Query 026167
Match_columns 242
No_of_seqs 115 out of 209
Neff 6.5
Searched_HMMs 29240
Date Mon Mar 25 07:08:45 2013
Command hhsearch -i /work/01045/syshi/csienesis_hhblits_a3m/026167.a3m -d /work/01045/syshi/HHdatabase/pdb70.hhm -o /work/01045/syshi/hhsearch_pdb/026167hhsearch_pdb -cpu 12 -v 0
No Hit Prob E-value P-value Score SS Cols Query HMM Template HMM
1 1f3u_A Transcription initiatio 100.0 1.1E-31 3.9E-36 211.8 9.4 108 10-121 3-118 (118)
2 1bby_A RAP30; average structur 99.9 2.8E-28 9.6E-33 174.2 3.9 54 187-240 1-54 (69)
3 3nfg_B DNA-directed RNA polyme 54.9 2.4 8.3E-05 32.9 -0.1 14 20-33 28-41 (123)
4 2heo_A Z-DNA binding protein 1 42.7 34 0.0012 22.7 4.3 37 196-232 12-49 (67)
5 3fxh_A Integron gene cassette 33.2 21 0.00071 26.6 2.0 20 223-242 29-48 (135)
6 2y75_A HTH-type transcriptiona 28.8 87 0.003 23.0 5.0 29 206-234 24-52 (129)
7 3dpl_C Cullin-5; ubiquitin, NE 28.4 48 0.0016 29.8 4.0 41 194-234 199-241 (382)
8 1ldj_A Cullin homolog 1, CUL-1 22.5 71 0.0024 31.5 4.3 40 194-233 589-628 (760)
9 1ylf_A RRF2 family protein; st 19.3 1.2E+02 0.0042 23.0 4.3 39 195-233 17-55 (149)
10 2hye_C Cullin-4A, CUL-4A; beta 19.2 82 0.0028 31.0 3.9 39 195-233 594-632 (759)
No 1
>1f3u_A Transcription initiation factor IIF, beta subunit; general transcription initiation and elongation factor, RNA polymerase II; 1.70A {Homo sapiens} SCOP: b.65.1.1
Probab=99.97 E-value=1.1e-31 Score=211.80 Aligned_cols=108 Identities=23% Similarity=0.455 Sum_probs=88.0
Q ss_pred CCCcccccCCCCCcEEEEeccHHHHHHHhcccCCCCCcceeEEEEEcCCCCCCCceEEEE--eccc-----CCCCCCCCc
Q 026167 10 NGKGNLDTAKADRSVWLMKCPLVVAKSWQNQASSQDSQPVAKVILSLDPLQSDSMQFTME--TTAV-----SNDSLNRPK 82 (242)
Q Consensus 10 ~~~~~Ld~~~a~~~vWLvKVPk~L~e~W~~~~~~~~~~~lG~iri~~~~~~~~~~~~~l~--l~~~-----~~~~~~~Pk 82 (242)
.++++||+++++++|||||||+|||++|++.. ++++||+|+|+.+++ ..+++|+|. +.+. .+++.++|+
T Consensus 3 ~~~~dld~~~~~~~VWLvKvPk~L~e~W~~~~---~~~~vGkvri~~~~g-~~~v~l~L~~~~~~~~~~~~~~~~~~iPk 78 (118)
T 1f3u_A 3 RGELDLTGAKQNTGVWLVKVPKYLSQQWAKAS---GRGEVGKLRIAKTQG-RTEVSFTLNEDLANIHDIGGKPASVSAPR 78 (118)
T ss_dssp TTBEECHHHHTTCEEEEEEEEHHHHHHHTTCC---TTCEEEEEEEEEETT-EEEEEEEECHHHHTCCCTTCCCSTTCSCC
T ss_pred cccccccccCCCceEEEEECCHHHHHHHHhCC---CCCceEEEEEecCCC-ceeEEEEeChhHhhhccccccccccCCCh
Confidence 46788999999999999999999999998654 236899999998754 333444443 1110 124678999
Q ss_pred eeeecccc-CCcceEEEEecCCCceeEEEEEeeEeEEeec
Q 026167 83 SYSLNMFK-DFVPMSVFSESNQGKVAMEGKVEHKFDMKPH 121 (242)
Q Consensus 83 ey~l~~~~-~~~~~~VFse~~~~~~~l~G~V~~e~~~~P~ 121 (242)
+|+|.|++ ..+|||||||+++++++|||+|+|+|+|+|.
T Consensus 79 eY~l~~~~~~~~~~~VFSE~~~~~~a~EG~V~~k~d~rP~ 118 (118)
T 1f3u_A 79 EHPFVLQSVGGQTLTVFTESSSDKLSLEGIVVQRAECRPA 118 (118)
T ss_dssp EEEEEEECCTTSEEEEEEEETTCCEEEEEEEEEEEEECCC
T ss_pred hceEEeeccCCceeEEEeccCCCcEEEEEEEEEEEEeecC
Confidence 99999998 5789999999999999999999999999994
No 2
>1bby_A RAP30; average structure transcription regulation, DNA- binding domain, transcription; NMR {Homo sapiens} SCOP: a.4.5.15 PDB: 2bby_A
Probab=99.94 E-value=2.8e-28 Score=174.24 Aligned_cols=54 Identities=31% Similarity=0.536 Sum_probs=52.7
Q ss_pred cccCChhHHHHHHHHhhhhCCCcchHHHHHhcCCcHHHHHHHHHHhhHhhcCCC
Q 026167 187 RTRRDRGELEDIMFKLFERQPNWALKQLVQETDQPAVWFLIFLIPLHHINLRCF 240 (242)
Q Consensus 187 ~~Rm~k~eLld~LF~lFe~~~yWslK~L~~~t~QPe~yLKEiL~eIa~lnk~G~ 240 (242)
++|||+++|+|+||+|||+|+||+||+|+++|+||++||||||++||+||++|-
T Consensus 1 r~R~~~~~l~d~lF~~Fek~~yw~lK~L~~~t~QP~~yLKeiL~~Ia~~~k~g~ 54 (69)
T 1bby_A 1 RARADKQHVLDMLFSAFEKHQYYNLKDLVDITKQPVVYLKEILKEIGVQNVKGI 54 (69)
T ss_dssp CTHHHHHHHHHHHHHHHHHCSCBCHHHHHHHCCSCHHHHHHHHHHHCCCBCCTT
T ss_pred CCcCCHHHHHHHHHHHHhhcCCCcHHHHHHHHcCcHHHHHHHHHHHHHHHcCCC
Confidence 589999999999999999999999999999999999999999999999999993
No 3
>3nfg_B DNA-directed RNA polymerase I subunit RPA34; triple barrel, transcription, dimerization; 2.51A {Candida glabrata} PDB: 3nff_B
Probab=54.88 E-value=2.4 Score=32.87 Aligned_cols=14 Identities=36% Similarity=0.942 Sum_probs=12.5
Q ss_pred CCCcEEEEeccHHH
Q 026167 20 ADRSVWLMKCPLVV 33 (242)
Q Consensus 20 a~~~vWLvKVPk~L 33 (242)
.+.+|||+|.|+.|
T Consensus 28 ~~KevWlIkaP~~~ 41 (123)
T 3nfg_B 28 DNKELWLMKVPANI 41 (123)
T ss_dssp TTEEEEEEEEETTC
T ss_pred CCcEEEEEeCCCCC
Confidence 56899999999987
No 4
>2heo_A Z-DNA binding protein 1; protein DLM1-Z-DNA complex, immune system-DNA complex; 1.70A {Mus musculus} PDB: 1j75_A
Probab=42.66 E-value=34 Score=22.69 Aligned_cols=37 Identities=22% Similarity=0.246 Sum_probs=27.4
Q ss_pred HHHHHHhhhhC-CCcchHHHHHhcCCcHHHHHHHHHHh
Q 026167 196 EDIMFKLFERQ-PNWALKQLVQETDQPAVWFLIFLIPL 232 (242)
Q Consensus 196 ld~LF~lFe~~-~yWslK~L~~~t~QPe~yLKEiL~eI 232 (242)
...|..+|.+. .+++..+|.+.++-|.+.+-.+|...
T Consensus 12 ~~~IL~~L~~~~~~~s~~eLA~~lglsr~tv~~~l~~L 49 (67)
T 2heo_A 12 EQKILQVLSDDGGPVAIFQLVKKCQVPKKTLNQVLYRL 49 (67)
T ss_dssp HHHHHHHHHHHCSCEEHHHHHHHHCSCHHHHHHHHHHH
T ss_pred HHHHHHHHHHcCCCcCHHHHHHHHCcCHHHHHHHHHHH
Confidence 33455566554 68999999999999988777766543
No 5
>3fxh_A Integron gene cassette protein HFX_CASS2; integron cassette protein, mobIle metagenome, structural genomics, PSI-2; 1.84A {Uncultured bacterium}
Probab=33.19 E-value=21 Score=26.60 Aligned_cols=20 Identities=5% Similarity=-0.167 Sum_probs=17.4
Q ss_pred HHHHHHHHHhhHhhcCCCCC
Q 026167 223 VWFLIFLIPLHHINLRCFST 242 (242)
Q Consensus 223 ~yLKEiL~eIa~lnk~G~~~ 242 (242)
.-+-||++|||.|.-+|||.
T Consensus 29 savheiireicrlvdsghsm 48 (135)
T 3fxh_A 29 SAVHEIIREICRLVDSGHSM 48 (135)
T ss_dssp HHHHHHHHHHHHHHHTTCCC
T ss_pred HHHHHHHHHHHHHHcccccc
Confidence 45789999999999999983
No 6
>2y75_A HTH-type transcriptional regulator CYMR; DNA binding protein; 2.00A {Bacillus subtilis}
Probab=28.80 E-value=87 Score=22.96 Aligned_cols=29 Identities=17% Similarity=0.300 Sum_probs=25.4
Q ss_pred CCCcchHHHHHhcCCcHHHHHHHHHHhhH
Q 026167 206 QPNWALKQLVQETDQPAVWFLIFLIPLHH 234 (242)
Q Consensus 206 ~~yWslK~L~~~t~QPe~yLKEiL~eIa~ 234 (242)
...++.++|.+.++=|..|+.++|.....
T Consensus 24 ~~~~s~~ela~~~~i~~~~v~~il~~L~~ 52 (129)
T 2y75_A 24 EGPTSLKSIAQTNNLSEHYLEQLVSPLRN 52 (129)
T ss_dssp SCCBCHHHHHHHTTSCHHHHHHHHHHHHH
T ss_pred CCcCCHHHHHHHHCcCHHHHHHHHHHHHH
Confidence 36799999999999999999999987643
No 7
>3dpl_C Cullin-5; ubiquitin, NEDD8, cullin, HOST-virus interaction, receptor, UBL conjugation, UBL conjugation pathway, acetylation, cytoplasm; 2.60A {Homo sapiens} PDB: 3dqv_C
Probab=28.38 E-value=48 Score=29.83 Aligned_cols=41 Identities=12% Similarity=0.127 Sum_probs=34.8
Q ss_pred HHHHHHHHhhhhC--CCcchHHHHHhcCCcHHHHHHHHHHhhH
Q 026167 194 ELEDIMFKLFERQ--PNWALKQLVQETDQPAVWFLIFLIPLHH 234 (242)
Q Consensus 194 eLld~LF~lFe~~--~yWslK~L~~~t~QPe~yLKEiL~eIa~ 234 (242)
-+-..|.-+|... .-|++.+|.+.|+=|+.-|+.+|..++.
T Consensus 199 ~~Qa~ILllFn~~~~~~lt~~ei~~~t~i~~~~L~r~L~sL~~ 241 (382)
T 3dpl_C 199 TFQLAVLFAWNQRPREKISFENLKLATELPDAELRRTLWSLVA 241 (382)
T ss_dssp HHHHHHHGGGTTCTTCCEEHHHHHHHHCCCHHHHHHHHHHHHC
T ss_pred HHHHHHHHHhccCCCCcCcHHHHHHHHCcCHHHHHHHHHHHhc
Confidence 3455677789874 7899999999999999999999998864
No 8
>1ldj_A Cullin homolog 1, CUL-1; cullin, ROC1, HRT1, zinc ring finger, ligase, ubiquitin, ubiquitination, SCF; 3.00A {Homo sapiens} SCOP: a.4.5.34 a.118.17.1 e.40.1.1 PDB: 1u6g_A 1ldk_A 1ldk_B 3rtr_A
Probab=22.55 E-value=71 Score=31.48 Aligned_cols=40 Identities=13% Similarity=0.160 Sum_probs=34.9
Q ss_pred HHHHHHHHhhhhCCCcchHHHHHhcCCcHHHHHHHHHHhh
Q 026167 194 ELEDIMFKLFERQPNWALKQLVQETDQPAVWFLIFLIPLH 233 (242)
Q Consensus 194 eLld~LF~lFe~~~yWslK~L~~~t~QPe~yLKEiL~eIa 233 (242)
-+-..|.-+|.+..-||+.+|.+.|+=|...|+..|..++
T Consensus 589 ~~Qa~iLllFn~~~~~t~~ei~~~t~i~~~~l~r~L~~l~ 628 (760)
T 1ldj_A 589 TFQMAILLQYNTEDAYTVQQLTDSTQIKMDILAQVLQILL 628 (760)
T ss_dssp HHHHHHHHGGGSSSEEEHHHHHHHTCCCHHHHHHHHHHHH
T ss_pred HHHHHHHHHhcCCCCcCHHHHHHHHCcCHHHHHHHHHHHH
Confidence 3445667799999999999999999999999999998776
No 9
>1ylf_A RRF2 family protein; structural genomics, transcription regulator, P protein structure initiative; 2.50A {Bacillus cereus atcc 14579} SCOP: a.4.5.55
Probab=19.26 E-value=1.2e+02 Score=22.97 Aligned_cols=39 Identities=5% Similarity=-0.042 Sum_probs=29.1
Q ss_pred HHHHHHHhhhhCCCcchHHHHHhcCCcHHHHHHHHHHhh
Q 026167 195 LEDIMFKLFERQPNWALKQLVQETDQPAVWFLIFLIPLH 233 (242)
Q Consensus 195 Lld~LF~lFe~~~yWslK~L~~~t~QPe~yLKEiL~eIa 233 (242)
|.-+++=+-.....++.++|.++++=|..||..+|....
T Consensus 17 l~~L~~La~~~~~~~~~~~iA~~~~i~~~~l~kil~~L~ 55 (149)
T 1ylf_A 17 VHILSILKNNPSSLCTSDYMAESVNTNPVVIRKIMSYLK 55 (149)
T ss_dssp HHHHHHHHHSCGGGCCHHHHHHHHTSCHHHHHHHHHHHH
T ss_pred HHHHHHHHhCCCCCcCHHHHHHHHCcCHHHHHHHHHHHH
Confidence 444444333233579999999999999999999997754
No 10
>2hye_C Cullin-4A, CUL-4A; beta propeller, ring finger, zinc finger, propeller cluster, helical repeats, cullin repeats, protein binding; HET: DNA; 3.10A {Homo sapiens} SCOP: a.4.5.34 a.118.17.1 e.40.1.1 PDB: 4a0k_A* 4a0c_C 4a0l_E*
Probab=19.22 E-value=82 Score=30.98 Aligned_cols=39 Identities=10% Similarity=0.198 Sum_probs=34.8
Q ss_pred HHHHHHHhhhhCCCcchHHHHHhcCCcHHHHHHHHHHhh
Q 026167 195 LEDIMFKLFERQPNWALKQLVQETDQPAVWFLIFLIPLH 233 (242)
Q Consensus 195 Lld~LF~lFe~~~yWslK~L~~~t~QPe~yLKEiL~eIa 233 (242)
+-..|.-+|....-|++.+|.+.|+=|+.-|+.+|..++
T Consensus 594 ~Qa~iLllFn~~~~lt~~ei~~~t~i~~~~l~r~L~sL~ 632 (759)
T 2hye_C 594 FQTLVLLMFNEGDGFSFEEIKMATGIEDSELRRTLQSLA 632 (759)
T ss_dssp HHHHHHHHTTSCCCEEHHHHHHHTCCCHHHHHHHHHTTT
T ss_pred HHHHHHHHhcCCCCcCHHHHHHHHCcCHHHHHHHHHHHH
Confidence 445667799999999999999999999999999998876
Done!