Query 042384
Match_columns 78
No_of_seqs 30 out of 32
Neff 2.5
Searched_HMMs 29240
Date Mon Mar 25 09:31:42 2013
Command hhsearch -i /work/01045/syshi/csienesis_hhblits_a3m/042384.a3m -d /work/01045/syshi/HHdatabase/pdb70.hhm -o /work/01045/syshi/hhsearch_pdb/042384hhsearch_pdb -cpu 12 -v 0
No Hit Prob E-value P-value Score SS Cols Query HMM Template HMM
1 2vqe_N 30S ribosomal protein S 59.8 1.3 4.6E-05 26.6 -0.7 24 55-78 1-24 (61)
2 3uqs_A RNA-dependent RNA polym 46.4 9.7 0.00033 30.0 2.1 23 39-61 241-263 (515)
3 3bso_A RNA dependent RNA polym 44.1 9.6 0.00033 29.5 1.7 24 39-62 241-264 (510)
4 2ckw_A RNA-directed RNA polyme 43.0 10 0.00034 29.4 1.6 24 39-62 241-264 (515)
5 3n6m_A RNA-dependent RNA polym 32.8 15 0.00051 28.4 1.2 22 39-60 232-253 (462)
6 3mbk_A Ubiquitin-associated an 32.8 20 0.00068 24.1 1.7 17 43-59 53-69 (264)
7 1khv_A RNA-directed RNA polyme 31.3 16 0.00053 28.2 1.0 23 39-61 249-271 (516)
8 1ra6_A P3D, genome polyprotein 28.6 18 0.00062 27.6 1.0 24 39-62 232-255 (461)
9 2ijd_1 Picornain 3C, RNA-direc 27.7 21 0.0007 28.7 1.2 23 39-61 415-437 (644)
10 2l7q_A Conserved protein found 27.5 8.5 0.00029 26.6 -0.9 14 22-35 96-109 (124)
11 2l3b_A Conserved protein found 26.8 11 0.00037 26.2 -0.5 14 22-35 96-109 (130)
12 3zrh_A Ubiquitin thioesterase 25.1 19 0.00064 29.4 0.6 15 31-45 400-414 (454)
13 1xr7_A Genome polyprotein; RNA 23.3 28 0.00097 26.6 1.2 22 39-60 233-254 (460)
14 1xr5_A Genome polyprotein; RNA 23.2 35 0.0012 26.0 1.7 22 39-60 232-253 (466)
15 4hbz_A Putative phosphohistidi 22.5 32 0.0011 22.9 1.2 20 40-59 33-52 (186)
16 4b6i_A SMA2266; signaling prot 21.4 23 0.00079 23.3 0.3 12 28-39 9-20 (102)
17 1v60_A BOLA1, riken cDNA 18100 20.9 49 0.0017 22.0 1.9 26 7-32 73-112 (123)
No 1
>2vqe_N 30S ribosomal protein S14 type Z; tRNA-binding, rRNA-binding, metal-binding, zinc-finger, translation; HET: TM2 PAR; 2.5A {Thermus thermophilus} SCOP: g.39.1.7 PDB: 1gix_Q* 1hnw_N* 1hnx_N* 1hnz_N* 1hr0_N 1ibk_N* 1ibl_N* 1ibm_N 1jgo_Q* 1jgp_Q* 1jgq_Q* 1ml5_Q* 1xmo_N* 1xmq_N* 1xnq_N* 1xnr_N* 1yl4_Q 2b64_N* 2b9m_N* 2b9o_N* ...
Probab=59.79 E-value=1.3 Score=26.62 Aligned_cols=24 Identities=33% Similarity=0.495 Sum_probs=19.7
Q ss_pred HHHHHHHhcccccCCCCcccccCC
Q 042384 55 SARAALAQEGRRAHSGGLRVENRC 78 (78)
Q Consensus 55 sAR~ALvae~rr~~s~~lri~~~c 78 (78)
||+.++|+-..+.++.+-|+.|+|
T Consensus 1 ma~~~~~~k~~~~~~~~~r~~nRC 24 (61)
T 2vqe_N 1 MARKALIEKAKRTPKFKVRAYTRC 24 (61)
T ss_dssp -CCGGGGGGCCSCCSSGGGCCCCC
T ss_pred CchhHHHHHhccCCCCCCCCceee
Confidence 577788888878888889999998
No 2
>3uqs_A RNA-dependent RNA polymerase; transferase; 2.00A {Murine norovirus} PDB: 3ur0_A* 3upf_A* 3sfg_A* 3nah_A 3nai_A 3qid_A* 3sfu_A*
Probab=46.42 E-value=9.7 Score=29.97 Aligned_cols=23 Identities=13% Similarity=0.138 Sum_probs=18.4
Q ss_pred hccccchhccCcchhhHHHHHHH
Q 042384 39 IDCSAFDALLVPSGIMSARAALA 61 (78)
Q Consensus 39 iDcs~FDa~l~p~~i~sAR~ALv 61 (78)
.|||.||..+.|.-|..|-+.|.
T Consensus 241 ~DyS~FDssl~~~~~~a~~~il~ 263 (515)
T 3uqs_A 241 ADYTRWDSTQQRAILKRAGDIMV 263 (515)
T ss_dssp CCCSSTGGGCCHHHHHHHHHHHH
T ss_pred ceecCCcccccHHHHHHHHHHHH
Confidence 79999999999987766665554
No 3
>3bso_A RNA dependent RNA polymerase; RNA-dependent RNA polymerase, viral replication, antiviral E inhibitor, helicase, hydrolase; HET: CTP; 1.74A {Norwalk virus} PDB: 3bsn_A* 3h5x_A* 3h5y_A* 1sh0_A 1sh2_A 1sh3_A 2b43_A
Probab=44.10 E-value=9.6 Score=29.50 Aligned_cols=24 Identities=17% Similarity=0.195 Sum_probs=18.8
Q ss_pred hccccchhccCcchhhHHHHHHHh
Q 042384 39 IDCSAFDALLVPSGIMSARAALAQ 62 (78)
Q Consensus 39 iDcs~FDa~l~p~~i~sAR~ALva 62 (78)
.|||.||..+.|.-|..|-+.|..
T Consensus 241 ~DyS~FDssl~p~~~~~~~~il~~ 264 (510)
T 3bso_A 241 ADYSRWDSTQQRAVLAAALEIMVK 264 (510)
T ss_dssp EEETTTGGGCCHHHHHHHHHHHHH
T ss_pred cchhcccccchHHHHHHHHHHHHH
Confidence 599999999999777676665443
No 4
>2ckw_A RNA-directed RNA polymerase; hydrolase, nucleotide-binding, nucleotidyltransferase, covalent protein-RNA linkage, RNA elongation; 2.3A {Sapporo virus} PDB: 2uuw_A 2wk4_A 2uut_A
Probab=42.97 E-value=10 Score=29.35 Aligned_cols=24 Identities=25% Similarity=0.339 Sum_probs=19.5
Q ss_pred hccccchhccCcchhhHHHHHHHh
Q 042384 39 IDCSAFDALLVPSGIMSARAALAQ 62 (78)
Q Consensus 39 iDcs~FDa~l~p~~i~sAR~ALva 62 (78)
.|||.||+.+.|.-|..|.+.+..
T Consensus 241 ~DyS~FDss~~~~~~~~~~~i~~~ 264 (515)
T 2ckw_A 241 LDYSKWDSTQNPAVTAASLAILER 264 (515)
T ss_dssp CCCSSTGGGCCHHHHHHHHHHHHT
T ss_pred eeccCcCCcCCHHHHHHHHHHHHH
Confidence 599999999999887777766543
No 5
>3n6m_A RNA-dependent RNA polymerase; EV71, RDRP, GTP, transferase; HET: GTP; 2.50A {Human enterovirus 71} SCOP: e.8.1.4 PDB: 3n6l_A* 3n6n_A*
Probab=32.85 E-value=15 Score=28.45 Aligned_cols=22 Identities=32% Similarity=0.397 Sum_probs=17.7
Q ss_pred hccccchhccCcchhhHHHHHH
Q 042384 39 IDCSAFDALLVPSGIMSARAAL 60 (78)
Q Consensus 39 iDcs~FDa~l~p~~i~sAR~AL 60 (78)
.|||.||..+.|.-+..+.+.|
T Consensus 232 ~DyS~FDssl~~~~~~ai~~il 253 (462)
T 3n6m_A 232 FDYSGYDASLSPVWFRALELVL 253 (462)
T ss_dssp EEEESHHHHCCHHHHHHHHHHH
T ss_pred eecCCCCcHHHHHHHHHHHHHH
Confidence 4999999999998777665544
No 6
>3mbk_A Ubiquitin-associated and SH3 domain-containing PR; PGM, STS-1, signaling protein, low PH, alternative splicing, cytoplasm, nucleus, phosphoprotein; 1.35A {Mus musculus} PDB: 2ikq_A 2h0q_A
Probab=32.81 E-value=20 Score=24.11 Aligned_cols=17 Identities=35% Similarity=0.309 Sum_probs=14.7
Q ss_pred cchhccCcchhhHHHHH
Q 042384 43 AFDALLVPSGIMSARAA 59 (78)
Q Consensus 43 ~FDa~l~p~~i~sAR~A 59 (78)
.+|.+|.+.|+..|+.+
T Consensus 53 d~D~pLT~~G~~QA~~l 69 (264)
T 3mbk_A 53 EKDAPITVFGCMQARLV 69 (264)
T ss_dssp TTSCCBCHHHHHHHHHH
T ss_pred CCCCCCChHHHHHHHHH
Confidence 48999999999999764
No 7
>1khv_A RNA-directed RNA polymerase; RNA-dependent RNA polymerase, transferase; 2.50A {Rabbit hemorrhagic disease virus} SCOP: e.8.1.4 PDB: 1khw_A
Probab=31.32 E-value=16 Score=28.23 Aligned_cols=23 Identities=30% Similarity=0.403 Sum_probs=18.4
Q ss_pred hccccchhccCcchhhHHHHHHH
Q 042384 39 IDCSAFDALLVPSGIMSARAALA 61 (78)
Q Consensus 39 iDcs~FDa~l~p~~i~sAR~ALv 61 (78)
.|+|.||..+.|.-|..+-+.|.
T Consensus 249 ~DyS~FDssl~~~~~~~~~~il~ 271 (516)
T 1khv_A 249 LDYSKWDSTMSPCVVRLAIDILA 271 (516)
T ss_dssp EEETTHHHHCCHHHHHHHHHHHH
T ss_pred CcccccCcchHHHHHHHHHHHHH
Confidence 39999999999987777766554
No 8
>1ra6_A P3D, genome polyprotein; nucleotidyltransferase, RNA-dependent, polym terminus, transferase; 2.00A {Human poliovirus 1} SCOP: e.8.1.4 PDB: 1ra7_A* 2ily_A* 2ilz_A* 2im0_A* 2im1_A* 2im2_A* 2im3_A* 2ijf_A 3ol9_A* 3ol7_A 3ol8_A 3ol6_A* 3ola_A* 3olb_A* 1tql_A 1rdr_A 1raj_A 3ddk_A 3cdu_A 3cdw_A
Probab=28.58 E-value=18 Score=27.57 Aligned_cols=24 Identities=25% Similarity=0.439 Sum_probs=18.6
Q ss_pred hccccchhccCcchhhHHHHHHHh
Q 042384 39 IDCSAFDALLVPSGIMSARAALAQ 62 (78)
Q Consensus 39 iDcs~FDa~l~p~~i~sAR~ALva 62 (78)
.|+|.||..+.|.-+..+.+.|..
T Consensus 232 ~DyS~FDss~~~~~~~~~~~il~~ 255 (461)
T 1ra6_A 232 FDYTGYDASLSPAWFEALKMVLEK 255 (461)
T ss_dssp CEESSHHHHCCHHHHHHHHHHHHH
T ss_pred ceeCCCccchhHHHHHHHHHHHHH
Confidence 499999999999777766655543
No 9
>2ijd_1 Picornain 3C, RNA-directed RNA polymerase; RNA-dependent RNA polymerase, picornavirus, protease, hydrolase, transferase; 3.40A {Human poliovirus 1} SCOP: b.47.1.4 e.8.1.4
Probab=27.75 E-value=21 Score=28.68 Aligned_cols=23 Identities=26% Similarity=0.436 Sum_probs=18.7
Q ss_pred hccccchhccCcchhhHHHHHHH
Q 042384 39 IDCSAFDALLVPSGIMSARAALA 61 (78)
Q Consensus 39 iDcs~FDa~l~p~~i~sAR~ALv 61 (78)
.|||.||..+.|.-+..|.+.|.
T Consensus 415 ~DyS~FDssl~~~~~~~~~~il~ 437 (644)
T 2ijd_1 415 FDYTGYDASLSPAWFEALKMVLE 437 (644)
T ss_dssp EEESSHHHHCCHHHHHHHHHHHH
T ss_pred eeecCccccccHHHHHHHHHHHH
Confidence 49999999999987777766543
No 10
>2l7q_A Conserved protein found in conjugate transposon; NESG, structural genomics, PSI-biology; NMR {Bacteroides vulgatus}
Probab=27.45 E-value=8.5 Score=26.58 Aligned_cols=14 Identities=29% Similarity=0.748 Sum_probs=12.5
Q ss_pred ceecCCccchhhhh
Q 042384 22 RVWIPDIWGQEEML 35 (78)
Q Consensus 22 rV~IPd~WGqE~lL 35 (78)
.|||-|+|||+..|
T Consensus 96 dv~veDnfGq~~ql 109 (124)
T 2l7q_A 96 DLYFEDNWGNLQQL 109 (124)
T ss_dssp EEEEEETTTEEEEE
T ss_pred EEEEEcCCCcEEEE
Confidence 58999999999876
No 11
>2l3b_A Conserved protein found in conjugate transposon; beta, structural genomics, PSI-biology; NMR {Bacteroides thetaiotaomicron}
Probab=26.79 E-value=11 Score=26.22 Aligned_cols=14 Identities=36% Similarity=0.612 Sum_probs=12.5
Q ss_pred ceecCCccchhhhh
Q 042384 22 RVWIPDIWGQEEML 35 (78)
Q Consensus 22 rV~IPd~WGqE~lL 35 (78)
.|||-|+|||+..|
T Consensus 96 dv~veDnfGq~~ql 109 (130)
T 2l3b_A 96 DVYFQDSFGQLQQL 109 (130)
T ss_dssp EEEEECTTSCEEEE
T ss_pred EEEEEcCCCCEEEE
Confidence 58999999999876
No 12
>3zrh_A Ubiquitin thioesterase zranb1; hydrolase, deubiquitinating enzyme, WNT signaling, ovarian T domain; 2.23A {Homo sapiens}
Probab=25.14 E-value=19 Score=29.37 Aligned_cols=15 Identities=40% Similarity=1.190 Sum_probs=12.3
Q ss_pred hhhhhhhhhccccch
Q 042384 31 QEEMLKDWIDCSAFD 45 (78)
Q Consensus 31 qE~lLKDWiDcs~FD 45 (78)
+|++||+|.||-.=+
T Consensus 400 ~~~ll~~~ld~~~t~ 414 (454)
T 3zrh_A 400 QEKLLREWLDCCVTE 414 (454)
T ss_dssp HHHHHHHHSCEEECT
T ss_pred HHHHHHHHHHHhccc
Confidence 367999999998665
No 13
>1xr7_A Genome polyprotein; RNA-dependent RNA polymerase, transferase; 2.30A {Human rhinovirus 16} SCOP: e.8.1.4 PDB: 1tp7_A* 1xr6_A
Probab=23.27 E-value=28 Score=26.55 Aligned_cols=22 Identities=18% Similarity=0.291 Sum_probs=16.6
Q ss_pred hccccchhccCcchhhHHHHHH
Q 042384 39 IDCSAFDALLVPSGIMSARAAL 60 (78)
Q Consensus 39 iDcs~FDa~l~p~~i~sAR~AL 60 (78)
.|+|.||..+.|.-+..+.+.|
T Consensus 233 ~DyS~FDss~~~~~~~~i~~il 254 (460)
T 1xr7_A 233 FDYTNYDGSIHPIWFKALGMVL 254 (460)
T ss_dssp EEESSHHHHCCHHHHHHHHHHH
T ss_pred CccCCCcCcCCHHHHHHHHHHH
Confidence 6999999999997655554443
No 14
>1xr5_A Genome polyprotein; RNA-dependent RNA polymerase, transferase; 2.80A {Human rhinovirus 14} SCOP: e.8.1.4
Probab=23.20 E-value=35 Score=25.96 Aligned_cols=22 Identities=36% Similarity=0.460 Sum_probs=16.2
Q ss_pred hccccchhccCcchhhHHHHHH
Q 042384 39 IDCSAFDALLVPSGIMSARAAL 60 (78)
Q Consensus 39 iDcs~FDa~l~p~~i~sAR~AL 60 (78)
.|+|.||..+.|.-+..+.+.|
T Consensus 232 ~D~S~FDss~~~~~~~~i~~il 253 (466)
T 1xr5_A 232 FDYSNFDASLSPVWFVCLEKVL 253 (466)
T ss_dssp EEESSTGGGCCHHHHHHHHHHH
T ss_pred ceeCCCCCcCCHHHHHHHHHHH
Confidence 4999999999986555554433
No 15
>4hbz_A Putative phosphohistidine phosphatase, SIXA; structural genomics, PSI-biology, midwest center for structu genomics, MCSG, HP_PGM_LIKE; HET: PGE; 1.55A {Nakamurella multipartita}
Probab=22.50 E-value=32 Score=22.92 Aligned_cols=20 Identities=35% Similarity=0.486 Sum_probs=16.4
Q ss_pred ccccchhccCcchhhHHHHH
Q 042384 40 DCSAFDALLVPSGIMSARAA 59 (78)
Q Consensus 40 Dcs~FDa~l~p~~i~sAR~A 59 (78)
+-+.||++|.+.|+..|+..
T Consensus 33 ~~~D~dRpLt~~G~~~a~~~ 52 (186)
T 4hbz_A 33 AVRDHDRPLTPDGVRAATAA 52 (186)
T ss_dssp CSSGGGCCBCHHHHHHHHHH
T ss_pred CCCCCCCCCCHHHHHHHHHh
Confidence 34679999999999988764
No 16
>4b6i_A SMA2266; signaling protein; 1.95A {Serratia marcescens}
Probab=21.37 E-value=23 Score=23.29 Aligned_cols=12 Identities=33% Similarity=0.844 Sum_probs=10.1
Q ss_pred ccchhhhhhhhh
Q 042384 28 IWGQEEMLKDWI 39 (78)
Q Consensus 28 ~WGqE~lLKDWi 39 (78)
+.-||+++|||+
T Consensus 9 ~~sq~q~~Kn~v 20 (102)
T 4b6i_A 9 ALSQEALYKNWL 20 (102)
T ss_dssp TSCHHHHHHHHH
T ss_pred hcCHHHHHHHHH
Confidence 567999999997
No 17
>1v60_A BOLA1, riken cDNA 1810037G04; stationary phase morphogene, structural genomics, riken structural genomics/proteomics initiative, RSGI; NMR {Mus musculus}
Probab=20.93 E-value=49 Score=22.00 Aligned_cols=26 Identities=35% Similarity=0.712 Sum_probs=19.7
Q ss_pred hHHHHHHHHH-------HHhhc-------ceecCCccchh
Q 042384 7 NGRERLKRHR-------IDVAG-------RVWIPDIWGQE 32 (78)
Q Consensus 7 sgRERLKRhR-------~EvaG-------rV~IPd~WGqE 32 (78)
.|.-||+||| .|+++ +.+-|+.|.+.
T Consensus 73 ~Gks~v~RHRlVy~aL~~ei~~~IHALsi~t~TP~Ew~~~ 112 (123)
T 1v60_A 73 EGMSPLQRHRLVHEALSEELAGPVHALAIQAKTPAQWREN 112 (123)
T ss_dssp TTCCHHHHHHHHHHHTHHHHTTTCSEEEEEEECTTTTTTC
T ss_pred CCCCHHHHHHHHHHHHHHHHcCCcceeEeEecCHHHHHhc
Confidence 4667899999 57777 56789998654
Done!