RPS-BLAST 2.2.22 [Sep-27-2009]
Database: mmdb70
33,805 sequences; 4,956,049 total letters
Searching..................................................done
Query= gi|254780423|ref|YP_003064836.1| S-adenosylmethionine
synthetase [Candidatus Liberibacter asiaticus str. psy62]
(413 letters)
>1p7l_A S-adenosylmethionine synthetase; AMPPNP, SAM, transferase;
HET: SAM ANP PPK; 2.50A {Escherichia coli}
(A:99-132,A:233-383)
Length = 185
Score = 213 bits (543), Expect = 4e-56
Identities = 89/154 (57%), Positives = 107/154 (69%), Gaps = 5/154 (3%)
Query: 259 GGPCSDAGLTGRKIIVDTYGGASPHGGGAFSGKDITKVDRAAAYAARYLAKNIVAAGLAD 318
GGP D GLTGRKIIVDTYGG + HGGGAFSGKD +KVDR+AAYAARY+AKNIVAAGLAD
Sbjct: 35 GGPMGDCGLTGRKIIVDTYGGMARHGGGAFSGKDPSKVDRSAAYAARYVAKNIVAAGLAD 94
Query: 319 RCTIQLSYAIGISRPLSIFVDLHDSGKVSESCVANAINKVMDLSVSGIRDHLNLSRPIYA 378
RC IQ+SYAIG++ P SI V+ + KV + + + DL G+ L+L PIY
Sbjct: 95 RCEIQVSYAIGVAEPTSIMVETFGTEKVPSEQLTLLVREFFDLRPYGLIQMLDLLHPIYK 154
Query: 379 QTSAYGHFGRSANQDGFFPWEALDLIEPLKKAIG 412
+T+AYGHFGR FPWE D + L+ A G
Sbjct: 155 ETAAYGHFGRE-----HFPWEKTDKAQLLRDAAG 183
Score = 55.3 bits (133), Expect = 1e-08
Identities = 21/40 (52%), Positives = 22/40 (55%), Gaps = 2/40 (5%)
Query: 121 SSDIAYGVDNASDDCSTLGAGDQGIMFGYACRETADFMPA 160
S DI GVD A GAGDQG+MFGYA ET P
Sbjct: 1 SPDINQGVDRADPL--EQGAGDQGLMFGYATNETDVGGPM 38
>3iml_A S-adenosylmethionine synthetase; structural genomics, ATP-
binding, cobalt, cytoplasm, magnesium, metal-binding,
nucleotide-binding; 2.35A {Burkholderia pseudomallei}
(A:116-140,A:241-399)
Length = 184
Score = 212 bits (541), Expect = 7e-56
Identities = 90/154 (58%), Positives = 110/154 (71%), Gaps = 3/154 (1%)
Query: 259 GGPCSDAGLTGRKIIVDTYGGASPHGGGAFSGKDITKVDRAAAYAARYLAKNIVAAGLAD 318
GGP D GLTGRKIIVDTYGGA+PHGGGAFSGKD +KVDR+AAYA RY+AKNIVAAGLA
Sbjct: 26 GGPQGDCGLTGRKIIVDTYGGAAPHGGGAFSGKDPSKVDRSAAYAGRYVAKNIVAAGLAS 85
Query: 319 RCTIQLSYAIGISRPLSIFVDLHDSGKVSESCVANAINKVMDLSVSGIRDHLNLSRPIYA 378
R IQ+SYAIG++ P S+ V+ +G+VS+ + + + DL GI L+L RPIY
Sbjct: 86 RALIQVSYAIGVAEPTSVMVNTFGTGRVSDETITKLVREHFDLRPKGIIQMLDLLRPIYE 145
Query: 379 QTSAYGHFGRSANQDGFFPWEALDLIEPLKKAIG 412
+T+AYGHFGR + F WEA D L +A G
Sbjct: 146 KTAAYGHFGRE---EPEFSWEAADKALALAEAAG 176
Score = 45.3 bits (107), Expect = 1e-05
Identities = 16/28 (57%), Positives = 19/28 (67%)
Query: 133 DDCSTLGAGDQGIMFGYACRETADFMPA 160
D+ GAGDQG+MFGYAC ET + P
Sbjct: 2 DNNLDQGAGDQGLMFGYACDETPEGGPQ 29
>2p02_A S-adenosylmethionine synthetase isoform type-2; structural
genomics, structural genomics consortium, SGC,
transferase; HET: SAM; 1.21A {Homo sapiens}
(A:115-149,A:254-396)
Length = 178
Score = 200 bits (511), Expect = 2e-52
Identities = 80/147 (54%), Positives = 101/147 (68%), Gaps = 5/147 (3%)
Query: 259 GGPCSDAGLTGRKIIVDTYGGASPHGGGAFSGKDITKVDRAAAYAARYLAKNIVAAGLAD 318
GGP DAGLTGRKIIVDTYGG HGGGAFSGKD TKVDR+AAYAAR++AK++V GL
Sbjct: 36 GGPQGDAGLTGRKIIVDTYGGWGAHGGGAFSGKDYTKVDRSAAYAARWVAKSLVKGGLCR 95
Query: 319 RCTIQLSYAIGISRPLSIFVDLHDSGKVSESCVANAINKVMDLSVSGIRDHLNLSRPIYA 378
R +Q+SYAIG+S PLSI + + + + SE + + K DL I L+L +PIY
Sbjct: 96 RVLVQVSYAIGVSHPLSISIFHYGTSQKSERELLEIVKKNFDLRPGVIVRDLDLKKPIYQ 155
Query: 379 QTSAYGHFGRSANQDGFFPWEALDLIE 405
+T+AYGHFGR + FPWE ++
Sbjct: 156 RTAAYGHFGRDS-----FPWEVPKKLK 177
Score = 53.7 bits (129), Expect = 4e-08
Identities = 20/40 (50%), Positives = 24/40 (60%), Gaps = 1/40 (2%)
Query: 121 SSDIAYGVDNASDDCSTLGAGDQGIMFGYACRETADFMPA 160
S DIA GV + +GAGDQG+MFGYA ET + P
Sbjct: 1 SPDIAQGVH-LDRNEEDIGAGDQGLMFGYATDETEEGGPQ 39
>1p7l_A S-adenosylmethionine synthetase; AMPPNP, SAM, transferase;
HET: SAM ANP PPK; 2.50A {Escherichia coli}
(A:1-13,A:133-232)
Length = 113
Score = 117 bits (296), Expect = 2e-27
Identities = 42/102 (41%), Positives = 61/102 (59%), Gaps = 2/102 (1%)
Query: 157 FMPAPIYYAHRILRTLADARKNSGGDVSKLGPDAKSQVTIRYVDNKVCEVKSIVLSIQHF 216
MPAPI YAHR+++ A+ RKN G + L PDAKSQVT +Y D K+ + ++VLS QH
Sbjct: 14 LMPAPITYAHRLVQRQAEVRKN--GTLPWLRPDAKSQVTFQYDDGKIVGIDAVVLSTQHS 71
Query: 217 DPTWDRGKVRSVVEPYILKALEDIKISPDCSWYINPAGKFVI 258
+ + +V+E I L ++ ++INP G+FVI
Sbjct: 72 EEIDQKSLQEAVMEEIIKPILPAEWLTSATKFFINPTGRFVI 113
>3iml_A S-adenosylmethionine synthetase; structural genomics, ATP-
binding, cobalt, cytoplasm, magnesium, metal-binding,
nucleotide-binding; 2.35A {Burkholderia pseudomallei}
(A:1-19,A:141-240)
Length = 119
Score = 113 bits (285), Expect = 3e-26
Identities = 40/102 (39%), Positives = 57/102 (55%), Gaps = 2/102 (1%)
Query: 157 FMPAPIYYAHRILRTLADARKNSGGDVSKLGPDAKSQVTIRYVDNKVCEVKSIVLSIQHF 216
MP PI+ +HR++ A+ R++ G + L PDAKSQVT+RYVD K + ++VLS QH
Sbjct: 20 LMPLPIHLSHRLVERQANLRRD--GRLPWLRPDAKSQVTVRYVDGKPHSIDTVVLSTQHA 77
Query: 217 DPTWDRGKVRSVVEPYILKALEDIKISPDCSWYINPAGKFVI 258
+V+E I L I D + +NP G+FVI
Sbjct: 78 PEIDLPALREAVIEEVIKPTLPADLIKGDIKFLVNPTGRFVI 119
Score = 26.3 bits (58), Expect = 7.1
Identities = 12/15 (80%), Positives = 14/15 (93%)
Query: 1 MSADFLFTSESVSEG 15
M+ D+LFTSESVSEG
Sbjct: 5 MANDYLFTSESVSEG 19
>2p02_A S-adenosylmethionine synthetase isoform type-2; structural
genomics, structural genomics consortium, SGC,
transferase; HET: SAM; 1.21A {Homo sapiens}
(A:1-29,A:150-253)
Length = 133
Score = 107 bits (270), Expect = 2e-24
Identities = 32/106 (30%), Positives = 57/106 (53%), Gaps = 6/106 (5%)
Query: 157 FMPAPIYYAHRILRTLADARKNSGGDVSKLGPDAKSQVTIRYVDNKV----CEVKSIVLS 212
MP I AH++ LA+ R+N G + L PD+K+QVT++Y+ ++ V +IV+S
Sbjct: 30 CMPLTIVLAHKLNAKLAELRRN--GTLPWLRPDSKTQVTVQYMQDRGAVLPIRVHTIVIS 87
Query: 213 IQHFDPTWDRGKVRSVVEPYILKALEDIKISPDCSWYINPAGKFVI 258
+QH + ++ E I + + D +++ P+G+FVI
Sbjct: 88 VQHDEEVCLDEMRDALKEKVIKAVVPAKYLDEDTIYHLQPSGRFVI 133
>3iml_A S-adenosylmethionine synthetase; structural genomics, ATP-
binding, cobalt, cytoplasm, magnesium, metal-binding,
nucleotide-binding; 2.35A {Burkholderia pseudomallei}
(A:20-115)
Length = 96
Score = 99.1 bits (247), Expect = 9e-22
Identities = 37/118 (31%), Positives = 51/118 (43%), Gaps = 24/118 (20%)
Query: 16 HPDKICDRISDEIVDLVYREAIESKMDVNSVRVACEVLVTKNKVIVAGEVRLPHGLSKKD 75
HPDK+ D+ISD I+D + + S RVA E L V++AGE+
Sbjct: 1 HPDKVADQISDAILDAILAQDKYS-------RVAAETLCNTGLVVLAGEITTT------- 46
Query: 76 SITGQYVVDKEKFEKVVRSVIRSIGYEQE--GFHWETVDVEVLLHSQSSDIAYGVDNA 131
+ ++ R I+ IGY+ G + V V QS DIA GVD A
Sbjct: 47 --------ANIDYIQIARDTIKRIGYDNTDYGIDYRGCAVLVAYDKQSPDIAQGVDRA 96
>2p02_A S-adenosylmethionine synthetase isoform type-2; structural
genomics, structural genomics consortium, SGC,
transferase; HET: SAM; 1.21A {Homo sapiens} (A:30-114)
Length = 85
Score = 91.8 bits (228), Expect = 1e-19
Identities = 33/107 (30%), Positives = 54/107 (50%), Gaps = 24/107 (22%)
Query: 16 HPDKICDRISDEIVDLVYREAIESKMDVNSVRVACEVLVTKNKVIVAGEVRLPHGLSKKD 75
HPDKICD+ISD ++D ++ D ++ +VACE + +++AGE+
Sbjct: 1 HPDKICDQISDAVLDAHLQQ------DPDA-KVACETVAKTGMILLAGEITSR------- 46
Query: 76 SITGQYVVDKEKFEKVVRSVIRSIGYEQE--GFHWETVDVEVLLHSQ 120
++KVVR ++ IGY+ GF ++T +V V L Q
Sbjct: 47 --------AAVDYQKVVREAVKHIGYDDSSKGFDYKTCNVLVALEQQ 85
>1p7l_A S-adenosylmethionine synthetase; AMPPNP, SAM, transferase;
HET: SAM ANP PPK; 2.50A {Escherichia coli} (A:14-98)
Length = 85
Score = 90.6 bits (225), Expect = 3e-19
Identities = 31/107 (28%), Positives = 45/107 (42%), Gaps = 24/107 (22%)
Query: 16 HPDKICDRISDEIVDLVYREAIESKMDVNSVRVACEVLVTKNKVIVAGEVRLPHGLSKKD 75
HPDKI D+ISD ++D + + D + RVACE V V+V GE+
Sbjct: 1 HPDKIADQISDAVLDAILEQ------DPKA-RVACETYVKTGMVLVGGEITTS------- 46
Query: 76 SITGQYVVDKEKFEKVVRSVIRSIGYEQE--GFHWETVDVEVLLHSQ 120
E++ R+ +R IGY GF + V + Q
Sbjct: 47 --------AWVDIEEITRNTVREIGYVHSDMGFDANSCAVLSAIGKQ 85
>2o9u_X Monellin chain B and monellin chain A; alternative
conformations, 3-10 polyproline II helix, plant protein;
1.15A {Dioscoreophyllum cumminsii} (X:)
Length = 97
Score = 29.3 bits (65), Expect = 1.0
Identities = 23/70 (32%), Positives = 33/70 (47%), Gaps = 11/70 (15%)
Query: 79 GQYVVDKEK---------FEKVVRSVIRSIGYEQEGFHWETVDVEVLLHSQSSDIAYGVD 129
G++ VD+E F KV+R ++ YE EGF E E L+ +SD + D
Sbjct: 17 GKFAVDEENKIGQYGRLTFNKVIRPCMKKTIYENEGFR-EIKGYEYQLYVYASDKLFRAD 75
Query: 130 NASDDCSTLG 139
S+D T G
Sbjct: 76 -ISEDYKTRG 84
>3gju_A Putative aminotransferase; NP_107505.1, structural genomics,
joint center for structural genomics, JCSG; HET: MSE LLP
PLP; 1.55A {Mesorhizobium loti MAFF303099} PDB: 3fcr_A*
(A:111-326)
Length = 216
Score = 28.4 bits (62), Expect = 1.7
Identities = 8/55 (14%), Positives = 14/55 (25%), Gaps = 4/55 (7%)
Query: 236 ALEDIKISPDCSWYINPAGKFVIGGPCSDAGLTGRKIIVDTYGGASPHGGGAFSG 290
+ I PD A K + +G+ + S G+
Sbjct: 165 GSDHYGIKPDLITI---AXKGLTSAYAPLSGVIVADRVWQVLVQGSDK-LGSLGH 215
>1u04_A Argonaute, hypothetical protein PF0537; RNAI, silencing,
PIWI, PAZ, RISC, slicer, RNAse H, hydrolase/gene
regulation complex; 2.25A {Pyrococcus furiosus dsm 3638}
(A:1-9,A:313-328,A:551-771)
Length = 246
Score = 27.3 bits (60), Expect = 3.6
Identities = 6/11 (54%), Positives = 10/11 (90%)
Query: 158 MPAPIYYAHRI 168
+PAP++YAH+
Sbjct: 213 LPAPVHYAHKF 223
>1ted_A PKS18; thiolase fold, substrate binding tunnel, transferase;
HET: MYR; 2.25A {Mycobacterium tuberculosis H37RV} (A:)
Length = 393
Score = 27.4 bits (59), Expect = 3.6
Identities = 4/32 (12%), Positives = 12/32 (37%)
Query: 118 HSQSSDIAYGVDNASDDCSTLGAGDQGIMFGY 149
+ S + + ++ + A G+ F +
Sbjct: 346 NMLSVSLIFVLETMVQQAESAKAISTGVAFAF 377
>1fnn_A CDC6P, cell division control protein 6; ORC1, AAA protein,
DNA replication initation factor, cell cycle control
factor; HET: ADP; 2.00A {Pyrobaculum aerophilum}
(A:193-281)
Length = 89
Score = 27.1 bits (60), Expect = 4.0
Identities = 8/56 (14%), Positives = 16/56 (28%)
Query: 303 AARYLAKNIVAAGLADRCTIQLSYAIGISRPLSIFVDLHDSGKVSESCVANAINKV 358
+ +A A D AI I + + ++ V + +V
Sbjct: 27 ILQMIADITGAQTPLDTNRGDARLAIDILYRSAYAAQQNGRKHIAPEDVRKSSKEV 82
>1epw_A Bontoxilysin B, botulinum neurotoxin type B; zinc,
metalloprotease, transmembrane, hydrolase; 1.90A
{Clostridium botulinum} (A:78-132,A:196-424)
Length = 284
Score = 26.7 bits (59), Expect = 4.9
Identities = 9/25 (36%), Positives = 17/25 (68%), Gaps = 1/25 (4%)
Query: 74 KDSITGQYVVDKEKFEKVVRSVIRS 98
+DS G+Y +D E F+K+ +S++
Sbjct: 191 EDS-EGKYSIDVESFDKLYKSLMFG 214
>3ho1_A Argonaute; argonaute, protein-DNA-RNA complex, plasmid;
2.60A {Thermus thermophilus HB27} PDB: 3dlb_A* 3dlh_A*
3f73_A* 3hm9_A 3hvr_A 3hxm_A* 3hk2_A 3hjf_A
(A:1-12,A:309-318,A:470-685)
Length = 238
Score = 26.9 bits (59), Expect = 5.0
Identities = 5/11 (45%), Positives = 9/11 (81%)
Query: 158 MPAPIYYAHRI 168
+PAP++ A R+
Sbjct: 205 LPAPLHLADRL 215
>1se9_A Ubiquitin family; ubiquitin-like, cell-free, wheat GERM,
structural genomics, protein structure initiative, CESG;
NMR {Arabidopsis thaliana} (A:)
Length = 126
Score = 26.7 bits (58), Expect = 5.6
Identities = 7/83 (8%), Positives = 17/83 (20%), Gaps = 7/83 (8%)
Query: 186 LGPDAKSQVTIRYVDNKVCEVKSIVLSIQHFDPTWDRGKVRSVVEPYILKALEDIKISPD 245
+ ++ R D K+ ++ V + E+ +
Sbjct: 11 AEVHNQLEIKFRLTDGSDIGPKAF-------PDATTVSALKETVISEWPREKENGPKTVK 63
Query: 246 CSWYINPAGKFVIGGPCSDAGLT 268
I+ D
Sbjct: 64 EVKLISAGKVLENSKTVKDYRSP 86
>2w42_A PIWI, putative uncharacterized protein; RNAI, RISC,
argonaute, PIWI domain, protein/DNA complex; 1.90A
{Archaeoglobus fulgidus} PDB: 1ytu_A 2bgg_A 1w9h_A
(A:177-427)
Length = 251
Score = 26.6 bits (58), Expect = 5.8
Identities = 2/11 (18%), Positives = 5/11 (45%)
Query: 158 MPAPIYYAHRI 168
+P + Y +
Sbjct: 211 LPVTVNYPKLV 221
>1yvu_A Hypothetical protein AQ_1447; RNAse H fold, RNA binding
protein, gene regulation; 2.90A {Aquifex aeolicus VF5}
(A:1-8,A:308-318,A:493-706)
Length = 233
Score = 26.5 bits (58), Expect = 5.9
Identities = 4/11 (36%), Positives = 9/11 (81%)
Query: 158 MPAPIYYAHRI 168
+PA ++Y+ +I
Sbjct: 202 LPATVHYSDKI 212
>2phj_A 5'-nucleotidase SURE; SURE protein, putative acid
phosphatase, structural genomics, 3-D structure, mixed
alpha/beta protein, NPPSFA; 1.50A {Aquifex aeolicus VF5}
(A:)
Length = 251
Score = 26.5 bits (58), Expect = 6.4
Identities = 18/89 (20%), Positives = 35/89 (39%), Gaps = 11/89 (12%)
Query: 298 RAAAYAARYLAKNIVAAGLADRCTIQLSYAIGISRPLSIF-VDLHDSGKVSES---CVAN 353
A A + L + +V A + + +++ + PL + +D + + CV
Sbjct: 18 NALREALKSLGRVVVVAPDRNLS--GVGHSLTFTEPLKMRKIDTDFYTVIDGTPADCVHL 75
Query: 354 AINKVM-----DLSVSGIRDHLNLSRPIY 377
++ DL +SGI + NL I
Sbjct: 76 GYRVILEEKKPDLVLSGINEGPNLGEDIT 104
>1zb7_A Neurotoxin; hexxh metalloprotease; HET: FLC; 2.35A
{Clostridium botulinum} (A:79-133,A:197-412)
Length = 271
Score = 26.4 bits (58), Expect = 6.8
Identities = 9/25 (36%), Positives = 18/25 (72%), Gaps = 1/25 (4%)
Query: 74 KDSITGQYVVDKEKFEKVVRSVIRS 98
+D G+Y VDK+KF+K+ ++++
Sbjct: 190 EDP-NGKYSVDKDKFDKLYKALMFG 213
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
0.319 0.136 0.403
Gapped
Lambda K H
0.267 0.0643 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Sequences: 33805
Number of Hits to DB: 3,195,996
Number of extensions: 143513
Number of successful extensions: 379
Number of sequences better than 10.0: 1
Number of HSP's gapped: 362
Number of HSP's successfully gapped: 28
Length of query: 413
Length of database: 4,956,049
Length adjustment: 91
Effective length of query: 322
Effective length of database: 1,879,794
Effective search space: 605293668
Effective search space used: 605293668
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 (21.7 bits)
S2: 56 (25.5 bits)