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|15645924|ref|NP_208103.1| ribosomal protein L29
(rpL29) [Helicobacter pylori 26695]
(66 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|W Chain W, Crystal Structure Of The Large Ribosoma... 43 6e-06
pdb|1DEQ|C Chain C, The Crystal Structure Of Modified Bovin... 31 0.030
pdb|1K8A|W Chain W, Co-Crystal Structure Of Carbomycin A Bo... 30 0.067
pdb|1L1O|C Chain C, Structure Of The Human Replication Prot... 25 1.3
pdb|2OTC|A Chain A, Ornithine Transcarbamoylase Complexed W... 25 1.6
pdb|1DUV|H Chain H, Crystal Structure Of E. Coli Ornithine ... 25 1.6
pdb|1BWD|A Chain A, Inosamine-Phosphate Amidinotransferase ... 25 1.6
pdb|1DGK|N Chain N, Mutant Monomer Of Recombinant Human Hex... 24 2.8
pdb|1QHA|A Chain A, Human Hexokinase Type I Complexed With ... 24 2.8
pdb|1HKB|A Chain A, Crystal Structure Of Recombinant Human ... 24 2.8
pdb|1CZA|N Chain N, Mutant Monomer Of Recombinant Human Hex... 24 2.8
pdb|1BG3|A Chain A, Rat Brain Hexokinase Type I Complex Wit... 24 2.8
pdb|1DN1|B Chain B, Crystal Structure Of The Neuronal-Sec1S... 24 3.7
pdb|1BR0|A Chain A, Three Dimensional Structure Of The N-Te... 24 3.7
pdb|1EZ3|A Chain A, Crystal Structure Of The Neuronal T-Sna... 24 3.7
pdb|1QQ3|A Chain A, The Solution Structure Of The Heme Bind... 23 6.3
pdb|1LM3|B Chain B, A Multi-Generation Analysis Of Cytochro... 23 8.2
pdb|1QLA|A Chain A, Respiratory Complex Ii-Like Fumarate Re... 23 8.2
>pdb|1LNR|W Chain W, Crystal Structure Of The Large Ribosomal Subunit From
Deinococcus Radiodurans
Length = 67
Score = 43.1 bits (100), Expect = 6e-06
Identities = 19/55 (34%), Positives = 36/55 (64%)
Query: 1 MKYTELKDKSIKELEELLHAKKAELFELRVKLKAMQLSNPNEIKKARRNIARINT 55
MK +E+++ + + + A+K EL ELR + A QL+ P+ +++ RR +A++NT
Sbjct: 1 MKPSEMRNLQATDFAKEIDARKKELMELRFQAAAGQLAQPHRVRQLRREVAQLNT 55
>pdb|1DEQ|C Chain C, The Crystal Structure Of Modified Bovine Fibrinogen (At ~4
Angstrom Resolution)
pdb|1DEQ|F Chain F, The Crystal Structure Of Modified Bovine Fibrinogen (At ~4
Angstrom Resolution)
pdb|1DEQ|P Chain P, The Crystal Structure Of Modified Bovine Fibrinogen (At ~4
Angstrom Resolution)
pdb|1DEQ|S Chain S, The Crystal Structure Of Modified Bovine Fibrinogen (At ~4
Angstrom Resolution)
Length = 411
Score = 30.8 bits (68), Expect = 0.030
Identities = 22/75 (29%), Positives = 36/75 (47%), Gaps = 14/75 (18%)
Query: 3 YTELKDKSIKELEELLHAKKAELFELRVKLKAMQL-------SNPNEIKKARRN------ 49
Y DK ++ LE +L+ + + E R +KA+Q+ S PN I+ A +N
Sbjct: 32 YQTSVDKDLRTLEGILYQVENKTSEARELVKAIQISYNPDQPSKPNNIESATKNSKSMME 91
Query: 50 -IARINTAINAHYSS 63
I + T I+ H S+
Sbjct: 92 EIMKYETLISTHEST 106
>pdb|1K8A|W Chain W, Co-Crystal Structure Of Carbomycin A Bound To The 50s
Ribosomal Subunit Of Haloarcula Marismortui
pdb|1K9M|W Chain W, Co-Crystal Structure Of Tylosin Bound To The 50s
Ribosomal Subunit Of Haloarcula Marismortui
pdb|1KD1|W Chain W, Co-Crystal Structure Of Spiramycin Bound To The 50s
Ribosomal Subunit Of Haloarcula Marismortui
pdb|1M1K|W Chain W, Co-Crystal Structure Of Azithromycin Bound To The 50s
Ribosomal Subunit Of Haloarcula Marismortui
pdb|1M90|W Chain W, Co-Crystal Structure Of Cca-Phe-Caproic Acid-Biotin And
Sparsomycin Bound To The 50s Ribosomal Subunit
pdb|1JJ2|U Chain U, Fully Refined Crystal Structure Of The Haloarcula
Marismortui Large Ribosomal Subunit At 2.4 Angstrom
Resolution
pdb|1KQS|U Chain U, The Haloarcula Marismortui 50s Complexed With A
Pretranslocational Intermediate In Protein Synthesis
pdb|1FFK|S Chain S, Crystal Structure Of The Large Ribosomal Subunit From
Haloarcula Marismortui At 2.4 Angstrom Resolution
pdb|1GIY|W Chain W, Crystal Structure Of The Ribosome At 5.5 A Resolution.
This File, 1giy, Contains The 50s Ribosome Subunit. The
30s Ribosome Subunit, Three Trna, And Mrna Molecules
Are In The File 1gix
Length = 70
Score = 29.6 bits (65), Expect = 0.067
Identities = 20/52 (38%), Positives = 26/52 (49%), Gaps = 1/52 (1%)
Query: 5 ELKDKSIKELEELLHAKKAELFELR-VKLKAMQLSNPNEIKKARRNIARINT 55
E++D + E E L K EL R V+ NP IK+ R+ IARI T
Sbjct: 7 EIRDMTPAEREAELDDLKTELLNARAVQAAGGAPENPGRIKELRKAIARIKT 58
>pdb|1L1O|C Chain C, Structure Of The Human Replication Protein A (Rpa)
Trimerization Core
pdb|1L1O|F Chain F, Structure Of The Human Replication Protein A (Rpa)
Trimerization Core
Length = 181
Score = 25.4 bits (54), Expect = 1.3
Identities = 13/40 (32%), Positives = 21/40 (52%)
Query: 5 ELKDKSIKELEELLHAKKAELFELRVKLKAMQLSNPNEIK 44
ELKDK+ + EE+ F RV++K ++ + IK
Sbjct: 114 ELKDKNEQAFEEVFQNANFRSFIFRVRVKVETYNDESRIK 153
>pdb|2OTC|A Chain A, Ornithine Transcarbamoylase Complexed With
N-(Phosphonacetyl)-L-Ornithine
pdb|2OTC|B Chain B, Ornithine Transcarbamoylase Complexed With
N-(Phosphonacetyl)-L-Ornithine
pdb|2OTC|C Chain C, Ornithine Transcarbamoylase Complexed With
N-(Phosphonacetyl)-L-Ornithine
pdb|2OTC|D Chain D, Ornithine Transcarbamoylase Complexed With
N-(Phosphonacetyl)-L-Ornithine
pdb|2OTC|E Chain E, Ornithine Transcarbamoylase Complexed With
N-(Phosphonacetyl)-L-Ornithine
pdb|2OTC|F Chain F, Ornithine Transcarbamoylase Complexed With
N-(Phosphonacetyl)-L-Ornithine
pdb|2OTC|G Chain G, Ornithine Transcarbamoylase Complexed With
N-(Phosphonacetyl)-L-Ornithine
pdb|2OTC|H Chain H, Ornithine Transcarbamoylase Complexed With
N-(Phosphonacetyl)-L-Ornithine
pdb|2OTC|I Chain I, Ornithine Transcarbamoylase Complexed With
N-(Phosphonacetyl)-L-Ornithine
Length = 333
Score = 25.0 bits (53), Expect = 1.6
Identities = 16/45 (35%), Positives = 22/45 (48%)
Query: 9 KSIKELEELLHAKKAELFELRVKLKAMQLSNPNEIKKARRNIARI 53
K +L + A+ L +L KLKA + S E K +NIA I
Sbjct: 6 KHFLKLLDFTPAELNSLLQLAAKLKADKKSGKEEAKLTGKNIALI 50
>pdb|1DUV|H Chain H, Crystal Structure Of E. Coli Ornithine Transcarbamoylase
Complexed With Ndelta-L-Ornithine-Diaminophosphinyl-N-
Sulphonic Acid (Psorn)
pdb|1DUV|I Chain I, Crystal Structure Of E. Coli Ornithine Transcarbamoylase
Complexed With Ndelta-L-Ornithine-Diaminophosphinyl-N-
Sulphonic Acid (Psorn)
pdb|1AKM|A Chain A, Ornithine Transcarbamylase From Escherichia Coli
pdb|1AKM|B Chain B, Ornithine Transcarbamylase From Escherichia Coli
pdb|1AKM|C Chain C, Ornithine Transcarbamylase From Escherichia Coli
pdb|1DUV|G Chain G, Crystal Structure Of E. Coli Ornithine Transcarbamoylase
Complexed With Ndelta-L-Ornithine-Diaminophosphinyl-N-
Sulphonic Acid (Psorn)
Length = 333
Score = 25.0 bits (53), Expect = 1.6
Identities = 16/45 (35%), Positives = 22/45 (48%)
Query: 9 KSIKELEELLHAKKAELFELRVKLKAMQLSNPNEIKKARRNIARI 53
K +L + A+ L +L KLKA + S E K +NIA I
Sbjct: 6 KHFLKLLDFTPAELNSLLQLAAKLKADKKSGKEEAKLTGKNIALI 50
>pdb|1BWD|A Chain A, Inosamine-Phosphate Amidinotransferase Strb1 From
Streptomyces Griseus
pdb|1BWD|B Chain B, Inosamine-Phosphate Amidinotransferase Strb1 From
Streptomyces Griseus
Length = 348
Score = 25.0 bits (53), Expect = 1.6
Identities = 12/26 (46%), Positives = 17/26 (65%)
Query: 8 DKSIKELEELLHAKKAELFELRVKLK 33
D+ +KE EE LH AEL +L V ++
Sbjct: 55 DRVLKETEEELHVLAAELTKLGVTVR 80
>pdb|1DGK|N Chain N, Mutant Monomer Of Recombinant Human Hexokinase Type I
With Glucose And Adp In The Active Site
Length = 917
Score = 24.3 bits (51), Expect = 2.8
Identities = 8/20 (40%), Positives = 16/20 (80%)
Query: 3 YTELKDKSIKELEELLHAKK 22
+TELKD +K++++ L+A +
Sbjct: 11 FTELKDDQVKKIDKYLYAMR 30
>pdb|1QHA|A Chain A, Human Hexokinase Type I Complexed With Atp Analogue
Amp-Pnp
pdb|1QHA|B Chain B, Human Hexokinase Type I Complexed With Atp Analogue
Amp-Pnp
pdb|1HKC|A Chain A, Recombinant Human Hexokinase Type I Complexed With
Glucose And Phosphate
Length = 917
Score = 24.3 bits (51), Expect = 2.8
Identities = 8/20 (40%), Positives = 16/20 (80%)
Query: 3 YTELKDKSIKELEELLHAKK 22
+TELKD +K++++ L+A +
Sbjct: 11 FTELKDDQVKKIDKYLYAMR 30
>pdb|1HKB|A Chain A, Crystal Structure Of Recombinant Human Brain Hexokinase
Type I Complexed With Glucose And Glucose-6-Phosphate
pdb|1HKB|B Chain B, Crystal Structure Of Recombinant Human Brain Hexokinase
Type I Complexed With Glucose And Glucose-6-Phosphate
Length = 917
Score = 24.3 bits (51), Expect = 2.8
Identities = 8/20 (40%), Positives = 16/20 (80%)
Query: 3 YTELKDKSIKELEELLHAKK 22
+TELKD +K++++ L+A +
Sbjct: 11 FTELKDDQVKKIDKYLYAMR 30
>pdb|1CZA|N Chain N, Mutant Monomer Of Recombinant Human Hexokinase Type I
Complexed With Glucose, Glucose-6-Phosphate, And Adp
Length = 917
Score = 24.3 bits (51), Expect = 2.8
Identities = 8/20 (40%), Positives = 16/20 (80%)
Query: 3 YTELKDKSIKELEELLHAKK 22
+TELKD +K++++ L+A +
Sbjct: 11 FTELKDDQVKKIDKYLYAMR 30
>pdb|1BG3|A Chain A, Rat Brain Hexokinase Type I Complex With Glucose And
Inhibitor Glucose-6-Phosphate
pdb|1BG3|B Chain B, Rat Brain Hexokinase Type I Complex With Glucose And
Inhibitor Glucose-6-Phosphate
Length = 919
Score = 24.3 bits (51), Expect = 2.8
Identities = 8/20 (40%), Positives = 16/20 (80%)
Query: 3 YTELKDKSIKELEELLHAKK 22
+TELKD +K++++ L+A +
Sbjct: 11 FTELKDDQVKKIDKYLYAMR 30
>pdb|1DN1|B Chain B, Crystal Structure Of The Neuronal-Sec1SYNTAXIN 1A COMPLEX
Length = 267
Score = 23.9 bits (50), Expect = 3.7
Identities = 13/35 (37%), Positives = 22/35 (62%)
Query: 8 DKSIKELEELLHAKKAELFELRVKLKAMQLSNPNE 42
+K+ +ELEEL+ K ++R KLK+++ S E
Sbjct: 69 EKTKEELEELMSDIKKTANKVRSKLKSIEQSIEQE 103
>pdb|1BR0|A Chain A, Three Dimensional Structure Of The N-Terminal Domain Of
Syntaxin 1a
Length = 120
Score = 23.9 bits (50), Expect = 3.7
Identities = 13/35 (37%), Positives = 22/35 (62%)
Query: 8 DKSIKELEELLHAKKAELFELRVKLKAMQLSNPNE 42
+K+ +ELEEL+ K ++R KLK+++ S E
Sbjct: 43 EKTKEELEELMSDIKKTANKVRSKLKSIEQSIEQE 77
>pdb|1EZ3|A Chain A, Crystal Structure Of The Neuronal T-Snare Syntaxin-1a
pdb|1EZ3|B Chain B, Crystal Structure Of The Neuronal T-Snare Syntaxin-1a
pdb|1EZ3|C Chain C, Crystal Structure Of The Neuronal T-Snare Syntaxin-1a
Length = 127
Score = 23.9 bits (50), Expect = 3.7
Identities = 13/35 (37%), Positives = 22/35 (62%)
Query: 8 DKSIKELEELLHAKKAELFELRVKLKAMQLSNPNE 42
+K+ +ELEEL+ K ++R KLK+++ S E
Sbjct: 46 EKTKEELEELMSDIKKTANKVRSKLKSIEQSIEQE 80
>pdb|1QQ3|A Chain A, The Solution Structure Of The Heme Binding Variant
Arg98cys Of Oxidized Escherichia Coli Cytochrome B562
Length = 106
Score = 23.1 bits (48), Expect = 6.3
Identities = 8/28 (28%), Positives = 19/28 (67%)
Query: 34 AMQLSNPNEIKKARRNIARINTAINAHY 61
A++L+N ++K+A+ ++ T NA++
Sbjct: 75 ALKLANEGKVKEAQAAAEQLKTTCNAYH 102
>pdb|1LM3|B Chain B, A Multi-Generation Analysis Of Cytochrome B562 Redox
Variants: Evolutionary Strategies For Modulating Redox
Potential Revealed Using A Library Approach
pdb|1LM3|D Chain D, A Multi-Generation Analysis Of Cytochrome B562 Redox
Variants: Evolutionary Strategies For Modulating Redox
Potential Revealed Using A Library Approach
Length = 106
Score = 22.7 bits (47), Expect = 8.2
Identities = 14/59 (23%), Positives = 34/59 (56%), Gaps = 5/59 (8%)
Query: 5 ELKDKS--IKELEELLHAKKAELFELRVKLKAMQLSNPNEIKKARRNIARINTAINAHY 61
+L+DKS E++++ H + ++ A++L+N ++K+A+ ++ T NA++
Sbjct: 47 KLEDKSPDSPEMKDIRHGYDILVGQID---DALKLANEGKVKEAQAAAEQLKTTRNAYH 102
>pdb|1QLA|A Chain A, Respiratory Complex Ii-Like Fumarate Reductase From
Wolinella Succinogenes
pdb|1QLA|D Chain D, Respiratory Complex Ii-Like Fumarate Reductase From
Wolinella Succinogenes
pdb|1QLB|A Chain A, Respiratory Complex Ii-Like Fumarate Reductase From
Wolinella Succinogenes
pdb|1QLB|D Chain D, Respiratory Complex Ii-Like Fumarate Reductase From
Wolinella Succinogenes
Length = 656
Score = 22.7 bits (47), Expect = 8.2
Identities = 15/41 (36%), Positives = 22/41 (53%), Gaps = 6/41 (14%)
Query: 8 DKSIKELEELLHAKKAELFELRVKLKAMQLSNPNEIKKARR 48
+KS+KELEEL K V +K +L E+++A R
Sbjct: 488 EKSVKELEELYKKSK------NVGIKNKRLHANPELEEAYR 522
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
0.311 0.126 0.315
Gapped
Lambda K H
0.267 0.0410 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Hits to DB: 287,953
Number of Sequences: 13198
Number of extensions: 6885
Number of successful extensions: 43
Number of sequences better than 10.0: 18
Number of HSP's better than 10.0 without gapping: 16
Number of HSP's successfully gapped in prelim test: 2
Number of HSP's that attempted gapping in prelim test: 25
Number of HSP's gapped (non-prelim): 20
length of query: 66
length of database: 2,899,336
effective HSP length: 42
effective length of query: 24
effective length of database: 2,345,020
effective search space: 56280480
effective search space used: 56280480
T: 11
A: 40
X1: 16 ( 7.2 bits)
X2: 38 (14.6 bits)
X3: 64 (24.7 bits)
S1: 42 (21.8 bits)
S2: 47 (22.7 bits)