Query 028101
Match_columns 214
No_of_seqs 48 out of 50
Neff 2.6
Searched_HMMs 29240
Date Mon Mar 25 09:54:12 2013
Command hhsearch -i /work/01045/syshi/csienesis_hhblits_a3m/028101.a3m -d /work/01045/syshi/HHdatabase/pdb70.hhm -o /work/01045/syshi/hhsearch_pdb/028101hhsearch_pdb -cpu 12 -v 0
No Hit Prob E-value P-value Score SS Cols Query HMM Template HMM
1 3i1m_R 30S ribosomal protein S 99.8 6.6E-21 2.2E-25 140.6 1.7 49 164-212 6-54 (75)
2 2vqe_R 30S ribosomal protein S 99.8 1.9E-20 6.6E-25 141.5 1.0 50 163-212 16-65 (88)
3 3bbn_R Ribosomal protein S18; 99.6 2.3E-17 7.7E-22 128.5 1.2 47 164-212 15-61 (103)
4 3r8n_R 30S ribosomal protein S 99.6 8.6E-17 2.9E-21 112.8 1.6 35 178-212 1-35 (55)
5 2elu_A Zinc finger protein 406 57.4 3.6 0.00012 26.9 1.0 26 164-194 7-32 (37)
6 2ic6_A Nucleocapsid protein; h 18.1 32 0.0011 25.6 0.5 21 112-132 25-45 (78)
7 2k48_A Nucleoprotein; viral pr 13.1 50 0.0017 25.9 0.5 21 112-132 55-75 (107)
8 2ic9_A Nucleocapsid protein; h 10.9 66 0.0023 24.7 0.5 20 112-131 25-44 (96)
9 4fi5_A Nucleoprotein; structur 10.1 73 0.0025 25.2 0.5 21 112-132 42-62 (113)
10 2noo_A NIKA, nickel-binding pe 7.9 51 0.0018 28.7 -1.3 21 133-153 64-84 (502)
No 1
>3i1m_R 30S ribosomal protein S18; ribosome structure, protein-RNA complex, ribonucleoprotein, ribosomal protein, RNA-binding, rRNA-binding, antibiotic resistance; 3.19A {Escherichia coli k-12} PDB: 1vs7_R* 1vs5_R 3i1o_R 3i1q_R 3i1s_R 3i1z_R 3i21_R 3izv_V* 3izw_V* 3kc4_R 3or9_R 3ora_R 3sfs_R* 3uoq_R* 4gaq_R* 4gas_R* 2qal_R* 1p6g_R 1p87_R 2aw7_R ...
Probab=99.80 E-value=6.6e-21 Score=140.64 Aligned_cols=49 Identities=22% Similarity=0.388 Sum_probs=34.3
Q ss_pred CCcceeeehhhhhhcccccCHHHHHhhcccccceeecccchhhhhhhhh
Q 028101 164 RRVEFEVTTKKVLEDADFRNVKFLTQFITEAGIIIKRSMVMLLKFLEKT 212 (214)
Q Consensus 164 ~R~K~c~ft~evlekiDYKnV~fL~~FITE~GKIiPRR~TG~sAK~Qr~ 212 (214)
+|+|+|+||++.++.||||||++|++||||+|||+|||+||+||||||.
T Consensus 6 ~r~k~C~fc~~~~~~iDYknv~lL~~Fis~~GkIlprr~TGlc~k~QR~ 54 (75)
T 3i1m_R 6 RRRKFCRFTAEGVQEIDYKDIATLKNYITESGKIVPSRITGTRAKYQRQ 54 (75)
T ss_dssp --------------CCSTTCHHHHGGGBCTTCCBCCHHHHCCCHHHHHH
T ss_pred CCCCCCCcccCCCCcCCcCCHHHHHHHcCcCCCCcCccccccCHHHHHH
Confidence 6889999999999999999999999999999999999999999999984
No 2
>2vqe_R 30S ribosomal protein S18; tRNA-binding, rRNA-binding, metal-binding, zinc-finger, translation; HET: TM2 PAR; 2.5A {Thermus thermophilus} SCOP: a.4.8.1 PDB: 1fka_R 1fjg_R 1gix_U* 1hnw_R* 1hnx_R* 1hnz_R* 1hr0_R 1ibk_R* 1ibl_R* 1ibm_R 1j5e_R 1jgo_U* 1jgp_U* 1jgq_U* 1ml5_U* 1n32_R* 1n33_R* 1n34_R 1n36_R 1xmo_R* ...
Probab=99.78 E-value=1.9e-20 Score=141.48 Aligned_cols=50 Identities=26% Similarity=0.313 Sum_probs=47.7
Q ss_pred CCCcceeeehhhhhhcccccCHHHHHhhcccccceeecccchhhhhhhhh
Q 028101 163 TRRVEFEVTTKKVLEDADFRNVKFLTQFITEAGIIIKRSMVMLLKFLEKT 212 (214)
Q Consensus 163 ~~R~K~c~ft~evlekiDYKnV~fL~~FITE~GKIiPRR~TG~sAK~Qr~ 212 (214)
.+|+|+|+||.+.++.||||||++|++||||+|||+|||+||+||||||.
T Consensus 16 ~~r~k~C~~c~~~~~~iDYKnv~lL~~Fise~GkIlprriTGlc~k~QR~ 65 (88)
T 2vqe_R 16 PSRKAKVKATLGEFDLRDYRNVEVLKRFLSETGKILPRRRTGLSGKEQRI 65 (88)
T ss_dssp CCCSCCTTTSCCCEETTCTTCHHHHGGGBCSSSCBCCHHHHCCCHHHHHH
T ss_pred CCCCCCCCccCCCCCcCCcCCHHHHHHHcccCCCCCchhhcCCCHHHHHH
Confidence 36889999999999999999999999999999999999999999999984
No 3
>3bbn_R Ribosomal protein S18; small ribosomal subunit, spinach chloroplast ribosome, ribonucleoprotein particle, macromolecular complex; 9.40A {Spinacea oleracea} SCOP: i.1.1.1
Probab=99.64 E-value=2.3e-17 Score=128.54 Aligned_cols=47 Identities=23% Similarity=0.396 Sum_probs=35.1
Q ss_pred CCcceeeehhhhhhcccccCHHHHHhhcccccceeecccchhhhhhhhh
Q 028101 164 RRVEFEVTTKKVLEDADFRNVKFLTQFITEAGIIIKRSMVMLLKFLEKT 212 (214)
Q Consensus 164 ~R~K~c~ft~evlekiDYKnV~fL~~FITE~GKIiPRR~TG~sAK~Qr~ 212 (214)
-|++.|++|.. +.||||||++|++||||+|||+|||+||+||||||.
T Consensus 15 ~rr~~cpi~~~--~~IDYKnv~lL~~FIse~GKIlpRRiTGlcaK~QR~ 61 (103)
T 3bbn_R 15 FRRRLPPIQSG--DRIDYRNMSLISRFISEQGKILSRRVNRLTLKQQRL 61 (103)
T ss_dssp ----------C--CSSCCSCHHHHTTTSCSSSSCCCSSSTTCCTTTTTT
T ss_pred ccCCCCCcCCC--CcCCcCCHHHHHHHhccCCCCcCccccCCCHHHHHH
Confidence 46789999973 689999999999999999999999999999999984
No 4
>3r8n_R 30S ribosomal protein S18; protein biosynthesis, RNA, tRNA, transfer RNA, 16S ribosomal subunit, RRF; 3.00A {Escherichia coli} PDB: 2ykr_R 3fih_R* 3iy8_R 3j18_R* 2wwl_R 3oar_R 3oaq_R 3ofb_R 3ofa_R 3ofp_R 3ofx_R 3ofy_R 3ofo_R 3r8o_R 4a2i_R 4gd1_R 4gd2_R
Probab=99.61 E-value=8.6e-17 Score=112.78 Aligned_cols=35 Identities=20% Similarity=0.430 Sum_probs=33.6
Q ss_pred cccccCHHHHHhhcccccceeecccchhhhhhhhh
Q 028101 178 DADFRNVKFLTQFITEAGIIIKRSMVMLLKFLEKT 212 (214)
Q Consensus 178 kiDYKnV~fL~~FITE~GKIiPRR~TG~sAK~Qr~ 212 (214)
.||||||++|++||||+|||+|||+||+|+|+||.
T Consensus 1 ~iDYknv~lL~~Fis~~GkIlprr~TGlc~k~QR~ 35 (55)
T 3r8n_R 1 EIDYKDIATLKNYITESGKIVPSRITGTRAKYQRQ 35 (55)
T ss_dssp CCCTTCHHHHGGGBCTTCCBCCHHHHCCCHHHHHH
T ss_pred CCCccCHHHHHHHcCCCCCCcCccccccCHHHHHH
Confidence 48999999999999999999999999999999984
No 5
>2elu_A Zinc finger protein 406; ZFAT zinc finger 1, structural genomics, NPPSFA, national project on protein structural and functional analyses; NMR {Homo sapiens} PDB: 2elw_A
Probab=57.36 E-value=3.6 Score=26.94 Aligned_cols=26 Identities=27% Similarity=0.230 Sum_probs=21.0
Q ss_pred CCcceeeehhhhhhcccccCHHHHHhhcccc
Q 028101 164 RRVEFEVTTKKVLEDADFRNVKFLTQFITEA 194 (214)
Q Consensus 164 ~R~K~c~ft~evlekiDYKnV~fL~~FITE~ 194 (214)
+-++-|+||+.. |-||+-|-+-|-|+
T Consensus 7 kikqhcrfckkk-----ysdvknlikhire~ 32 (37)
T 2elu_A 7 GIKQHCRFCKKK-----YSDVKNLIKHIRDA 32 (37)
T ss_dssp CCCCEETTTTEE-----CSSHHHHHHHHHHT
T ss_pred HHHHHHHHHHHH-----HHHHHHHHHHHHHh
Confidence 567899999876 78888888877664
No 6
>2ic6_A Nucleocapsid protein; hantavirus, bunyaviridae, ssRNA negative- strand viruses, antiparallel coiled coil, viral protein; 1.15A {Sin nombre virus}
Probab=18.14 E-value=32 Score=25.59 Aligned_cols=21 Identities=38% Similarity=0.681 Sum_probs=17.7
Q ss_pred hHHHHHHhhhcccCCCccCCC
Q 028101 112 QGKLREAARHFEYDSEEVDKD 132 (214)
Q Consensus 112 d~kL~~aA~~f~~~~~e~d~~ 132 (214)
..||++|-..|+.||||+-+-
T Consensus 25 ~QKLkdA~~~~e~DPDevNK~ 45 (78)
T 2ic6_A 25 RQKLKDAERAVELDPDDVNKS 45 (78)
T ss_dssp HHHHHHHHHHHHHCCCHHHHH
T ss_pred HHHHHHHHHHhcCCCcHHHHH
Confidence 479999999999999987543
No 7
>2k48_A Nucleoprotein; viral protein; NMR {Andes virus}
Probab=13.15 E-value=50 Score=25.89 Aligned_cols=21 Identities=33% Similarity=0.632 Sum_probs=17.7
Q ss_pred hHHHHHHhhhcccCCCccCCC
Q 028101 112 QGKLREAARHFEYDSEEVDKD 132 (214)
Q Consensus 112 d~kL~~aA~~f~~~~~e~d~~ 132 (214)
..||++|-..|+.||||+-+.
T Consensus 55 rQKLkdAe~~~E~DPDevNK~ 75 (107)
T 2k48_A 55 RQKLKDAEKAVEVDPDDVNKS 75 (107)
T ss_dssp HHHHHHHHHHHHHCCCHHHHH
T ss_pred HHHHHHHHHHhcCCCcHHHHH
Confidence 479999999999999987543
No 8
>2ic9_A Nucleocapsid protein; hantavirus, bunyaviridae, ssRNA negative- strand viruses, antiparallel coiled coil, viral protein; 2.00A {Sin nombre virus}
Probab=10.86 E-value=66 Score=24.72 Aligned_cols=20 Identities=40% Similarity=0.707 Sum_probs=17.2
Q ss_pred hHHHHHHhhhcccCCCccCC
Q 028101 112 QGKLREAARHFEYDSEEVDK 131 (214)
Q Consensus 112 d~kL~~aA~~f~~~~~e~d~ 131 (214)
..||++|-..|+.||||+-+
T Consensus 25 ~QKLkdA~~~~e~DPDevNk 44 (96)
T 2ic9_A 25 RQKLKDAERAVELDPDDVNK 44 (96)
T ss_dssp HHHHHHHHHHHHHCCCHHHH
T ss_pred HHHHHHHHHHhcCCCcHHHH
Confidence 47999999999999998754
No 9
>4fi5_A Nucleoprotein; structural genomics, niaid, national institute of allergy AN infectious diseases; 2.20A {Hantaan virus}
Probab=10.11 E-value=73 Score=25.18 Aligned_cols=21 Identities=33% Similarity=0.700 Sum_probs=17.9
Q ss_pred hHHHHHHhhhcccCCCccCCC
Q 028101 112 QGKLREAARHFEYDSEEVDKD 132 (214)
Q Consensus 112 d~kL~~aA~~f~~~~~e~d~~ 132 (214)
..||++|-..|+.|+||+-+.
T Consensus 42 rQKLkdA~~~~e~DPDevNK~ 62 (113)
T 4fi5_A 42 RQKVRDAEKQYEKDPDELNKR 62 (113)
T ss_dssp HHHHHHHHHHHHHCCCHHHHH
T ss_pred HHHHHHHHHHhcCCCcHHHHH
Confidence 479999999999999987543
No 10
>2noo_A NIKA, nickel-binding periplasmic protein; nickel-bound, transport, iodine, hydrolase; HET: TYI; 1.65A {Escherichia coli K12} PDB: 3mvx_A* 3dp8_A* 3e3k_A* 1zlq_A* 3mvw_A* 3mvy_A* 3mvz_A* 3mw0_A* 3mz9_A* 1uiu_A 1uiv_A 3mzb_A* 3qim_A
Probab=7.92 E-value=51 Score=28.68 Aligned_cols=21 Identities=24% Similarity=0.635 Sum_probs=18.4
Q ss_pred CcccCCCCCCCCCCccCCCCC
Q 028101 133 DYAFRPDVSFKTGMTYEPKDL 153 (214)
Q Consensus 133 dy~~rpd~~f~~G~ty~~~Dl 153 (214)
.|..|+++.|..|+..+++|+
T Consensus 64 tf~LR~gvkf~DG~p~TA~DV 84 (502)
T 2noo_A 64 TFTLRDDVKFSNGEPFDAEAA 84 (502)
T ss_dssp EEEECSSCBCTTSCBCCHHHH
T ss_pred EEEECCCCEecCcCCCCHHHH
Confidence 466899999999999998885
Done!