RPS-BLAST 2.2.22 [Sep-27-2009]
Database: pdb70
24,244 sequences; 5,693,230 total letters
Searching..................................................done
Query= gi|254780347|ref|YP_003064760.1| riboflavin synthase subunit
alpha [Candidatus Liberibacter asiaticus str. psy62]
(204 letters)
>3ddy_A Lumazine protein, LUMP; luminescent bacteria, riboflavin synthase,
luminescence, luminescent protein; HET: RBF; 2.50A
{Photobacterium leiognathi}
Length = 186
Score = 188 bits (479), Expect = 7e-49
Identities = 35/188 (18%), Positives = 73/188 (38%), Gaps = 7/188 (3%)
Query: 1 MFTGIVTDIGKIIAMTPIAKGMRLRVMTSYNTSK-MKLGCSIAHAGICLTVVRLSEEHSV 59
MF GIV G I +++ R + + + + + G TVVR+
Sbjct: 1 MFRGIVQGRGVIRSISKSEDSQRHGIAFPEGMFQLVDVDTVMLVNGCSNTVVRIL----- 55
Query: 60 DNWYEVEVWAETNRITNIASWGIGTFINLERSVKLGDRLDGHLVSGHIDGTVEILFLDFI 119
+ ++ + T G +NLE K G+ + ++G+I GT + ++
Sbjct: 56 GDMVYFDI-DQALGTTTFDGLKEGDQVNLEIHPKFGEVVGRGGLTGNIKGTALVAAIEEN 114
Query: 120 GDSMYCRLSLPHNLEQFIAVKGSVCLNGVSLTVNLVGKNFFDVLLIRHTIEETTWKMHKV 179
+ +P L + + VK + ++G+SL + + + + R + T
Sbjct: 115 DAGFSVLIDIPKGLAENLTVKDDIGIDGISLPITDMSDSIITLNYSRDLLASTNIASLAK 174
Query: 180 GDLINIEV 187
+N+E+
Sbjct: 175 DVKVNVEI 182
>1kzl_A Riboflavin synthase; biosynthesis of riboflavin, ligand binding,
transferase; HET: CRM; 2.10A {Schizosaccharomyces pombe}
SCOP: b.43.4.3 b.43.4.3
Length = 208
Score = 175 bits (444), Expect = 8e-45
Identities = 61/199 (30%), Positives = 96/199 (48%), Gaps = 7/199 (3%)
Query: 1 MFTGIVTDIGKIIAMTP-IAKGMRLRVMTSYNTSKMKLGCSIAHAGICLTVVRLSEEHSV 59
MFTG+V IG + + I G +++ G SIA G CLTV
Sbjct: 1 MFTGLVEAIGVVKDVQGTIDNGFAMKIEAPQILDDCHTGDSIAVNGTCLTVT-----DFD 55
Query: 60 DNWYEVEVWAETNRITNIASWGIGTFINLERSVKLGDRLDGHLVSGHIDGTVEILFLDFI 119
+ V + E+ R+TN+ G +NLER+V R+ GH V GH+D EI+
Sbjct: 56 RYHFTVGIAPESLRLTNLGQCKAGDPVNLERAVLSSTRMGGHFVQGHVDTVAEIVEKKQD 115
Query: 120 GDSMYCRLSLPHNLE-QFIAVKGSVCLNGVSLTVNLVGKNFFDVLLIRHTIEETTWKMHK 178
G+++ ++I KG + L+G SLT+ V + F +++I +T +
Sbjct: 116 GEAIDFTFRPRDPFVLKYIVYKGYIALDGTSLTITHVDDSTFSIMMISYTQSKVIMAKKN 175
Query: 179 VGDLINIEVDSMMRYIARL 197
VGDL+N+EVD + +Y +L
Sbjct: 176 VGDLVNVEVDQIGKYTEKL 194
>1i8d_A Riboflavin synthase; riboflavin biosynthesis, antimicrobial target,
structure-based design, transferase; 2.00A {Escherichia
coli} SCOP: b.43.4.3 b.43.4.3 PDB: 1hze_A* 1i18_A*
1pkv_A*
Length = 213
Score = 171 bits (435), Expect = 9e-44
Identities = 63/199 (31%), Positives = 99/199 (49%), Gaps = 7/199 (3%)
Query: 1 MFTGIVTDIGKIIAMTPIAKGMRLRV-MTSYNTSKMKLGCSIAHAGICLTVVRLSEEHSV 59
MFTGIV K++++ V + + ++ G S+AH G CLTV +
Sbjct: 1 MFTGIVQGTAKLVSIDEKPNFRTHVVELPDHMLDGLETGASVAHNGCCLTVTEI-----N 55
Query: 60 DNWYEVEVWAETNRITNIASWGIGTFINLERSVKLGDRLDGHLVSGHIDGTVEILFLDFI 119
N ++ ET RITN+ +G ++N+ER+ K D + GHL+SGHI T E+ +
Sbjct: 56 GNHVSFDLMKETLRITNLGDLKVGDWVNVERAAKFSDEIGGHLMSGHIMTTAEVAKILTS 115
Query: 120 GDS-MYCRLSLPHNLEQFIAVKGSVCLNGVSLTVNLVGKNFFDVLLIRHTIEETTWKMHK 178
++ L ++I KG + ++G+SLTV V F V LI T+E TT K
Sbjct: 116 ENNRQIWFKVQDSQLMKYILYKGFIGIDGISLTVGEVTPTRFCVHLIPETLERTTLGKKK 175
Query: 179 VGDLINIEVDSMMRYIARL 197
+G +NIE+D + +
Sbjct: 176 LGARVNIEIDPQTQAVVDT 194
>3a35_A Lumazine protein, LUMP; luminous bacteria, homologue of riboflavin
synthase, luminescent protein; HET: RBF; 1.42A
{Photobacterium kishitanii} PDB: 3a3b_B* 3a3g_A*
Length = 190
Score = 119 bits (299), Expect = 4e-28
Identities = 35/192 (18%), Positives = 72/192 (37%), Gaps = 7/192 (3%)
Query: 1 MFTGIVTDIGKIIAMTPIAKGMRLRVMTSYN-TSKMKLGCSIAHAGICLTVVRLSEEHSV 59
MF GIV G I ++ R + + ++ G + G LTV +
Sbjct: 1 MFKGIVQGAGIIKKISKNDDTQRHGITFPKDILESVEKGTVMLVNGCSLTV------VRI 54
Query: 60 DNWYEVEVWAETNRITNIASWGIGTFINLERSVKLGDRLDGHLVSGHIDGTVEILFLDFI 119
+ T +G +NLE + G L ++G+I G + +
Sbjct: 55 SGDVVYFDIDQAINTTTFRELEVGNKVNLEVRPEFGSLLGKGALTGNIKGVATVDNITEE 114
Query: 120 GDSMYCRLSLPHNLEQFIAVKGSVCLNGVSLTVNLVGKNFFDVLLIRHTIEETTWKMHKV 179
D + + +P +L + I + + +NGVS ++ + + + ++ T +
Sbjct: 115 EDRLKVYIKIPKDLIENILSEDHIGINGVSHSIEEISDDIIFINYPKNLSITTNLGTLEK 174
Query: 180 GDLINIEVDSMM 191
G +N+E ++
Sbjct: 175 GSDVNVETLNVS 186
Score = 32.5 bits (73), Expect = 0.072
Identities = 12/96 (12%), Positives = 34/96 (35%), Gaps = 6/96 (6%)
Query: 1 MFTGIVTDIGKIIAMTPIAKGMRLRV-MTSYNTSKMKLGCSIAHAGICLTVVRLSEEHSV 59
TG + + + +T +++ + + + I G+ ++ +S
Sbjct: 97 ALTGNIKGVATVDNITEEEDRLKVYIKIPKDLIENILSEDHIGINGVSHSIEEIS----- 151
Query: 60 DNWYEVEVWAETNRITNIASWGIGTFINLERSVKLG 95
D+ + + TN+ + G+ +N+E
Sbjct: 152 DDIIFINYPKNLSITTNLGTLEKGSDVNVETLNVSN 187
>2rjg_A Alanine racemase; alpha/beta barrel, cell shape, cell WALL
biogenesis/degradation, isomerase, peptidoglycan
synthesis, pyridoxal phosphate; HET: KCX PLP; 2.40A
{Escherichia coli} PDB: 2rjh_A* 3b8v_A* 3b8u_A* 3b8t_A*
3b8w_A*
Length = 379
Score = 25.6 bits (55), Expect = 9.1
Identities = 10/51 (19%), Positives = 16/51 (31%), Gaps = 2/51 (3%)
Query: 48 LTVVRLSEEHSVDNWYEVEVWAETNRITNIASWGIGTFINLERSVKLGDRL 98
+ V L + V +W E + IA E +L R+
Sbjct: 325 MICVDLGPQAQDKAGDPVILWGEGLPVERIAEM-TKV-SAYELITRLTSRV 373
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
0.324 0.138 0.416
Gapped
Lambda K H
0.267 0.0649 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Sequences: 24244
Number of Hits to DB: 1,784,107
Number of extensions: 79323
Number of successful extensions: 326
Number of sequences better than 10.0: 1
Number of HSP's gapped: 304
Number of HSP's successfully gapped: 8
Length of query: 204
Length of database: 5,693,230
Length adjustment: 88
Effective length of query: 116
Effective length of database: 3,559,758
Effective search space: 412931928
Effective search space used: 412931928
Neighboring words threshold: 11
Window for multiple hits: 40
X1: 15 ( 7.0 bits)
X2: 38 (14.6 bits)
X3: 64 (24.7 bits)
S1: 40 (21.5 bits)
S2: 54 (24.7 bits)