Query psy1958
Match_columns 202
No_of_seqs 195 out of 1103
Neff 6.5
Searched_HMMs 29240
Date Fri Aug 16 20:38:24 2013
Command hhsearch -i /work/01045/syshi/Psyhhblits/psy1958.a3m -d /work/01045/syshi/HHdatabase/pdb70.hhm -o /work/01045/syshi/hhsearch_pdb/1958hhsearch_pdb -cpu 12 -v 0
No Hit Prob E-value P-value Score SS Cols Query HMM Template HMM
1 3rbn_A DNA mismatch repair pro 99.9 3.3E-25 1.1E-29 191.3 9.4 88 114-201 26-113 (284)
2 3kdg_A DNA mismatch repair pro 99.0 4.9E-10 1.7E-14 91.8 7.5 57 145-201 5-63 (197)
3 3ncv_A DNA mismatch repair pro 98.9 2.7E-09 9.3E-14 89.0 7.1 59 143-201 24-85 (220)
4 1x9z_A DNA mismatch repair pro 98.7 2.1E-08 7.2E-13 81.3 6.2 56 145-201 5-61 (188)
5 2ivw_A PILP pilot protein; lip 39.0 43 0.0015 24.5 4.6 27 146-172 24-53 (113)
6 2lc4_A PILP protein; type IV p 29.6 66 0.0022 23.4 4.2 28 146-173 28-58 (111)
7 2y4x_A PILP protein; biosynthe 28.5 71 0.0024 22.4 4.1 28 146-173 21-51 (93)
8 3hfo_A SSR3341 protein; HFQ, S 19.2 99 0.0034 20.6 3.1 55 121-176 5-63 (70)
9 3hfn_A ASL2047 protein; HFQ, S 18.6 58 0.002 21.9 1.9 55 121-176 7-65 (72)
10 4av2_M PILP protein, type IV p 15.2 2E+02 0.0068 22.4 4.6 33 141-173 86-122 (181)
No 1
>3rbn_A DNA mismatch repair protein MLH1; structural genomics, structural genomics consortium, SGC, DN mismatch repair, endonucleases, protein binding; HET: DNA; 2.16A {Homo sapiens}
Probab=99.92 E-value=3.3e-25 Score=191.26 Aligned_cols=88 Identities=45% Similarity=0.720 Sum_probs=84.2
Q ss_pred cccccceeeecchHHHHHHHHHHhcChhHHHhccCcEEEEEEcCcEEEEEeCCeEEEEehHHHHHHHHHHHHHHHcCCCc
Q psy1958 114 NKKYKRREIKLSSVRDLRGEIEKQKSSQLCEVFRKLSFVGCATPCMCLIQHETKLYIVNVTYVLEELFYQLMLHDFGNFG 193 (202)
Q Consensus 114 ~~~~~~~~~~ltSv~~L~~ei~~~~~~~l~~~~~~~~~VG~v~~~y~LiQ~~~~LyLvd~~~~~ee~~YQ~~l~~fgn~~ 193 (202)
...++++.++||||++||++|++++|.+|+++|++|+|||+||++++|+||+++|||||+.++++|+|||+++.+|||||
T Consensus 26 ~~~~~~r~~~LtSV~~Lr~ev~~~~h~~Ltei~~~~tfVG~VD~~~aLiQ~~tkLYLvd~~~l~~ElFYQ~~L~~FgNfg 105 (284)
T 3rbn_A 26 ACTPRRRIINLTSVLSLQEEINEQGHEVLREMLHNHSFVGCVNPQWALAQHQTKLYLLNTTKLSEELFYQILIYDFANFG 105 (284)
T ss_dssp TSCBCCSCCCCHHHHHHHHHHHHHBCHHHHHHHHTCEEEEESSSSEEEEEETTEEEEEEHHHHHHHHHHHHHHHSTTCCE
T ss_pred cCCCceeEEechhHHHHHHHHHHhcCHHHHHHHHhCeEEEEECCCeeEEEeCCeEEEecHHHHHHHHHHHHHHHHhcCCC
Confidence 34567788999999999999999999999999999999999999999999999999999999999999999999999999
Q ss_pred eeeecCCC
Q psy1958 194 VFRFEGSF 201 (202)
Q Consensus 194 ~~~l~~p~ 201 (202)
.|+|++|+
T Consensus 106 ~i~L~~P~ 113 (284)
T 3rbn_A 106 VLRLSEPA 113 (284)
T ss_dssp EEEEEEEE
T ss_pred eEeeCCCC
Confidence 99999885
No 2
>3kdg_A DNA mismatch repair protein MUTL; endonuclease, DNA damage, DNA repair, hydrolase; HET: DNA; 2.00A {Bacillus subtilis} PDB: 3gab_A* 3kdk_A*
Probab=99.02 E-value=4.9e-10 Score=91.77 Aligned_cols=57 Identities=19% Similarity=0.214 Sum_probs=51.1
Q ss_pred hccCcEEEEEEcCcEEEEEeCCeEEEEehHHHHHHHHHHHHHHHcC--CCceeeecCCC
Q psy1958 145 VFRKLSFVGCATPCMCLIQHETKLYIVNVTYVLEELFYQLMLHDFG--NFGVFRFEGSF 201 (202)
Q Consensus 145 ~~~~~~~VG~v~~~y~LiQ~~~~LyLvd~~~~~ee~~YQ~~l~~fg--n~~~~~l~~p~ 201 (202)
.++.+.++||++++|+|+|.+++|||||+|+||||+.|++++.+|+ ...++.|..|+
T Consensus 5 ~~~~~~~igQ~~~~yIl~~~~~~L~lIDQHAAhERi~yE~l~~~~~~~~~~sQ~LL~P~ 63 (197)
T 3kdg_A 5 RVPIMYPIGQMHGTYILAQNENGLYIIDQHAAQERIKYEYFREKVGEVEPEVQEMIVPL 63 (197)
T ss_dssp CCCCCEEEEEETTTEEEEEETTEEEEEEHHHHHHHHHHHHHHHHHHCSSCCEEEEEEEE
T ss_pred cCCCCeEEEEEcCEEEEEEeCCCEEEEEHHHHHHHHHHHHHHHHHccCCCCccccCCCE
Confidence 4788999999999999999999999999999999999999999985 45677776664
No 3
>3ncv_A DNA mismatch repair protein MUTL; endonuclease, dimer, hydrolase; HET: DNA; 2.40A {Neisseria gonorrhoeae}
Probab=98.88 E-value=2.7e-09 Score=89.01 Aligned_cols=59 Identities=15% Similarity=0.055 Sum_probs=51.7
Q ss_pred HHhccCcEEEEEEcCcEEEEEeCCeEEEEehHHHHHHHHHHHHHHHcC---CCceeeecCCC
Q psy1958 143 CEVFRKLSFVGCATPCMCLIQHETKLYIVNVTYVLEELFYQLMLHDFG---NFGVFRFEGSF 201 (202)
Q Consensus 143 ~~~~~~~~~VG~v~~~y~LiQ~~~~LyLvd~~~~~ee~~YQ~~l~~fg---n~~~~~l~~p~ 201 (202)
.+.++...++||++++|+|+|.+++|||||+|+||||+.|++++.++. ...++.|..|+
T Consensus 24 ~~~~p~g~vigQv~~~YIL~e~~~gL~lIDQHAAhERi~yE~l~~~~~~~~~~~sQ~LL~P~ 85 (220)
T 3ncv_A 24 SELPPLGFAIAQLLGIYILAQAEDSLLLIDMHAAAERVNYEKMKRQRQENGNLQSQHLLIPV 85 (220)
T ss_dssp -CCCTTCEEEEEETTTEEEEEETTEEEEEEHHHHHHHHHHHHHHHHHHHHSSCCEEEEEEEE
T ss_pred cCCCCCceeeeeEcCEEEEEEeCCCEEEEEHHHHHHHHHHHHHHHHHhccCCccceeeCCCe
Confidence 345688999999999999999999999999999999999999999885 46778777664
No 4
>1x9z_A DNA mismatch repair protein MUTL; alpha-beta fold, dimer, replication, signaling protein; HET: DNA MSE; 2.10A {Escherichia coli} SCOP: d.292.1.1
Probab=98.69 E-value=2.1e-08 Score=81.32 Aligned_cols=56 Identities=7% Similarity=-0.018 Sum_probs=47.7
Q ss_pred hccCcEEEEEEcCcEEEEEeCCeEEEEehHHHHHHHHHHHHHHHc-CCCceeeecCCC
Q psy1958 145 VFRKLSFVGCATPCMCLIQHETKLYIVNVTYVLEELFYQLMLHDF-GNFGVFRFEGSF 201 (202)
Q Consensus 145 ~~~~~~~VG~v~~~y~LiQ~~~~LyLvd~~~~~ee~~YQ~~l~~f-gn~~~~~l~~p~ 201 (202)
..+...++||++++|+|+|.+++|||||+|+| ||+.|++++... +....+.|..|+
T Consensus 5 ~~~~~~vlgQ~~~~yIl~~~~~~L~lIDQHAA-ERi~yE~l~~~~~~~~~~Q~LL~P~ 61 (188)
T 1x9z_A 5 SQSFGRVLTIVHSDCALLERDGNISLLSLPVA-ERWLRQAQLTPGEAPVCAQPLLIPL 61 (188)
T ss_dssp -CCCCEEEEEETTTEEEEEETTEEEEEEHHHH-HHHHHHHHHSBTTBCCCEEEEEEEE
T ss_pred cCCCceeeeeecCEEEEEEeCCCEEEEeHHHH-HHHHHHHHHHhcCCCCCcccCCCCE
Confidence 35778999999999999999999999999999 999999999872 246677776664
No 5
>2ivw_A PILP pilot protein; lipoprotein, pilus biogenesis, secretin; NMR {Neisseria meningitidis}
Probab=39.00 E-value=43 Score=24.46 Aligned_cols=27 Identities=22% Similarity=0.443 Sum_probs=22.8
Q ss_pred ccCcEEEEEEcC---cEEEEEeCCeEEEEe
Q psy1958 146 FRKLSFVGCATP---CMCLIQHETKLYIVN 172 (202)
Q Consensus 146 ~~~~~~VG~v~~---~y~LiQ~~~~LyLvd 172 (202)
|..+.+||.+.. .|+|+|.+..+|-|-
T Consensus 24 Ld~LkmvGtl~~~~~~~ALV~~dG~vyrVk 53 (113)
T 2ivw_A 24 LENMRYVGILKSGQKVSGFIEAEGYVYTVG 53 (113)
T ss_dssp TTTEEEEEEEECSSSEEEEEEETTEEEEEC
T ss_pred hhheEEEEEEccCCeEEEEEEeCCcEEEEc
Confidence 578999999874 399999988899875
No 6
>2lc4_A PILP protein; type IV pilus, structural protein; NMR {Pseudomonas aeruginosa}
Probab=29.58 E-value=66 Score=23.40 Aligned_cols=28 Identities=18% Similarity=0.300 Sum_probs=23.0
Q ss_pred ccCcEEEEEEcC---cEEEEEeCCeEEEEeh
Q psy1958 146 FRKLSFVGCATP---CMCLIQHETKLYIVNV 173 (202)
Q Consensus 146 ~~~~~~VG~v~~---~y~LiQ~~~~LyLvd~ 173 (202)
+..+++||.+.. .|+|++.+..+|-|-.
T Consensus 28 Ld~L~mvG~l~~~~~~~ALV~~dG~vyrVk~ 58 (111)
T 2lc4_A 28 IETFEMVGTLSNAQGTFALVKGAGGVHRVRV 58 (111)
T ss_dssp SSSCEEEEEEEETTEEEEEEEETTEEEEEET
T ss_pred hhheEEEEEEccCCeEEEEEEeCCcEEEEcc
Confidence 578899999864 3999998888998864
No 7
>2y4x_A PILP protein; biosynthetic protein; 1.70A {Pseudomonas aeruginosa PAO1} PDB: 2y4y_A
Probab=28.46 E-value=71 Score=22.35 Aligned_cols=28 Identities=18% Similarity=0.300 Sum_probs=22.8
Q ss_pred ccCcEEEEEEcC---cEEEEEeCCeEEEEeh
Q psy1958 146 FRKLSFVGCATP---CMCLIQHETKLYIVNV 173 (202)
Q Consensus 146 ~~~~~~VG~v~~---~y~LiQ~~~~LyLvd~ 173 (202)
+..+++||.+.. .|+|++.+..+|-|-.
T Consensus 21 L~~L~mvG~l~~~~~~~ALV~~dg~v~~V~~ 51 (93)
T 2y4x_A 21 IETFEMVGTLSNAQGTFALVKGAGGVHRVRV 51 (93)
T ss_dssp GGGCEEEEEEEETTEEEEEEEETTEEEEECT
T ss_pred hhheEEEEEEccCCeEEEEEEeCCCEEEEcc
Confidence 578899999864 3999998888998753
No 8
>3hfo_A SSR3341 protein; HFQ, SM, RNA-binding protein, sRNA, translational regulation binding protein; 1.30A {Synechocystis SP}
Probab=19.21 E-value=99 Score=20.63 Aligned_cols=55 Identities=18% Similarity=0.196 Sum_probs=36.3
Q ss_pred eeecchHHHHHHHHHHhcChhHHHhccCcEEEEEEc---CcEEEEEe-CCeEEEEehHHH
Q psy1958 121 EIKLSSVRDLRGEIEKQKSSQLCEVFRKLSFVGCAT---PCMCLIQH-ETKLYIVNVTYV 176 (202)
Q Consensus 121 ~~~ltSv~~L~~ei~~~~~~~l~~~~~~~~~VG~v~---~~y~LiQ~-~~~LyLvd~~~~ 176 (202)
...|.||+.+++-+++.....+ .+..+-.+.|.+. +.++++.. ++.=.||.-+|+
T Consensus 5 dt~lPsvR~lQ~~ik~k~~V~I-~L~tG~~l~G~i~WQD~~cl~L~~~~~~~~LI~r~AI 63 (70)
T 3hfo_A 5 DSGLPSVRQVQLLIKDQTPVEI-KLLTGDSLFGTIRWQDTDGLGLVDDSERSTIVRLAAI 63 (70)
T ss_dssp CCSCHHHHHHHHHHHHTCEEEE-EETTSCEEEEEEEEECSSEEEEECTTCCEEEEEGGGE
T ss_pred cCCCCcHHHHHHHHhhCceEEE-EecCCCEEEEEEEEeCCCEEEEEcCCCCeEEEEeeee
Confidence 3578999999999987665443 3667888999875 33444443 344456665553
No 9
>3hfn_A ASL2047 protein; HFQ, SM, RNA-binding protein, sRNA, translational regulation binding protein; 2.31A {Nostoc SP}
Probab=18.60 E-value=58 Score=21.91 Aligned_cols=55 Identities=15% Similarity=0.258 Sum_probs=33.4
Q ss_pred eeecchHHHHHHHHHHhcChhHHHhccCcEEEEEEc---CcEEEEE-eCCeEEEEehHHH
Q psy1958 121 EIKLSSVRDLRGEIEKQKSSQLCEVFRKLSFVGCAT---PCMCLIQ-HETKLYIVNVTYV 176 (202)
Q Consensus 121 ~~~ltSv~~L~~ei~~~~~~~l~~~~~~~~~VG~v~---~~y~LiQ-~~~~LyLvd~~~~ 176 (202)
...|.||+.+++-|+++....+ .+..+-.+.|.+. +.++++. .++.-.||.-+++
T Consensus 7 dt~lPsvR~lQ~~Ik~k~~V~I-~L~tGd~l~G~i~WQD~~cl~L~~~~~~~~LI~R~AI 65 (72)
T 3hfn_A 7 DTSLPSIRQLQNLIKQAAPVEI-KLVTGDAITGRVLWQDPTCVCIADENSRQTTIWKQAI 65 (72)
T ss_dssp --CHHHHHHHHHHHSSCCEEEE-EETTSCEEEEEEEEECSSEEEEEC---CEEEEEGGGE
T ss_pred CCCCCcHHHHHHHHhhCceEEE-EecCCCEEEEEEEEECCCEEEEEcCCCCeEEEEeeee
Confidence 4679999999999876554333 3567888899875 3333333 3355566665553
No 10
>4av2_M PILP protein, type IV pilus biogenesis and competence protein P; protein transport, outer membrane protein; 26.00A {Neisseria meningitidis MC58}
Probab=15.23 E-value=2e+02 Score=22.40 Aligned_cols=33 Identities=24% Similarity=0.420 Sum_probs=25.2
Q ss_pred hHHHh-ccCcEEEEEEcC---cEEEEEeCCeEEEEeh
Q psy1958 141 QLCEV-FRKLSFVGCATP---CMCLIQHETKLYIVNV 173 (202)
Q Consensus 141 ~l~~~-~~~~~~VG~v~~---~y~LiQ~~~~LyLvd~ 173 (202)
.|..+ +..+.+||.+.. .|+|++-+..+|-|-.
T Consensus 86 pLE~y~Ld~L~mvG~l~~~~~~~alv~~dg~v~~V~~ 122 (181)
T 4av2_M 86 TLEKFSLENMRYVGILKSGQKVSGFIEAEGYVYTVGV 122 (181)
T ss_dssp GGGGSCSTTEEEEEEECSSSCCEEEEEETTEEEEECS
T ss_pred ccccCchhheEEEEEEEeCCEEEEEEecCCCEEEEcc
Confidence 34333 678999999974 3899999999998753
Done!