Query gi|254780140|ref|YP_003064553.1| putative ABC transporter, substrate-binding protein [Candidatus Liberibacter asiaticus str. psy62] Match_columns 452 No_of_seqs 295 out of 2333 Neff 11.7 Searched_HMMs 33803 Date Sun May 22 13:07:09 2011 Command /home/congqian_1/programs/hhpred/hhsearch -i 254780140.hhm -d /home/congqian_1/database/mmdb/mmdb70.hhm No Hit Prob E-value P-value Score SS Cols Query HMM Template HMM 1 >3g67_A Methyl-accepting chemo 96.6 0.046 1.4E-06 31.8 22.0 58 374-432 151-208 (213) 2 >3g67_A Methyl-accepting chemo 96.6 0.05 1.5E-06 31.6 23.1 21 406-426 189-209 (213) 3 >2ch7_A Methyl-accepting chemo 95.2 0.19 5.7E-06 27.5 22.0 202 220-426 2-205 (205) 4 >2j5u_A MREC protein; bacteria 81.7 1.9 5.5E-05 20.6 3.8 42 47-93 29-70 (106) 5 >2j5u_A MREC protein; bacteria 75.4 2.7 7.9E-05 19.5 3.1 41 38-78 26-74 (86) 6 >1lvf_A Syntaxin 6; snare, thr 74.6 4.3 0.00013 18.0 5.5 28 368-395 46-73 (110) 7 >2qf4_A Cell shape determining 74.0 4.3 0.00013 18.1 3.8 41 38-78 27-75 (87) 8 >2ch7_A Methyl-accepting chemo 61.0 8 0.00024 16.1 11.0 25 405-429 79-103 (104) 9 >3gqb_A V-type ATP synthase al 60.0 8.3 0.00025 16.0 3.9 24 48-71 18-42 (69) 10 >2dpy_A FLII, flagellum-specif 53.7 9.8 0.00029 15.5 2.5 11 63-73 28-38 (84) 11 >2qf4_A Cell shape determining 53.2 11 0.00032 15.3 3.4 39 47-90 30-68 (85) 12 >1xme_C Cytochrome C oxidase p 52.0 11 0.00033 15.1 2.9 27 1-31 1-27 (34) 13 >1wos_A Aminomethyltransferase 49.5 12 0.00036 14.9 8.4 50 39-90 60-109 (144) 14 >2wps_A Trimeric autotransport 49.3 12 0.00036 14.9 13.8 21 408-428 81-101 (107) 15 >3h9i_A Cation efflux system p 41.9 16 0.00046 14.1 5.5 69 35-103 16-93 (98) 16 >3bz1_T PSII-T, PSII-TC, photo 41.8 16 0.00047 14.1 3.4 26 11-36 6-31 (32) 17 >3e7w_A D-alanine--poly(phosph 41.1 16 0.00048 14.0 3.0 35 33-67 4-42 (143) 18 >1pj5_A N,N-dimethylglycine ox 39.3 17 0.00051 13.8 8.6 53 40-93 60-112 (144) 19 >3bu2_A Putative tRNA-binding 32.9 21 0.00063 13.1 3.9 32 59-90 4-35 (114) 20 >2cp3_A CLIP-115, KIAA0291; mi 32.7 22 0.00064 13.1 5.6 63 47-118 3-65 (84) 21 >1v5v_A Aminomethyltransferase 31.4 23 0.00067 13.0 7.3 43 47-90 10-52 (90) 22 >3i9y_A Sensor protein; stacke 28.4 25 0.00075 12.6 16.4 20 409-428 186-205 (215) 23 >2cp2_A CLIP-115, KIAA0291; mi 28.0 26 0.00076 12.6 4.8 66 46-120 13-78 (95) 24 >2ey4_C Small nucleolar RNP si 22.6 32 0.00095 11.9 2.8 28 50-77 29-57 (82) 25 >2rhq_B Phenylalanyl-tRNA synt 22.2 33 0.00097 11.9 3.5 18 60-77 2-19 (96) 26 >2gag_A Heterotetrameric sarco 21.9 33 0.00098 11.8 4.2 51 53-105 47-97 (119) 27 >2v31_A Ubiquitin-activating e 21.9 33 0.00098 11.8 3.2 25 40-64 30-54 (112) 28 >2q2i_A AGR_C_4014P, secretion 20.4 35 0.001 11.6 3.9 30 58-87 13-42 (116) 29 >2q2h_A AGR_C_4014P, secretion 20.4 36 0.0011 11.6 3.9 39 49-87 15-57 (131) 30 >1ntg_A Tyrrs, tyrosyl-tRNA sy 20.2 36 0.0011 11.6 4.5 30 60-89 9-38 (172) No 1 >>3g67_A Methyl-accepting chemotaxis protein; four-helix bundle, signaling protein; 2.17A {Thermotoga maritima} PDB: 3g6b_A (A:) Probab=96.64 E-value=0.046 Score=31.80 Aligned_cols=58 Identities=9% Similarity=0.176 Sum_probs=22.6 Q ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHC Q ss_conf 99999999999999999999999998646428999999999999999999999999878 Q gi|254780140|r 374 RAMHTFRDTSEKINRYIPSIGNNLQNFSQSGLNDIQNLVRKLQETVNHFDDCLNNFERN 432 (452) Q Consensus 374 ~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~l~~~ 432 (452) ..+..+......+...+..+...+..... ...++....+++...+..+...+..+... T Consensus 151 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~-~~~~i~~~~~e~~~~~~~i~~~i~~i~~~ 208 (213) T 3g67_A 151 ENLEFMANLFETVGKTLQNMVRFMENNVK-LLQEVRNSLDTSKESLSEKSAEIDSATKV 208 (213) T ss_dssp HHHHHHHHHHHHHHHHHHHHHHHHHHHHH-HHHHHHHHHHHHHHHHHHHHHHHHHHHHH T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHH-HHHHHHHHHHHHHHHHHHHHHHHHHHHHH T ss_conf 99999999999999999999999999999-99999999999999999999999999999 No 2 >>3g67_A Methyl-accepting chemotaxis protein; four-helix bundle, signaling protein; 2.17A {Thermotoga maritima} PDB: 3g6b_A (A:) Probab=96.59 E-value=0.05 Score=31.58 Aligned_cols=21 Identities=5% Similarity=0.142 Sum_probs=8.4 Q ss_pred HHHHHHHHHHHHHHHHHHHHH Q ss_conf 999999999999999999999 Q gi|254780140|r 406 NDIQNLVRKLQETVNHFDDCL 426 (452) Q Consensus 406 ~~~~~~~~~~~~~~~~l~~~~ 426 (452) .++.....++...+..+...+ T Consensus 189 ~e~~~~~~~i~~~i~~i~~~~ 209 (213) T 3g67_A 189 DTSKESLSEKSAEIDSATKVL 209 (213) T ss_dssp HHHHHHHHHHHHHHHHHHHHH T ss_pred HHHHHHHHHHHHHHHHHHHHH T ss_conf 999999999999999999998 No 3 >>2ch7_A Methyl-accepting chemotaxis protein; receptor, four-helix bundle, signal transduction, methyl-accepting receptor; 2.5A {Thermotoga maritima} (A:52-256) Probab=95.22 E-value=0.19 Score=27.48 Aligned_cols=202 Identities=6% Similarity=0.153 Sum_probs=0.0 Q ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH--HHHH Q ss_conf 11100000012344320001244333333344555544444431012577898889889999987755323332--2233 Q gi|254780140|r 220 ITDLITSLDKMIKAIDLQKVNQILENIQVSSNNFVKSSDQVINTVHDVRETTQTFQEVGQKIDHLLSDFSSKMK--SKET 297 (452) Q Consensus 220 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~--~~~~ 297 (452) +..+...+..+...+ ..+......+......+......+......+......+......+...+..+..... ...+ T Consensus 2 v~~~~~~~~el~~~~--~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~i~~~~ 79 (205) T 2ch7_A 2 VQETTAGSEEISSAT--KNIADSAQQAASFADQSTQLAKEAGDALKKVIEVTRMISNSAKDVERVVESFQKGAEEITSFV 79 (205) T ss_dssp HHHHHHHHHHHHHHH--HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHTTHHHHHHH T ss_pred HHHHHHHHHHHHHHH--HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH T ss_conf 999999999999999--988888888877788999998877888999988888999998864122378888776899999 Q ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHCCCHHHHHHHHHHHHH Q ss_conf 33210145677777765543322211122344431006888865798999999999999876401223679999999999 Q gi|254780140|r 298 SAFLENIADSTSNMRSSISAIREITDQRQKIISTINTIENITSNLNDSSQKFAELMSKINNISALKENNSLFKDAQRAMH 377 (452) Q Consensus 298 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~i~~~~~~~~~l~~~~~~v~~~~~~id~~~~~~~~~~~~~~~~~~~~ 377 (452) .............+................+......+..+...+.....++......+.... .............+. T Consensus 80 ~~i~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ev~~la~~~~~~~~ei~~~~~~i~~~~--~~~~~~~~~~~~~~~ 157 (205) T 2ch7_A 80 ETINAIAEQTNLLALNAAIEAARAGEAGRGFAVVADEIRKLAEESQQASENVRRVVNEIRSIA--EDAGKVSSEITARVE 157 (205) T ss_dssp HHHHHHHHHHHHHHHHHHHHHHTTCTTHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH--HTTHHHHHHHHHHHH T ss_pred HHHHHHHHHCCHHHHHHHHHHHHHHHHHHCCCHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH--HHHHHHHHHHHHHHH T ss_conf 999863100005666567888740134430100012321010111237999988776565678--889999876245443 Q ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH Q ss_conf 9999999999999999999998646428999999999999999999999 Q gi|254780140|r 378 TFRDTSEKINRYIPSIGNNLQNFSQSGLNDIQNLVRKLQETVNHFDDCL 426 (452) Q Consensus 378 ~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~~~~~~~~~~~~~l~~~~ 426 (452) .+....+.+...+..+...+....... .++....+++...+..+...+ T Consensus 158 ~~~~~~~~~~~~~~~i~~~~~~~~~~~-~~i~~~~ee~~~~~~ei~~~i 205 (205) T 2ch7_A 158 EGTKLADEADEKLNSIVGAVERINEML-QNIAAAIEEQTAAVDEITTAM 205 (205) T ss_dssp HHHHTTHHHHHHHHHHHHHHHHHHHHH-HHHHHHHHHHHHHHHHHHHHH T ss_pred HHHHHHHHCCCHHHHHHHHHHHHHHHH-HHHHHHHHHHHHHHHHHHHHH T ss_conf 200121100110888999999999989-999999999999999999999 No 4 >>2j5u_A MREC protein; bacterial cell shape determining protein MREC, cell shape regulation; 2.5A {Listeria monocytogenes} (A:64-130,A:217-255) Probab=81.67 E-value=1.9 Score=20.57 Aligned_cols=42 Identities=24% Similarity=0.286 Sum_probs=32.8 Q ss_pred CCCCCCCCCCEEEEEEEEEEEEEEEEECCCCCEEEEEEEEECCCCCC Q ss_conf 87567668980789007433798888648886079999997489724 Q gi|254780140|r 47 GSVDGLSTDSSVRFNGIPVGRIVGLFLDQEYPNHSLAKALIRPDTPL 93 (452) Q Consensus 47 ~~v~GL~~gspV~~~Gv~VG~V~~I~l~~~~~~~v~v~~~i~~~~~i 93 (452) +...|+++|.||...+--||+|.++... ..+|.+-.++++.+ T Consensus 29 Gs~dGVk~gmpVIs~~GLVG~V~~V~~~-----sSrVlLITDp~~~~ 70 (106) T 2j5u_A 29 GSSDGVKPDMAVTTPSGLIGKVTTTGAK-----SATVELLTSSDYDL 70 (106) T ss_dssp CGGGTCCTTCEEEETTEEEEEEEEECSS-----CEEEEETTCCCSSC T ss_pred CCCCCCCCHHEEECCCCEEEEEEECCCC-----CEEEEEEEECCCCC T ss_conf 1101123001021210102455541553-----01478875057038 No 5 >>2j5u_A MREC protein; bacterial cell shape determining protein MREC, cell shape regulation; 2.5A {Listeria monocytogenes} (A:131-216) Probab=75.40 E-value=2.7 Score=19.46 Aligned_cols=41 Identities=15% Similarity=-0.025 Sum_probs=26.6 Q ss_pred EEEEEEEECCCCCCCCCCCEE--------EEEEEEEEEEEEEEECCCCC Q ss_conf 189999971875676689807--------89007433798888648886 Q gi|254780140|r 38 MAEVIIRIPGSVDGLSTDSSV--------RFNGIPVGRIVGLFLDQEYP 78 (452) Q Consensus 38 ~~~~~~~f~~~v~GL~~gspV--------~~~Gv~VG~V~~I~l~~~~~ 78 (452) ...+.+.|.+.-.-+++|+.| +-.|++||+|+++..+.++. T Consensus 26 ~~~l~l~~i~~~~~i~~Gd~VvTSG~~g~fP~Gi~VG~V~~v~~~~~~~ 74 (86) T 2j5u_A 26 TKLLELKQLPYDMKFKKGQKVVTSGLGGKFPAGIFIGTIEKVETDKMGL 74 (86) T ss_dssp TTEEEEEEEETTSCCCTTCEEEECCTTSSSCTTCEEEEEEEEEECTTSS T ss_pred CCCCCCCCCCCCCCCCCCCEEEEECCCCCCCCCCEEEEEEEEECCCCCC T ss_conf 7754222111244567897799816676189998889999985078873 No 6 >>1lvf_A Syntaxin 6; snare, three-helix bundle, transport protein; 2.10A {Rattus norvegicus} (A:) Probab=74.57 E-value=4.3 Score=17.99 Aligned_cols=28 Identities=7% Similarity=0.139 Sum_probs=11.8 Q ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHH Q ss_conf 9999999999999999999999999999 Q gi|254780140|r 368 LFKDAQRAMHTFRDTSEKINRYIPSIGN 395 (452) Q Consensus 368 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 395 (452) +..++...+.+++..++.+...+.-+.. T Consensus 46 ~~~eL~~~l~~i~w~L~DLe~av~~ve~ 73 (110) T 1lvf_A 46 TTNELRNNLRSIEWDLEDLDETISIVEA 73 (110) T ss_dssp HHHHHHHHHHHHHHHHHHHHHHHHHHHS T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHH T ss_conf 9999999999999799999999999985 No 7 >>2qf4_A Cell shape determining protein MREC; filament A-lytic protease fold, structural protein; 1.20A {Streptococcus pneumoniae R6} PDB: 2qf5_A (A:69-155) Probab=73.98 E-value=4.3 Score=18.05 Aligned_cols=41 Identities=22% Similarity=0.285 Sum_probs=28.0 Q ss_pred EEEEEEEECCCCCCCCCCCE--------EEEEEEEEEEEEEEEECCCCC Q ss_conf 18999997187567668980--------789007433798888648886 Q gi|254780140|r 38 MAEVIIRIPGSVDGLSTDSS--------VRFNGIPVGRIVGLFLDQEYP 78 (452) Q Consensus 38 ~~~~~~~f~~~v~GL~~gsp--------V~~~Gv~VG~V~~I~l~~~~~ 78 (452) ..++.+.|.+.-.-+++|+. ++-.|++||+|+++..++++. T Consensus 27 ~~~l~l~~i~~~~~i~~Gd~vvTSG~~g~fP~GipVG~V~~v~~~~~~~ 75 (87) T 2qf4_A 27 NDVLKISQLNSNSDISAGDKVTTGGLGNFNVADIPVGEVVATTHSTDYL 75 (87) T ss_dssp TTEEEEECCSCCCCCCTTCEEEEECCSSSCCEEEEEEEEEEEESTTCSS T ss_pred CCCEEEEECCCCCCCCCCCEEEECCCCCCCCCCCEEEEEEEEECCCCCC T ss_conf 6640452123445335785499826456689997889999986179872 No 8 >>2ch7_A Methyl-accepting chemotaxis protein; receptor, four-helix bundle, signal transduction, methyl-accepting receptor; 2.5A {Thermotoga maritima} (A:1-51,A:257-309) Probab=60.99 E-value=8 Score=16.13 Aligned_cols=25 Identities=12% Similarity=0.418 Sum_probs=13.8 Q ss_pred HHHHHHHHHHHHHHHHHHHHHHHHH Q ss_conf 8999999999999999999999999 Q gi|254780140|r 405 LNDIQNLVRKLQETVNHFDDCLNNF 429 (452) Q Consensus 405 ~~~~~~~~~~~~~~~~~l~~~~~~l 429 (452) ..++....+++.+.+..|...+..| T Consensus 79 aeevasaSeeLs~lAeeL~~lVsrF 103 (104) T 2ch7_A 79 TEEVTSRVQTIRENVQMLKEIVARY 103 (104) T ss_dssp HHHHHHHHHHHHHHHSTTTHHHHHH T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHC T ss_conf 9999999999999999999999754 No 9 >>3gqb_A V-type ATP synthase alpha chain; A3B3, V-ATPase, ATP synthesis, ATP-binding, hydrogen ION transport, hydrolase, ION transport; 2.80A {Thermus thermophilus HB8} PDB: 3a5c_A* 3a5d_A 1um2_C (A:1-69) Probab=59.98 E-value=8.3 Score=16.01 Aligned_cols=24 Identities=21% Similarity=0.191 Sum_probs=11.2 Q ss_pred CCCCCCCCCEEEEEE-EEEEEEEEE Q ss_conf 756766898078900-743379888 Q gi|254780140|r 48 SVDGLSTDSSVRFNG-IPVGRIVGL 71 (452) Q Consensus 48 ~v~GL~~gspV~~~G-v~VG~V~~I 71 (452) .+.|..-|.-|++.| -..|+|-++ T Consensus 18 ~~~~v~~~EiV~I~g~~~~GeVi~i 42 (69) T 3gqb_A 18 GMLGARMYDISKVGEEGLVGEIIRL 42 (69) T ss_dssp SCTTCCTTEEEEETTTTEEEEEEEE T ss_pred ECCCCCCCCEEEECCCCEEEEEEEE T ss_conf 0788842558998899579999999 No 10 >>2dpy_A FLII, flagellum-specific ATP synthase; beta barrel, alpha-beta structure, hydrolase; HET: ADP; 2.40A {Salmonella typhimurium} (A:1-84) Probab=53.67 E-value=9.8 Score=15.51 Aligned_cols=11 Identities=18% Similarity=0.298 Sum_probs=5.1 Q ss_pred EEEEEEEEEEE Q ss_conf 74337988886 Q gi|254780140|r 63 IPVGRIVGLFL 73 (452) Q Consensus 63 v~VG~V~~I~l 73 (452) ..+|.+-.|.. T Consensus 28 ~~iGe~c~I~~ 38 (84) T 2dpy_A 28 LPLGATCIIER 38 (84) T ss_dssp CCSSCEEEEEE T ss_pred CCCCCEEEEEE T ss_conf 89899899994 No 11 >>2qf4_A Cell shape determining protein MREC; filament A-lytic protease fold, structural protein; 1.20A {Streptococcus pneumoniae R6} PDB: 2qf5_A (A:1-68,A:156-172) Probab=53.20 E-value=11 Score=15.26 Aligned_cols=39 Identities=18% Similarity=0.251 Sum_probs=28.6 Q ss_pred CCCCCCCCCCEEEEEEEEEEEEEEEEECCCCCEEEEEEEEECCC Q ss_conf 87567668980789007433798888648886079999997489 Q gi|254780140|r 47 GSVDGLSTDSSVRFNGIPVGRIVGLFLDQEYPNHSLAKALIRPD 90 (452) Q Consensus 47 ~~v~GL~~gspV~~~Gv~VG~V~~I~l~~~~~~~v~v~~~i~~~ 90 (452) +.-.|+++|.||-..+--||+|.++... ..+|.+-.++. T Consensus 30 G~~dGI~~gm~Vi~~~GLVG~V~~V~~~-----tS~VlLItd~~ 68 (85) T 2qf4_A 30 GRSKGASENMLAIANGGLIGSVSKVEEN-----STIVNLLTNTE 68 (85) T ss_dssp CGGGTCCTTCEEEETTEEEEEEEEECSS-----CEEEEETTCSB T ss_pred CCHHCCCCCCEEEECCCCEEEEEEECCE-----EEEEEEEECCC T ss_conf 6040897899999688528999974330-----68999874465 No 12 >>1xme_C Cytochrome C oxidase polypeptide IIA; cytochrome oxidase, heme, heme-AS, integral membrane protein, oxidoreductase; HET: BNG HEM HAS; 2.30A {Thermus thermophilus} (C:) Probab=52.00 E-value=11 Score=15.13 Aligned_cols=27 Identities=26% Similarity=0.491 Sum_probs=16.2 Q ss_pred CCCHHHHHHHHHHHHHHHHHHHHHHHHHCCC Q ss_conf 9632789999999999999999999986254 Q gi|254780140|r 1 MESKNYYTSVGLFVVSILFFSFFSIYWLSRS 31 (452) Q Consensus 1 m~~~~~~~~vG~fvi~~~~~~~~~~~~~~~~ 31 (452) ||+|- +|..-+..+..+..+++||+.. T Consensus 1 meekp----~gal~vi~il~l~ilvfw~gv~ 27 (34) T 1xme_C 1 MEEKP----KGALAVILVLTLTILVFWLGVY 27 (34) T ss_dssp -CCCC----HHHHHHHHHHHHHHHHHHHHHH T ss_pred CCCCC----CCHHHHHHHHHHHHHHHHHHHH T ss_conf 99786----4157999999999999999999 No 13 >>1wos_A Aminomethyltransferase; T-protein; 1.84A {Thermotoga maritima} (A:221-364) Probab=49.49 E-value=12 Score=14.87 Aligned_cols=50 Identities=22% Similarity=0.179 Sum_probs=34.1 Q ss_pred EEEEEEECCCCCCCCCCCEEEEEEEEEEEEEEEEECCCCCEEEEEEEEECCC Q ss_conf 8999997187567668980789007433798888648886079999997489 Q gi|254780140|r 39 AEVIIRIPGSVDGLSTDSSVRFNGIPVGRIVGLFLDQEYPNHSLAKALIRPD 90 (452) Q Consensus 39 ~~~~~~f~~~v~GL~~gspV~~~Gv~VG~V~~I~l~~~~~~~v~v~~~i~~~ 90 (452) ..+-+.+ +.-.=+..|++|+..|-.||.|++..+.|.- ++.+..-.++.+ T Consensus 60 rlv~l~~-~~~~~~~~g~~i~~~g~~VG~vtS~~~sp~l-~~~ialA~i~~~ 109 (144) T 1wos_A 60 KLVALEL-SGKRIARKGYEVLKNGERVGEITSGNFSPTL-GKSIALALVSKS 109 (144) T ss_dssp EEEEEEE-SSSCCCCTTCEEEETTEEEEEEEEEEEETTT-TEEEEEEEEETT T ss_pred EEEEEEE-ECCCCCCCCCEEEECCEEEEEEEEEEECHHC-CCEEEEEEECCC T ss_conf 1454432-1002468998688899088997546696304-938999999955 No 14 >>2wps_A Trimeric autotransporter adhesin fragment; membrane protein, ION coordination, hydrophobic core, TAA, stutter, stammer, coiled coil; 2.60A {Salmonella enterica subsp} PDB: 2wpr_A (A:) Probab=49.32 E-value=12 Score=14.85 Aligned_cols=21 Identities=5% Similarity=0.207 Sum_probs=7.1 Q ss_pred HHHHHHHHHHHHHHHHHHHHH Q ss_conf 999999999999999999999 Q gi|254780140|r 408 IQNLVRKLQETVNHFDDCLNN 428 (452) Q Consensus 408 ~~~~~~~~~~~~~~l~~~~~~ 428 (452) +...+.++...+..+..-+.. T Consensus 81 ~e~~~~~~~~~~~~l~~~~~~ 101 (107) T 2wps_A 81 ILSKIYHIENEIARIKKLIKL 101 (107) T ss_dssp HHHHHHHHHHHHHHHHHHHC- T ss_pred HHHHHHHHHHHHHHHHHHHHH T ss_conf 997899999889999999988 No 15 >>3h9i_A Cation efflux system protein CUSB; three-helix bundle, beta barrel, copper, copper transport, ION transport, transport, transport protein; 3.40A {Escherichia coli k-12} PDB: 3h94_A 3h9t_B (A:102-118,A:242-322) Probab=41.94 E-value=16 Score=14.09 Aligned_cols=69 Identities=14% Similarity=0.046 Sum_probs=45.5 Q ss_pred CCCEEEEEEEEC-CCCCCCCCCCEEEEE-----EE-EEEEEEEEEECCCC-CEEEEEEEEEC-CCCCCCCCCEEEEEE Q ss_conf 776189999971-875676689807890-----07-43379888864888-60799999974-897246884699974 Q gi|254780140|r 35 DGPMAEVIIRIP-GSVDGLSTDSSVRFN-----GI-PVGRIVGLFLDQEY-PNHSLAKALIR-PDTPLYPSTTATIRT 103 (452) Q Consensus 35 ~~~~~~~~~~f~-~~v~GL~~gspV~~~-----Gv-~VG~V~~I~l~~~~-~~~v~v~~~i~-~~~~i~~~~~~~i~~ 103 (452) ..+...+.+.++ ..+..+++|.+|.+. |- --|+|..|....|. .+...|++.++ ++..++.+-.+.+.. T Consensus 16 ~~~~l~v~~~Vpe~~i~~ik~Gq~v~v~~~~~~~~~~~g~V~~I~p~~d~~t~t~~Vri~i~n~~~~L~pGm~~~v~I 93 (98) T 3h9i_A 16 NEDPVWVTAAIPESIAWLVKDASQFTLTVPARPDKTLTIRKWTLLPGVDAATRTLQLRLEVDNADEALKPGMNAWLQL 93 (98) T ss_dssp CGSCEEEECEEEHHHHHHCCCTTSEEEECSSSCCSCCCEEEEEEEEEEETTTTEEEEEEEECTTSSCCCTTCEEEEEE T ss_pred CCCCCCCCCCCCHHHHHHCCCCCCEEEEECCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCEEEEEE T ss_conf 741222322211001110133543168741223222233332222112221111222223334566789997899999 No 16 >>3bz1_T PSII-T, PSII-TC, photosystem II reaction center protein T; electron transport photosystem, membrane complex, transmembrane alpha-helix; HET: CLA PHO HEM PL9 BCR DGD LHG SQD LMG LMT; 2.90A {Thermosynechococcus elongatus} PDB: 1s5l_T* 2axt_T* 3bz2_T* 3a0b_T* 3a0h_T* (T:) Probab=41.78 E-value=16 Score=14.07 Aligned_cols=26 Identities=12% Similarity=0.285 Sum_probs=19.3 Q ss_pred HHHHHHHHHHHHHHHHHHCCCCCCCC Q ss_conf 99999999999999998625444677 Q gi|254780140|r 11 GLFVVSILFFSFFSIYWLSRSNQYDG 36 (452) Q Consensus 11 G~fvi~~~~~~~~~~~~~~~~~~~~~ 36 (452) =+|+++.++.++++.++|....+..+ T Consensus 6 yv~i~acii~lfffaiffre~p~i~k 31 (32) T 3bz1_T 6 YVFIFACIIALFFFAIFFREPPRITK 31 (32) T ss_dssp HHHHHHHHHHHHHHHHHSSCCCCCSC T ss_pred HHHHHHHHHHHHHHHHHHCCCCCCCC T ss_conf 58999999999999998437987677 No 17 >>3e7w_A D-alanine--poly(phosphoribitol) ligase subunit 1; DLTA, non-ribosomal peptide synthetase, NRPS, adenylation domain, D-alanylation; HET: AMP; 2.28A {Bacillus subtilis} PDB: 3e7x_A* (A:135-164,A:399-511) Probab=41.05 E-value=16 Score=14.00 Aligned_cols=35 Identities=11% Similarity=0.148 Sum_probs=24.3 Q ss_pred CCCCCEEEEEEEECCCCCCCCCC----CEEEEEEEEEEE Q ss_conf 46776189999971875676689----807890074337 Q gi|254780140|r 33 QYDGPMAEVIIRIPGSVDGLSTD----SSVRFNGIPVGR 67 (452) Q Consensus 33 ~~~~~~~~~~~~f~~~v~GL~~g----spV~~~Gv~VG~ 67 (452) .|.+...++++.|..--+|+.+| .-|+++|.+|.- T Consensus 4 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~qVKi~G~rI~~ 42 (143) T 3e7w_A 4 QWVKEHETFYIIYTSGSTGNPKGVQISFQIKLHGYRMEL 42 (143) T ss_dssp GSCCTTSEEEEEEECCTTSSCEEEEEESEEEETTEEEEH T ss_pred CCCCCCCEEEEEECCCCCCCCCCCCCCCEEEECCEEECH T ss_conf 679856627886114443233211112358889899999 No 18 >>1pj5_A N,N-dimethylglycine oxidase; channelling, FAD binding, folate binding, amine oxidase, oxidoreductase; HET: FAD; 1.61A {Arthrobacter globiformis} (A:687-830) Probab=39.32 E-value=17 Score=13.82 Aligned_cols=53 Identities=9% Similarity=0.070 Sum_probs=36.1 Q ss_pred EEEEEECCCCCCCCCCCEEEEEEEEEEEEEEEEECCCCCEEEEEEEEECCCCCC Q ss_conf 999997187567668980789007433798888648886079999997489724 Q gi|254780140|r 40 EVIIRIPGSVDGLSTDSSVRFNGIPVGRIVGLFLDQEYPNHSLAKALIRPDTPL 93 (452) Q Consensus 40 ~~~~~f~~~v~GL~~gspV~~~Gv~VG~V~~I~l~~~~~~~v~v~~~i~~~~~i 93 (452) .+.+.+.+...-...|.++...|-.||.|++..+.|.- ++.+....|+.+... T Consensus 60 lv~l~~~~~~~~~~~~~~~~~~g~~vG~vtS~~~sp~l-~~~iala~i~~~~~~ 112 (144) T 1pj5_A 60 LRCLTIDDGRSIVLGKEPVFYKEQAVGYVTSAAYGYTV-AKPIAYSYLPGTVSV 112 (144) T ss_dssp EEEEEETTSCCCCCSCCEEEETTEEEEECCSEEEETTT-TEEEEEEEEETTCCT T ss_pred EEEEEECCCCCCCCCCCEEEECCCEEEECCEEEECHHC-CCEEEEEEECCCCCC T ss_conf 99999858985789998485399428992334232413-907999996777589 No 19 >>3bu2_A Putative tRNA-binding protein; structural genomics, PSI-2, protein structure initiative; 2.70A {Staphylococcus saprophyticus subsp} (A:86-199) Probab=32.92 E-value=21 Score=13.14 Aligned_cols=32 Identities=9% Similarity=-0.054 Sum_probs=23.7 Q ss_pred EEEEEEEEEEEEEEECCCCCEEEEEEEEECCC Q ss_conf 89007433798888648886079999997489 Q gi|254780140|r 59 RFNGIPVGRIVGLFLDQEYPNHSLAKALIRPD 90 (452) Q Consensus 59 ~~~Gv~VG~V~~I~l~~~~~~~v~v~~~i~~~ 90 (452) ++.+++||+|.++...|+.+.-..+++.+-.. T Consensus 4 ~~~di~vgkI~~~~~hp~a~kL~v~~Vd~G~~ 35 (114) T 3bu2_A 4 FTPKFVVGYVETKDKHPDADKLSVLSVDVATE 35 (114) T ss_dssp CCCSEEEEEEEEEEECTTTSSCEEEEEECSSC T ss_pred CCCCEEEEEEEEEEECCCCCEEEEEEEECCCC T ss_conf 77997999999989659999689999987885 No 20 >>2cp3_A CLIP-115, KIAA0291; microtubule binding, cytoskeleton associated protein, CYLN2, structural genomics, NPPSFA; NMR {Homo sapiens} (A:) Probab=32.69 E-value=22 Score=13.11 Aligned_cols=63 Identities=16% Similarity=0.144 Sum_probs=39.7 Q ss_pred CCCCCCCCCCEEEEEEEEEEEEEEEEECCCCCEEEEEEEEECCCCCCCCCCEEEEEECCCCHHHHHHCCCCC Q ss_conf 875676689807890074337988886488860799999974897246884699974232102332101465 Q gi|254780140|r 47 GSVDGLSTDSSVRFNGIPVGRIVGLFLDQEYPNHSLAKALIRPDTPLYPSTTATIRTQGLAGITYIELSTLR 118 (452) Q Consensus 47 ~~v~GL~~gspV~~~Gv~VG~V~~I~l~~~~~~~v~v~~~i~~~~~i~~~~~~~i~~~~l~g~~~i~~~~~~ 118 (452) .+...|.+|+.|.+.|...|.|.-|-.-+...+ ..+=++++. +.... ...+-|..|....++. T Consensus 3 ~~~~~~~vG~rV~v~~~~~G~iryiG~~~~~~g-~~vGVeld~--~~Gk~------dG~~~G~rYF~C~~~~ 65 (84) T 2cp3_A 3 SGSSGLRLGDRVLVGGTKTGVVRYVGETDFAKG-EWCGVELDE--PLGKN------DGAVAGTRYFQCPPKF 65 (84) T ss_dssp SSSCSCCTTCEEEETTTEEEEEEEEEECSSSSS-EEEEEEESS--SCCSB------SSEETTEESSCCCTTT T ss_pred CCCCCCEECCEEEECCCCEEEEEEEECCCCCCC-CEEEEEECC--CCCCC------CCEECCEEEEECCCCC T ss_conf 766885748999989986799999601699898-799999688--88887------9999999988559993 No 21 >>1v5v_A Aminomethyltransferase; glycine-cleavage sytem, structural genomics, riken structural genomics/proteomics initiative, RSGI; 1.50A {Pyrococcus horikoshii} (A:312-401) Probab=31.40 E-value=23 Score=12.97 Aligned_cols=43 Identities=16% Similarity=0.114 Sum_probs=32.1 Q ss_pred CCCCCCCCCCEEEEEEEEEEEEEEEEECCCCCEEEEEEEEECCC Q ss_conf 87567668980789007433798888648886079999997489 Q gi|254780140|r 47 GSVDGLSTDSSVRFNGIPVGRIVGLFLDQEYPNHSLAKALIRPD 90 (452) Q Consensus 47 ~~v~GL~~gspV~~~Gv~VG~V~~I~l~~~~~~~v~v~~~i~~~ 90 (452) ++-.-+..|.+|+..|-.||.|++-.+.|.- ++.+..-.++.+ T Consensus 10 ~~~~~~~~g~~v~~dg~~VG~vTS~~~Sp~~-g~~Iala~v~~~ 52 (90) T 1v5v_A 10 IDKGIPREGYKVYANGEMIGEVTSGTLSPLL-NVGIGIAFVKEE 52 (90) T ss_dssp SSSCCCCTTCEEEETTEEEEEEEEEEECTTT-CSEEEEEEEEGG T ss_pred CCCCCCCCCCEEEECCEEEEEECCEEECHHC-CCEEEEEEECHH T ss_conf 5787889999797799389991425587105-907999998877 No 22 >>3i9y_A Sensor protein; stacked two four-helix bundles, ATP-binding, kinase, nucleotide-binding, phosphoprotein, transferase, transmembrane; 2.16A {Vibrio parahaemolyticus} (A:62-276) Probab=28.36 E-value=25 Score=12.62 Aligned_cols=20 Identities=25% Similarity=0.419 Sum_probs=7.2 Q ss_pred HHHHHHHHHHHHHHHHHHHH Q ss_conf 99999999999999999999 Q gi|254780140|r 409 QNLVRKLQETVNHFDDCLNN 428 (452) Q Consensus 409 ~~~~~~~~~~~~~l~~~~~~ 428 (452) .....+.......++..++. T Consensus 186 ~~~~q~~~~~~~~l~~~v~~ 205 (215) T 3i9y_A 186 QQLMQKTLELFSELNSTVNK 205 (215) T ss_dssp HHHHHHHHHHHHHHHHHHHH T ss_pred HHHHHHHHHHHHHHHHHHHH T ss_conf 99999999999888799999 No 23 >>2cp2_A CLIP-115, KIAA0291; microtubule binding, cytoskeleton associated protein, CYLN2, structural genomics, NPPSFA; NMR {Homo sapiens} (A:) Probab=27.96 E-value=26 Score=12.57 Aligned_cols=66 Identities=20% Similarity=0.261 Sum_probs=42.0 Q ss_pred CCCCCCCCCCCEEEEEEEEEEEEEEEEECCCCCEEEEEEEEECCCCCCCCCCEEEEEECCCCHHHHHHCCCCCCC Q ss_conf 187567668980789007433798888648886079999997489724688469997423210233210146532 Q gi|254780140|r 46 PGSVDGLSTDSSVRFNGIPVGRIVGLFLDQEYPNHSLAKALIRPDTPLYPSTTATIRTQGLAGITYIELSTLRKE 120 (452) Q Consensus 46 ~~~v~GL~~gspV~~~Gv~VG~V~~I~l~~~~~~~v~v~~~i~~~~~i~~~~~~~i~~~~l~g~~~i~~~~~~~~ 120 (452) +.+...|.+|+.|.+.|...|.|.-|-.-+...+ .-+=+++| .++... ...+-|..|....++... T Consensus 13 ~~~~~~~~vG~rV~v~~~~~G~vryiG~~~~~~g-~~vGVEld--~p~G~~------DG~~~G~rYF~c~~~~G~ 78 (95) T 2cp2_A 13 DDFLGDFVVGERVWVNGVKPGVVQYLGETQFAPG-QWAGVVLD--DPVGKN------DGAVGGVRYFECPALQGI 78 (95) T ss_dssp BSSCCSCCTTCEEEGGGSCEEEEEEEEECSSSCS-EEEEEEES--SSCSSB------BSEETTEECCCCCTTTEE T ss_pred CCHHCCCCCCCEEEECCCCEEEEEEECCCCCCCC-EEEEEEEC--CCCCCC------CCEECCEEEEECCCCCEE T ss_conf 3103027018999989984899999722679886-59999978--888888------998999998846999768 No 24 >>2ey4_C Small nucleolar RNP similar to GAR1; trimeric complex, structural genomics, PSI, protein structure initiative; 2.11A {Pyrococcus furiosus dsm 3638} (C:) Probab=22.59 E-value=32 Score=11.90 Aligned_cols=28 Identities=18% Similarity=-0.086 Sum_probs=19.7 Q ss_pred CCCCCCCEEEEE-EEEEEEEEEEEECCCC Q ss_conf 676689807890-0743379888864888 Q gi|254780140|r 50 DGLSTDSSVRFN-GIPVGRIVGLFLDQEY 77 (452) Q Consensus 50 ~GL~~gspV~~~-Gv~VG~V~~I~l~~~~ 77 (452) .=+..|++|... +-.||+|.+|--.-+. T Consensus 29 ~vp~~~s~v~~e~~~~IGkV~evfGpv~~ 57 (82) T 2ey4_C 29 WVPSLNDRVVDKRLQFVGIVKDVFGPVKM 57 (82) T ss_dssp SCCCTTCEEECTTCCCCEEEEEEEEESSS T ss_pred CCCCCCCEEECCCCCEEEEEEEEECCCCC T ss_conf 88989999894688498899898788888 No 25 >>2rhq_B Phenylalanyl-tRNA synthetase beta chain; heterotetramer, phenylalanine, aminoacyl-tRNA synthetase, ATP-binding, cytoplasm, ligase; HET: GAX; 2.20A {Staphylococcus haemolyticus} PDB: 2rhs_B* (B:41-136) Probab=22.24 E-value=33 Score=11.86 Aligned_cols=18 Identities=17% Similarity=0.082 Sum_probs=15.5 Q ss_pred EEEEEEEEEEEEEECCCC Q ss_conf 900743379888864888 Q gi|254780140|r 60 FNGIPVGRIVGLFLDQEY 77 (452) Q Consensus 60 ~~Gv~VG~V~~I~l~~~~ 77 (452) |.+++||+|.++...|+. T Consensus 2 f~~i~vg~I~~~~~hp~a 19 (96) T 2rhq_B 2 IKNLVVGYIQSKEKGSGN 19 (96) T ss_dssp CEEEEEEEEEEEECSSSC T ss_pred CCCEEEEEEECCCCCCCC T ss_conf 798899999466589896 No 26 >>2gag_A Heterotetrameric sarcosine oxidase alpha-subunit; flavoenzyme, electron transfer, folate- methylating enzyme, oxidoreductase; HET: NAD FAD FMN; 1.85A {Stenotrophomonas maltophilia} PDB: 2gah_A* 1x31_A* 1vrq_A* (A:847-965) Probab=21.95 E-value=33 Score=11.82 Aligned_cols=51 Identities=10% Similarity=-0.003 Sum_probs=31.6 Q ss_pred CCCCEEEEEEEEEEEEEEEEECCCCCEEEEEEEEECCCCCCCCCCEEEEEECC Q ss_conf 68980789007433798888648886079999997489724688469997423 Q gi|254780140|r 53 STDSSVRFNGIPVGRIVGLFLDQEYPNHSLAKALIRPDTPLYPSTTATIRTQG 105 (452) Q Consensus 53 ~~gspV~~~Gv~VG~V~~I~l~~~~~~~v~v~~~i~~~~~i~~~~~~~i~~~~ 105 (452) ..|.||+..|-.||+|++-.+.|.- ++.+..-.++.+... .+..+.+...+ T Consensus 47 ~~~~~i~~~g~~vG~vTS~~~Sp~l-~~~Iala~i~~~~~~-~G~~v~v~~~g 97 (119) T 2gag_A 47 SDALASEGITPMEGWVTSSYDSPNL-GRTFGLALIKNGRNR-IGEVLKTPVGD 97 (119) T ss_dssp TTCCCBTTBCCCCEEEEEEEEETTT-TEEEEEEEEETGGGC-TTCEEEEEETT T ss_pred CCCCCCCCCCCCEEEEEEEEECHHC-CEEEEEEEECCCCCC-CCCEEEEEECC T ss_conf 8961037886727999577576433-907999999943368-99889999899 No 27 >>2v31_A Ubiquitin-activating enzyme E1 X; ligase, phosphorylation, catalytic domain, heteronuclear first catalytic cysteine half-domain, E1 protein; NMR {Mus musculus} (A:) Probab=21.93 E-value=33 Score=11.82 Aligned_cols=25 Identities=20% Similarity=0.348 Sum_probs=18.9 Q ss_pred EEEEEECCCCCCCCCCCEEEEEEEE Q ss_conf 9999971875676689807890074 Q gi|254780140|r 40 EVIIRIPGSVDGLSTDSSVRFNGIP 64 (452) Q Consensus 40 ~~~~~f~~~v~GL~~gspV~~~Gv~ 64 (452) -++....+...||..|+-|+|++|. T Consensus 30 gvVt~~~~~~Hgl~~GD~V~fseV~ 54 (112) T 2v31_A 30 GVVTCLDEARHGFETGDFVSFSEVQ 54 (112) T ss_dssp EEEEECTTCCCCCCTTCEEEECSEE T ss_pred EEEEEECCCCCCCCCCCEEEEEEEE T ss_conf 7999816987688879999998874 No 28 >>2q2i_A AGR_C_4014P, secretion chaperone; beta barrel, OB fold, homodimer, protein secretion; 1.55A {Agrobacterium tumefaciens str} (A:) Probab=20.42 E-value=35 Score=11.61 Aligned_cols=30 Identities=20% Similarity=0.081 Sum_probs=21.6 Q ss_pred EEEEEEEEEEEEEEEECCCCCEEEEEEEEE Q ss_conf 789007433798888648886079999997 Q gi|254780140|r 58 VRFNGIPVGRIVGLFLDQEYPNHSLAKALI 87 (452) Q Consensus 58 V~~~Gv~VG~V~~I~l~~~~~~~v~v~~~i 87 (452) ..+-++.||+|.++...|+.+.-.++.+.+ T Consensus 13 ~~~~~i~vg~I~~~~~hp~sdkL~v~~V~~ 42 (116) T 2q2i_A 13 FEKVDIRVGTIVEAVPFPEARKPAIKVKID 42 (116) T ss_dssp HHTSCEEEEEEEEEEECTTSSSCCEEEEEE T ss_pred HEEEEEEEEEEEEEEECCCCCCEEEEEEEE T ss_conf 301438999999999755642004678985 No 29 >>2q2h_A AGR_C_4014P, secretion chaperone, phage-display derived peptide; beta barrel, OB fold, homodimer, protein secretion; HET: CIT; 1.65A {Agrobacterium tumefaciens str} (A:) Probab=20.39 E-value=36 Score=11.60 Aligned_cols=39 Identities=15% Similarity=0.040 Sum_probs=25.7 Q ss_pred CCCCCCCCEE----EEEEEEEEEEEEEEECCCCCEEEEEEEEE Q ss_conf 5676689807----89007433798888648886079999997 Q gi|254780140|r 49 VDGLSTDSSV----RFNGIPVGRIVGLFLDQEYPNHSLAKALI 87 (452) Q Consensus 49 v~GL~~gspV----~~~Gv~VG~V~~I~l~~~~~~~v~v~~~i 87 (452) -.|+.+...- .+.++.||+|.++...|+.+.-.+..+.+ T Consensus 15 ~~g~eve~i~~~~~~~~~i~vgkV~~~~~hp~sdkL~v~~vd~ 57 (131) T 2q2h_A 15 PTAANSGEISYADFEKVDIRVGTIVEAVPFPEARKPAIKVKID 57 (131) T ss_dssp CCCCCCCCCCHHHHHTSCEEEEEEEEEEECTTCSSCCEEEEEE T ss_pred CCCCCCCEECHHHHEEEEEEEEEEEEEEECCCCCCEEEEEEEE T ss_conf 8878878037788202427999999999733535102899995 No 30 >>1ntg_A Tyrrs, tyrosyl-tRNA synthetase; beta barrel, ligase; 2.21A {Homo sapiens} (A:) Probab=20.21 E-value=36 Score=11.58 Aligned_cols=30 Identities=17% Similarity=0.118 Sum_probs=22.5 Q ss_pred EEEEEEEEEEEEEECCCCCEEEEEEEEECC Q ss_conf 900743379888864888607999999748 Q gi|254780140|r 60 FNGIPVGRIVGLFLDQEYPNHSLAKALIRP 89 (452) Q Consensus 60 ~~Gv~VG~V~~I~l~~~~~~~v~v~~~i~~ 89 (452) +.++.||+|.++...|+.+.-.+..+.+-. T Consensus 9 ~~~i~vg~V~~~~~hP~adkL~~~~Vd~G~ 38 (172) T 1ntg_A 9 RLDIRVGKIITVEKHPDADSLYVEKIDVGE 38 (172) T ss_dssp GSCEEEEEEEEEEECTTCSSCEEEEEECSS T ss_pred CEEEEEEEEEEEEECCCCCEEEEEEEEECC T ss_conf 100799999998868999856899999089 Done!