Query 030963
Match_columns 168
No_of_seqs 187 out of 935
Neff 5.6
Searched_HMMs 29240
Date Mon Mar 25 11:11:30 2013
Command hhsearch -i /work/01045/syshi/csienesis_hhblits_a3m/030963.a3m -d /work/01045/syshi/HHdatabase/pdb70.hhm -o /work/01045/syshi/hhsearch_pdb/030963hhsearch_pdb -cpu 12 -v 0
No Hit Prob E-value P-value Score SS Cols Query HMM Template HMM
1 2y9j_Y Lipoprotein PRGK, prote 35.0 55 0.0019 25.0 4.8 58 32-94 111-170 (170)
2 1u9d_A Hypothetical protein VC 32.8 15 0.00053 27.0 1.2 58 35-100 7-64 (122)
3 3o71_B Peptide of deleted in c 29.9 18 0.00063 19.9 0.9 13 32-44 9-21 (27)
4 1yd6_A UVRC; DNA binding prote 28.2 33 0.0011 24.0 2.3 31 2-35 18-48 (99)
5 2v4h_A NF-kappa-B essential mo 22.8 68 0.0023 23.3 3.1 31 134-166 68-99 (110)
6 1yd0_A Uvrabc system protein C 18.6 73 0.0025 22.1 2.5 29 2-34 18-46 (96)
7 3rfw_A Cell-binding factor 2; 18.4 3E+02 0.01 21.1 6.5 81 69-160 144-233 (252)
8 3i2z_B RNA chaperone, negative 17.7 2.1E+02 0.0071 18.3 4.5 32 2-47 10-41 (71)
9 1yj7_A ESCJ; mixed alpha/beta, 17.3 2.1E+02 0.0073 21.6 5.2 47 43-94 120-166 (171)
10 4e2i_2 DNA polymerase alpha su 15.2 94 0.0032 21.2 2.3 20 61-80 18-37 (78)
No 1
>2y9j_Y Lipoprotein PRGK, protein PRGK; protein transport, type III secretion, IR1, inner membrane R C24-fold; 6.40A {Salmonella enterica subsp}
Probab=35.03 E-value=55 Score=24.98 Aligned_cols=58 Identities=19% Similarity=0.151 Sum_probs=39.8
Q ss_pred cCCCc-eee-ecccCCccEEEEEeCCCCCCCCCCHHHHHHHHHHHHHhCcCCCCCCceEEEEEec
Q 030963 32 GFPED-IWF-HVDKMSSAHVYLRLHKGQTIDDISEGVLEDCAQLVKANSIQGNKVNNIDVVYTPW 94 (168)
Q Consensus 32 a~~~D-lWf-Hv~~~pGaHViLr~~~g~~~~~ip~~~l~~AA~Laa~~Sk~~~~~~~V~V~yt~~ 94 (168)
+-|++ -+| .-..-|+|-|+|+..+|. ++++.+.--..|++ .|..|-..++|+|+..|+
T Consensus 111 ~lP~~~~~f~~~~~~~sASV~l~~~~g~----l~~~qv~~I~~LVa-~SV~gL~~e~VtVv~~~~ 170 (170)
T 2y9j_Y 111 SYDIDAGENGRPPKPVHLSALAVYERGS----PLAHQISDIKRFLK-NSFADVDYDNISVVLSER 170 (170)
T ss_dssp EECCCCCBTTBCCCCEEEEEEEEECTTC----CCGGGHHHHHHHHH-HHSTTCCGGGEEEEEEEC
T ss_pred EcCCCcCcccccCCCCcEEEEEEECCCC----CCHHHHHHHHHHHH-HhcCCCCccceEEEEecC
Confidence 34443 444 444568899999998772 55666666666665 666777788999987763
No 2
>1u9d_A Hypothetical protein VC0714; structural genomics, MCSG, protein STR initiative, PSI, midwest center for structural genomics; 1.70A {Vibrio cholerae o1 biovar eltor str} SCOP: d.80.1.5
Probab=32.84 E-value=15 Score=26.98 Aligned_cols=58 Identities=14% Similarity=0.315 Sum_probs=40.3
Q ss_pred CceeeecccCCccEEEEEeCCCCCCCCCCHHHHHHHHHHHHHhCcCCCCCCceEEEEEecCceecC
Q 030963 35 EDIWFHVDKMSSAHVYLRLHKGQTIDDISEGVLEDCAQLVKANSIQGNKVNNIDVVYTPWANLKKT 100 (168)
Q Consensus 35 ~DlWfHv~~~pGaHViLr~~~g~~~~~ip~~~l~~AA~Laa~~Sk~~~~~~~V~V~yt~~knv~K~ 100 (168)
+.+||.....| |+-+|.-+.+.+..+++.++.+-|.|+ ++..+.+++.|-+-.+++--
T Consensus 7 ~~~~~~~~~MP--hlr~rgi~~e~v~~lS~~Lid~La~i~------~~~~e~fTle~i~s~~i~~G 64 (122)
T 1u9d_A 7 ENLYFSSNAMP--HLRFRAVEAHIVESLVPTLLNELSSLL------STARNAFTFELINTQYFAEG 64 (122)
T ss_dssp TTTTBTTCCCC--EEEEESSCHHHHHHHHHHHHHHHHHHH------TCCGGGCEEEECCCCCCCTT
T ss_pred ceeeeccCCCc--eEEECCCCHHHHHHHhHHHHHHHHHHH------CCCcccEEEEEeeeEEEecC
Confidence 56778765555 999986443333456666777777777 26788999999998888443
No 3
>3o71_B Peptide of deleted in colorectal cancer; protein-peptide complex, kinase, DCC, transferase-protein BI complex; 1.95A {Rattus norvegicus}
Probab=29.94 E-value=18 Score=19.87 Aligned_cols=13 Identities=38% Similarity=0.882 Sum_probs=9.7
Q ss_pred cCCCceeeecccC
Q 030963 32 GFPEDIWFHVDKM 44 (168)
Q Consensus 32 a~~~DlWfHv~~~ 44 (168)
.+|-|+|.|-+.+
T Consensus 9 lkppdlwihhe~~ 21 (27)
T 3o71_B 9 LRPPDLWIHHEEM 21 (27)
T ss_pred CCCcceeeehhhh
Confidence 4678999997643
No 4
>1yd6_A UVRC; DNA binding protein; 2.00A {Bacillus caldotenax}
Probab=28.22 E-value=33 Score=24.05 Aligned_cols=31 Identities=19% Similarity=0.243 Sum_probs=22.8
Q ss_pred eEEEEecccCCCeEEEEeCChHHHHHHHHhcCCC
Q 030963 2 VFYFKARPEAGDYTIFMGLDKYENEELIKYGFPE 35 (168)
Q Consensus 2 v~~F~s~~~s~g~~I~vGRn~~eNe~L~k~a~~~ 35 (168)
||+|.. .+|-.||||+-..=-..+..|..+.
T Consensus 18 VY~~~d---~~g~vlYVGKAknLr~Rv~syf~~~ 48 (99)
T 1yd6_A 18 CYLMKD---KHGTVIYVGKAKSLKERVRSYFTGT 48 (99)
T ss_dssp EEEEEC---SSCCEEEEEEESCHHHHHHGGGSSC
T ss_pred EEEEEc---CCCCEEEEecCcCHHHHHHHHcccC
Confidence 788876 3688999999977666776665443
No 5
>2v4h_A NF-kappa-B essential modulator; transcription, metal-binding, NEMO - IKK gamma - NFKB pathwa darpin, transcription regulation; 2.9A {Mus musculus}
Probab=22.82 E-value=68 Score=23.30 Aligned_cols=31 Identities=26% Similarity=0.342 Sum_probs=19.8
Q ss_pred cccccccc-cHHHHHHHHHHHHHHHHHHHHhhhh
Q 030963 134 KTKVERKP-DLKAEREAANAAERAERKLQLRDKV 166 (168)
Q Consensus 134 kt~~e~~~-~~~~~~~~~~~~~~~~~~~~~~~~~ 166 (168)
+..++.+- ||.+||.+|.+...+ |.++++++
T Consensus 68 kaQv~IY~~DF~aERadREkl~~e--Ke~L~~ql 99 (110)
T 2v4h_A 68 KAQADIYKADFQAERHAREKLVEK--KEYLQEQL 99 (110)
T ss_dssp HHHHHHHHHHHHHHHHHHHHHHHH--HHHHHHHH
T ss_pred HHHHHHHHHHHccchhhHHHHHhH--HHHHHHHH
Confidence 44566554 899999999876443 34444443
No 6
>1yd0_A Uvrabc system protein C; DNA binding protein; 1.50A {Thermotoga maritima} PDB: 1ycz_A 1yd1_A 1yd4_A 1yd3_A 1yd2_A 1yd5_A
Probab=18.60 E-value=73 Score=22.11 Aligned_cols=29 Identities=31% Similarity=0.482 Sum_probs=20.9
Q ss_pred eEEEEecccCCCeEEEEeCChHHHHHHHHhcCC
Q 030963 2 VFYFKARPEAGDYTIFMGLDKYENEELIKYGFP 34 (168)
Q Consensus 2 v~~F~s~~~s~g~~I~vGRn~~eNe~L~k~a~~ 34 (168)
||+|.. +|-.||||+...=-..+..|..+
T Consensus 18 VY~~~d----~g~vlYVGKAknLr~Rv~syf~~ 46 (96)
T 1yd0_A 18 VYIFKN----KGVPIYIGKAKRLSNRLRSYLNP 46 (96)
T ss_dssp EEEEEE----TTEEEEEEEESSHHHHHHGGGSC
T ss_pred EEEEEC----CCeEEEEecCcCHHHHHHHHccC
Confidence 788875 58899999987655666555443
No 7
>3rfw_A Cell-binding factor 2; SURA-like, chaperone; 2.20A {Campylobacter jejuni}
Probab=18.43 E-value=3e+02 Score=21.07 Aligned_cols=81 Identities=10% Similarity=0.107 Sum_probs=41.0
Q ss_pred HHHHHHHHhCcCCCC-CCceEEEEEecCceec-----CCCCCcceEE---EcCceEEEEEeeecCcHHHHHHHhcccccc
Q 030963 69 DCAQLVKANSIQGNK-VNNIDVVYTPWANLKK-----TASMDVGQVG---FHNPKMVRTVKVEKRINEIVNRLNKTKVER 139 (168)
Q Consensus 69 ~AA~Laa~~Sk~~~~-~~~V~V~yt~~knv~K-----~~~~~~G~V~---~~~~k~v~~~~v~~~~~~~v~rL~kt~~e~ 139 (168)
+-+.||+.||..... ...-+.-|.....+-. ...+++|.|+ +....-..-+.|..+ +...
T Consensus 144 ~F~~lA~~~S~~~~~~~~gGdlg~~~~~~l~~~f~~a~~~l~~G~is~~pv~t~~G~hii~v~~~-----------~~~~ 212 (252)
T 3rfw_A 144 KFSELAKEKSIDPGSKNQGGELGWFDQSTMVKPFTDAAFALKNGTITTTPVKTNFGYHVILKENS-----------QAKG 212 (252)
T ss_dssp HHHHHHHHHCCCTTTGGGTTEEEEECSSSSCHHHHHHHHHSCTTEECSSCEEETTEEEEEEEEEE-----------ECCE
T ss_pred cHHHHHHHhCCCCchhhcCCcccccccccccHHHHHHHHcCCCCCccCceEEECCEEEEEEEEEe-----------cCCC
Confidence 456788999953111 1133555666665533 2236888886 333333332333322 2223
Q ss_pred cccHHHHHHHHHHHHHHHHHH
Q 030963 140 KPDLKAEREAANAAERAERKL 160 (168)
Q Consensus 140 ~~~~~~~~~~~~~~~~~~~~~ 160 (168)
.+.|++-|++-....+.++..
T Consensus 213 ~~~~e~vk~~I~~~L~~~k~~ 233 (252)
T 3rfw_A 213 QIKFDEVKQGIENGLKFEEFK 233 (252)
T ss_dssp ECCHHHHHHHHHHHHHHHHHH
T ss_pred CCCHHHHHHHHHHHHHHHHHH
Confidence 456666666655555544443
No 8
>3i2z_B RNA chaperone, negative regulator of CSPA transcription; beta barrel, DNA binding protein/transcription, cytoplasm, gene regulation; 1.10A {Salmonella typhimurium} SCOP: b.40.4.5 PDB: 2l15_A 1mjc_A 3mef_A
Probab=17.69 E-value=2.1e+02 Score=18.33 Aligned_cols=32 Identities=16% Similarity=0.374 Sum_probs=20.5
Q ss_pred eEEEEecccCCCeEEEEeCChHHHHHHHHhcCCCceeeecccCCcc
Q 030963 2 VFYFKARPEAGDYTIFMGLDKYENEELIKYGFPEDIWFHVDKMSSA 47 (168)
Q Consensus 2 v~~F~s~~~s~g~~I~vGRn~~eNe~L~k~a~~~DlWfHv~~~pGa 47 (168)
|-||.. ..||=.+..-+ ..+|++||...+.+.
T Consensus 10 Vk~fn~---~kGfGFI~~~~-----------g~~dvFvH~s~i~~~ 41 (71)
T 3i2z_B 10 VKWFNE---SKGFGFITPED-----------GSKDVFVHFSAIQTN 41 (71)
T ss_dssp EEEEET---TTTEEEEEETT-----------CCCCEEEEGGGBCCS
T ss_pred EEEEEC---CCCcEEEecCC-----------CCccEEEEhHHcccc
Confidence 446665 35665544322 357999999988764
No 9
>1yj7_A ESCJ; mixed alpha/beta, extended linker, protein transport; 1.80A {Escherichia coli}
Probab=17.33 E-value=2.1e+02 Score=21.63 Aligned_cols=47 Identities=26% Similarity=0.246 Sum_probs=31.4
Q ss_pred cCCccEEEEEeCCCCCCCCCCHHHHHHHHHHHHHhCcCCCCCCceEEEEEec
Q 030963 43 KMSSAHVYLRLHKGQTIDDISEGVLEDCAQLVKANSIQGNKVNNIDVVYTPW 94 (168)
Q Consensus 43 ~~pGaHViLr~~~g~~~~~ip~~~l~~AA~Laa~~Sk~~~~~~~V~V~yt~~ 94 (168)
.-|+|-|+|+..+|. +++++.. +-.-..+.|..|-..++|+|+=.++
T Consensus 120 ~~~sASV~l~~~~g~---~l~~~q~--~I~~LVa~SV~gL~~enVtVvdq~~ 166 (171)
T 1yj7_A 120 QPSSAAVLVISSPEV---NLAPSVI--QIKNLVKNSVDDLKLENISVVIKSS 166 (171)
T ss_dssp --CEEEEEEEECTTC---CCGGGHH--HHHHHHHHHSTTCCGGGEEEEEEEC
T ss_pred CCceEEEEEEeCCCC---CCcHhHH--HHHHHHHHhcCCCCcccEEEEeCCC
Confidence 457889999998876 5666543 3444445676777788898876554
No 10
>4e2i_2 DNA polymerase alpha subunit B; replication initiation, hydrolase-DNA binding complex, hydro binding protein complex; HET: DNA; 5.00A {Homo sapiens}
Probab=15.24 E-value=94 Score=21.16 Aligned_cols=20 Identities=20% Similarity=0.282 Sum_probs=17.9
Q ss_pred CCCHHHHHHHHHHHHHhCcC
Q 030963 61 DISEGVLEDCAQLVKANSIQ 80 (168)
Q Consensus 61 ~ip~~~l~~AA~Laa~~Sk~ 80 (168)
++++++++.+..||..|++.
T Consensus 18 ~c~d~v~eKl~ElC~~y~~~ 37 (78)
T 4e2i_2 18 DCEEALIEKLVELCVQYGQN 37 (78)
T ss_dssp CCCHHHHHHHHTHHHHSCCC
T ss_pred CCcHHHHHHHHHHHHHcCCC
Confidence 57889999999999999964
Done!