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|15645440|ref|NP_207614.1| excinuclease ABC subunit C
(uvrC) [Helicobacter pylori 26695]
(594 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|1MK0|A Chain A, Catalytic Domain Of Intron Endonuclease... 34 0.053
pdb|1TAQ| Structure Of Taq Dna Polymerase 33 0.069
pdb|1TAU|A Chain A, Structure Of Dna Polymerase 33 0.069
pdb|1BGX|T Chain T, Taq Polymerase In Complex With Tp7, An ... 33 0.069
pdb|1LN0|A Chain A, Structure Of The Catalytic Domain Of Ho... 32 0.20
pdb|1KOA| Twitchin Kinase Fragment (C.Elegans), Autoregul... 30 0.76
pdb|1LOH|A Chain A, Streptococcus Pneumoniae Hyaluronate Ly... 30 1.00
pdb|1EGU|A Chain A, Crystal Structure Of Streptococcus Pneu... 29 1.7
pdb|1E9F|A Chain A, Mutant Human Thymidylate Kinase Complex... 28 2.2
pdb|1IMV|A Chain A, 2.85 A Crystal Structure Of Pedf 28 2.2
pdb|1E3M|A Chain A, The Crystal Structure Of E. Coli Muts B... 28 3.8
pdb|1K9A|B Chain B, Crystal Structure Analysis Of Full-Leng... 27 4.9
pdb|1BYG|A Chain A, Kinase Domain Of Human C-Terminal Src K... 27 4.9
pdb|1M47|A Chain A, Crystal Structure Of Human Interleukin-... 27 6.5
pdb|1M4A|A Chain A, Crystal Structure Of Human Interleukin-... 27 6.5
pdb|3INK|C Chain C, Interleukin 2 Mutant With Cys 125 Repla... 27 6.5
pdb|1E52|A Chain A, Solution Structure Of Escherichia Coli ... 27 8.4
pdb|1MCP|H Chain H, Immunoglobulin Fab Fragment (McPC603) >... 27 8.4
>pdb|1MK0|A Chain A, Catalytic Domain Of Intron Endonuclease I-Tevi, E75a
Mutant
Length = 97
Score = 33.9 bits (76), Expect = 0.053
Identities = 28/92 (30%), Positives = 46/92 (49%), Gaps = 15/92 (16%)
Query: 15 SGVYQYFDKNRQLLYIGKAKNLKKRIKSYFSIRNNEITPNHRASLRIQMM------VKQI 68
SG+YQ + +Y+G AK+ +KR K +F ++ +S+++Q V +
Sbjct: 3 SGIYQIKNTLNNKVYVGSAKDFEKRWKRHF----KDLEKGCHSSIKLQRSFNKHGNVFEC 58
Query: 69 AFLETILVENEQDALILE--NSLIKQLKPKYN 98
+ LE I E + LI+E N IK+L K N
Sbjct: 59 SILEEIPYEKD---LIIERANFWIKELNSKIN 87
>pdb|1TAQ| Structure Of Taq Dna Polymerase
Length = 832
Score = 33.5 bits (75), Expect = 0.069
Identities = 16/35 (45%), Positives = 25/35 (70%)
Query: 558 KGIGEASVKKLLDYFGSFEAIEKASEQEKNAVLKK 592
KGIGE + +KLL+ +GS EA+ K ++ K A+ +K
Sbjct: 197 KGIGEKTARKLLEEWGSLEALLKNLDRLKPAIREK 231
>pdb|1TAU|A Chain A, Structure Of Dna Polymerase
Length = 832
Score = 33.5 bits (75), Expect = 0.069
Identities = 16/35 (45%), Positives = 25/35 (70%)
Query: 558 KGIGEASVKKLLDYFGSFEAIEKASEQEKNAVLKK 592
KGIGE + +KLL+ +GS EA+ K ++ K A+ +K
Sbjct: 197 KGIGEKTARKLLEEWGSLEALLKNLDRLKPAIREK 231
>pdb|1BGX|T Chain T, Taq Polymerase In Complex With Tp7, An Inhibitory Fab
pdb|1CMW|A Chain A, Crystal Structure Of Taq Dna-Polymerase Shows A New
Orientation For The Structure-Specific Nuclease Domain
Length = 832
Score = 33.5 bits (75), Expect = 0.069
Identities = 16/35 (45%), Positives = 25/35 (70%)
Query: 558 KGIGEASVKKLLDYFGSFEAIEKASEQEKNAVLKK 592
KGIGE + +KLL+ +GS EA+ K ++ K A+ +K
Sbjct: 197 KGIGEKTARKLLEEWGSLEALLKNLDRLKPAIREK 231
>pdb|1LN0|A Chain A, Structure Of The Catalytic Domain Of Homing Endonuclease
I- Tevi
pdb|1LN0|B Chain B, Structure Of The Catalytic Domain Of Homing Endonuclease
I- Tevi
Length = 97
Score = 32.0 bits (71), Expect = 0.20
Identities = 27/91 (29%), Positives = 45/91 (48%), Gaps = 13/91 (14%)
Query: 15 SGVYQYFDKNRQLLYIGKAKNLKKRIKSYFSIRNNEITPNHRASLRIQMM------VKQI 68
SG+YQ + +Y+G AK+ +K K +F ++ +S+++Q V +
Sbjct: 3 SGIYQIKNTLNNKVYVGSAKDFEKAWKRHF----KDLEKGCHSSIKLQRSFNKHGNVFEC 58
Query: 69 AFLETILVENEQDALI-LENSLIKQLKPKYN 98
+ LE I E+D +I EN IK+L K N
Sbjct: 59 SILEEI--PYEKDLIIERENFWIKELNSKIN 87
>pdb|1KOA| Twitchin Kinase Fragment (C.Elegans), Autoregulated Protein Kinase
And Immunoglobulin Domains
Length = 491
Score = 30.0 bits (66), Expect = 0.76
Identities = 23/103 (22%), Positives = 46/103 (44%), Gaps = 8/103 (7%)
Query: 264 NKAVLVKMFMRGGKIISSAFEKIHSLNGFDTDEAMKQAI-------INHYQSHLPLMPEQ 316
N+ V++ FM GG++ ++ + ++ + E M+Q N+Y HL L PE
Sbjct: 121 NEMVMIYEFMSGGELFEKVADEHNKMSEDEAVEYMRQVCKGLCHMHENNY-VHLDLKPEN 179
Query: 317 ILLNACSNETLKELQEFISHQYSKKIALSIPKKGDKLALIEIA 359
I+ + LK + ++ K ++ + + A E+A
Sbjct: 180 IMFTTKRSNELKLIDFGLTAHLDPKQSVKVTTGTAEFAAPEVA 222
>pdb|1LOH|A Chain A, Streptococcus Pneumoniae Hyaluronate Lyase In Complex With
Hexasaccharide Hyaluronan Substrate
pdb|1LXK|A Chain A, Streptococcus Pneumoniae Hyaluronate Lyase In Complex With
Tetrasaccharide Hyaluronan Substrate
Length = 721
Score = 29.6 bits (65), Expect = 1.00
Identities = 20/50 (40%), Positives = 30/50 (60%), Gaps = 5/50 (10%)
Query: 133 VKYFGPFTSGAKDILDSLYELLPLVQK-KNCI-KDKKACIFYQIERCKAP 180
V Y G F ++D L +LLP++QK KN I KDK +++ I++ AP
Sbjct: 233 VAYTGAF---GNVLIDGLSQLLPVIQKTKNPIDKDKMQTMYHWIDKSFAP 279
>pdb|1EGU|A Chain A, Crystal Structure Of Streptococcus Pneumoniae Hyaluronate
Lyase At 1.56 A Resolution
pdb|1F9G|A Chain A, Crystal Structure Of Streptococcus Pneumoniae Hyaluronate
Lyase Cocrystallized With Ascorbic Acid
pdb|1C82|A Chain A, Mechanism Of Hyaluronan Binding And Degradation: Structure
Of Streptococcus Pneumoniae Hyaluronate Lyase In Complex
With Hyaluronic Acid Disaccharide At 1.7 A Resolution
Length = 731
Score = 28.9 bits (63), Expect = 1.7
Identities = 16/37 (43%), Positives = 26/37 (70%), Gaps = 2/37 (5%)
Query: 146 ILDSLYELLPLVQK-KNCI-KDKKACIFYQIERCKAP 180
++D L +LLP++QK KN I KDK +++ I++ AP
Sbjct: 245 LIDGLSQLLPVIQKTKNPIDKDKMQTMYHWIDKSFAP 281
>pdb|1E9F|A Chain A, Mutant Human Thymidylate Kinase Complexed With Tmp And Adp
Length = 217
Score = 28.5 bits (62), Expect = 2.2
Identities = 21/90 (23%), Positives = 43/90 (47%), Gaps = 7/90 (7%)
Query: 340 KKIALSIPKKGDKLALIEIAMKNAQEIFSQEKTSNEDLILEEARSLFKLECMPYRVEIFD 399
+K++ + D+ A +A A+E FS + D+ L + + L+ +++ D
Sbjct: 88 EKLSQGVTLVVDRYAFSGVAFTGAKENFSLDWCKQPDVGLPKPDLVLFLQ-----LQLAD 142
Query: 400 TSHHSSSQCVGGMVVYENNAFQKNSYRRYH 429
+ ++ G + YEN AFQ+ + R +H
Sbjct: 143 AAKRGRAR--GELERYENGAFQERALRCFH 170
>pdb|1IMV|A Chain A, 2.85 A Crystal Structure Of Pedf
Length = 398
Score = 28.5 bits (62), Expect = 2.2
Identities = 19/63 (30%), Positives = 34/63 (53%), Gaps = 4/63 (6%)
Query: 327 LKELQEFISHQYSKKIALSIPKKGDKLA--LIEIAMKNAQEI--FSQEKTSNEDLILEEA 382
L+E+ ++ Q K+A S + D+++ L+ +A Q + F KTS ED L+E
Sbjct: 157 LQEINNWVQAQMKGKLARSTKEIPDEISILLLGVAHFKGQWVTKFDSRKTSLEDFYLDEE 216
Query: 383 RSL 385
R++
Sbjct: 217 RTV 219
>pdb|1E3M|A Chain A, The Crystal Structure Of E. Coli Muts Binding To Dna With
A G:t Mismatch
pdb|1E3M|B Chain B, The Crystal Structure Of E. Coli Muts Binding To Dna With
A G:t Mismatch
Length = 800
Score = 27.7 bits (60), Expect = 3.8
Identities = 36/151 (23%), Positives = 63/151 (40%), Gaps = 19/151 (12%)
Query: 435 EYTQMSELLTRRALDFAKEPPPNLWVIDGGRAQLNIALEILKSSGSFVEVIAISKEKRDS 494
E+ ++ +LL R +D P + V DGG + +SG E+ +
Sbjct: 399 EFAELRDLLERAIID-----TPPVLVRDGG----------VIASGYNEELDEWRALADGA 443
Query: 495 KAYRSKGGAKDIIHTPSDTFKLLPSDKRLQWVQKLRDESHRYAINFHRSTKLKNMKQIAL 554
Y + ++ T DT K+ + ++Q R +SH IN+ R LKN ++ +
Sbjct: 444 TDYLERLEVRERERTGLDTLKVGFNAVHGYYIQISRGQSHLAPINYXRRQTLKNAERYII 503
Query: 555 LKEKGIGEASVKKLLDYFGSFEAIEKASEQE 585
+ K + K+L G A+EK +E
Sbjct: 504 PELKEYED----KVLTSKGKALALEKQLYEE 530
>pdb|1K9A|B Chain B, Crystal Structure Analysis Of Full-Length
Carboxyl-Terminal Src Kinase At 2.5 A Resolution
pdb|1K9A|E Chain E, Crystal Structure Analysis Of Full-Length
Carboxyl-Terminal Src Kinase At 2.5 A Resolution
pdb|1K9A|A Chain A, Crystal Structure Analysis Of Full-Length
Carboxyl-Terminal Src Kinase At 2.5 A Resolution
pdb|1K9A|C Chain C, Crystal Structure Analysis Of Full-Length
Carboxyl-Terminal Src Kinase At 2.5 A Resolution
pdb|1K9A|F Chain F, Crystal Structure Analysis Of Full-Length
Carboxyl-Terminal Src Kinase At 2.5 A Resolution
pdb|1K9A|D Chain D, Crystal Structure Analysis Of Full-Length
Carboxyl-Terminal Src Kinase At 2.5 A Resolution
Length = 450
Score = 27.3 bits (59), Expect = 4.9
Identities = 16/40 (40%), Positives = 23/40 (57%)
Query: 540 FHRSTKLKNMKQIALLKEKGIGEASVKKLLDYFGSFEAIE 579
F+RS NMK++ LL+ G GE L DY G+ A++
Sbjct: 183 FYRSGWALNMKELKLLQTIGKGEFGDVMLGDYRGNKVAVK 222
>pdb|1BYG|A Chain A, Kinase Domain Of Human C-Terminal Src Kinase (Csk) In
Complex With Inhibitor Staurosporine
Length = 278
Score = 27.3 bits (59), Expect = 4.9
Identities = 16/40 (40%), Positives = 23/40 (57%)
Query: 540 FHRSTKLKNMKQIALLKEKGIGEASVKKLLDYFGSFEAIE 579
F+RS NMK++ LL+ G GE L DY G+ A++
Sbjct: 11 FYRSGWALNMKELKLLQTIGKGEFGDVMLGDYRGNKVAVK 50
>pdb|1M47|A Chain A, Crystal Structure Of Human Interleukin-2
pdb|1M48|A Chain A, Crystal Structure Of Human Il-2 Complexed With
(R)-N-[2-[1-
(Aminoiminomethyl)-3-Piperidinyl]-1-Oxoethyl]-4-
(Phenylethynyl)-L-Phenylalanine Methyl Ester
pdb|1M48|B Chain B, Crystal Structure Of Human Il-2 Complexed With
(R)-N-[2-[1-
(Aminoiminomethyl)-3-Piperidinyl]-1-Oxoethyl]-4-
(Phenylethynyl)-L-Phenylalanine Methyl Ester
pdb|1M49|A Chain A, Crystal Structure Of Human Interleukin-2 Complexed With
Sp- 1985
pdb|1M49|B Chain B, Crystal Structure Of Human Interleukin-2 Complexed With
Sp- 1985
pdb|1M4C|A Chain A, Crystal Structure Of Human Interleukin-2
pdb|1M4C|B Chain B, Crystal Structure Of Human Interleukin-2
Length = 133
Score = 26.9 bits (58), Expect = 6.5
Identities = 20/92 (21%), Positives = 39/92 (41%)
Query: 289 LNGFDTDEAMKQAIINHYQSHLPLMPEQILLNACSNETLKELQEFISHQYSKKIALSIPK 348
LNG + + K + ++ ++P ++ C E LK L+E ++ SK L
Sbjct: 25 LNGINNYKNPKLTRMLTFKFYMPKKATELKHLQCLEEELKPLEEVLNLAQSKNFHLRPRD 84
Query: 349 KGDKLALIEIAMKNAQEIFSQEKTSNEDLILE 380
+ +I + +K ++ F E I+E
Sbjct: 85 LISNINVIVLELKGSETTFMCEYADETATIVE 116
>pdb|1M4A|A Chain A, Crystal Structure Of Human Interleukin-2 Y31c Covalently
Modified At C31 With (1h-Indol-3-Yl)-(2-Mercapto-
Ethoxyimino)-Acetic Acid
Length = 133
Score = 26.9 bits (58), Expect = 6.5
Identities = 20/92 (21%), Positives = 39/92 (41%)
Query: 289 LNGFDTDEAMKQAIINHYQSHLPLMPEQILLNACSNETLKELQEFISHQYSKKIALSIPK 348
LNG + + K + ++ ++P ++ C E LK L+E ++ SK L
Sbjct: 25 LNGINNCKNPKLTRMLTFKFYMPKKATELKHLQCLEEELKPLEEVLNLAQSKNFHLRPRD 84
Query: 349 KGDKLALIEIAMKNAQEIFSQEKTSNEDLILE 380
+ +I + +K ++ F E I+E
Sbjct: 85 LISNINVIVLELKGSETTFMCEYADETATIVE 116
>pdb|3INK|C Chain C, Interleukin 2 Mutant With Cys 125 Replaced By Ala (C125a)
pdb|3INK|D Chain D, Interleukin 2 Mutant With Cys 125 Replaced By Ala (C125a)
Length = 133
Score = 26.9 bits (58), Expect = 6.5
Identities = 20/92 (21%), Positives = 39/92 (41%)
Query: 289 LNGFDTDEAMKQAIINHYQSHLPLMPEQILLNACSNETLKELQEFISHQYSKKIALSIPK 348
LNG + + K + ++ ++P ++ C E LK L+E ++ SK L
Sbjct: 25 LNGINNYKNPKLTRMLTFKFYMPKKATELKHLQCLEEELKPLEEVLNLAQSKNFHLRPRD 84
Query: 349 KGDKLALIEIAMKNAQEIFSQEKTSNEDLILE 380
+ +I + +K ++ F E I+E
Sbjct: 85 LISNINVIVLELKGSETTFMCEYADETATIVE 116
>pdb|1E52|A Chain A, Solution Structure Of Escherichia Coli Uvrb C-Terminal
Domain
pdb|1E52|B Chain B, Solution Structure Of Escherichia Coli Uvrb C-Terminal
Domain
Length = 63
Score = 26.6 bits (57), Expect = 8.4
Identities = 13/33 (39%), Positives = 22/33 (66%)
Query: 208 IKELELKMERLSNNLRFEEALIYRDRIAKIQKI 240
I ELE M + + NL FEEA RD++ +++++
Sbjct: 26 IHELEGLMMQHAQNLEFEEAAQIRDQLHQLREL 58
>pdb|1MCP|H Chain H, Immunoglobulin Fab Fragment (McPC603)
pdb|2MCP|H Chain H, Immunoglobulin McPC603 Fab-Phosphocholine Complex
Length = 222
Score = 26.6 bits (57), Expect = 8.4
Identities = 9/28 (32%), Positives = 16/28 (57%)
Query: 518 PSDKRLQWVQKLRDESHRYAINFHRSTK 545
P KRL+W+ R++ ++Y + S K
Sbjct: 40 PPGKRLEWIAASRNKGNKYTTEYSASVK 67
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
0.319 0.136 0.378
Gapped
Lambda K H
0.267 0.0410 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Hits to DB: 3,222,313
Number of Sequences: 13198
Number of extensions: 132191
Number of successful extensions: 500
Number of sequences better than 10.0: 18
Number of HSP's better than 10.0 without gapping: 12
Number of HSP's successfully gapped in prelim test: 6
Number of HSP's that attempted gapping in prelim test: 487
Number of HSP's gapped (non-prelim): 18
length of query: 594
length of database: 2,899,336
effective HSP length: 93
effective length of query: 501
effective length of database: 1,671,922
effective search space: 837632922
effective search space used: 837632922
T: 11
A: 40
X1: 16 ( 7.4 bits)
X2: 38 (14.6 bits)
X3: 64 (24.7 bits)
S1: 41 (21.7 bits)
S2: 57 (26.6 bits)