Query 014356
Match_columns 426
No_of_seqs 183 out of 375
Neff 5.7
Searched_HMMs 46136
Date Fri Mar 29 04:20:01 2013
Command hhsearch -i /work/01045/syshi/csienesis_hhblits_a3m/014356.a3m -d /work/01045/syshi/HHdatabase/Cdd.hhm -o /work/01045/syshi/hhsearch_cdd/014356hhsearch_cdd -cpu 12 -v 0
No Hit Prob E-value P-value Score SS Cols Query HMM Template HMM
1 PF03080 DUF239: Domain of unk 100.0 5.1E-84 1.1E-88 620.3 24.1 227 190-419 1-229 (229)
2 PF14365 DUF4409: Domain of un 100.0 4E-41 8.7E-46 292.5 7.8 117 62-185 1-117 (117)
3 PF07172 GRP: Glycine rich pro 83.4 0.62 1.3E-05 39.5 1.5 19 13-32 1-19 (95)
4 PF15240 Pro-rich: Proline-ric 53.1 7.6 0.00017 36.6 1.5 17 20-36 1-17 (179)
5 PF07653 SH3_2: Variant SH3 do 49.2 21 0.00047 26.3 3.2 37 284-325 15-51 (55)
6 PF11714 Inhibitor_I53: Thromb 33.8 52 0.0011 26.6 3.2 55 19-81 4-58 (78)
7 PF14604 SH3_9: Variant SH3 do 28.7 71 0.0015 23.2 3.1 21 304-325 27-47 (49)
8 PF00018 SH3_1: SH3 domain; I 27.3 77 0.0017 22.5 3.1 34 285-323 14-48 (48)
9 PHA02957 hypothetical protein; 24.1 61 0.0013 30.0 2.4 39 30-69 33-79 (206)
10 PF13987 YedD: YedD-like prote 22.0 39 0.00085 29.2 0.7 23 53-75 22-45 (111)
No 1
>PF03080 DUF239: Domain of unknown function (DUF239); InterPro: IPR004314 This is a family of plant proteins, a small number of which are putative peptidases (see for example Q9XIN9 from SWISSPROT). However, the structure of the protein PDB3:3eu8 has an alpha-alpha toroid fold and is similar to a glucoamylase, PDB:1ayx. Such glucoamylases are involved in breaking down complex sugars (e.g. starch). The biologically relevant state is likely to be monomeric. The putative active site is located at the centre of the toroid with a well defined large cavity. Further structural comparisons also show relationships with other glycohydrolases.
Probab=100.00 E-value=5.1e-84 Score=620.29 Aligned_cols=227 Identities=59% Similarity=1.192 Sum_probs=216.9
Q ss_pred eeeeEEEEEeecccccCCCccceeeeeeecCCCCCCCcEEEEeceecCCCCCCCCeEEEEEEecCCcccccccccCCCcc
Q 014356 190 YYGAKATINVWEPKIQQSNEFSLSQLWILGGSFGQDLNSIEAGWQVSPDLYGDNNTRLFTYWTSDAYQATGCYNLLCSGF 269 (426)
Q Consensus 190 ~~Ga~a~inVw~P~V~~~~qfS~sqiwi~~g~~~~~~nsIeaGW~V~P~lYgD~~~rlf~yWt~d~y~~tGCyNl~CpGF 269 (426)
|||++|+||||+|+|+.++|||++||||.+|..++.+|+|||||+|+|+||||++||||+|||+|+|++|||||++||||
T Consensus 1 y~G~~a~i~v~~p~v~~~~q~S~~~i~i~~g~~~~~~~~i~~GW~V~P~lygd~~~~lf~~wt~d~~~~tgCyN~~CpGF 80 (229)
T PF03080_consen 1 YYGARATISVWNPKVQQPDQFSLSQIWISNGSDDDSLNSIEAGWQVYPSLYGDSRTRLFVYWTADGYQKTGCYNLDCPGF 80 (229)
T ss_pred CeeeEEEEECcCCccCCccceeheeEEEEecCCCCCCcEEEEeeeccccccCCCceEEEEEEEccCCCCcceeCCCCCcE
Confidence 79999999999999997679999999999998557899999999999999999999999999999999999999999999
Q ss_pred EEecCccccCcccccccccCCceeEEEEEEecCCCCCCeEEEeCCCeeeeeechhhhhhhccCccEEEEceEEEecCCCC
Q 014356 270 IQINSEIAMGASISPVSSYRNSQYDISILIWKDPTEGHWWMQFGNDYVLGYWPSFLFSYLADSASMIEWGGEVVNSEADG 349 (426)
Q Consensus 270 VQvs~~i~lG~~i~pvS~~~G~q~~i~i~I~kD~~tGnWWL~~~~~~~IGYWP~sLF~~l~~~A~~V~wGGeV~~~~~~g 349 (426)
||||++|+||++|+|+|+++|+|++|+|+|+||+.+|||||+++ ++.|||||++||+.|+++|+.|+|||||++++ +
T Consensus 81 Vq~s~~i~~G~~~~~~S~~gG~q~~i~~~i~kD~~~gnWWL~~~-~~~IGYwP~sLF~~l~~~A~~v~wGGeV~~~~--~ 157 (229)
T PF03080_consen 81 VQVSSSIALGAAISPVSTYGGKQYEITLSIFKDPKSGNWWLYYG-GEPIGYWPKSLFTSLADGATEVEWGGEVYSPP--G 157 (229)
T ss_pred EEeCCccccceeeCCCccCCCceEEEEEEEEecCCCccEEEEEe-cceeeeehHHhhhhhhcCceEEEEEEEEeCCC--C
Confidence 99999999999999999999999999999999999999999998 68999999999999999999999999999874 4
Q ss_pred CCCCCCCCCCCCCCCCCCceeEEeecEEEcCCCCccCC--CCccccccCCCceeeecCCCCCccceEEEcCC
Q 014356 350 RHTSTQMGSGRFPEEGFGKASYFRNVQVVDGSNNLKAP--KGIGTFTEQSNCYDVQTGSNGDWGHYFYFGGP 419 (426)
Q Consensus 350 ~~tsppMGSG~fp~~g~~kAAy~~ni~ivd~~~~~~~~--~~~~~~~d~p~CY~v~~~~~~~~g~~f~yGGP 419 (426)
.|++|||||||||++|+++|||||||+++|.+++..++ ..+++++|+|+||++......+||.+||||||
T Consensus 158 ~~~sppMGSG~fp~~g~~~aAy~~~i~~~d~~~~~~~~~~~~~~~~~~~~~CY~~~~~~~~~~g~~f~yGGP 229 (229)
T PF03080_consen 158 RHTSPPMGSGHFPSEGFGKAAYFRNIQVVDSNGQFVDPNDDLLEVFADNPSCYDVSYIGDGDWGYYFFYGGP 229 (229)
T ss_pred CCCCCCccCCcCCCCCCCccEEEEEEEEEcCCCCCcCCcccceeEccCCCCceeEeeccCCCcccEEEeeCC
Confidence 68999999999999999999999999999999988877 35778999999999998888889999999999
No 2
>PF14365 DUF4409: Domain of unknown function (DUF4409)
Probab=100.00 E-value=4e-41 Score=292.52 Aligned_cols=117 Identities=57% Similarity=1.045 Sum_probs=97.0
Q ss_pred EEeCCCCCeEeeeecCCCCCCCCCCCCCCCCCCCCCCCCCCCCcCccCCCCCCCCCCccccccccCCCCCCCceeeeecC
Q 014356 62 SIKSPDGDIIDCVHISHQPAFDHPYLKDHKIQMRPNYHPEGLFDDNKASAKPKERTNPINQLWHANGKCPEGTIPVRRTK 141 (426)
Q Consensus 62 si~s~dGdiiDCVdI~kQPAfdHPLLKNH~iQm~Ps~~p~~~~~~~~~~~~~~~~~~~~~q~w~~~g~CP~GTVPIrR~t 141 (426)
||+|+|||||||||||||||||||||| +|||+|++.|+++..+... ...++..+|+|+++++||+|||||||+|
T Consensus 1 tI~s~dGdi~DCVdi~kQPAfdHPlLK--~~q~~Ps~~p~~~~~~~~~----~~~~~~~~q~w~~~g~CP~GTVPIrRtt 74 (117)
T PF14365_consen 1 TIQSPDGDIIDCVDIYKQPAFDHPLLK--NIQMRPSSYPKGISSKESS----SSSSKPISQLWHQNGSCPEGTVPIRRTT 74 (117)
T ss_pred CccCCCCCeEeCEeccccccccCchhc--CcccCcchhhhhccccccc----ccccccchhhhccccCCcCCceeeecCC
Confidence 699999999999999999999999999 4789999999877654211 1235678899999999999999999999
Q ss_pred chhhhhccchhhccccCCCCCCCCCCCCCCCCCCCCceEEEEEE
Q 014356 142 EDDVLRASSVKRYGKKKHRSIPQPRSADPDLTNESGHQHAIAYV 185 (426)
Q Consensus 142 ~~dl~ra~s~~~~~~k~~~~~~~~~~~~~~~~~~~gh~~Ai~~~ 185 (426)
+||||||+|+.+|++|.+.+...+....+ ..+.+||||||+++
T Consensus 75 ~~dllr~~s~~~~g~k~~~~~~~~~~~~~-~~~~~gH~~Aia~~ 117 (117)
T PF14365_consen 75 KEDLLRAKSFKRFGRKPPSSISSPSSNKP-DISSNGHEHAIAYV 117 (117)
T ss_pred HHHHhhhhhHHHcCCcCCCCcCCccccCC-CCCCCCCceEEEeC
Confidence 99999999999999998665443332222 36778999999984
No 3
>PF07172 GRP: Glycine rich protein family; InterPro: IPR010800 This family consists of glycine rich proteins. Some of them may be involved in resistance to environmental stress [].
Probab=83.43 E-value=0.62 Score=39.47 Aligned_cols=19 Identities=32% Similarity=0.394 Sum_probs=10.1
Q ss_pred hhhhhhHHHHHHHHHHHHhh
Q 014356 13 MANRGGLLMVFWLWCSVISI 32 (426)
Q Consensus 13 ~~~~~~~~~~~~~~~~~~~~ 32 (426)
||++..|||+++|+ +|+++
T Consensus 1 MaSK~~llL~l~LA-~lLli 19 (95)
T PF07172_consen 1 MASKAFLLLGLLLA-ALLLI 19 (95)
T ss_pred CchhHHHHHHHHHH-HHHHH
Confidence 67666555555554 33433
No 4
>PF15240 Pro-rich: Proline-rich
Probab=53.13 E-value=7.6 Score=36.63 Aligned_cols=17 Identities=12% Similarity=0.403 Sum_probs=11.3
Q ss_pred HHHHHHHHHHHhhhhhc
Q 014356 20 LMVFWLWCSVISIACAA 36 (426)
Q Consensus 20 ~~~~~~~~~~~~~~~~~ 36 (426)
|||+||+|+||++|.+.
T Consensus 1 MLlVLLSvALLALSSAQ 17 (179)
T PF15240_consen 1 MLLVLLSVALLALSSAQ 17 (179)
T ss_pred ChhHHHHHHHHHhhhcc
Confidence 35567777888877554
No 5
>PF07653 SH3_2: Variant SH3 domain; InterPro: IPR011511 SH3 (src Homology-3) domains are small protein modules containing approximately 50 amino acid residues [, ]. They are found in a great variety of intracellular or membrane-associated proteins [, , ] for example, in a variety of proteins with enzymatic activity, in adaptor proteins that lack catalytic sequences and in cytoskeletal proteins, such as fodrin and yeast actin binding protein ABP-1. The SH3 domain has a characteristic fold which consists of five or six beta-strands arranged as two tightly packed anti-parallel beta sheets. The linker regions may contain short helices []. The surface of the SH3-domain bears a flat, hydrophobic ligand-binding pocket which consists of three shallow grooves defined by conservative aromatic residues in which the ligand adopts an extended left-handed helical arrangement. The ligand binds with low affinity but this may be enhanced by multiple interactions. The region bound by the SH3 domain is in all cases proline-rich and contains PXXP as a core-conserved binding motif. The function of the SH3 domain is not well understood but they may mediate many diverse processes such as increasing local concentration of proteins, altering their subcellular location and mediating the assembly of large multiprotein complexes []. This entry represents a variant of the SH3 domain.; PDB: 1I1J_B 1K0X_A 1HJD_A 2KEA_A 1KJW_A 1JXM_A 1JXO_B 2EBP_A 2DL3_A 2EYX_A ....
Probab=49.21 E-value=21 Score=26.30 Aligned_cols=37 Identities=16% Similarity=0.447 Sum_probs=23.8
Q ss_pred cccccCCceeEEEEEEecCCCCCCeEEEeCCCeeeeeechhh
Q 014356 284 PVSSYRNSQYDISILIWKDPTEGHWWMQFGNDYVLGYWPSFL 325 (426)
Q Consensus 284 pvS~~~G~q~~i~i~I~kD~~tGnWWL~~~~~~~IGYWP~sL 325 (426)
++|.--|.... |.++...++||+-.. +...||.|++.
T Consensus 15 ~Ls~~~Gd~i~----v~~~~~~~~ww~~~~-~g~~G~~P~~~ 51 (55)
T PF07653_consen 15 ELSFKKGDVIE----VLGEKDDDGWWLGEN-NGRRGWFPSSY 51 (55)
T ss_dssp B-EB-TTEEEE----EEEEECSTSEEEEEE-TTEEEEEEGGG
T ss_pred ceEEecCCEEE----EEEeecCCCEEEEEE-CCcEEEEcHHH
Confidence 35555555433 335667779998666 55779999975
No 6
>PF11714 Inhibitor_I53: Thrombin inhibitor Madanin ; InterPro: IPR021716 Members of this family are the peptidase inhibitor madanin proteins. These proteins were isolated from tick saliva [].
Probab=33.81 E-value=52 Score=26.57 Aligned_cols=55 Identities=13% Similarity=0.085 Sum_probs=25.8
Q ss_pred HHHHHHHHHHHHhhhhhcccCcchhhHHHHHHHHHHhCCCCceEEeCCCCCeEeeeecCCCCC
Q 014356 19 LLMVFWLWCSVISIACAARLGSESRQKLEVQKHLNRLNKSPVKSIKSPDGDIIDCVHISHQPA 81 (426)
Q Consensus 19 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~ei~~~L~~lNkp~vksi~s~dGdiiDCVdI~kQPA 81 (426)
|.+|++++|+-..+-...+..+.+...+|-||-|+. |.-++.+||- =-|-|.|-+
T Consensus 4 FaiLilavVaSAvVMAyPe~dsAk~gnqekeral~V------~vq~r~~g~a--dyd~yd~~~ 58 (78)
T PF11714_consen 4 FAILILAVVASAVVMAYPERDSAKDGNQEKERALKV------KVQERQSGDA--DYDEYDQDE 58 (78)
T ss_pred HHHHHHHHHHHHHHHhccccchhhhcchhhhhhhhh------hhhhcccccc--ccccccccC
Confidence 444444442222222233333344444667777654 5656666531 124556654
No 7
>PF14604 SH3_9: Variant SH3 domain; PDB: 2CRE_A 2E5K_A 2CT3_A 2DE0_X 2D8H_A 2DA9_A 2X3X_E 2X3W_D 2KRN_A 2ED0_A ....
Probab=28.69 E-value=71 Score=23.22 Aligned_cols=21 Identities=19% Similarity=0.569 Sum_probs=16.4
Q ss_pred CCCCeEEEeCCCeeeeeechhh
Q 014356 304 TEGHWWMQFGNDYVLGYWPSFL 325 (426)
Q Consensus 304 ~tGnWWL~~~~~~~IGYWP~sL 325 (426)
...+||+--. +...||.|++-
T Consensus 27 ~~~~W~~g~~-~g~~G~~P~~y 47 (49)
T PF14604_consen 27 SDDGWWYGRN-TGRTGLFPANY 47 (49)
T ss_dssp SSTSEEEEEE-TTEEEEEEGGG
T ss_pred CCCCEEEEEE-CCEEEEECHHh
Confidence 5788998655 56899999863
No 8
>PF00018 SH3_1: SH3 domain; InterPro: IPR001452 SH3 (src Homology-3) domains are small protein modules containing approximately 50 amino acid residues [, ]. They are found in a great variety of intracellular or membrane-associated proteins [, , ] for example, in a variety of proteins with enzymatic activity, in adaptor proteins that lack catalytic sequences and in cytoskeletal proteins, such as fodrin and yeast actin binding protein ABP-1. The SH3 domain has a characteristic fold which consists of five or six beta-strands arranged as two tightly packed anti-parallel beta sheets. The linker regions may contain short helices []. The surface of the SH3-domain bears a flat, hydrophobic ligand-binding pocket which consists of three shallow grooves defined by conservative aromatic residues in which the ligand adopts an extended left-handed helical arrangement. The ligand binds with low affinity but this may be enhanced by multiple interactions. The region bound by the SH3 domain is in all cases proline-rich and contains PXXP as a core-conserved binding motif. The function of the SH3 domain is not well understood but they may mediate many diverse processes such as increasing local concentration of proteins, altering their subcellular location and mediating the assembly of large multiprotein complexes []. The crystal structure of the SH3 domain of the cytoskeletal protein spectrin, and the solution structures of SH3 domains of phospholipase C (PLC-y) and phosphatidylinositol 3-kinase p85 alpha-subunit, have been determined [, , ]. In spite of relatively limited sequence similarity, their overall structures are similar. The domains belong to the alpha+beta structural class, with 5 to 8 beta-strands forming 2 tightly-packed, anti-parallel beta-sheets arranged in a barrel-like structure, and intervening loops sometimes forming helices. Conserved aliphatic and aromatic residues form a hydrophobic core (A11, L23, A29, V34, W42, L52 and V59 in PLC-y []) and a hydrophobic pocket on the molecular surface (L12, F13, W53 and P55 in PLC-y). The conserved core is believed to stabilise the fold, while the pocket is thought to serve as a binding site for target proteins. Conserved carboxylic amino acids located in the loops, on the periphery of the pocket (D14 and E22), may be involved in protein-protein interactions via proline-rich regions. The N- and C-termini are packed in close proximity, indicating that they are independent structural modules.; GO: 0005515 protein binding; PDB: 1UHF_A 1W1F_A 1WA7_A 1SEM_A 1KFZ_A 2SEM_B 1K76_A 3SEM_B 1X2Q_A 2J06_B ....
Probab=27.28 E-value=77 Score=22.55 Aligned_cols=34 Identities=18% Similarity=0.421 Sum_probs=19.8
Q ss_pred ccccCCceeEEEEEEecCCCCCCeEEEeCC-Ceeeeeech
Q 014356 285 VSSYRNSQYDISILIWKDPTEGHWWMQFGN-DYVLGYWPS 323 (426)
Q Consensus 285 vS~~~G~q~~i~i~I~kD~~tGnWWL~~~~-~~~IGYWP~ 323 (426)
+|..-|....| .++ .+.+||+-... ....||.|+
T Consensus 14 Ls~~~Gd~i~v----~~~-~~~~Ww~~~~~~~~~~G~vP~ 48 (48)
T PF00018_consen 14 LSFKKGDIIEV----LEK-SDDGWWKVRNESTGKEGWVPS 48 (48)
T ss_dssp SEB-TTEEEEE----EEE-SSSSEEEEEETTTTEEEEEEG
T ss_pred EeEECCCEEEE----EEe-cCCCEEEEEECCCCcEEEeeC
Confidence 44555555443 333 33489986653 358999996
No 9
>PHA02957 hypothetical protein; Provisional
Probab=24.07 E-value=61 Score=29.96 Aligned_cols=39 Identities=33% Similarity=0.565 Sum_probs=24.3
Q ss_pred HhhhhhcccCcchhhHHHHHHH----HHHhCC----CCceEEeCCCCC
Q 014356 30 ISIACAARLGSESRQKLEVQKH----LNRLNK----SPVKSIKSPDGD 69 (426)
Q Consensus 30 ~~~~~~~~~~~~~~~~~ei~~~----L~~lNk----p~vksi~s~dGd 69 (426)
++.+|-.+++ .+.||.||..- -|..|| -+|.+++++|||
T Consensus 33 i~~t~~~~sk-~s~edneiddvp~cp~kmfn~kk~~gpivnm~apdgd 79 (206)
T PHA02957 33 ICHTCITASK-LSREDNEIDDVPTCPRKMFNKKKGMGPIVNMKAPDGD 79 (206)
T ss_pred hhheeeeccc-ccccccccccCCCCcHHHhhhccccCceeEeeCCCCC
Confidence 3444445455 45677787643 234454 568899999998
No 10
>PF13987 YedD: YedD-like protein
Probab=21.99 E-value=39 Score=29.19 Aligned_cols=23 Identities=26% Similarity=0.577 Sum_probs=17.6
Q ss_pred HHhCCCCceE-EeCCCCCeEeeee
Q 014356 53 NRLNKSPVKS-IKSPDGDIIDCVH 75 (426)
Q Consensus 53 ~~lNkp~vks-i~s~dGdiiDCVd 75 (426)
+.+...||.| |.|.+||.+||-.
T Consensus 22 ~lvSpeAiASLivt~~GdTLDCRQ 45 (111)
T PF13987_consen 22 ALVSPEAIASLIVTKEGDTLDCRQ 45 (111)
T ss_pred cccChhheeEEEEccCCCccchhh
Confidence 3456667776 6899999999953
Done!