Query 000848
Match_columns 1255
No_of_seqs 29 out of 31
Neff 1.7
Searched_HMMs 29240
Date Tue Mar 26 16:26:18 2013
Command hhsearch -i /local_scratch/syshi/lefta3m/000848.a3m -d /local_scratch/syshi/pdb70.hhm -v 0 -o /local_scratch/syshi/H1_619-623//hhsearch_pdb/000848hhsearch_pdb
No Hit Prob E-value P-value Score SS Cols Query HMM Template HMM
1 1r9f_A Core protein P19; prote 1.0 1 1 18.0 -1.3 22 456-477 5-27 (136)
2 1rpu_A 19 kDa protein; RNAI, p 1.0 1 1 17.7 -1.3 21 456-476 27-48 (172)
3 2lcq_A Putative toxin VAPC6; P 1.0 1 1 16.6 1.7 29 1206-1254 133-161 (165)
4 4gga_A P55CDC, cell division c 1.0 1 1 14.9 7.5 82 88-189 96-179 (420)
5 2kdx_A HYPA, hydrogenase/ureas 1.0 1 1 14.9 1.3 32 1203-1254 71-103 (119)
6 3m6c_A 60 kDa chaperonin 1; ch 1.0 1 1 14.9 -0.6 18 642-659 166-184 (194)
7 2fc6_A Nuclear, target of EGR1 1.0 1 1 14.4 -1.0 22 91-114 19-40 (50)
8 2akl_A PHNA-like protein PA012 1.0 1 1 14.1 -0.3 10 1242-1251 45-54 (138)
9 3s8s_A Histone-lysine N-methyl 1.0 1 1 13.9 -1.1 63 496-559 1-63 (110)
10 4ayb_P DNA-directed RNA polyme 1.0 1 1 13.8 0.1 12 1206-1217 4-15 (48)
No 1
>1r9f_A Core protein P19; protein-RNA complex, dimer, double helix, viral protein/RNA complex; 1.85A {Tomato bushy stunt virus} SCOP: d.255.1.1
Probab=1.00 E-value=1 Score=18.01 Aligned_cols=22 Identities=50% Similarity=0.885 Sum_probs=15.3
Q ss_pred CCCC-CCCCCCCCCEEEEEEECC
Q ss_conf 3999-999999622035874205
Q 000848 456 MSPY-DPDEGPSITGWRVQRWES 477 (1255)
Q Consensus 456 MSPy-dPdeGPsiTGWRvqrWES 477 (1255)
.+|+ -|||.|+.+.||++.=|.
T Consensus 5 ~sPFklpDESPs~~EWRlH~~e~ 27 (136)
T 1r9f_A 5 TSPFKLPDESPSWTEWRLHNDET 27 (136)
T ss_dssp CCSCSSCCCCCCHHHHHHHHHHC
T ss_pred CCCCCCCCCCCCHHHHHCCCCCC
T ss_conf 58751788999703530015556
No 2
>1rpu_A 19 kDa protein; RNAI, protein-RNA complex, RNA double helix, RNA length recognition, RNA binding protein/RNA complex; 2.50A {Carnation italian ringspot virus} SCOP: d.255.1.1
Probab=1.00 E-value=1 Score=17.74 Aligned_cols=21 Identities=52% Similarity=0.857 Sum_probs=15.6
Q ss_pred CCCC-CCCCCCCCCEEEEEEEC
Q ss_conf 3999-99999962203587420
Q 000848 456 MSPY-DPDEGPSITGWRVQRWE 476 (1255)
Q Consensus 456 MSPy-dPdeGPsiTGWRvqrWE 476 (1255)
.+|+ -|||.|+.+.||++.=|
T Consensus 27 ~sPFklpDESPs~~EWRlh~~e 48 (172)
T 1rpu_A 27 TSPFKLPDESPSWTEWRLYNDE 48 (172)
T ss_dssp CCSBSSCCCCCCHHHHHHHTTC
T ss_pred CCCCCCCCCCCCHHHHHHCCCC
T ss_conf 5875078889870353101455
No 3
>2lcq_A Putative toxin VAPC6; PIN domain, Zn ribbon domain, ribosome biogenesis, metal BIN protein; NMR {Pyrococcus horikoshii}
Probab=1.00 E-value=1 Score=16.59 Aligned_cols=29 Identities=34% Similarity=0.765 Sum_probs=21.0
Q ss_pred EHHHHCCCCCCCCCCCCCCCCCCCCCHHHHHHHHCCCCCCCCCCCEEEE
Q ss_conf 2011200112322379999999986201433230256898888704781
Q 000848 1206 YKCIRCLRQTAAFASPGATNPPNQNDREAWWISRWAFGCPMCGGTWVRV 1254 (1255)
Q Consensus 1206 yKCiRC~RQTsAfasp~a~n~p~qn~re~wWisRW~~~CPMCGGtWvrv 1254 (1255)
|+|..|.+....+. + -.-||.||+.-.|+
T Consensus 133 y~C~~Cg~~~~~~~-------~-------------~~~Cp~CG~~~~~~ 161 (165)
T 2lcq_A 133 YVCIGCGRKFSTLP-------P-------------GGVCPDCGSKVKLI 161 (165)
T ss_dssp EEESSSCCEESSCC-------G-------------GGBCTTTCCBEEEC
T ss_pred EECCCCCCCCCCCC-------C-------------CCCCCCCCCCCEEC
T ss_conf 99898899555789-------9-------------99598899732537
No 4
>4gga_A P55CDC, cell division cycle protein 20 homolog; cell cycle, mitosis, securin, ubiquitination, WD40; 2.04A {Homo sapiens} PDB: 4ggd_A
Probab=1.00 E-value=1 Score=14.91 Aligned_cols=82 Identities=15% Similarity=0.350 Sum_probs=54.0
Q ss_pred CCCHHHHHHCC--CHHHHHCCCCCEEECCCCCCCCCCCCCCCCCEEEEEEECCCCCCCEEEEEEECCCCCCCEEEEEECC
Q ss_conf 25845763126--3022200012211013223456999999982034888317997420378851279988548977457
Q 000848 88 KMSVPELCRNF--SAVAWCGKLNAIACASETCARIPSSNANTPFWIPIHIVIPERPTECAVFNVIADCPRDSVQFIEWSP 165 (1255)
Q Consensus 88 KmsvpElcRnF--savawc~klN~iaca~etCarip~S~~np~fwiPihIviPerPtE~avfnv~adsp~d~vq~ieWSp 165 (1255)
-+..|+|.-.| +.++|- ..|.||.+...+.|+ -..+.-.-...+. .....+.|.++.|||
T Consensus 96 ~l~ap~~~~d~y~~~l~wS-~~n~lAvgld~tV~l---------------Wd~~tg~~~~~~~--~~~~~~~V~sv~fsp 157 (420)
T 4gga_A 96 ILDAPEIRNDYYLNLVDWS-SGNVLAVALDNSVYL---------------WSASSGDILQLLQ--MEQPGEYISSVAWIK 157 (420)
T ss_dssp EEECTTCCCCTTCBCEEEC-TTSEEEEEETTEEEE---------------EETTTCCEEEEEE--CCSTTCCEEEEEECT
T ss_pred EEECCCCCCCCCCEEEEEC-CCCEEEEEECCEEEE---------------EECCCCCEEEEEE--ECCCCCCEEEEEECC
T ss_conf 8789887566335248787-999999996999999---------------9899997899998--148998489999979
Q ss_pred CCCCCEEEEEECCCEEEEEECCCC
Q ss_conf 988634778730430999735899
Q 000848 166 TSCPRALLIANFYGRVTIWTQPSH 189 (1255)
Q Consensus 166 ~~cpRALLiAnf~GRvtIWtQPsq 189 (1255)
.+ +-|+++...|.|.||.-.+.
T Consensus 158 dg--~~lasgs~Dg~v~iWd~~~~ 179 (420)
T 4gga_A 158 EG--NYLAVGTSSAEVQLWDVQQQ 179 (420)
T ss_dssp TS--SEEEEEETTSCEEEEETTTT
T ss_pred CC--CEEEEEECCCEEEEEECCCC
T ss_conf 99--99999989982999986899
No 5
>2kdx_A HYPA, hydrogenase/urease nickel incorporation protein HYPA; metallochaperone, metal-binding, metal- binding protein; NMR {Helicobacter pylori}
Probab=1.00 E-value=1 Score=14.86 Aligned_cols=32 Identities=19% Similarity=0.374 Sum_probs=21.7
Q ss_pred CEEEHHHHCCCCCCCCCCCCCCCCCCCCCHHHHHHHHCCC-CCCCCCCCEEEE
Q ss_conf 2032011200112322379999999986201433230256-898888704781
Q 000848 1203 GVWYKCIRCLRQTAAFASPGATNPPNQNDREAWWISRWAF-GCPMCGGTWVRV 1254 (1255)
Q Consensus 1203 GvWyKCiRC~RQTsAfasp~a~n~p~qn~re~wWisRW~~-~CPMCGGtWvrv 1254 (1255)
-+.|+|..|...... . ...+ -||-||+.-+++
T Consensus 71 p~~~~C~~CG~~~e~----~----------------~~~~~~CP~Cgs~~~~i 103 (119)
T 2kdx_A 71 KVELECKDCSHVFKP----N----------------ALDYGVCEKCHSKNVII 103 (119)
T ss_dssp CCEEECSSSSCEECS----C----------------CSTTCCCSSSSSCCCEE
T ss_pred CCEEECCCCCCEEEC----C----------------CCCCCCCCCCCCCCCEE
T ss_conf 460895899989867----8----------------88898090433997598
No 6
>3m6c_A 60 kDa chaperonin 1; chaperone, ATP-binding, nucleotide-binding; 2.20A {Mycobacterium tuberculosis}
Probab=1.00 E-value=1 Score=14.86 Aligned_cols=18 Identities=28% Similarity=0.829 Sum_probs=9.2
Q ss_pred CCCCCCHHHHHHH-HHHHH
Q ss_conf 4222331369999-99998
Q 000848 642 SQVKANSSTWERA-IAERF 659 (1255)
Q Consensus 642 ~q~ka~ss~wera-iaerf 659 (1255)
.|....+|.++|. +.||.
T Consensus 166 ~~ie~t~s~ydkEKLqERl 184 (194)
T 3m6c_A 166 AEIDKSDSDWDREKLGERL 184 (194)
T ss_dssp HHHHTCCCHHHHHHHHHHH
T ss_pred HHHHHCCCHHHHHHHHHHH
T ss_conf 9988559988999999999
No 7
>2fc6_A Nuclear, target of EGR1, member 1; structure genomics, ZF-CCCH domain, member 1(nuclear), structural genomics, NPPSFA; NMR {Homo sapiens} SCOP: g.66.1.1
Probab=1.00 E-value=1 Score=14.39 Aligned_cols=22 Identities=36% Similarity=0.880 Sum_probs=15.6
Q ss_pred HHHHHHCCCHHHHHCCCCCEEECC
Q ss_conf 457631263022200012211013
Q 000848 91 VPELCRNFSAVAWCGKLNAIACAS 114 (1255)
Q Consensus 91 vpElcRnFsavawc~klN~iaca~ 114 (1255)
.-.+|++|||--||- |.+-|-.
T Consensus 19 ~~~iC~~FSayGwCp--~G~~Cp~ 40 (50)
T 2fc6_A 19 PTSICDNFSAYGWCP--LGPQCPQ 40 (50)
T ss_dssp CSCBCSHHHHTCCCT--TGGGCSS
T ss_pred CCCHHHHCCCCCCCC--CCCCCCC
T ss_conf 220302001255278--8887886
No 8
>2akl_A PHNA-like protein PA0128; two domains, Zn binding protein, beta-strand protein, structural genomics, PSI; NMR {Pseudomonas aeruginosa PAO1} SCOP: b.34.11.2 g.41.3.5
Probab=1.00 E-value=1 Score=14.06 Aligned_cols=10 Identities=40% Similarity=1.348 Sum_probs=0.0
Q ss_pred CCCCCCCCCE
Q ss_conf 6898888704
Q 000848 1242 FGCPMCGGTW 1251 (1255)
Q Consensus 1242 ~~CPMCGGtW 1251 (1255)
|-||+||.-|
T Consensus 45 ~vCPeC~hEW 54 (138)
T 2akl_A 45 LVCPECAHEW 54 (138)
T ss_dssp EEETTTTEEE
T ss_pred EECCCCCCCC
T ss_conf 7888665603
No 9
>3s8s_A Histone-lysine N-methyltransferase SETD1A; chromatin modification, transcription regulation, structural genomics, structural genomics consortium; 1.30A {Homo sapiens}
Probab=1.00 E-value=1 Score=13.88 Aligned_cols=63 Identities=16% Similarity=0.153 Sum_probs=0.0
Q ss_pred CCCCCCEEEEEEEEECCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCEECCCCCCCCCCHHH
Q ss_conf 9999912589853101468987332333358986566654453333453000499999601444
Q 000848 496 GGQAPMQTVWVSKVDTSIPTSNFKIHQLAAAGPTCDVWKTTDSGLEKSKIVSFDPFDLPSDIRS 559 (1255)
Q Consensus 496 gGqpp~qtvW~skvd~sIp~tdfkn~q~~~~~~~~d~~k~s~~~~dksk~v~fdpfdlP~d~rt 559 (1255)
||++|..+++++..+.++...+++.. +...|...++.-..|....++|..-|=-|+-+.+...
T Consensus 1 Gg~~p~~~lfV~nL~~~~te~~L~~~-F~~~G~i~~v~i~~d~~tg~~rG~aFV~f~~~~~A~~ 63 (110)
T 3s8s_A 1 GGQIPLKEVTFARLNDNVRETFLKDM-CRKYGEVEEVEILLHPRTRKHLGLARVLFTSTRGAKE 63 (110)
T ss_dssp -CCSCCCEEEEESCCTTCCHHHHHHH-HTTTSCEEEEEEEECTTTCCEEEEEEEEESSHHHHHH
T ss_pred CCCCCCCEEEEECCCCCCCHHHHHHH-HHHCCCEEEEEEEECCCCCCEEEEEEEEECCHHHHHH
T ss_conf 98899838999799999999999999-9856974489997779999460699999897999999
No 10
>4ayb_P DNA-directed RNA polymerase; transferase, multi-subunit, transcription; 3.20A {Sulfolobus shibatae} PDB: 2pmz_P 2wb1_P 2y0s_P 3hkz_P 2waq_P 4b1o_P 4b1p_X
Probab=1.00 E-value=1 Score=13.79 Aligned_cols=12 Identities=25% Similarity=0.883 Sum_probs=0.0
Q ss_pred EHHHHCCCCCCC
Q ss_conf 201120011232
Q 000848 1206 YKCIRCLRQTAA 1217 (1255)
Q Consensus 1206 yKCiRC~RQTsA 1217 (1255)
|+|.||.+..+.
T Consensus 4 Y~C~rCg~~fs~ 15 (48)
T 4ayb_P 4 YRCGKCWKTFTD 15 (48)
T ss_dssp -CCCCTTTTCCC
T ss_pred EEEECCCCCCCH
T ss_conf 885015778169
Done!