Query psy10790
Match_columns 127
No_of_seqs 102 out of 172
Neff 5.0
Searched_HMMs 46136
Date Fri Aug 16 18:35:09 2013
Command hhsearch -i /work/01045/syshi/Psyhhblits/psy10790.a3m -d /work/01045/syshi/HHdatabase/Cdd.hhm -o /work/01045/syshi/hhsearch_cdd/10790hhsearch_cdd -cpu 12 -v 0
No Hit Prob E-value P-value Score SS Cols Query HMM Template HMM
1 KOG3066|consensus 100.0 2.5E-32 5.4E-37 219.1 4.6 121 2-125 6-127 (271)
2 PF01997 Translin: Translin fa 99.8 1.1E-21 2.3E-26 152.9 3.6 75 49-125 1-75 (200)
3 PRK14562 haloacid dehalogenase 99.8 7.6E-20 1.6E-24 143.9 8.6 84 34-125 2-85 (204)
4 KOG3067|consensus 99.4 2.4E-13 5.3E-18 107.7 7.7 89 35-124 5-95 (226)
5 COG2178 Predicted RNA-binding 99.0 1.1E-09 2.3E-14 87.1 7.4 83 35-125 2-84 (204)
6 KOG2180|consensus 66.8 18 0.00039 34.3 6.3 60 18-77 65-130 (793)
7 cd07632 BAR_APPL2 The Bin/Amph 66.2 37 0.00081 27.6 7.3 70 30-106 59-128 (215)
8 cd07631 BAR_APPL1 The Bin/Amph 61.3 59 0.0013 26.4 7.7 71 30-107 59-129 (215)
9 cd07635 BAR_GRAF2 The Bin/Amph 58.0 89 0.0019 25.1 8.1 65 34-105 65-129 (207)
10 cd07634 BAR_GAP10-like The Bin 52.8 57 0.0012 26.2 6.3 68 33-107 64-131 (207)
11 cd07604 BAR_ASAPs The Bin/Amph 52.6 1.2E+02 0.0025 24.3 8.0 59 33-97 60-118 (215)
12 PF05400 FliT: Flagellar prote 52.1 59 0.0013 20.6 5.8 61 43-108 11-79 (84)
13 cd07638 BAR_ACAP2 The Bin/Amph 49.9 1.1E+02 0.0025 24.2 7.5 68 33-107 58-125 (200)
14 cd07633 BAR_OPHN1 The Bin/Amph 48.0 87 0.0019 25.3 6.6 69 32-107 63-131 (207)
15 cd07602 BAR_RhoGAP_OPHN1-like 47.6 1.4E+02 0.003 23.9 7.7 66 33-105 64-129 (207)
16 PF14728 PHTB1_C: PTHB1 C-term 43.1 1.2E+02 0.0026 26.2 7.2 33 38-70 199-231 (377)
17 cd07601 BAR_APPL The Bin/Amphi 42.2 1.8E+02 0.0039 23.3 7.7 66 33-105 62-127 (215)
18 PF08776 VASP_tetra: VASP tetr 37.9 96 0.0021 18.9 4.2 29 81-109 9-37 (40)
19 smart00150 SPEC Spectrin repea 36.9 1.1E+02 0.0023 19.2 7.2 34 32-65 34-67 (101)
20 KOG4552|consensus 35.2 1.2E+02 0.0025 25.2 5.6 26 48-73 6-31 (272)
21 PF06705 SF-assemblin: SF-asse 32.2 2.6E+02 0.0056 22.2 7.8 75 33-108 9-102 (247)
22 cd07606 BAR_SFC_plant The Bin/ 32.1 2.6E+02 0.0055 22.1 7.9 55 36-97 63-117 (202)
23 PF15499 Peptidase_C98: Ubiqui 28.1 69 0.0015 27.0 3.2 29 79-107 71-99 (275)
24 cd07636 BAR_GRAF The Bin/Amphi 27.3 3.3E+02 0.0071 21.8 7.0 68 33-107 64-131 (207)
25 PF10458 Val_tRNA-synt_C: Valy 26.5 1.8E+02 0.0039 18.6 5.9 53 54-107 5-62 (66)
26 PF08951 EntA_Immun: Enterocin 25.5 88 0.0019 19.5 2.8 37 30-66 21-57 (75)
27 PF13713 BRX_N: Transcription 25.4 1.1E+02 0.0023 18.5 2.9 27 84-111 6-32 (39)
28 PF12841 YvrJ: YvrJ protein fa 20.4 1.8E+02 0.004 17.3 3.2 7 70-76 14-20 (38)
No 1
>KOG3066|consensus
Probab=99.97 E-value=2.5e-32 Score=219.11 Aligned_cols=121 Identities=31% Similarity=0.347 Sum_probs=111.8
Q ss_pred CCcccccccCCCCCCCCcCCCCcccccCCCChHHHHHHHHHHHHhhhhhHHHHHHHHHhHhhHhHHHHHHHHhhccC-CC
Q psy10790 2 SNRGFRDRRRKDQSSTNVNIGGKKNLIDENSPVVQEFRKYAIIMNTKQDKYERLVKISRDITIESKRVIFLLHTLLR-SD 80 (127)
Q Consensus 2 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~v~~~F~~fr~eLD~~hDrRERIiK~SRDIT~~SKkiIF~LhRi~~-~~ 80 (127)
|.+|+|.++ +...|++.+..++ .+..++|++..|.+|+++|++.||+||||||+|||||++|||+||+|||+.+ ++
T Consensus 6 sSafqRvaf-mlmaPklkpqkar--tmsteSsm~~aF~sf~~~L~~~~dKrEriVklSRdITi~SKr~IFllHr~ss~~~ 82 (271)
T KOG3066|consen 6 SSAFQRVAF-MLMAPKLKPQKAR--TMSTESSMEEAFLSFKNFLQEDQDKRERIVKLSRDITIQSKRMIFLLHRTSSSGF 82 (271)
T ss_pred cchHHHHHH-HHhCcccCccccc--ccCccchHHHHHHHHHHHHHHhHHHHHHHHhhhhhheeccceeeeeeeecccCCC
Confidence 457888888 7788888875442 4678899999999999999999999999999999999999999999999987 89
Q ss_pred hHHHHHHHHHHHHHHHHHHHHHHhhhhccCCchhhhhccccCccc
Q psy10790 81 TQKVLEEAESRLNILMQTHFKSIKAELVGEDLYQYIRAFSADKEY 125 (127)
Q Consensus 81 ~~~i~~ea~~~l~~I~~~~l~~ia~el~g~~~yrY~r~~s~Glq~ 125 (127)
+++++.++...|+.|+.+.|.+++.||+|.|+|+|+|++++|||+
T Consensus 83 ~e~~l~~~~~~le~vr~k~f~~l~~EL~G~d~~kf~rA~t~GlQE 127 (271)
T KOG3066|consen 83 PEPKLFDRTSILEKVRHKEFESLKRELAGLDADKFSRACTHGLQE 127 (271)
T ss_pred cchhhhhhhhHHHHHHHHHHHHHHHHhcCCcHHHHHHhhcccHHH
Confidence 999999999999999999999999999999999999999999997
No 2
>PF01997 Translin: Translin family; InterPro: IPR002848 Translins are DNA-binding proteins that specifically recognise consensus sequences at the breakpoint junctions in chromosomal translocations, mostly involving immunoglobulin (Ig)/T-cell receptor gene segments. They seem to recognise single-stranded DNA ends generated by staggered breaks occuring at recombination hot spots []. Translin folds into an alpha-alpha superhelix, consisting of two curved layers of alpha/alpha topology [, ].; GO: 0043565 sequence-specific DNA binding; PDB: 3QB5_K 3PJA_L 1J1J_D 3RIU_C 3AXJ_B 4DG7_C 2QVA_C 2QRX_A 1KEY_C.
Probab=99.84 E-value=1.1e-21 Score=152.85 Aligned_cols=75 Identities=41% Similarity=0.656 Sum_probs=72.5
Q ss_pred hhHHHHHHHHHhHhhHhHHHHHHHHhhccCCChHHHHHHHHHHHHHHHHHHHHHHhhhhccCCchhhhhccccCccc
Q psy10790 49 QDKYERLVKISRDITIESKRVIFLLHTLLRSDTQKVLEEAESRLNILMQTHFKSIKAELVGEDLYQYIRAFSADKEY 125 (127)
Q Consensus 49 hDrRERIiK~SRDIT~~SKkiIF~LhRi~~~~~~~i~~ea~~~l~~I~~~~l~~ia~el~g~~~yrY~r~~s~Glq~ 125 (127)
||+||+|||+|||||++||++||+|||++.+.+.+++++|++.+++|.. .+.+|+ ++++.++|+|+++|++|+|+
T Consensus 1 ~d~RE~iik~sRdi~~~Sk~~I~~lhr~~~~~~~~~l~~a~~~l~~l~~-~~~~l~-~~~~~~~~~y~~~~s~~lQE 75 (200)
T PF01997_consen 1 HDRRERIIKLSRDITRLSKKIIFALHRIDQEKAEKILEEAEEKLKELKK-LLKQLA-ELPGHPFYRYHGAYSPGLQE 75 (200)
T ss_dssp HHHHHHHHHHHHHHHHHHHHHHHHCCTCTTHHHHHHHHHHHHHHHHHHC-HSHHHH-HCTTCGHHHHGGGTHHHHHH
T ss_pred CcHHHHHHHHHHHHHHHHHHHHHHHHhccccchHHHHHHHHHHHHHHHH-HHhhhc-ccCCCcHHHHHHHHHHHHHH
Confidence 8999999999999999999999999999987788999999999999997 999999 99999999999999999996
No 3
>PRK14562 haloacid dehalogenase superfamily protein; Provisional
Probab=99.81 E-value=7.6e-20 Score=143.92 Aligned_cols=84 Identities=21% Similarity=0.160 Sum_probs=77.8
Q ss_pred HHHHHHHHHHHHhhhhhHHHHHHHHHhHhhHhHHHHHHHHhhccCCChHHHHHHHHHHHHHHHHHHHHHHhhhhccCCch
Q psy10790 34 VVQEFRKYAIIMNTKQDKYERLVKISRDITIESKRVIFLLHTLLRSDTQKVLEEAESRLNILMQTHFKSIKAELVGEDLY 113 (127)
Q Consensus 34 v~~~F~~fr~eLD~~hDrRERIiK~SRDIT~~SKkiIF~LhRi~~~~~~~i~~ea~~~l~~I~~~~l~~ia~el~g~~~y 113 (127)
+.++|++|+++||++||+||+|+|+|||||+.||++||+|||.. +.+|.+.+.++.. .+..|+..+++..+|
T Consensus 2 ~~~~~~~~~~~Ld~~~~~RE~iik~sRdI~~~Sk~~I~~lHr~~-------~~~a~~~l~~a~~-~~~~l~~~~~~~~~~ 73 (204)
T PRK14562 2 IEEIIDSIREELEEKDEAREEALKLSREIVRLSGDAIRAIHRGD-------FEEAEKLLKEAEE-LVKELKELLKDHPEL 73 (204)
T ss_pred hHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhcc-------HHHHHHHHHHHHH-HHHHHHHHhccCchh
Confidence 46789999999999999999999999999999999999999952 6778888999888 899999999999999
Q ss_pred hhhhccccCccc
Q psy10790 114 QYIRAFSADKEY 125 (127)
Q Consensus 114 rY~r~~s~Glq~ 125 (127)
+|+++|++|+|+
T Consensus 74 ~y~~~~~~~lQE 85 (204)
T PRK14562 74 YYAGYVGTALQE 85 (204)
T ss_pred hhhhhcchHHHH
Confidence 999999999996
No 4
>KOG3067|consensus
Probab=99.45 E-value=2.4e-13 Score=107.74 Aligned_cols=89 Identities=13% Similarity=0.208 Sum_probs=84.8
Q ss_pred HHHHHHHHHHHhhhhhHHHHHHHHHhHhhHhHHHHHHHHhhccC--CChHHHHHHHHHHHHHHHHHHHHHHhhhhccCCc
Q psy10790 35 VQEFRKYAIIMNTKQDKYERLVKISRDITIESKRVIFLLHTLLR--SDTQKVLEEAESRLNILMQTHFKSIKAELVGEDL 112 (127)
Q Consensus 35 ~~~F~~fr~eLD~~hDrRERIiK~SRDIT~~SKkiIF~LhRi~~--~~~~~i~~ea~~~l~~I~~~~l~~ia~el~g~~~ 112 (127)
..+|.+||+.||+.|+.||.|.++++.|+..+|.|-.+|+-++. ...++.|..|++++..|++ .+..||..++..+|
T Consensus 5 ~sif~q~q~~id~e~~iRE~iravV~~ie~~~r~iq~~L~~vhq~~~~i~k~~~~are~~~~~kq-~~~~LaE~~~~~qy 83 (226)
T KOG3067|consen 5 KSIFIQLQDFIDKEQSIREKIRAVVDEIEEKLREIQLLLQNVHQNENLIPKECGLAREDLENIKQ-KYRMLAELPPAGQY 83 (226)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhcccccchHHHHHHHHHHHHHHH-HHHHHhhcCCccce
Confidence 48999999999999999999999999999999999999999997 6789999999999999998 99999999999999
Q ss_pred hhhhhccccCcc
Q psy10790 113 YQYIRAFSADKE 124 (127)
Q Consensus 113 yrY~r~~s~Glq 124 (127)
|||+.+|++-+|
T Consensus 84 yry~~~w~~~~Q 95 (226)
T KOG3067|consen 84 YRYNGHWRRSTQ 95 (226)
T ss_pred EEecchHHHHHH
Confidence 999999998776
No 5
>COG2178 Predicted RNA-binding protein of the translin family [Translation, ribosomal structure and biogenesis]
Probab=99.01 E-value=1.1e-09 Score=87.09 Aligned_cols=83 Identities=25% Similarity=0.287 Sum_probs=70.4
Q ss_pred HHHHHHHHHHHhhhhhHHHHHHHHHhHhhHhHHHHHHHHhhccCCChHHHHHHHHHHHHHHHHHHHHHHhhhhccCCchh
Q psy10790 35 VQEFRKYAIIMNTKQDKYERLVKISRDITIESKRVIFLLHTLLRSDTQKVLEEAESRLNILMQTHFKSIKAELVGEDLYQ 114 (127)
Q Consensus 35 ~~~F~~fr~eLD~~hDrRERIiK~SRDIT~~SKkiIF~LhRi~~~~~~~i~~ea~~~l~~I~~~~l~~ia~el~g~~~yr 114 (127)
...+.++++.|++..+.||+++++||+|+.+|+.+||++|+-. +.+|+.+++.+.. .+..|...|.+-.-..
T Consensus 2 ~e~i~si~~~L~e~d~~REE~l~lsRei~r~s~~aI~~~H~~~-------~eeA~~~l~~a~~-~v~~Lk~~l~~~pel~ 73 (204)
T COG2178 2 REEINSIREVLQEKDKAREEALKLSREIVRLSGEAIFLLHRGD-------FEEAEKKLKKASE-AVEKLKRLLAGFPELY 73 (204)
T ss_pred hhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhcc-------HHHHHHHHHHHHH-HHHHHHHHHhhhHHHH
Confidence 3568999999999999999999999999999999999999952 6789999999887 8888988888766555
Q ss_pred hhhccccCccc
Q psy10790 115 YIRAFSADKEY 125 (127)
Q Consensus 115 Y~r~~s~Glq~ 125 (127)
|.-..+-|+|+
T Consensus 74 ~ag~~~~a~QE 84 (204)
T COG2178 74 FAGFVTTALQE 84 (204)
T ss_pred HHHhhcchHHH
Confidence 65555666664
No 6
>KOG2180|consensus
Probab=66.77 E-value=18 Score=34.31 Aligned_cols=60 Identities=30% Similarity=0.382 Sum_probs=41.3
Q ss_pred CcCCCCcccccCCCChHHHHHHHHHHHHhhhhhHHHHHHHHHhHhhHh--HHHH----HHHHhhcc
Q psy10790 18 NVNIGGKKNLIDENSPVVQEFRKYAIIMNTKQDKYERLVKISRDITIE--SKRV----IFLLHTLL 77 (127)
Q Consensus 18 ~~~~~~~~~~~~~~~~v~~~F~~fr~eLD~~hDrRERIiK~SRDIT~~--SKki----IF~LhRi~ 77 (127)
|....++++..+....+.+.|..+++-=+.-----+-|..+.|||-.+ +||= |.+|||++
T Consensus 65 N~g~~~~e~l~da~~ai~eL~~~i~eiks~ae~Te~~V~eiTrdIKqLD~AKkNLTtSiT~L~~L~ 130 (793)
T KOG2180|consen 65 NSGTRGKENLADAQAAIEELFQKIQEIKSVAESTEAMVQEITRDIKQLDFAKKNLTTSITTLHRLH 130 (793)
T ss_pred cccchhhhhHHHHHHHHHHHHHHHHHHHHHHHhHHHHHHHHHHHHHhhhHHHhhHHHHHHHHHHHH
Confidence 445555666666778888999988765444443444566789998765 6664 66899975
No 7
>cd07632 BAR_APPL2 The Bin/Amphiphysin/Rvs (BAR) domain of Adaptor protein, Phosphotyrosine interaction, PH domain and Leucine zipper containing 2. BAR domains are dimerization, lipid binding and curvature sensing modules found in many different proteins with diverse functions. Adaptor protein, Phosphotyrosine interaction, PH domain and Leucine zipper containing (APPL) proteins are effectors of the small GTPase Rab5 that function in endosome-mediated signaling. They contain BAR, pleckstrin homology (PH) and phosphotyrosine binding (PTB) domains. They form homo- and hetero-oligomers that are mediated by their BAR domains. Vertebrates contain two APPL proteins, APPL1 and APPL2. Both APPL proteins interact with the transcriptional repressor Reptin, acting as activators of beta-catenin/TCF-mediated trancription. APPL2 is essential for cell proliferation. BAR domains form dimers that bind to membranes, induce membrane bending and curvature, and may also be involved in protein-protein interac
Probab=66.17 E-value=37 Score=27.61 Aligned_cols=70 Identities=10% Similarity=0.142 Sum_probs=50.3
Q ss_pred CCChHHHHHHHHHHHHhhhhhHHHHHHHHHhHhhHhHHHHHHHHhhccCCChHHHHHHHHHHHHHHHHHHHHHHhhh
Q psy10790 30 ENSPVVQEFRKYAIIMNTKQDKYERLVKISRDITIESKRVIFLLHTLLRSDTQKVLEEAESRLNILMQTHFKSIKAE 106 (127)
Q Consensus 30 ~~~~v~~~F~~fr~eLD~~hDrRERIiK~SRDIT~~SKkiIF~LhRi~~~~~~~i~~ea~~~l~~I~~~~l~~ia~e 106 (127)
.+..|...+..|..-|++-.|-|.+++ +....-+++-|+.....+... .++.++.|+.+.+++...|.+-
T Consensus 59 ~D~~v~~sL~kFs~~L~el~~~h~~L~------dqaq~sl~~pL~~F~KeDl~~-vKe~KK~FdK~Se~~d~AL~Kn 128 (215)
T cd07632 59 GDEEVISTLQYFAKVVDELNVLHSELA------KQLADTMVLPIIQFREKDLTE-VSTLKDLFGIASNEHDLSMAKY 128 (215)
T ss_pred CcHHHHHHHHHHHHHHHHHHHHHHHHH------HHHHHHHHHHHHHHHHHHHHH-HHHHHHHHHHHhHHHHHHHHHH
Confidence 456788899999999999999999887 555556778887765433333 4667777777776555555543
No 8
>cd07631 BAR_APPL1 The Bin/Amphiphysin/Rvs (BAR) domain of Adaptor protein, Phosphotyrosine interaction, PH domain and Leucine zipper containing 1. BAR domains are dimerization, lipid binding and curvature sensing modules found in many different proteins with diverse functions. Adaptor protein, Phosphotyrosine interaction, PH domain and Leucine zipper containing (APPL) proteins are effectors of the small GTPase Rab5 that function in endosome-mediated signaling. They contain BAR, pleckstrin homology (PH) and phosphotyrosine binding (PTB) domains. They form homo- and hetero-oligomers that are mediated by their BAR domains. Vertebrates contain two APPL proteins, APPL1 and APPL2. APPL1 interacts with diverse receptors (e.g. NGF receptor TrkA, FSHR, adiponectin receptors) and signaling proteins (e.g. Akt, PI3K), and may function as an adaptor linked to many distinct signaling pathways. BAR domains form dimers that bind to membranes, induce membrane bending and curvature, and may also be invo
Probab=61.32 E-value=59 Score=26.41 Aligned_cols=71 Identities=11% Similarity=0.165 Sum_probs=53.9
Q ss_pred CCChHHHHHHHHHHHHhhhhhHHHHHHHHHhHhhHhHHHHHHHHhhccCCChHHHHHHHHHHHHHHHHHHHHHHhhhh
Q psy10790 30 ENSPVVQEFRKYAIIMNTKQDKYERLVKISRDITIESKRVIFLLHTLLRSDTQKVLEEAESRLNILMQTHFKSIKAEL 107 (127)
Q Consensus 30 ~~~~v~~~F~~fr~eLD~~hDrRERIiK~SRDIT~~SKkiIF~LhRi~~~~~~~i~~ea~~~l~~I~~~~l~~ia~el 107 (127)
.+..|......|..-|++-.+-|++++ ++...-+++.|+.....+. .-.++++.+|+.+..++...+.+-+
T Consensus 59 dDe~i~~~L~kFs~~L~El~~~~~~L~------~q~~~sl~~pL~~F~kedL-~~~Ke~KK~FdK~Se~~d~Al~K~a 129 (215)
T cd07631 59 DDEVMSSTLQQFSKVIDELSSCHAVLS------TQLADAMMFPITQFKERDL-KEILTLKEVFQIASNDHDAAINRYS 129 (215)
T ss_pred CcHHHHHHHHHHHHHHHHHHHHHHHHH------HHHHHHHHHHHHHHHHHHH-HHHHHHHHHHHHhhhHHHHHHHHHh
Confidence 344588899999999999999999886 6666678888888765443 3357888888888876666666544
No 9
>cd07635 BAR_GRAF2 The Bin/Amphiphysin/Rvs (BAR) domain of GTPase Regulator Associated with Focal adhesion 2. BAR domains are dimerization, lipid binding and curvature sensing modules found in many different proteins with diverse functions. GTPase Regulator Associated with Focal adhesion kinase 2 (GRAF2), also called Rho GTPase activating protein 10 (ARHGAP10) or PS-GAP, is a GAP with activity towards Cdc42 and RhoA which regulates caspase-activated p21-activated protein kinase-2 (PAK-2p34). GRAF2 interacts with PAK-2p34, leading to its stabilization and decrease of cell death. It is highly expressed in skeletal muscle and also interacts with PKNbeta, which is a target of Rho. GRAF2 contains an N-terminal BAR domain, followed by a Pleckstrin homology (PH) domain, a Rho GAP domain, and a C-terminal SH3 domain. BAR domains form dimers that bind to membranes, induce membrane bending and curvature, and may also be involved in protein-protein interactions. The BAR domain of the related prote
Probab=57.97 E-value=89 Score=25.06 Aligned_cols=65 Identities=6% Similarity=0.211 Sum_probs=47.0
Q ss_pred HHHHHHHHHHHHhhhhhHHHHHHHHHhHhhHhHHHHHHHHhhccCCChHHHHHHHHHHHHHHHHHHHHHHhh
Q psy10790 34 VVQEFRKYAIIMNTKQDKYERLVKISRDITIESKRVIFLLHTLLRSDTQKVLEEAESRLNILMQTHFKSIKA 105 (127)
Q Consensus 34 v~~~F~~fr~eLD~~hDrRERIiK~SRDIT~~SKkiIF~LhRi~~~~~~~i~~ea~~~l~~I~~~~l~~ia~ 105 (127)
+-+.+..|-+.|++--|-|++++ |....-+|..|+.....+. ...++++.+|+.+..++..++.+
T Consensus 65 i~~sl~ef~~~~~el~d~r~~L~------~~~~~~l~~pL~~F~kedl-~~~Ke~KK~FdK~se~~~~Al~K 129 (207)
T cd07635 65 IDASLQEFSNFLKNLEEQREIMA------LNVTETLIKPLERFRKEQL-GAVKEEKKKFDKETEKNYSLLEK 129 (207)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHH------HHHHHHHHHHHHHHHHHHH-HHHHHHHHHHHHhhhHHHHHHHH
Confidence 34888999999999999999886 5555567777777654333 24577778887777766666666
No 10
>cd07634 BAR_GAP10-like The Bin/Amphiphysin/Rvs (BAR) domain of Rho GTPase activating protein 10-like. BAR domains are dimerization, lipid binding and curvature sensing modules found in many different proteins with diverse functions. This group is composed of uncharacterized proteins called Rho GTPase activating protein (GAP) 10-like. GAP10-like may be a GAP with activity towards RhoA and Cdc42. Similar to GRAF and GRAF2, it contains an N-terminal BAR domain, followed by a Pleckstrin homology (PH) domain, a Rho GAP domain, and a C-terminal SH3 domain. BAR domains form dimers that bind to membranes, induce membrane bending and curvature, and may also be involved in protein-protein interactions. The BAR domains of the related proteins GRAF and OPHN1, directly interact with their Rho GAP domains and inhibit theiractivity. The autoinhibited proteins are capable of binding membranes and tubulating liposomes, showing that the membrane-tubulation and GAP-inhibitory functions of the BAR domain
Probab=52.84 E-value=57 Score=26.19 Aligned_cols=68 Identities=10% Similarity=0.275 Sum_probs=50.9
Q ss_pred hHHHHHHHHHHHHhhhhhHHHHHHHHHhHhhHhHHHHHHHHhhccCCChHHHHHHHHHHHHHHHHHHHHHHhhhh
Q psy10790 33 PVVQEFRKYAIIMNTKQDKYERLVKISRDITIESKRVIFLLHTLLRSDTQKVLEEAESRLNILMQTHFKSIKAEL 107 (127)
Q Consensus 33 ~v~~~F~~fr~eLD~~hDrRERIiK~SRDIT~~SKkiIF~LhRi~~~~~~~i~~ea~~~l~~I~~~~l~~ia~el 107 (127)
.|...|..|...|.+-.|-|+.++ +....-+|+.|+.....+.. -.++++.+|+.+..++.+.+.+.+
T Consensus 64 ~i~~~l~~Fs~~l~el~~~~~~L~------~~~~~~l~~pL~~f~k~dl~-~vKe~kK~FDK~se~y~~aleK~l 131 (207)
T cd07634 64 SIAQSLKEFARLLIAVEEERRRLI------QNANDVLIAPLEKFRKEQIG-AAKDGKKKFDKESEKYYSILEKHL 131 (207)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHH------HHHHHHHHHHHHHHHHHHHH-HHHHHccchhHHHhHHHHHHHHHH
Confidence 577899999999999999999885 66667788888887654433 356788888777775656666554
No 11
>cd07604 BAR_ASAPs The Bin/Amphiphysin/Rvs (BAR) domain of ArfGAP with SH3 domain, ANK repeat and PH domain containing proteins. BAR domains are dimerization, lipid binding and curvature sensing modules found in many different proteins with diverse functions. This subfamily is composed of ASAPs (ArfGAP with SH3 domain, ANK repeat and PH domain containing proteins), which are Arf GTPase activating proteins (GAPs) with similarity to ACAPs (ArfGAP with Coiled-coil, ANK repeat and PH domain containing proteins) in that they contain an N-terminal BAR domain, followed by a Pleckstrin homology (PH) domain, an Arf GAP domain, and ankyrin (ANK) repeats. However, ASAPs contain an additional C-terminal SH3 domain. ASAPs function in regulating cell growth, migration, and invasion. Vertebrates contain at least three members, ASAP1, ASAP2, and ASAP3. ASAP1 and ASAP2 shows GTPase activating protein (GAP) activity towards Arf1 and Arf5. They do not show GAP activity towards Arf6, but is able to mediate
Probab=52.65 E-value=1.2e+02 Score=24.28 Aligned_cols=59 Identities=14% Similarity=0.271 Sum_probs=42.0
Q ss_pred hHHHHHHHHHHHHhhhhhHHHHHHHHHhHhhHhHHHHHHHHhhccCCChHHHHHHHHHHHHHHHH
Q psy10790 33 PVVQEFRKYAIIMNTKQDKYERLVKISRDITIESKRVIFLLHTLLRSDTQKVLEEAESRLNILMQ 97 (127)
Q Consensus 33 ~v~~~F~~fr~eLD~~hDrRERIiK~SRDIT~~SKkiIF~LhRi~~~~~~~i~~ea~~~l~~I~~ 97 (127)
.+...|..|..-|.+-.+-++.++ +....=|+|-|+.....+...+.++++..|+....
T Consensus 60 ~i~~~l~kF~~~l~El~~~~~~L~------~~~~~~i~~pL~~f~k~dL~~~k~e~KK~fdK~s~ 118 (215)
T cd07604 60 DLGAAFLKFSVFTKELAALFKNLM------QNLNNIIMFPLDSLLKGDLKGSKGDLKKPFDKAWK 118 (215)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHH------HHHHHHHHHHHHHHHHHHhHHHHHHHHHHHHHHHH
Confidence 366778888888888888888775 56667788888887654444445577777777665
No 12
>PF05400 FliT: Flagellar protein FliT; InterPro: IPR008622 This entry represents the bacterial flagellar FliT family of dual-function proteins. Together with FlgN, FliT has been proposed to act as a substrate-specific export chaperone, facilitating the incorporation of the enterobacterial hook-associated axial proteins (HAPs) FlgK/FlgL and FliD into the growing flagellum []. FliT has also been shown to act as a transcriptional regulator in Salmonella typhimurium [].; GO: 0019861 flagellum; PDB: 3A7M_A 3H3M_B 3NKZ_C 2G42_A 2FZT_B.
Probab=52.14 E-value=59 Score=20.65 Aligned_cols=61 Identities=15% Similarity=0.171 Sum_probs=33.0
Q ss_pred HHHhhhhhHHHHHHH--------HHhHhhHhHHHHHHHHhhccCCChHHHHHHHHHHHHHHHHHHHHHHhhhhc
Q psy10790 43 IIMNTKQDKYERLVK--------ISRDITIESKRVIFLLHTLLRSDTQKVLEEAESRLNILMQTHFKSIKAELV 108 (127)
Q Consensus 43 ~eLD~~hDrRERIiK--------~SRDIT~~SKkiIF~LhRi~~~~~~~i~~ea~~~l~~I~~~~l~~ia~el~ 108 (127)
++|.+.-+.|+.++. ++.+-+...+..|-.+... ...+...++.+++++.. .+..+...-.
T Consensus 11 e~l~~l~~~R~~ll~~l~~~~~~~~~~~~~~~~~~l~~Il~~----d~~i~~ll~~~~~~l~~-~l~~~~~~~~ 79 (84)
T PF05400_consen 11 EELEELLDERQELLERLFEEQAALSPPEQEELRELLRRILEL----DQEIRALLQARRDELKQ-ELRQLRKGRK 79 (84)
T ss_dssp HHHHHHHHHHHHHHHHHHHCHTTS-HHHHHHHHHHHHHHHHH----HHHHHHHHHHHHHHHHH-HHHHCHHHHH
T ss_pred HHHHHHHHHHHHHHHHHhhccccCChhhHHHHHHHHHHHHHh----HHHHHHHHHHHHHHHHH-HHHHHHHHHH
Confidence 455666666777773 3444444444444333222 34566667777777776 6666555433
No 13
>cd07638 BAR_ACAP2 The Bin/Amphiphysin/Rvs (BAR) domain of ArfGAP with Coiled-coil, ANK repeat and PH domain containing protein 2. BAR domains are dimerization, lipid binding and curvature sensing modules found in many different proteins with diverse functions. ACAP2 (ArfGAP with Coiled-coil, ANK repeat and PH domain containing protein 2), also called centaurin beta-2, is an Arf6-specific GTPase activating protein (GAP) which mediates Arf6 signaling. Arf6 is involved in the regulation of endocytosis, phagocytosis, cell adhesion and migration. ACAP2 contains an N-terminal BAR domain, followed by a Pleckstrin homology (PH) domain, an Arf GAP domain, and C-terminal ankyrin (ANK) repeats. BAR domains form dimers that bind to membranes, induce membrane bending and curvature, and may also be involved in protein-protein interactions.
Probab=49.87 E-value=1.1e+02 Score=24.21 Aligned_cols=68 Identities=9% Similarity=0.185 Sum_probs=48.0
Q ss_pred hHHHHHHHHHHHHhhhhhHHHHHHHHHhHhhHhHHHHHHHHhhccCCChHHHHHHHHHHHHHHHHHHHHHHhhhh
Q psy10790 33 PVVQEFRKYAIIMNTKQDKYERLVKISRDITIESKRVIFLLHTLLRSDTQKVLEEAESRLNILMQTHFKSIKAEL 107 (127)
Q Consensus 33 ~v~~~F~~fr~eLD~~hDrRERIiK~SRDIT~~SKkiIF~LhRi~~~~~~~i~~ea~~~l~~I~~~~l~~ia~el 107 (127)
-+.+.+..|..-|++-.+-|+.++. +...-++.-|+.....+. ...++++.+|+.+..+++.+|.+-.
T Consensus 58 ~i~~~l~kF~~~l~ei~~~~~~L~~------q~~~~l~~~L~~F~k~dl-~~vke~kk~FdK~s~~~~~aL~K~~ 125 (200)
T cd07638 58 VIETSLTKFSDTLQEMINYHTILFD------QAQRSIKAQLQTFVKEDL-RKFKDAKKQFDKVSEEKENALVKNA 125 (200)
T ss_pred hhHHHHHHHHHHHHHHHHHHHHHHH------HHHHHHHHHHHHHHHHHh-HHHHHHHHHHHHHhHHHHHHHHHhc
Confidence 5668889999999999999998874 444556667776654333 2356777778777766666666544
No 14
>cd07633 BAR_OPHN1 The Bin/Amphiphysin/Rvs (BAR) domain of Oligophrenin-1. BAR domains are dimerization, lipid binding and curvature sensing modules found in many different proteins with diverse functions. Oligophrenin-1 (OPHN1) is a GTPase activating protein (GAP) with activity towards RhoA, Rac, and Cdc42, that is expressed in developing spinal cord and in adult brain areas with high plasticity. It plays a role in regulating the actin cystoskeleton as well as morphology changes in axons and dendrites, and may also function in modulating neuronal connectivity. Mutations in the OPHN1 gene causes X-linked mental retardation associated with cerebellar hypoplasia, lateral ventricle enlargement and epilepsy. OPHN1 contains an N-terminal BAR domain, followed by a Pleckstrin homology (PH) domain, and a Rho GAP domain. BAR domains form dimers that bind to membranes, induce membrane bending and curvature, and may also be involved in protein-protein interactions.
Probab=48.04 E-value=87 Score=25.32 Aligned_cols=69 Identities=10% Similarity=0.230 Sum_probs=47.3
Q ss_pred ChHHHHHHHHHHHHhhhhhHHHHHHHHHhHhhHhHHHHHHHHhhccCCChHHHHHHHHHHHHHHHHHHHHHHhhhh
Q psy10790 32 SPVVQEFRKYAIIMNTKQDKYERLVKISRDITIESKRVIFLLHTLLRSDTQKVLEEAESRLNILMQTHFKSIKAEL 107 (127)
Q Consensus 32 ~~v~~~F~~fr~eLD~~hDrRERIiK~SRDIT~~SKkiIF~LhRi~~~~~~~i~~ea~~~l~~I~~~~l~~ia~el 107 (127)
-.|...+..|...|.+-.|-|++++. ....-+|-.|+.....+.. ..++++.+|+.+..+....|.+-+
T Consensus 63 ~~I~~sL~~F~~~L~~ie~~r~~l~d------~aq~s~~~~L~~F~Kedi~-~~Ke~KK~FdK~se~~~~aL~k~a 131 (207)
T cd07633 63 INIAESFKEFAELLQEVEEERMMMVQ------NASDLLIKPLENFRKEQIG-FTKERKKKFEKDSEKFYSLLDRHV 131 (207)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHH------HHHHHHHHHHHHHHHHHHH-HHHHHhhhhhhhhhHHHHHHHHHh
Confidence 35778999999999999999999974 4444556666665433222 356677777777765556555544
No 15
>cd07602 BAR_RhoGAP_OPHN1-like The Bin/Amphiphysin/Rvs (BAR) domain of Oligophrenin1-like Rho GTPase Activating Proteins. BAR domains are dimerization, lipid binding and curvature sensing modules found in many different proteins with diverse functions. This subfamily is composed of Rho and Rac GTPase activating proteins (GAPs) with similarity to oligophrenin1 (OPHN1). Members contain an N-terminal BAR domain, followed by a Pleckstrin homology (PH) domain, and a Rho GAP domain. Some members contain a C-terminal SH3 domain. Vertebrates harbor at least three Rho GAPs in this subfamily including OPHN1, GTPase Regulator Associated with Focal adhesion kinase (GRAF), GRAF2, and an uncharacterized protein called GAP10-like. OPHN1, GRAF and GRAF2 show GAP activity towards RhoA and Cdc42. In addition, OPHN1 is active towards Rac. BAR domains form dimers that bind to membranes, induce membrane bending and curvature, and may also be involved in protein-protein interactions. The BAR domains of OPHN1
Probab=47.56 E-value=1.4e+02 Score=23.89 Aligned_cols=66 Identities=11% Similarity=0.276 Sum_probs=44.7
Q ss_pred hHHHHHHHHHHHHhhhhhHHHHHHHHHhHhhHhHHHHHHHHhhccCCChHHHHHHHHHHHHHHHHHHHHHHhh
Q psy10790 33 PVVQEFRKYAIIMNTKQDKYERLVKISRDITIESKRVIFLLHTLLRSDTQKVLEEAESRLNILMQTHFKSIKA 105 (127)
Q Consensus 33 ~v~~~F~~fr~eLD~~hDrRERIiK~SRDIT~~SKkiIF~LhRi~~~~~~~i~~ea~~~l~~I~~~~l~~ia~ 105 (127)
.|...+..|..-|++-.+-|++++ +....-+|.-|+.....+. ...++++.+|+.+..++..++.+
T Consensus 64 ~i~~~L~kF~~~l~ei~~~r~~L~------~q~~~~l~~pL~~F~k~dl-~~~ke~kk~FdK~se~~~~al~k 129 (207)
T cd07602 64 EIAESLKEFGRLIETVEDERDRML------ENAEEQLIEPLEKFRKEQI-GGAKEEKKKFDKETEKFCSSLEK 129 (207)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHH------HHHHHHHHHHHHHHHHHHH-HHHHHHHHHHHHHHHHHHHHHHH
Confidence 477899999999999999999887 5555566766666543222 34456666666666544444444
No 16
>PF14728 PHTB1_C: PTHB1 C-terminus
Probab=43.06 E-value=1.2e+02 Score=26.25 Aligned_cols=33 Identities=9% Similarity=0.274 Sum_probs=29.1
Q ss_pred HHHHHHHHhhhhhHHHHHHHHHhHhhHhHHHHH
Q psy10790 38 FRKYAIIMNTKQDKYERLVKISRDITIESKRVI 70 (127)
Q Consensus 38 F~~fr~eLD~~hDrRERIiK~SRDIT~~SKkiI 70 (127)
+..|.+.+|+|++.|-.+.+..-.++..++..-
T Consensus 199 l~~~~~~id~H~~lr~~~~~~~~~L~~~a~QfR 231 (377)
T PF14728_consen 199 LQEYFEIIDQHFELRQELKELEEELDERAQQFR 231 (377)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 577888999999999999999999998887664
No 17
>cd07601 BAR_APPL The Bin/Amphiphysin/Rvs (BAR) domain of Adaptor protein, Phosphotyrosine interaction, PH domain and Leucine zipper containing proteins. BAR domains are dimerization, lipid binding and curvature sensing modules found in many different proteins with diverse functions. Adaptor protein, Phosphotyrosine interaction, PH domain and Leucine zipper containing (APPL) proteins are effectors of the small GTPase Rab5 that function in endosome-mediated signaling. They contain BAR, pleckstrin homology (PH) and phosphotyrosine binding (PTB) domains. They form homo- and hetero-oligomers that are mediated by their BAR domains, and are localized to cytoplasmic membranes. Vertebrates contain two APPL proteins, APPL1 and APPL2. BAR domains form dimers that bind to membranes, induce membrane bending and curvature, and may also be involved in protein-protein interactions.
Probab=42.17 E-value=1.8e+02 Score=23.34 Aligned_cols=66 Identities=9% Similarity=0.176 Sum_probs=45.6
Q ss_pred hHHHHHHHHHHHHhhhhhHHHHHHHHHhHhhHhHHHHHHHHhhccCCChHHHHHHHHHHHHHHHHHHHHHHhh
Q psy10790 33 PVVQEFRKYAIIMNTKQDKYERLVKISRDITIESKRVIFLLHTLLRSDTQKVLEEAESRLNILMQTHFKSIKA 105 (127)
Q Consensus 33 ~v~~~F~~fr~eLD~~hDrRERIiK~SRDIT~~SKkiIF~LhRi~~~~~~~i~~ea~~~l~~I~~~~l~~ia~ 105 (127)
-+...|..|..-|++--+-|+.|+ +....-+++-|+.....+... .++++.+|+.+...+...+.+
T Consensus 62 ~~~~~l~kFs~~l~El~~~~~~L~------~q~~~~l~~pL~~F~k~Dl~~-vKe~kK~FdK~s~~~d~al~K 127 (215)
T cd07601 62 ILVSTLKQFSKVVDELSTMHSTLS------SQLADTVLHPISQFMESDLAE-IMTLKELFKAASNDHDGVLSK 127 (215)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHH------HHHHHHHHHHHHHHHHHHhHH-HHHHHHHHHHHhHHHHHHHHH
Confidence 334789999999999999999886 566667788888776433332 457777776666644444443
No 18
>PF08776 VASP_tetra: VASP tetramerisation domain; InterPro: IPR014885 Vasodilator-stimulated phosphoprotein (VASP) is an actin cytoskeletal regulatory protein. This region corresponds to the tetramerisation domain which forms a right handed alpha helical coiled coil structure []. ; PDB: 1USE_A 1USD_A.
Probab=37.92 E-value=96 Score=18.95 Aligned_cols=29 Identities=28% Similarity=0.428 Sum_probs=23.0
Q ss_pred hHHHHHHHHHHHHHHHHHHHHHHhhhhcc
Q psy10790 81 TQKVLEEAESRLNILMQTHFKSIKAELVG 109 (127)
Q Consensus 81 ~~~i~~ea~~~l~~I~~~~l~~ia~el~g 109 (127)
.++++.+.+..|..++...+..+..||..
T Consensus 9 KqEIL~EvrkEl~K~K~EIIeA~~~eL~r 37 (40)
T PF08776_consen 9 KQEILEEVRKELQKVKEEIIEAIRQELSR 37 (40)
T ss_dssp HHHHHHHHHHHHHHHHHHHHHHHHHHHHH
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHhc
Confidence 57888888888888888778888877753
No 19
>smart00150 SPEC Spectrin repeats.
Probab=36.89 E-value=1.1e+02 Score=19.24 Aligned_cols=34 Identities=9% Similarity=0.273 Sum_probs=28.0
Q ss_pred ChHHHHHHHHHHHHhhhhhHHHHHHHHHhHhhHh
Q psy10790 32 SPVVQEFRKYAIIMNTKQDKYERLVKISRDITIE 65 (127)
Q Consensus 32 ~~v~~~F~~fr~eLD~~hDrRERIiK~SRDIT~~ 65 (127)
.....-|..|+.+|+.+++.-+.|.++..++...
T Consensus 34 ~~~~~~~~~~~~e~~~~~~~v~~~~~~~~~L~~~ 67 (101)
T smart00150 34 EALLKKHEALEAELEAHEERVEALNELGEQLIEE 67 (101)
T ss_pred HHHHHHHHHHHHHHHHhHHHHHHHHHHHHHHHHc
Confidence 3456778999999999999999999988876554
No 20
>KOG4552|consensus
Probab=35.24 E-value=1.2e+02 Score=25.20 Aligned_cols=26 Identities=27% Similarity=0.328 Sum_probs=23.4
Q ss_pred hhhHHHHHHHHHhHhhHhHHHHHHHH
Q psy10790 48 KQDKYERLVKISRDITIESKRVIFLL 73 (127)
Q Consensus 48 ~hDrRERIiK~SRDIT~~SKkiIF~L 73 (127)
+.-.||||.-+.-|++..+|.+|=.|
T Consensus 6 ~~StrerLL~~~dDlE~i~kelie~l 31 (272)
T KOG4552|consen 6 ERSTRERLLESADDLEHIVKELIETL 31 (272)
T ss_pred cccHHHHHHHHhhHHHHHHHHHHHHH
Confidence 45679999999999999999999877
No 21
>PF06705 SF-assemblin: SF-assemblin/beta giardin
Probab=32.18 E-value=2.6e+02 Score=22.18 Aligned_cols=75 Identities=16% Similarity=0.259 Sum_probs=45.6
Q ss_pred hHHHHHHHHHHHHhhh------------hhHHHHHHHHHhHhhHhHHHHHHHHhhccC-------CChHHHHHHHHHHHH
Q psy10790 33 PVVQEFRKYAIIMNTK------------QDKYERLVKISRDITIESKRVIFLLHTLLR-------SDTQKVLEEAESRLN 93 (127)
Q Consensus 33 ~v~~~F~~fr~eLD~~------------hDrRERIiK~SRDIT~~SKkiIF~LhRi~~-------~~~~~i~~ea~~~l~ 93 (127)
.+..-|.+|...|-.. ++.+|.|-++-+.|+.++|+-+=..+-+.. .....+......++.
T Consensus 9 ~i~e~~~~f~~~le~e~~~Rr~~ee~r~~~i~e~i~~Le~~l~~E~k~R~E~~~~lq~~~e~~i~~~~~~v~~~~~~~~~ 88 (247)
T PF06705_consen 9 SINERFSGFESDLENEKRQRREQEEQRFQDIKEQIQKLEKALEAEVKRRVESNKKLQSKFEEQINNMQERVENQISEKQE 88 (247)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 3556677777777444 567789999999999999998654444321 112233334444555
Q ss_pred HHHHHHHHHHhhhhc
Q psy10790 94 ILMQTHFKSIKAELV 108 (127)
Q Consensus 94 ~I~~~~l~~ia~el~ 108 (127)
.+.. .+..|...++
T Consensus 89 ~~~~-~l~~L~~ri~ 102 (247)
T PF06705_consen 89 QLQS-RLDSLNDRIE 102 (247)
T ss_pred HHHH-HHHHHHHHHH
Confidence 5554 5555555544
No 22
>cd07606 BAR_SFC_plant The Bin/Amphiphysin/Rvs (BAR) domain of the plant protein SCARFACE (SFC). BAR domains are dimerization, lipid binding and curvature sensing modules found in many different proteins with diverse functions including organelle biogenesis, membrane trafficking or remodeling, and cell division and migration. The plant protein SCARFACE (SFC), also called VAscular Network 3 (VAN3), is a plant ACAP (ArfGAP with Coiled-coil, ANK repeat and PH domain containing protein), an Arf GTPase Activating Protein (GAP) that plays a role in the trafficking of auxin efflux regulators from the plasma membrane to the endosome. It is required for the normal vein patterning in leaves. SCF contains an N-terminal BAR domain, followed by a Pleckstrin Homology (PH) domain, an Arf GAP domain, and C-terminal ankyrin (ANK) repeats. BAR domains form dimers that bind to membranes, induce membrane bending and curvature, and may also be involved in protein-protein interactions.
Probab=32.12 E-value=2.6e+02 Score=22.13 Aligned_cols=55 Identities=15% Similarity=0.102 Sum_probs=35.0
Q ss_pred HHHHHHHHHHhhhhhHHHHHHHHHhHhhHhHHHHHHHHhhccCCChHHHHHHHHHHHHHHHH
Q psy10790 36 QEFRKYAIIMNTKQDKYERLVKISRDITIESKRVIFLLHTLLRSDTQKVLEEAESRLNILMQ 97 (127)
Q Consensus 36 ~~F~~fr~eLD~~hDrRERIiK~SRDIT~~SKkiIF~LhRi~~~~~~~i~~ea~~~l~~I~~ 97 (127)
+.|..|..-|.+-.+-|+.|+. +...-+++-|+.....+... .++++.+|+.+..
T Consensus 63 ~~l~kF~~~l~ei~~~~~~L~~------q~~~~l~~pL~~F~k~Dl~~-vKe~kK~FdK~s~ 117 (202)
T cd07606 63 PVMTKFTSALREIGSYKEVLRS------QVEHMLNDRLAQFADTDLQE-VKDARRRFDKASL 117 (202)
T ss_pred hHHHHHHHHHHHHHHHHHHHHH------HHHHHHHHHHHHHHHHHHHH-HHHHHHHHHHHHH
Confidence 3688999999999999998864 44445666666654322222 3455555555544
No 23
>PF15499 Peptidase_C98: Ubiquitin-specific peptidase-like, SUMO isopeptidase
Probab=28.10 E-value=69 Score=26.99 Aligned_cols=29 Identities=24% Similarity=0.336 Sum_probs=26.0
Q ss_pred CChHHHHHHHHHHHHHHHHHHHHHHhhhh
Q psy10790 79 SDTQKVLEEAESRLNILMQTHFKSIKAEL 107 (127)
Q Consensus 79 ~~~~~i~~ea~~~l~~I~~~~l~~ia~el 107 (127)
..+..++.+|.+.|.+||...|..|.|.|
T Consensus 71 ~~~~~~l~~ae~~Ln~vR~~iF~~LqPkL 99 (275)
T PF15499_consen 71 KVPSEILAKAETCLNEVRMEIFIQLQPKL 99 (275)
T ss_pred cCchHHHHHHHHHHHHHHHHHHHHhCccC
Confidence 34788999999999999999999999887
No 24
>cd07636 BAR_GRAF The Bin/Amphiphysin/Rvs (BAR) domain of GTPase Regulator Associated with Focal adhesion kinase. BAR domains are dimerization, lipid binding and curvature sensing modules found in many different proteins with diverse functions. GTPase Regulator Associated with Focal adhesion kinase (GRAF), also called Rho GTPase activating protein 26 (ARHGAP26), is a GAP with activity towards RhoA and Cdc42 and is only weakly active towards Rac1. It influences Rho-mediated cytoskeletal rearrangements and binds focal adhesion kinase (FAK), which is a critical component of integrin signaling. GRAF contains an N-terminal BAR domain, followed by a Pleckstrin homology (PH) domain, a Rho GAP domain, and a C-terminal SH3 domain. BAR domains form dimers that bind to membranes, induce membrane bending and curvature, and may also be involved in protein-protein interactions. The BAR domain of GRAF directly interacts with its Rho GAP domain and inhibits its activity. Autoinhibited GRAF is capable o
Probab=27.30 E-value=3.3e+02 Score=21.84 Aligned_cols=68 Identities=13% Similarity=0.271 Sum_probs=42.7
Q ss_pred hHHHHHHHHHHHHhhhhhHHHHHHHHHhHhhHhHHHHHHHHhhccCCChHHHHHHHHHHHHHHHHHHHHHHhhhh
Q psy10790 33 PVVQEFRKYAIIMNTKQDKYERLVKISRDITIESKRVIFLLHTLLRSDTQKVLEEAESRLNILMQTHFKSIKAEL 107 (127)
Q Consensus 33 ~v~~~F~~fr~eLD~~hDrRERIiK~SRDIT~~SKkiIF~LhRi~~~~~~~i~~ea~~~l~~I~~~~l~~ia~el 107 (127)
.+-..+..|-.-|.+--|-|++++--+ ..-+|-.|+.....+. ...++++.+|+.+..++..++.+-+
T Consensus 64 ~I~~~L~kF~~~L~ei~~~r~~L~~qa------~~~l~~~L~~F~kedi-~~~Ke~kK~FdK~se~~~~al~k~~ 131 (207)
T cd07636 64 CIARSLQEFAAVLRNLEDERTRMIENA------SEVLITPLEKFRKEQI-GAAKEAKKKYDKETEKYCAVLEKHL 131 (207)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHH------HHHHHHHHHHHHHHHH-HHHHHHhhhHhhhhhHHHHHHHHHh
Confidence 455788999999999999999887443 3344455555543222 2356666666666665555555444
No 25
>PF10458 Val_tRNA-synt_C: Valyl tRNA synthetase tRNA binding arm; InterPro: IPR019499 The aminoacyl-tRNA synthetases (6.1.1. from EC) catalyse the attachment of an amino acid to its cognate transfer RNA molecule in a highly specific two-step reaction. These proteins differ widely in size and oligomeric state, and have limited sequence homology []. The 20 aminoacyl-tRNA synthetases are divided into two classes, I and II. Class I aminoacyl-tRNA synthetases contain a characteristic Rossman fold catalytic domain and are mostly monomeric []. Class II aminoacyl-tRNA synthetases share an anti-parallel beta-sheet fold flanked by alpha-helices [], and are mostly dimeric or multimeric, containing at least three conserved regions [, , ]. However, tRNA binding involves an alpha-helical structure that is conserved between class I and class II synthetases. In reactions catalysed by the class I aminoacyl-tRNA synthetases, the aminoacyl group is coupled to the 2'-hydroxyl of the tRNA, while, in class II reactions, the 3'-hydroxyl site is preferred. The synthetases specific for arginine, cysteine, glutamic acid, glutamine, isoleucine, leucine, methionine, tyrosine, tryptophan and valine belong to class I synthetases. The synthetases specific for alanine, asparagine, aspartic acid, glycine, histidine, lysine, phenylalanine, proline, serine, and threonine belong to class-II synthetases []. Based on their mode of binding to the tRNA acceptor stem, both classes of tRNA synthetases have been subdivided into three subclasses, designated 1a, 1b, 1c and 2a, 2b, 2c. This entry represents the C-terminal domain of Valyl-tRNA synthetase, which consists of two helices in a long alpha-hairpin. Valyl-tRNA synthetase (6.1.1.9 from EC) is an alpha monomer that belongs to class Ia.; GO: 0000166 nucleotide binding, 0004832 valine-tRNA ligase activity, 0005524 ATP binding, 0006438 valyl-tRNA aminoacylation, 0005737 cytoplasm; PDB: 1IVS_B 1GAX_B.
Probab=26.53 E-value=1.8e+02 Score=18.57 Aligned_cols=53 Identities=15% Similarity=0.310 Sum_probs=36.5
Q ss_pred HHHHHHhHhhHhHHHHHHHHhhccC-----CChHHHHHHHHHHHHHHHHHHHHHHhhhh
Q psy10790 54 RLVKISRDITIESKRVIFLLHTLLR-----SDTQKVLEEAESRLNILMQTHFKSIKAEL 107 (127)
Q Consensus 54 RIiK~SRDIT~~SKkiIF~LhRi~~-----~~~~~i~~ea~~~l~~I~~~~l~~ia~el 107 (127)
.+-++.+++.-.-+.+--+-.++.. .-|+.|....+.++++... .+..|...|
T Consensus 5 E~~rL~Kel~kl~~~i~~~~~kL~n~~F~~kAP~eVve~er~kl~~~~~-~~~~l~~~l 62 (66)
T PF10458_consen 5 EIERLEKELEKLEKEIERLEKKLSNENFVEKAPEEVVEKEREKLEELEE-ELEKLEEAL 62 (66)
T ss_dssp HHHHHHHHHHHHHHHHHHHHHHHCSTTHHHHS-CCHHHHHHHHHHHHHH-HHHHHHHHH
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHcCccccccCCHHHHHHHHHHHHHHHH-HHHHHHHHH
Confidence 4666677776666666666666653 3478888888999988887 777776554
No 26
>PF08951 EntA_Immun: Enterocin A Immunity; InterPro: IPR015046 Gram-positive lactobacilli produce bacteriocins to kill closely-related competitor species []. To protect themselves from the bacteriocidal activity of this molecule they co-express an immunity protein (for discussion of this operon see Bacteriocin_IIc PF10439 from PFAM). The immunity protein structure is a soluble, cytoplasmic, antiparallel four alpha-helical globular bundle with a fifth, more flexible and more divergent C-terminal helical hair-pin []. The C-terminal hair-pin recognises the C terminus of the producer bacteriocin and this interaction is sufficient to dis-orient the bacteriocin within the membrane and close up the permeabilising pore that on its own the bacteriocin creates []. These immunity proteins interact in the same way with other bacteriocins, family Bacteriocin_II, PF01721 from PFAM. Since many enterococci can produce more than one bacteriocin it seems likely that the whole operon can be carried on transferable plasmids []. ; PDB: 2BL8_C 2BL7_A 2K19_A 2FU2_A 1TDP_A 2IP6_A.
Probab=25.54 E-value=88 Score=19.53 Aligned_cols=37 Identities=8% Similarity=0.008 Sum_probs=28.0
Q ss_pred CCChHHHHHHHHHHHHhhhhhHHHHHHHHHhHhhHhH
Q psy10790 30 ENSPVVQEFRKYAIIMNTKQDKYERLVKISRDITIES 66 (127)
Q Consensus 30 ~~~~v~~~F~~fr~eLD~~hDrRERIiK~SRDIT~~S 66 (127)
.+.++.+++..+..+|+...+--.-+.+++.+|+..+
T Consensus 21 ~~~~lr~iL~~a~~~l~~~~~~~~v~~~L~~~l~~~~ 57 (75)
T PF08951_consen 21 INEELRKILLKAKNELEKGENVPLVASRLNNDLSPYA 57 (75)
T ss_dssp CGHHHHHHHHHHHHHHHTCCSHHHHHHHHHHHHHHHH
T ss_pred CCHHHHHHHHHHHHHHhcCCcHHHHHHHHHHHHHHHH
Confidence 4567888888888888888886666677777776554
No 27
>PF13713 BRX_N: Transcription factor BRX N-terminal domain
Probab=25.42 E-value=1.1e+02 Score=18.49 Aligned_cols=27 Identities=19% Similarity=0.261 Sum_probs=21.4
Q ss_pred HHHHHHHHHHHHHHHHHHHHhhhhccCC
Q psy10790 84 VLEEAESRLNILMQTHFKSIKAELVGED 111 (127)
Q Consensus 84 i~~ea~~~l~~I~~~~l~~ia~el~g~~ 111 (127)
-|+.|.+-+..+.. ++..|+..|+|..
T Consensus 6 k~kaaKe~IKsLt~-QlK~maekl~~~~ 32 (39)
T PF13713_consen 6 KCKAAKEVIKSLTA-QLKDMAEKLPGAY 32 (39)
T ss_pred ccHHHHHHHHHHHH-HHHHHHHhCchhh
Confidence 35667777888888 9999999998653
No 28
>PF12841 YvrJ: YvrJ protein family; InterPro: IPR024419 This entry is represents a family of uncharacterised protein. The function of the Bacillus subtilis YvrJ protein is not known, but its expression is regulated by the cell envelope stress-inducible sigma factor YvrI [].
Probab=20.40 E-value=1.8e+02 Score=17.25 Aligned_cols=7 Identities=43% Similarity=0.842 Sum_probs=5.4
Q ss_pred HHHHhhc
Q psy10790 70 IFLLHTL 76 (127)
Q Consensus 70 IF~LhRi 76 (127)
+|+|+|+
T Consensus 14 ~yLL~R~ 20 (38)
T PF12841_consen 14 IYLLVRI 20 (38)
T ss_pred HHHHHHH
Confidence 6788886
Done!