Query 039064
Match_columns 224
No_of_seqs 90 out of 92
Neff 2.7
Searched_HMMs 29240
Date Mon Mar 25 09:38:48 2013
Command hhsearch -i /work/01045/syshi/csienesis_hhblits_a3m/039064.a3m -d /work/01045/syshi/HHdatabase/pdb70.hhm -o /work/01045/syshi/hhsearch_pdb/039064hhsearch_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 66.7 1.7 5.9E-05 34.0 1.0 22 9-30 68-90 (105)
2 3qt1_I DNA-directed RNA polyme 51.7 4 0.00014 32.4 0.7 22 9-30 25-52 (133)
3 1fmb_A EIAV protease; hydrolas 44.9 14 0.00049 27.9 2.8 20 124-144 11-30 (104)
4 3h0g_I DNA-directed RNA polyme 41.3 6.5 0.00022 29.9 0.4 22 9-30 5-32 (113)
5 2hs1_A HIV-1 protease; ultra-h 40.8 18 0.00062 27.4 2.8 20 124-144 11-30 (99)
6 2kdx_A HYPA, hydrogenase/ureas 40.0 7.5 0.00026 29.3 0.5 24 8-31 73-97 (119)
7 3ec0_A Protease; HIV-2, inhibi 37.5 22 0.00075 27.1 2.8 20 124-144 11-30 (99)
8 1ycy_A Conserved hypothetical 35.8 16 0.00054 27.0 1.7 20 124-143 19-39 (71)
9 1weo_A Cellulose synthase, cat 33.3 13 0.00043 28.9 0.8 25 6-30 14-49 (93)
10 3sqf_A Protease; folded monome 32.2 29 0.001 27.1 2.8 20 124-144 12-31 (114)
11 2hah_A Protease, retropepsin; 29.2 32 0.0011 26.7 2.6 18 126-144 18-35 (116)
12 3tu3_A EXOU chaperone, SPCU; t 23.6 27 0.00092 28.9 1.2 17 196-212 89-105 (161)
13 2k2d_A Ring finger and CHY zin 22.9 21 0.00071 26.0 0.4 22 9-30 38-61 (79)
14 1twf_I B12.6, DNA-directed RNA 22.0 14 0.00048 28.3 -0.7 38 93-135 75-112 (122)
15 1hd6_A Pheromone ER-22; NMR {E 21.4 20 0.00067 23.7 -0.0 9 9-17 13-21 (37)
16 1mb6_A Huwentoxin-IV; containi 21.0 23 0.00078 22.8 0.2 11 29-39 15-25 (35)
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=66.72 E-value=1.7 Score=34.02 Aligned_cols=22 Identities=32% Similarity=0.730 Sum_probs=15.5
Q ss_pred cccccccchhh-hcCCCcccccc
Q 039064 9 TRCQDCGNQAK-KNCAYMRCRTC 30 (224)
Q Consensus 9 ~~CQDCGNQAK-KdC~h~RCRTC 30 (224)
..|.|||+.-. +-=.-.||..|
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 48999999871 11234788888
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=51.66 E-value=4 Score=32.38 Aligned_cols=22 Identities=36% Similarity=0.961 Sum_probs=17.2
Q ss_pred cccccccc--hhhhc----CCCcccccc
Q 039064 9 TRCQDCGN--QAKKN----CAYMRCRTC 30 (224)
Q Consensus 9 ~~CQDCGN--QAKKd----C~h~RCRTC 30 (224)
.-|.+||| ..|.| .....||+|
T Consensus 25 ~FCPeCgNmL~pked~~~~~l~~~CrtC 52 (133)
T 3qt1_I 25 RFCRDCNNMLYPREDKENNRLLFECRTC 52 (133)
T ss_dssp CBCTTTCCBCBCCBCTTTCCBCCBCSSS
T ss_pred eeCCCCCCEeeECccCCCceeEEECCCC
Confidence 47999999 44543 667899999
No 3
>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=44.89 E-value=14 Score=27.90 Aligned_cols=20 Identities=15% Similarity=0.242 Sum_probs=16.7
Q ss_pred EEEEecceeeeeeeeccCCCC
Q 039064 124 TSISVGGHIFKGILYYQGCES 144 (224)
Q Consensus 124 t~V~IgGHVFKGiLYDqG~e~ 144 (224)
-+|+|+|+.|++ |-|.|.|+
T Consensus 11 v~v~I~Gq~~e~-LLDTGAD~ 30 (104)
T 1fmb_A 11 TIVLINDTPLNV-LLDTGADT 30 (104)
T ss_dssp EEEEETTEEEEE-EECTTCSS
T ss_pred EEEEECCEEEEE-EeccCCCc
Confidence 469999998887 55999986
No 4
>3h0g_I DNA-directed RNA polymerases I, II, and III subunit rpabc5; transcription, multi-protein complex, DNA- binding, magnesium; 3.65A {Schizosaccharomyces pombe}
Probab=41.32 E-value=6.5 Score=29.86 Aligned_cols=22 Identities=27% Similarity=0.893 Sum_probs=16.6
Q ss_pred cccccccch--hhhc----CCCcccccc
Q 039064 9 TRCQDCGNQ--AKKN----CAYMRCRTC 30 (224)
Q Consensus 9 ~~CQDCGNQ--AKKd----C~h~RCRTC 30 (224)
.-|.+|||- .|.+ .....||+|
T Consensus 5 ~FCp~Cgn~L~~~~~~~~~~~~~~C~~C 32 (113)
T 3h0g_I 5 QYCIECNNMLYPREDKVDRVLRLACRNC 32 (113)
T ss_dssp CCCSSSCCCCEECCCTTTCCCCEECSSS
T ss_pred eeCcCCCCEeeEcccCCCCeeEEECCCC
Confidence 369999993 4443 668899999
No 5
>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=40.82 E-value=18 Score=27.41 Aligned_cols=20 Identities=20% Similarity=0.577 Sum_probs=17.1
Q ss_pred EEEEecceeeeeeeeccCCCC
Q 039064 124 TSISVGGHIFKGILYYQGCES 144 (224)
Q Consensus 124 t~V~IgGHVFKGiLYDqG~e~ 144 (224)
-+|+|+|+.+++. -|.|.|+
T Consensus 11 vtvkI~Gq~~eaL-LDTGAD~ 30 (99)
T 2hs1_A 11 VTIKIGGQLKEAL-LDTGADD 30 (99)
T ss_dssp EEEEETTEEEEEE-ECTTCSS
T ss_pred EEEEECCEEEEEE-eccCCCc
Confidence 3699999999885 5999997
No 6
>2kdx_A HYPA, hydrogenase/urease nickel incorporation protein HYPA; metallochaperone, metal-binding, metal- binding protein; NMR {Helicobacter pylori}
Probab=40.03 E-value=7.5 Score=29.28 Aligned_cols=24 Identities=29% Similarity=0.654 Sum_probs=19.0
Q ss_pred CcccccccchhhhcCCCc-cccccc
Q 039064 8 VTRCQDCGNQAKKNCAYM-RCRTCC 31 (224)
Q Consensus 8 g~~CQDCGNQAKKdC~h~-RCRTCC 31 (224)
-..|.+||+.-..+=.+. +|..|-
T Consensus 73 ~~~C~~CG~~~e~~~~~~~~CP~Cg 97 (119)
T 2kdx_A 73 ELECKDCSHVFKPNALDYGVCEKCH 97 (119)
T ss_dssp EEECSSSSCEECSCCSTTCCCSSSS
T ss_pred eEEcCCCCCEEeCCCCCCCcCcccc
Confidence 458999999887776777 888773
No 7
>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=37.54 E-value=22 Score=27.09 Aligned_cols=20 Identities=10% Similarity=0.245 Sum_probs=17.0
Q ss_pred EEEEecceeeeeeeeccCCCC
Q 039064 124 TSISVGGHIFKGILYYQGCES 144 (224)
Q Consensus 124 t~V~IgGHVFKGiLYDqG~e~ 144 (224)
.+|+|+|+.+++. -|-|.|+
T Consensus 11 vti~I~Gq~~e~L-LDTGAD~ 30 (99)
T 3ec0_A 11 VTAYIEGQPVEVL-LDTGADD 30 (99)
T ss_dssp EEEEETTEEEEEE-ECTTCSS
T ss_pred EEEEECCEEEEEE-EecCCCc
Confidence 4699999998885 5999986
No 8
>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=35.82 E-value=16 Score=27.02 Aligned_cols=20 Identities=45% Similarity=0.616 Sum_probs=13.0
Q ss_pred EEEEecc-eeeeeeeeccCCC
Q 039064 124 TSISVGG-HIFKGILYYQGCE 143 (224)
Q Consensus 124 t~V~IgG-HVFKGiLYDqG~e 143 (224)
-+|.||| |-|.|||-|---|
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 9999999887544
No 9
>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=33.34 E-value=13 Score=28.87 Aligned_cols=25 Identities=40% Similarity=0.975 Sum_probs=21.5
Q ss_pred CCCcccccccch-----------hhhcCCCcccccc
Q 039064 6 LGVTRCQDCGNQ-----------AKKNCAYMRCRTC 30 (224)
Q Consensus 6 ~gg~~CQDCGNQ-----------AKKdC~h~RCRTC 30 (224)
+++..||-||-. |=.+|.|--||.|
T Consensus 14 ~~~qiCqiCGD~VG~~~~Ge~FVAC~eC~FPvCrpC 49 (93)
T 1weo_A 14 LDGQFCEICGDQIGLTVEGDLFVACNECGFPACRPC 49 (93)
T ss_dssp CSSCBCSSSCCBCCBCSSSSBCCSCSSSCCCCCHHH
T ss_pred cCCCccccccCccccCCCCCEEEeeeccCChhhHHH
Confidence 356799999988 6678999999999
No 10
>3sqf_A Protease; folded monomer, retropepsin, D-type retrovirus; 1.63A {Mason-pfizer monkey virus} SCOP: b.50.1.1 PDB: 1nso_A
Probab=32.22 E-value=29 Score=27.15 Aligned_cols=20 Identities=15% Similarity=0.468 Sum_probs=17.3
Q ss_pred EEEEecceeeeeeeeccCCCC
Q 039064 124 TSISVGGHIFKGILYYQGCES 144 (224)
Q Consensus 124 t~V~IgGHVFKGiLYDqG~e~ 144 (224)
.+|+|+|+.++++ -|-|.|+
T Consensus 12 vti~I~Gq~~eaL-LDTGADd 31 (114)
T 3sqf_A 12 LTLWLDDKMFTGL-INTGADV 31 (114)
T ss_dssp EEEEETTEEEEEE-ECTTCSS
T ss_pred EEEEECCEEEEEE-EccCCCc
Confidence 4699999999996 5999987
No 11
>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=29.16 E-value=32 Score=26.68 Aligned_cols=18 Identities=33% Similarity=0.279 Sum_probs=16.0
Q ss_pred EEecceeeeeeeeccCCCC
Q 039064 126 ISVGGHIFKGILYYQGCES 144 (224)
Q Consensus 126 V~IgGHVFKGiLYDqG~e~ 144 (224)
|+|+|+.|++ |-|.|.|+
T Consensus 18 ikI~Gq~~ea-LLDTGAD~ 35 (116)
T 2hah_A 18 IFVNGYPIKF-LLDTGADI 35 (116)
T ss_dssp EEETTEEEEE-EECTTCSS
T ss_pred EEECCEEEEE-EecCCCCc
Confidence 9999999998 55999996
No 12
>3tu3_A EXOU chaperone, SPCU; type III secretion system, SPC infectious diseases, structural genomics, center for struct genomics of infectious diseases, csgid; 1.92A {Pseudomonas aeruginosa} PDB: 4akx_A*
Probab=23.57 E-value=27 Score=28.85 Aligned_cols=17 Identities=18% Similarity=0.247 Sum_probs=14.8
Q ss_pred cCCCCCCCCcccccccc
Q 039064 196 ETPYSSSFTYPFGSYVS 212 (224)
Q Consensus 196 ~dP~ss~Yp~p~naf~a 212 (224)
-+|||||||+-|.+=.|
T Consensus 89 N~PFSsL~P~kL~AD~A 105 (161)
T 3tu3_A 89 NSPFSSLAPVKLAADDA 105 (161)
T ss_dssp TSTTCTTTTCEEEECTT
T ss_pred CCchhhccchhhccccc
Confidence 37999999999988777
No 13
>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=22.87 E-value=21 Score=26.01 Aligned_cols=22 Identities=27% Similarity=0.783 Sum_probs=17.1
Q ss_pred cccccccc--hhhhcCCCcccccc
Q 039064 9 TRCQDCGN--QAKKNCAYMRCRTC 30 (224)
Q Consensus 9 ~~CQDCGN--QAKKdC~h~RCRTC 30 (224)
+.|.||++ +++-.-...+|..|
T Consensus 38 I~CnDC~~~s~v~~h~lg~kC~~C 61 (79)
T 2k2d_A 38 ILCNDCNGRSTVQFHILGMKCKIC 61 (79)
T ss_dssp EEESSSCCEEEEECCTTCCCCTTT
T ss_pred EECCCCCCCccCCceeecccCcCC
Confidence 57999998 56666666788886
No 14
>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=22.02 E-value=14 Score=28.33 Aligned_cols=38 Identities=24% Similarity=0.336 Sum_probs=23.5
Q ss_pred CCccccCcceeeEEEeeccccccccceeEEEEEEEecceeeee
Q 039064 93 FPAEITSEATFRCVKVSSIDDAIDRTTLAYKTSISVGGHIFKG 135 (224)
Q Consensus 93 fP~eV~s~AvFRCVRVssidd~e~e~~~AYQt~V~IgGHVFKG 135 (224)
=|.=-.-.|+|.=++.++-|++. .+-|. -++ =||.|+-
T Consensus 75 Cp~C~~~~a~~~q~q~rsade~~---t~fy~-C~~-C~~~w~~ 112 (122)
T 1twf_I 75 CPKCHSRENVFFQSQQRRKDTSM---VLFFV-CLS-CSHIFTS 112 (122)
T ss_dssp CTTTCCCCEEEEECSSCCTTCCC---CEEEE-ETT-TCCEEEC
T ss_pred CCCCCCCEEEEEEecCccCCCCc---eEEEE-eCC-CCCEecc
Confidence 44444557888888888877753 23343 333 5888864
No 15
>1hd6_A Pheromone ER-22; NMR {Euplotes raikovi} SCOP: a.10.1.1
Probab=21.41 E-value=20 Score=23.65 Aligned_cols=9 Identities=67% Similarity=1.246 Sum_probs=7.1
Q ss_pred cccccccch
Q 039064 9 TRCQDCGNQ 17 (224)
Q Consensus 9 ~~CQDCGNQ 17 (224)
+-||+|+|-
T Consensus 13 tlcq~c~n~ 21 (37)
T 1hd6_A 13 TLCQDCENT 21 (37)
T ss_dssp HHHTTSTTH
T ss_pred HHHHHcCCc
Confidence 469999984
No 16
>1mb6_A Huwentoxin-IV; containing A double-stranded beta-sheet and four beta-turns; NMR {Ornithoctonus huwena} SCOP: g.3.6.2 PDB: 1niy_A 1ryv_A 1ryg_A
Probab=21.03 E-value=23 Score=22.83 Aligned_cols=11 Identities=36% Similarity=1.044 Sum_probs=9.8
Q ss_pred cccccCCcccc
Q 039064 29 TCCKRRGYECE 39 (224)
Q Consensus 29 TCCKsRGf~C~ 39 (224)
.||||.||.|+
T Consensus 15 ~CC~~~~~~Cs 25 (35)
T 1mb6_A 15 QCCKSSKLVCS 25 (35)
T ss_dssp CBCTTTTEEEE
T ss_pred cccCCCCCccC
Confidence 49999999997
Done!