Query 042215
Match_columns 148
No_of_seqs 114 out of 702
Neff 6.0
Searched_HMMs 29240
Date Mon Mar 25 06:25:53 2013
Command hhsearch -i /work/01045/syshi/csienesis_hhblits_a3m/042215.a3m -d /work/01045/syshi/HHdatabase/pdb70.hhm -o /work/01045/syshi/hhsearch_pdb/042215hhsearch_pdb -cpu 12 -v 0
No Hit Prob E-value P-value Score SS Cols Query HMM Template HMM
1 2ls3_A High affinity copper up 98.8 3.9E-12 1.3E-16 71.5 0.0 28 82-109 1-28 (29)
2 2ls4_A High affinity copper up 97.9 1.1E-08 3.7E-13 55.9 0.0 24 107-130 1-24 (26)
3 2ls2_A High affinity copper up 97.1 1.9E-06 6.5E-11 47.0 0.0 25 45-69 2-26 (26)
4 2jwa_A Receptor tyrosine-prote 34.0 34 0.0012 20.2 2.6 20 110-129 20-39 (44)
5 2vv5_A MSCS, small-conductance 27.9 1.6E+02 0.0056 22.9 6.7 84 40-123 21-109 (286)
6 3p7n_A Sensor histidine kinase 25.1 15 0.00052 27.1 0.0 20 2-21 2-21 (258)
7 3gia_A Uncharacterized protein 24.8 2.6E+02 0.0089 22.2 9.0 26 108-133 401-426 (444)
8 3ung_C CMR2DHD; ferredoxin fol 22.8 18 0.00061 33.0 0.0 29 1-32 1-29 (693)
9 3arc_L Photosystem II reaction 21.7 1.1E+02 0.0036 17.3 3.1 19 47-65 14-32 (37)
10 1sen_A Thioredoxin-like protei 21.6 19 0.00067 25.4 0.0 17 2-18 2-18 (164)
11 1iij_A ERBB-2 receptor protein 20.9 41 0.0014 18.9 1.3 18 110-127 16-33 (35)
12 1ydx_A Type I restriction enzy 20.5 22 0.00074 28.6 0.0 17 2-18 1-17 (406)
13 3nmd_A CGMP dependent protein 20.4 18 0.00063 23.6 -0.3 18 2-19 2-19 (72)
14 3hiq_A Vacuolar saporin; ribos 20.2 22 0.00074 29.7 0.0 19 2-20 2-20 (345)
No 1
>2ls3_A High affinity copper uptake protein 1; HCTR1 TMDS, oligomerization, metal transport; NMR {Homo sapiens}
Probab=98.76 E-value=3.9e-12 Score=71.52 Aligned_cols=28 Identities=32% Similarity=0.616 Sum_probs=26.6
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHHHhhhh
Q 042215 82 AGIIQTFMHTIRVGLANLVMLALMSFNV 109 (148)
Q Consensus 82 ~~l~~sll~~~q~~l~YlLMLvvMTfN~ 109 (148)
.|++|+++|++|..+||+|||++||||+
T Consensus 1 ~h~~ra~l~~~q~~~~Y~LML~~MtyN~ 28 (29)
T 2ls3_A 1 KHLLQTVLHIIQVVISYFLMLIFMTYNK 28 (29)
Confidence 4789999999999999999999999996
No 2
>2ls4_A High affinity copper uptake protein 1; HCTR1 TMDS, oligomerization, metal transport; NMR {Homo sapiens}
Probab=97.93 E-value=1.1e-08 Score=55.95 Aligned_cols=24 Identities=29% Similarity=0.530 Sum_probs=22.7
Q ss_pred hhhHHHHHHHHHHHHhhHhhcccc
Q 042215 107 FNVGVFLAAVAGHSLGFLLFGSRV 130 (148)
Q Consensus 107 fN~~lf~aVv~G~~iGy~~fg~~~ 130 (148)
||+|+++||++|+++||++|++++
T Consensus 1 YNg~l~iavvlGa~~Gyf~F~~~~ 24 (26)
T 2ls4_A 1 YNGYLCIAVAAGAGTGYFLFSWKK 24 (26)
Confidence 899999999999999999999864
No 3
>2ls2_A High affinity copper uptake protein 1; HCTR1 TMDS, oligomerization, metal transport; NMR {Homo sapiens}
Probab=97.09 E-value=1.9e-06 Score=46.96 Aligned_cols=25 Identities=32% Similarity=0.392 Sum_probs=22.9
Q ss_pred CChHHHHHHHHHHHHHHHHHHHHhh
Q 042215 45 TSTGMYALALVFVFAMGILVEWLSH 69 (148)
Q Consensus 45 ~s~~~~~~s~v~vf~la~l~E~L~~ 69 (148)
+|.+.+++||+++|+++++||+||.
T Consensus 2 ~s~~~~v~Sci~ifll~~~YE~Lk~ 26 (26)
T 2ls2_A 2 NTAGEMAGAFVAVFLLAMFYEGLKX 26 (26)
Confidence 5788999999999999999999983
No 4
>2jwa_A Receptor tyrosine-protein kinase ERBB-2; transmembrane helix dimer, protein kinase receptor membrane domain, ATP-binding, glycoprotein; NMR {Homo sapiens} PDB: 2ks1_A
Probab=34.03 E-value=34 Score=20.19 Aligned_cols=20 Identities=30% Similarity=0.585 Sum_probs=13.7
Q ss_pred HHHHHHHHHHHHhhHhhccc
Q 042215 110 GVFLAAVAGHSLGFLLFGSR 129 (148)
Q Consensus 110 ~lf~aVv~G~~iGy~~fg~~ 129 (148)
++++.+++|..++.++=.++
T Consensus 20 Gvll~vi~~l~~~~~~RRR~ 39 (44)
T 2jwa_A 20 GILLVVVLGVVFGILIKRRQ 39 (44)
T ss_dssp HHHHHHHHHHHHHHHHHHHC
T ss_pred HHHHHHHHHHHHHhheehhh
Confidence 46677888888877665443
No 5
>2vv5_A MSCS, small-conductance mechanosensitive channel; ION transport, transmembrane, inner membrane, membrane struc membrane protein, membrane; 3.45A {Escherichia coli} SCOP: b.38.1.3 d.58.43.1 f.34.1.1 PDB: 2oau_A
Probab=27.86 E-value=1.6e+02 Score=22.91 Aligned_cols=84 Identities=11% Similarity=0.127 Sum_probs=38.2
Q ss_pred cCCcCCChHHHHHHHHHHHHHHHHHHHHhhc-cc-c-ccCCCchhHHHHHHHHHHHHHHHHHHHHHHHHhhhhHH--HHH
Q 042215 40 KGWPGTSTGMYALALVFVFAMGILVEWLSHS-RL-I-KTGTGNVAAGIIQTFMHTIRVGLANLVMLALMSFNVGV--FLA 114 (148)
Q Consensus 40 ~~W~~~s~~~~~~s~v~vf~la~l~E~L~~~-r~-~-~p~~~~~~~~l~~sll~~~q~~l~YlLMLvvMTfN~~l--f~a 114 (148)
..|-++.....+.+++++++.-++.+.++.. +. . +.+.++....+++.++..+-+.++-++.|...-.|..- ..+
T Consensus 21 ~~~~~~~~~~i~~~~~i~~i~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~i~~~~i~~i~~~~~l~~~gi~~~~l~a~~ 100 (286)
T 2vv5_A 21 QALLLSYAVNIVAALAIIIVGLIIARMISNAVNRLMISRKIDATVADFLSALVRYGIIAFTLIAALGRVGVQTASVIAVL 100 (286)
T ss_dssp ----CGGGSHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHCSCHHHHHHHHHHHHHHHHHHHHHHHHHTTTCCSTTHHHHH
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhcCCChHHHHHHHHHHHHHHHHHHHHHHHHHhCCCHHHHHHHH
Confidence 3344444455666665555544555554432 11 1 12222333445555555555555555555555555432 333
Q ss_pred HHHHHHHhh
Q 042215 115 AVAGHSLGF 123 (148)
Q Consensus 115 Vv~G~~iGy 123 (148)
-++|.++|.
T Consensus 101 g~~g~aig~ 109 (286)
T 2vv5_A 101 GAAGLVVGL 109 (286)
T ss_dssp HHHHHHHHH
T ss_pred HHHHHHHHH
Confidence 345555554
No 6
>3p7n_A Sensor histidine kinase; LOV domain, light-activated transcription factor, DNA bindin; HET: FMN; 2.10A {Erythrobacter litoralis}
Probab=25.12 E-value=15 Score=27.06 Aligned_cols=20 Identities=25% Similarity=0.318 Sum_probs=0.0
Q ss_pred CCCCCCCCCCCCCCCCCCCC
Q 042215 2 NDTHKHEMGGMAPPPTMPRH 21 (148)
Q Consensus 2 ~~~~~~~~~~m~~~~~~~~~ 21 (148)
-++|+|..|||.+.++.+.+
T Consensus 2 ~~~~~~~~~~~~~~~~~~~~ 21 (258)
T 3p7n_A 2 RGSHHHHHHGMASMTGGQQM 21 (258)
T ss_dssp --------------------
T ss_pred CCcccccccchhhccchhhh
Confidence 34555555788875554443
No 7
>3gia_A Uncharacterized protein MJ0609; membrane protein, transporter, cell membrane, membrane, transmembrane, transport protein; HET: D10 BCN; 2.32A {Methanocaldococcus jannaschii} PDB: 3gi9_C* 3gi8_C
Probab=24.83 E-value=2.6e+02 Score=22.17 Aligned_cols=26 Identities=8% Similarity=-0.022 Sum_probs=17.0
Q ss_pred hhHHHHHHHHHHHHhhHhhccccccC
Q 042215 108 NVGVFLAAVAGHSLGFLLFGSRVFHK 133 (148)
Q Consensus 108 N~~lf~aVv~G~~iGy~~fg~~~~~~ 133 (148)
+.++.+.+.++..+.+.++.++..++
T Consensus 401 ~~~~~~~~~~~~~~~~~~~~~~~~~~ 426 (444)
T 3gia_A 401 VFYGIIATFIGVLIFEIIYRKVTKRT 426 (444)
T ss_dssp HHHHHHHHHHHHHHHHHHHHHHHCCC
T ss_pred HHHHHHHHHHHHHHHHHHHHHhccCC
Confidence 34566777777777777776655444
No 8
>3ung_C CMR2DHD; ferredoxin fold, nucleotide-binding, polymerase, CMR complex function; HET: ADP; 2.31A {Pyrococcus furiosus} PDB: 3ur3_C 4doz_A
Probab=22.77 E-value=18 Score=32.97 Aligned_cols=29 Identities=24% Similarity=0.190 Sum_probs=0.0
Q ss_pred CCCCCCCCCCCCCCCCCCCCCCcceeeEEecc
Q 042215 1 MNDTHKHEMGGMAPPPTMPRHKMMMHMTFFWG 32 (148)
Q Consensus 1 ~~~~~~~~~~~m~~~~~~~~~~~~M~M~F~~~ 32 (148)
|-++|+|..|||+++++. ..+|.-.+.-.
T Consensus 1 ~~~~~~~~~~~~~~~~~~---~~~~~~~~~~~ 29 (693)
T 3ung_C 1 MRGSHHHHHHGMASMTGG---QQMGRDLYDDD 29 (693)
T ss_dssp --------------------------------
T ss_pred CCCcccccccchhcccch---hhhhhhccCCc
Confidence 345566666888864443 34444444443
No 9
>3arc_L Photosystem II reaction center protein L; PSII, membrane-protein complex, transmembrane alpha-helix, E transport, photosynthesis; HET: OEX CLA PHO BCR PL9 SQD LMG UNL LMT HTG DGD LHG HEM; 1.90A {Thermosynechococcus vulcanus} PDB: 1s5l_L* 3a0b_L* 3a0h_L* 2axt_L* 3bz1_L* 3bz2_L* 3kzi_L* 3prq_L* 3prr_L*
Probab=21.66 E-value=1.1e+02 Score=17.32 Aligned_cols=19 Identities=16% Similarity=0.405 Sum_probs=14.5
Q ss_pred hHHHHHHHHHHHHHHHHHH
Q 042215 47 TGMYALALVFVFAMGILVE 65 (148)
Q Consensus 47 ~~~~~~s~v~vf~la~l~E 65 (148)
....++.++.+|++|++..
T Consensus 14 RTSLy~GLLlifvlavlFs 32 (37)
T 3arc_L 14 RTSLYLGLLLILVLALLFS 32 (37)
T ss_dssp HHHHHHHHHHHHHHHHHHH
T ss_pred hhhHHHHHHHHHHHHHHhh
Confidence 4566777888899998865
No 10
>1sen_A Thioredoxin-like protein P19; endoplasmic reticulum, RP19, structural genomics, PSI, protein structure initiative; 1.20A {Homo sapiens} SCOP: c.47.1.1 PDB: 2k8v_A
Probab=21.62 E-value=19 Score=25.41 Aligned_cols=17 Identities=29% Similarity=0.458 Sum_probs=0.0
Q ss_pred CCCCCCCCCCCCCCCCC
Q 042215 2 NDTHKHEMGGMAPPPTM 18 (148)
Q Consensus 2 ~~~~~~~~~~m~~~~~~ 18 (148)
-++|+|..|||++|...
T Consensus 2 ~~~~~~~~~~~~~~~~~ 18 (164)
T 1sen_A 2 GGSHHHHHHGMASSSDG 18 (164)
T ss_dssp -----------------
T ss_pred CCccccccccccccccC
Confidence 34555556899885543
No 11
>1iij_A ERBB-2 receptor protein-tyrosine kinase; alpha-helix-PI-bulge-alpha-helix, signaling protein; NMR {Synthetic} SCOP: j.35.1.1
Probab=20.86 E-value=41 Score=18.87 Aligned_cols=18 Identities=28% Similarity=0.372 Sum_probs=13.3
Q ss_pred HHHHHHHHHHHHhhHhhc
Q 042215 110 GVFLAAVAGHSLGFLLFG 127 (148)
Q Consensus 110 ~lf~aVv~G~~iGy~~fg 127 (148)
++++.+++|..+|.++=+
T Consensus 16 glll~vii~l~~~~~iRR 33 (35)
T 1iij_A 16 GVLLFLILVVVVGILIKR 33 (35)
T ss_dssp HHHHHHHHTTTTTHHHHH
T ss_pred HHHHHHHHHHHhheEEee
Confidence 477888888888877643
No 12
>1ydx_A Type I restriction enzyme specificity protein Mg4; type-I HSDS, DNA binding protein; 2.30A {Mycoplasma genitalium} SCOP: d.287.1.2 d.287.1.2
Probab=20.46 E-value=22 Score=28.59 Aligned_cols=17 Identities=12% Similarity=0.116 Sum_probs=0.0
Q ss_pred CCCCCCCCCCCCCCCCC
Q 042215 2 NDTHKHEMGGMAPPPTM 18 (148)
Q Consensus 2 ~~~~~~~~~~m~~~~~~ 18 (148)
|+||+|..|+-|+|++-
T Consensus 1 ~~~~~~~~~~~~~~~~~ 17 (406)
T 1ydx_A 1 MGHHHHHHHHHHSSGHI 17 (406)
T ss_dssp -----------------
T ss_pred CCccccccccccccCCc
Confidence 34555544555555553
No 13
>3nmd_A CGMP dependent protein kinase; leucine zipper, coiled-coil, structural genomics, berkeley S genomics center, BSGC, dimerization; HET: MSE; 2.27A {Homo sapiens}
Probab=20.36 E-value=18 Score=23.57 Aligned_cols=18 Identities=28% Similarity=0.342 Sum_probs=0.4
Q ss_pred CCCCCCCCCCCCCCCCCC
Q 042215 2 NDTHKHEMGGMAPPPTMP 19 (148)
Q Consensus 2 ~~~~~~~~~~m~~~~~~~ 19 (148)
-++|+|..|||++-.+|.
T Consensus 2 ~~~~~~~~~~~~~~~~mg 19 (72)
T 3nmd_A 2 RGSHHHHHHGMASIEGRG 19 (72)
T ss_dssp -----------------C
T ss_pred CCcccccccchhhcccCC
Confidence 345555568888755544
No 14
>3hiq_A Vacuolar saporin; ribosome inactivating proteins, RIPS, hydrolase, plant defense, protein synthesis inhibitor, toxin; 2.19A {Saponaria officinalis}
Probab=20.23 E-value=22 Score=29.72 Aligned_cols=19 Identities=26% Similarity=0.357 Sum_probs=0.0
Q ss_pred CCCCCCCCCCCCCCCCCCC
Q 042215 2 NDTHKHEMGGMAPPPTMPR 20 (148)
Q Consensus 2 ~~~~~~~~~~m~~~~~~~~ 20 (148)
-++|+|..|||++..+...
T Consensus 2 ~~~~~~~~~~~~~~~~~~~ 20 (345)
T 3hiq_A 2 RGSHHHHHHGMASMTGGQQ 20 (345)
T ss_dssp -------------------
T ss_pred CCccccccccccccccccc
Confidence 3455555688886555444
Done!