh
Confidence 567889999998866654
No 28
>COG0425 SirA Predicted redox protein, regulator of disulfide bond formation [Posttranslational modification, protein turnover, chaperones]
Probab=30.66 E-value=16 Score=18.82 Aligned_cols=31 Identities=10% Similarity=0.119 Sum_probs=19.8
Q ss_pred hHHHHHHHhCCCCCCCCCccCCHHHHHHHHhhcC
Q psy12529 2 RRVLRKVAVNDREVGDKSTLADEDVVDELFQNRP 35 (39)
Q Consensus 2 Rr~Lr~i~~g~~~~gd~sTl~dp~vl~~I~~~~~ 35 (39)
++.|+++-.|+ .+-..++ ||.+...|....+
T Consensus 23 kk~l~~m~~Ge-~LeV~~d--dp~~~~dIp~~~~ 53 (78)
T COG0425 23 KKALAKLKPGE-ILEVIAD--DPAAKEDIPAWAK 53 (78)
T ss_pred HHHHHcCCCCC-EEEEEec--CcchHHHHHHHHH
Confidence 56677777775 4544444 7777777766544
No 29
>COG4262 Predicted spermidine synthase with an N-terminal membrane domain [General function prediction only]
Probab=30.51 E-value=42 Score=23.16 Aligned_cols=19 Identities=16% Similarity=0.219 Sum_probs=15.9
Q ss_pred CCCCccCCHHHHHHHHhhc
Q psy12529 16 GDKSTLADEDVVDELFQNR 34 (39)
Q Consensus 16 gd~sTl~dp~vl~~I~~~~ 34 (39)
-+|+||+||..++...+.+
T Consensus 489 vepntL~~p~lV~y~~k~~ 507 (508)
T COG4262 489 VEPNTLDNPSLVEYFRKGW 507 (508)
T ss_pred CCccccCCHHHHHHHHhcc
Confidence 4899999999999887653
No 30
>PF06345 Drf_DAD: DRF Autoregulatory Domain; InterPro: IPR010465 This domain is found in Diaphanous-related formins (Drfs). It binds the N-terminal GTPase-binding domain; this link is broken when GTP-bound Rho binds to the GBD and activates the protein. The addition of diaphanous activating domains (DAD) to mammalian cells induces actin filament formation, stabilises microtubules, and activates serum-response mediated transcription [].; PDB: 3O4X_H 3OBV_E 2BAP_C 2F31_B.
Probab=30.20 E-value=24 Score=13.34 Aligned_cols=13 Identities=31% Similarity=0.572 Sum_probs=8.4
Q ss_pred HHHHHHhhcCCCC
Q psy12529 26 VVDELFQNRPEGN 38 (39)
Q Consensus 26 vl~~I~~~~~~~~ 38 (39)
+++-+.++++.|.
T Consensus 2 vmdsllealqtg~ 14 (15)
T PF06345_consen 2 VMDSLLEALQTGS 14 (15)
T ss_dssp HHHHHHHHHHHST
T ss_pred cHHHHHHHHHccC
Confidence 5566777776663
No 31
>PF03130 HEAT_PBS: PBS lyase HEAT-like repeat; InterPro: IPR004155 These proteins contain a short bi-helical repeat that is related to HEAT. Cyanobacteria and red algae harvest light energy using macromolecular complexes known as phycobilisomes (PBS), peripherally attached to the photosynthetic membrane. The major components of PBS are the phycobiliproteins. These heterodimeric proteins are covalently attached to phycobilins: open-chain tetrapyrrole chromophores, which function as the photosynthetic light-harvesting pigments. Phycobiliproteins differ in sequence and in the nature and number of attached phycobilins to each of their subunits. These proteins include the lyase enzymes that specifically attach particular phycobilins to apophycobiliprotein subunits. The most comprehensively studied of these is the CpcE/Flyase P31967 from SWISSPROT, P31968 from SWISSPROT, which attaches phycocyanobilin (PCB) to the alpha subunit of apophycocyanin []. Similarly, MpeU/V attaches phycoerythrobilin to phycoerythrin II, while CpeY/Z is thought to be involved in phycoerythrobilin (PEB) attachment to phycoerythrin (PE) I (PEs I and II differ in sequence and in the number of attached molecules of PEB: PE I has five, PE II has six) []. All the reactions of the above lyases involve an apoprotein cysteine SH addition to a terminal delta 3,3'-double bond. Such a reaction is not possible in the case of phycoviolobilin (PVB), the phycobilin of alpha-phycoerythrocyanin (alpha-PEC). It is thought that in this case, PCB, not PVB, is first added to apo-alpha-PEC, and is then isomerized to PVB. The addition reaction has been shown to occur in the presence of either of the components of alpha-PEC-PVB lyase PecE or PecF (or both). The isomerisation reaction occurs only when both PecE and PecF components are present, i.e. the PecE/F phycobiliprotein lyase is also a phycobilin isomerase []. Another member of this family is the NblB protein, whose similarity to the phycobiliprotein lyases was previously noted []. This constitutively expressed protein is not known to have any lyase activity. It is thought to be involved in the coordination of PBS degradation with environmental nutrient limitation. It has been suggested that the similarity of NblB to the phycobiliprotein lyases is due to the ability to bind tetrapyrrole phycobilins via the common repeated motif [].; PDB: 1TE4_A.
Probab=29.46 E-value=39 Score=13.71 Aligned_cols=15 Identities=13% Similarity=0.310 Sum_probs=10.4
Q ss_pred ccCCHHHHHHHHhhc
Q psy12529 20 TLADEDVVDELFQNR 34 (39)
Q Consensus 20 Tl~dp~vl~~I~~~~ 34 (39)
.+.||++++.|.+.+
T Consensus 11 ~igd~~ai~~L~~~L 25 (27)
T PF03130_consen 11 QIGDPRAIPALIEAL 25 (27)
T ss_dssp GG-SHHHHHHHHHHH
T ss_pred HcCCHHHHHHHHHHh
Confidence 345689998888765
No 32
>TIGR02310 HpaB-2 4-hydroxyphenylacetate 3-monooxygenase, oxygenase component. This gene for this monooxygenase is found within apparent operons for the degradation of 4-hydroxyphenylacetic acid in Shigella, Photorhabdus and Pasteurella. The family modelled by this alignment is narrowly limited to gammaproteobacteria to exclude other aromatic hydroxylases involved in various secondary metabolic pathways. Generally, this enzyme acts with the assistance of a small flavin reductase domain protein (HpaC) to provide the cycle the flavin reductant for the reaction. This family of sequences is a member of a larger subfamily of monooxygenases (pfam03241).
Probab=29.41 E-value=69 Score=22.04 Aligned_cols=34 Identities=9% Similarity=0.091 Sum_probs=25.5
Q ss_pred hHHHHHHHhCCCCCCCCCc---cCCHHHHHHHHhhcCC
Q psy12529 2 RRVLRKVAVNDREVGDKST---LADEDVVDELFQNRPE 36 (39)
Q Consensus 2 Rr~Lr~i~~g~~~~gd~sT---l~dp~vl~~I~~~~~~ 36 (39)
.++|+.+..|+ -+.-||+ +.||++-..|.+.++.
T Consensus 389 ~eil~~~~agG-li~~pss~~Df~npe~~~~l~kyl~g 425 (519)
T TIGR02310 389 KKIIEQTVTSG-LIYLPSHIRDLNNPQIDQYLEKYVRG 425 (519)
T ss_pred HHHHHHHccCC-eeecCCcHHHccCchhHHHHHHHhcC
Confidence 46788777765 5667777 7799999888877764
No 33
>KOG4028|consensus
Probab=27.03 E-value=37 Score=20.23 Aligned_cols=30 Identities=3% Similarity=0.041 Sum_probs=22.0
Q ss_pred HHHHHHhCCCCCCCCCccCCHHHHHHHHhh
Q psy12529 4 VLRKVAVNDREVGDKSTLADEDVVDELFQN 33 (39)
Q Consensus 4 ~Lr~i~~g~~~~gd~sTl~dp~vl~~I~~~ 33 (39)
+.++++.|...+--.++|+||+..+.|..+
T Consensus 123 l~~~~vggg~ql~~~~ai~~~a~r~ki~s~ 152 (175)
T KOG4028|consen 123 LAHAFVGGGLQLLHGDAIEDGADREKIHSA 152 (175)
T ss_pred HHHHHhcCCceeeccccccCchhhheeeee
Confidence 456777765456677899999999887543
No 34
>COG2450 Uncharacterized conserved protein [Function unknown]
Probab=26.99 E-value=52 Score=18.86 Aligned_cols=31 Identities=16% Similarity=0.381 Sum_probs=22.2
Q ss_pred HHHHHHhCCCCCCCCCccC-CHHHHHHHHhhc
Q psy12529 4 VLRKVAVNDREVGDKSTLA-DEDVVDELFQNR 34 (39)
Q Consensus 4 ~Lr~i~~g~~~~gd~sTl~-dp~vl~~I~~~~ 34 (39)
+++.+.+|.--.-|+|.|+ ||..++.+.+.+
T Consensus 57 ~~~eiy~GNIvIaDit~l~~d~~~~~~V~e~l 88 (124)
T COG2450 57 AKREIYAGNIVIADITPLERDDDLFERVIEEL 88 (124)
T ss_pred HHHHHhcCCEEEEEcCCcccChhHHHHHHHHH
Confidence 5678888742257889888 988887776543
No 35
>PF11027 DUF2615: Protein of unknown function (DUF2615); InterPro: IPR020309 This entry represents a group of uncharacterised protein from the Metazoa, including CD034 (or C4orf34) and YQF4 (or C34C12.4).
Probab=25.75 E-value=33 Score=19.00 Aligned_cols=12 Identities=33% Similarity=0.534 Sum_probs=9.8
Q ss_pred ChHHHHHHHhCC
Q psy12529 1 MRRVLRKVAVND 12 (39)
Q Consensus 1 mRr~Lr~i~~g~ 12 (39)
|||+|.=|...+
T Consensus 18 MrRLl~~LRqsQ 29 (103)
T PF11027_consen 18 MRRLLNLLRQSQ 29 (103)
T ss_pred HHHHHHHHHHhh
Confidence 789998888764
No 36
>PF05073 Baculo_p24: Baculovirus P24 capsid protein; InterPro: IPR007765 The Culex nigripalpus NPV (Culex nigripalpus nucleopolyhedrovirus) protein p24 is associated with nucleocapsids of budded and polyhedra-derived virions [, ].; GO: 0019028 viral capsid
Probab=25.72 E-value=44 Score=20.36 Aligned_cols=12 Identities=17% Similarity=0.581 Sum_probs=9.4
Q ss_pred ChHHHHHHHhCC
Q psy12529 1 MRRVLRKVAVND 12 (39)
Q Consensus 1 mRr~Lr~i~~g~ 12 (39)
+|++++++..|.
T Consensus 91 LKqLi~DLl~G~ 102 (182)
T PF05073_consen 91 LKQLIRDLLVGA 102 (182)
T ss_pred HHHHHHHHhcCC
Confidence 478888888875
No 37
>PRK04966 hypothetical protein; Provisional
Probab=25.49 E-value=1.1e+02 Score=15.87 Aligned_cols=36 Identities=14% Similarity=0.414 Sum_probs=21.1
Q ss_pred ChHHHHHHHhCCC-CCCC-CCccCCHHHHHHHHhhcCCCC
Q psy12529 1 MRRVLRKVAVNDR-EVGD-KSTLADEDVVDELFQNRPEGN 38 (39)
Q Consensus 1 mRr~Lr~i~~g~~-~~gd-~sTl~dp~vl~~I~~~~~~~~ 38 (39)
++.+|+..+..+. ++|+ -.++ .+-+++++..+++|.
T Consensus 13 L~nLIeefv~ReGTdyG~~E~sl--~~kv~qv~~qL~~G~ 50 (72)
T PRK04966 13 LENLIESFVLREGTDYGEHERSL--EQKVADVKRQLQSGE 50 (72)
T ss_pred HHHHHHHHHhccCccCCcccccH--HHHHHHHHHHHHcCC
Confidence 3566777776422 4554 2233 455777777777775
No 38
>PF03449 GreA_GreB_N: Transcription elongation factor, N-terminal; InterPro: IPR022691 Bacterial proteins greA and greB are necessary for efficient RNA polymerase transcription elongation past template-encoded arresting sites. Arresting sites in DNA have the property of trapping a certain fraction of elongating RNA polymerases that pass through, resulting in locked DNA/RNA/ polymerase ternary complexes. Cleavage of the nascent transcript by cleavage factors, such as greA or greB, allows the resumption of elongation from the new 3' terminus [, ]. Escherichia coli GreA and GreB are sequence homologues and have homologues in every known bacterial genome []. GreA induces cleavage two or three nucleotides behind the terminus and can only prevent the formation of arrested complexes while greB releases longer sequences up to eighteen nucleotides in length and can rescue preexisting arrested complexes. These functional differences correlate with a distinctive structural feature, the distribution of positively charged residues on one face of the N-terminal coiled coil. Remarkably, despite close functional similarity, the prokaryotic Gre factors have no sequence or structural similarity with eukaryotic TFIIS. ; GO: 0003677 DNA binding, 0032784 regulation of transcription elongation, DNA-dependent; PDB: 1GRJ_A 2EUL_C 3AOH_Y 3AOI_X 2F23_A 2ETN_C 2P4V_B.
Probab=24.98 E-value=76 Score=16.14 Aligned_cols=17 Identities=18% Similarity=0.550 Sum_probs=13.5
Q ss_pred CCHHHHHHHHhhcCCCC
Q psy12529 22 ADEDVVDELFQNRPEGN 38 (39)
Q Consensus 22 ~dp~vl~~I~~~~~~~~ 38 (39)
.=|++..+|..+..+|+
T Consensus 25 ~rpe~~~~i~~Ar~~GD 41 (74)
T PF03449_consen 25 ERPEIAEEIAEAREQGD 41 (74)
T ss_dssp HHHHHHHHHHHHHCCSS
T ss_pred hhHHHHHHHHHHHHcCC
Confidence 34888899988888875
No 39
>PF12427 DUF3665: Branched-chain amino acid aminotransferase ; InterPro: IPR024614 This uncharacterised domain is found in the N-terminal region of branched-chain amino acid aminotransferase II proteins in Corynebacterium. It is typically between 23 and 35 amino acids in length and contains a conserved TRT sequence motif.
Probab=24.40 E-value=31 Score=14.44 Aligned_cols=14 Identities=7% Similarity=-0.043 Sum_probs=9.3
Q ss_pred cCCHHHHHHHHhhc
Q psy12529 21 LADEDVVDELFQNR 34 (39)
Q Consensus 21 l~dp~vl~~I~~~~ 34 (39)
-+||.+.+++++.+
T Consensus 9 T~nPTs~~~L~eIL 22 (23)
T PF12427_consen 9 TENPTSPERLKEIL 22 (23)
T ss_pred cCCCCCHHHHHHHh
Confidence 46777777776653
No 40
>PF12765 Cohesin_HEAT: HEAT repeat associated with sister chromatid cohesion
Probab=23.93 E-value=81 Score=14.21 Aligned_cols=18 Identities=22% Similarity=0.357 Sum_probs=14.4
Q ss_pred CCCccCCHHHHHHHHhhc
Q psy12529 17 DKSTLADEDVVDELFQNR 34 (39)
Q Consensus 17 d~sTl~dp~vl~~I~~~~ 34 (39)
|++.+..+.+...|...+
T Consensus 10 dp~ll~~~~v~~~i~~rl 27 (42)
T PF12765_consen 10 DPTLLDSSDVQSAIIRRL 27 (42)
T ss_pred CccccchHHHHHHHHHHh
Confidence 678888898888887654
No 41
>PF13040 DUF3901: Protein of unknown function (DUF3901)
Probab=23.91 E-value=63 Score=15.03 Aligned_cols=15 Identities=13% Similarity=0.337 Sum_probs=11.5
Q ss_pred ccCCHHHHHHHHhhc
Q psy12529 20 TLADEDVVDELFQNR 34 (39)
Q Consensus 20 Tl~dp~vl~~I~~~~ 34 (39)
-+.|++.++.|.+.+
T Consensus 19 ll~d~~~me~Ieeri 33 (40)
T PF13040_consen 19 LLNDKEAMEKIEERI 33 (40)
T ss_pred HHcCHHHHHHHHHHH
Confidence 367899999997654
No 42
>PF05524 PEP-utilisers_N: PEP-utilising enzyme, N-terminal; InterPro: IPR008731 This sequence identifies proteins which are a component of the phosphoenolpyruvate:sugar phosphotransferase system (PTS), a major carbohydrate active transport system. The PTS system is found throughout the bacterial kingdom, and is responsible for the coupled phosphorylation and translocation of numerous sugars across the cytoplasmic membrane []. This entry represents the N-terminal domain of enzyme I (EIN) which transfers the phosphoryl group from phosphoenolpyruvate (PEP) to the phosphoryl carrier protein (HPr) which in turn phosphorylates a group of membrane-associated proteins, known as enzyme II. The N-terminal domain of EI (EIN) extends from residues 1 to 259 and can be phosphorylated in a fully reversible manner by phosphorylated HPr. EIN, however, cannot be autophosphorylated by PEP [, ].; GO: 0005351 sugar:hydrogen symporter activity, 0008965 phosphoenolpyruvate-protein phosphotransferase activity, 0009401 phosphoenolpyruvate-dependent sugar phosphotransferase system, 0005737 cytoplasm; PDB: 2WQD_A 2XDF_B 2HWG_A 3EZB_A 2L5H_A 3EZA_A 1EZB_A 2EZA_A 1EZA_A 1EZC_A ....
Probab=23.31 E-value=27 Score=18.59 Aligned_cols=18 Identities=33% Similarity=0.501 Sum_probs=12.2
Q ss_pred ccCCHHHHHHHHhhcCCC
Q psy12529 20 TLADEDVVDELFQNRPEG 37 (39)
Q Consensus 20 Tl~dp~vl~~I~~~~~~~ 37 (39)
=|+||+-.+.+.+.+.+|
T Consensus 76 ~L~D~~l~~~v~~~I~~~ 93 (123)
T PF05524_consen 76 MLEDPELIDEVEELIREG 93 (123)
T ss_dssp HHT-HHHHHHHHHHHHHH
T ss_pred HhcCHhHHHHHHHHHhcc
Confidence 468888888887766544
No 43
>COG1029 FwdB Formylmethanofuran dehydrogenase subunit B [Energy production and conversion]
Probab=22.92 E-value=56 Score=22.26 Aligned_cols=23 Identities=30% Similarity=0.540 Sum_probs=19.7
Q ss_pred CCCCCCccCCHHHHHHHHhhcCC
Q psy12529 14 EVGDKSTLADEDVVDELFQNRPE 36 (39)
Q Consensus 14 ~~gd~sTl~dp~vl~~I~~~~~~ 36 (39)
++-+++++.|.+++++|.+.+++
T Consensus 405 ~~~es~~~sde~iLk~l~ekv~e 427 (429)
T COG1029 405 PVVESKTLSDEEILKKLLEKVKE 427 (429)
T ss_pred ecccccccChHHHHHHHHHHHhh
Confidence 56778999999999999988765
No 44
>cd07071 NR_LBD_Nurr1 The ligand binding domain of Nurr1, a member of conserved family of nuclear receptors. The ligand binding domain of nuclear receptor Nurr1: Nurr1 belongs to the conserved family of nuclear receptors. It is a transcription factor that is expressed in the embryonic ventral midbrain and is critical for the development of dopamine (DA) neurons. Structural studies have shown that the ligand binding pocket of Nurr1 is filled by bulky hydrophobic residues, making it unable to bind to ligands. Therefore, it belongs to the class of orphan receptors. However, Nurr1 forms heterodimers with RXR and can promote signaling via its partner, RXR. Like other members of the nuclear receptor (NR) superfamily of ligand-activated transcription factors, Nurr1 has a central well conserved DNA binding domain (DBD), a variable N-terminal domain, a flexible hinge and a C-terminal ligand binding domain (LBD).
Probab=22.59 E-value=1.6e+02 Score=17.83 Aligned_cols=27 Identities=22% Similarity=0.353 Sum_probs=20.0
Q ss_pred HHHHHHhCCCCCCCCCccCCHHHHHHHHhhc
Q psy12529 4 VLRKVAVNDREVGDKSTLADEDVVDELFQNR 34 (39)
Q Consensus 4 ~Lr~i~~g~~~~gd~sTl~dp~vl~~I~~~~ 34 (39)
.|++|+. +.|...+.|+..++++++.+
T Consensus 145 lLkAIvL----f~D~~gL~~~~~Ve~lQe~~ 171 (238)
T cd07071 145 CIAALAM----VTERHGLKEPKRVEELQNKI 171 (238)
T ss_pred HHHHHHH----cCCCCCCCCHHHHHHHHHHH
Confidence 4666765 23778999999999987643
No 45
>PRK00304 hypothetical protein; Provisional
Probab=21.64 E-value=1.4e+02 Score=15.64 Aligned_cols=35 Identities=26% Similarity=0.405 Sum_probs=21.4
Q ss_pred hHHHHHHHhCC-CCCCCCCccCCHHHHHHHHhhcCCCC
Q psy12529 2 RRVLRKVAVND-REVGDKSTLADEDVVDELFQNRPEGN 38 (39)
Q Consensus 2 Rr~Lr~i~~g~-~~~gd~sTl~dp~vl~~I~~~~~~~~ 38 (39)
+.+|+..+.-+ .++|+-.++ .+-+++++..+++|.
T Consensus 14 ~nLIeefv~ReGTDyg~E~sL--~~kv~qv~~qL~~G~ 49 (75)
T PRK00304 14 TRLIEDFVTRDGTDNGDETPL--ETRVLRVRQALTKGQ 49 (75)
T ss_pred HHHHHHHHhccCccCcccccH--HHHHHHHHHHHHcCC
Confidence 56667766631 156664444 355677778887775
No 46
>PRK11509 hydrogenase-1 operon protein HyaE; Provisional
Probab=21.43 E-value=1.3e+02 Score=17.08 Aligned_cols=24 Identities=13% Similarity=0.178 Sum_probs=18.1
Q ss_pred CCCCCCccCCHHHHHHHHhhcCCC
Q psy12529 14 EVGDKSTLADEDVVDELFQNRPEG 37 (39)
Q Consensus 14 ~~gd~sTl~dp~vl~~I~~~~~~~ 37 (39)
+...|.+.+.+-++++|.+.+..+
T Consensus 45 p~r~~E~~D~avvleELa~e~~~~ 68 (132)
T PRK11509 45 PKRTPEVSDNPVMIGELLREFPDY 68 (132)
T ss_pred CCcCCccccHHHHHHHHHHHhcCC
Confidence 445677888888999998877544
No 47
>PF07171 MlrC_C: MlrC C-terminus; InterPro: IPR010799 Proteins in this entry are involved in degradation of the cyanobacterial heptapeptide hepatotoxin microcystin LR, and are encoded in the mlr gene cluster []. MlrC from Sphingomonas wittichii (strain RW1 / DSM 6014 / JCM 10273) is believed to mediate the last step of peptidolytic degradation of the tetrapeptide. It is suspected to be a metallopeptidase based on homology to known peptidases and its inhibition by metal chelators. The proteins encoded by the mlr cluster may be involved in cell wall peptidoglycan cycling and subsequently act fortuitously in hydrolysis of microcystin LR. This entry represents the C-terminal region of these proteins.; PDB: 3IUU_A.
Probab=21.38 E-value=69 Score=18.74 Aligned_cols=30 Identities=13% Similarity=0.135 Sum_probs=17.2
Q ss_pred HHHHHHhCCCCCCCCCccCCHHHHHHHHhh
Q psy12529 4 VLRKVAVNDREVGDKSTLADEDVVDELFQN 33 (39)
Q Consensus 4 ~Lr~i~~g~~~~gd~sTl~dp~vl~~I~~~ 33 (39)
+||++......-.-..+|-||+++.+..++
T Consensus 20 lLr~lL~~~~~~~~~~~i~DP~av~~a~~a 49 (177)
T PF07171_consen 20 LLRALLARGVQNALFASIWDPEAVAAAHAA 49 (177)
T ss_dssp HHHHHHHH-TT--EEEEEE-HHHHHHHHHH
T ss_pred HHHHHHhCCCCCeEEEEecCHHHHHHHHHc
Confidence 456666522111235689999999988754
No 48
>TIGR03824 FlgM_jcvi flagellar biosynthesis anti-sigma factor FlgM. FlgM interacts with and inhibits the alternative sigma factor sigma(28) FliA. The C-terminus of FlgM contains the sigma(28)-binding domain.
Probab=21.01 E-value=75 Score=16.55 Aligned_cols=16 Identities=25% Similarity=0.370 Sum_probs=12.7
Q ss_pred CHHHHHHHHhhcCCCC
Q psy12529 23 DEDVVDELFQNRPEGN 38 (39)
Q Consensus 23 dp~vl~~I~~~~~~~~ 38 (39)
|.+=+++|++++.+|.
T Consensus 64 ~~~kV~~ik~aI~~G~ 79 (95)
T TIGR03824 64 DAEKVAEIKAAIANGS 79 (95)
T ss_pred hHHHHHHHHHHHHcCC
Confidence 5677788888888886
No 49
>COG0669 CoaD Phosphopantetheine adenylyltransferase [Coenzyme metabolism]
Probab=20.28 E-value=1.9e+02 Score=17.19 Aligned_cols=28 Identities=29% Similarity=0.317 Sum_probs=22.0
Q ss_pred HHHHHHhCCCCCCCCCccCCHHHHHHHHhhc
Q psy12529 4 VLRKVAVNDREVGDKSTLADEDVVDELFQNR 34 (39)
Q Consensus 4 ~Lr~i~~g~~~~gd~sTl~dp~vl~~I~~~~ 34 (39)
++|.|+.= =||.|.+-.|.+..+|.+..
T Consensus 131 ~Vreia~~---ggdvs~~VP~~V~~~l~~k~ 158 (159)
T COG0669 131 LVREIAAF---GGDVSEFVPEAVARALRAKF 158 (159)
T ss_pred HHHHHHHh---CCCchhhCCHHHHHHHHHhh
Confidence 56777763 36899999999999988754
No 50
>PRK13586 1-(5-phosphoribosyl)-5-[(5-phosphoribosylamino)methylideneamino] imidazole-4-carboxamide isomerase; Provisional
Probab=20.12 E-value=94 Score=18.75 Aligned_cols=20 Identities=0% Similarity=0.142 Sum_probs=15.5
Q ss_pred CCCccCCHHHHHHHHhhcCC
Q psy12529 17 DKSTLADEDVVDELFQNRPE 36 (39)
Q Consensus 17 d~sTl~dp~vl~~I~~~~~~ 36 (39)
.+.+++||+.+.++.+.+.+
T Consensus 102 gt~a~~~p~~~~~~~~~~g~ 121 (232)
T PRK13586 102 STIVFTNFNLFHDIVREIGS 121 (232)
T ss_pred CchhhCCHHHHHHHHHHhCC
Confidence 46788999999998777643
Done!