BLASTP 2.2.1 [Apr-13-2001]
Reference:
Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schäffer,
Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997),
"Gapped BLAST and PSI-BLAST: a new generation of protein database search
programs", Nucleic Acids Res. 25:3389-3402.
Query= gi|15645916|ref|NP_208095.1| ribosomal protein L18
(rpl18) [Helicobacter pylori 26695]
(119 letters)
Database: /var/www/html/HP/blast_new/blast/db/pdbaa
13,198 sequences; 2,899,336 total letters
Searching...........................done
Score E
Sequences producing significant alignments: (bits) Value
pdb|1LNR|M Chain M, Crystal Structure Of The Large Ribosoma... 72 1e-14
pdb|1ILY|A Chain A, Solution Structure Of Ribosomal Protein... 66 9e-13
pdb|1GP4|A Chain A, Anthocyanidin Synthase From Arabidopsis... 29 0.12
pdb|1GP6|A Chain A, Anthocyanidin Synthase From Arabidopsis... 29 0.16
pdb|1AJ8|A Chain A, Citrate Synthase From Pyrococcus Furios... 27 0.80
pdb|1AUP| Glutamate Dehydrogenase 26 1.4
pdb|1K89| K89l Mutant Of Glutamate Dehydrogenase 26 1.4
pdb|1FUI|A Chain A, L-Fucose Isomerase From Escherichia Col... 26 1.4
pdb|1BGV|A Chain A, Glutamate Dehydrogenase >gi|1942184|pdb... 26 1.4
pdb|1KAS| Beta-Ketoacyl-Acp Synthase Ii From Escherichia ... 25 2.3
pdb|1STO| Orotate Phosphoribosyltransferase (Oprtase) (E.... 24 4.0
pdb|1LH0|A Chain A, Crystal Structure Of Salmonella Typhimu... 24 4.0
pdb|1ORO|A Chain A, A Flexible Loop At The Dimer Interface ... 24 4.0
pdb|1B72|B Chain B, Pbx1, Homeobox Protein Hox-B1DNA TERNAR... 23 8.8
>pdb|1LNR|M Chain M, Crystal Structure Of The Large Ribosomal Subunit From
Deinococcus Radiodurans
Length = 113
Score = 72.4 bits (176), Expect = 1e-14
Identities = 41/114 (35%), Positives = 62/114 (53%), Gaps = 3/114 (2%)
Query: 4 AKALYKKKALRDRRKLRIKSKLLGDALRPRVSVFRSNRYFYAQAIDDVKQSTITHIDGRK 63
A A ++ LR RRK+R + G R R+SV+RS+++ YAQ IDD + T+
Sbjct: 1 ATATTIRRKLRTRRKVRTTTAASG---RLRLSVYRSSKHIYAQIIDDSRGQTLAAASSAA 57
Query: 64 MGFKNTQEDAKKLGALFAEELKKAGIERAVYDRNGYLYHGVVAAFAESLRENGI 117
+ N + A +G A + GI++ V+DR Y YHG V A A++ RE G+
Sbjct: 58 LKSGNKTDTAAAVGKALAAAAAEKGIKQVVFDRGSYKYHGRVKALADAAREGGL 111
>pdb|1ILY|A Chain A, Solution Structure Of Ribosomal Protein L18 Of Thermus
Thermophilus
Length = 90
Score = 66.2 bits (160), Expect = 9e-13
Identities = 37/88 (42%), Positives = 50/88 (56%), Gaps = 1/88 (1%)
Query: 31 RPRVSVFRSNRYFYAQAIDDVKQSTITHIDGRKMGFK-NTQEDAKKLGALFAEELKKAGI 89
R R+SVFRS ++ YAQ IDD K T+ + K N E A+++G AE+ GI
Sbjct: 1 RLRLSVFRSLKHIYAQIIDDEKGVTLVSASSLALKLKGNKTEVARQVGRALAEKALALGI 60
Query: 90 ERAVYDRNGYLYHGVVAAFAESLRENGI 117
++ +DR Y YHG V A AE RE G+
Sbjct: 61 KQVAFDRGPYKYHGRVKALAEGAREGGL 88
>pdb|1GP4|A Chain A, Anthocyanidin Synthase From Arabidopsis Thaliana
(Selenomethionine Substituted)
Length = 356
Score = 29.3 bits (64), Expect = 0.12
Identities = 24/87 (27%), Positives = 40/87 (45%), Gaps = 10/87 (11%)
Query: 30 LRPRVSVFRSNRYFYAQAIDDVKQSTITHIDGRKMGFKNTQEDAKKLGALFAEELKKAGI 89
+RP+ + N F + +D Q + ID KN + D +K+ EELKKA +
Sbjct: 23 IRPKEELESINDVFLEEKKEDGPQ--VPTID-----LKNIESDDEKIRENCIEELKKASL 75
Query: 90 ERAVYDRNGYLYHGVVAAFAESLRENG 116
+ V + HG+ A E +++ G
Sbjct: 76 DWGVXH---LINHGIPADLXERVKKAG 99
>pdb|1GP6|A Chain A, Anthocyanidin Synthase From Arabidopsis Thaliana Complexed
With Trans-Dihydroquercetin (With 30 Min Exposure To O2)
pdb|1GP5|A Chain A, Anthocyanidin Synthase From Arabidopsis Thaliana Complexed
With Trans-Dihydroquercetin
Length = 356
Score = 28.9 bits (63), Expect = 0.16
Identities = 24/87 (27%), Positives = 40/87 (45%), Gaps = 10/87 (11%)
Query: 30 LRPRVSVFRSNRYFYAQAIDDVKQSTITHIDGRKMGFKNTQEDAKKLGALFAEELKKAGI 89
+RP+ + N F + +D Q + ID KN + D +K+ EELKKA +
Sbjct: 23 IRPKEELESINDVFLEEKKEDGPQ--VPTID-----LKNIESDDEKIRENCIEELKKASL 75
Query: 90 ERAVYDRNGYLYHGVVAAFAESLRENG 116
+ V + HG+ A E +++ G
Sbjct: 76 DWGVMH---LINHGIPADLMERVKKAG 99
>pdb|1AJ8|A Chain A, Citrate Synthase From Pyrococcus Furiosus
pdb|1AJ8|B Chain B, Citrate Synthase From Pyrococcus Furiosus
Length = 371
Score = 26.6 bits (57), Expect = 0.80
Identities = 25/94 (26%), Positives = 39/94 (40%), Gaps = 20/94 (21%)
Query: 11 KALRDRRKLRIKSKLLGDALRPRVSVFRSNRYFYAQAIDDVKQSTITHIDGRKMGFKNTQ 70
KAL+ +RK+ + PR +F+ YA K+G K
Sbjct: 244 KALQQKRKIMGAGHRVYKTYDPRARIFKK----YAS----------------KLGDKKLF 283
Query: 71 EDAKKLGALFAEELKKAGIERAVYDRNGYLYHGV 104
E A++L L E L K GI V +G +++G+
Sbjct: 284 EIAERLERLVEEYLSKKGISINVDYWSGLVFYGM 317
>pdb|1AUP| Glutamate Dehydrogenase
Length = 449
Score = 25.8 bits (55), Expect = 1.4
Identities = 20/73 (27%), Positives = 33/73 (44%), Gaps = 3/73 (4%)
Query: 27 GDALRPRVSVFRSNRYFYAQAIDDVKQSTITHIDGRKMGFKNTQEDA-KKLGALFAEELK 85
G +RP + + S +Y +A+ + T+ GF N A KKL L A+ +
Sbjct: 201 GSLVRPEATGYGS--VYYVEAVMKHENDTLVGKTVALAGFGNVAWGAAKKLAELGAKAVT 258
Query: 86 KAGIERAVYDRNG 98
+G + +YD G
Sbjct: 259 LSGPDGYIYDPEG 271
>pdb|1K89| K89l Mutant Of Glutamate Dehydrogenase
Length = 449
Score = 25.8 bits (55), Expect = 1.4
Identities = 20/73 (27%), Positives = 33/73 (44%), Gaps = 3/73 (4%)
Query: 27 GDALRPRVSVFRSNRYFYAQAIDDVKQSTITHIDGRKMGFKNTQEDA-KKLGALFAEELK 85
G +RP + + S +Y +A+ + T+ GF N A KKL L A+ +
Sbjct: 201 GSLVRPEATGYGS--VYYVEAVMKHENDTLVGKTVALAGFGNVAWGAAKKLAELGAKAVT 258
Query: 86 KAGIERAVYDRNG 98
+G + +YD G
Sbjct: 259 LSGPDGYIYDPEG 271
>pdb|1FUI|A Chain A, L-Fucose Isomerase From Escherichia Coli
pdb|1FUI|B Chain B, L-Fucose Isomerase From Escherichia Coli
pdb|1FUI|C Chain C, L-Fucose Isomerase From Escherichia Coli
pdb|1FUI|D Chain D, L-Fucose Isomerase From Escherichia Coli
pdb|1FUI|E Chain E, L-Fucose Isomerase From Escherichia Coli
pdb|1FUI|F Chain F, L-Fucose Isomerase From Escherichia Coli
Length = 591
Score = 25.8 bits (55), Expect = 1.4
Identities = 14/34 (41%), Positives = 20/34 (58%), Gaps = 5/34 (14%)
Query: 59 IDGRKMGFKNTQED-----AKKLGALFAEELKKA 87
IDGR+MG + + E+ AK AL E+L+ A
Sbjct: 15 IDGRRMGVRESLEEQTMNMAKATAALLTEKLRHA 48
>pdb|1BGV|A Chain A, Glutamate Dehydrogenase
pdb|1HRD|A Chain A, Glutamate Dehydrogenase
pdb|1HRD|B Chain B, Glutamate Dehydrogenase
pdb|1HRD|C Chain C, Glutamate Dehydrogenase
Length = 449
Score = 25.8 bits (55), Expect = 1.4
Identities = 20/73 (27%), Positives = 33/73 (44%), Gaps = 3/73 (4%)
Query: 27 GDALRPRVSVFRSNRYFYAQAIDDVKQSTITHIDGRKMGFKNTQEDA-KKLGALFAEELK 85
G +RP + + S +Y +A+ + T+ GF N A KKL L A+ +
Sbjct: 201 GSLVRPEATGYGS--VYYVEAVMKHENDTLVGKTVALAGFGNVAWGAAKKLAELGAKAVT 258
Query: 86 KAGIERAVYDRNG 98
+G + +YD G
Sbjct: 259 LSGPDGYIYDPEG 271
>pdb|1KAS| Beta-Ketoacyl-Acp Synthase Ii From Escherichia Coli
pdb|1B3N|A Chain A, Beta-Ketoacyl Carrier Protein Synthase As A Drug Target,
Implications From The Crystal Structure Of A Complex
With The Inhibitor Cerulenin
Length = 412
Score = 25.0 bits (53), Expect = 2.3
Identities = 21/60 (35%), Positives = 25/60 (41%), Gaps = 2/60 (3%)
Query: 60 DGRKMGFKNTQEDAKKLGALFAEELKKAGIERAVYDRNGYLYHGVVA--AFAESLRENGI 117
DG M E AKK GA EL G+ Y +G A A A +LR+ GI
Sbjct: 233 DGAGMLVLEEYEHAKKRGAKIYAELVGFGMSSDAYHMTSPPENGAGAALAMANALRDAGI 292
>pdb|1STO| Orotate Phosphoribosyltransferase (Oprtase) (E.C.2.4.2.10)
Length = 213
Score = 24.3 bits (51), Expect = 4.0
Identities = 12/26 (46%), Positives = 14/26 (53%)
Query: 65 GFKNTQEDAKKLGALFAEELKKAGIE 90
G NT D LG +AE L +GIE
Sbjct: 38 GLFNTGRDLALLGRFYAEALVDSGIE 63
>pdb|1LH0|A Chain A, Crystal Structure Of Salmonella Typhimurium Omp Synthase
In Complex With Mgprpp And Orotate
pdb|1LH0|B Chain B, Crystal Structure Of Salmonella Typhimurium Omp Synthase
In Complex With Mgprpp And Orotate
pdb|1OPR| Mol_id: 1; Molecule: Orotate Phosphoribosyltransferase; Chain:
Null; Synonym: Oprtase; Ec: 2.4.2.10; Engineered: Yes
Length = 213
Score = 24.3 bits (51), Expect = 4.0
Identities = 12/26 (46%), Positives = 14/26 (53%)
Query: 65 GFKNTQEDAKKLGALFAEELKKAGIE 90
G NT D LG +AE L +GIE
Sbjct: 38 GLFNTGRDLALLGRFYAEALVDSGIE 63
>pdb|1ORO|A Chain A, A Flexible Loop At The Dimer Interface Is A Part Of The
Active Site Of The Adjacent Monomer Of Escherichia Coli
Orotate Phosphoribosyltransferase
pdb|1ORO|B Chain B, A Flexible Loop At The Dimer Interface Is A Part Of The
Active Site Of The Adjacent Monomer Of Escherichia Coli
Orotate Phosphoribosyltransferase
Length = 213
Score = 24.3 bits (51), Expect = 4.0
Identities = 12/26 (46%), Positives = 14/26 (53%)
Query: 65 GFKNTQEDAKKLGALFAEELKKAGIE 90
G NT D LG +AE L +GIE
Sbjct: 38 GLFNTGRDLALLGRFYAEALVDSGIE 63
>pdb|1B72|B Chain B, Pbx1, Homeobox Protein Hox-B1DNA TERNARY COMPLEX
Length = 87
Score = 23.1 bits (48), Expect = 8.8
Identities = 15/60 (25%), Positives = 26/60 (43%)
Query: 38 RSNRYFYAQAIDDVKQSTITHIDGRKMGFKNTQEDAKKLGALFAEELKKAGIERAVYDRN 97
R R F QA + + + +H+ + +E AKK G ++ G +R Y +N
Sbjct: 3 RKRRNFNKQATEILNEYFYSHLSNPYPSEEAKEELAKKCGITVSQVSNWFGNKRIRYKKN 62
Database: /var/www/html/HP/blast_new/blast/db/pdbaa
Posted date: Dec 20, 2002 11:08 AM
Number of letters in database: 2,899,336
Number of sequences in database: 13,198
Lambda K H
0.321 0.136 0.373
Gapped
Lambda K H
0.267 0.0410 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Hits to DB: 614,273
Number of Sequences: 13198
Number of extensions: 22602
Number of successful extensions: 62
Number of sequences better than 10.0: 14
Number of HSP's better than 10.0 without gapping: 9
Number of HSP's successfully gapped in prelim test: 5
Number of HSP's that attempted gapping in prelim test: 52
Number of HSP's gapped (non-prelim): 14
length of query: 119
length of database: 2,899,336
effective HSP length: 77
effective length of query: 42
effective length of database: 1,883,090
effective search space: 79089780
effective search space used: 79089780
T: 11
A: 40
X1: 16 ( 7.4 bits)
X2: 38 (14.6 bits)
X3: 64 (24.7 bits)
S1: 41 (21.9 bits)
S2: 48 (23.1 bits)