Query 024580
Match_columns 265
No_of_seqs 166 out of 924
Neff 3.6
Searched_HMMs 29240
Date Mon Mar 25 10:44:55 2013
Command hhsearch -i /work/01045/syshi/csienesis_hhblits_a3m/024580.a3m -d /work/01045/syshi/HHdatabase/pdb70.hhm -o /work/01045/syshi/hhsearch_pdb/024580hhsearch_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 100.0 3.5E-29 1.2E-33 190.9 5.7 68 164-231 6-73 (75)
2 2vqe_R 30S ribosomal protein S 99.9 1.9E-28 6.4E-33 191.7 6.5 68 164-231 17-84 (88)
3 3r8n_R 30S ribosomal protein S 99.9 3.1E-26 1.1E-30 165.7 5.9 54 178-231 1-54 (55)
4 3bbn_R Ribosomal protein S18; 99.9 1.2E-25 4.2E-30 180.5 2.1 66 164-231 15-80 (103)
5 2kxh_B Peptide of FAR upstream 10.9 90 0.0031 20.1 1.0 12 213-224 10-21 (31)
6 2ic6_A Nucleocapsid protein; h 8.5 89 0.0031 23.8 0.4 18 113-130 26-43 (78)
7 2vo9_A EAD500, L-alanyl-D-glut 8.1 2.6E+02 0.0088 23.2 3.2 34 202-235 30-63 (179)
8 2jpc_A SSRB; DNA binding prote 8.1 1.7E+02 0.0059 18.7 1.7 15 214-228 47-61 (61)
9 1b4f_A EPHB2; SAM domain, EPH 6.9 2.9E+02 0.0099 19.6 2.6 20 203-222 52-72 (82)
10 1ucv_A Ephrin type-A receptor 6.7 3E+02 0.01 19.7 2.6 21 203-223 48-69 (81)
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=99.95 E-value=3.5e-29 Score=190.93 Aligned_cols=68 Identities=37% Similarity=0.620 Sum_probs=53.1
Q ss_pred CCCccCcccccCCCccCCCCHHHHHHhcCcCCccccccccCCCHHHHHHHHHHHHHHHHcCcCCcccc
Q 024580 164 RRVEFEVTTKKVLEDADFRNVKFLTQFITEAGIIIKRSMSGISAKAQRKVAREIKTARAFGLMPFTTM 231 (265)
Q Consensus 164 rr~k~c~~~~~~i~~iDYKNv~LLsqFIs~~GkIlpRriTGLcaK~QRkLakAIKRAR~mGLLPfv~~ 231 (265)
+++++|++|.+++.+|||||+++|++|||++|+|+||++||||+|+||+|++|||+||.||||||++.
T Consensus 6 ~r~k~C~fc~~~~~~iDYknv~lL~~Fis~~GkIlprr~TGlc~k~QR~l~~AIKrAR~~gLlP~~~~ 73 (75)
T 3i1m_R 6 RRRKFCRFTAEGVQEIDYKDIATLKNYITESGKIVPSRITGTRAKYQRQLARAIKRARYLSLLPYTDR 73 (75)
T ss_dssp --------------CCSTTCHHHHGGGBCTTCCBCCHHHHCCCHHHHHHHHHHHHHHHTTTSSCSSSC
T ss_pred CCCCCCCcccCCCCcCCcCCHHHHHHHcCcCCCCcCccccccCHHHHHHHHHHHHHHHHhccCCcCCC
Confidence 45678999999999999999999999999999999999999999999999999999999999999975
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=99.95 E-value=1.9e-28 Score=191.72 Aligned_cols=68 Identities=40% Similarity=0.612 Sum_probs=65.0
Q ss_pred CCCccCcccccCCCccCCCCHHHHHHhcCcCCccccccccCCCHHHHHHHHHHHHHHHHcCcCCcccc
Q 024580 164 RRVEFEVTTKKVLEDADFRNVKFLTQFITEAGIIIKRSMSGISAKAQRKVAREIKTARAFGLMPFTTM 231 (265)
Q Consensus 164 rr~k~c~~~~~~i~~iDYKNv~LLsqFIs~~GkIlpRriTGLcaK~QRkLakAIKRAR~mGLLPfv~~ 231 (265)
++++.|++|..++.+|||||+++|++|||++|+|+||++||||+|+||+|++|||+||.||||||++.
T Consensus 17 ~r~k~C~~c~~~~~~iDYKnv~lL~~Fise~GkIlprriTGlc~k~QR~l~~AIKrAR~lgLLP~~~~ 84 (88)
T 2vqe_R 17 SRKAKVKATLGEFDLRDYRNVEVLKRFLSETGKILPRRRTGLSGKEQRILAKTIKRARILGLLPFTEK 84 (88)
T ss_dssp CCSCCTTTSCCCEETTCTTCHHHHGGGBCSSSCBCCHHHHCCCHHHHHHHHHHHHHHHHTTSSCSCCC
T ss_pred CCCCCCCccCCCCCcCCcCCHHHHHHHcccCCCCCchhhcCCCHHHHHHHHHHHHHHHHHhcCCccHh
Confidence 56788999999988999999999999999999999999999999999999999999999999999975
No 3
>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=99.92 E-value=3.1e-26 Score=165.69 Aligned_cols=54 Identities=39% Similarity=0.706 Sum_probs=52.1
Q ss_pred ccCCCCHHHHHHhcCcCCccccccccCCCHHHHHHHHHHHHHHHHcCcCCcccc
Q 024580 178 DADFRNVKFLTQFITEAGIIIKRSMSGISAKAQRKVAREIKTARAFGLMPFTTM 231 (265)
Q Consensus 178 ~iDYKNv~LLsqFIs~~GkIlpRriTGLcaK~QRkLakAIKRAR~mGLLPfv~~ 231 (265)
.|||||+++|++|||++|+|+||++||+|+|+||+|++||||||.||||||++.
T Consensus 1 ~iDYknv~lL~~Fis~~GkIlprr~TGlc~k~QR~l~~AIKrAR~~~LlP~~~~ 54 (55)
T 3r8n_R 1 EIDYKDIATLKNYITESGKIVPSRITGTRAKYQRQLARAIKRARYLSLLPYTDR 54 (55)
T ss_dssp CCCTTCHHHHGGGBCTTCCBCCHHHHCCCHHHHHHHHHHHHHHHHTTSSCSCTT
T ss_pred CCCccCHHHHHHHcCCCCCCcCccccccCHHHHHHHHHHHHHHHHhccCCccCC
Confidence 379999999999999999999999999999999999999999999999999974
No 4
>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=99.91 E-value=1.2e-25 Score=180.52 Aligned_cols=66 Identities=30% Similarity=0.556 Sum_probs=53.9
Q ss_pred CCCccCcccccCCCccCCCCHHHHHHhcCcCCccccccccCCCHHHHHHHHHHHHHHHHcCcCCcccc
Q 024580 164 RRVEFEVTTKKVLEDADFRNVKFLTQFITEAGIIIKRSMSGISAKAQRKVAREIKTARAFGLMPFTTM 231 (265)
Q Consensus 164 rr~k~c~~~~~~i~~iDYKNv~LLsqFIs~~GkIlpRriTGLcaK~QRkLakAIKRAR~mGLLPfv~~ 231 (265)
.+...||+|.. +.||||||.+|++|||++|+|+||++||||+|+||+|++|||+||.||||||++.
T Consensus 15 ~rr~~cpi~~~--~~IDYKnv~lL~~FIse~GKIlpRRiTGlcaK~QR~l~~AIKrAR~laLLPy~~~ 80 (103)
T 3bbn_R 15 FRRRLPPIQSG--DRIDYRNMSLISRFISEQGKILSRRVNRLTLKQQRLITSAIKQARILSLLPFLNN 80 (103)
T ss_dssp ----------C--CSSCCSCHHHHTTTSCSSSSCCCSSSTTCCTTTTTTTHHHHHHHTTTTSSCTTCC
T ss_pred ccCCCCCcCCC--CcCCcCCHHHHHHHhccCCCCcCccccCCCHHHHHHHHHHHHHHHHHhCCCcccC
Confidence 34667888863 4799999999999999999999999999999999999999999999999999986
No 5
>2kxh_B Peptide of FAR upstream element-binding protein 1; RRM, FIR, FBP, protein-protein complex, protein binding; NMR {Homo sapiens}
Probab=10.86 E-value=90 Score=20.10 Aligned_cols=12 Identities=17% Similarity=0.332 Sum_probs=9.5
Q ss_pred HHHHHHHHHHcC
Q 024580 213 VAREIKTARAFG 224 (265)
Q Consensus 213 LakAIKRAR~mG 224 (265)
.+-||.|||+++
T Consensus 10 FadA~~RaRQIa 21 (31)
T 2kxh_B 10 FKDALQRARQIA 21 (31)
T ss_dssp HHHHHHHHHHHH
T ss_pred HHHHHHHHHHHH
Confidence 467899999874
No 6
>2ic6_A Nucleocapsid protein; hantavirus, bunyaviridae, ssRNA negative- strand viruses, antiparallel coiled coil, viral protein; 1.15A {Sin nombre virus}
Probab=8.47 E-value=89 Score=23.78 Aligned_cols=18 Identities=39% Similarity=0.698 Sum_probs=16.1
Q ss_pred HHHHHHHhhcccCCCcCC
Q 024580 113 GKLREAARHFEYDSEEVD 130 (265)
Q Consensus 113 ~kL~~aar~~~~~~d~~~ 130 (265)
.||++|-.+|+.|+|++-
T Consensus 26 QKLkdA~~~~e~DPDevN 43 (78)
T 2ic6_A 26 QKLKDAERAVELDPDDVN 43 (78)
T ss_dssp HHHHHHHHHHHHCCCHHH
T ss_pred HHHHHHHHHhcCCCcHHH
Confidence 689999999999999875
No 7
>2vo9_A EAD500, L-alanyl-D-glutamate peptidase; cell WALL biogenesis/degradation, secreted, cell WALL, hydro; 1.8A {Bacteriophage A500} SCOP: d.65.1.5
Probab=8.14 E-value=2.6e+02 Score=23.24 Aligned_cols=34 Identities=21% Similarity=0.226 Sum_probs=29.2
Q ss_pred ccCCCHHHHHHHHHHHHHHHHcCcCCccccCCcc
Q 024580 202 MSGISAKAQRKVAREIKTARAFGLMPFTTMGTKS 235 (265)
Q Consensus 202 iTGLcaK~QRkLakAIKRAR~mGLLPfv~~~~~~ 235 (265)
+.||.+....++.++|+.|+.-|+--.+..+-|+
T Consensus 30 ~~gl~~~aa~al~~m~~~a~~~Gi~l~i~sgyRs 63 (179)
T 2vo9_A 30 AGGMYKITSDKTRNVIKKMAKEGIYLCVAQGYRS 63 (179)
T ss_dssp STTSCHHHHHHHHHHHHHHHTTTCCEEEEECCCC
T ss_pred ccccCHHHHHHHHHHHHHHHHCCCeEEEEEEECC
Confidence 5689999999999999999999987777766555
No 8
>2jpc_A SSRB; DNA binding protein, structural genomics, PSI-2, protein structure initiative; NMR {Salmonella typhimurium}
Probab=8.08 E-value=1.7e+02 Score=18.68 Aligned_cols=15 Identities=20% Similarity=0.434 Sum_probs=11.3
Q ss_pred HHHHHHHHHcCcCCc
Q 024580 214 AREIKTARAFGLMPF 228 (265)
Q Consensus 214 akAIKRAR~mGLLPf 228 (265)
+.+|..|...|+++|
T Consensus 47 ~~l~~~~~~~g~~~~ 61 (61)
T 2jpc_A 47 TELLNCARRMRLIEY 61 (61)
T ss_dssp HHHHHHHHCSCCCCC
T ss_pred HHHHHHHHHcCCCCC
Confidence 357788888888876
No 9
>1b4f_A EPHB2; SAM domain, EPH receptor, signal transduction, oligomer; 1.95A {Homo sapiens} SCOP: a.60.1.2 PDB: 1f0m_A 1sgg_A
Probab=6.92 E-value=2.9e+02 Score=19.64 Aligned_cols=20 Identities=35% Similarity=0.561 Sum_probs=16.3
Q ss_pred cCCC-HHHHHHHHHHHHHHHH
Q 024580 203 SGIS-AKAQRKVAREIKTARA 222 (265)
Q Consensus 203 TGLc-aK~QRkLakAIKRAR~ 222 (265)
-|++ ..+|++|.+||+.-+.
T Consensus 52 lGI~~~GhrkkIl~ai~~l~~ 72 (82)
T 1b4f_A 52 VGVTLAGHQKKILNSIQVMRA 72 (82)
T ss_dssp TTCCCHHHHHHHHHHHHHHHH
T ss_pred cCCCCHHHHHHHHHHHHHHHH
Confidence 4776 4899999999998774
No 10
>1ucv_A Ephrin type-A receptor 8; receptor oligomerization, developmental regulation, tyrosine kinase, riken structural genomics/proteomics initiative; NMR {Homo sapiens} SCOP: a.60.1.2
Probab=6.73 E-value=3e+02 Score=19.68 Aligned_cols=21 Identities=38% Similarity=0.452 Sum_probs=17.0
Q ss_pred cCCCH-HHHHHHHHHHHHHHHc
Q 024580 203 SGISA-KAQRKVAREIKTARAF 223 (265)
Q Consensus 203 TGLca-K~QRkLakAIKRAR~m 223 (265)
-|++. .+|++|.+||+.-|..
T Consensus 48 lGI~~~GhrkkIl~ai~~l~~~ 69 (81)
T 1ucv_A 48 LGITLMGHQKKILGSIQTMRAQ 69 (81)
T ss_dssp HTCCCHHHHHHHHHHHHHHHHH
T ss_pred CCCCChhHHHHHHHHHHHHHHH
Confidence 47764 8999999999988753
Done!