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|15645222|ref|NP_207392.1| penicillin-binding protein
1A (PBP-1A) [Helicobacter pylori 26695]
(659 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|3FRU|A Chain A, Neonatal Fc Receptor, Ph 6.5 >gi|331904... 33 0.10
pdb|1K25|B Chain B, Pbp2x From A Highly Penicillin-Resistan... 32 0.22
pdb|1T7P|A Chain A, T7 Dna Polymerase Complexed To Dna Prim... 30 0.85
pdb|1JLJ|A Chain A, 1.6 Angstrom Crystal Structure Of The H... 28 4.2
pdb|1IHC|A Chain A, X-Ray Structure Of Gephyrin N-Terminal ... 28 4.2
pdb|1ZRN| Intermediate Structure Of L-2-Haloacid Dehaloge... 27 7.2
pdb|1JUD| L-2-Haloacid Dehalogenase >gi|8569435|pdb|1QH9|... 27 7.2
pdb|1FIY| Three-Dimensional Structure Of Phosphoenolpyruv... 27 9.4
>pdb|3FRU|A Chain A, Neonatal Fc Receptor, Ph 6.5
pdb|3FRU|C Chain C, Neonatal Fc Receptor, Ph 6.5
pdb|3FRU|E Chain E, Neonatal Fc Receptor, Ph 6.5
pdb|1FRT|A Chain A, Fc Receptor (Neonatal) Complexed With Fc (Igg) (FcFCRN
Complex)
pdb|1I1A|A Chain A, Crystal Structure Of The Neonatal Fc Receptor Complexed
With A Heterodimeric Fc
Length = 269
Score = 33.1 bits (74), Expect = 0.10
Identities = 27/89 (30%), Positives = 40/89 (44%), Gaps = 3/89 (3%)
Query: 465 DLSIVLGSFAISPIDAAEKYSLFSNYGTMLKPMLIESITNQQNDVKTFTPMETKKITSKE 524
DLS L SF + A++Y ++N P +N V + ET + SKE
Sbjct: 16 DLSTGLPSFWATGWLGAQQYLTYNNLRQEADPC---GAWIWENQVSWYWEKETTDLKSKE 72
Query: 525 QAFLTLSVLMDAVENGTGSLARIKGLEIA 553
Q FL ++ NGT +L + G E+A
Sbjct: 73 QLFLEAIRTLENQINGTFTLQGLLGCELA 101
>pdb|1K25|B Chain B, Pbp2x From A Highly Penicillin-Resistant Streptococcus
Pneumoniae Clinical Isolate
pdb|1K25|D Chain D, Pbp2x From A Highly Penicillin-Resistant Streptococcus
Pneumoniae Clinical Isolate
pdb|1K25|A Chain A, Pbp2x From A Highly Penicillin-Resistant Streptococcus
Pneumoniae Clinical Isolate
pdb|1K25|C Chain C, Pbp2x From A Highly Penicillin-Resistant Streptococcus
Pneumoniae Clinical Isolate
Length = 685
Score = 32.0 bits (71), Expect = 0.22
Identities = 65/297 (21%), Positives = 118/297 (38%), Gaps = 54/297 (18%)
Query: 334 VTDTSTGKILALVGGIDYKKSAFNRATQAKRQFGSAIKPFVYQIAFDNGYSTTSKIPDTA 393
+ TG+ILA ++ FN T+ + +YQ ++ G + K+ A
Sbjct: 228 LVSAKTGEILATT-----QRPTFNADTKEGITEDFVWRDILYQSNYEPG--SAMKVMTLA 280
Query: 394 RNFEN-----GNYSKNSEQNHA------WHPSNYSRKFLGLVTLQEALSHSLNLATINLS 442
+ +N G Y +SE A W N G++T + +HS N+ L
Sbjct: 281 SSIDNNTFPSGEYFNSSELKIADATTRDWDV-NEGLTTGGMMTFLQGFAHSSNVGMSLLE 339
Query: 443 DQLG------FEKIYQ-------SLSDMGFKNLPKD--LSIVLGSF----AISPIDAAEK 483
++G + K ++ L+D LP D +SI SF +++
Sbjct: 340 QKMGDATWLDYLKRFKFGVPTRFGLTDEYAGQLPADNIVSIAQSSFGQGISVTQTQMLRA 399
Query: 484 YSLFSNYGTMLKPMLIESI--TNQQNDVKTFTPMETKKITSKEQAFLTLSVLM------- 534
++ +N G ML+P I +I TN Q+ K+ + + SKE A T + ++
Sbjct: 400 FTAIANDGVMLEPKFISAIYDTNNQSVRKSQKEIVGNPV-SKEAASTTRNHMILVGTDPL 458
Query: 535 --DAVENGTGS-LARIKGLEIAGKTGT---SNNNIDAWFIGFTPTLQSVIWFGRDDN 585
+ TG + + G +A K+GT ++ + +G T + S + +N
Sbjct: 459 YGTMYNHYTGKPIITVPGQNVAVKSGTAQIADEKNGGYLVGSTNYIFSAVTMNPAEN 515
>pdb|1T7P|A Chain A, T7 Dna Polymerase Complexed To Dna PrimerTEMPLATE,A
Nucleoside Triphosphate, And Its Processivity Factor
Thioredoxin
Length = 698
Score = 30.0 bits (66), Expect = 0.85
Identities = 36/132 (27%), Positives = 56/132 (42%), Gaps = 30/132 (22%)
Query: 173 YYGVKTASLG-YFKKPLDKLTLK-----EITMLVALPRAPSFYDPTKNLEFSLSRANDIL 226
Y +KT +G FKKP +K + E+ + AP Y P +++ F+ S + I
Sbjct: 280 YPRIKTPKVGGIFKKPKNKAQREGREPCELDTREYVAGAP--YTPVEHVVFNPSSRDHIQ 337
Query: 227 RRLYSLGWISSNELKGALNEVPIVYNQTSTQNIAPYVVDEVLKQLDQLDGLKTQGYTIKL 286
++L GW VP Y T AP V DEV L+G++ +
Sbjct: 338 KKLQEAGW------------VPTKY----TDKGAPVVDDEV------LEGVRVDDPEKQA 375
Query: 287 TIDLDYQRLALE 298
IDL + L ++
Sbjct: 376 AIDLIKEYLMIQ 387
>pdb|1JLJ|A Chain A, 1.6 Angstrom Crystal Structure Of The Human Neuroreceptor
Anchoring And Molybdenum Cofactor Biosynthesis Protein
Gephyrin
pdb|1JLJ|B Chain B, 1.6 Angstrom Crystal Structure Of The Human Neuroreceptor
Anchoring And Molybdenum Cofactor Biosynthesis Protein
Gephyrin
pdb|1JLJ|C Chain C, 1.6 Angstrom Crystal Structure Of The Human Neuroreceptor
Anchoring And Molybdenum Cofactor Biosynthesis Protein
Gephyrin
Length = 189
Score = 27.7 bits (60), Expect = 4.2
Identities = 23/109 (21%), Positives = 50/109 (45%), Gaps = 4/109 (3%)
Query: 432 HSLNLATINLSDQLGFEKIYQSLSDMGFKNLPKDLSIVLGS---FAISPIDAAEKYSLFS 488
H + + + +SD F + + S + K+L +D S++ G+ + I P + E
Sbjct: 13 HQIRVGVLTVSDSC-FRNLAEDRSGINLKDLVQDPSLLGGTISAYKIVPDEIEEIKETLI 71
Query: 489 NYGTMLKPMLIESITNQQNDVKTFTPMETKKITSKEQAFLTLSVLMDAV 537
++ + LI + + TP TK++ +E + L++LM ++
Sbjct: 72 DWCDEKELNLILTTGGTGFAPRDVTPEATKEVIEREAPGMALAMLMGSL 120
>pdb|1IHC|A Chain A, X-Ray Structure Of Gephyrin N-Terminal Domain
Length = 188
Score = 27.7 bits (60), Expect = 4.2
Identities = 23/109 (21%), Positives = 50/109 (45%), Gaps = 4/109 (3%)
Query: 432 HSLNLATINLSDQLGFEKIYQSLSDMGFKNLPKDLSIVLGS---FAISPIDAAEKYSLFS 488
H + + + +SD F + + S + K+L +D S++ G+ + I P + E
Sbjct: 13 HQIRVGVLTVSDSC-FRNLAEDRSGINLKDLVQDPSLLGGTISAYKIVPDEIEEIKETLI 71
Query: 489 NYGTMLKPMLIESITNQQNDVKTFTPMETKKITSKEQAFLTLSVLMDAV 537
++ + LI + + TP TK++ +E + L++LM ++
Sbjct: 72 DWCDEKELNLILTTGGTGFAPRDVTPEATKEVIEREAPGMALAMLMGSL 120
>pdb|1ZRN| Intermediate Structure Of L-2-Haloacid Dehalogenase With
Monochloroacetate
pdb|1ZRM| Crystal Structure Of The Reaction Intermediate Of L-2-Haloacid
Dehalogenase With 2-Chloro-N-Butyrate
Length = 232
Score = 26.9 bits (58), Expect = 7.2
Identities = 18/68 (26%), Positives = 33/68 (48%), Gaps = 2/68 (2%)
Query: 44 GVASQILDRKGRLIANIYDKEFRFYARFEEIPPRFIESLLAVEDTLFF--EHGGINLDAI 101
G + +GR I+ ++ ++ Y + R++ A ED L F H G++LDA
Sbjct: 23 GRCDEAFPGRGREISALWRQKQLEYTWLRSLMNRYVNFQQATEDALRFTCRHLGLDLDAR 82
Query: 102 MRAMIKNA 109
R+ + +A
Sbjct: 83 TRSTLCDA 90
>pdb|1JUD| L-2-Haloacid Dehalogenase
pdb|1QH9|A Chain A, Enzyme-Product Complex Of L-2-Haloacid Dehalogenase
Length = 232
Score = 26.9 bits (58), Expect = 7.2
Identities = 18/68 (26%), Positives = 33/68 (48%), Gaps = 2/68 (2%)
Query: 44 GVASQILDRKGRLIANIYDKEFRFYARFEEIPPRFIESLLAVEDTLFF--EHGGINLDAI 101
G + +GR I+ ++ ++ Y + R++ A ED L F H G++LDA
Sbjct: 23 GRCDEAFPGRGREISALWRQKQLEYTWLRSLMNRYVNFQQATEDALRFTCRHLGLDLDAR 82
Query: 102 MRAMIKNA 109
R+ + +A
Sbjct: 83 TRSTLCDA 90
>pdb|1FIY| Three-Dimensional Structure Of Phosphoenolpyruvate Carboxylase
From Escherichia Coli At 2.8 A Resolution
pdb|1QB4|A Chain A, Crystal Structure Of Mn(2+)-Bound Phosphoenolpyruvate
Carboxylase
Length = 883
Score = 26.6 bits (57), Expect = 9.4
Identities = 16/44 (36%), Positives = 26/44 (58%), Gaps = 5/44 (11%)
Query: 191 LTLKEITMLVALPRAPSFYDPTKNLEFSLSRANDILRRLYSLGW 234
L LKE + A+P AP F + L+ L+ AND++ +L ++ W
Sbjct: 488 LLLKEAGIGFAMPVAPLF----ETLD-DLNNANDVMTQLLNIDW 526
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
0.318 0.136 0.380
Gapped
Lambda K H
0.267 0.0410 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Hits to DB: 3,701,720
Number of Sequences: 13198
Number of extensions: 152908
Number of successful extensions: 331
Number of sequences better than 10.0: 8
Number of HSP's better than 10.0 without gapping: 1
Number of HSP's successfully gapped in prelim test: 7
Number of HSP's that attempted gapping in prelim test: 330
Number of HSP's gapped (non-prelim): 8
length of query: 659
length of database: 2,899,336
effective HSP length: 94
effective length of query: 565
effective length of database: 1,658,724
effective search space: 937179060
effective search space used: 937179060
T: 11
A: 40
X1: 16 ( 7.3 bits)
X2: 38 (14.6 bits)
X3: 64 (24.7 bits)
S1: 41 (21.7 bits)
S2: 57 (26.6 bits)