RPS-BLAST 2.2.22 [Sep-27-2009] Database: pdb70 24,244 sequences; 5,693,230 total letters Searching..................................................done Query= gi|254780387|ref|YP_003064800.1| C4-dicarboxylate transporter DctA [Candidatus Liberibacter asiaticus str. psy62] (426 letters) >2nwl_A GLTPH, glutamate symport protein; alpha helical, membrane protein, helical hairpin, unwound region, transport protein; HET: PLM; 2.96A {Pyrococcus horikoshii} PDB: 2nww_A* 1xfh_A* 2nwx_A* Length = 422 Score = 201 bits (511), Expect = 3e-52 Identities = 104/418 (24%), Positives = 206/418 (49%), Gaps = 26/418 (6%) Query: 19 LYIQVLVAIFSGMALGHFVPQ------IGVQMQPLGDIFVKTTKMLITPVIFLTVSTGIA 72 + I++L+ + G +G + + ++P GD+FV+ KML+ P++F ++ G A Sbjct: 12 VLIKILIGLILGAIVGLILGHYGYAHAVHTYVKPFGDLFVRLLKMLVMPIVFASLVVGAA 71 Query: 73 RMKDMKVIGQIFWKAMFLFFVFSMFALVIGLIVGNIAKPGIGMNVDLKSLNTESIAHIKS 132 + ++ G++ K + + + S FA+ +G+I+ + PG G+++ + Sbjct: 72 SISPARL-GRVGVKIVVYYLLTSAFAVTLGIIMARLFNPGAGIHLA------VGGQQFQP 124 Query: 133 SHAKSFIGFMQDMIPDTALSALTSGNILQTLIVALLFGISLSLVG--------EKSDTIR 184 A + + D++P AL +G +L T+ A++ GI+++ + + ++T+ Sbjct: 125 HQAPPLVHILLDIVPTNPFGALANGQVLPTIFFAIILGIAITYLMNSENEKVRKSAETLL 184 Query: 185 KCLEEINFPVFRMVSIVMRIAPLGAFGAMSFTIGKYGLSSISNLIFLVFCLYATSAFFIL 244 + + ++++V+ VM+ AP+G F +++ + + G+ + L + +Y IL Sbjct: 185 DAINGLAEAMYKIVNGVMQYAPIGVFALIAYVMAEQGVHVVGELAKVTAAVYVGLTLQIL 244 Query: 245 GVLGILARFCRFSIIKLIIFLKEEVLLVLSTSSSESALPGLMKKMEEAGCHRSIVSMVVP 304 V +L + I I K+ +L T SS LP M+ +E G I S +P Sbjct: 245 LVYFVLLKIYGIDPISFIKHAKDAMLTAFVTRSSSGTLPVTMRVAKEMGISEGIYSFTLP 304 Query: 305 TGYSFNLDGSNIYITLATLFISQATNVPLSLTDQLSLLLIAMVSSKGAAGVTGSAFITLA 364 G + N+DG+ +Y + T FI+ A L++ QL+++L A+++S G AGV G+ I LA Sbjct: 305 LGATINMDGTALYQGVCTFFIANALGSHLTVGQQLTIVLTAVLASIGTAGVPGAGAIMLA 364 Query: 365 ATITLV-----PSLPIAGMTLILGVDRFMSECRSVTNFIGNAVMTVVVSRWEKKLDPK 417 + V A +ILG+D + R++ N G+ T +V++ E L P+ Sbjct: 365 MVLHSVGLPLTDPNVAAAYAMILGIDAILDMGRTMVNVTGDLTGTAIVAKTEGTLVPR 422 >2pff_B Fatty acid synthase subunit beta; fatty acid synthase, acyl-carrier-protein, beta-ketoacyl reductase, beta-ketoacyl synthase, dehydratase; 4.00A {Saccharomyces cerevisiae} Length = 2006 Score = 50.7 bits (121), Expect = 6e-07 Identities = 55/363 (15%), Positives = 97/363 (26%), Gaps = 146/363 (40%) Query: 119 LKSLN--TESIAH---IKSSH--AKSFIGFMQDMIPDTALSALTS--GNILQTLIVALLF 169 K L TE A + F+G++ ++ + + L L Sbjct: 38 NKILPEPTEGFAADDEPTTPAELVGKFLGYVSSLVEPSKVGQFDQVLNLCLTEFENCYLE 97 Query: 170 GISL-----SLVGEKSDTIRKCLEEINFPVFRMVSIVMRIAPLGAFGAMSFTIGKYGLSS 224 G + L+ E T+ K E +++ A + S Sbjct: 98 GNDIHALAAKLLQENDTTLVKTKE------------LIKNY----ITARIMAKRPFDKKS 141 Query: 225 ISNL----------IFLVF--------C------LYATSAFFILGVLGILARFCRFSIIK 260 S L + +F LY T + +FS Sbjct: 142 NSALFRAVGEGNAQLVAIFGGQGNTDDYFEELRDLYQTYHVLV-------GDLIKFS--- 191 Query: 261 LIIFLKEEVLLVLSTSSSESALPGLMKKMEEAGCHRSIVSMVVPTGYSFNLDGSNIYITL 320 E L L ++ ++ +K+ ++ L+ L Sbjct: 192 ------AETLSELIRTTLDA------EKV-----------------FTQGLN------IL 216 Query: 321 ATLFISQATNVPLSLTDQL-----SLLLIA-------MVSSKGAAGVTGSAFITLAATIT 368 L +N P D L S LI +V++K G T + Sbjct: 217 EWL--ENPSNTPD--KDYLLSIPISCPLIGVIQLAHYVVTAK-LLGFTPGELRSY----- 266 Query: 369 LVPSLPIAGMT-----LILGVDRFMSECRSVTNFIGNAVMTVVVSRWEKKLDPKLFNKYI 423 + G T L+ V ++E S +F + + V LF +I Sbjct: 267 ------LKGATGHSQGLVTAV--AIAETDSWESFFVSVRKAITV----------LF--FI 306 Query: 424 GIE 426 G+ Sbjct: 307 GVR 309 Score = 33.0 bits (75), Expect = 0.13 Identities = 16/121 (13%), Positives = 36/121 (29%), Gaps = 33/121 (27%) Query: 295 HRSI-VSMVVPTGYSFNLDGSNIYITLATLF---ISQATNVPLSLTDQLSLLLIAMVSSK 350 H S+ ++VPT F L F + + T + + + + Sbjct: 13 HGSLEHVLLVPTASFFIAS------QLQEQFNKILPEPTEGFAADDEPTTPAELV----- 61 Query: 351 GAAGVTGSAFITLAATITLVPSLPIAGMTLILG--VDRFMSECRSVTNFI-GNAVMTVVV 407 F+ + +LV + +L + F + ++ GN + + Sbjct: 62 -------GKFLGYVS--SLVEPSKVGQFDQVLNLCLTEFENC------YLEGNDIHALAA 106 Query: 408 S 408 Sbjct: 107 K 107 Score = 29.9 bits (67), Expect = 1.2 Identities = 40/255 (15%), Positives = 76/255 (29%), Gaps = 90/255 (35%) Query: 214 SFTIGKYGLSSISNLIFLVFCLYATSAFFILGVLGILARFCRFSIIKLIIFLKEEVLLVL 273 T+ +G S+ + LV T++FFI L +E+ +L Sbjct: 8 PLTLS-HG--SLE-HVLLV----PTASFFIASQL------------------QEQFNKIL 41 Query: 274 STSSSESAL-------PGLMKKM----------EEAGCHRSIVSMVVPTGYSFN---LDG 313 + A L+ K + G ++++ + F L+G Sbjct: 42 PEPTEGFAADDEPTTPAELVGKFLGYVSSLVEPSKVGQFDQVLNLCLT---EFENCYLEG 98 Query: 314 SNIYITLATLFISQATNVPLSLTDQLSLLLIAMVSSKGAAG-----VTGSAFITLAATIT 368 ++I+ A L T + + L+ ++++ A + SA Sbjct: 99 NDIHALAAKLLQENDTTLV-----KTKELIKNYITARIMAKRPFDKKSNSALFRAVGE-- 151 Query: 369 LVPSLPIAGMTLILG----VDRFMSECRS--------VTNFIGNAVMTVVVSRWEKKL-- 414 A + I G D + E R V + I +S L Sbjct: 152 -----GNAQLVAIFGGQGNTDDYFEELRDLYQTYHVLVGDLI--KFSAETLSE----LIR 200 Query: 415 DP----KLFNKYIGI 425 K+F + + I Sbjct: 201 TTLDAEKVFTQGLNI 215 Score = 28.8 bits (64), Expect = 2.3 Identities = 31/186 (16%), Positives = 52/186 (27%), Gaps = 90/186 (48%) Query: 99 LVIGLIVG--N--IAKPGI---GMNVDLKS------LNTESIAHIK-------------- 131 + I L+ G N ++ P G+N+ L+ L+ I + Sbjct: 366 VEISLVNGAKNLVVSGPPQSLYGLNLTLRKAKAPSGLDQSRIPFSERKLKFSNRFLPVAS 425 Query: 132 ---SSH---AKSFIGFMQDM-------------IP--DTA----LSALTSGNILQTLIVA 166 S A I +D+ IP DT L L SG+I + ++ Sbjct: 426 PFHSHLLVPASDLI--NKDLVKNNVSFNAKDIQIPVYDTFDGSDLRVL-SGSISERIVDC 482 Query: 167 LLFGISLSLVGEKSDTIRKCLEEINFP---VFRMVSIVMRIAPLGAFGAMSFTIGKYGLS 223 + + + F+ I+ FG G G S Sbjct: 483 I------------------IRLPVKWETTTQFKATHIL-------DFGP-----G--GAS 510 Query: 224 SISNLI 229 + L Sbjct: 511 GLGVLT 516 >1msw_D DNA-directed RNA polymerase, bacteriophage T7 RNA; T7RNAP elongation complex, transcription/DNA/RNA complex; 2.10A {Enterobacteria phage T7} SCOP: e.8.1.3 PDB: 1h38_A 1cez_A 1qln_A* 1s0v_A* 1s76_D* 1s77_D* 4rnp_A 3e2e_A* 3e3j_C* 1aro_P 2pi4_A* 2pi5_A Length = 883 Score = 28.6 bits (63), Expect = 2.7 Identities = 16/78 (20%), Positives = 29/78 (37%), Gaps = 8/78 (10%) Query: 350 KGAAGVTGSAFITLAATITLVPSLPIAGMTLILGVDRFMSE----CRSVTNFIGNAVMTV 405 K G +AF L + +A +T+ + S ++V + IG A+ Sbjct: 93 KAKRGKRPTAFQFLQ----EIKPEAVAYITIKTTLACLTSADNTTVQAVASAIGRAIEDE 148 Query: 406 VVSRWEKKLDPKLFNKYI 423 + L+ K F K + Sbjct: 149 ARFGRIRDLEAKHFKKNV 166 >1knv_A BSE634I restriction endonuclease; APO-enzyme, hydrolase; 2.17A {Geobacillus stearothermophilus} SCOP: c.52.1.7 Length = 293 Score = 27.6 bits (61), Expect = 5.7 Identities = 16/66 (24%), Positives = 24/66 (36%), Gaps = 13/66 (19%) Query: 130 IKSSHAKSFIGFMQDMIPDTALSALTSGNILQTLIVAL------------LFGISLSLVG 177 K + +G + PD L + GNIL++L L +G S V Sbjct: 186 CKWDSLVAGVGLKTSLRPDRRLQLVHEGNILKSLFAHLKMRYWNPKAEFKYYGASSEPVS 245 Query: 178 EKSDTI 183 K+D Sbjct: 246 -KADDD 250 Database: pdb70 Posted date: Jan 26, 2011 11:21 AM Number of letters in database: 5,693,230 Number of sequences in database: 24,244 Lambda K H 0.327 0.141 0.400 Gapped Lambda K H 0.267 0.0516 0.140 Matrix: BLOSUM62 Gap Penalties: Existence: 11, Extension: 1 Number of Sequences: 24244 Number of Hits to DB: 3,376,285 Number of extensions: 149002 Number of successful extensions: 469 Number of sequences better than 10.0: 1 Number of HSP's gapped: 459 Number of HSP's successfully gapped: 36 Length of query: 426 Length of database: 5,693,230 Length adjustment: 95 Effective length of query: 331 Effective length of database: 3,390,050 Effective search space: 1122106550 Effective search space used: 1122106550 Neighboring words threshold: 11 Window for multiple hits: 40 X1: 15 ( 7.1 bits) X2: 38 (14.6 bits) X3: 64 (24.7 bits) S1: 40 (21.7 bits) S2: 58 (26.6 bits)