RPS-BLAST 2.2.22 [Sep-27-2009]
Database: pdb70
24,244 sequences; 5,693,230 total letters
Searching..................................................done
Query= gi|254781037|ref|YP_003065450.1| porphobilinogen deaminase
[Candidatus Liberibacter asiaticus str. psy62]
(307 letters)
>1gtk_A Porphobilinogen deaminase; lyase, biosynthesis of linear
tetrapyrrole, all alpha/beta; HET: DPM; 1.66A
{Escherichia coli} SCOP: c.94.1.1 d.50.2.1 PDB: 1ah5_A*
2ypn_A* 1ypn_A* 1pda_A*
Length = 313
Score = 270 bits (691), Expect = 3e-73
Identities = 113/297 (38%), Positives = 162/297 (54%), Gaps = 2/297 (0%)
Query: 1 MEKKPFRIGTRCSPLALAHAFETRSSLMDVHKIPPHNIVIIPLSTKGDRITNRTLTEIGG 60
M RI TR SPLAL A + LM H P + ++P+ T+GD I + L ++GG
Sbjct: 1 MLDNVLRIATRQSPLALWQAHYVKDKLMASH--PGLVVELVPMVTRGDVILDTPLAKVGG 58
Query: 61 KGLFTEEIEKKLISGEIDCAVHSAKDMPTKLLKGLQISAYLPREDIRDVFISHTAQSLKD 120
KGLF +E+E L+ D AVHS KD+P + +GL + RED RD F+S+ SL
Sbjct: 59 KGLFVKELEVALLENRADIAVHSMKDVPVEFPQGLGLVTICEREDPRDAFVSNNYDSLDA 118
Query: 121 LALHSVIGTSSLRRKALLLRWRSDISVIDFRGKIETRLNKLNNNKAHAILLAYAGIKRLK 180
L S++GTSSLRR+ L R D+ + RG + TRL+KL+N + AI+LA AG+KRL
Sbjct: 119 LPAGSIVGTSSLRRQCQLAERRPDLIIRSLRGNVGTRLSKLDNGEYDAIILAVAGLKRLG 178
Query: 181 KEKVIKEILNIEDFPPSPGQGAICIETHVNNPKAQELVKVINHEDTWDSVNCERAFLAEL 240
E I+ L E P+ GQGA+ IE +++ + +EL+ +NH +T V ERA L
Sbjct: 179 LESRIRAALPPEISLPAVGQGAVGIECRLDDSRTRELLAALNHHETALRVTAERAMNTRL 238
Query: 241 DGSCKSAIAGFAYCKGSTLYFYGIVLASDGKIFHEVSRNGNRCDAINIGRDAAQYIR 297
+G C+ I +A ++ +V A DG R G DA +G A+ +
Sbjct: 239 EGGCQVPIGSYAELIDGEIWLRALVGAPDGSQIIRGERRGAPQDAEQMGISLAEELL 295
>3ecr_A Porphobilinogen deaminase; heme biosynthesis, porphobilinogen
hinge, alternative splicing, cytoplasm, disease
mutation, porphyrin biosynthesis; HET: DPM; 2.18A {Homo
sapiens} PDB: 3eq1_A*
Length = 364
Score = 199 bits (507), Expect = 6e-52
Identities = 99/285 (34%), Positives = 144/285 (50%), Gaps = 6/285 (2%)
Query: 1 MEKKPFRIGTRCSPLALAHAFETRSSLMDVHKIPPHNIVIIPLSTKGDRITNRTLTEIGG 60
+ + R+GTR S LA ++L + P II +ST GD+I + L++IG
Sbjct: 19 PKMRVIRVGTRKSQLARIQTDSVVATLKASY--PGLQFEIIAMSTTGDKILDTALSKIGE 76
Query: 61 KGLFTEEIEKKLISGEIDCAVHSAKDMPTKLLKGLQISAYLPREDIRDVFISH---TAQS 117
K LFT+E+E L E+D VHS KD+PT L G I A RE+ D + H ++
Sbjct: 77 KSLFTKELEHALEKNEVDLVVHSLKDLPTVLPPGFTIGAICKRENPHDAVVFHPKFVGKT 136
Query: 118 LKDLALHSVIGTSSLRRKALLLRWRSDISVIDFRGKIETRLNKL-NNNKAHAILLAYAGI 176
L+ L SV+GTSSLRR A L R + RG + TRL KL + AI+LA AG+
Sbjct: 137 LETLPEKSVVGTSSLRRAAQLQRKFPHLEFRSIRGNLNTRLRKLDEQQEFSAIILATAGL 196
Query: 177 KRLKKEKVIKEILNIEDFPPSPGQGAICIETHVNNPKAQELVKVINHEDTWDSVNCERAF 236
+R+ + +IL+ E+ + GQGA+ +E + +LV V++ +T ERAF
Sbjct: 197 QRMGWHNRVGQILHPEECMYAVGQGALGVEVRAKDQDILDLVGVLHDPETLLRCIAERAF 256
Query: 237 LAELDGSCKSAIAGFAYCKGSTLYFYGIVLASDGKIFHEVSRNGN 281
L L+G C +A K LY G V + DG + +
Sbjct: 257 LRHLEGGCSVPVAVHTAMKDGQLYLTGGVWSLDGSDSIQETMQAT 301
>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 = 54.9 bits (132), Expect = 2e-08
Identities = 60/290 (20%), Positives = 85/290 (29%), Gaps = 124/290 (42%)
Query: 6 FRIGTRC---------SPLALAHAF---ETRSSLM---------DVHKI--------P-- 34
F IG RC P L + E S M V P
Sbjct: 304 FFIGVRCYEAYPNTSLPPSILEDSLENNEGVPSPMLSISNLTQEQVQDYVNKTNSHLPAG 363
Query: 35 ----------PHNIVII--PLSTKGDRITNRTLTEIG-GKGLFTEEI---EKKLISGEID 78
N+V+ P S G N TL + GL I E+KL +
Sbjct: 364 KQVEISLVNGAKNLVVSGPPQSLYG---LNLTLRKAKAPSGLDQSRIPFSERKL---KF- 416
Query: 79 CAVHSAKDMPTKLLKGLQISAYLPREDIRDVFISH-----TAQSLKDLALHSV-IGTSSL 132
+ L +++ P F SH + KDL ++V +
Sbjct: 417 --SNRF----------LPVAS--P-------FHSHLLVPASDLINKDLVKNNVSFNAKDI 455
Query: 133 RRKALLLRWRSDISVIDFRGKIETR----LNKLNNNKAHAILLAYAGIKRLKKEKVIKE- 187
+ I V D T L L+ + + I+ +K E +
Sbjct: 456 Q-----------IPVYD------TFDGSDLRVLSGSISERIVDCII-RLPVKWETTTQFK 497
Query: 188 ---ILNIEDFPP--SPGQGAICIETHVNNPKAQELVKVI-------NHED 225
IL DF P + G G + TH N K V+VI N +D
Sbjct: 498 ATHIL---DFGPGGASGLGVL---THRN--KDGTGVRVIVAGTLDINPDD 539
>1qwj_A Cytidine monophospho-N-acetylneuraminic acid synthetase;
CMP-5-N-acetylneuraminic acid synthetase, CMP-NEU5AC,
sialic acid, glycosylation; HET: NCC; 2.80A {Mus
musculus} SCOP: c.68.1.13
Length = 229
Score = 28.4 bits (62), Expect = 1.9
Identities = 8/45 (17%), Positives = 15/45 (33%)
Query: 34 PPHNIVIIPLSTKGDRITNRTLTEIGGKGLFTEEIEKKLISGEID 78
PPH ++ I + + + G L + L +G
Sbjct: 1 PPHLAALVLARGGSKGIPLKNIKRLAGVPLIGWVLRAALDAGVFQ 45
>1wpx_B Carboxypeptidase Y inhibitor; carboxypeptidase inhibitor, serine
proteinase inhibitor, proteinase-inhibitor complex; HET:
NAG NDG; 2.70A {Saccharomyces cerevisiae} SCOP: b.17.1.1
Length = 220
Score = 28.6 bits (63), Expect = 2.1
Identities = 10/31 (32%), Positives = 17/31 (54%)
Query: 167 HAILLAYAGIKRLKKEKVIKEILNIEDFPPS 197
AI A A I KK +++++++ F PS
Sbjct: 4 QAIDFAQASIDSYKKHGILEDVIHDTSFQPS 34
>1ezi_A CMP-N-acetylneuraminic acid synthetase; homodimer,
alpha-beta-alpha, transferase; 2.00A {Neisseria
meningitidis} SCOP: c.68.1.13 PDB: 1eyr_A
Length = 228
Score = 28.3 bits (62), Expect = 2.4
Identities = 10/52 (19%), Positives = 17/52 (32%)
Query: 37 NIVIIPLSTKGDRITNRTLTEIGGKGLFTEEIEKKLISGEIDCAVHSAKDMP 88
NI +I + + L ++ G L I + S D + S
Sbjct: 5 NIAVILARQNSKGLPLKNLRKMNGISLLGHTINAAISSKCFDRIIVSTDGGL 56
>1qzv_F Plant photosystem I: subunit PSAF; photosynthesis,plant
photosynthetic reaction center, peripheral antenna; HET:
CL1 PQN; 4.44A {Pisum sativum} SCOP: i.5.1.1
Length = 154
Score = 27.7 bits (60), Expect = 3.6
Identities = 10/28 (35%), Positives = 13/28 (46%), Gaps = 6/28 (21%)
Query: 92 LKGLQISAYLPREDIRDVFISHTAQSLK 119
LK LQ S L +D S A ++K
Sbjct: 22 LKKLQASLKLYADD------SAPALAIK 43
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
0.321 0.137 0.401
Gapped
Lambda K H
0.267 0.0489 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Sequences: 24244
Number of Hits to DB: 2,675,225
Number of extensions: 124504
Number of successful extensions: 334
Number of sequences better than 10.0: 1
Number of HSP's gapped: 329
Number of HSP's successfully gapped: 15
Length of query: 307
Length of database: 5,693,230
Length adjustment: 92
Effective length of query: 215
Effective length of database: 3,462,782
Effective search space: 744498130
Effective search space used: 744498130
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 (21.8 bits)
S2: 56 (25.9 bits)