Query gi|254780508|ref|YP_003064921.1| hypothetical protein CLIBASIA_01975 [Candidatus Liberibacter asiaticus str. psy62] Match_columns 123 No_of_seqs 37 out of 39 Neff 3.7 Searched_HMMs 23785 Date Tue May 31 20:30:31 2011 Command /home/congqian_1/programs/hhpred/hhsearch -i 254780508.hhm -d /home/congqian_1/database/pdb/pdb70.hhm No Hit Prob E-value P-value Score SS Cols Query HMM Template HMM 1 3opc_A Uncharacterized protein 95.3 0.075 3.2E-06 30.9 7.6 91 9-99 16-133 (154) 2 2fup_A Hypothetical protein PA 93.8 0.21 8.6E-06 28.3 7.0 99 9-111 15-142 (157) 3 2e8g_A Hypothetical protein PH 31.6 27 0.0011 15.3 5.8 52 2-54 3-54 (241) 4 3iu0_A Protein-glutamine gamma 17.3 20 0.00083 16.2 -0.3 29 85-113 168-196 (382) 5 2c2j_A DNA-binding stress resp 13.5 64 0.0027 13.0 3.1 28 59-86 161-188 (211) 6 2dsy_A Hypothetical protein TT 12.1 40 0.0017 14.3 0.1 27 89-115 5-36 (87) 7 2fjc_A Antigen TPF1; mini ferr 11.6 74 0.0031 12.7 4.5 28 60-87 129-156 (156) 8 1ca9_A TRAF2, protein (TNF rec 10.6 79 0.0033 12.5 2.9 44 64-108 2-45 (192) 9 2akf_A Coronin-1A; coiled coil 10.6 80 0.0033 12.5 2.7 16 7-22 16-31 (32) 10 2yw6_A DNA protection during s 10.2 82 0.0035 12.4 4.3 38 48-85 119-156 (183) No 1 >3opc_A Uncharacterized protein; structural genomics, PSI-2, protein structure initiative, MI center for structural genomics, MCSG, chaperone; HET: MSE; 2.09A {Bordetella pertussis} Probab=95.28 E-value=0.075 Score=30.94 Aligned_cols=91 Identities=11% Similarity=0.120 Sum_probs=70.8 Q ss_pred HHHHHHHHHHHHHHHHHHHHHCCCCC-HHHHHHHHHHHHHHHHHHHCCH----HH---------------CCH------- Q ss_conf 99999999999999999985178888-7998987778999999982499----88---------------196------- Q gi|254780508|r 9 IQTVLKRVIAVIDNENKNLKNNSQFD-ISISNDHKGRCLHELSVLILSC----EE---------------ISW------- 61 (123) Q Consensus 9 i~s~i~RLe~vId~Et~aL~~~~~~D-l~e~N~rKSr~LlELtrl~r~~----~~---------------~~~------- 61 (123) -..++..|..+++.|..+|..+..+| |...+..|..-+-.+..+-+.. .. ..+ T Consensus 16 e~~~~~~L~~lL~~E~~aL~~~~~~~~L~~l~~~K~~ll~~l~~~~~~R~~~l~~~g~~~~~~~~~~~~~~~~~l~~~w~ 95 (154) T 3opc_A 16 ENALVVEFLHALEAETEALMDRRAHESLQAAVQRKETLADDLAQLGAERDALLSGAGLASGPAGTDAAAAAHPELGPLWQ 95 (154) T ss_dssp HHHHHHHHHHHHHHHHHHHHCCHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHTTCCSHHHHHHHHHHHCGGGHHHHH T ss_pred HHHHHHHHHHHHHHHHHHHHCCCCHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHCCCCCCHHHHHHHCCCHHHHHHHH T ss_conf 99999999999999999987399769999999999999999999999999999981899871245532004699999999 Q ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH Q ss_conf 77999999999999999999999999999999999999 Q gi|254780508|r 62 DHLEQIRTLHEKLALNSSLLESYLDAARVVADLFKKQL 99 (123) Q Consensus 62 ~~~~~L~~Lr~KL~rN~~~L~~HL~AVreVa~ii~~Ai 99 (123) .+...+..+|+.=.+|..+++.+++-++..-.+|..+. T Consensus 96 ~l~~ll~~~~~~N~~Ng~Li~~~l~~~~~~l~~L~~~~ 133 (154) T 3opc_A 96 ALQANAAQAREHNQRNGTLIAVNLRHTQESLDALRQAA 133 (154) T ss_dssp HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHTTC-- T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHCC T ss_conf 99999999999999999999999999999999987415 No 2 >2fup_A Hypothetical protein PA3352; structural genomics, PSI, protein structure initiative, joint center for structural genomics, JCSG; 1.48A {Pseudomonas aeruginosa} SCOP: a.47.5.1 Probab=93.83 E-value=0.21 Score=28.28 Aligned_cols=99 Identities=12% Similarity=0.083 Sum_probs=76.9 Q ss_pred HHHHHHHHHHHHHHHHHHHHHCCCCCHHHHHHHHHHHHHHHHHHHCC-------------HHH----CC----------- Q ss_conf 99999999999999999985178888799898777899999998249-------------988----19----------- Q gi|254780508|r 9 IQTVLKRVIAVIDNENKNLKNNSQFDISISNDHKGRCLHELSVLILS-------------CEE----IS----------- 60 (123) Q Consensus 9 i~s~i~RLe~vId~Et~aL~~~~~~Dl~e~N~rKSr~LlELtrl~r~-------------~~~----~~----------- 60 (123) -...+..|..+.+.|..+|..+....|...+..|...+-.+..+-+. ... +. T Consensus 15 e~~~~~~L~~lL~~e~~aL~~~d~~~L~~l~~~k~~l~~~l~~l~~~R~~~l~~~g~~~~~~~~~~~~~~~~~~~~L~~~ 94 (157) T 2fup_A 15 DIGHANQLLQLVDEEFQALERRELPVLQQLLGAKQPLMQQLERNGRARAEILREAGVSLDREGLARYARERADGAELLAR 94 (157) T ss_dssp HHHHHHHHHHHHHHHHHHHHTTCCHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHTTCCSSHHHHHHHHTTCTTHHHHHHH T ss_pred HHHHHHHHHHHHHHHHHHHHCCCHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHCCCCCCCCHHHHHHHCCCCHHHHHHH T ss_conf 99999999999999999998289999999999999999999999999999999828998830399987558744899999 Q ss_pred -HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHCCCCCCCC Q ss_conf -677999999999999999999999999999999999999987528874522 Q gi|254780508|r 61 -WDHLEQIRTLHEKLALNSSLLESYLDAARVVADLFKKQLQEIDADGTYHDG 111 (123) Q Consensus 61 -~~~~~~L~~Lr~KL~rN~~~L~~HL~AVreVa~ii~~Ai~~aESDGTYSa~ 111 (123) ..+...+..+|+.=.+|..+++.++..++..-.+|+.+ .+.+||++. T Consensus 95 ~~~L~~~~~~~k~~N~~N~~Li~~~~~~~~~~l~il~~~----~~~~~Y~~~ 142 (157) T 2fup_A 95 GDELGELLERCQQANLRNGRIIRANQASTGSLLNILRGQ----DAPSLYDSR 142 (157) T ss_dssp HHHHHHHHHHHHHHHHHHHHC--CTTHHHHHHHHHHC--------------- T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHCCC----CCCCCCCCC T ss_conf 999999999999999999999999999999999985679----988885989 No 3 >2e8g_A Hypothetical protein PH0536; oligonucleotide/oligosaccharide-binding fold, alpha-helices bundle, structural genomics, NPPSFA; 1.70A {Pyrococcus horikoshii} Probab=31.59 E-value=27 Score=15.34 Aligned_cols=52 Identities=25% Similarity=0.243 Sum_probs=38.8 Q ss_pred CCCHHHHHHHHHHHHHHHHHHHHHHHHHCCCCCHHHHHHHHHHHHHHHHHHHC Q ss_conf 87645899999999999999999998517888879989877789999999824 Q gi|254780508|r 2 STSSDYRIQTVLKRVIAVIDNENKNLKNNSQFDISISNDHKGRCLHELSVLIL 54 (123) Q Consensus 2 ~~s~d~ri~s~i~RLe~vId~Et~aL~~~~~~Dl~e~N~rKSr~LlELtrl~r 54 (123) -+++|+||..+.+.+...++ ++.-..-....+.++...--...+.++.++.- T Consensus 3 D~~~d~Ri~~a~~a~N~y~~-~~~pw~l~k~~~k~~~l~~v~~~~~~l~~l~~ 54 (241) T 2e8g_A 3 DTSKDYRLLVAEKSVELFIR-TIEGAKFRGQWDKKRSIQLAKEMIPDIQALRY 54 (241) T ss_dssp CGGGCHHHHHHHHHHHHHHH-HHHTSCCCTTSCHHHHHHHHHHHHHHHHHHHT T ss_pred CHHHHHHHHHHHHHHHHHHH-HHCCCCCCCCHHHHHHHHHHHHHHHHHHHHHH T ss_conf 22576999999999999997-51771018755179999999999999999998 No 4 >3iu0_A Protein-glutamine gamma-glutamyltransferase; mtgase, zymogen, Pro-enzyme,cross-linking, acyltransferase; 1.90A {Streptomyces mobaraensis} PDB: 1iu4_A Probab=17.32 E-value=20 Score=16.18 Aligned_cols=29 Identities=24% Similarity=0.464 Sum_probs=23.2 Q ss_pred HHHHHHHHHHHHHHHHHHHCCCCCCCCCC Q ss_conf 99999999999999998752887452252 Q gi|254780508|r 85 LDAARVVADLFKKQLQEIDADGTYHDGFC 113 (123) Q Consensus 85 L~AVreVa~ii~~Ai~~aESDGTYSa~~~ 113 (123) ..-.|+|+.||.+|+..+--.|||-.-+- T Consensus 168 fkrardvasimnkale~ahdeg~y~~nlk 196 (382) T 3iu0_A 168 FQRAREVASVMNRALENAHDESAYLDNLK 196 (382) T ss_dssp HHHHHHHHHHHHHHHTTCCSHHHHHHHHH T ss_pred HHHHHHHHHHHHHHHHHCCCCHHHHHHHH T ss_conf 15788899999998772133015777777 No 5 >2c2j_A DNA-binding stress response protein; DNA-binding protein, DPS; 2.05A {Deinococcus radiodurans} PDB: 2c6r_A Probab=13.50 E-value=64 Score=13.03 Aligned_cols=28 Identities=4% Similarity=0.121 Sum_probs=16.4 Q ss_pred CCHHHHHHHHHHHHHHHHHHHHHHHHHH Q ss_conf 1967799999999999999999999999 Q gi|254780508|r 59 ISWDHLEQIRTLHEKLALNSSLLESYLD 86 (123) Q Consensus 59 ~~~~~~~~L~~Lr~KL~rN~~~L~~HL~ 86 (123) .++.+...|..+-+.++.+.|-|+.||+ T Consensus 161 ~D~~T~dll~~~~~~~EK~~WmL~a~L~ 188 (211) T 2c2j_A 161 VDPTTANLLQEVEHIIEKYQWQMRAFLQ 188 (211) T ss_dssp TCHHHHHHHHHHHHHHHHHHHHHHGGGC T ss_pred CCHHHHHHHHHHHHHHHHHHHHHHHHHC T ss_conf 8888999999999999999999999827 No 6 >2dsy_A Hypothetical protein TTHA0281; structural genomics, thermus thermophilus HB8, NPPSFA; HET: NHE; 1.90A {Thermus thermophilus} SCOP: d.304.1.2 Probab=12.11 E-value=40 Score=14.29 Aligned_cols=27 Identities=4% Similarity=0.154 Sum_probs=16.2 Q ss_pred HHHHHHHHHHHHHH-----HCCCCCCCCCCCC Q ss_conf 99999999999987-----5288745225222 Q gi|254780508|r 89 RVVADLFKKQLQEI-----DADGTYHDGFCES 115 (123) Q Consensus 89 reVa~ii~~Ai~~a-----ESDGTYSa~~~~~ 115 (123) +-+.+-++.|++-+ +.||.|.+-||+- T Consensus 5 ~~l~~y~~~aM~~~~y~i~eedg~y~~~~Pdl 36 (87) T 2dsy_A 5 GTLTRYLEEAMARARYELIADEEPYYGEIPDL 36 (87) T ss_dssp SHHHHHHHHHHHTCEEEECSSSSCEEEECTTS T ss_pred HHHHHHHHHHHHHCEEEEECCCCEEEEEECCC T ss_conf 79999999998555578984899899992899 No 7 >2fjc_A Antigen TPF1; mini ferritin, iron binding protein, metal transport; 2.50A {Treponema pallidum} SCOP: a.25.1.1 Probab=11.56 E-value=74 Score=12.66 Aligned_cols=28 Identities=18% Similarity=0.018 Sum_probs=24.6 Q ss_pred CHHHHHHHHHHHHHHHHHHHHHHHHHHH Q ss_conf 9677999999999999999999999999 Q gi|254780508|r 60 SWDHLEQIRTLHEKLALNSSLLESYLDA 87 (123) Q Consensus 60 ~~~~~~~L~~Lr~KL~rN~~~L~~HL~A 87 (123) ++.+...+.++-+.++.+.+-|+.||+| T Consensus 129 D~~T~dll~~i~~~~Ek~~WmL~a~L~~ 156 (156) T 2fjc_A 129 DAVTDGIITDILRTLGKAIWMLGATLKA 156 (156) T ss_dssp CHHHHHHHHHHHHHHHHHHHHHHHHHCC T ss_pred CHHHHHHHHHHHHHHHHHHHHHHHHHCC T ss_conf 9868999999999999999999966339 No 8 >1ca9_A TRAF2, protein (TNF receptor associated factor 2); TNF signaling, TRAF, adapter protein, cell surviVal; 2.30A {Homo sapiens} SCOP: b.8.1.1 h.1.2.1 PDB: 1qsc_A 1czz_A Probab=10.63 E-value=79 Score=12.47 Aligned_cols=44 Identities=14% Similarity=0.115 Sum_probs=0.0 Q ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHCCCCC Q ss_conf 999999999999999999999999999999999999987528874 Q gi|254780508|r 64 LEQIRTLHEKLALNSSLLESYLDAARVVADLFKKQLQEIDADGTY 108 (123) Q Consensus 64 ~~~L~~Lr~KL~rN~~~L~~HL~AVreVa~ii~~Ai~~aESDGTY 108 (123) ++++..|..|+....+-++..-.-..++-.-|. .++.+..+|+| T Consensus 2 ~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~-~~~~~~~~g~f 45 (192) T 1ca9_A 2 QDKIEALSSKVQQLERSIGLKDLAMADLEQKVL-EMEASTYDGVF 45 (192) T ss_dssp CCTTHHHHTHHHHHHHHHHHHHHHHHHHHHHHH-HHHHCCSSSEE T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH-HHHCCCCCCEE T ss_conf 579999999999999999999999999999999-86400218789 No 9 >2akf_A Coronin-1A; coiled coil, protein binding; 1.20A {Synthetic} Probab=10.59 E-value=80 Score=12.46 Aligned_cols=16 Identities=19% Similarity=0.343 Sum_probs=0.0 Q ss_pred HHHHHHHHHHHHHHHH Q ss_conf 8999999999999999 Q gi|254780508|r 7 YRIQTVLKRVIAVIDN 22 (123) Q Consensus 7 ~ri~s~i~RLe~vId~ 22 (123) |.+|--++|||.++.+ T Consensus 16 q~lq~rldrleetvqa 31 (32) T 2akf_A 16 QKLQERLDRLEETVQA 31 (32) T ss_dssp HHHHHHHHHHHHHHHH T ss_pred HHHHHHHHHHHHHHHC T ss_conf 9999999999987724 No 10 >2yw6_A DNA protection during starvation protein; DNA-binding protein, quarternary assembly, ferroxidation, oxidoreductase; HET: DNA; 2.53A {Mycobacterium smegmatis} SCOP: a.25.1.1 PDB: 1vei_A 1vel_A 1veq_A 1uvh_A* 2yw7_A Probab=10.16 E-value=82 Score=12.37 Aligned_cols=38 Identities=11% Similarity=0.037 Sum_probs=0.0 Q ss_pred HHHHHHCCHHHCCHHHHHHHHHHHHHHHHHHHHHHHHH Q ss_conf 99998249988196779999999999999999999999 Q gi|254780508|r 48 ELSVLILSCEEISWDHLEQIRTLHEKLALNSSLLESYL 85 (123) Q Consensus 48 ELtrl~r~~~~~~~~~~~~L~~Lr~KL~rN~~~L~~HL 85 (123) .+..++...++.++.+...|.++-+.++.+.|-|+.|| T Consensus 119 ~~r~~i~~ae~~D~~T~Dll~~~i~~~EK~~WmL~a~L 156 (183) T 2yw6_A 119 DTRKSIEKLEDLDLVSQDLLIAHAGELEKFQWFVRAHL 156 (183) T ss_dssp HHHHHHHHHTTTCHHHHHHHHHHHHHHHHHHHHHHHHH T ss_pred HHHHHHHHHCCCCHHHHHHHHHHHHHHHHHHHHHHHHH T ss_conf 99999998617998999999999999999999999870 Done!