Query 040293
Match_columns 327
No_of_seqs 82 out of 101
Neff 2.9
Searched_HMMs 29240
Date Mon Mar 25 10:56:14 2013
Command hhsearch -i /work/01045/syshi/csienesis_hhblits_a3m/040293.a3m -d /work/01045/syshi/HHdatabase/pdb70.hhm -o /work/01045/syshi/hhsearch_pdb/040293hhsearch_pdb -cpu 12 -v 0
No Hit Prob E-value P-value Score SS Cols Query HMM Template HMM
1 2gmg_A Hypothetical protein PF 64.4 2.7 9.4E-05 34.6 1.7 22 111-132 68-90 (105)
2 3qt1_I DNA-directed RNA polyme 49.9 5.4 0.00018 33.4 1.2 23 110-132 24-52 (133)
3 3h0g_I DNA-directed RNA polyme 39.5 8.9 0.0003 30.8 0.9 21 112-132 6-32 (113)
4 2kdx_A HYPA, hydrogenase/ureas 36.7 11 0.00039 29.9 1.2 25 109-133 72-97 (119)
5 1fmb_A EIAV protease; hydrolas 35.1 22 0.00076 28.4 2.6 22 240-262 11-32 (104)
6 2hs1_A HIV-1 protease; ultra-h 31.3 28 0.00096 27.9 2.6 21 240-261 11-31 (99)
7 1weo_A Cellulose synthase, cat 29.5 21 0.00072 29.0 1.6 24 109-132 15-49 (93)
8 3ec0_A Protease; HIV-2, inhibi 29.0 34 0.0011 27.5 2.7 22 240-262 11-32 (99)
9 1twf_I B12.6, DNA-directed RNA 28.4 8.1 0.00028 31.4 -1.0 22 111-132 5-32 (122)
10 1ycy_A Conserved hypothetical 27.5 24 0.00082 27.4 1.5 20 240-259 19-39 (71)
11 3sqf_A Protease; folded monome 23.5 46 0.0016 27.5 2.6 21 240-261 12-32 (114)
12 2k2d_A Ring finger and CHY zin 21.0 30 0.001 26.6 0.9 23 110-132 37-61 (79)
13 2hah_A Protease, retropepsin; 20.9 53 0.0018 26.9 2.5 19 242-261 18-36 (116)
No 1
>2gmg_A Hypothetical protein PF0610; winged-helix like protein with metal binding site, structura genomics, PSI, protein structure initiative; NMR {Pyrococcus furiosus} SCOP: a.4.5.82
Probab=64.38 E-value=2.7 Score=34.64 Aligned_cols=22 Identities=27% Similarity=0.632 Sum_probs=15.7
Q ss_pred cccccccccc-cccCCCcccccc
Q 040293 111 MNCQDCGNQA-KKDCPHMRCRTC 132 (327)
Q Consensus 111 ~~CQDCGNQA-KKDC~h~RCRTC 132 (327)
..|.|||+.- ++-=.-.||-.|
T Consensus 68 ~~C~~CG~~F~~~~~kPsrCP~C 90 (105)
T 2gmg_A 68 AQCRKCGFVFKAEINIPSRCPKC 90 (105)
T ss_dssp CBBTTTCCBCCCCSSCCSSCSSS
T ss_pred cChhhCcCeecccCCCCCCCcCC
Confidence 4899999997 111234789888
No 2
>3qt1_I DNA-directed RNA polymerases I, II, and III subun; transferase-transcription complex, RNA polymerase II, transc elongation; 4.30A {Saccharomyces cerevisiae}
Probab=49.94 E-value=5.4 Score=33.42 Aligned_cols=23 Identities=39% Similarity=0.817 Sum_probs=17.9
Q ss_pred Ccccccccc--ccccc----CCCcccccc
Q 040293 110 GMNCQDCGN--QAKKD----CPHMRCRTC 132 (327)
Q Consensus 110 g~~CQDCGN--QAKKD----C~h~RCRTC 132 (327)
-.-|.+||| ..|.| .....||||
T Consensus 24 ~~FCPeCgNmL~pked~~~~~l~~~CrtC 52 (133)
T 3qt1_I 24 FRFCRDCNNMLYPREDKENNRLLFECRTC 52 (133)
T ss_dssp CCBCTTTCCBCBCCBCTTTCCBCCBCSSS
T ss_pred CeeCCCCCCEeeECccCCCceeEEECCCC
Confidence 448999999 45643 667899999
No 3
>3h0g_I DNA-directed RNA polymerases I, II, and III subunit rpabc5; transcription, multi-protein complex, DNA- binding, magnesium; 3.65A {Schizosaccharomyces pombe}
Probab=39.51 E-value=8.9 Score=30.81 Aligned_cols=21 Identities=33% Similarity=0.991 Sum_probs=16.5
Q ss_pred ccccccc--ccccc----CCCcccccc
Q 040293 112 NCQDCGN--QAKKD----CPHMRCRTC 132 (327)
Q Consensus 112 ~CQDCGN--QAKKD----C~h~RCRTC 132 (327)
-|.+||| ..|.| .....||||
T Consensus 6 FCp~Cgn~L~~~~~~~~~~~~~~C~~C 32 (113)
T 3h0g_I 6 YCIECNNMLYPREDKVDRVLRLACRNC 32 (113)
T ss_dssp CCSSSCCCCEECCCTTTCCCCEECSSS
T ss_pred eCcCCCCEeeEcccCCCCeeEEECCCC
Confidence 6999999 44543 667899999
No 4
>2kdx_A HYPA, hydrogenase/urease nickel incorporation protein HYPA; metallochaperone, metal-binding, metal- binding protein; NMR {Helicobacter pylori}
Probab=36.70 E-value=11 Score=29.94 Aligned_cols=25 Identities=24% Similarity=0.667 Sum_probs=20.2
Q ss_pred CCcccccccccccccCCCc-cccccc
Q 040293 109 GGMNCQDCGNQAKKDCPHM-RCRTCC 133 (327)
Q Consensus 109 gg~~CQDCGNQAKKDC~h~-RCRTCC 133 (327)
.-..|.+||+.-..+=.+. +|..|-
T Consensus 72 ~~~~C~~CG~~~e~~~~~~~~CP~Cg 97 (119)
T 2kdx_A 72 VELECKDCSHVFKPNALDYGVCEKCH 97 (119)
T ss_dssp CEEECSSSSCEECSCCSTTCCCSSSS
T ss_pred ceEEcCCCCCEEeCCCCCCCcCcccc
Confidence 3569999999988777777 888873
No 5
>1fmb_A EIAV protease; hydrolase (acid proteinase), RNA-directed DNA polymerase, AS protease, endonuclease, polyprotein; HET: HYB; 1.80A {Equine infectious anemia virus} SCOP: b.50.1.1 PDB: 2fmb_A*
Probab=35.07 E-value=22 Score=28.41 Aligned_cols=22 Identities=27% Similarity=0.344 Sum_probs=17.7
Q ss_pred eeeeecceeeeeeeeccCCCccc
Q 040293 240 TAVHIGGHVFKGILYDQGPENRY 262 (327)
Q Consensus 240 t~V~IgGHVFKGiLYDqG~e~~~ 262 (327)
-+|+|+|+.|++ |-|.|.|..-
T Consensus 11 v~v~I~Gq~~e~-LLDTGAD~TV 32 (104)
T 1fmb_A 11 TIVLINDTPLNV-LLDTGADTSV 32 (104)
T ss_dssp EEEEETTEEEEE-EECTTCSSCE
T ss_pred EEEEECCEEEEE-EeccCCCcEE
Confidence 369999998887 5599999653
No 6
>2hs1_A HIV-1 protease; ultra-high resolution active site surface binding site, HYDR; HET: 017; 0.84A {Human immunodeficiency virus 1} PDB: 3nu4_A* 3tl9_A* 3tkw_A* 3tkg_A* 3ndu_A* 3ndt_A* 3k4v_A* 3a2o_A* 1fgc_C* 2a1e_A* 2aod_A* 2aoi_A* 2aoj_A* 2hb3_A* 2ien_A* 1sdt_A* 2z4o_A* 2zye_A* 2nmw_A* 3b7v_A* ...
Probab=31.32 E-value=28 Score=27.85 Aligned_cols=21 Identities=24% Similarity=0.667 Sum_probs=17.5
Q ss_pred eeeeecceeeeeeeeccCCCcc
Q 040293 240 TAVHIGGHVFKGILYDQGPENR 261 (327)
Q Consensus 240 t~V~IgGHVFKGiLYDqG~e~~ 261 (327)
-+|+|+|+.++++ -|.|.|..
T Consensus 11 vtvkI~Gq~~eaL-LDTGAD~T 31 (99)
T 2hs1_A 11 VTIKIGGQLKEAL-LDTGADDT 31 (99)
T ss_dssp EEEEETTEEEEEE-ECTTCSSE
T ss_pred EEEEECCEEEEEE-eccCCCcE
Confidence 3699999999885 59999964
No 7
>1weo_A Cellulose synthase, catalytic subunit (IRX3); structure genomics, ring-finger, riken structural genomics/proteomics initiative, RSGI; NMR {Arabidopsis thaliana} SCOP: g.44.1.1
Probab=29.55 E-value=21 Score=29.03 Aligned_cols=24 Identities=42% Similarity=1.009 Sum_probs=20.9
Q ss_pred CCccccccccc-----------ccccCCCcccccc
Q 040293 109 GGMNCQDCGNQ-----------AKKDCPHMRCRTC 132 (327)
Q Consensus 109 gg~~CQDCGNQ-----------AKKDC~h~RCRTC 132 (327)
++..||-||-. |=-+|.|--||.|
T Consensus 15 ~~qiCqiCGD~VG~~~~Ge~FVAC~eC~FPvCrpC 49 (93)
T 1weo_A 15 DGQFCEICGDQIGLTVEGDLFVACNECGFPACRPC 49 (93)
T ss_dssp SSCBCSSSCCBCCBCSSSSBCCSCSSSCCCCCHHH
T ss_pred CCCccccccCccccCCCCCEEEeeeccCChhhHHH
Confidence 35799999988 6678999999999
No 8
>3ec0_A Protease; HIV-2, inhibitor, hydrolase; HET: GRL; 1.18A {Human immunodeficiency virus type 2} SCOP: b.50.1.1 PDB: 1hii_A* 1hsi_A 1hsh_A* 1idb_A* 1jld_A* 2mip_A 1ida_A* 3ebz_A* 3ecg_A* 3s45_A* 4upj_A* 1ivq_A* 1ivp_A 2hpf_A 3upj_A* 2hpe_A* 5upj_A* 6upj_A* 1sip_A 1tcw_A* ...
Probab=28.99 E-value=34 Score=27.54 Aligned_cols=22 Identities=18% Similarity=0.366 Sum_probs=17.8
Q ss_pred eeeeecceeeeeeeeccCCCccc
Q 040293 240 TAVHIGGHVFKGILYDQGPENRY 262 (327)
Q Consensus 240 t~V~IgGHVFKGiLYDqG~e~~~ 262 (327)
.+|+|+|+.++++ -|-|.|..-
T Consensus 11 vti~I~Gq~~e~L-LDTGAD~TV 32 (99)
T 3ec0_A 11 VTAYIEGQPVEVL-LDTGADDSI 32 (99)
T ss_dssp EEEEETTEEEEEE-ECTTCSSCE
T ss_pred EEEEECCEEEEEE-EecCCCceE
Confidence 4699999998875 599999653
No 9
>1twf_I B12.6, DNA-directed RNA polymerase II 14.2 kDa polypepti; transcription, mRNA, multiprotein complex; HET: UTP; 2.30A {Saccharomyces cerevisiae} SCOP: g.41.3.1 g.41.3.1 PDB: 1i3q_I 1i6h_I 1k83_I* 1nik_I 1nt9_I 1pqv_I 1r5u_I 1r9s_I* 1r9t_I* 1sfo_I* 1twa_I* 1twc_I* 1i50_I* 1twg_I* 1twh_I* 1wcm_I 1y1v_I 1y1w_I 1y1y_I 1y77_I* ...
Probab=28.42 E-value=8.1 Score=31.43 Aligned_cols=22 Identities=41% Similarity=0.933 Sum_probs=16.6
Q ss_pred cccccccc--ccccc----CCCcccccc
Q 040293 111 MNCQDCGN--QAKKD----CPHMRCRTC 132 (327)
Q Consensus 111 ~~CQDCGN--QAKKD----C~h~RCRTC 132 (327)
.-|.+||| ..+.| .....||+|
T Consensus 5 ~FCp~CgnlL~~~~~~~~~~~~~~C~~C 32 (122)
T 1twf_I 5 RFCRDCNNMLYPREDKENNRLLFECRTC 32 (122)
T ss_dssp CBCSSSCCBCEEEEETTTTEEEEECSSS
T ss_pred CcccccCccCcccccCcCCCCEEECCcC
Confidence 47999999 44433 667889999
No 10
>1ycy_A Conserved hypothetical protein; structural genomics, southeast collaboratory for structural genomics, secsg, protein structure initiative; 2.80A {Pyrococcus furiosus} SCOP: b.38.1.4
Probab=27.52 E-value=24 Score=27.35 Aligned_cols=20 Identities=50% Similarity=0.777 Sum_probs=13.5
Q ss_pred eeeeecc-eeeeeeeeccCCC
Q 040293 240 TAVHIGG-HVFKGILYDQGPE 259 (327)
Q Consensus 240 t~V~IgG-HVFKGiLYDqG~e 259 (327)
-+|.||| |-|.|||-|---|
T Consensus 19 vAv~vg~ehSFtGiledFDeE 39 (71)
T 1ycy_A 19 VAVSVGGDHSFTGTLEDFDEE 39 (71)
T ss_dssp EEEEEC----CEEEEEEECSS
T ss_pred EEEEecCcceeeeehhhcCcc
Confidence 3677876 9999999987665
No 11
>3sqf_A Protease; folded monomer, retropepsin, D-type retrovirus; 1.63A {Mason-pfizer monkey virus} SCOP: b.50.1.1 PDB: 1nso_A
Probab=23.51 E-value=46 Score=27.48 Aligned_cols=21 Identities=14% Similarity=0.488 Sum_probs=17.6
Q ss_pred eeeeecceeeeeeeeccCCCcc
Q 040293 240 TAVHIGGHVFKGILYDQGPENR 261 (327)
Q Consensus 240 t~V~IgGHVFKGiLYDqG~e~~ 261 (327)
.+|+|+|+.++++ -|-|.|..
T Consensus 12 vti~I~Gq~~eaL-LDTGADdT 32 (114)
T 3sqf_A 12 LTLWLDDKMFTGL-INTGADVT 32 (114)
T ss_dssp EEEEETTEEEEEE-ECTTCSSC
T ss_pred EEEEECCEEEEEE-EccCCCce
Confidence 4699999999996 59999854
No 12
>2k2d_A Ring finger and CHY zinc finger domain- containing protein 1; zinc-binding protein, cytoplasm, metal-binding, nucleus, metal binding protein; NMR {Homo sapiens}
Probab=21.02 E-value=30 Score=26.62 Aligned_cols=23 Identities=26% Similarity=0.794 Sum_probs=18.2
Q ss_pred Ccccccccc--cccccCCCcccccc
Q 040293 110 GMNCQDCGN--QAKKDCPHMRCRTC 132 (327)
Q Consensus 110 g~~CQDCGN--QAKKDC~h~RCRTC 132 (327)
-+.|.||++ +++-.-...+|..|
T Consensus 37 ~I~CnDC~~~s~v~~h~lg~kC~~C 61 (79)
T 2k2d_A 37 DILCNDCNGRSTVQFHILGMKCKIC 61 (79)
T ss_dssp EEEESSSCCEEEEECCTTCCCCTTT
T ss_pred EEECCCCCCCccCCceeecccCcCC
Confidence 358999999 66767777789887
No 13
>2hah_A Protease, retropepsin; retroviral, aspartyl, hydrolase-hydrolase complex; HET: 3TL; 1.70A {Feline immunodeficiency virus} PDB: 3ogp_A* 3ogq_A* 2fiv_A* 6fiv_A* 3fiv_A* 5fiv_A* 4fiv_A* 1fiv_A* 1b11_A*
Probab=20.94 E-value=53 Score=26.92 Aligned_cols=19 Identities=26% Similarity=0.412 Sum_probs=16.6
Q ss_pred eeecceeeeeeeeccCCCcc
Q 040293 242 VHIGGHVFKGILYDQGPENR 261 (327)
Q Consensus 242 V~IgGHVFKGiLYDqG~e~~ 261 (327)
|+|+|+.|++ |-|.|.|..
T Consensus 18 ikI~Gq~~ea-LLDTGAD~T 36 (116)
T 2hah_A 18 IFVNGYPIKF-LLDTGADIT 36 (116)
T ss_dssp EEETTEEEEE-EECTTCSSC
T ss_pred EEECCEEEEE-EecCCCCcE
Confidence 9999999998 559999965
Done!