Query 034641
Match_columns 88
No_of_seqs 86 out of 88
Neff 2.5
Searched_HMMs 29240
Date Mon Mar 25 07:46:29 2013
Command hhsearch -i /work/01045/syshi/csienesis_hhblits_a3m/034641.a3m -d /work/01045/syshi/HHdatabase/pdb70.hhm -o /work/01045/syshi/hhsearch_pdb/034641hhsearch_pdb -cpu 12 -v 0
No Hit Prob E-value P-value Score SS Cols Query HMM Template HMM
1 1dul_A Signal recognition part 22.9 23 0.00079 22.0 0.6 8 48-55 36-43 (69)
2 1ifp_A PF3 inovirus, major coa 22.6 8.6 0.00029 22.8 -1.4 14 67-80 30-43 (44)
3 1mfq_C SRP54, signal recogniti 20.2 29 0.001 23.9 0.6 11 45-55 81-96 (129)
4 3c01_A Surface presentation of 19.5 42 0.0014 19.7 1.2 12 42-53 14-25 (48)
5 1hq1_A Signal recognition part 18.9 28 0.00096 23.0 0.3 8 48-55 70-77 (105)
6 3bzy_A ESCU; auto cleavage pro 15.0 62 0.0021 19.4 1.2 12 42-53 20-31 (54)
7 1tqz_A Necap1; endocytosis, st 14.2 16 0.00056 25.6 -1.8 14 18-31 108-121 (133)
8 2e6r_A Jumonji/ARID domain-con 13.7 93 0.0032 19.4 1.8 19 16-34 73-91 (92)
9 1gh8_A Translation elongation 12.8 54 0.0019 21.0 0.5 27 60-86 21-47 (89)
10 2vt1_A Surface presentation of 12.1 47 0.0016 19.8 0.0 15 42-56 18-32 (52)
No 1
>1dul_A Signal recognition particle protein (fifty-four homolog); protein-RNA complex, double helix, tetraloop, internal loop, SRP, ribonucleoprotein; HET: CCC; 1.80A {Escherichia coli} SCOP: a.36.1.1 PDB: 2xkv_C
Probab=22.91 E-value=23 Score=21.97 Aligned_cols=8 Identities=63% Similarity=0.954 Sum_probs=6.8
Q ss_pred Hhhhhhee
Q 034641 48 KRKKRIAS 55 (88)
Q Consensus 48 kRkkRVA~ 55 (88)
.|++|||.
T Consensus 36 SR~~RIA~ 43 (69)
T 1dul_A 36 SRKRRIAA 43 (69)
T ss_dssp HHHHHHHH
T ss_pred HHHHHHHc
Confidence 69999984
No 2
>1ifp_A PF3 inovirus, major coat protein assembly; virus coat protein, helical virus; 3.10A {Pseudomonas phage PF3} SCOP: h.1.4.1
Probab=22.61 E-value=8.6 Score=22.80 Aligned_cols=14 Identities=36% Similarity=0.835 Sum_probs=9.9
Q ss_pred hhhhccceeecccc
Q 034641 67 SSVRNSFKWIKGKF 80 (88)
Q Consensus 67 ~S~R~sfrWiK~k~ 80 (88)
+.+--++||||..+
T Consensus 30 aavvlgirwikaqf 43 (44)
T 1ifp_A 30 AAVVLGIRWIKAQF 43 (44)
T ss_dssp HHHHHHHHHHHHHH
T ss_pred HHHHHHhHHhHhhc
Confidence 34556899999764
No 3
>1mfq_C SRP54, signal recognition particle 54KDA protein; RNA-protein complex, A-minor motif, 3-helix junction, signaling protein/RNA complex; HET: CCC; 3.10A {Homo sapiens} SCOP: a.36.1.1
Probab=20.18 E-value=29 Score=23.91 Aligned_cols=11 Identities=27% Similarity=0.468 Sum_probs=9.0
Q ss_pred HHHH-----hhhhhee
Q 034641 45 PEIK-----RKKRIAS 55 (88)
Q Consensus 45 pE~k-----RkkRVA~ 55 (88)
|++= ||+|||.
T Consensus 81 P~ii~~~~SRk~RIA~ 96 (129)
T 1mfq_C 81 AKVFSKQPGRIQRVAR 96 (129)
T ss_dssp HHHHHHCTHHHHHHHH
T ss_pred cccccCChHHHHHHHc
Confidence 8775 9999984
No 4
>3c01_A Surface presentation of antigens protein SPAS; auto cleavage protein, flagella, ESCU, YSCU, intein, T3SS, M inner membrane, transmembrane; 2.60A {Salmonella typhimurium} SCOP: d.367.1.1
Probab=19.49 E-value=42 Score=19.69 Aligned_cols=12 Identities=42% Similarity=0.778 Sum_probs=9.1
Q ss_pred CCCHHHHhhhhh
Q 034641 42 SSDPEIKRKKRI 53 (88)
Q Consensus 42 ~~dpE~kRkkRV 53 (88)
-+||++|-++|=
T Consensus 14 EGdP~iK~~~R~ 25 (48)
T 3c01_A 14 EGNPEVKSKRRE 25 (48)
T ss_pred cCCHHHHHHHHH
Confidence 379999977663
No 5
>1hq1_A Signal recognition particle protein; protein-RNA complex, double helix, tetraloop, internal loop, SRP, ribonucleoprotein; HET: CCC; 1.52A {Escherichia coli} SCOP: a.36.1.1 PDB: 3lqx_A* 2pxb_A 2pxd_A 2pxe_A 2pxf_A 2pxk_A 2pxl_A 2pxp_A 2pxq_A 2pxt_A 2pxu_A 2pxv_A
Probab=18.88 E-value=28 Score=23.04 Aligned_cols=8 Identities=63% Similarity=0.954 Sum_probs=6.6
Q ss_pred Hhhhhhee
Q 034641 48 KRKKRIAS 55 (88)
Q Consensus 48 kRkkRVA~ 55 (88)
.||+|||.
T Consensus 70 SR~~RIA~ 77 (105)
T 1hq1_A 70 SRKRRIAA 77 (105)
T ss_dssp HHHHHHHH
T ss_pred HHHHHHHc
Confidence 69999984
No 6
>3bzy_A ESCU; auto cleavage protein, flagella, intein, T3SS, membrane, membrane protein, protein transport; 1.20A {Escherichia coli} SCOP: d.367.1.1 PDB: 3bzl_A 3bzv_A 3bzx_A 3bzo_A 3bzz_A 3c03_B 3c00_A
Probab=14.98 E-value=62 Score=19.44 Aligned_cols=12 Identities=42% Similarity=0.742 Sum_probs=9.1
Q ss_pred CCCHHHHhhhhh
Q 034641 42 SSDPEIKRKKRI 53 (88)
Q Consensus 42 ~~dpE~kRkkRV 53 (88)
-.||++|-++|=
T Consensus 20 EGdP~iK~r~R~ 31 (54)
T 3bzy_A 20 DGNPEIKGERRR 31 (54)
T ss_pred cCCHHHHHHHHH
Confidence 379999977663
No 7
>1tqz_A Necap1; endocytosis, structural genomics, endocytosis/exocytosis complex; NMR {Mus musculus} SCOP: b.55.1.11
Probab=14.24 E-value=16 Score=25.61 Aligned_cols=14 Identities=29% Similarity=0.610 Sum_probs=12.3
Q ss_pred ccccccCcceeecC
Q 034641 18 FDFDNQSNAYIFNG 31 (88)
Q Consensus 18 ~g~~~~s~sy~fng 31 (88)
.||.||+.+++||-
T Consensus 108 iGF~eR~dAFDF~v 121 (133)
T 1tqz_A 108 IGFTDRGDAFDFNV 121 (133)
T ss_dssp EECSCHHHHHHHHH
T ss_pred eeecccccccchHH
Confidence 59999999999973
No 8
>2e6r_A Jumonji/ARID domain-containing protein 1D; PHD domain, structural genomics, NPPSFA, national project on protein structural and functional analyses; NMR {Homo sapiens}
Probab=13.66 E-value=93 Score=19.38 Aligned_cols=19 Identities=37% Similarity=0.810 Sum_probs=15.8
Q ss_pred CCccccccCcceeecCCCC
Q 034641 16 GEFDFDNQSNAYIFNGPSS 34 (88)
Q Consensus 16 ~~~g~~~~s~sy~fng~~~ 34 (88)
+.|||++....|+.+.|.+
T Consensus 73 ~~~Gf~~~~~~y~l~~~~~ 91 (92)
T 2e6r_A 73 EAFGFEQATQEYSLSGPSS 91 (92)
T ss_dssp SCCSCCCCCCCCCCSCCSC
T ss_pred cccChhhcCCceeecccCC
Confidence 4599999999999988764
No 9
>1gh8_A Translation elongation factor 1BETA; alpha-beta sandwich, gene regulation, structural genomics, PSI; NMR {Methanothermobacterthermautotrophicus} SCOP: d.58.12.1
Probab=12.84 E-value=54 Score=21.03 Aligned_cols=27 Identities=7% Similarity=0.230 Sum_probs=23.5
Q ss_pred eeehhhhhhhhccceeeccccceeccc
Q 034641 60 TVENKLKSSVRNSFKWIKGKFSDVRYG 86 (88)
Q Consensus 60 ~vEGKvK~S~R~sfrWiK~k~s~ivyG 86 (88)
.++-++|+.+..++.|=+.+.-.|-||
T Consensus 21 ~L~~~vk~~~~~gl~w~~~k~~piafG 47 (89)
T 1gh8_A 21 ALKKEIQERIPEGTELHKIDEEPIAFG 47 (89)
T ss_dssp HHHHHHHHHSCTTSEECCCCEEECSSS
T ss_pred HHHHHHHHhccCCcEEeeeeEEEEEcc
Confidence 357789999999999999999888888
No 10
>2vt1_A Surface presentation of antigens protein SPAS; specificity switch, virulence, transmembrane, inner membrane, FLHB, YSCU, T3SS, plasmid; 2.00A {Shigella flexneri} SCOP: d.367.1.1
Probab=12.13 E-value=47 Score=19.79 Aligned_cols=15 Identities=20% Similarity=0.191 Sum_probs=0.4
Q ss_pred CCCHHHHhhhhheee
Q 034641 42 SSDPEIKRKKRIASY 56 (88)
Q Consensus 42 ~~dpE~kRkkRVA~Y 56 (88)
-+||++|-++|=...
T Consensus 18 EGdP~iK~~~R~~~~ 32 (52)
T 2vt1_A 18 EGHFETKSRRRELHI 32 (52)
T ss_dssp --------------C
T ss_pred cCCHHHHHHHHHHHH
Confidence 379999988765443
Done!