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|15645638|ref|NP_207814.1| co-chaperone-curved DNA
binding protein A (CbpA) [Helicobacter pylori 26695]
(288 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|1XBL| Nmr Structure Of The J-Domain (Residues 2-76) I... 89 6e-19
pdb|1BQ0| J-Domain (Residues 1-77) Of The Escherichia Col... 87 2e-18
pdb|1HDJ| Human Hsp40 (Hdj-1), Nmr 81 1e-16
pdb|1BQZ| J-Domain (Residues 1-77) Of The Escherichia Col... 80 4e-16
pdb|1C3G|A Chain A, S. Cerevisiae Heat Shock Protein 40 Sis1 33 0.038
pdb|1GH6|A Chain A, Retinoblastoma Pocket Complexed With Sv... 32 0.084
pdb|1EUR| Sialidase >gi|1942663|pdb|1EUS| Sialidase Comp... 28 0.93
pdb|1EUU| Sialidase Or Neuraminidase, Large 68kd Form >gi... 28 0.93
pdb|1FNJ|A Chain A, Crystal Structure Analysis Of Chorismat... 28 1.2
pdb|1EK8|A Chain A, Crystal Structure Of The Ribosome Recyc... 28 1.2
pdb|1M85|A Chain A, Structure Of Proteus Mirabilis Catalase... 28 1.2
pdb|1E93|A Chain A, High Resolution Structure And Biochemic... 28 1.2
pdb|1GE9|A Chain A, Solution Structure Of The Ribosome Recy... 27 2.7
pdb|2LAO| Lysine-, Arginine-, Ornithine-Binding Protein (... 27 2.7
pdb|1LST| Lysine-, Arginine-, Ornithine-Binding Protein (... 27 2.7
pdb|1FNK|A Chain A, Crystal Structure Analysis Of Chorismat... 27 3.5
pdb|1DBF|A Chain A, Chorismate Mutase From Bacillus Subtili... 26 4.6
pdb|1C20|A Chain A, Solution Structure Of The Dna-Binding D... 26 6.0
pdb|1KQQ|A Chain A, Solution Structure Of The Dead Ringer A... 26 6.0
pdb|1FSU| 4-Sulfatase (Human) 25 7.9
>pdb|1XBL| Nmr Structure Of The J-Domain (Residues 2-76) In The Escherichia
Coli N-Terminal Fragment (Residues 2-108) Of The
Molecular Chaperone Dnaj, 20 Structures
Length = 107
Score = 89.0 bits (219), Expect = 6e-19
Identities = 47/99 (47%), Positives = 61/99 (61%), Gaps = 3/99 (3%)
Query: 6 YQTLNVSENASQDEIKKSYRRLARQYHPDLNK-TKEAEEKFKEINAAYEILSDEEKRRQY 64
Y+ L VS+ A + EI+K+Y+RLA +YHPD N+ KEAE KFKEI AYE+L+D +KR Y
Sbjct: 6 YEILGVSKTAEEREIRKAYKRLAMKYHPDRNQGDKEAEAKFKEIKEAYEVLTDSQKRAAY 65
Query: 65 DQFGDNMF--GGQNFSDFARSRGPSEDLDDILSSIFGKG 101
DQ+G F GG F S+ D+ IFG G
Sbjct: 66 DQYGHAAFEQGGMGGGGFGGGADFSDIFGDVFGDIFGGG 104
>pdb|1BQ0| J-Domain (Residues 1-77) Of The Escherichia Coli N-Terminal
Fragment (Residues 1-104) Of The Molecular Chaperone
Dnaj, Nmr, 20 Structures
Length = 103
Score = 87.4 bits (215), Expect = 2e-18
Identities = 47/97 (48%), Positives = 60/97 (61%), Gaps = 7/97 (7%)
Query: 6 YQTLNVSENASQDEIKKSYRRLARQYHPDLNK-TKEAEEKFKEINAAYEILSDEEKRRQY 64
Y+ L VS+ A + EI+K+Y+RLA +YHPD N+ KEAE KFKEI AYE+L+D +KR Y
Sbjct: 6 YEILGVSKTAEEREIRKAYKRLAMKYHPDRNQGDKEAEAKFKEIKEAYEVLTDSQKRAAY 65
Query: 65 DQFGDNMF--GGQNFSDFARSRGPSEDLDDILSSIFG 99
DQ+G F GG F G D DI +FG
Sbjct: 66 DQYGHAAFEQGGMGGGGF----GGGADFSDIFGDVFG 98
>pdb|1HDJ| Human Hsp40 (Hdj-1), Nmr
Length = 77
Score = 81.3 bits (199), Expect = 1e-16
Identities = 38/72 (52%), Positives = 50/72 (68%)
Query: 3 KSLYQTLNVSENASQDEIKKSYRRLARQYHPDLNKTKEAEEKFKEINAAYEILSDEEKRR 62
K YQTL ++ AS +EIK++YRR A +YHPD NK AEEKFKEI AY++LSD KR
Sbjct: 3 KDYYQTLGLARGASDEEIKRAYRRQALRYHPDKNKEPGAEEKFKEIAEAYDVLSDPRKRE 62
Query: 63 QYDQFGDNMFGG 74
+D++G+ G
Sbjct: 63 IFDRYGEEGLKG 74
>pdb|1BQZ| J-Domain (Residues 1-77) Of The Escherichia Coli N-Terminal
Fragment (Residues 1-78) Of The Molecular Chaperone
Dnaj, Nmr, 20 Structures
Length = 77
Score = 79.7 bits (195), Expect = 4e-16
Identities = 38/68 (55%), Positives = 50/68 (72%), Gaps = 1/68 (1%)
Query: 6 YQTLNVSENASQDEIKKSYRRLARQYHPDLNK-TKEAEEKFKEINAAYEILSDEEKRRQY 64
Y+ L VS+ A + EI+K+Y+RLA +YHPD N+ KEAE KFKEI AYE+L+D +KR Y
Sbjct: 6 YEILGVSKTAEEREIRKAYKRLAMKYHPDRNQGDKEAEAKFKEIKEAYEVLTDSQKRAAY 65
Query: 65 DQFGDNMF 72
DQ+G F
Sbjct: 66 DQYGHAAF 73
>pdb|1C3G|A Chain A, S. Cerevisiae Heat Shock Protein 40 Sis1
Length = 170
Score = 33.1 bits (74), Expect = 0.038
Identities = 39/154 (25%), Positives = 65/154 (41%), Gaps = 17/154 (11%)
Query: 133 LNVSVLDTLLGNKKQVSINNE---------TFSLKIPIGVEEGEKIRVRNKG----KTGR 179
L VS+ D +G KK I + +++ G + G KI +N+G +TGR
Sbjct: 7 LPVSLEDLFVGKKKSFKIGRKGPHGASEKTQIDIQLKPGWKAGTKITYKNQGDYNPQTGR 66
Query: 180 TTRGDLLLEIHIEEDEMYRREKDDITQIFDLPLKTALFGGKIEIATWH-KTLTLTIPPNT 238
R L I + ++R+ DD+ L K +L G I T +TL L+
Sbjct: 67 --RKTLQFVIQEKSHPNFKRDGDDLIYTLPLSFKESLLGFSKTIQTIDGRTLPLSRVQPV 124
Query: 239 KAMQKFRIKEKGIKNRKT-SHVGDLYLQARLILP 271
+ Q +G+ K S G+L ++ ++ P
Sbjct: 125 QPSQTSTYPGQGMPTPKNPSQRGNLIVKYKVDYP 158
>pdb|1GH6|A Chain A, Retinoblastoma Pocket Complexed With Sv40 Large T
Antigen
Length = 114
Score = 32.0 bits (71), Expect = 0.084
Identities = 15/49 (30%), Positives = 26/49 (52%), Gaps = 3/49 (6%)
Query: 20 IKKSYRRLARQYHPDLNKTKEAEEKFKEINAAYEILSDEEKRRQYDQFG 68
++K+Y + +++HPD EEK K++N Y+ + D K FG
Sbjct: 27 MRKAYLKKCKEFHPDKGGD---EEKMKKMNTLYKKMEDGVKYAHQPDFG 72
>pdb|1EUR| Sialidase
pdb|1EUS| Sialidase Complexed With 2-Deoxy-2,3-Dehydro-N- Acetylneuraminic
Acid
Length = 365
Score = 28.5 bits (62), Expect = 0.93
Identities = 16/46 (34%), Positives = 23/46 (49%), Gaps = 1/46 (2%)
Query: 225 TW-HKTLTLTIPPNTKAMQKFRIKEKGIKNRKTSHVGDLYLQARLI 269
TW H+T+T I P+ +F +GI+ R H G L Q +I
Sbjct: 141 TWSHRTITADITPDPGWRSRFAASGEGIQLRYGPHAGRLIQQYTII 186
>pdb|1EUU| Sialidase Or Neuraminidase, Large 68kd Form
pdb|1EUT| Sialidase, Large 68kd Form, Complexed With Galactose
Length = 605
Score = 28.5 bits (62), Expect = 0.93
Identities = 16/46 (34%), Positives = 23/46 (49%), Gaps = 1/46 (2%)
Query: 225 TW-HKTLTLTIPPNTKAMQKFRIKEKGIKNRKTSHVGDLYLQARLI 269
TW H+T+T I P+ +F +GI+ R H G L Q +I
Sbjct: 141 TWSHRTITADITPDPGWRSRFAASGEGIQLRYGPHAGRLIQQYTII 186
>pdb|1FNJ|A Chain A, Crystal Structure Analysis Of Chorismate Mutase Mutant
C88sR90K
Length = 127
Score = 28.1 bits (61), Expect = 1.2
Identities = 14/42 (33%), Positives = 21/42 (49%)
Query: 1 MSKSLYQTLNVSENASQDEIKKSYRRLARQYHPDLNKTKEAE 42
+ KS+ + V + QD+I+ Y A PDL+ TK E
Sbjct: 85 LKKSIKVMMTVQTDVPQDQIRHVYLEKAVVLRPDLSLTKNTE 126
>pdb|1EK8|A Chain A, Crystal Structure Of The Ribosome Recycling Factor (Rrf)
From Escherichia Coli
Length = 185
Score = 28.1 bits (61), Expect = 1.2
Identities = 24/75 (32%), Positives = 34/75 (45%), Gaps = 7/75 (9%)
Query: 158 KIPIGVEEGEKIRVRNKGKTGRTTRGDLLLEIHIEEDEMYRREKDDITQIFDLPLKTALF 217
KI G E ++ VRN + LL + I ED+ RR +DD+ ++ D +K
Sbjct: 115 KIVRGEAEQARVAVRNVRRDANDKVKALLKDKEISEDD-DRRSQDDVQKLTDAAIK---- 169
Query: 218 GGKIEIATWHKTLTL 232
KIE A K L
Sbjct: 170 --KIEAALADKEAEL 182
>pdb|1M85|A Chain A, Structure Of Proteus Mirabilis Catalase For The Native
Form
pdb|1MQF|A Chain A, Compound I From Proteus Mirabilis Catalase
pdb|2CAF| Catalase Compound I
pdb|2CAG| Catalase Compound Ii
pdb|2CAH| Structure Of Proteus Mirabilis Pr Catalase For The Native Form
(E-Fe(Iii)) Complexed With Nadph
Length = 484
Score = 28.1 bits (61), Expect = 1.2
Identities = 11/26 (42%), Positives = 18/26 (68%)
Query: 39 KEAEEKFKEINAAYEILSDEEKRRQY 64
+E E+ F + A YE+LSD+E +R +
Sbjct: 413 REDEDYFSQPRALYELLSDDEHQRMF 438
>pdb|1E93|A Chain A, High Resolution Structure And Biochemical Properties Of A
Recombinant Catalase Depleted In Iron
Length = 484
Score = 28.1 bits (61), Expect = 1.2
Identities = 11/26 (42%), Positives = 18/26 (68%)
Query: 39 KEAEEKFKEINAAYEILSDEEKRRQY 64
+E E+ F + A YE+LSD+E +R +
Sbjct: 413 REDEDYFSQPRALYELLSDDEHQRMF 438
>pdb|1GE9|A Chain A, Solution Structure Of The Ribosome Recycling Factor
Length = 184
Score = 26.9 bits (58), Expect = 2.7
Identities = 14/35 (40%), Positives = 22/35 (62%), Gaps = 3/35 (8%)
Query: 13 ENASQDEIKKSYRRLAR---QYHPDLNKTKEAEEK 44
E S+DE K++ RL + +Y ++NK EA+EK
Sbjct: 145 EGISEDEKKRALERLQKLTDKYIDEINKLMEAKEK 179
>pdb|2LAO| Lysine-, Arginine-, Ornithine-Binding Protein (Lao)
pdb|1LAG|E Chain E, Lysine, Arginine, Ornithine-Binding Protein (Lao)
Complexed With Histidine
pdb|1LAH|E Chain E, Lysine, Arginine, Ornithine-Binding Protein (Lao)
Complexed With Ornithine
pdb|1LAF|E Chain E, Lysine, Arginine, Ornithine-Binding Protein (Lao)
Complexed With Arginine
Length = 238
Score = 26.9 bits (58), Expect = 2.7
Identities = 31/123 (25%), Positives = 54/123 (43%), Gaps = 7/123 (5%)
Query: 44 KFKEINAAYEILSDEEKRRQYDQFGDNMFGGQNFSDFARSRGPSEDLDDILSSIFG--KG 101
K K+I+A LS +KR+Q F D ++ + A+ L+ + G +G
Sbjct: 60 KAKKIDAIISSLSITDKRQQEIAFSDKLYAADSRLIAAKGSPIQPTLESLKGKHVGVLQG 119
Query: 102 GFSQRFSQNSQGFSGFNFSNFAPENLDITAALNVSVLDTLLGNKKQVSINNETFSLKIPI 161
+ ++ ++ G + +A ++L I + L LD L ++ S E F LK P
Sbjct: 120 STQEAYANDNWRTKGVDVVAYANQDL-IYSDLTAGRLDAALQDEVAAS---EGF-LKQPA 174
Query: 162 GVE 164
G E
Sbjct: 175 GKE 177
>pdb|1LST| Lysine-, Arginine-, Ornithine-Binding Protein (Lao) Complexed With
Lysine
Length = 239
Score = 26.9 bits (58), Expect = 2.7
Identities = 31/123 (25%), Positives = 54/123 (43%), Gaps = 7/123 (5%)
Query: 44 KFKEINAAYEILSDEEKRRQYDQFGDNMFGGQNFSDFARSRGPSEDLDDILSSIFG--KG 101
K K+I+A LS +KR+Q F D ++ + A+ L+ + G +G
Sbjct: 60 KAKKIDAIISSLSITDKRQQEIAFSDKLYAADSRLIAAKGSPIQPTLESLKGKHVGVLQG 119
Query: 102 GFSQRFSQNSQGFSGFNFSNFAPENLDITAALNVSVLDTLLGNKKQVSINNETFSLKIPI 161
+ ++ ++ G + +A ++L I + L LD L ++ S E F LK P
Sbjct: 120 STQEAYANDNWRTKGVDVVAYANQDL-IYSDLTAGRLDAALQDEVAAS---EGF-LKQPA 174
Query: 162 GVE 164
G E
Sbjct: 175 GKE 177
>pdb|1FNK|A Chain A, Crystal Structure Analysis Of Chorismate Mutase Mutant
C88kR90S
Length = 127
Score = 26.6 bits (57), Expect = 3.5
Identities = 13/42 (30%), Positives = 20/42 (46%)
Query: 1 MSKSLYQTLNVSENASQDEIKKSYRRLARQYHPDLNKTKEAE 42
+ K + + V + QD+I+ Y A PDL+ TK E
Sbjct: 85 LKKKISVMMTVQTDVPQDQIRHVYLEKAVVLRPDLSLTKNTE 126
>pdb|1DBF|A Chain A, Chorismate Mutase From Bacillus Subtilis At 1.30 Angstrom
pdb|1DBF|B Chain B, Chorismate Mutase From Bacillus Subtilis At 1.30 Angstrom
pdb|1DBF|C Chain C, Chorismate Mutase From Bacillus Subtilis At 1.30 Angstrom
pdb|1COM|C Chain C, Chorismate Mutase (E.C.5.4.99.5) Complexed With Prephenate
pdb|2CHT|C Chain C, Chorismate Mutase (E.C.5.4.99.5) Complexed With An
Endo-Oxabicyclic Transition State Analog
pdb|2CHT|F Chain F, Chorismate Mutase (E.C.5.4.99.5) Complexed With An
Endo-Oxabicyclic Transition State Analog
pdb|1COM|B Chain B, Chorismate Mutase (E.C.5.4.99.5) Complexed With Prephenate
pdb|1COM|E Chain E, Chorismate Mutase (E.C.5.4.99.5) Complexed With Prephenate
pdb|2CHT|B Chain B, Chorismate Mutase (E.C.5.4.99.5) Complexed With An
Endo-Oxabicyclic Transition State Analog
pdb|2CHT|E Chain E, Chorismate Mutase (E.C.5.4.99.5) Complexed With An
Endo-Oxabicyclic Transition State Analog
pdb|2CHT|J Chain J, Chorismate Mutase (E.C.5.4.99.5) Complexed With An
Endo-Oxabicyclic Transition State Analog
pdb|2CHT|K Chain K, Chorismate Mutase (E.C.5.4.99.5) Complexed With An
Endo-Oxabicyclic Transition State Analog
pdb|1COM|F Chain F, Chorismate Mutase (E.C.5.4.99.5) Complexed With Prephenate
pdb|2CHT|H Chain H, Chorismate Mutase (E.C.5.4.99.5) Complexed With An
Endo-Oxabicyclic Transition State Analog
pdb|1COM|K Chain K, Chorismate Mutase (E.C.5.4.99.5) Complexed With Prephenate
pdb|2CHT|G Chain G, Chorismate Mutase (E.C.5.4.99.5) Complexed With An
Endo-Oxabicyclic Transition State Analog
pdb|2CHS|A Chain A, Chorismate Mutase (E.C.5.4.99.5)
pdb|2CHS|B Chain B, Chorismate Mutase (E.C.5.4.99.5)
pdb|2CHS|C Chain C, Chorismate Mutase (E.C.5.4.99.5)
pdb|2CHS|D Chain D, Chorismate Mutase (E.C.5.4.99.5)
pdb|2CHS|E Chain E, Chorismate Mutase (E.C.5.4.99.5)
pdb|2CHS|F Chain F, Chorismate Mutase (E.C.5.4.99.5)
pdb|2CHS|G Chain G, Chorismate Mutase (E.C.5.4.99.5)
pdb|2CHS|H Chain H, Chorismate Mutase (E.C.5.4.99.5)
pdb|2CHS|I Chain I, Chorismate Mutase (E.C.5.4.99.5)
pdb|2CHS|J Chain J, Chorismate Mutase (E.C.5.4.99.5)
pdb|2CHS|K Chain K, Chorismate Mutase (E.C.5.4.99.5)
pdb|2CHS|L Chain L, Chorismate Mutase (E.C.5.4.99.5)
pdb|2CHT|A Chain A, Chorismate Mutase (E.C.5.4.99.5) Complexed With An
Endo-Oxabicyclic Transition State Analog
pdb|2CHT|D Chain D, Chorismate Mutase (E.C.5.4.99.5) Complexed With An
Endo-Oxabicyclic Transition State Analog
pdb|2CHT|I Chain I, Chorismate Mutase (E.C.5.4.99.5) Complexed With An
Endo-Oxabicyclic Transition State Analog
pdb|2CHT|L Chain L, Chorismate Mutase (E.C.5.4.99.5) Complexed With An
Endo-Oxabicyclic Transition State Analog
pdb|1COM|A Chain A, Chorismate Mutase (E.C.5.4.99.5) Complexed With Prephenate
pdb|1COM|D Chain D, Chorismate Mutase (E.C.5.4.99.5) Complexed With Prephenate
pdb|1COM|G Chain G, Chorismate Mutase (E.C.5.4.99.5) Complexed With Prephenate
pdb|1COM|H Chain H, Chorismate Mutase (E.C.5.4.99.5) Complexed With Prephenate
pdb|1COM|I Chain I, Chorismate Mutase (E.C.5.4.99.5) Complexed With Prephenate
pdb|1COM|J Chain J, Chorismate Mutase (E.C.5.4.99.5) Complexed With Prephenate
pdb|1COM|L Chain L, Chorismate Mutase (E.C.5.4.99.5) Complexed With Prephenate
Length = 127
Score = 26.2 bits (56), Expect = 4.6
Identities = 13/42 (30%), Positives = 20/42 (46%)
Query: 1 MSKSLYQTLNVSENASQDEIKKSYRRLARQYHPDLNKTKEAE 42
+ K + + V + QD+I+ Y A PDL+ TK E
Sbjct: 85 LKKCIRVMMTVQTDVPQDQIRHVYLEKAVVLRPDLSLTKNTE 126
>pdb|1C20|A Chain A, Solution Structure Of The Dna-Binding Domain From The Dead
Ringer Protein
Length = 128
Score = 25.8 bits (55), Expect = 6.0
Identities = 17/63 (26%), Positives = 31/63 (48%), Gaps = 3/63 (4%)
Query: 42 EEKFKEINAAYEILSDEEKRRQY--DQFGDNMFGGQNFSDFARSRGPSEDLDDILSSIFG 99
EE+FK++ YEI +D+ KR+++ D F G + DL ++ + +
Sbjct: 5 EEQFKQVRQLYEI-NDDPKRKEFLDDLFSFMQKRGTPINRLPIMAKSVLDLYELYNLVIA 63
Query: 100 KGG 102
+GG
Sbjct: 64 RGG 66
>pdb|1KQQ|A Chain A, Solution Structure Of The Dead Ringer Arid-Dna Complex
Length = 139
Score = 25.8 bits (55), Expect = 6.0
Identities = 17/63 (26%), Positives = 31/63 (48%), Gaps = 3/63 (4%)
Query: 42 EEKFKEINAAYEILSDEEKRRQY--DQFGDNMFGGQNFSDFARSRGPSEDLDDILSSIFG 99
EE+FK++ YEI +D+ KR+++ D F G + DL ++ + +
Sbjct: 7 EEQFKQVRQLYEI-NDDPKRKEFLDDLFSFMQKRGTPINRLPIMAKSVLDLYELYNLVIA 65
Query: 100 KGG 102
+GG
Sbjct: 66 RGG 68
>pdb|1FSU| 4-Sulfatase (Human)
Length = 492
Score = 25.4 bits (54), Expect = 7.9
Identities = 8/16 (50%), Positives = 13/16 (81%)
Query: 246 IKEKGIKNRKTSHVGD 261
+K+KG+KNR+ H+ D
Sbjct: 296 LKQKGVKNRELIHISD 311
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
0.314 0.134 0.365
Gapped
Lambda K H
0.267 0.0410 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Hits to DB: 1,601,974
Number of Sequences: 13198
Number of extensions: 69268
Number of successful extensions: 146
Number of sequences better than 10.0: 20
Number of HSP's better than 10.0 without gapping: 12
Number of HSP's successfully gapped in prelim test: 8
Number of HSP's that attempted gapping in prelim test: 130
Number of HSP's gapped (non-prelim): 20
length of query: 288
length of database: 2,899,336
effective HSP length: 87
effective length of query: 201
effective length of database: 1,751,110
effective search space: 351973110
effective search space used: 351973110
T: 11
A: 40
X1: 16 ( 7.2 bits)
X2: 38 (14.6 bits)
X3: 64 (24.7 bits)
S1: 42 (21.9 bits)
S2: 54 (25.4 bits)