Query 029320
Match_columns 195
No_of_seqs 95 out of 105
Neff 3.6
Searched_HMMs 46136
Date Fri Mar 29 11:01:54 2013
Command hhsearch -i /work/01045/syshi/csienesis_hhblits_a3m/029320.a3m -d /work/01045/syshi/HHdatabase/Cdd.hhm -o /work/01045/syshi/hhsearch_cdd/029320hhsearch_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 99.9 9E-26 2E-30 176.1 9.2 134 1-145 21-154 (181)
2 cd00565 ThiS ThiaminS ubiquiti 76.0 4.7 0.0001 27.8 3.7 55 1-60 2-60 (65)
3 TIGR01683 thiS thiamine biosyn 64.4 13 0.00028 25.6 3.9 55 1-60 1-59 (64)
4 PRK06944 sulfur carrier protei 63.7 16 0.00034 24.8 4.2 23 1-23 3-25 (65)
5 PRK05659 sulfur carrier protei 59.9 5.9 0.00013 27.1 1.5 23 1-23 3-25 (66)
6 PRK08053 sulfur carrier protei 58.2 23 0.0005 24.6 4.3 22 1-22 3-24 (66)
7 smart00332 PP2Cc Serine/threon 56.0 17 0.00037 29.4 3.8 31 123-153 211-244 (255)
8 PRK07440 hypothetical protein; 55.3 7.9 0.00017 27.7 1.6 23 1-23 7-29 (70)
9 PRK06437 hypothetical protein; 53.6 28 0.0006 24.6 4.1 55 1-60 5-62 (67)
10 PRK08364 sulfur carrier protei 47.1 33 0.00072 24.2 3.7 55 2-61 8-66 (70)
11 cd00143 PP2Cc Serine/threonine 45.6 33 0.0007 27.5 3.9 31 124-154 209-242 (254)
12 PRK06488 sulfur carrier protei 44.9 35 0.00076 23.4 3.5 53 2-60 4-60 (65)
13 PRK05863 sulfur carrier protei 41.8 17 0.00038 25.3 1.6 22 2-23 4-25 (65)
14 PRK07696 sulfur carrier protei 41.4 18 0.00039 25.5 1.6 22 1-22 3-25 (67)
15 PRK06083 sulfur carrier protei 39.3 19 0.00041 27.0 1.5 23 1-23 21-43 (84)
16 PF05184 SapB_1: Saposin-like 37.7 49 0.0011 20.2 3.0 25 127-151 12-36 (39)
17 COG5568 Uncharacterized small 30.8 37 0.0008 26.3 1.9 17 9-25 24-40 (85)
18 PF12728 HTH_17: Helix-turn-he 28.8 61 0.0013 20.8 2.5 17 121-137 35-51 (51)
19 PF01172 SBDS: Shwachman-Bodia 28.7 68 0.0015 24.1 3.0 24 124-148 54-77 (91)
20 COG0631 PTC1 Serine/threonine 27.7 96 0.0021 27.0 4.2 30 123-152 208-237 (262)
21 COG2104 ThiS Sulfur transfer p 27.5 40 0.00086 24.5 1.5 48 1-53 5-56 (68)
22 PF03658 Ub-RnfH: RnfH family 26.5 44 0.00095 25.4 1.6 45 15-63 31-76 (84)
23 PF00808 CBFD_NFYB_HMF: Histon 25.8 82 0.0018 21.5 2.8 17 122-138 1-17 (65)
24 PF06972 DUF1296: Protein of u 25.1 94 0.002 22.7 3.0 25 125-149 20-45 (60)
25 cd00052 EH Eps15 homology doma 22.7 1.4E+02 0.0031 19.1 3.4 28 124-151 16-43 (67)
26 PRK01777 hypothetical protein; 22.5 74 0.0016 24.4 2.2 65 8-76 21-89 (95)
27 PLN03145 Protein phosphatase 2 21.4 1.4E+02 0.003 27.7 4.2 31 123-153 282-316 (365)
28 PF00481 PP2C: Protein phospha 21.3 64 0.0014 27.1 1.8 34 123-156 214-251 (254)
29 PRK14559 putative protein seri 20.5 1.3E+02 0.0028 30.3 4.1 28 127-154 595-622 (645)
No 1
>PF14009 DUF4228: Domain of unknown function (DUF4228)
Probab=99.93 E-value=9e-26 Score=176.07 Aligned_cols=134 Identities=27% Similarity=0.486 Sum_probs=94.4
Q ss_pred CccccceEEeeccchHhHHhhhCCCceeeccccccccceecccCCCcccccCCceEEEEecCCCcccCCCcccccccCCC
Q 029320 1 MKITGETFKIKTPVKAGEVVKDYPGHVLLESESVKHYGVRAKPLGAEQNLEAKRLYFLVELPDVARKEIVPRRVRSGINM 80 (195)
Q Consensus 1 MklDG~V~E~k~PitA~eVl~d~PgHvL~~S~sv~~~Gvr~kpL~pd~eL~~GklYFLvPlp~~~~~~~~~rrvrsgi~~ 80 (195)
|..||+|++|+.||+|+|||.+||+|+|+++... ++|.++.||+||++|++|++|||||++..... ..... -..+..
T Consensus 21 v~~~G~v~~~~~pv~a~evm~~~P~h~v~~~~~~-~~~~~~~~l~~d~~L~~G~~Y~llP~~~~~~~-~~~~~-~~~~~~ 97 (181)
T PF14009_consen 21 VHPDGKVEEFKRPVTAAEVMLENPGHFVCDSDSF-RFGRRIKPLPPDEELQPGQIYFLLPMSRLQSV-LSASD-MASLAS 97 (181)
T ss_pred EcCCCcEEEeCCCcCHHHHHHHCCCCEEeccccc-cCCCcccCCCccCeecCCCEEEEEEccccCcc-cccch-hccccc
Confidence 4689999999999999999999999999988754 67889999999999999999999999886632 11111 111122
Q ss_pred chhhHHHhhhhcccccCcccccCCCCCCCCCCCCCCeeEEEEeecHHHHHHHHHhcCChHHHHHH
Q 029320 81 SAKDRLESLKLSRRSVSDLSILKPVSSSSSSLPEEGAMRLKLKLPKAEVEKLMRESNNDAEIAEK 145 (195)
Q Consensus 81 ~a~eRle~l~lsrRs~sd~s~~~~~~~~~~~~~~~g~vRvKmrLpKaelekLm~es~d~~eaaek 145 (195)
.+.+.+........+.++++ ......+|.+|+|++++|+|++++++++.+....++.
T Consensus 98 ~~~~~~~~~~~~~~~~~~~~--------~~~~~~~g~~rvki~isk~el~~~l~~~s~~~~~~~~ 154 (181)
T PF14009_consen 98 SASSASSSSSARKSSSRPFS--------RSRSSNGGVVRVKIVISKEELEELLSEGSDEEMLSES 154 (181)
T ss_pred chhhcccccccccccccccc--------ccccccCcccccccccCHHHHHHHHhccccchhhhhh
Confidence 23333322222222222221 1123467899999999999999999987555554443
No 2
>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=75.98 E-value=4.7 Score=27.81 Aligned_cols=55 Identities=13% Similarity=0.241 Sum_probs=36.8
Q ss_pred CccccceEEeeccchHhHHhhhCCCceeeccccccccceecccCCCc----ccccCCceEEEEe
Q 029320 1 MKITGETFKIKTPVKAGEVVKDYPGHVLLESESVKHYGVRAKPLGAE----QNLEAKRLYFLVE 60 (195)
Q Consensus 1 MklDG~V~E~k~PitA~eVl~d~PgHvL~~S~sv~~~Gvr~kpL~pd----~eL~~GklYFLvP 60 (195)
+++||+..++..+.|+.++|...- ++...+ ..-+.-.+++++ ..|+.|--.-++|
T Consensus 2 i~iNg~~~~~~~~~tv~~ll~~l~----~~~~~i-~V~vNg~~v~~~~~~~~~L~~gD~V~ii~ 60 (65)
T cd00565 2 ITVNGEPREVEEGATLAELLEELG----LDPRGV-AVALNGEIVPRSEWASTPLQDGDRIEIVT 60 (65)
T ss_pred EEECCeEEEcCCCCCHHHHHHHcC----CCCCcE-EEEECCEEcCHHHcCceecCCCCEEEEEE
Confidence 468999999999999999998762 111111 111234566777 8899995555554
No 3
>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=64.41 E-value=13 Score=25.56 Aligned_cols=55 Identities=11% Similarity=0.196 Sum_probs=34.2
Q ss_pred CccccceEEeeccchHhHHhhhCCCceeeccccccccceecccCC----CcccccCCceEEEEe
Q 029320 1 MKITGETFKIKTPVKAGEVVKDYPGHVLLESESVKHYGVRAKPLG----AEQNLEAKRLYFLVE 60 (195)
Q Consensus 1 MklDG~V~E~k~PitA~eVl~d~PgHvL~~S~sv~~~Gvr~kpL~----pd~eL~~GklYFLvP 60 (195)
+++||+.+++..++|+.++|...-- +++.+ ..-+.-..++ .+..|+.|--.-++|
T Consensus 1 i~iNg~~~~~~~~~tv~~ll~~l~~----~~~~v-~v~vN~~iv~~~~~~~~~L~~gD~veii~ 59 (64)
T TIGR01683 1 ITVNGEPVEVEDGLTLAALLESLGL----DPRRV-AVAVNGEIVPRSEWDDTILKEGDRIEIVT 59 (64)
T ss_pred CEECCeEEEcCCCCcHHHHHHHcCC----CCCeE-EEEECCEEcCHHHcCceecCCCCEEEEEE
Confidence 4799999999999999999996621 11111 1111223343 345788885555554
No 4
>PRK06944 sulfur carrier protein ThiS; Provisional
Probab=63.71 E-value=16 Score=24.80 Aligned_cols=23 Identities=9% Similarity=0.374 Sum_probs=20.5
Q ss_pred CccccceEEeeccchHhHHhhhC
Q 029320 1 MKITGETFKIKTPVKAGEVVKDY 23 (195)
Q Consensus 1 MklDG~V~E~k~PitA~eVl~d~ 23 (195)
+++||+..++....|+.+++..+
T Consensus 3 i~vNg~~~~~~~~~tl~~ll~~l 25 (65)
T PRK06944 3 IQLNQQTLSLPDGATVADALAAY 25 (65)
T ss_pred EEECCEEEECCCCCcHHHHHHhh
Confidence 47899999999999999999864
No 5
>PRK05659 sulfur carrier protein ThiS; Validated
Probab=59.95 E-value=5.9 Score=27.12 Aligned_cols=23 Identities=9% Similarity=0.222 Sum_probs=20.5
Q ss_pred CccccceEEeeccchHhHHhhhC
Q 029320 1 MKITGETFKIKTPVKAGEVVKDY 23 (195)
Q Consensus 1 MklDG~V~E~k~PitA~eVl~d~ 23 (195)
+++||+..++..+.|+.++|...
T Consensus 3 i~vNG~~~~~~~~~tl~~lL~~l 25 (66)
T PRK05659 3 IQLNGEPRELPDGESVAALLARE 25 (66)
T ss_pred EEECCeEEEcCCCCCHHHHHHhc
Confidence 36899999999999999999864
No 6
>PRK08053 sulfur carrier protein ThiS; Provisional
Probab=58.24 E-value=23 Score=24.61 Aligned_cols=22 Identities=5% Similarity=0.169 Sum_probs=20.0
Q ss_pred CccccceEEeeccchHhHHhhh
Q 029320 1 MKITGETFKIKTPVKAGEVVKD 22 (195)
Q Consensus 1 MklDG~V~E~k~PitA~eVl~d 22 (195)
+++||+.+++..++|+.++|..
T Consensus 3 i~vNg~~~~~~~~~tl~~ll~~ 24 (66)
T PRK08053 3 ILFNDQPMQCAAGQTVHELLEQ 24 (66)
T ss_pred EEECCeEEEcCCCCCHHHHHHH
Confidence 3689999999999999999984
No 7
>smart00332 PP2Cc Serine/threonine phosphatases, family 2C, catalytic domain. The protein architecture and deduced catalytic mechanism of PP2C phosphatases are similar to the PP1, PP2A, PP2B family of protein Ser/Thr phosphatases, with which PP2C shares no sequence similarity.
Probab=55.98 E-value=17 Score=29.43 Aligned_cols=31 Identities=26% Similarity=0.454 Sum_probs=28.0
Q ss_pred eecHHHHHHHHHhcC---ChHHHHHHHHHHHHhc
Q 029320 123 KLPKAEVEKLMRESN---NDAEIAEKIRELCMAK 153 (195)
Q Consensus 123 rLpKaelekLm~es~---d~~eaaekim~l~~~~ 153 (195)
.|+.++++.++.+.. |..++|++|++++..+
T Consensus 211 ~l~~~~i~~~~~~~~~~~~~~~~~~~l~~~a~~~ 244 (255)
T smart00332 211 VLSNQEVVDIVRKHLSKSDPEEAAKRLIDLALAR 244 (255)
T ss_pred CCCHHHHHHHHHHHhhcCCHHHHHHHHHHHHHHc
Confidence 689999999999877 6999999999999875
No 8
>PRK07440 hypothetical protein; Provisional
Probab=55.30 E-value=7.9 Score=27.69 Aligned_cols=23 Identities=13% Similarity=0.326 Sum_probs=20.6
Q ss_pred CccccceEEeeccchHhHHhhhC
Q 029320 1 MKITGETFKIKTPVKAGEVVKDY 23 (195)
Q Consensus 1 MklDG~V~E~k~PitA~eVl~d~ 23 (195)
+++||+..++..++|..++|.+.
T Consensus 7 i~vNG~~~~~~~~~tl~~lL~~l 29 (70)
T PRK07440 7 LQVNGETRTCSSGTSLPDLLQQL 29 (70)
T ss_pred EEECCEEEEcCCCCCHHHHHHHc
Confidence 46899999999999999999854
No 9
>PRK06437 hypothetical protein; Provisional
Probab=53.58 E-value=28 Score=24.61 Aligned_cols=55 Identities=20% Similarity=0.438 Sum_probs=35.8
Q ss_pred Ccccc---ceEEeeccchHhHHhhhCCCceeeccccccccceecccCCCcccccCCceEEEEe
Q 029320 1 MKITG---ETFKIKTPVKAGEVVKDYPGHVLLESESVKHYGVRAKPLGAEQNLEAKRLYFLVE 60 (195)
Q Consensus 1 MklDG---~V~E~k~PitA~eVl~d~PgHvL~~S~sv~~~Gvr~kpL~pd~eL~~GklYFLvP 60 (195)
+++|| +..++..+.|+.++|+.. +. +++.+ ..-+.-.+++++..|+.|--.-+++
T Consensus 5 ~~v~g~~~~~~~i~~~~tv~dLL~~L-gi---~~~~v-aV~vNg~iv~~~~~L~dgD~Veiv~ 62 (67)
T PRK06437 5 IRVKGHINKTIEIDHELTVNDIIKDL-GL---DEEEY-VVIVNGSPVLEDHNVKKEDDVLILE 62 (67)
T ss_pred EEecCCcceEEEcCCCCcHHHHHHHc-CC---CCccE-EEEECCEECCCceEcCCCCEEEEEe
Confidence 47899 568899999999999864 21 22222 1112345677999999985444443
No 10
>PRK08364 sulfur carrier protein ThiS; Provisional
Probab=47.13 E-value=33 Score=24.18 Aligned_cols=55 Identities=13% Similarity=0.213 Sum_probs=36.6
Q ss_pred ccccc----eEEeeccchHhHHhhhCCCceeeccccccccceecccCCCcccccCCceEEEEec
Q 029320 2 KITGE----TFKIKTPVKAGEVVKDYPGHVLLESESVKHYGVRAKPLGAEQNLEAKRLYFLVEL 61 (195)
Q Consensus 2 klDG~----V~E~k~PitA~eVl~d~PgHvL~~S~sv~~~Gvr~kpL~pd~eL~~GklYFLvPl 61 (195)
++||+ ..++....|+.+++...- + +.+.+ ..-+.-.++++|..|+.|--.-++|.
T Consensus 8 ~vng~~~~~~~~~~~~~tv~~ll~~l~-~---~~~~v-~v~vNg~iv~~~~~l~~gD~Veii~~ 66 (70)
T PRK08364 8 KVIGRGIEKEIEWRKGMKVADILRAVG-F---NTESA-IAKVNGKVALEDDPVKDGDYVEVIPV 66 (70)
T ss_pred EEeccccceEEEcCCCCcHHHHHHHcC-C---CCccE-EEEECCEECCCCcCcCCCCEEEEEcc
Confidence 67899 778888999999998651 1 11111 11223356778999999976666653
No 11
>cd00143 PP2Cc Serine/threonine phosphatases, family 2C, catalytic domain; The protein architecture and deduced catalytic mechanism of PP2C phosphatases are similar to the PP1, PP2A, PP2B family of protein Ser/Thr phosphatases, with which PP2C shares no sequence similarity.
Probab=45.65 E-value=33 Score=27.55 Aligned_cols=31 Identities=19% Similarity=0.343 Sum_probs=27.6
Q ss_pred ecHHHHHHHHHhcC---ChHHHHHHHHHHHHhcc
Q 029320 124 LPKAEVEKLMRESN---NDAEIAEKIRELCMAKQ 154 (195)
Q Consensus 124 LpKaelekLm~es~---d~~eaaekim~l~~~~~ 154 (195)
|+..++.+++.... +..++|++|++.+..+.
T Consensus 209 l~~~~i~~~~~~~~~~~~~~~~a~~l~~~a~~~~ 242 (254)
T cd00143 209 LSNQEAVDIVRSELAKEDLQEAAQELVDLALRRG 242 (254)
T ss_pred cChHHHHHHHHHHhcccCHHHHHHHHHHHHHhCC
Confidence 48899999999988 89999999999988665
No 12
>PRK06488 sulfur carrier protein ThiS; Validated
Probab=44.94 E-value=35 Score=23.39 Aligned_cols=53 Identities=11% Similarity=0.134 Sum_probs=32.4
Q ss_pred ccccceEEeeccchHhHHhhhCCCceeeccccccccceecccCCC----cccccCCceEEEEe
Q 029320 2 KITGETFKIKTPVKAGEVVKDYPGHVLLESESVKHYGVRAKPLGA----EQNLEAKRLYFLVE 60 (195)
Q Consensus 2 klDG~V~E~k~PitA~eVl~d~PgHvL~~S~sv~~~Gvr~kpL~p----d~eL~~GklYFLvP 60 (195)
++||+.+++ .+.++.+++..+ + ++.+.+ ...+.-..++. +..|+.|--.-+||
T Consensus 4 ~~Ng~~~~~-~~~tl~~Ll~~l-~---~~~~~v-avavN~~iv~~~~~~~~~L~dgD~Ieiv~ 60 (65)
T PRK06488 4 FVNGETLQT-EATTLALLLAEL-D---YEGNWL-ATAVNGELVHKEARAQFVLHEGDRIEILS 60 (65)
T ss_pred EECCeEEEc-CcCcHHHHHHHc-C---CCCCeE-EEEECCEEcCHHHcCccccCCCCEEEEEE
Confidence 689999999 678999999865 1 111211 11222234443 77888886555554
No 13
>PRK05863 sulfur carrier protein ThiS; Provisional
Probab=41.83 E-value=17 Score=25.27 Aligned_cols=22 Identities=5% Similarity=0.223 Sum_probs=20.2
Q ss_pred ccccceEEeeccchHhHHhhhC
Q 029320 2 KITGETFKIKTPVKAGEVVKDY 23 (195)
Q Consensus 2 klDG~V~E~k~PitA~eVl~d~ 23 (195)
++||+.+++..+.|+.++|.+.
T Consensus 4 ~vNG~~~~~~~~~tl~~ll~~l 25 (65)
T PRK05863 4 VVNEEQVEVDEQTTVAALLDSL 25 (65)
T ss_pred EECCEEEEcCCCCcHHHHHHHc
Confidence 7899999999999999999864
No 14
>PRK07696 sulfur carrier protein ThiS; Provisional
Probab=41.39 E-value=18 Score=25.54 Aligned_cols=22 Identities=18% Similarity=0.451 Sum_probs=19.1
Q ss_pred CccccceEEeecc-chHhHHhhh
Q 029320 1 MKITGETFKIKTP-VKAGEVVKD 22 (195)
Q Consensus 1 MklDG~V~E~k~P-itA~eVl~d 22 (195)
+++||+..++..+ .|+.++|..
T Consensus 3 I~vNG~~~~~~~~~~tv~~lL~~ 25 (67)
T PRK07696 3 LKINGNQIEVPESVKTVAELLTH 25 (67)
T ss_pred EEECCEEEEcCCCcccHHHHHHH
Confidence 3789999999988 789999984
No 15
>PRK06083 sulfur carrier protein ThiS; Provisional
Probab=39.28 E-value=19 Score=26.95 Aligned_cols=23 Identities=4% Similarity=0.336 Sum_probs=20.6
Q ss_pred CccccceEEeeccchHhHHhhhC
Q 029320 1 MKITGETFKIKTPVKAGEVVKDY 23 (195)
Q Consensus 1 MklDG~V~E~k~PitA~eVl~d~ 23 (195)
+++||+..++..++++.++|..+
T Consensus 21 I~VNG~~~~~~~~~tl~~LL~~l 43 (84)
T PRK06083 21 ISINDQSIQVDISSSLAQIIAQL 43 (84)
T ss_pred EEECCeEEEcCCCCcHHHHHHHc
Confidence 36899999999999999999864
No 16
>PF05184 SapB_1: Saposin-like type B, region 1; InterPro: IPR007856 Synonym(s):cerebroside sulphate activator, CSAct Saposin B is a small non-enzymatic glycoprotein required for the breakdown of cerebroside sulphates (sulphatides) in lysosomes. Saposin B contains three intramolecular disulphide bridges, exists as a dimer and is remarkably heat, protease, and pH stable. The crystal structure of human saposin B reveals an unusual shell-like dimer consisting of a monolayer of alpha-helices enclosing a large hydrophobic cavity. Although the secondary structure of saposin B is similar to that of the known monomeric members of the saposin-like superfamily, the helices are repacked into a different tertiary arrangement to form the homodimer. A comparison of the two forms of the saposin B dimer suggests that extraction of target lipids from membranes involves a conformational change that facilitates access to the inner cavity [].; GO: 0006629 lipid metabolic process; PDB: 1N69_C 1QDM_C 4DDJ_A 2DOB_A 1OF9_A 2Z9A_A 1M12_A 2GTG_A 1SN6_A 2QYP_B ....
Probab=37.75 E-value=49 Score=20.20 Aligned_cols=25 Identities=28% Similarity=0.652 Sum_probs=22.0
Q ss_pred HHHHHHHHhcCChHHHHHHHHHHHH
Q 029320 127 AEVEKLMRESNNDAEIAEKIRELCM 151 (195)
Q Consensus 127 aelekLm~es~d~~eaaekim~l~~ 151 (195)
.+++++|+...+.+|....+.++|-
T Consensus 12 ~~i~~~l~~~~t~~~I~~~l~~~C~ 36 (39)
T PF05184_consen 12 KEIEKLLKNNKTEEEIKKALEKACN 36 (39)
T ss_dssp HHHHHHHHSTCHHHHHHHHHHHHHT
T ss_pred HHHHHHHHcCccHHHHHHHHHHHHh
Confidence 4689999999999999999999884
No 17
>COG5568 Uncharacterized small protein [Function unknown]
Probab=30.77 E-value=37 Score=26.26 Aligned_cols=17 Identities=12% Similarity=0.432 Sum_probs=15.1
Q ss_pred EeeccchHhHHhhhCCC
Q 029320 9 KIKTPVKAGEVVKDYPG 25 (195)
Q Consensus 9 E~k~PitA~eVl~d~Pg 25 (195)
-|-.+|++.||+..||.
T Consensus 24 ~YvRkirs~el~r~fPe 40 (85)
T COG5568 24 AYVRKIRSDELLRCFPE 40 (85)
T ss_pred EEEEeccHHHHHhhCCC
Confidence 46689999999999998
No 18
>PF12728 HTH_17: Helix-turn-helix domain
Probab=28.78 E-value=61 Score=20.79 Aligned_cols=17 Identities=18% Similarity=0.644 Sum_probs=14.5
Q ss_pred EEeecHHHHHHHHHhcC
Q 029320 121 KLKLPKAEVEKLMRESN 137 (195)
Q Consensus 121 KmrLpKaelekLm~es~ 137 (195)
+.++++++|++.|++.+
T Consensus 35 ~~~~~~~~l~~~~~~~~ 51 (51)
T PF12728_consen 35 KWRIPKSDLDRWLERRR 51 (51)
T ss_pred EEEEeHHHHHHHHHhCc
Confidence 38899999999998753
No 19
>PF01172 SBDS: Shwachman-Bodian-Diamond syndrome (SBDS) protein ; InterPro: IPR019783 This entry represents the N-terminal domain of proteins that are highly conserved in species ranging from archaea to vertebrates and plants []. The family contains several Shwachman-Bodian-Diamond syndrome (SBDS, OMIM 260400) proteins from both mouse and humans. Shwachman-Diamond syndrome is an autosomal recessive disorder with clinical features that include pancreatic exocrine insufficiency, haematological dysfunction and skeletal abnormalities. It is characterised by bone marrow failure and leukemia predisposition. Members of this family play a role in RNA metabolism [, ]. In yeast Sdo1 is involved in the biogenesis of the 60S ribosomal subunit and translational activation of ribosomes. Together with the EF-2-like GTPase RIA1 (EfI1), it triggers the GTP-dependent release of TIF6 from 60S pre-ribosomes in the cytoplasm, thereby activating ribosomes for translation competence by allowing 80S ribosome assembly and facilitating TIF6 recycling to the nucleus, where it is required for 60S rRNA processing and nuclear export. This data links defective late 60S subunit maturation to an inherited bone marrow failure syndrome associated with leukemia predisposition []. A number of uncharacterised hydrophilic proteins of about 30 kDa share regions of similarity. These include, Mouse protein 22A3. Saccharomyces cerevisiae chromosome XII hypothetical protein YLR022c. Caenorhabditis elegans hypothetical protein W06E11.4. Methanocaldococcus jannaschii (Methanococcus jannaschii) hypothetical protein MJ0592. ; PDB: 1NYN_A 2WBM_B 1P9Q_C 1T95_A 2KDO_A 2L9N_A.
Probab=28.74 E-value=68 Score=24.15 Aligned_cols=24 Identities=25% Similarity=0.361 Sum_probs=20.3
Q ss_pred ecHHHHHHHHHhcCChHHHHHHHHH
Q 029320 124 LPKAEVEKLMRESNNDAEIAEKIRE 148 (195)
Q Consensus 124 LpKaelekLm~es~d~~eaaekim~ 148 (195)
-++++|++... ..|..|++++|+.
T Consensus 54 As~~~L~~~FG-T~d~~~ii~~IL~ 77 (91)
T PF01172_consen 54 ASKEDLENAFG-TTDVDEIIKKILK 77 (91)
T ss_dssp E-HHHHHHHHS-SS-HHHHHHHHHH
T ss_pred CCHHHHHHHhC-CCCHHHHHHHHHh
Confidence 89999999998 8899999999985
No 20
>COG0631 PTC1 Serine/threonine protein phosphatase [Signal transduction mechanisms]
Probab=27.69 E-value=96 Score=26.97 Aligned_cols=30 Identities=23% Similarity=0.449 Sum_probs=28.4
Q ss_pred eecHHHHHHHHHhcCChHHHHHHHHHHHHh
Q 029320 123 KLPKAEVEKLMRESNNDAEIAEKIRELCMA 152 (195)
Q Consensus 123 rLpKaelekLm~es~d~~eaaekim~l~~~ 152 (195)
.|+.+|+..+++.+.+..++|++++++..+
T Consensus 208 ~v~~~~i~~il~~~~~~~~~~~~li~~a~~ 237 (262)
T COG0631 208 VVSDDEIVDILKNSETPQEAADKLIELALE 237 (262)
T ss_pred CcCHHHHHHHHhcCCCHHHHHHHHHHHHHh
Confidence 688899999999999999999999999987
No 21
>COG2104 ThiS Sulfur transfer protein involved in thiamine biosynthesis [Coenzyme metabolism]
Probab=27.55 E-value=40 Score=24.45 Aligned_cols=48 Identities=15% Similarity=0.257 Sum_probs=30.9
Q ss_pred CccccceEEeeccchHhHHhhhCCCceeeccccccccceecccCC----CcccccCC
Q 029320 1 MKITGETFKIKTPVKAGEVVKDYPGHVLLESESVKHYGVRAKPLG----AEQNLEAK 53 (195)
Q Consensus 1 MklDG~V~E~k~PitA~eVl~d~PgHvL~~S~sv~~~Gvr~kpL~----pd~eL~~G 53 (195)
+.+||+-.++..+.|++++|++.=-. ++.+ -.-+.-.+++ +|..|+-|
T Consensus 5 i~~ng~~~e~~~~~tv~dLL~~l~~~----~~~v-av~vNg~iVpr~~~~~~~l~~g 56 (68)
T COG2104 5 IQLNGKEVEIAEGTTVADLLAQLGLN----PEGV-AVAVNGEIVPRSQWADTILKEG 56 (68)
T ss_pred EEECCEEEEcCCCCcHHHHHHHhCCC----CceE-EEEECCEEccchhhhhccccCC
Confidence 36899999999999999999864321 1111 0011234566 77777775
No 22
>PF03658 Ub-RnfH: RnfH family Ubiquitin; InterPro: IPR005346 This is a small family of proteins of unknown function.; PDB: 2HJ1_B.
Probab=26.53 E-value=44 Score=25.45 Aligned_cols=45 Identities=20% Similarity=0.290 Sum_probs=21.0
Q ss_pred hHhHHhhhCCCceeeccccccccceecccCCCcccccCC-ceEEEEecCC
Q 029320 15 KAGEVVKDYPGHVLLESESVKHYGVRAKPLGAEQNLEAK-RLYFLVELPD 63 (195)
Q Consensus 15 tA~eVl~d~PgHvL~~S~sv~~~Gvr~kpL~pd~eL~~G-klYFLvPlp~ 63 (195)
.+.-++..||.--| ... ..|+..+...+|+.|+.| +|=..=|+..
T Consensus 31 ~~Sgi~~~~p~idl---~~~-~vGIfGk~~~~d~~L~~GDRVEIYRPL~~ 76 (84)
T PF03658_consen 31 EASGILEQFPEIDL---EKN-KVGIFGKLVKLDTVLRDGDRVEIYRPLTA 76 (84)
T ss_dssp HHHTHHHH-TT--T---TTS-EEEEEE-S--TT-B--TT-EEEEE-S---
T ss_pred HHcCchhhCcccCc---ccc-eeeeeeeEcCCCCcCCCCCEEEEeccCcc
Confidence 34447788998544 222 569999999999999999 4333345543
No 23
>PF00808 CBFD_NFYB_HMF: Histone-like transcription factor (CBF/NF-Y) and archaeal histone; InterPro: IPR003958 The CCAAT-binding factor (CBF) is a mammalian transcription factor that binds to a CCAAT motif in the promoters of a wide variety of genes, including type I collagen and albumin. The factor is a heteromeric complex of A and B subunits, both of which are required for DNA-binding [, ]. The subunits can interact in the absence of DNA-binding, conserved regions in each being important in mediating this interaction. The A subunit can be split into 3 domains on the basis of sequence similarity, a non-conserved N-terminal 'A domain'; a highly-conserved central 'B domain' involved in DNA-binding; and a C-terminal 'C domain', which contains a number of glutamine and acidic residues involved in protein-protein interactions []. The A subunit shows striking similarity to the HAP3 subunit of the yeast CCAAT-binding heterotrimeric transcription factor [, ]. The Kluyveromyces lactis HAP3 protein has been predicted to contain a 4-cysteine zinc finger, which is thought to be present in similar HAP3 and CBF subunit A proteins, in which the third cysteine is replaced by a serine []. This domain is found in the CCAAT transcription factor and archaeal histones.; GO: 0043565 sequence-specific DNA binding, 0005622 intracellular; PDB: 1F1E_A 2BYM_D 2BYK_D 1HTA_A 1B67_A 1JFI_B 1KU5_B 1N1J_A 1BFM_A 1B6W_A ....
Probab=25.82 E-value=82 Score=21.55 Aligned_cols=17 Identities=29% Similarity=0.595 Sum_probs=13.1
Q ss_pred EeecHHHHHHHHHhcCC
Q 029320 122 LKLPKAEVEKLMRESNN 138 (195)
Q Consensus 122 mrLpKaelekLm~es~d 138 (195)
+.||.+.|.|+|+...|
T Consensus 1 ~~lP~a~vkri~k~~~~ 17 (65)
T PF00808_consen 1 ASLPLARVKRIMKSDPD 17 (65)
T ss_dssp -SS-HHHHHHHHHHTST
T ss_pred CCCChHHHHHHhccCCC
Confidence 46999999999999844
No 24
>PF06972 DUF1296: Protein of unknown function (DUF1296); InterPro: IPR009719 This family represents a conserved region approximately 60 residues long within a number of plant proteins of unknown function.
Probab=25.05 E-value=94 Score=22.69 Aligned_cols=25 Identities=16% Similarity=0.384 Sum_probs=20.7
Q ss_pred cHHHHHHHHHhcC-ChHHHHHHHHHH
Q 029320 125 PKAEVEKLMRESN-NDAEIAEKIREL 149 (195)
Q Consensus 125 pKaelekLm~es~-d~~eaaekim~l 149 (195)
|-+|+-.+|.||. |+.||++|++.+
T Consensus 20 se~eIya~L~ecnMDpnea~qrLL~q 45 (60)
T PF06972_consen 20 SEEEIYAMLKECNMDPNEAVQRLLSQ 45 (60)
T ss_pred CHHHHHHHHHHhCCCHHHHHHHHHhc
Confidence 5688889999986 888999998753
No 25
>cd00052 EH Eps15 homology domain; found in proteins implicated in endocytosis, vesicle transport, and signal transduction. The alignment contains a pair of EF-hand motifs, typically one of them is canonical and binds to Ca2+, while the other may not bind to Ca2+. A hydrophobic binding pocket is formed by residues from both EF-hand motifs. The EH domain binds to proteins containing NPF (class I), [WF]W or SWG (class II), or H[TS]F (class III) sequence motifs.
Probab=22.70 E-value=1.4e+02 Score=19.10 Aligned_cols=28 Identities=14% Similarity=0.226 Sum_probs=21.7
Q ss_pred ecHHHHHHHHHhcCChHHHHHHHHHHHH
Q 029320 124 LPKAEVEKLMRESNNDAEIAEKIRELCM 151 (195)
Q Consensus 124 LpKaelekLm~es~d~~eaaekim~l~~ 151 (195)
|+..|+.++|.......+.+++|+..+-
T Consensus 16 i~~~el~~~l~~~g~~~~~~~~i~~~~d 43 (67)
T cd00052 16 ISGDEARPFLGKSGLPRSVLAQIWDLAD 43 (67)
T ss_pred CcHHHHHHHHHHcCCCHHHHHHHHHHhc
Confidence 6889999999877656667788887653
No 26
>PRK01777 hypothetical protein; Validated
Probab=22.52 E-value=74 Score=24.37 Aligned_cols=65 Identities=14% Similarity=0.166 Sum_probs=38.0
Q ss_pred EEeeccchHhHHhhhCC--Cc-eeeccccccccceecccCCCcccccCC-ceEEEEecCCCcccCCCcccccc
Q 029320 8 FKIKTPVKAGEVVKDYP--GH-VLLESESVKHYGVRAKPLGAEQNLEAK-RLYFLVELPDVARKEIVPRRVRS 76 (195)
Q Consensus 8 ~E~k~PitA~eVl~d~P--gH-vL~~S~sv~~~Gvr~kpL~pd~eL~~G-klYFLvPlp~~~~~~~~~rrvrs 76 (195)
+++..-.|+++++.+-- .+ .=++. +....|+..+....|+.|+.| +|=+.=||.--| |..||.|+
T Consensus 21 l~vp~GtTv~dal~~sgi~~~~pei~~-~~~~vgI~Gk~v~~d~~L~dGDRVeIyrPL~~DP---k~~Rr~ra 89 (95)
T PRK01777 21 LTLQEGATVEEAIRASGLLELRTDIDL-AKNKVGIYSRPAKLTDVLRDGDRVEIYRPLLADP---KELRRKRA 89 (95)
T ss_pred EEcCCCCcHHHHHHHcCCCccCccccc-ccceEEEeCeECCCCCcCCCCCEEEEecCCCCCH---HHHHHHHH
Confidence 46677788888887641 11 00111 113568888899999999999 444434443322 34455544
No 27
>PLN03145 Protein phosphatase 2c; Provisional
Probab=21.44 E-value=1.4e+02 Score=27.75 Aligned_cols=31 Identities=6% Similarity=0.228 Sum_probs=25.5
Q ss_pred eecHHHH----HHHHHhcCChHHHHHHHHHHHHhc
Q 029320 123 KLPKAEV----EKLMRESNNDAEIAEKIRELCMAK 153 (195)
Q Consensus 123 rLpKael----ekLm~es~d~~eaaekim~l~~~~ 153 (195)
.|+-+|+ .+.+++..+..++|++|++.+..+
T Consensus 282 vls~ee~v~~i~~~l~~~~~p~~aa~~Lv~~Al~r 316 (365)
T PLN03145 282 VFRSQNAVDFARRRLQEHNDPVMCSKELVDEALKR 316 (365)
T ss_pred CcCHHHHHHHHHHHHhcCCCHHHHHHHHHHHHHhC
Confidence 4788886 566677789999999999998876
No 28
>PF00481 PP2C: Protein phosphatase 2C; InterPro: IPR001932 This domain is found in protein phosphatase 2C, as well as other proteins eg. pyruvate dehydrogenase (lipoamide)-phosphatase (3.1.3.43 from EC), adenylate cyclase (4.6.1.1 from EC) and some bacterial stage II sporulation E proteins (3.1.3.16 from EC). Protein phosphatase 2C (PP2C) is one of the four major classes of mammalian serine/threonine specific protein phosphatases (3.1.3.16 from EC). PP2C [] is a monomeric enzyme of about 42 Kd which shows broad substrate specificity and is dependent on divalent cations (mainly manganese and magnesium) for its activity. Its exact physiological role is still unclear. Three isozymes are currently known in mammals: PP2C-alpha, -beta and -gamma. In yeast, there are at least four PP2C homologs: phosphatase PTC1 [], which has weak tyrosine phosphatase activity in addition to its activity on serines, phosphatases PTC2 and PTC3, and hypothetical protein YBR125c. Isozymes of PP2C are also known from Arabidopsis thaliana (ABI1, PPH1), Caenorhabditis elegans (FEM-2, F42G9.1, T23F11.1), Leishmania chagasi and Paramecium tetraurelia. In A. thaliana, the kinase associated protein phosphatase (KAPP) [] is an enzyme that dephosphorylates the Ser/Thr receptor-like kinase RLK5 and which contains a C-terminal PP2C domain. PP2C does not seem to be evolutionary related to the main family of serine/ threonine phosphatases: PP1, PP2A and PP2B. However, it is significantly similar to the catalytic subunit of pyruvate dehydrogenase phosphatase 3.1.3.43 from EC (PDPC) [], which catalyzes dephosphorylation and concomitant reactivation of the alpha subunit of the E1 component of the pyruvate dehydrogenase complex. PDPC is a mitochondrial enzyme and, like PP2C, is magnesium-dependent.; GO: 0003824 catalytic activity; PDB: 2I0O_A 2POP_C 2POM_A 2J4O_A 2I44_B 3MQ3_A 3N3C_A 2PNQ_B 2P8E_A 2IQ1_A ....
Probab=21.28 E-value=64 Score=27.09 Aligned_cols=34 Identities=32% Similarity=0.415 Sum_probs=28.5
Q ss_pred eecHHHHHHHHHhcCC----hHHHHHHHHHHHHhcccc
Q 029320 123 KLPKAEVEKLMRESNN----DAEIAEKIRELCMAKQIH 156 (195)
Q Consensus 123 rLpKaelekLm~es~d----~~eaaekim~l~~~~~~~ 156 (195)
.|+-+|+..++.+..+ ..+||++|.+.+.++...
T Consensus 214 ~l~~~ei~~~v~~~~~~~~~~~~~a~~L~~~A~~~gs~ 251 (254)
T PF00481_consen 214 VLSNEEIVDIVRESLNSGRSPQEAAEKLVDEAIARGSK 251 (254)
T ss_dssp TSHHHHHHHHHHHHHHHHSHHHHHHHHHHHHHHHTTHH
T ss_pred cCCHHHHHHHHHHHHhcCCcHHHHHHHHHHHHHhcCCC
Confidence 3788999999988877 789999999999876543
No 29
>PRK14559 putative protein serine/threonine phosphatase; Provisional
Probab=20.51 E-value=1.3e+02 Score=30.35 Aligned_cols=28 Identities=18% Similarity=0.139 Sum_probs=24.2
Q ss_pred HHHHHHHHhcCChHHHHHHHHHHHHhcc
Q 029320 127 AEVEKLMRESNNDAEIAEKIRELCMAKQ 154 (195)
Q Consensus 127 aelekLm~es~d~~eaaekim~l~~~~~ 154 (195)
.++..++....|..++|++|++++..+.
T Consensus 595 ~~l~~il~~~~~l~~aa~~Li~~Al~~g 622 (645)
T PRK14559 595 THLLPLLSSSANLDQGLNKLIDLANQYN 622 (645)
T ss_pred HHHHHHHhcCCCHHHHHHHHHHHHHHcC
Confidence 5678899999999999999999987653
Done!