Query 034489
Match_columns 93
No_of_seqs 104 out of 178
Neff 4.5
Searched_HMMs 29240
Date Mon Mar 25 04:58:06 2013
Command hhsearch -i /work/01045/syshi/csienesis_hhblits_a3m/034489.a3m -d /work/01045/syshi/HHdatabase/pdb70.hhm -o /work/01045/syshi/hhsearch_pdb/034489hhsearch_pdb -cpu 12 -v 0
No Hit Prob E-value P-value Score SS Cols Query HMM Template HMM
1 2zvm_U DNA polymerase IOTA, pr 19.1 26 0.00088 18.1 0.1 11 25-35 4-14 (26)
2 1c76_A Staphylokinase, SAK; be 16.8 55 0.0019 22.8 1.4 15 59-73 109-123 (136)
3 2jpk_A Bacteriocin lactococcin 8.2 1.7E+02 0.0057 15.8 1.3 10 26-35 24-33 (35)
4 3r8s_0 50S ribosomal protein L 8.1 90 0.0031 18.1 0.2 8 32-39 46-53 (56)
5 3a9f_A Cytochrome C; alpha hel 7.4 45 0.0015 21.0 -1.5 22 63-84 2-23 (92)
6 3v53_A RNA-binding protein 25; 6.7 7.1 0.00024 26.5 -5.9 30 50-83 30-59 (119)
7 2rqh_A G1 to S phase transitio 6.3 2.9E+02 0.01 13.9 1.6 16 72-87 2-18 (26)
8 3u5c_F RP14, S2, YS8, 40S ribo 5.7 4.1E+02 0.014 19.6 2.8 28 66-93 53-81 (225)
9 2zjr_Z 50S ribosomal protein L 5.7 1.7E+02 0.006 17.1 0.6 8 32-39 50-57 (60)
10 2kkm_A Translation machinery-a 5.6 1.5E+02 0.0052 20.0 0.3 10 60-69 99-108 (144)
No 1
>2zvm_U DNA polymerase IOTA, proliferating cell nuclear antigen; DNA replication, PCNA, clamp, translesion synthesis, TLS, DN polymerase, complex, PIP-box; HET: DNA; 2.30A {Homo sapiens}
Probab=19.14 E-value=26 Score=18.10 Aligned_cols=11 Identities=36% Similarity=0.682 Sum_probs=8.4
Q ss_pred cccccCCcccc
Q 034489 25 SSKRAPRDYYK 35 (93)
Q Consensus 25 tsK~gnk~~yK 35 (93)
|+|.|.-+||=
T Consensus 4 tsKkg~idfyL 14 (26)
T 2zvm_U 4 TAKKGLIDYYL 14 (26)
T ss_pred cccccceeEEE
Confidence 67888888874
No 2
>1c76_A Staphylokinase, SAK; beta-grAsp family, hydrolase; 2.25A {Staphylococcus aureus} SCOP: d.15.5.1 PDB: 1c77_A 1c78_A 1c79_A 1ssn_A
Probab=16.79 E-value=55 Score=22.79 Aligned_cols=15 Identities=33% Similarity=0.647 Sum_probs=11.2
Q ss_pred CeeeCCCCCCccccc
Q 034489 59 PNYVVPDLTDFKLKS 73 (93)
Q Consensus 59 p~fVVPdL~~f~LKP 73 (93)
+-|+||||+..+=+|
T Consensus 109 ~Gf~VPd~s~y~K~P 123 (136)
T 1c76_A 109 KGFVVPDLSEHIKNP 123 (136)
T ss_dssp SCEECCCCTTTCSSC
T ss_pred CceeccchhhhccCC
Confidence 358999998766555
No 3
>2jpk_A Bacteriocin lactococcin-G subunit beta; peptide, antimicrobial, membrane bound, antimicrobial protein; NMR {Lactococcus lactis} PDB: 2jpm_A
Probab=8.22 E-value=1.7e+02 Score=15.83 Aligned_cols=10 Identities=30% Similarity=0.468 Sum_probs=6.4
Q ss_pred ccccCCcccc
Q 034489 26 SKRAPRDYYK 35 (93)
Q Consensus 26 sK~gnk~~yK 35 (93)
-|.|||+=.|
T Consensus 24 ~kegnk~kwk 33 (35)
T 2jpk_A 24 IKEGNKDKWK 33 (35)
T ss_dssp TTTSCSTTGG
T ss_pred hhcccccccc
Confidence 3678877544
No 4
>3r8s_0 50S ribosomal protein L32; protein biosynthesis, RNA, tRNA, transfer RNA, 23S ribosomal subunit, ribosome recycling factor, RRF, ribosome; 3.00A {Escherichia coli} PDB: 1p85_Z 1p86_Z 2awb_0 2aw4_0 2i2v_0 2j28_0 2i2t_0* 2qao_0* 2qba_0* 2qbc_0* 2qbe_0 2qbg_0 2qbi_0* 2qbk_0* 2qov_0 2qox_0 2qoz_0* 2qp1_0* 2rdo_0 2vhm_0 ...
Probab=8.13 E-value=90 Score=18.09 Aligned_cols=8 Identities=38% Similarity=1.186 Sum_probs=6.0
Q ss_pred ccccCccC
Q 034489 32 DYYKGKNC 39 (93)
Q Consensus 32 ~~yKG~g~ 39 (93)
+||||.-.
T Consensus 46 G~Y~gr~V 53 (56)
T 3r8s_0 46 GYYRGRKV 53 (56)
T ss_dssp SEETTEEC
T ss_pred CeECCEEe
Confidence 79998743
No 5
>3a9f_A Cytochrome C; alpha helix, mono heme, electron transport; HET: HEC P33 PGE PG4; 1.30A {Chlorobaculum tepidum}
Probab=7.36 E-value=45 Score=21.05 Aligned_cols=22 Identities=14% Similarity=0.157 Sum_probs=6.3
Q ss_pred CCCCCCcccccccccCCCCccc
Q 034489 63 VPDLTDFKLKSYVSQCPREVKT 84 (93)
Q Consensus 63 VPdL~~f~LKPyVS~~~~~v~q 84 (93)
|++|+.|.-+|-.+++.|....
T Consensus 2 ~~~~~~~~~~~~~~~~~p~~~~ 23 (92)
T 3a9f_A 2 MAELKEFLNKPAATSDVPPAPA 23 (92)
T ss_dssp -------------CCSSCCCCT
T ss_pred hhHHHHHHcCcchhccCCCCcc
Confidence 7789999999999998885544
No 6
>3v53_A RNA-binding protein 25; PWI, RNA-binding domain; 2.90A {Homo sapiens}
Probab=6.70 E-value=7.1 Score=26.54 Aligned_cols=30 Identities=10% Similarity=0.143 Sum_probs=20.8
Q ss_pred cEEEccCCCCeeeCCCCCCcccccccccCCCCcc
Q 034489 50 GYVVVQEKLPNYVVPDLTDFKLKSYVSQCPREVK 83 (93)
Q Consensus 50 ~f~i~~~kvp~fVVPdL~~f~LKPyVS~~~~~v~ 83 (93)
.|-|+|+.+-. .+.+-+|||||+....++-
T Consensus 30 ~~~i~W~~vd~----~~i~~~lkPWI~kKI~E~L 59 (119)
T 3v53_A 30 AYPLDWSIVDS----ILMERRIRPWINKKIIEYI 59 (119)
T ss_dssp HSCCCTTTSCH----HHHHHTHHHHHHHHHHHHT
T ss_pred cccCChhhhhH----HHHHHHHHHHHHHHHHHHh
Confidence 56788887743 3556689999988655443
No 7
>2rqh_A G1 to S phase transition 1; protein-protein complex, GTP-binding, nucleotide-binding, Al splicing, cytoplasm, methylation, mRNA processing; NMR {Mus musculus}
Probab=6.29 E-value=2.9e+02 Score=13.94 Aligned_cols=16 Identities=19% Similarity=0.204 Sum_probs=7.9
Q ss_pred cccccc-CCCCcccccc
Q 034489 72 KSYVSQ-CPREVKTAEA 87 (93)
Q Consensus 72 KPyVS~-~~~~v~q~e~ 87 (93)
||||-. ++.++..+.+
T Consensus 2 KPFVPnv~a~eFvpsfl 18 (26)
T 2rqh_A 2 KPFVPNVHAAEFVPSFL 18 (26)
T ss_dssp CSSCCCTTCCCSSCCCS
T ss_pred CCccCcchHHHhhHhhc
Confidence 566655 4444444433
No 8
>3u5c_F RP14, S2, YS8, 40S ribosomal protein S5; translation, ribosome, ribosomal, ribosomal R ribosomal protein, eukaryotic ribosome, RNA-protein C; 3.00A {Saccharomyces cerevisiae} PDB: 3izb_F 3o30_D 3o2z_D 3u5g_F 3jyv_G* 2noq_F 1s1h_G 3iz6_F
Probab=5.73 E-value=4.1e+02 Score=19.58 Aligned_cols=28 Identities=25% Similarity=0.265 Sum_probs=19.7
Q ss_pred CCCcccccccccC-CCCcccccccCCCCC
Q 034489 66 LTDFKLKSYVSQC-PREVKTAEAAEPGKQ 93 (93)
Q Consensus 66 L~~f~LKPyVS~~-~~~v~q~e~t~~~~~ 93 (93)
..|..|+.|++.. +.-++++-...++|+
T Consensus 53 v~d~~l~~yi~~~~~~~~pht~gr~~~kr 81 (225)
T 3u5c_F 53 VKDASLVDYVQVRQPIFVAHTAGRYANKR 81 (225)
T ss_dssp CSSTTTBTTBCCCSCCSSSCCCCCCSSST
T ss_pred EeccchhheeeccCCceecccCCCccccC
Confidence 3577899999987 556777766555553
No 9
>2zjr_Z 50S ribosomal protein L32; ribosome, large ribosomal subunit, ribonucleoprotein, RNA-binding, rRNA-binding, tRNA-binding, methylation; 2.91A {Deinococcus radiodurans} SCOP: g.41.8.5 PDB: 1j5a_M* 1jzy_M* 1jzz_M* 1k01_M* 1nkw_Z 1ond_Z* 1sm1_Z* 1yl3_5 2b66_5 2b9n_5 2b9p_5 2zjp_Y* 2zjq_Z 1jzx_M 3cf5_Y* 3dll_Y* 3pio_Z* 3pip_Z* 1nwy_Z* 1nwx_Z* ...
Probab=5.69 E-value=1.7e+02 Score=17.08 Aligned_cols=8 Identities=38% Similarity=1.090 Sum_probs=6.0
Q ss_pred ccccCccC
Q 034489 32 DYYKGKNC 39 (93)
Q Consensus 32 ~~yKG~g~ 39 (93)
+||||.-+
T Consensus 50 G~Y~gr~v 57 (60)
T 2zjr_Z 50 GYYDGRQV 57 (60)
T ss_dssp CBSSSBCS
T ss_pred CcCCCEEe
Confidence 69998754
No 10
>2kkm_A Translation machinery-associated protein 16; nucleus, structural genomics, PSI-2, protein structure initiative; NMR {Saccharomyces cerevisiae}
Probab=5.61 E-value=1.5e+02 Score=20.05 Aligned_cols=10 Identities=40% Similarity=0.916 Sum_probs=6.6
Q ss_pred eeeCCCCCCc
Q 034489 60 NYVVPDLTDF 69 (93)
Q Consensus 60 ~fVVPdL~~f 69 (93)
=|.||||++.
T Consensus 99 G~~iPDLtd~ 108 (144)
T 2kkm_A 99 GFLCPDLSDA 108 (144)
T ss_dssp TEEEECSCCH
T ss_pred CccCCCCCCH
Confidence 3667887653
Done!