RPS-BLAST 2.2.22 [Sep-27-2009] Database: mmdb70 33,805 sequences; 4,956,049 total letters Searching..................................................done Query= gi|254780591|ref|YP_003065004.1| aminomethyltransferase protein (glycine cleavage) [Candidatus Liberibacter asiaticus str. psy62] (273 letters) >1vly_A SPOT PR51, unknown protein from 2D-PAGE; 1789265, B2898, unknown protein from 2D-PAGE (SPOT PR51), structural genomics, JCSG; HET: MSE; 1.30A {Escherichia coli} (A:199-338) Length = 140 Score = 65.8 bits (160), Expect = 6e-12 Identities = 27/132 (20%), Positives = 44/132 (33%), Gaps = 10/132 (7%) Query: 142 KTYHELRINHGIVDPNTDFLPSTIFPHDALMDLLNGISLTKGCYIGQEVVSRIQHRNIIR 201 + + L I G + I P + L GIS KGCY GQE V+R + R + Sbjct: 1 QQWLALNIEAGFPVIDAANSGQFI-PQATNLQALGGISFKKGCYTGQEXVARAKFRGANK 59 Query: 202 KRPMIITGTDD-LPPSGSPILTDDIEIG------TLGVVVGKKALAIARIDKVDHAIKKG 254 + ++ G+ LP +G + E V + + + + D Sbjct: 60 RALWLLAGSASRLPEAGEDLELKXGENWRRTGTVLAAVKLEDGQVVVQVVXNNDXEP--D 117 Query: 255 MALTVHGVRVKA 266 V Sbjct: 118 SIFRVRDDANTL 129 >1wos_A Aminomethyltransferase; T-protein; 1.84A {Thermotoga maritima} (A:50-139) Length = 90 Score = 65.5 bits (160), Expect = 7e-12 Identities = 16/82 (19%), Positives = 36/82 (43%) Query: 12 IKVCGKSAIPFLQAIITADVLTLPYKIARGSAILTPQGKILLYFLISKIEEDTFILEIDR 71 V G A+ F+ +IT D +LP A S + G I+ ++ K+ D ++ ++ Sbjct: 5 FLVKGPEAVSFIDFLITNDFSSLPDGKAIYSVMCNENGGIIDDLVVYKVSPDEALMVVNA 64 Query: 72 SKRDSLIDKLLFYKLRSNVIIE 93 + + + + + +V + Sbjct: 65 ANIEKDFNWIKSHSKNFDVEVS 86 >1wsr_A Aminomethyltransferase; glycine-cleavage sytem; 2.00A {Homo sapiens} PDB: 1wsv_A* (A:55-148) Length = 94 Score = 65.5 bits (160), Expect = 7e-12 Identities = 9/82 (10%), Positives = 25/82 (30%) Query: 12 IKVCGKSAIPFLQAIITADVLTLPYKIARGSAILTPQGKILLYFLISKIEEDTFILEIDR 71 K+ G + +++++ D+ L S G IL +++ E + + Sbjct: 5 TKILGSDRVKLMESLVVGDIAELRPNQGTLSLFTNEAGGILDDLIVTNTSEGHLYVVSNA 64 Query: 72 SKRDSLIDKLLFYKLRSNVIIE 93 + + + Sbjct: 65 GCWEKDLALMQDKVRELQNQGR 86 >3gir_A Aminomethyltransferase; glycine cleavage system, aminotransferase, structural genomics; 1.60A {Bartonella henselae} (A:83-171) Length = 89 Score = 64.8 bits (158), Expect = 1e-11 Identities = 17/82 (20%), Positives = 32/82 (39%) Query: 12 IKVCGKSAIPFLQAIITADVLTLPYKIARGSAILTPQGKILLYFLISKIEEDTFILEIDR 71 I V G A+ FL + D L +R S +L + IL +++++ E F+L + Sbjct: 5 IAVEGPKAVEFLSYALPVDAALLKIGQSRYSYLLNERAGILDDLILTRLAECRFMLVANA 64 Query: 72 SKRDSLIDKLLFYKLRSNVIIE 93 + +L + Sbjct: 65 GNAQADFAELEKRAFGFECQVI 86 >1v5v_A Aminomethyltransferase; glycine-cleavage sytem, structural genomics, riken structural genomics/proteomics initiative, RSGI; 1.50A {Pyrococcus horikoshii} (A:55-149) Length = 95 Score = 64.8 bits (158), Expect = 1e-11 Identities = 17/82 (20%), Positives = 32/82 (39%) Query: 12 IKVCGKSAIPFLQAIITADVLTLPYKIARGSAILTPQGKILLYFLISKIEEDTFILEIDR 71 I GK A+ FLQ + T D+ P + +L +G I L+ + + +++ D Sbjct: 4 IVFRGKDALKFLQYVTTNDISKPPAISGTYTLVLNERGAIKDETLVFNMGNNEYLMICDS 63 Query: 72 SKRDSLIDKLLFYKLRSNVIIE 93 + L + K + Sbjct: 64 DAFEKLYAWFTYLKRTIEQFTK 85 >1vlo_A Aminomethyltransferase; NP417381, tetrahydrofolate-dependent) of glycine cleavage system, structural genomics, JCSG; HET: MSE; 1.70A {Escherichia coli K12} (A:63-152) Length = 90 Score = 60.9 bits (148), Expect = 2e-10 Identities = 16/86 (18%), Positives = 36/86 (41%), Gaps = 3/86 (3%) Query: 12 IKVCGKSAIPFLQAIITADVLTLPYKIARG--SAILTPQGKILLYFLISKIEEDTFILEI 69 + + G FL+ ++ DV L K + S L G ++ ++ ED F L + Sbjct: 5 VDLRGSRTREFLRYLLANDVAKLT-KSGKALYSGXLNASGGVIDDLIVYYFTEDFFRLVV 63 Query: 70 DRSKRDSLIDKLLFYKLRSNVIIEIQ 95 + + R+ + + + + I ++ Sbjct: 64 NSATREKDLSWITQHAEPFGIEITVR 89 >1pj5_A N,N-dimethylglycine oxidase; channelling, FAD binding, folate binding, amine oxidase, oxidoreductase; HET: FAD; 1.61A {Arthrobacter globiformis} (A:508-600) Length = 93 Score = 58.6 bits (142), Expect = 8e-10 Identities = 16/82 (19%), Positives = 37/82 (45%), Gaps = 1/82 (1%) Query: 12 IKVCGKSAIPFLQAIITADVLTLPYKIARGSAILTPQGKILLYFLISKIEEDTFILEIDR 71 ++V G A+ LQ + TAD+ + +L G + ++++ EDTF L + Sbjct: 4 LEVSGPGALKLLQELTTADL-AKKPGAVTYTLLLDHAGGVRSDITVARLSEDTFQLGANG 62 Query: 72 SKRDSLIDKLLFYKLRSNVIIE 93 + + ++ ++ +S + Sbjct: 63 NIDTAYFERAARHQTQSGSATD 84 >1pj5_A N,N-dimethylglycine oxidase; channelling, FAD binding, folate binding, amine oxidase, oxidoreductase; HET: FAD; 1.61A {Arthrobacter globiformis} (A:687-830) Length = 144 Score = 58.7 bits (142), Expect = 8e-10 Identities = 20/128 (15%), Positives = 43/128 (33%), Gaps = 9/128 (7%) Query: 144 YHELRINHGIVDPNTDFLPSTIFPHDALMDLLNGISLTKGCYIGQEVVSRIQHRNIIRKR 203 + LR+ G TD P +A L + + K +IG+ + R+ Sbjct: 4 FSSLRLEKGYRSWGTDMTTEHD-PFEA--GLGFAVKMAKESFIGKGALEGRTEEASARRL 60 Query: 204 -PMIITGTDDLPPSGSPILTDDIEIGTLGVVV----GKKALAIARIDKVDHAIKKGMALT 258 + I + P+ + +G + K +A + + ++ + + Sbjct: 61 RCLTIDDGRSIVLGKEPVFYKEQAVGYVTSAAYGYTVAKPIAYSYLPG-TVSVGDSVDIE 119 Query: 259 VHGVRVKA 266 G R+ A Sbjct: 120 YFGRRITA 127 >1yx2_A Aminomethyltransferase; glycine cleavage system T protein, alpha-beta, beta-barrel, structural genomics, PSI, protein structure initiative; 2.08A {Bacillus subtilis} (A:55-142) Length = 88 Score = 57.8 bits (140), Expect = 2e-09 Identities = 22/82 (26%), Positives = 38/82 (46%), Gaps = 1/82 (1%) Query: 12 IKVCGKSAIPFLQAIITADVLTLPYKIARGSAILTPQGKILLYFLISKIEEDTFILEIDR 71 ++V G ++ FLQ + T DV L A+ +A P G + LI + E+ ++L I+ Sbjct: 4 VEVSGNDSLSFLQRLXTNDVSALTPGRAQYTAXCYPDGGTVDDLLIYQKGENRYLLVINA 63 Query: 72 SKRDSLIDKLLFYKLRSNVIIE 93 S D + +V I+ Sbjct: 64 SNIDKDLA-WXKEHAAGDVQID 84 >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:632-724) Length = 93 Score = 57.1 bits (138), Expect = 2e-09 Identities = 19/86 (22%), Positives = 30/86 (34%), Gaps = 4/86 (4%) Query: 12 IKVCGKSAIPFLQAIITADVLTLPYKIARGSAILTPQGKILLYFLISKIEEDTFILEIDR 71 I++ GK A FL I T L + R + G I + ++ ED F+L Sbjct: 4 IEIRGKDAAEFLNRIYTNGYTKLKVGMGRYGVMCKADGMIFDDGVTLRLAEDRFLLHTTT 63 Query: 72 SKRDSLIDKLL----FYKLRSNVIIE 93 ++D L +V Sbjct: 64 GGAADVLDWLEEWLQTEWPDLDVTCT 89 >1vly_A SPOT PR51, unknown protein from 2D-PAGE; 1789265, B2898, unknown protein from 2D-PAGE (SPOT PR51), structural genomics, JCSG; HET: MSE; 1.30A {Escherichia coli} (A:38-125) Length = 88 Score = 52.4 bits (126), Expect = 7e-08 Identities = 18/86 (20%), Positives = 33/86 (38%), Gaps = 1/86 (1%) Query: 8 NQSFIKVCGKSAIPFLQAIITADVLTLPYKIARGSAILTPQGKILLYFLISKIEEDTFIL 67 + + + G + + Q +TADV +A +GK + + + F Sbjct: 1 DWALATITGADSEKYXQGQVTADVSQXAEDQHLLAAHCDAKGKXWSNLRLFRDGDG-FAW 59 Query: 68 EIDRSKRDSLIDKLLFYKLRSNVIIE 93 RS R+ + +L Y + S V I Sbjct: 60 IERRSVREPQLTELKKYAVFSKVTIA 85 >1wos_A Aminomethyltransferase; T-protein; 1.84A {Thermotoga maritima} (A:221-364) Length = 144 Score = 52.2 bits (125), Expect = 8e-08 Identities = 20/130 (15%), Positives = 45/130 (34%), Gaps = 13/130 (10%) Query: 143 TYHELRINHGIVDPNTDFLPSTIFPHDALMDLLNGISLTKGCYIGQEVVSRIQHRNIIRK 202 R+ + D +T P + L + L ++G+E + + + + + Sbjct: 6 ARDVCRLEATYLLYGQDMDENT-NPFEV--GLSWVVKL-NKDFVGKEALLKAKEKVERKL 61 Query: 203 RPMIITGTDDLPPSGSPILTDDIEIGTLGVVV----GKKALAIARIDKVDHAIKKGMALT 258 + ++G G +L + +G + K++A+A + K Sbjct: 62 VALELSGKRI-ARKGYEVLKNGERVGEITSGNFSPTLGKSIALALVSK-SVK-IGDQLGV 118 Query: 259 VH--GVRVKA 266 V G V+A Sbjct: 119 VFPGGKLVEA 128 >1vlo_A Aminomethyltransferase; NP417381, tetrahydrofolate-dependent) of glycine cleavage system, structural genomics, JCSG; HET: MSE; 1.70A {Escherichia coli K12} (A:1-62,A:153-289,A:367-381) Length = 214 Score = 51.5 bits (123), Expect = 1e-07 Identities = 11/70 (15%), Positives = 21/70 (30%), Gaps = 1/70 (1%) Query: 140 DIKTYHELRINHGIVDPNTDFLPSTIFPHDALMDLLNGISLTKGCYIGQEVVSRIQHRNI 199 + LR+ G + TI P A +IG+E + + + Sbjct: 142 GLGARDTLRLEAGXNLYGQEXDE-TISPLAANXGWTIAWEPADRDFIGREALEVQREHGV 200 Query: 200 IRKRPMIITG 209 + + G Sbjct: 201 FVRNGKAVAG 210 >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) Length = 119 Score = 40.6 bits (95), Expect = 2e-04 Identities = 15/100 (15%), Positives = 29/100 (29%), Gaps = 14/100 (14%) Query: 181 TKGCYIGQEVVSRIQHRNIIRKR--PMIITGTDDLPPSGSPILTDDIEIGTL-GVVVG-- 235 +IG SR + RK+ ++ P G+ ++ D + G Sbjct: 3 KLKDFIGNRSYSRADNAREDRKQLVSVLPVDKSLRLPEGAALVASDALASEGITPMEGWV 62 Query: 236 ---------KKALAIARIDKVDHAIKKGMALTVHGVRVKA 266 + +A I + I + + V V Sbjct: 63 TSSYDSPNLGRTFGLALIKNGRNRIGEVLKTPVGDQLVDV 102 >1yx2_A Aminomethyltransferase; glycine cleavage system T protein, alpha-beta, beta-barrel, structural genomics, PSI, protein structure initiative; 2.08A {Bacillus subtilis} (A:284-365) Length = 82 Score = 28.1 bits (63), Expect = 1.3 Identities = 15/71 (21%), Positives = 26/71 (36%), Gaps = 6/71 (8%) Query: 201 RKRPMIITGTDDLPPSGSPILTDDIEIG-----TLGVVVGKKALAIARIDKVDHAIKKGM 255 RK + +P G + + +G T +G K + +A ID I + Sbjct: 3 RKLVGLEXIEKGIPRHGYEVFQNGKSVGKVTTGTQSPTLG-KNVGLALIDSETSEIGTVV 61 Query: 256 ALTVHGVRVKA 266 + + VKA Sbjct: 62 DVEIRKKLVKA 72 >1v5v_A Aminomethyltransferase; glycine-cleavage sytem, structural genomics, riken structural genomics/proteomics initiative, RSGI; 1.50A {Pyrococcus horikoshii} (A:312-401) Length = 90 Score = 28.1 bits (63), Expect = 1.3 Identities = 14/71 (19%), Positives = 25/71 (35%), Gaps = 6/71 (8%) Query: 201 RKRPMIITGTDDLPPSGSPILTDDIEIG-----TLGVVVGKKALAIARIDKVDHAIKKGM 255 RK +P G + + IG TL ++ + IA + + + Sbjct: 2 RKLVHFKMIDKGIPREGYKVYANGEMIGEVTSGTLSPLLN-VGIGIAFVKEEYAKPGIEI 60 Query: 256 ALTVHGVRVKA 266 + + G R KA Sbjct: 61 EVEIRGQRKKA 71 >1wsr_A Aminomethyltransferase; glycine-cleavage sytem; 2.00A {Homo sapiens} PDB: 1wsv_A* (A:288-375) Length = 88 Score = 26.6 bits (59), Expect = 3.4 Identities = 10/70 (14%), Positives = 24/70 (34%), Gaps = 4/70 (5%) Query: 201 RKRPMIITGTDDLPPSGSPILTDDIEIGTLGVVV----GKKALAIARIDKVDHAIKKGMA 256 R+R ++ + + + +IGT+ KK +A+ + + Sbjct: 3 RRRVGLMCEGAPMRAHSPILNMEGTKIGTVTSGCPSPSLKKNVAMGYVPCEYSRPGTMLL 62 Query: 257 LTVHGVRVKA 266 + V + A Sbjct: 63 VEVRRKQQMA 72 >2og5_A Putative oxygenase; non-ribosomal peptide synthesis, iron(II)/alpha- ketoglutarate dependent hydroxylase, jelly-roll fold; 1.45A {Streptomyces coelicolor} PDB: 2og6_A 2og7_A* (A:) Length = 357 Score = 25.8 bits (55), Expect = 5.8 Identities = 8/58 (13%), Positives = 17/58 (29%) Query: 83 FYKLRSNVIIEIQPINGVVLSWNQEHTFSNSSFIDERFSIADVLLHRTWGHNEKIASD 140 + + + G + + T + R+ D L RT+ + S Sbjct: 283 LQAHFDATAVTHRLLPGELAIVDNRVTVHGRTEFTPRYDGTDRWLQRTFVLTDLRRSR 340 Database: mmdb70 Posted date: Jun 20, 2010 3:12 AM Number of letters in database: 4,956,049 Number of sequences in database: 33,805 Lambda K H 0.323 0.140 0.410 Gapped Lambda K H 0.267 0.0672 0.140 Matrix: BLOSUM62 Gap Penalties: Existence: 11, Extension: 1 Number of Sequences: 33805 Number of Hits to DB: 2,127,821 Number of extensions: 96867 Number of successful extensions: 273 Number of sequences better than 10.0: 1 Number of HSP's gapped: 271 Number of HSP's successfully gapped: 23 Length of query: 273 Length of database: 4,956,049 Length adjustment: 87 Effective length of query: 186 Effective length of database: 2,015,014 Effective search space: 374792604 Effective search space used: 374792604 Neighboring words threshold: 11 Window for multiple hits: 40 X1: 16 ( 7.4 bits) X2: 38 (14.6 bits) X3: 64 (24.7 bits) S1: 41 (21.9 bits) S2: 54 (24.7 bits)