RPS-BLAST 2.2.22 [Sep-27-2009]
Database: mmdb70
33,805 sequences; 4,956,049 total letters
Searching..................................................done
Query= gi|255764510|ref|YP_003065448.2| uroporphyrinogen-III synthase
[Candidatus Liberibacter asiaticus str. psy62]
(232 letters)
>1jr2_A Uroporphyrinogen-III synthase; heme biosynthesis, HEAM
biosynthesis, lyase; 1.84A {Homo sapiens} (A:57-195)
Length = 139
Score = 37.0 bits (85), Expect = 0.002
Identities = 16/80 (20%), Positives = 27/80 (33%), Gaps = 3/80 (3%)
Query: 69 RHTPIFAIGEASACLARQKGFTQIFHGKDNSINLAKIIVEQKVLFTPQKPLIYLGGKPRN 128
++ +G A+A L + G N+ LA+ I + + L G R
Sbjct: 57 NAKSVYVVGNATASLVSKIGLDTEGETCGNAEKLAEYICSR--ESSALPLLFPCGNLKRE 114
Query: 129 FHFEDYLIEHKIPLRVIDCY 148
L + I + I Y
Sbjct: 115 I-LPKALKDKGIAMESITVY 133
>3d8t_A Uroporphyrinogen-III synthase; heme biosynthesis, lyase;
1.60A {Thermus thermophilus} PDB: 3d8r_A 3d8s_A 3d8n_A
(A:72-187)
Length = 116
Score = 32.5 bits (74), Expect = 0.045
Identities = 10/86 (11%), Positives = 20/86 (23%), Gaps = 11/86 (12%)
Query: 39 ESVFLAMQQSYGAIAITSS----------ESLSTLPANFCRHTPIFAIGEASACLARQKG 88
+ Q T+ ++L A G +A ++ G
Sbjct: 4 RDQVRELAQGVDLFLATTGVGVRDLLEAGKALGLDLEGPLAKAFRLARGAKAARALKEAG 63
Query: 89 FTQIFHGKD-NSINLAKIIVEQKVLF 113
G + L + + V
Sbjct: 64 LPPHAVGDGTSKSLLPLLPQGRGVAA 89
>1wcw_A Uroporphyrinogen III synthase; congenital erythropoietic
porphyria, structural genomics, riken structural
genomics/proteomics initiative; 1.30A {Thermus
thermophilus} PDB: 1wd7_A 1wcx_A (A:48-161)
Length = 114
Score = 31.4 bits (71), Expect = 0.10
Identities = 10/82 (12%), Positives = 19/82 (23%), Gaps = 12/82 (14%)
Query: 44 AMQQSYGAIAITSS----------ESLSTLPANFCRHTPIFAIGEASACLARQKGFTQIF 93
A+ Q T+ ++L A G +A ++ G
Sbjct: 8 ALAQGVDLFLATTGVGVRDLLEAGKALGLDLEGPLAKAFRLARGAKAARALKEAGLPPHA 67
Query: 94 HGKD-NSINLAKIIVE-QKVLF 113
G + L +
Sbjct: 68 VGDGTSKSLLPLLPQGRGVAAL 89
>2q28_A Oxalyl-COA decarboxylase; lyase, oxalate degradation,
thiamine diphosphate; HET: TPP ADP MES; 1.74A
{Escherichia coli} PDB: 2q27_A* 2q29_A* (A:192-368)
Length = 177
Score = 29.4 bits (65), Expect = 0.40
Identities = 20/129 (15%), Positives = 34/129 (26%), Gaps = 10/129 (7%)
Query: 110 KVLFTPQKPLIYLGGKPRNFHFEDYLIE----HKIP----LRVIDCYYSQDIAYPETTMK 161
+L ++PLI LG ++ L E +IP
Sbjct: 15 SLLAKAERPLIILGKGAAYSQADEQLREFIESAQIPFLPMSMAKGILEDTHPLSAAAARS 74
Query: 162 NLLQNADAILFYARSSVLYFFSLPLPAKISAAFLCLSNNIASAIPASYKNVVTVACFPKE 221
L NAD ++ F+ L I ++ V V
Sbjct: 75 FALANADVVMLVGARLNWLLAHGKKGWAADTQFIQLDIE-PQEIDSNRPIAVPVVGDIAS 133
Query: 222 TSLLKLLPL 230
+ + +L
Sbjct: 134 S-MQGMLAE 141
>1xf1_A C5A peptidase, SCP; hydrolase; HET: CIT; 1.90A
{Streptococcus pyogenes} PDB: 3eif_A*
(A:1-229,A:362-478)
Length = 346
Score = 27.4 bits (59), Expect = 1.6
Identities = 9/55 (16%), Positives = 14/55 (25%), Gaps = 4/55 (7%)
Query: 166 NADAILFYARSSVLYFFSL----PLPAKISAAFLCLSNNIASAIPASYKNVVTVA 216
A + V S K + PA+ + +TVA
Sbjct: 170 TKKAFDYAKSKGVSIVTSAGNDSSFGGKTRLPLADHPDYGVVGTPAAADSTLTVA 224
>3hww_A 2-succinyl-5-enolpyruvyl-6-hydroxy-3-cyclohexene-
1-carboxylate synthase; menaquinone, THDP, metal, Mg,
vitamin K2, carboxylase, magnesium; HET: AKG; 1.95A
{Escherichia coli k-12} PDB: 3flm_A* 3hwx_A* 2jlc_A*
2jla_A* (A:196-343)
Length = 148
Score = 27.3 bits (60), Expect = 1.9
Identities = 9/124 (7%), Positives = 28/124 (22%), Gaps = 11/124 (8%)
Query: 116 QKPLIYLGGKPRNFHFEDYLIEHKIPLRVIDCYYSQDIAYPET--------TMKNLLQNA 167
++ ++ G + L + +I SQ + LQ A
Sbjct: 25 KRGVVVAGRMSAEEGKKVALWAQTLGWPLIGDVLSQTGQPLPCADLWLGNAKATSELQQA 84
Query: 168 DAILFYARSSVLYFFSLPLPAKISAAFLCLSNNIASAIPASYKNVVTVACFPKET--SLL 225
++ S + + + + + ++ + +
Sbjct: 85 QIVVQLGSSLTGKRLLQWQASCEPEEYWIVDDI-EGRLDPAHHRGRRLIANIADWLELHP 143
Query: 226 KLLP 229
Sbjct: 144 AEKR 147
>2a6h_C DNA-directed RNA polymerase beta chain; RNA polymerase
holoenzyme, streptolydigin, antibiotic, transcription
regulation; HET: STD; 2.40A {Thermus thermophilus}
(C:14-143,C:324-461)
Length = 268
Score = 26.6 bits (58), Expect = 2.8
Identities = 9/35 (25%), Positives = 15/35 (42%)
Query: 1 MYIVITRPIKKALRTQEKIQKMGYIPVMMPLSYFI 35
+Y + K +E +G+IP+M FI
Sbjct: 81 LYARLQLIHKDTGLIKEDEVFLGHIPLMTEDGSFI 115
>2c31_A Oxalyl-COA decarboxylase; oxalate, thiamin diphosphate,
flavoprotein, lyase, thiamine pyrophosphate; HET: TZD
ADP; 1.73A {Oxalobacter formigenes} (A:194-372)
Length = 179
Score = 26.7 bits (58), Expect = 3.0
Identities = 18/135 (13%), Positives = 38/135 (28%), Gaps = 13/135 (9%)
Query: 110 KVLFTPQKPLIYLGGKPRNFHFEDYLIEH--KIPLRVIDCYYSQDIAYPET-------TM 160
++ ++P+I LG +D + + + + ++ P+ T
Sbjct: 15 DLIKNAKRPVIMLGKGAAYAQCDDEIRALVEETGIPFLPMGMAKG-LLPDNHPQSAAATR 73
Query: 161 KNLLQNADAILFY-ARSSVLYFFSLPLPAKISAAFLCLSNNIASAIPASYKNVVTVACFP 219
L D + AR + L + A+ + ++ V
Sbjct: 74 AFALAQCDVCVLIGARLNWLMQHGKGKTWGDELKKYVQIDIQANEMDSNQPIAAPVVGDI 133
Query: 220 KET--SLLKLLPLRR 232
K L K L
Sbjct: 134 KSAVSLLRKALKGAP 148
>1ziw_A TOLL-like receptor 3; innate immunity, immune system; HET:
NDG NAG; 2.10A {Homo sapiens} PDB: 2a0z_A* 3cig_A*
3ciy_A* (A:)
Length = 680
Score = 26.2 bits (55), Expect = 3.5
Identities = 2/36 (5%), Positives = 6/36 (16%), Gaps = 8/36 (22%)
Query: 182 FSLPLPAKISAA-------FLCLSNN-IASAIPASY 209
S S+ ++ +
Sbjct: 645 LSSHYLCNTPPHYHGFPVRLFDTSSCKDSAHHHHHH 680
>2uz1_A Benzaldehyde lyase; thiamine diphosphate, thiamine
pyrophosphate, benzoin, flavoprotein; HET: TPP; 1.65A
{Pseudomonas fluorescens} PDB: 2ag1_A* 2ag0_A* 2uz1_B*
3d7k_A* (A:182-367)
Length = 186
Score = 25.9 bits (56), Expect = 4.4
Identities = 14/130 (10%), Positives = 29/130 (22%), Gaps = 17/130 (13%)
Query: 116 QKPLIYLGGKPRNFHFEDYLIE--HKIPLRVIDCYYSQDIAYPET-------------TM 160
++P+I LG + + L + V Y +
Sbjct: 24 ERPVIVLGSEASRTARKTALSAFVAATGVPVFADYEGLS-MLSGLPDAMRGGLVQNLYSF 82
Query: 161 KNLLQNADAILFYARSSVLYFFSLPLPAKISAAFLCLSNNIASAIPASYKNVVTVACFPK 220
D +L L +A + + A + + +
Sbjct: 83 AKADAAPDLVLMLGARFGLNTGHGSGQLIPHSAQVIQVDPDACELGRLQGIALGIVADVG 142
Query: 221 ETSLLKLLPL 230
T + L
Sbjct: 143 GT-IEALAQA 151
>1h7e_A 3-deoxy-manno-octulosonate cytidylyltransferase;
nucleotidyltransferase, CMP-KDO synthetase, nucleoside
monophosphate glycosides; 1.83A {Escherichia coli} (A:)
Length = 245
Score = 25.9 bits (55), Expect = 4.7
Identities = 8/33 (24%), Positives = 13/33 (39%)
Query: 117 KPLIYLGGKPRNFHFEDYLIEHKIPLRVIDCYY 149
KPL+ + GKP H + ++ V
Sbjct: 19 KPLLDIVGKPMIQHVYERALQVAGVAEVWVATD 51
>2qh5_A PMI, ALGA, mannose-6-phosphate isomerase; structural
genomics, PSI, protein structure initiative, nysgrc;
2.30A {Helicobacter pylori 26695} (A:1-147,A:189-308)
Length = 267
Score = 25.0 bits (54), Expect = 8.7
Identities = 6/41 (14%), Positives = 9/41 (21%)
Query: 117 KPLIYLGGKPRNFHFEDYLIEHKIPLRVIDCYYSQDIAYPE 157
K + L F + +I C E
Sbjct: 28 KQFLKLFDHKSLFELSFKRNASLVDETLIVCNEKHYFLALE 68
>2waq_B DNA-directed RNA polymerase RPO2 subunit; multi-subunit,
transcription; 3.35A {Sulfolobus shibatae} PDB: 2wb1_B
2pmz_B 3hkz_B (B:49-158)
Length = 110
Score = 25.2 bits (55), Expect = 8.7
Identities = 3/35 (8%), Positives = 15/35 (42%), Gaps = 1/35 (2%)
Query: 1 MYIVITRPIKKALRTQEKIQKMGYIPVMMPLSYFI 35
+++ + + + + +G +P+M+ +
Sbjct: 51 LWLTMIPVENN-IEAEPEEVYIGDLPIMLKSAIDP 84
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
0.325 0.138 0.405
Gapped
Lambda K H
0.267 0.0540 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Sequences: 33805
Number of Hits to DB: 1,641,884
Number of extensions: 67961
Number of successful extensions: 263
Number of sequences better than 10.0: 1
Number of HSP's gapped: 263
Number of HSP's successfully gapped: 16
Length of query: 232
Length of database: 4,956,049
Length adjustment: 86
Effective length of query: 146
Effective length of database: 2,048,819
Effective search space: 299127574
Effective search space used: 299127574
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 (21.6 bits)
S2: 53 (24.6 bits)