Query 007016
Match_columns 621
No_of_seqs 170 out of 230
Neff 5.7
Searched_HMMs 29240
Date Mon Mar 25 14:58:15 2013
Command hhsearch -i /work/01045/syshi/csienesis_hhblits_a3m/007016.a3m -d /work/01045/syshi/HHdatabase/pdb70.hhm -o /work/01045/syshi/hhsearch_pdb/007016hhsearch_pdb -cpu 12 -v 0
No Hit Prob E-value P-value Score SS Cols Query HMM Template HMM
1 3tw8_A DENN domain-containing 99.9 3.8E-24 1.3E-28 230.1 22.0 242 26-355 14-257 (391)
2 3v42_A Folliculin; tumor suppr 24.4 92 0.0031 30.8 5.5 38 271-308 19-56 (226)
3 2afr_A Cobalamin biosynthesis 14.0 1.1E+02 0.0039 30.2 3.4 32 273-308 123-154 (231)
4 4aqn_A Pesticin; toxin, bacter 13.8 3.2E+02 0.011 28.5 6.8 54 509-564 291-351 (357)
5 4dnn_A Protein quaking, MQKI, 11.2 33 0.0011 26.7 -1.1 30 575-604 8-41 (56)
6 3k6c_A Uncharacterized protein 10.0 50 0.0017 28.4 -0.5 44 570-614 45-92 (95)
7 3q9d_A Protein CPN_0803/CP_106 8.4 96 0.0033 28.7 0.6 12 466-477 207-218 (220)
8 3hh0_A Transcriptional regulat 8.2 8.1E+02 0.028 21.7 6.9 88 501-600 37-134 (146)
9 2hzs_I RNA polymerase II media 8.1 1.8E+02 0.006 18.8 1.6 13 504-516 4-16 (27)
10 1f2v_A COBH, precorrin-8X meth 7.8 3.8E+02 0.013 26.2 4.7 22 283-308 138-159 (219)
No 1
>3tw8_A DENN domain-containing protein 1B; longin domain, RAB GTPase, guanine exchange factor; 2.10A {Homo sapiens}
Probab=99.92 E-value=3.8e-24 Score=230.14 Aligned_cols=242 Identities=16% Similarity=0.210 Sum_probs=179.3
Q ss_pred heeEEEEEee--CCCCceeeeeCCCCCCChhhhhhcccccCCCCccccCCCCccceeEEEEEeecCCCCCCCCCCCCccc
Q 007016 26 VVAFCTIRFD--LEQGQLIEDCYPPGCLTQDEELEVAYSSFPDSVSQHQNRSSIHDCIFFFRFQRHKNLPQGNVTPSEIT 103 (621)
Q Consensus 26 v~~icvV~FD--le~Gq~vE~~YP~~~ls~~Ek~~Ia~laFPDs~~~~~n~~~~~Dt~F~Frir~~~~~~~~~~~~~~~~ 103 (621)
..|+|+|.=- .+.+|.|.+.||++.-.++--+.|...+|||+..... .......|+|-+.+.
T Consensus 14 f~~~~~v~~p~~~~~~p~i~~~fP~~~~d~~~l~~ip~FCfP~~~~~~~--~~~~~~~fsFVLTd~-------------- 77 (391)
T 3tw8_A 14 FDLVLKVKCHASENEDPVVLWKFPEDFGDQEILQSVPKFCFPFDVERVS--QNQVGQHFTFVLTDI-------------- 77 (391)
T ss_dssp CSEEEEEEC-----CCCEEEEEESTTCCCHHHHHHHHHHHSCSCHHHHG--GGCCSEEEEEEEECT--------------
T ss_pred EEEEEEEeCCCCCCCCCeeeEeCCCCcccchhhhccccccCCCccccCc--cCCCCceEEEEEecC--------------
Confidence 3456666553 4567999999999764444456799999999975321 122357888887653
Q ss_pred ccccccCcchhHHHHHhhhccCCCCCCCCceEEEEEEEeeecCCCccCcceeeEEEEEecCCchhhHHHHHHHhcccccc
Q 007016 104 EINDKITSSELTEEKLLKRSKSFSSSKGSRYFYGYVFNRQRHDERLKRGGEQKSLVILSHGPFSSVFRPLLQIMGPLYFD 183 (621)
Q Consensus 104 ~~~~~~~ss~~~~~~~~~~~~~~~~~~~~~~lYG~v~fRQ~kD~sv~RGy~QKSiVIlS~lPy~~lf~~lL~~v~p~yF~ 183 (621)
+....|||+.- +. +.||++|||||+||+++|+.+|..+.+.+++
T Consensus 78 ---------------------------dG~r~yg~Cr~----~~-----~~~k~icilS~lp~f~~F~k~L~~l~~~~~~ 121 (391)
T 3tw8_A 78 ---------------------------ESKQRFGFCRL----TS-----GGTICLCILSYLPWFEVYYKLLNTLADYLAK 121 (391)
T ss_dssp ---------------------------TSCEEEEEEEE----CT-----TSSEEEEEEESSCCHHHHHHHHHHHHHHHHT
T ss_pred ---------------------------CCCEEEEEEEc----cC-----CCceEEEEEeCChHHHHHHHHHHHHHHHHhc
Confidence 24678998862 22 3589999999999999999999999999999
Q ss_pred ccHHHHHHHHHHhccCCCCCCCCceeecccceEEEEeCCCCCCCCCccCCcccccccccCCCCCCCCCCCCccccccchh
Q 007016 184 VGKKAIEHIASYVSIWPSPVPGKLMELPIGNAMLKVNLPPAHSLPLESGMLSEESAASVAPFLPYNQSIPQGLFHDSDLF 263 (621)
Q Consensus 184 ~g~~~LE~a~~~I~~WP~p~pg~~l~Lp~lg~vl~v~iP~~~~~p~~~~~~~~~~~~~~~p~~~~~~~~P~~~~~~~~lf 263 (621)
.+...||+++++|.+||-|.||++++++..+. ++ .|....+| . .| ...+..+||
T Consensus 122 ~~~~~le~~~~~l~~~P~P~pG~~v~l~~~~~-~~--~P~~~~Lp----------------~------~~-~~~~~~~Lf 175 (391)
T 3tw8_A 122 ELENDLNETLRSLYNHPVPKANTPVNLSVHSY-FI--APDVTGLP----------------T------IP-ESRNLTEYF 175 (391)
T ss_dssp TCHHHHHHHHHHHHHSCCCCSCC-------------------CCC----------------C------BT-TSHHHHHHH
T ss_pred CCchHHHHHHHHHhhCCCCCCCCeEEEeccce-ee--CCCCCCCC----------------C------CC-CCCCHHHHH
Confidence 88889999999999999999999988877542 21 23211111 0 01 113344566
Q ss_pred hhhHhhhHHHHHHHHHHHhCCcEEEECCChhHHHHHHHHHHHhccCCCcCCCccccccccCccchhhhccCCCCCCCCeE
Q 007016 264 GTFRGLLLQLWVLWELLLIGEPILVIAPTPPQCCEAVASLVSLIAPLLCSIDFRPYFTIHDPQFAHLNSLQEGDTFPPMV 343 (621)
Q Consensus 264 ~~f~~~l~~L~~LWEllLl~epIlVia~sP~~~S~aV~aL~SLI~PL~y~gd~RPYfTIhD~~F~~~~~~~~~~~~p~~I 343 (621)
+++. +.++..||+++|++++|||++.+++.+|.+|.|+++||.|+.|.+.|+|+++.|..|| . .+|.|+|
T Consensus 176 ~~L~--~~~il~l~~~~LlE~rIl~~S~~~~~Ls~~~~al~~Ll~Pf~w~~~~IPvLP~~l~d~---l-----~aP~Pfi 245 (391)
T 3tw8_A 176 VAVD--VNNMLQLYASMLHERRIVIISSKLSTLTACIHGSAALLYPMYWQHIYIPVLPPHLLDY---C-----CAPMPYL 245 (391)
T ss_dssp HHSC--HHHHHHHHHHHTTTCEEEEEESCHHHHHHHHHHHHHTTTTSCCCSEEESSCCGGGGGG---G-----GCSSCEE
T ss_pred HhCC--HHHHHHHHHHHHhcCCEEEEeCCHHHHHHHHHHHHHHhcCcccCcceEeecCHHHHhH---h-----cCCCCEE
Confidence 6663 5999999999999999999999999999999999999999999999999999998776 3 3789999
Q ss_pred EecchHHHHHhh
Q 007016 344 LGVTNLFFLKAL 355 (621)
Q Consensus 344 lGVTNPfF~k~~ 355 (621)
+||++.++.+..
T Consensus 246 iGv~~~~~~~~~ 257 (391)
T 3tw8_A 246 IGIHSSLIERVK 257 (391)
T ss_dssp EEEETTTHHHHH
T ss_pred EEecchhHHHhh
Confidence 999999987654
No 2
>3v42_A Folliculin; tumor suppressor, protein binding; 2.00A {Homo sapiens}
Probab=24.37 E-value=92 Score=30.75 Aligned_cols=38 Identities=13% Similarity=0.140 Sum_probs=31.3
Q ss_pred HHHHHHHHHHHhCCcEEEECCChhHHHHHHHHHHHhcc
Q 007016 271 LQLWVLWELLLIGEPILVIAPTPPQCCEAVASLVSLIA 308 (621)
Q Consensus 271 ~~L~~LWEllLl~epIlVia~sP~~~S~aV~aL~SLI~ 308 (621)
.....|-=.+|+|--|+|-|+++..|..+..+|.+|+.
T Consensus 19 ~~F~~l~~~vl~GnQiIVrg~~~~~~~s~~~~L~~lLP 56 (226)
T 3v42_A 19 PSFRMLAWHVLMGNQVIWKSRDVDLVQSAFEVLRTMLP 56 (226)
T ss_dssp HHHHHHHHHHHHTCEEEEECSCHHHHHHHHHHHGGGSC
T ss_pred HHHHHHHHHHhcCCEEEEEcCCHHHHHHHHHHHHHhCC
Confidence 44556666788999999999999999999888877774
No 3
>2afr_A Cobalamin biosynthesis precorrin isomerase; 2.30A {Leptospira interrogans} PDB: 2afv_A*
Probab=13.98 E-value=1.1e+02 Score=30.24 Aligned_cols=32 Identities=25% Similarity=0.367 Sum_probs=21.4
Q ss_pred HHHHHHHHHhCCcEEEECCChhHHHHHHHHHHHhcc
Q 007016 273 LWVLWELLLIGEPILVIAPTPPQCCEAVASLVSLIA 308 (621)
Q Consensus 273 L~~LWEllLl~epIlVia~sP~~~S~aV~aL~SLI~ 308 (621)
+...|+.+++...|+++|+-|+- .+.|+.||.
T Consensus 123 ~~~a~~~l~l~~aIvaIGNAPTA----L~~Lleli~ 154 (231)
T 2afr_A 123 IQKANSFNLLNESIIVIGNAPTA----LLEIEKLIR 154 (231)
T ss_dssp HHHHHHTTCSTTCEEEESSCHHH----HHHHHHHHH
T ss_pred HHHHHHHhcCCCcEEEEeCcHHH----HHHHHHHHH
Confidence 44555554446699999999974 455566664
No 4
>4aqn_A Pesticin; toxin, bacteriocin, colicin, three domains, muramidase; 1.98A {Yersinia pestis} PDB: 4epf_A 4arm_B 4arl_A 4arm_A 4arq_B 4arp_A 4arq_A
Probab=13.75 E-value=3.2e+02 Score=28.51 Aligned_cols=54 Identities=19% Similarity=0.252 Sum_probs=34.7
Q ss_pred hHHHHHHHH-hcCCC------ccccccccCCHHHHHHHHhcCCCChHHHHHHHHHHHHHHHHH
Q 007016 509 ANEFLSSLQ-ARGVG------KFLSKRMRSNWLDLYRRFLKGPNFMPWFQRRRAAAEQEQHRL 564 (621)
Q Consensus 509 ~~~FL~sL~-~~g~~------~~l~~~~k~~w~~LYrrF~~spnF~~Wl~~r~~~~~~~~~~l 564 (621)
++.-|.++- +.|.+ .+...-.++||.++++..-.- +.++..||++|+.-.++.+
T Consensus 291 ~QTVLvSL~YQyGs~Lssk~PnFw~aV~k~DW~gA~~ELRnf--gd~Y~~RRn~EAdLLq~Gl 351 (357)
T 4aqn_A 291 TRTALVSIGYQKGFKLSRTAPTVWNKVIAKDWNGLVNAFNNI--VDGMSDRRKREGALVQKDI 351 (357)
T ss_dssp HHHHHHHHHHHHCSCHHHHSHHHHHHHHTTCHHHHHHHHHHC--CSSCHHHHHHHHHHHHHHH
T ss_pred HhhHhhhhhhhcCCCccccChHHHHHHHhccHHHHHHHHHHh--ccchhhHhHHHHHHHHhcc
Confidence 445555554 45652 222233579999998776655 6788888889987655543
No 5
>4dnn_A Protein quaking, MQKI, QKI; helix-turn-helix, hydrophobic homodimer interface, perpendic stacking of protomers, developmental protein, RNA-binding; HET: MSE; 2.10A {Mus musculus}
Probab=11.22 E-value=33 Score=26.66 Aligned_cols=30 Identities=33% Similarity=0.470 Sum_probs=20.1
Q ss_pred HHHhccCCceehh----hHHHHHHHHHHHHHHhc
Q 007016 575 QQLIAKMSELESV----DTFNAVERHLIQEIQEI 604 (621)
Q Consensus 575 ~~~~~~~~eve~v----d~~~~l~~~l~~e~~~~ 604 (621)
.+++++|..+... ++|+-+||+|.+||.-.
T Consensus 8 ~qLlkdkk~l~~~Pn~~~iF~H~eRLldEEI~rV 41 (56)
T 4dnn_A 8 MQLMNDKKLMSSLPNFSGIFNHLERLLDEEISRV 41 (56)
T ss_dssp HHHHHHHHHHHHCHHHHTTCSSHHHHHHHHHHHH
T ss_pred HHHHHHHHHHHhCCCchhHHHHHHHHHHHHHHHH
Confidence 3445555555443 35888999999998653
No 6
>3k6c_A Uncharacterized protein NE0167; structural genomics, MCSG, unknown function protein, PSI, PR structure initiative; 2.20A {Nitrosomonas europaea}
Probab=9.96 E-value=50 Score=28.40 Aligned_cols=44 Identities=16% Similarity=0.252 Sum_probs=27.5
Q ss_pred hhccHHHHhc--cCCceehhhHHHHHHHHHHHHHHhc--cEEEEeecch
Q 007016 570 MRTDIQQLIA--KMSELESVDTFNAVERHLIQEIQEI--QFVFTTFSTI 614 (621)
Q Consensus 570 ~~~d~~~~~~--~~~eve~vd~~~~l~~~l~~e~~~~--~~~~~~~~~~ 614 (621)
.+.++.+.+. .+.|.|=+-|++.+-|.+..|.... +..||+ +-|
T Consensus 45 ~d~~~k~vl~~i~~EEkeH~g~~lelLrr~Dp~~~~~l~~ylft~-~~i 92 (95)
T 3k6c_A 45 KDKELKAILAHNRDEEKEHAAMLLEWIRRCDPAFDKELKDYLFTN-KPI 92 (95)
T ss_dssp CCHHHHHHHHHHHHHHHHHHHHHHHHHHHTCHHHHHHHHHHTTCC-SCS
T ss_pred CCHHHHHHHHHHHHHHHHHHHHHHHHHHHhCHHHHHHHHHHhccc-CCC
Confidence 3334444443 2467888899999888877665554 566666 434
No 7
>3q9d_A Protein CPN_0803/CP_1068/CPJ0803/CPB0832; coiled-coil, needle TIP TYPEIII secretion system, unknown FU; 2.00A {Chlamydophila pneumoniae}
Probab=8.36 E-value=96 Score=28.71 Aligned_cols=12 Identities=50% Similarity=0.670 Sum_probs=10.7
Q ss_pred HHHHHHHHHHHH
Q 007016 466 ILRRHFLELTTN 477 (621)
Q Consensus 466 lLRRHF~eLT~~ 477 (621)
.||.||.|||.+
T Consensus 207 slk~hfeel~ks 218 (220)
T 3q9d_A 207 SLKNHFDELTKA 218 (220)
T ss_dssp HHHHHHHHHHHC
T ss_pred HHHHHHHHHHhh
Confidence 589999999986
No 8
>3hh0_A Transcriptional regulator, MERR family; protein structure initiative II(PSI II), NYSGXRC, 11183J, structural genomics; 2.67A {Bacillus cereus atcc 14579}
Probab=8.17 E-value=8.1e+02 Score=21.74 Aligned_cols=88 Identities=14% Similarity=0.197 Sum_probs=46.3
Q ss_pred CCCCCCCChHHH-----HHHHHhcCCCccccccccCCHHHHHHHHhcCCCCh-----HHHHHHHHHHHHHHHHHHHHHHh
Q 007016 501 PPTLPPFNANEF-----LSSLQARGVGKFLSKRMRSNWLDLYRRFLKGPNFM-----PWFQRRRAAAEQEQHRLWRQARM 570 (621)
Q Consensus 501 pp~l~pF~~~~F-----L~sL~~~g~~~~l~~~~k~~w~~LYrrF~~spnF~-----~Wl~~r~~~~~~~~~~l~~~a~~ 570 (621)
+...+-|+.++. +..|...|.+ | +=-++++...... .=++.+++++.+++.++....-.
T Consensus 37 ~~g~R~Y~~~dl~~l~~I~~lr~~G~s--l---------~~I~~~l~~~~~~~~~~~~~L~~q~~~L~~~i~~l~~~l~~ 105 (146)
T 3hh0_A 37 EGGHRLYTKDDLYVLQQIQSFKHLGFS--L---------GEIQNIILQRDIETEVFLRQMHFQREVLLAEQERIAKVLSH 105 (146)
T ss_dssp TTSCEEBCHHHHHHHHHHHHHHHTTCC--H---------HHHHHHHTSSEEEHHHHHHHHHHHHHHHHHHHHHHHHHHHH
T ss_pred CCCCEeeCHHHHHHHHHHHHHHHcCCC--H---------HHHHHHHHccCCCHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 345666777765 5566666753 2 1124445444321 12345566666666655543332
Q ss_pred hccHHHHhccCCceehhhHHHHHHHHHHHH
Q 007016 571 RTDIQQLIAKMSELESVDTFNAVERHLIQE 600 (621)
Q Consensus 571 ~~d~~~~~~~~~eve~vd~~~~l~~~l~~e 600 (621)
-..+...++...+++ ++.|.+|-+-+..|
T Consensus 106 l~~~i~~~~~~~~~~-~~~~~~Li~~~~~~ 134 (146)
T 3hh0_A 106 MDEMTKKFQKEERVN-VALFSSFLQTFIWE 134 (146)
T ss_dssp HHHHHHHHTTCSEEE-HHHHHHHHHHHHHH
T ss_pred HHHHHHHhhcccccc-hHHHHHHHHHHHHc
Confidence 223344455555554 77888876666554
No 9
>2hzs_I RNA polymerase II mediator complex subunit 8; beta barrel, channel, helix, transcription; 2.70A {Saccharomyces cerevisiae}
Probab=8.11 E-value=1.8e+02 Score=18.84 Aligned_cols=13 Identities=31% Similarity=0.534 Sum_probs=9.6
Q ss_pred CCCCChHHHHHHH
Q 007016 504 LPPFNANEFLSSL 516 (621)
Q Consensus 504 l~pF~~~~FL~sL 516 (621)
-+||+.+|-|+.-
T Consensus 4 skpfnvddvlkft 16 (27)
T 2hzs_I 4 SKPFNVDDVLKFT 16 (27)
T ss_dssp --CCCHHHHHHHH
T ss_pred CCCcChhheEEEE
Confidence 4799999998864
No 10
>1f2v_A COBH, precorrin-8X methylmutase; alpha-beta WIND, doubly wound sheet, isomerase; 2.10A {Pseudomonas denitrificans} SCOP: c.23.17.1 PDB: 1i1h_A*
Probab=7.82 E-value=3.8e+02 Score=26.21 Aligned_cols=22 Identities=14% Similarity=0.372 Sum_probs=16.0
Q ss_pred CCcEEEECCChhHHHHHHHHHHHhcc
Q 007016 283 GEPILVIAPTPPQCCEAVASLVSLIA 308 (621)
Q Consensus 283 ~epIlVia~sP~~~S~aV~aL~SLI~ 308 (621)
...|+++|+-|+- .+.|+.||.
T Consensus 138 ~~aIvaIGNAPTA----L~~Lleli~ 159 (219)
T 1f2v_A 138 AGSVVAIGNAPTA----LFFLLEMLR 159 (219)
T ss_dssp TTCEEEECSCHHH----HHHHHHHHH
T ss_pred CCcEEEEeCcHHH----HHHHHHHHH
Confidence 4489999999974 455566664
Done!