Query 010660
Match_columns 505
No_of_seqs 134 out of 153
Neff 4.9
Searched_HMMs 29240
Date Mon Mar 25 11:34:13 2013
Command hhsearch -i /work/01045/syshi/csienesis_hhblits_a3m/010660.a3m -d /work/01045/syshi/HHdatabase/pdb70.hhm -o /work/01045/syshi/hhsearch_pdb/010660hhsearch_pdb -cpu 12 -v 0
No Hit Prob E-value P-value Score SS Cols Query HMM Template HMM
1 3zcc_A HAMP, osmolarity sensor 54.8 49 0.0017 25.6 7.7 73 248-333 2-79 (114)
2 3sxu_A DNA polymerase III subu 34.0 33 0.0011 30.8 3.9 43 24-66 1-48 (150)
3 3zrx_A AF1503 protein, osmolar 33.8 1.6E+02 0.0054 22.5 7.8 73 248-333 2-79 (115)
4 3m91_B Prokaryotic ubiquitin-l 21.8 80 0.0027 23.2 3.3 28 343-370 7-34 (44)
5 2odv_A Plectin 1, HD1; plakin 19.1 6E+02 0.02 24.2 11.5 122 232-364 21-152 (235)
6 3r84_A Mediator of RNA polymer 18.2 4.1E+02 0.014 21.9 7.4 57 70-127 2-58 (86)
7 1deq_A Fibrinogen (alpha chain 16.7 4.6E+02 0.016 27.3 8.8 17 283-299 84-100 (390)
8 3lnr_A Aerotaxis transducer AE 16.5 5.7E+02 0.019 22.8 9.2 123 51-185 24-162 (175)
9 4gwp_A Mediator of RNA polymer 16.4 4.7E+02 0.016 22.8 7.5 59 69-128 4-62 (115)
10 3t46_A SCIN-D; secreted, virul 14.4 58 0.002 27.2 1.2 43 315-367 48-90 (91)
No 1
>3zcc_A HAMP, osmolarity sensor protein ENVZ; signaling protein, signal transduction, membrane protein, signalling, chimera; 1.25A {Archaeoglobus fulgidus} PDB: 3zrw_A 3zrv_A 3zrx_A 3zrw_B 2lfr_A 2lfs_A 1joy_A 2l7h_A 2l7i_A 2y20_A 2y21_A 2y0q_A 2y0t_A
Probab=54.83 E-value=49 Score=25.64 Aligned_cols=73 Identities=10% Similarity=0.277 Sum_probs=40.6
Q ss_pred HhHhhhHHhhHhhHHHHHHHhhhcCCC----ccc-hHHHhhchhHHHHHHHHHHhhccCCCCCCCcChhhHHHHHHHHHH
Q 010660 248 FFNDHVEQPLLSIRDELFETFRKRHKG----VME-VEEVQMTSNSLHRMLLAFSEQTKGQKLPENASDQEMLEIVMSRYE 322 (505)
Q Consensus 248 F~~nwV~~Pl~~Ir~el~~T~R~~~~~----ims-~~sL~sd~~SLeRMv~dF~~D~~~~~~~~~~~e~~~lt~Vm~~YE 322 (505)
++..++..|+..+.+.+ ..+..++.. .-. .+++..=.+++.+|......-. +....+...--
T Consensus 2 ~~~~~i~~pl~~l~~~~-~~i~~g~~~~~~~~~~~~dEi~~l~~~~n~m~~~l~~~~------------~~~~~~~~~~s 68 (114)
T 3zcc_A 2 SHMSTITRPIIELSNTA-DKIAEGNLEAEVPHQNRADEIGILAKSIERLRRSLKQLA------------DDGTLLMAGVS 68 (114)
T ss_dssp ---CTTHHHHHHHHHHH-HHHHTTCTTCCCTTTTCSSHHHHHHHHHHHHHHHHHHHH------------HHHHHHHHHHH
T ss_pred HHHHHHHHHHHHHHHHH-HHHhcCCCCCCCCCCCCchHHHHHHHHHHHHHHHHHHHH------------HHHHHHHHHhh
Confidence 34567889999876554 455554422 222 3444444555566655443211 11334667788
Q ss_pred HhhhchhHHhh
Q 010660 323 KELMHPIQNLV 333 (505)
Q Consensus 323 ~elk~Pikn~v 333 (505)
+|+|+|+.++.
T Consensus 69 hel~tpl~~i~ 79 (114)
T 3zcc_A 69 HDLRTPLTRIR 79 (114)
T ss_dssp HHHHHHHHHHH
T ss_pred HHHcChHHHHH
Confidence 89999987654
No 2
>3sxu_A DNA polymerase III subunit CHI; DNA replication, CHI binds to SSB and PSI, transferase; HET: DNA; 1.85A {Escherichia coli} SCOP: c.128.1.1 PDB: 1em8_A*
Probab=34.05 E-value=33 Score=30.81 Aligned_cols=43 Identities=21% Similarity=0.325 Sum_probs=32.0
Q ss_pred CCcccceeeEeeecCch-----hhHHhHHHHHHHHHhcCCcccccccc
Q 010660 24 GSNAQKAYFMMFERGPF-----AFINGTAQILRDCMAEGGSVQHLCQS 66 (505)
Q Consensus 24 ~~~~~~~~fm~~~rgp~-----af~~~~~~~~~~~~~~~~~~~~~~~s 66 (505)
|+++.++.|.++++.|- +...-+|+++++....|..+--.|++
T Consensus 1 ~~~M~~v~FY~L~~~~~~~~l~~~~~~aCrL~~ka~~~G~rv~V~~~d 48 (150)
T 3sxu_A 1 GSHMKNATFYLLDNDTTVDGLSAVEQLVCEIAAERWRSGKRVLIACED 48 (150)
T ss_dssp ----CEEEEEECSCCCCBTTBCHHHHHHHHHHHHHHHTTCCEEEECSS
T ss_pred CCCCCEEEEEEeCCCchhhhhhHHHHHHHHHHHHHHHcCCeEEEECCC
Confidence 68899999999999873 47778999999999999777444554
No 3
>3zrx_A AF1503 protein, osmolarity sensor protein ENVZ; signaling protein, osmoregulation, OMPR, OMPC; 1.25A {Archaeoglobus fulgidus} PDB: 3zrv_A 3zrw_A 3zrw_B 2lfs_A 2lfr_A 1joy_A 2l7i_A 2y20_A 2l7h_A 2y21_A 2y0t_A 2y0q_A
Probab=33.82 E-value=1.6e+02 Score=22.48 Aligned_cols=73 Identities=10% Similarity=0.299 Sum_probs=39.8
Q ss_pred HhHhhhHHhhHhhHHHHHHHhhhcCCC----cc-chHHHhhchhHHHHHHHHHHhhccCCCCCCCcChhhHHHHHHHHHH
Q 010660 248 FFNDHVEQPLLSIRDELFETFRKRHKG----VM-EVEEVQMTSNSLHRMLLAFSEQTKGQKLPENASDQEMLEIVMSRYE 322 (505)
Q Consensus 248 F~~nwV~~Pl~~Ir~el~~T~R~~~~~----im-s~~sL~sd~~SLeRMv~dF~~D~~~~~~~~~~~e~~~lt~Vm~~YE 322 (505)
|+..++..|+..+.+.+ ..+..++.. +- .++++..=..++.+|+..+..-. +....+...--
T Consensus 2 ~~~~~i~~pl~~l~~~~-~~i~~gdl~~~~~~~~~~dEi~~l~~~~n~m~~~l~~~~------------~~~~~~~~~~s 68 (115)
T 3zrx_A 2 SHMSTITRPIIELSNTF-DKIAEGNLEAEVPHQNRADEIGILAKSIERLRRSLKQLA------------DDRTLLMAGVS 68 (115)
T ss_dssp ---CTTHHHHHHHHHHH-HHHHTTCTTCCCTTTTCCSHHHHHHHHHHHHHHHHHHHH------------HHHHHHHHHHH
T ss_pred chHHHHHHHHHHHHHHH-HHHcCCCccccCCCCCCchHHHHHHHHHHHHHHHHHHHH------------HHHHHHHHHHH
Confidence 55678899999876543 455554422 22 34455555556666655543211 11233455667
Q ss_pred HhhhchhHHhh
Q 010660 323 KELMHPIQNLV 333 (505)
Q Consensus 323 ~elk~Pikn~v 333 (505)
+++++|+..+.
T Consensus 69 hel~~~l~~i~ 79 (115)
T 3zrx_A 69 HDLRTPLTRIR 79 (115)
T ss_dssp HHHHHHHHHHH
T ss_pred HHHHhhHHHHH
Confidence 88888877654
No 4
>3m91_B Prokaryotic ubiquitin-like protein PUP; coil COIL alpha helix, ATP-binding, chaperone, nucleotide-BI proteasome, S-nitrosylation; 1.80A {Mycobacterium tuberculosis}
Probab=21.81 E-value=80 Score=23.20 Aligned_cols=28 Identities=25% Similarity=0.420 Sum_probs=22.4
Q ss_pred HHHHHHhhhHHHHHHHHHHHHhhhhhhH
Q 010660 343 IQVQKLKLDIETAMLELDQILRANEINF 370 (505)
Q Consensus 343 IQVQK~KVD~e~Am~gIDkLLkSqeL~F 370 (505)
.|.|+..-|++.-+..||.+|..|---|
T Consensus 7 ~~~~~~~~~~D~lLDeId~vLE~NAeeF 34 (44)
T 3m91_B 7 ERREKLTEETDDLLDEIDDVLEENAEDF 34 (44)
T ss_dssp HHHHHHHHHHHHHHHHHHHHHHHTC---
T ss_pred HHHHhhhhhHHHHHHHHHHHHHHhHHHH
Confidence 4678888899999999999999997666
No 5
>2odv_A Plectin 1, HD1; plakin domain, spectrin repeat, cytoskeleton, hemidesmosomes epidermolysis bullosa, structural protein; 2.05A {Homo sapiens} PDB: 2odu_A
Probab=19.12 E-value=6e+02 Score=24.16 Aligned_cols=122 Identities=16% Similarity=0.192 Sum_probs=69.3
Q ss_pred hhHHHHHHHHHHHHH--HHhHhhhHHhhHhhHHHHHHHhhhcCCC--ccchHHHhhchhHHHHHHHHHHhhccCCCCCCC
Q 010660 232 SDLENWICEAKDSMV--GFFNDHVEQPLLSIRDELFETFRKRHKG--VMEVEEVQMTSNSLHRMLLAFSEQTKGQKLPEN 307 (505)
Q Consensus 232 ~~i~~wi~~~~etv~--~F~~nwV~~Pl~~Ir~el~~T~R~~~~~--ims~~sL~sd~~SLeRMv~dF~~D~~~~~~~~~ 307 (505)
+++..||+.....+. .|=.+. .-++....+ |.+||.+++. +..|..|+.-..+|+-.+.. ....+|+.
T Consensus 21 s~Ll~WI~~~~~~l~~r~f~~sl--~~vq~~l~~-f~~fr~~ekppk~~EK~~Le~ll~~lqtklr~-----~~~~ppeg 92 (235)
T 2odv_A 21 LLLLQWMRHHTAAFEERRFPSSF--EEIEILWSQ-FLKFKEMELPAKEADKNRSKGIYQSLEGAVQA-----GQLKVPPG 92 (235)
T ss_dssp HHHHHHHHHHHHHHHCC-CCSSH--HHHHHHHHH-HHHHHHHTHHHHHHHHHHHHHHHHHHHHHHHT-----TSSCCCTT
T ss_pred HHHHHHHHHHHHHHhcCCCCCCH--HHHHHHHHH-HHHHHhccCCHHHHHHHHHHHHHHHHHHHHHc-----CCCCCCCC
Confidence 578888887444332 332221 123433333 6778876543 67788888888888877763 12234444
Q ss_pred cChh------hHHHHHHHHHHHhhhchhHHhhhhhHHHHHHHHHHHHhhhHHHHHHHHHHHHh
Q 010660 308 ASDQ------EMLEIVMSRYEKELMHPIQNLVNGELARALLIQVQKLKLDIETAMLELDQILR 364 (505)
Q Consensus 308 ~~e~------~~lt~Vm~~YE~elk~Pikn~v~G~LvR~LLIQVQK~KVD~e~Am~gIDkLLk 364 (505)
.... +.|...+..+|+.|+.-|+-+ .-.-.|---+|+-=.+.+.-+++++..|+
T Consensus 93 ~~~~di~~~W~~Le~ae~eRe~aL~~el~Rl---erLe~La~kf~rka~~~e~~L~~~~~~L~ 152 (235)
T 2odv_A 93 YHPLDVEKEWGKLHVAILEREKQLRSEFERL---EALQRIVTKLQMEAGLAEEQLNQADALLQ 152 (235)
T ss_dssp CSHHHHHHHHHHHHHHHHHHHHHHHHHHHHH---HHHHHHHHHHHHHHHHHHHHHHHHHHHHH
T ss_pred CCHHHHHHHHHHHHHHHHHHHHHHHHHHHHH---HHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 4322 236667777777666554321 00001222345555778889999999993
No 6
>3r84_A Mediator of RNA polymerase II transcription subun; four-helix bundle, nucleus; HET: MSE; 2.05A {Saccharomyces cerevisiae}
Probab=18.20 E-value=4.1e+02 Score=21.93 Aligned_cols=57 Identities=19% Similarity=0.353 Sum_probs=38.0
Q ss_pred hhhhHHHHHHHHHHHHHHHHHHHHHHHhhhhhhcccCCCCchhHHHHHHHHHhhhhHH
Q 010660 70 HISERITVLTTLRSSLATFLAQVYMEVEKYGEELVEDPEKLLPFLLVTINDLFSKLEA 127 (505)
Q Consensus 70 ~i~~~~~~l~~~~~~la~~~~~v~~~~d~~~~~l~~~~~~sl~~~~~~~~~~~~~le~ 127 (505)
+|-||+..|+++-..+|+.|-..=.=++.+.+.- ..++..=+..-..+..+++.|+.
T Consensus 2 ~iqERL~sL~~ID~~i~sLL~~as~~i~tls~~k-~~~~~~K~~F~~~t~~fy~tL~~ 58 (86)
T 3r84_A 2 YIQERLKSLNDIETQLCSMLQEASQVTFIFGELK-RGNESVKPQFENHVKQFYERLDK 58 (86)
T ss_dssp HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH-TTCGGGHHHHHHHHHHHHHHHHH
T ss_pred cHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhccc-CCcHhHHHHHHHHHHHHHHHHHH
Confidence 5889999999999999998876555555554422 23344445555566666666664
No 7
>1deq_A Fibrinogen (alpha chain); coiled-coil, blood clotting; 3.50A {Bos taurus} SCOP: i.9.1.1
Probab=16.67 E-value=4.6e+02 Score=27.27 Aligned_cols=17 Identities=18% Similarity=0.294 Sum_probs=12.1
Q ss_pred hchhHHHHHHHHHHhhc
Q 010660 283 MTSNSLHRMLLAFSEQT 299 (505)
Q Consensus 283 sd~~SLeRMv~dF~~D~ 299 (505)
.+..++-+++.++.++.
T Consensus 84 ~~~~~y~~~~~~~lk~~ 100 (390)
T 1deq_A 84 KDSNTLTKNIVELMRGD 100 (390)
T ss_pred hHHHHHHHHHHHHHHHH
Confidence 45667777777777765
No 8
>3lnr_A Aerotaxis transducer AER2; HAMP domain, poly-HAMP domains, signaling protein; 2.64A {Pseudomonas aeruginosa}
Probab=16.51 E-value=5.7e+02 Score=22.81 Aligned_cols=123 Identities=12% Similarity=0.097 Sum_probs=71.3
Q ss_pred HHHHhcCCccccccccccchhhhHHHHHHHHHHHHHHHHHHH------HHHHhhhhhhcc-----cC-----CCCchhHH
Q 010660 51 RDCMAEGGSVQHLCQSASVHISERITVLTTLRSSLATFLAQV------YMEVEKYGEELV-----ED-----PEKLLPFL 114 (505)
Q Consensus 51 ~~~~~~~~~~~~~~~sas~~i~~~~~~l~~~~~~la~~~~~v------~~~~d~~~~~l~-----~~-----~~~sl~~~ 114 (505)
.+.+++|--++.+-....+-|..=...+..|+..|..++++| -.++..+.+... .. -.+....+
T Consensus 24 a~~IA~GDL~~~i~~~~~DEig~L~~al~~M~~~L~~~v~~i~~v~~l~~e~~~~a~~~~~Gdl~~R~d~~~~~G~~~~l 103 (175)
T 3lnr_A 24 LQSFADGQLDTAVGEAPAPGYERLYDSLRALQRQLREQRAELQQVESLEAGLAEMSRQHEAGWIDQTIPAERLEGRAARI 103 (175)
T ss_dssp HHHHHTTCCSSCCCCCSSGGGHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHTTCTTCCCCGGGCCTHHHHH
T ss_pred HHHHHCCCCCCCCcCCCCCchHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHCCCcccccCccccChHHHHH
Confidence 456778988877766667778778889999999999998877 334444432222 11 12345567
Q ss_pred HHHHHHHhhhhHHhhccccccccCCcCCCCCCCccccccCccccccCCCCcchhhHHHHHHHHHHhHHhHH
Q 010660 115 LVTINDLFSKLEASIGHLHATRQGDSSIDGSHSFPVLFEKLPEVNQEGSQWTDCEIKDSINLIYQNLQKLD 185 (505)
Q Consensus 115 ~~~~~~~~~~le~~~~~~~~~~~~~~~~d~~~~~~l~f~~lp~i~~~~s~~t~~~~~~~i~ll~~~l~~~~ 185 (505)
...+|.+...+...+......- ..-..|.++.++ +. ..|. -..+++.+|-+.++|..+-
T Consensus 104 ~~~vN~~~~~~~~~~~~~~~v~--~~~a~GDl~~~i-----~~--~~G~---~~~lk~~lN~~~~~L~~~i 162 (175)
T 3lnr_A 104 AKGVNELVAAHIAVKMKVVSVV--TAYGQGNFEPLM-----DR--LPGK---KAQITEAIDGVRERLRGAA 162 (175)
T ss_dssp HHHHHHHHHHHHHHHHHHHHHH--HHHHTSCCCCCC-----CC--CCGG---GHHHHHHHHHHHHHHCC--
T ss_pred HHHHHHhHHHHHHHHHHHHHHH--HHHhCCCCCchh-----hh--CCch---HHHHHHHHHHHHHHHHHHH
Confidence 7777777766665544332111 111123333222 11 1111 2457888888888877653
No 9
>4gwp_A Mediator of RNA polymerase II transcription subun; binding sites, mediator complex, models, molecular, phosphor protein structure; 4.20A {Saccharomyces cerevisiae} PDB: 4gwq_A
Probab=16.45 E-value=4.7e+02 Score=22.80 Aligned_cols=59 Identities=20% Similarity=0.344 Sum_probs=39.2
Q ss_pred chhhhHHHHHHHHHHHHHHHHHHHHHHHhhhhhhcccCCCCchhHHHHHHHHHhhhhHHh
Q 010660 69 VHISERITVLTTLRSSLATFLAQVYMEVEKYGEELVEDPEKLLPFLLVTINDLFSKLEAS 128 (505)
Q Consensus 69 ~~i~~~~~~l~~~~~~la~~~~~v~~~~d~~~~~l~~~~~~sl~~~~~~~~~~~~~le~~ 128 (505)
.+|.||+..|..+-..|+++|.+.-.=++.+.+.- +..+..=++.-..+..+.+.|+.+
T Consensus 4 ~~VqERLdSL~~ID~kl~slL~~~S~~~~t~~elK-~g~~~~K~qF~~~~~~fY~~Ls~~ 62 (115)
T 4gwp_A 4 PYIQERLKSLNDIETQLCSMLQEASQVTFIFGELK-RGNESVKPQFENHVKQFYERLDKS 62 (115)
T ss_dssp CTTHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHT-TTCGGGHHHHHHHHHHHHHHHHHH
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHh-ccCccchHHHHHHHHHHHHHHHHH
Confidence 47999999999999999999987766666665532 222222233444455555666654
No 10
>3t46_A SCIN-D; secreted, virulence, immune system; 1.50A {Staphylococcus aureus subsp}
Probab=14.38 E-value=58 Score=27.16 Aligned_cols=43 Identities=21% Similarity=0.306 Sum_probs=31.0
Q ss_pred HHHHHHHHHhhhchhHHhhhhhHHHHHHHHHHHHhhhHHHHHHHHHHHHhhhh
Q 010660 315 EIVMSRYEKELMHPIQNLVNGELARALLIQVQKLKLDIETAMLELDQILRANE 367 (505)
Q Consensus 315 t~Vm~~YE~elk~Pikn~v~G~LvR~LLIQVQK~KVD~e~Am~gIDkLLkSqe 367 (505)
++.|..|-. |..+|+ .++ -|+-+.|+.+|.--.+||..|+||-
T Consensus 48 ~Imm~~y~A--K~Alks---knf-----~kM~~AK~~LE~IY~eIde~i~s~~ 90 (91)
T 3t46_A 48 DILAAHYIA--KSAIRT---KNL-----DQMTKAKQRLESIYNSISNPLHSQN 90 (91)
T ss_dssp HHHHHHHHH--HHHHHT---TCH-----HHHHHHHHHHHHHHHHHHSCCCCCC
T ss_pred HHHHHHHHH--HHHHHh---ccH-----HHHHHHHHHHHHHHHHHHHHHhhcC
Confidence 345555554 444442 232 5789999999999999999999983
Done!