Query 032416
Match_columns 141
No_of_seqs 131 out of 298
Neff 4.6
Searched_HMMs 46136
Date Fri Mar 29 13:49:04 2013
Command hhsearch -i /work/01045/syshi/csienesis_hhblits_a3m/032416.a3m -d /work/01045/syshi/HHdatabase/Cdd.hhm -o /work/01045/syshi/hhsearch_cdd/032416hhsearch_cdd -cpu 12 -v 0
No Hit Prob E-value P-value Score SS Cols Query HMM Template HMM
1 PF14009 DUF4228: Domain of un 100.0 5E-30 1.1E-34 192.7 8.5 79 1-80 1-86 (181)
2 PF02824 TGS: TGS domain; Int 73.6 6.1 0.00013 25.7 3.6 25 11-35 1-25 (60)
3 cd00565 ThiS ThiaminS ubiquiti 68.4 10 0.00023 24.6 3.9 23 14-36 2-24 (65)
4 PRK06944 sulfur carrier protei 67.0 26 0.00057 22.4 5.6 54 14-73 3-60 (65)
5 PRK08053 sulfur carrier protei 64.0 26 0.00057 22.8 5.2 23 13-35 2-24 (66)
6 PRK05659 sulfur carrier protei 63.6 7.5 0.00016 25.1 2.5 23 14-36 3-25 (66)
7 TIGR01683 thiS thiamine biosyn 62.5 18 0.00038 23.5 4.1 55 14-73 1-59 (64)
8 PRK07440 hypothetical protein; 56.0 12 0.00026 25.2 2.5 25 12-36 5-29 (70)
9 PRK06437 hypothetical protein; 51.0 59 0.0013 21.5 5.2 52 14-73 5-62 (67)
10 PRK05863 sulfur carrier protei 49.4 18 0.00039 23.7 2.5 23 14-36 3-25 (65)
11 cd01668 TGS_RelA_SpoT TGS_RelA 47.1 30 0.00064 21.1 3.1 24 12-35 2-25 (60)
12 PRK06083 sulfur carrier protei 45.0 22 0.00048 25.0 2.5 25 12-36 19-43 (84)
13 cd00178 STI Soybean trypsin in 41.6 22 0.00047 27.9 2.3 19 59-77 6-24 (172)
14 PRK07696 sulfur carrier protei 40.1 30 0.00065 22.9 2.5 22 14-35 3-25 (67)
15 PRK08364 sulfur carrier protei 39.3 1.1E+02 0.0024 20.1 5.3 52 14-74 7-66 (70)
16 PF00197 Kunitz_legume: Trypsi 39.0 25 0.00055 27.5 2.3 20 59-78 6-25 (176)
17 PF08140 Cuticle_1: Crustacean 34.1 27 0.00058 21.9 1.4 28 13-42 5-32 (40)
18 PRK06488 sulfur carrier protei 31.2 48 0.001 21.4 2.3 22 14-36 3-24 (65)
19 COG2104 ThiS Sulfur transfer p 30.2 65 0.0014 21.8 2.9 24 13-36 4-27 (68)
20 COG5568 Uncharacterized small 29.6 41 0.00089 24.2 1.9 20 18-38 21-40 (85)
21 smart00452 STI Soybean trypsin 29.5 44 0.00094 26.2 2.2 19 59-77 5-23 (172)
22 cd02980 TRX_Fd_family Thioredo 26.7 85 0.0018 20.2 2.9 29 8-36 49-77 (77)
23 cd01667 TGS_ThrRS_N TGS _ThrRS 26.1 1E+02 0.0022 17.9 3.0 25 12-36 2-26 (61)
24 cd01616 TGS The TGS domain, na 25.8 1.1E+02 0.0025 17.5 3.2 25 12-36 2-26 (60)
25 PF08428 Rib: Rib/alpha-like r 24.2 33 0.00071 22.8 0.5 22 9-30 43-64 (65)
26 TIGR03746 conj_TIGR03746 integ 22.9 56 0.0012 27.0 1.7 32 11-42 145-176 (202)
27 COG1423 ATP-dependent DNA liga 21.9 1.1E+02 0.0024 27.5 3.5 63 10-76 100-175 (382)
28 PF03990 DUF348: Domain of unk 21.2 1.2E+02 0.0027 18.2 2.7 23 14-36 4-27 (43)
No 1
>PF14009 DUF4228: Domain of unknown function (DUF4228)
Probab=99.96 E-value=5e-30 Score=192.75 Aligned_cols=79 Identities=37% Similarity=0.708 Sum_probs=74.8
Q ss_pred CCCCCCC-------CCceEEEccCCcEEEecCCccHHHHHhhCCCcEEEcCccccccCccccCCCCCCCCCCCCeEEEee
Q 032416 1 MGNTIGG-------RRKAKVMKIDGETIKLKTPIQASEVVKDYPGYVLLDSEAVKHFGIRAKPLEPRQQLKPKKVYFLVE 73 (141)
Q Consensus 1 MGN~~s~-------~~~aKVI~~DG~v~e~~~PvtA~eVm~e~PghfVc~S~~l~~~g~r~~~L~aDeeL~~G~iYFLLP 73 (141)
||||++. .+++|||++||+|++|+.||+|+|||++||+||||+++.+ +++.++++|++|++|++|++|||||
T Consensus 1 MGn~~~~~~~~~~~~~~vkvv~~~G~v~~~~~pv~a~evm~~~P~h~v~~~~~~-~~~~~~~~l~~d~~L~~G~~Y~llP 79 (181)
T PF14009_consen 1 MGNCVSCCLASSSSAATVKVVHPDGKVEEFKRPVTAAEVMLENPGHFVCDSDSF-RFGRRIKPLPPDEELQPGQIYFLLP 79 (181)
T ss_pred CCCcccccccccCCCceEEEEcCCCcEEEeCCCcCHHHHHHHCCCCEEeccccc-cCCCcccCCCccCeecCCCEEEEEE
Confidence 9999963 5899999999999999999999999999999999999998 8999999999999999999999999
Q ss_pred cCCCCCc
Q 032416 74 LPKLPDE 80 (141)
Q Consensus 74 l~rl~~~ 80 (141)
+++++..
T Consensus 80 ~~~~~~~ 86 (181)
T PF14009_consen 80 MSRLQSV 86 (181)
T ss_pred ccccCcc
Confidence 9998753
No 2
>PF02824 TGS: TGS domain; InterPro: IPR004095 The TGS domain is present in a number of enzymes, for example, in threonyl-tRNA synthetase (ThrRS), GTPase, and guanosine-3',5'-bis(diphosphate) 3'-pyrophosphohydrolase (SpoT) []. The TGS domain is also present at the amino terminus of the uridine kinase from the spirochaete Treponema pallidum (but not any other organism, including the related spirochaete Borrelia burgdorferi). TGS is a small domain that consists of ~50 amino acid residues and is predicted to possess a predominantly beta-sheet structure. There is no direct information on the functions of the TGS domain, but its presence in two types of regulatory proteins (the GTPases and guanosine polyphosphate phosphohydrolases/synthetases) suggests a ligand (most likely nucleotide)-binding, regulatory role []. ; PDB: 1WXQ_A 1NYR_B 1NYQ_B 2KMM_A 1WWT_A 1TKE_A 1TKG_A 1TJE_A 1QF6_A 1TKY_A ....
Probab=73.61 E-value=6.1 Score=25.70 Aligned_cols=25 Identities=20% Similarity=0.174 Sum_probs=22.7
Q ss_pred eEEEccCCcEEEecCCccHHHHHhh
Q 032416 11 AKVMKIDGETIKLKTPIQASEVVKD 35 (141)
Q Consensus 11 aKVI~~DG~v~e~~~PvtA~eVm~e 35 (141)
++|..+||++.+|....|+.|+...
T Consensus 1 I~v~lpdG~~~~~~~g~T~~d~A~~ 25 (60)
T PF02824_consen 1 IRVYLPDGSIKELPEGSTVLDVAYS 25 (60)
T ss_dssp EEEEETTSCEEEEETTBBHHHHHHH
T ss_pred CEEECCCCCeeeCCCCCCHHHHHHH
Confidence 5788899999999999999999865
No 3
>cd00565 ThiS ThiaminS ubiquitin-like sulfur carrier protein. ThiS (ThiaminS) is a sulfur carrier protein involved in thiamin biosynthesis in bacteria. The ThiS fold, like those of two closely related proteins MoaD and Urm1, is similar to that of ubiquitin although there is little or no sequence similarity.
Probab=68.43 E-value=10 Score=24.57 Aligned_cols=23 Identities=13% Similarity=0.414 Sum_probs=20.6
Q ss_pred EccCCcEEEecCCccHHHHHhhC
Q 032416 14 MKIDGETIKLKTPIQASEVVKDY 36 (141)
Q Consensus 14 I~~DG~v~e~~~PvtA~eVm~e~ 36 (141)
|..||+..++..+.++.+|+...
T Consensus 2 i~iNg~~~~~~~~~tv~~ll~~l 24 (65)
T cd00565 2 ITVNGEPREVEEGATLAELLEEL 24 (65)
T ss_pred EEECCeEEEcCCCCCHHHHHHHc
Confidence 57899999999999999999764
No 4
>PRK06944 sulfur carrier protein ThiS; Provisional
Probab=67.02 E-value=26 Score=22.35 Aligned_cols=54 Identities=15% Similarity=0.273 Sum_probs=33.2
Q ss_pred EccCCcEEEecCCccHHHHHhhC---CCcEEEcCccccccCcccc-CCCCCCCCCCCCeEEEee
Q 032416 14 MKIDGETIKLKTPIQASEVVKDY---PGYVLLDSEAVKHFGIRAK-PLEPRQQLKPKKVYFLVE 73 (141)
Q Consensus 14 I~~DG~v~e~~~PvtA~eVm~e~---PghfVc~S~~l~~~g~r~~-~L~aDeeL~~G~iYFLLP 73 (141)
|..||+..++...++++|++... |...|.-- |..++ .--.+..|+.|--.-++|
T Consensus 3 i~vNg~~~~~~~~~tl~~ll~~l~~~~~~~v~vN------~~~v~~~~~~~~~L~~gD~vei~~ 60 (65)
T PRK06944 3 IQLNQQTLSLPDGATVADALAAYGARPPFAVAVN------GDFVARTQHAARALAAGDRLDLVQ 60 (65)
T ss_pred EEECCEEEECCCCCcHHHHHHhhCCCCCeEEEEC------CEEcCchhcccccCCCCCEEEEEe
Confidence 67899999999999999999754 33322111 11121 233467788884444443
No 5
>PRK08053 sulfur carrier protein ThiS; Provisional
Probab=63.98 E-value=26 Score=22.85 Aligned_cols=23 Identities=4% Similarity=0.182 Sum_probs=20.5
Q ss_pred EEccCCcEEEecCCccHHHHHhh
Q 032416 13 VMKIDGETIKLKTPIQASEVVKD 35 (141)
Q Consensus 13 VI~~DG~v~e~~~PvtA~eVm~e 35 (141)
-|..||+.+++..++++.+++..
T Consensus 2 ~i~vNg~~~~~~~~~tl~~ll~~ 24 (66)
T PRK08053 2 QILFNDQPMQCAAGQTVHELLEQ 24 (66)
T ss_pred EEEECCeEEEcCCCCCHHHHHHH
Confidence 36789999999999999999974
No 6
>PRK05659 sulfur carrier protein ThiS; Validated
Probab=63.59 E-value=7.5 Score=25.10 Aligned_cols=23 Identities=13% Similarity=0.274 Sum_probs=20.8
Q ss_pred EccCCcEEEecCCccHHHHHhhC
Q 032416 14 MKIDGETIKLKTPIQASEVVKDY 36 (141)
Q Consensus 14 I~~DG~v~e~~~PvtA~eVm~e~ 36 (141)
|+.||+..++..+.|++++|...
T Consensus 3 i~vNG~~~~~~~~~tl~~lL~~l 25 (66)
T PRK05659 3 IQLNGEPRELPDGESVAALLARE 25 (66)
T ss_pred EEECCeEEEcCCCCCHHHHHHhc
Confidence 67899999999999999999763
No 7
>TIGR01683 thiS thiamine biosynthesis protein ThiS. This model represents ThiS, a small thiamine-biosynthesis protein related to MoaD, a molybdenum cofactor biosynthesis protein. Both proteins are involved in sulfur transfer. ThiS has a conserved Gly-Gly C-terminus that is modified, in reactions requiring ThiI, ThiF, IscS, and a sulfur atom from Cys, into the thiocarboxylate that provides the sulfur for thiazole biosynthesis.
Probab=62.49 E-value=18 Score=23.47 Aligned_cols=55 Identities=13% Similarity=0.188 Sum_probs=33.8
Q ss_pred EccCCcEEEecCCccHHHHHhhC---CCcEEEcCccccccCccccC-CCCCCCCCCCCeEEEee
Q 032416 14 MKIDGETIKLKTPIQASEVVKDY---PGYVLLDSEAVKHFGIRAKP-LEPRQQLKPKKVYFLVE 73 (141)
Q Consensus 14 I~~DG~v~e~~~PvtA~eVm~e~---PghfVc~S~~l~~~g~r~~~-L~aDeeL~~G~iYFLLP 73 (141)
|..||+..++..++++.|++... |..+++.-+.- -++. --.+..|+.|--.-++|
T Consensus 1 i~iNg~~~~~~~~~tv~~ll~~l~~~~~~v~v~vN~~-----iv~~~~~~~~~L~~gD~veii~ 59 (64)
T TIGR01683 1 ITVNGEPVEVEDGLTLAALLESLGLDPRRVAVAVNGE-----IVPRSEWDDTILKEGDRIEIVT 59 (64)
T ss_pred CEECCeEEEcCCCCcHHHHHHHcCCCCCeEEEEECCE-----EcCHHHcCceecCCCCEEEEEE
Confidence 46799999999999999999865 44443321111 1111 12345788885555554
No 8
>PRK07440 hypothetical protein; Provisional
Probab=55.96 E-value=12 Score=25.16 Aligned_cols=25 Identities=12% Similarity=0.320 Sum_probs=21.9
Q ss_pred EEEccCCcEEEecCCccHHHHHhhC
Q 032416 12 KVMKIDGETIKLKTPIQASEVVKDY 36 (141)
Q Consensus 12 KVI~~DG~v~e~~~PvtA~eVm~e~ 36 (141)
.-|..||+.+++..++++.|+|.+.
T Consensus 5 m~i~vNG~~~~~~~~~tl~~lL~~l 29 (70)
T PRK07440 5 ITLQVNGETRTCSSGTSLPDLLQQL 29 (70)
T ss_pred eEEEECCEEEEcCCCCCHHHHHHHc
Confidence 4577899999999999999999763
No 9
>PRK06437 hypothetical protein; Provisional
Probab=50.96 E-value=59 Score=21.52 Aligned_cols=52 Identities=15% Similarity=0.399 Sum_probs=32.6
Q ss_pred EccCC---cEEEecCCccHHHHHhhC---CCcEEEcCccccccCccccCCCCCCCCCCCCeEEEee
Q 032416 14 MKIDG---ETIKLKTPIQASEVVKDY---PGYVLLDSEAVKHFGIRAKPLEPRQQLKPKKVYFLVE 73 (141)
Q Consensus 14 I~~DG---~v~e~~~PvtA~eVm~e~---PghfVc~S~~l~~~g~r~~~L~aDeeL~~G~iYFLLP 73 (141)
|..+| +..++..+.|++|||.+. |..++..- . -..++.|..|+.|--.=++|
T Consensus 5 ~~v~g~~~~~~~i~~~~tv~dLL~~Lgi~~~~vaV~v------N--g~iv~~~~~L~dgD~Veiv~ 62 (67)
T PRK06437 5 IRVKGHINKTIEIDHELTVNDIIKDLGLDEEEYVVIV------N--GSPVLEDHNVKKEDDVLILE 62 (67)
T ss_pred EEecCCcceEEEcCCCCcHHHHHHHcCCCCccEEEEE------C--CEECCCceEcCCCCEEEEEe
Confidence 55678 668888999999999853 33333221 1 12334888898885444443
No 10
>PRK05863 sulfur carrier protein ThiS; Provisional
Probab=49.44 E-value=18 Score=23.70 Aligned_cols=23 Identities=4% Similarity=0.284 Sum_probs=20.6
Q ss_pred EccCCcEEEecCCccHHHHHhhC
Q 032416 14 MKIDGETIKLKTPIQASEVVKDY 36 (141)
Q Consensus 14 I~~DG~v~e~~~PvtA~eVm~e~ 36 (141)
|..||+.+++..+.++.|++.+.
T Consensus 3 i~vNG~~~~~~~~~tl~~ll~~l 25 (65)
T PRK05863 3 VVVNEEQVEVDEQTTVAALLDSL 25 (65)
T ss_pred EEECCEEEEcCCCCcHHHHHHHc
Confidence 67899999999999999999763
No 11
>cd01668 TGS_RelA_SpoT TGS_RelA_SpoT: The RelA (SpoT) protein, also referred to as ppGpp hydrolase/synthetase, is a ribosome-associated protein that is activated during amino acid starvation and thought to mediate the stringent response. RelA contains a TGS domain, named after the Threonyl-tRNA Synthetase, GTPase, and SpoT proteins where it occurs. The function of the TGS domain is unknown.
Probab=47.08 E-value=30 Score=21.10 Aligned_cols=24 Identities=21% Similarity=0.221 Sum_probs=20.8
Q ss_pred EEEccCCcEEEecCCccHHHHHhh
Q 032416 12 KVMKIDGETIKLKTPIQASEVVKD 35 (141)
Q Consensus 12 KVI~~DG~v~e~~~PvtA~eVm~e 35 (141)
-|...||+.+++..++++.+++..
T Consensus 2 ~~~~~~g~~~~~~~~~t~~~~~~~ 25 (60)
T cd01668 2 YVFTPKGEIIELPAGATVLDFAYA 25 (60)
T ss_pred EEECCCCCEEEcCCCCCHHHHHHH
Confidence 466789999999999999998864
No 12
>PRK06083 sulfur carrier protein ThiS; Provisional
Probab=44.96 E-value=22 Score=25.02 Aligned_cols=25 Identities=8% Similarity=0.325 Sum_probs=21.9
Q ss_pred EEEccCCcEEEecCCccHHHHHhhC
Q 032416 12 KVMKIDGETIKLKTPIQASEVVKDY 36 (141)
Q Consensus 12 KVI~~DG~v~e~~~PvtA~eVm~e~ 36 (141)
.-|..||+..+++.++++.++|.++
T Consensus 19 m~I~VNG~~~~~~~~~tl~~LL~~l 43 (84)
T PRK06083 19 ITISINDQSIQVDISSSLAQIIAQL 43 (84)
T ss_pred EEEEECCeEEEcCCCCcHHHHHHHc
Confidence 3488999999999999999999753
No 13
>cd00178 STI Soybean trypsin inhibitor (Kunitz) family of protease inhibitors. Inhibit proteases by binding with high affinity to their active sites. Trefoil fold, common to interleukins and fibroblast growth factors.
Probab=41.55 E-value=22 Score=27.89 Aligned_cols=19 Identities=11% Similarity=0.211 Sum_probs=16.7
Q ss_pred CCCCCCCCCeEEEeecCCC
Q 032416 59 PRQQLKPKKVYFLVELPKL 77 (141)
Q Consensus 59 aDeeL~~G~iYFLLPl~rl 77 (141)
.+++|++|.-||++|..+.
T Consensus 6 ~G~~l~~g~~YyI~p~~~g 24 (172)
T cd00178 6 DGNPLRNGGRYYILPAIRG 24 (172)
T ss_pred CCCCCcCCCeEEEEEceeC
Confidence 4689999999999999874
No 14
>PRK07696 sulfur carrier protein ThiS; Provisional
Probab=40.08 E-value=30 Score=22.91 Aligned_cols=22 Identities=23% Similarity=0.504 Sum_probs=19.3
Q ss_pred EccCCcEEEecCC-ccHHHHHhh
Q 032416 14 MKIDGETIKLKTP-IQASEVVKD 35 (141)
Q Consensus 14 I~~DG~v~e~~~P-vtA~eVm~e 35 (141)
|..||+.+++..+ .+++|+|.+
T Consensus 3 I~vNG~~~~~~~~~~tv~~lL~~ 25 (67)
T PRK07696 3 LKINGNQIEVPESVKTVAELLTH 25 (67)
T ss_pred EEECCEEEEcCCCcccHHHHHHH
Confidence 6789999999988 789999975
No 15
>PRK08364 sulfur carrier protein ThiS; Provisional
Probab=39.30 E-value=1.1e+02 Score=20.14 Aligned_cols=52 Identities=10% Similarity=0.171 Sum_probs=33.0
Q ss_pred EccCCc----EEEecCCccHHHHHhhC---CCc-EEEcCccccccCccccCCCCCCCCCCCCeEEEeec
Q 032416 14 MKIDGE----TIKLKTPIQASEVVKDY---PGY-VLLDSEAVKHFGIRAKPLEPRQQLKPKKVYFLVEL 74 (141)
Q Consensus 14 I~~DG~----v~e~~~PvtA~eVm~e~---Pgh-fVc~S~~l~~~g~r~~~L~aDeeL~~G~iYFLLPl 74 (141)
|..+|+ ..++....+++|++.+. +.. +|.--. ..+.+|..|+.|--.-++|.
T Consensus 7 v~vng~~~~~~~~~~~~~tv~~ll~~l~~~~~~v~v~vNg---------~iv~~~~~l~~gD~Veii~~ 66 (70)
T PRK08364 7 VKVIGRGIEKEIEWRKGMKVADILRAVGFNTESAIAKVNG---------KVALEDDPVKDGDYVEVIPV 66 (70)
T ss_pred EEEeccccceEEEcCCCCcHHHHHHHcCCCCccEEEEECC---------EECCCCcCcCCCCEEEEEcc
Confidence 445788 67778889999999754 222 222111 22356888888876666653
No 16
>PF00197 Kunitz_legume: Trypsin and protease inhibitor; InterPro: IPR002160 Peptide proteinase inhibitors can be found as single domain proteins or as single or multiple domains within proteins; these are referred to as either simple or compound inhibitors, respectively. In many cases they are synthesised as part of a larger precursor protein, either as a prepropeptide or as an N-terminal domain associated with an inactive peptidase or zymogen. This domain prevents access of the substrate to the active site. Removal of the N-terminal inhibitor domain either by interaction with a second peptidase or by autocatalytic cleavage activates the zymogen. Other inhibitors interact direct with proteinases using a simple noncovalent lock and key mechanism; while yet others use a conformational change-based trapping mechanism that depends on their structural and thermodynamic properties. The Kunitz-type soybean trypsin inhibitor (STI) family consists mainly of proteinase inhibitors from Leguminosae seeds []. They belong to MEROPS inhibitor family I3, clan IC. They exhibit proteinase inhibitory activity against serine proteinases; trypsin (MEROPS peptidase family S1, IPR001254 from INTERPRO) and subtilisin (MEROPS peptidase family S8, IPR000209 from INTERPRO), thiol proteinases (MEROPS peptidase family C1, IPR000668 from INTERPRO) and aspartic proteinases (MEROPS peptidase family A1, IPR001461 from INTERPRO) []. Inhibitors from cereals are active against subtilisin and endogenous alpha-amylases, while some also inhibit tissue plasminogen activator. The inhibitors are usually specific for either trypsin or chymotrypsin, and some are effective against both. They are thought to protect the seeds against consumption by animal predators, while at the same time existing as seed storage proteins themselves - all the actively inhibitory members contain 2 disulphide bridges. The existence of a member with no inhibitory activity, winged bean albumin 1, suggests that the inhibitors may have evolved from seed storage proteins. Proteins from the Kunitz family contain from 170 to 200 amino acid residues and one or two intra-chain disulphide bonds. The best conserved region is found in their N-terminal section. The crystal structures of soybean trypsin inhibitor (STI), trypsin inhibitor DE-3 from the Kaffir tree Erythrina caffra (ETI) [] and the bifunctional proteinase K/alpha-amylase inhibitor from wheat (PK13) have been solved, showing them to share the same 12-stranded beta-sheet structure as those of interleukin-1 and heparin-binding growth factors []. The beta-sheets are arranged in 3 similar lobes around a central axis, 6 strands forming an anti-parallel beta-barrel. Despite the structural similarity, STI shows no interleukin-1 bioactivity, presumably as a result of their primary sequence disparities. The active inhibitory site containing the scissile bond is located in the loop between beta-strands 4 and 5 in STI and ETI. The STIs belong to a superfamily that also contains the interleukin-1 proteins, heparin binding growth factors (HBGF) and histactophilin, all of which have very similar structures, but share no sequence similarity with the STI family.; GO: 0004866 endopeptidase inhibitor activity; PDB: 3TC2_B 3S8J_A 3S8K_A 1TIE_A 2GZB_A 3E8L_C 2IWT_B 3BX1_C 1AVA_D 3IIR_A ....
Probab=39.04 E-value=25 Score=27.48 Aligned_cols=20 Identities=10% Similarity=0.207 Sum_probs=16.1
Q ss_pred CCCCCCCCCeEEEeecCCCC
Q 032416 59 PRQQLKPKKVYFLVELPKLP 78 (141)
Q Consensus 59 aDeeL~~G~iYFLLPl~rl~ 78 (141)
.+++|++|.-||++|..+..
T Consensus 6 ~G~~l~~g~~YyI~p~~~~~ 25 (176)
T PF00197_consen 6 DGNPLRNGGEYYILPAIRGA 25 (176)
T ss_dssp TSCB-BTTSEEEEEESSTGC
T ss_pred CCCCCcCCCCEEEEeCccCC
Confidence 36789999999999998754
No 17
>PF08140 Cuticle_1: Crustacean cuticle protein repeat; InterPro: IPR012539 This family consists of the cuticle proteins from the Cancer pagurus (Rock crab) and the Homarus americanus (American lobster). These proteins are isolated from the calcified regions of the crustacean and they contain two copies of an 18 residue sequence motif, which thus far has been found only in crustacean calcified exoskeletons [].; GO: 0042302 structural constituent of cuticle
Probab=34.12 E-value=27 Score=21.92 Aligned_cols=28 Identities=18% Similarity=0.349 Sum_probs=22.2
Q ss_pred EEccCCcEEEecCCccHHHHHhhCCCcEEE
Q 032416 13 VMKIDGETIKLKTPIQASEVVKDYPGYVLL 42 (141)
Q Consensus 13 VI~~DG~v~e~~~PvtA~eVm~e~PghfVc 42 (141)
||..||..++|...+. +|+..-|.-+|.
T Consensus 5 ii~~dG~~~q~~~~~a--~ivl~GpSG~v~ 32 (40)
T PF08140_consen 5 IITPDGTNVQFPHGVA--NIVLIGPSGAVL 32 (40)
T ss_pred eECCCCCEEECCcccc--eEEEECCceEEe
Confidence 7899999999998876 777777765554
No 18
>PRK06488 sulfur carrier protein ThiS; Validated
Probab=31.24 E-value=48 Score=21.35 Aligned_cols=22 Identities=14% Similarity=0.351 Sum_probs=18.5
Q ss_pred EccCCcEEEecCCccHHHHHhhC
Q 032416 14 MKIDGETIKLKTPIQASEVVKDY 36 (141)
Q Consensus 14 I~~DG~v~e~~~PvtA~eVm~e~ 36 (141)
|..||+.+++ .+.++++++.+.
T Consensus 3 i~~Ng~~~~~-~~~tl~~Ll~~l 24 (65)
T PRK06488 3 LFVNGETLQT-EATTLALLLAEL 24 (65)
T ss_pred EEECCeEEEc-CcCcHHHHHHHc
Confidence 6789999999 568999999763
No 19
>COG2104 ThiS Sulfur transfer protein involved in thiamine biosynthesis [Coenzyme metabolism]
Probab=30.16 E-value=65 Score=21.85 Aligned_cols=24 Identities=4% Similarity=0.405 Sum_probs=20.9
Q ss_pred EEccCCcEEEecCCccHHHHHhhC
Q 032416 13 VMKIDGETIKLKTPIQASEVVKDY 36 (141)
Q Consensus 13 VI~~DG~v~e~~~PvtA~eVm~e~ 36 (141)
-|..||+-.++..+.|++|+|.+.
T Consensus 4 ~i~~ng~~~e~~~~~tv~dLL~~l 27 (68)
T COG2104 4 TIQLNGKEVEIAEGTTVADLLAQL 27 (68)
T ss_pred EEEECCEEEEcCCCCcHHHHHHHh
Confidence 456789999999999999999774
No 20
>COG5568 Uncharacterized small protein [Function unknown]
Probab=29.61 E-value=41 Score=24.23 Aligned_cols=20 Identities=25% Similarity=0.544 Sum_probs=15.3
Q ss_pred CcEEEecCCccHHHHHhhCCC
Q 032416 18 GETIKLKTPIQASEVVKDYPG 38 (141)
Q Consensus 18 G~v~e~~~PvtA~eVm~e~Pg 38 (141)
|+|- |-.+|++.||+.++|.
T Consensus 21 gev~-YvRkirs~el~r~fPe 40 (85)
T COG5568 21 GEVA-YVRKIRSDELLRCFPE 40 (85)
T ss_pred CceE-EEEeccHHHHHhhCCC
Confidence 4443 4458999999999997
No 21
>smart00452 STI Soybean trypsin inhibitor (Kunitz) family of protease inhibitors.
Probab=29.47 E-value=44 Score=26.24 Aligned_cols=19 Identities=11% Similarity=0.246 Sum_probs=16.5
Q ss_pred CCCCCCCCCeEEEeecCCC
Q 032416 59 PRQQLKPKKVYFLVELPKL 77 (141)
Q Consensus 59 aDeeL~~G~iYFLLPl~rl 77 (141)
.+++|++|.-||++|..+.
T Consensus 5 ~G~~l~~G~~YyI~p~~~g 23 (172)
T smart00452 5 DGNPLRNGGTYYILPAIRG 23 (172)
T ss_pred CCCCCcCCCcEEEEEcccc
Confidence 4689999999999999863
No 22
>cd02980 TRX_Fd_family Thioredoxin (TRX)-like [2Fe-2S] Ferredoxin (Fd) family; composed of [2Fe-2S] Fds with a TRX fold (TRX-like Fds) and proteins containing domains similar to TRX-like Fd including formate dehydrogenases, NAD-reducing hydrogenases and the subunit E of NADH:ubiquinone oxidoreductase (NuoE). TRX-like Fds are soluble low-potential electron carriers containing a single [2Fe-2S] cluster. The exact role of TRX-like Fd is still unclear. It has been suggested that it may be involved in nitrogen fixation. Its homologous domains in large redox enzymes (such as Nuo and hydrogenases) function as electron carriers.
Probab=26.74 E-value=85 Score=20.18 Aligned_cols=29 Identities=24% Similarity=0.210 Sum_probs=20.4
Q ss_pred CCceEEEccCCcEEEecCCccHHHHHhhC
Q 032416 8 RRKAKVMKIDGETIKLKTPIQASEVVKDY 36 (141)
Q Consensus 8 ~~~aKVI~~DG~v~e~~~PvtA~eVm~e~ 36 (141)
...+-+|.++|.++.--.|-.+.+|+.+|
T Consensus 49 ~~P~v~i~~~~~~y~~v~~~~~~~il~~~ 77 (77)
T cd02980 49 LAPVVVVYPDGVWYGRVTPEDVEEIVEEL 77 (77)
T ss_pred CCCEEEEeCCCeEEccCCHHHHHHHHHhC
Confidence 45556666778877777777788887664
No 23
>cd01667 TGS_ThrRS_N TGS _ThrRS_N: ThrRS (threonyl-tRNA Synthetase) is a class II tRNA synthetase that couples threonine to its cognate tRNA. In addition to its catalytic and anticodon-binding domains, ThrRS has an N-terminal TGS domain, named after the ThrRS, GTPase, and SpoT proteins where it occurs. The TGS domain is thought to interact with the tRNA acceptor arm along with an adjacent N-terminal domain. The specific function of TGS is not well understood.
Probab=26.11 E-value=1e+02 Score=17.91 Aligned_cols=25 Identities=16% Similarity=0.242 Sum_probs=21.0
Q ss_pred EEEccCCcEEEecCCccHHHHHhhC
Q 032416 12 KVMKIDGETIKLKTPIQASEVVKDY 36 (141)
Q Consensus 12 KVI~~DG~v~e~~~PvtA~eVm~e~ 36 (141)
++.-.||+.+++..+++..+++.+.
T Consensus 2 ~i~~~~~~~~~~~~~~t~~~~~~~~ 26 (61)
T cd01667 2 KITLPDGSVKEFPKGTTPLDIAKSI 26 (61)
T ss_pred EEEcCCCCEEEeCCCCCHHHHHHHH
Confidence 4566789999999999999988765
No 24
>cd01616 TGS The TGS domain, named after the ThrRS, GTPase, and SpoT/RelA proteins where it occurs, is structurally similar to ubiquitin. TGS is a small domain of about 50 amino acid residues with a predominantly beta-sheet structure. There is no direct information on the function of the TGS domain, but its presence in two types of regulatory proteins (the GTPases and guanosine polyphosphate phosphohydrolases/synthetases) suggests a ligand (most likely nucleotide)-binding, regulatory role.
Probab=25.83 E-value=1.1e+02 Score=17.50 Aligned_cols=25 Identities=16% Similarity=0.258 Sum_probs=20.9
Q ss_pred EEEccCCcEEEecCCccHHHHHhhC
Q 032416 12 KVMKIDGETIKLKTPIQASEVVKDY 36 (141)
Q Consensus 12 KVI~~DG~v~e~~~PvtA~eVm~e~ 36 (141)
.++..||...++....++.|++.+.
T Consensus 2 ~~~~~~~~~~~~~~g~t~~~~~~~~ 26 (60)
T cd01616 2 IIFTPDGSAVELPKGATAMDFALKI 26 (60)
T ss_pred EEECCCCCEEEcCCCCCHHHHHHHH
Confidence 4667789999999999999988654
No 25
>PF08428 Rib: Rib/alpha-like repeat; InterPro: IPR012706 This entry represents a region of about 79 amino acids found tandemly repeated up to fourteen times within the proteins that contain it. The repeats lack cysteines and are highly conserved, even at the DNA level, within and between proteins []. Proteins containing these repeats include the Rib and alpha surface antigens of group B Streptococcus, Esp of Enterococcus faecalis (Streptococcus faecalis), and related proteins of Lactobacillus. Most members of this protein family also have the cell wall anchor motif, LPXTG, shared by many staphyloccal and streptococcal surface antigens. These repeats are thought to define protective epitopes and may play a role in generating phenotypic and genotypic variation [].
Probab=24.17 E-value=33 Score=22.79 Aligned_cols=22 Identities=32% Similarity=0.433 Sum_probs=19.1
Q ss_pred CceEEEccCCcEEEecCCccHH
Q 032416 9 RKAKVMKIDGETIKLKTPIQAS 30 (141)
Q Consensus 9 ~~aKVI~~DG~v~e~~~PvtA~ 30 (141)
..++|-++||+..++.-||+|.
T Consensus 43 ~~V~VtypDgS~~~V~v~V~V~ 64 (65)
T PF08428_consen 43 GKVKVTYPDGSTDEVPVPVTVT 64 (65)
T ss_pred EEEEEEcCCCCEEEEEeEEEEe
Confidence 4689999999999999888764
No 26
>TIGR03746 conj_TIGR03746 integrating conjugative element protein, PFL_4703 family. Members of this protein family are found occasionally on plasmids such as the Pseudomonas putida TOL plasmid pWWO_p085. Usually, however, they are found on the bacterial main chromosome in regions flanked by markers of conjugative transfer and/or transposition. The function is unknown.
Probab=22.87 E-value=56 Score=27.04 Aligned_cols=32 Identities=13% Similarity=0.062 Sum_probs=28.2
Q ss_pred eEEEccCCcEEEecCCccHHHHHhhCCCcEEE
Q 032416 11 AKVMKIDGETIKLKTPIQASEVVKDYPGYVLL 42 (141)
Q Consensus 11 aKVI~~DG~v~e~~~PvtA~eVm~e~PghfVc 42 (141)
.=+|+.|..+.|+-.+..|++++..||=++|-
T Consensus 145 ~W~V~LDl~~~E~~~~e~VK~~~vRYpL~VVR 176 (202)
T TIGR03746 145 SWTVNLDLSVDEYYGGEPVKRALVRYPLRVVR 176 (202)
T ss_pred ceEEEEEEEEEeeeCCcchhhhhcccceEEEE
Confidence 34678889999999999999999999999883
No 27
>COG1423 ATP-dependent DNA ligase, homolog of eukaryotic ligase III [DNA replication, recombination, and repair]
Probab=21.86 E-value=1.1e+02 Score=27.55 Aligned_cols=63 Identities=22% Similarity=0.406 Sum_probs=44.0
Q ss_pred ceEEEccCCcEEEec-----CCccH--------HHHHhhCCCcEEEcCccccccCccccCCCCCCCCCCCCeEEEeecCC
Q 032416 10 KAKVMKIDGETIKLK-----TPIQA--------SEVVKDYPGYVLLDSEAVKHFGIRAKPLEPRQQLKPKKVYFLVELPK 76 (141)
Q Consensus 10 ~aKVI~~DG~v~e~~-----~PvtA--------~eVm~e~PghfVc~S~~l~~~g~r~~~L~aDeeL~~G~iYFLLPl~r 76 (141)
.+||++.||++.-++ +|-|- -|++.|||+.+||- ++ +|.-.+=++.+..-..+-=||++-...
T Consensus 100 NVRV~k~~g~vyAiTRgG~ICPfTT~r~~~l~~~eff~d~p~lvlcg--Em--vG~enPYv~~~~y~~e~v~fFvFDire 175 (382)
T COG1423 100 NVRVVKLGGEVYAITRGGLICPFTTERLRDLIDLEFFDDYPDLVLCG--EM--VGPENPYVPGPYYEKEDVGFFVFDIRE 175 (382)
T ss_pred eEEEEEECCEEEEEecCceecCchhHHHHhhcchhhHhhCCCcEEEE--Ee--ccCCCCCCCCCCCccCCceEEEEEEEe
Confidence 689999999999886 35443 26678999999993 22 344334455666666666788887655
No 28
>PF03990 DUF348: Domain of unknown function (DUF348) ; InterPro: IPR007137 This domain normally occurs as tandem repeats; however it is found as a single copy in the Saccharomyces cerevisiae (Baker's yeast) DNA-binding nuclear protein YCR593 (P25357 from SWISSPROT).
Probab=21.16 E-value=1.2e+02 Score=18.21 Aligned_cols=23 Identities=17% Similarity=0.391 Sum_probs=17.9
Q ss_pred EccCCcEEEec-CCccHHHHHhhC
Q 032416 14 MKIDGETIKLK-TPIQASEVVKDY 36 (141)
Q Consensus 14 I~~DG~v~e~~-~PvtA~eVm~e~ 36 (141)
|..||+...+. ..-+|+|+|.+.
T Consensus 4 v~~dG~~~~v~T~a~tV~~~L~~~ 27 (43)
T PF03990_consen 4 VTVDGKEKTVYTTASTVGDALKEL 27 (43)
T ss_pred EEECCEEEEEEeCCCCHHHHHHhC
Confidence 34599988885 577899999775
Done!