Query gi|254780514|ref|YP_003064927.1| type II restriction endonuclease [Candidatus Liberibacter asiaticus str. psy62]
Match_columns 110
No_of_seqs 7 out of 9
Neff 1.7
Searched_HMMs 33803
Date Wed Jun 1 16:47:08 2011
Command /home/congqian_1/programs/hhpred/hhsearch -i 254780514.hhm -d /home/congqian_1/database/mmdb/mmdb70.hhm
No Hit Prob E-value P-value Score SS Cols Query HMM Template HMM
1 >2gb7_A R.ECL18KI; ECL18KI-DNA 99.9 4.1E-24 1.2E-28 161.8 5.2 65 17-85 67-131 (137)
2 >1na6_A Ecorii, restriction en 76.4 1.3 3.8E-05 24.3 1.7 41 41-86 58-98 (103)
3 >2p9x_A Hypothetical protein P 71.2 4.1 0.00012 21.3 3.2 25 39-63 48-74 (99)
4 >3bm3_A PSPGI restriction endo 68.7 3 8.9E-05 22.1 2.1 28 61-88 87-114 (126)
5 >2o36_A ThiMet oligopeptidase; 29.4 30 0.0009 16.2 1.9 26 3-28 53-82 (84)
6 >3i0w_A 8-oxoguanine-DNA-glyco 29.4 43 0.0013 15.3 3.5 39 22-60 38-76 (84)
7 >2fz0_A R-snare NYV1P, V-snare 22.6 42 0.0012 15.4 1.5 40 15-54 98-138 (149)
8 >2qvw_A GLP_546_48378_50642; d 19.8 67 0.002 14.2 3.4 43 45-87 48-90 (113)
9 >2o3e_A Neurolysin; thermolysi 19.8 65 0.0019 14.3 2.0 25 5-29 57-85 (86)
10 >2q8u_A Exonuclease, putative; 17.2 71 0.0021 14.0 1.8 19 36-54 11-29 (55)
No 1
>>2gb7_A R.ECL18KI; ECL18KI-DNA complex, type II restriction endonuclease, nucleotide flipping, base extrusion, hydrolase/DNA complex; HET: DNA; 1.70A {Enterobacter cloacae} PDB: 2fqz_A* (A:1-137)
Probab=99.89 E-value=4.1e-24 Score=161.82 Aligned_cols=65 Identities=32% Similarity=0.394 Sum_probs=61.6
Q ss_pred CHHHHHHHHHHHHCCHHHHHHHHHHHHHHHHHHHHHCCCCHHHHHHHHCCCHHHHHHHHHHHHHHHHHH
Q ss_conf 369999999996379642001579999999963212011044576310322355433045799999999
Q gi|254780514|r 17 VPKMLITELSTELFNLKTANQNFFHNTLTKKFGDYMSKITPYLYEWVLSNTQSRRSRDGQEFEYIIYSL 85 (110)
Q Consensus 17 tPK~ll~~llselin~~t~K~~e~~etir~~~gdY~~~i~P~iy~l~lsntqsrrsrag~~fe~iiY~~ 85 (110)
--|.|++++++.|+|++++|+|+++|+|++||||||. |||+|+|||||||||||||+||+||--+
T Consensus 67 ~Ek~Ft~k~ls~Lld~~~~K~m~~~e~Ik~f~~ey~~----~IY~L~LSNTQSRRSRAGKeFEaIiel~ 131 (137)
T 2gb7_A 67 FEKEFTTRMLSYLIDEERIKDMSPYDAIRDFTMEYPT----HIYDLALSNTQSRRSRAGKEFESILELL 131 (137)
T ss_dssp HHHHHHHHHHHTTCCHHHHTTSCHHHHHHHHHHHCHH----HHHHHHHHHHHHHHHHHHHHHHHHHHHH
T ss_pred HHHHHHHHHHHHHCCHHHHHHHHHHHHHHHHHHHCCH----HHHHHHHHHHHHHHHHHHHHHHHHHHHH
T ss_conf 6455179999873004443115789999999850625----8999988888877731004399999999
No 2
>>1na6_A Ecorii, restriction endonuclease ecorii; site-specific restriction, mutation, replication, hydrolase; 2.10A {Escherichia coli} (A:181-283)
Probab=76.36 E-value=1.3 Score=24.26 Aligned_cols=41 Identities=24% Similarity=0.453 Sum_probs=28.3
Q ss_pred HHHHHHHHHHHHCCCCHHHHHHHHCCCHHHHHHHHHHHHHHHHHHH
Q ss_conf 9999999632120110445763103223554330457999999997
Q gi|254780514|r 41 HNTLTKKFGDYMSKITPYLYEWVLSNTQSRRSRDGQEFEYIIYSLY 86 (110)
Q Consensus 41 ~etir~~~gdY~~~i~P~iy~l~lsntqsrrsrag~~fe~iiY~~Y 86 (110)
-+-++.-++|--+ +| .+.+|-.+.|.||||+.+|--+-.|.
T Consensus 58 ~~~i~~GF~dVD~----Fi-s~a~SV~NRRKSRaGksLE~HLe~if 98 (103)
T 1na6_A 58 LDIIRKGFGSVDE----FI-ALANSVSNRRKSRAGKSLELHLEHLF 98 (103)
T ss_dssp HHHHHHCCSSHHH----HH-HHHHHHHHHHHHHSSSHHHHHHHHHH
T ss_pred HHHHHCCCCCHHH----HH-HHHHHHHHHHHHHCHHHHHHHHHHHH
T ss_conf 9999828965899----99-98877877666301056999999999
No 3
>>2p9x_A Hypothetical protein PH0832; NPPSFA, national project on protein structural and functional analyses; 1.65A {Pyrococcus horikoshii OT3} (A:)
Probab=71.17 E-value=4.1 Score=21.30 Aligned_cols=25 Identities=20% Similarity=0.482 Sum_probs=18.3
Q ss_pred HHHHHHHHHHHHHHCCC--CHHHHHHH
Q ss_conf 79999999963212011--04457631
Q gi|254780514|r 39 FFHNTLTKKFGDYMSKI--TPYLYEWV 63 (110)
Q Consensus 39 e~~etir~~~gdY~~~i--~P~iy~l~ 63 (110)
-|.++|.+.+|||++|. |-+||.+.
T Consensus 48 kFkeaV~~LFGEysarllem~ii~~l~ 74 (99)
T 2p9x_A 48 KFKEAVSKLFGEYSARLLEMVIISKLK 74 (99)
T ss_dssp HHHHHHHHHHCHHHHHHHHHHHHHHHH
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHH
T ss_conf 999999999999899999999999999
No 4
>>3bm3_A PSPGI restriction endonuclease; endonuclease-DNA complex, restriction enzyme, PSPGI, base flipping, hydrolase/DNA complex; HET: DNA MSE CIT; 1.70A {Pyrococcus SP} (A:1-126)
Probab=68.74 E-value=3 Score=22.07 Aligned_cols=28 Identities=39% Similarity=0.421 Sum_probs=23.4
Q ss_pred HHHHCCCHHHHHHHHHHHHHHHHHHHHH
Q ss_conf 6310322355433045799999999739
Q gi|254780514|r 61 EWVLSNTQSRRSRDGQEFEYIIYSLYNI 88 (110)
Q Consensus 61 ~l~lsntqsrrsrag~~fe~iiY~~Yn~ 88 (110)
.|.+|-.|.|-||.|+.||-|.-++.|-
T Consensus 87 kleqsfqqarfsrggkafeiiftkllnk 114 (126)
T 3bm3_A 87 KLEQSFQQARFSRGGKAFEIIFTKLLNK 114 (126)
T ss_dssp HHHHHHHHHHHHHHHHHHHHHHHHHHHH
T ss_pred HHHHHHHHHHHCCCCHHHHHHHHHHHHH
T ss_conf 8888887766424414599999999986
No 5
>>2o36_A ThiMet oligopeptidase; thermolysin-like domain, substrate-binding channel, hydrolase; 1.95A {Homo sapiens} PDB: 1s4b_P (A:288-339,A:498-529)
Probab=29.43 E-value=30 Score=16.20 Aligned_cols=26 Identities=23% Similarity=0.463 Sum_probs=19.7
Q ss_pred HHHHHHHHHHHHHCC----HHHHHHHHHHH
Q ss_conf 259999997764103----69999999996
Q gi|254780514|r 3 FNEIILKNISNNYEV----PKMLITELSTE 28 (110)
Q Consensus 3 FN~ii~~~i~k~~Et----PK~ll~~llse 28 (110)
..-.+++.+++||+| |.+++++++..
T Consensus 53 W~~e~L~~~a~Hy~TgepiP~~l~ekl~~s 82 (84)
T 2o36_A 53 WEQEPLLRMSRHYRTGSAVPRELLEKLIES 82 (84)
T ss_dssp GSHHHHHHTCCCTTTCCCCCHHHHHHHHHG
T ss_pred CCHHHHHHHCCCCCCCCCCCHHHHHHHHHH
T ss_conf 787887500025677887879999999987
No 6
>>3i0w_A 8-oxoguanine-DNA-glycosylase; OGG, cacogg, DNA, 8-OXOG, 8OXOG, glycosylase, cytosine, hydrolase,lyase/DNA complex; HET: 8OG; 1.73A {Clostridium acetobutylicum} PDB: 3i0x_A* 3f10_A* 3f0z_A (A:81-110,A:237-290)
Probab=29.41 E-value=43 Score=15.30 Aligned_cols=39 Identities=15% Similarity=0.262 Sum_probs=30.6
Q ss_pred HHHHHHHHCCHHHHHHHHHHHHHHHHHHHHHCCCCHHHH
Q ss_conf 999999637964200157999999996321201104457
Q gi|254780514|r 22 ITELSTELFNLKTANQNFFHNTLTKKFGDYMSKITPYLY 60 (110)
Q Consensus 22 l~~llselin~~t~K~~e~~etir~~~gdY~~~i~P~iy 60 (110)
+-+++.+..+++...-.+..+..++.+|+|+|=.--|++
T Consensus 38 I~rI~~~~Y~~t~k~y~~i~~f~re~fG~yAG~AQqyLF 76 (84)
T 3i0w_A 38 VKKAMMSLYVAPDVSLKKIRDFGREKFGSLSGFAQQYLF 76 (84)
T ss_dssp HHHHHHHHTSCTTCCHHHHHHHHHHHHGGGHHHHHHHHH
T ss_pred HHHHHHHHCCCCCCCHHHHHHHHHHHCCCHHHHHHHHHH
T ss_conf 999999966999999999999999873075999999999
No 7
>>2fz0_A R-snare NYV1P, V-snare component of the vacuolar snare complex involved in vesicle fusion; inhibits...; snare protein, longin domain; NMR {Saccharomyces cerevisiae} (A:)
Probab=22.58 E-value=42 Score=15.39 Aligned_cols=40 Identities=13% Similarity=0.355 Sum_probs=29.5
Q ss_pred HCCHHHHHHHHHHHHCCHHH-HHHHHHHHHHHHHHHHHHCC
Q ss_conf 10369999999996379642-00157999999996321201
Q gi|254780514|r 15 YEVPKMLITELSTELFNLKT-ANQNFFHNTLTKKFGDYMSK 54 (110)
Q Consensus 15 ~EtPK~ll~~llselin~~t-~K~~e~~etir~~~gdY~~~ 54 (110)
.++||-|--++|++|-.++. ..++++..-+..+.-.+-++
T Consensus 98 ~dvPKILPiRlLSeLK~~~~~~~De~L~~~v~~ild~FH~E 138 (149)
T 2fz0_A 98 VDIPKILPIRILSGLQEYESNATNELLSSHVGQILDSFHEE 138 (149)
T ss_dssp TTSCSSHHHHHHHHHTTSSCCCSTTTHHHHHHHHHHHHHHH
T ss_pred CCCCCCCCHHHHHHCCCCCCCCCHHHHHHHHHHHHHHHHHH
T ss_conf 58864021788755135667998899999999999999999
No 8
>>2qvw_A GLP_546_48378_50642; dicer, RNAI,pseudo-merohedral twin, hydrolase; 3.00A {Giardia intestinalis} PDB: 2ffl_A (A:328-440)
Probab=19.85 E-value=67 Score=14.20 Aligned_cols=43 Identities=9% Similarity=0.084 Sum_probs=30.1
Q ss_pred HHHHHHHHCCCCHHHHHHHHCCCHHHHHHHHHHHHHHHHHHHH
Q ss_conf 9996321201104457631032235543304579999999973
Q gi|254780514|r 45 TKKFGDYMSKITPYLYEWVLSNTQSRRSRDGQEFEYIIYSLYN 87 (110)
Q Consensus 45 r~~~gdY~~~i~P~iy~l~lsntqsrrsrag~~fe~iiY~~Yn 87 (110)
.+.++..+.++--.-+...-+..+.+.+.-+..||++|=++|-
T Consensus 48 n~~la~~a~~~gl~~~i~~~~~~~~~~k~lad~feAliGAiyl 90 (113)
T 2qvw_A 48 NEALNYLVQTLGLPQLAEFSNNLVAKSKTWADMYEEIVGSIFT 90 (113)
T ss_dssp HHHHHHHHHHTTCTTTCBCCSCC--CCCCHHHHHHHHHHHHHH
T ss_pred HHHHHHHHHHCCCHHHHHHHHHHHHHCCCHHHHHHHHHHHHCC
T ss_conf 7889999997084689999877776124089999997641203
No 9
>>2o3e_A Neurolysin; thermolysin-like domain, substrate-binding channel, hydrolase; 2.20A {Rattus norvegicus} PDB: 1i1i_P (A:304-356,A:513-545)
Probab=19.80 E-value=65 Score=14.26 Aligned_cols=25 Identities=20% Similarity=0.284 Sum_probs=17.7
Q ss_pred HHHHHHHHHHHCC----HHHHHHHHHHHH
Q ss_conf 9999997764103----699999999963
Q gi|254780514|r 5 EIILKNISNNYEV----PKMLITELSTEL 29 (110)
Q Consensus 5 ~ii~~~i~k~~Et----PK~ll~~llsel 29 (110)
...++.+++||+| |.+++++++..+
T Consensus 57 ~evL~~~a~Hy~TGeplP~~li~kl~~sr 85 (86)
T 2o3e_A 57 VDSLRKLSKHYKDGHPITDELLEKLVASR 85 (86)
T ss_dssp HHHHHHHCCCSSSCCCCCHHHHHHHHHTT
T ss_pred HHHHHHHCCCCCCCCCCCHHHHHHHHHHH
T ss_conf 88998632676678978799999899987
No 10
>>2q8u_A Exonuclease, putative; TM1635, structural genomics, joint center for structural genomics, JCSG, protein structure initiative, PSI-2; HET: MSE; 2.20A {Thermotoga maritima MSB8} (A:282-336)
Probab=17.24 E-value=71 Score=14.05 Aligned_cols=19 Identities=0% Similarity=-0.083 Sum_probs=15.6
Q ss_pred HHHHHHHHHHHHHHHHHCC
Q ss_conf 0157999999996321201
Q gi|254780514|r 36 NQNFFHNTLTKKFGDYMSK 54 (110)
Q Consensus 36 K~~e~~etir~~~gdY~~~ 54 (110)
-+.++...||+||-.+||-
T Consensus 11 ~dtsa~~~i~dfcr~fpgy 29 (55)
T 2q8u_A 11 IDTSALKSIRDFCRNFPGY 29 (55)
T ss_dssp CCHHHHHHHHHHHHTCSSE
T ss_pred CCHHHHHHHHHHHHCCCCE
T ss_conf 4578888899876177978
Done!