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|15645210|ref|NP_207380.1| endonuclease III (nth)
[Helicobacter pylori 26695]
(218 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|2ABK| Refinement Of The Native Structure Of Endonucle... 143 2e-35
pdb|1KEA|A Chain A, Structure Of A Thermostable Thymine-Dna... 75 6e-15
pdb|1MUY|A Chain A, Catalytic Domain Of Muty From Escherich... 71 1e-13
pdb|1MUN| Catalytic Domain Of Muty From Escherichia Coli ... 69 4e-13
pdb|1KQJ|A Chain A, Crystal Structure Of A Mutant Of Muty C... 66 3e-12
pdb|1A8Y| Crystal Structure Of Calsequestrin From Rabbit ... 26 3.1
pdb|1QU7|A Chain A, Four Helical-Bundle Structure Of The Cy... 25 6.9
>pdb|2ABK| Refinement Of The Native Structure Of Endonuclease Iii To A
Resolution Of 1.85 Angstrom
Length = 211
Score = 143 bits (360), Expect = 2e-35
Identities = 77/202 (38%), Positives = 118/202 (58%), Gaps = 1/202 (0%)
Query: 13 KAQQIKELLLKHYPNQTTELRHKNPYELLVATILSAQCTDARVNQITPKLFEKYPSVNDL 72
K +I L ++ P+ TTEL +P+ELL+A +LSAQ TD VN+ T KL+ + +
Sbjct: 5 KRLEILTRLRENNPHPTTELNFSSPFELLIAVLLSAQATDVSVNKATAKLYPVANTPAAM 64
Query: 73 ALASLEEVKEIIKSVSYFNNKSKHLISMAQKVVRDFKGVIPSTQKELMSLDGVGQKTANV 132
+E VK IK++ +N+K++++I + ++ G +P + L +L GVG+KTANV
Sbjct: 65 LELGVEGVKTYIKTIGLYNSKAENIIKTCRILLEQHNGEVPEDRAALEALPGVGRKTANV 124
Query: 133 VLSVCFDANCIAVDTHVFRATHRLGLSNAKDPIKTEEELSDLFKDNLS-KLHHALILFGR 191
VL+ F IAVDTH+FR +R + K+ + EE+L + HH LIL GR
Sbjct: 125 VLNTAFGWPTIAVDTHIFRVCNRTQFAPGKNVEQVEEKLLKVVPAEFKVDCHHWLILHGR 184
Query: 192 YTCKAKNPLCGACFLKEFCVSK 213
YTC A+ P CG+C +++ C K
Sbjct: 185 YTCIARKPRCGSCIIEDLCEYK 206
>pdb|1KEA|A Chain A, Structure Of A Thermostable Thymine-Dna Glycosylase
Length = 221
Score = 75.1 bits (183), Expect = 6e-15
Identities = 48/184 (26%), Positives = 81/184 (43%), Gaps = 6/184 (3%)
Query: 33 RH-KNPYELLVATILSAQCTDARVNQITPKLFEKYPSVNDLALASLEEVKEIIKSVSYFN 91
RH ++PY +L+ IL + T V +I K F KY D+ E+ + IK + N
Sbjct: 30 RHTRDPYVILITEILLRRTTAGHVKKIYDKFFVKYKCFEDILKTPKSEIAKDIKEIGLSN 89
Query: 92 NKSKHLISMAQKVVRDFKGVIPSTQKELMSLDGVGQKTANVVLSVCFDANCIAVDTHVFR 151
+++ L +A+ V+ D+ G +P +K ++ L GVG+ T V+ + F VD + R
Sbjct: 90 QRAEQLKELARVVINDYGGRVPRNRKAILDLPGVGKYTCAAVMCLAFGKKAAMVDANFVR 149
Query: 152 ATHRL---GLSNAKDPIKTEEELSDLF--KDNLSKLHHALILFGRYTCKAKNPLCGACFL 206
+R N K EL++ + L+ F C + P C C +
Sbjct: 150 VINRYFGGSYENLNYNHKALWELAETLVPGGKCRDFNLGLMDFSAIICAPRKPKCEKCGM 209
Query: 207 KEFC 210
+ C
Sbjct: 210 SKLC 213
>pdb|1MUY|A Chain A, Catalytic Domain Of Muty From Escherichia Coli
Length = 225
Score = 70.9 bits (172), Expect = 1e-13
Identities = 49/187 (26%), Positives = 90/187 (47%), Gaps = 7/187 (3%)
Query: 35 KNPYELLVATILSAQCTDARVNQITPKLFEKYPSVNDLALASLEEVKEIIKSVSYFNNKS 94
K PY++ ++ ++ Q A V + ++P+V DLA A L+EV + + Y+ ++
Sbjct: 28 KTPYKVWLSEVMLQQTQVATVIPYFERFMARFPTVTDLANAPLDEVLHLWTGLGYYA-RA 86
Query: 95 KHLISMAQKVVRDFKGVIPSTQKELMSLDGVGQKTANVVLSVCFDANCIAVDTHVFRATH 154
++L AQ+V G P T +E+ +L GVG+ TA +LS+ + +D +V R
Sbjct: 87 RNLHKAAQQVATLHGGKFPETFEEVAALPGVGRSTAGAILSLSLGKHFPILDGNVKRVLA 146
Query: 155 R-LGLSNAKDPIKTEEELSDLFKD-----NLSKLHHALILFGRYTCKAKNPLCGACFLKE 208
R +S + E +L L + + + + A++ G C P C C L+
Sbjct: 147 RCYAVSGWPGKKEVENKLWSLSEQVTPAVGVERFNQAMMDLGAMICTRSKPKCSLCPLQN 206
Query: 209 FCVSKAS 215
C++ A+
Sbjct: 207 GCIAAAN 213
>pdb|1MUN| Catalytic Domain Of Muty From Escherichia Coli D138n Mutant
pdb|1MUD|A Chain A, Catalytic Domain Of Muty From Escherichia Coli, D138n
Mutant Complexed To Adenine
Length = 225
Score = 68.9 bits (167), Expect = 4e-13
Identities = 48/187 (25%), Positives = 90/187 (47%), Gaps = 7/187 (3%)
Query: 35 KNPYELLVATILSAQCTDARVNQITPKLFEKYPSVNDLALASLEEVKEIIKSVSYFNNKS 94
K PY++ ++ ++ Q A V + ++P+V DLA A L+EV + + Y+ ++
Sbjct: 28 KTPYKVWLSEVMLQQTQVATVIPYFERFMARFPTVTDLANAPLDEVLHLWTGLGYY-ARA 86
Query: 95 KHLISMAQKVVRDFKGVIPSTQKELMSLDGVGQKTANVVLSVCFDANCIAVDTHVFRATH 154
++L AQ+V G P T +E+ +L GVG+ TA +LS+ + ++ +V R
Sbjct: 87 RNLHKAAQQVATLHGGKFPETFEEVAALPGVGRSTAGAILSLSLGKHFPILNGNVKRVLA 146
Query: 155 R-LGLSNAKDPIKTEEELSDLFKD-----NLSKLHHALILFGRYTCKAKNPLCGACFLKE 208
R +S + E +L L + + + + A++ G C P C C L+
Sbjct: 147 RCYAVSGWPGKKEVENKLWSLSEQVTPAVGVERFNQAMMDLGAMICTRSKPKCSLCPLQN 206
Query: 209 FCVSKAS 215
C++ A+
Sbjct: 207 GCIAAAN 213
>pdb|1KQJ|A Chain A, Crystal Structure Of A Mutant Of Muty Catalytic Domain
Length = 225
Score = 66.2 bits (160), Expect = 3e-12
Identities = 48/187 (25%), Positives = 89/187 (46%), Gaps = 7/187 (3%)
Query: 35 KNPYELLVATILSAQCTDARVNQITPKLFEKYPSVNDLALASLEEVKEIIKSVSYFNNKS 94
K PY++ ++ ++ Q A V + ++P+V DLA A L+EV + + Y+ ++
Sbjct: 28 KTPYKVWLSEVMLQQTQVATVIPYFERFMARFPTVTDLANAPLDEVLHLWTGLGYYA-RA 86
Query: 95 KHLISMAQKVVRDFKGVIPSTQKELMSLDGVGQKTANVVLSVCFDANCIAVDTHVFRATH 154
++L AQ+V G P T +E+ +L GVG+ TA +LS+ + +D +V R
Sbjct: 87 RNLHKAAQQVATLHGGKFPETFEEVAALPGVGRSTAGAILSLSLGKHFPILDGNVKRVLA 146
Query: 155 R-LGLSNAKDPIKTEEELSDLFKD-----NLSKLHHALILFGRYTCKAKNPLCGACFLKE 208
R +S + E +L L + + + + A++ G C P C L+
Sbjct: 147 RCYAVSGWPGKKEVENKLWSLSEQVTPAVGVERFNQAMMDLGAMICTRSKPKHSLCPLQN 206
Query: 209 FCVSKAS 215
C++ A+
Sbjct: 207 GCIAAAN 213
>pdb|1A8Y| Crystal Structure Of Calsequestrin From Rabbit Skeletal Muscle
Sarcoplasmic Reticulum At 2.4 A Resolution
Length = 367
Score = 26.2 bits (56), Expect = 3.1
Identities = 11/40 (27%), Positives = 19/40 (47%)
Query: 74 LASLEEVKEIIKSVSYFNNKSKHLISMAQKVVRDFKGVIP 113
L + E +++ IK + YF NK ++ +F IP
Sbjct: 136 LQAFENIEDEIKLIGYFKNKDSEHYKAFKEAAEEFHPYIP 175
>pdb|1QU7|A Chain A, Four Helical-Bundle Structure Of The Cytoplasmic Domain Of
A Serine Chemotaxis Receptor
pdb|1QU7|B Chain B, Four Helical-Bundle Structure Of The Cytoplasmic Domain Of
A Serine Chemotaxis Receptor
Length = 227
Score = 25.0 bits (53), Expect = 6.9
Identities = 15/78 (19%), Positives = 36/78 (45%), Gaps = 3/78 (3%)
Query: 75 ASLEEVKEIIKSVSYFNNKSKHLISMAQKVVRDFKGVIPSTQKELMSLDGVGQKTANVVL 134
AS+E++ +K + ++ HL A + + V+ + + + + QK A+++
Sbjct: 14 ASMEQLTATVKQNAENARQASHLALSASETAQRGGKVVDNVVQTMRDISTSSQKIADIIS 73
Query: 135 ---SVCFDANCIAVDTHV 149
+ F N +A++ V
Sbjct: 74 VIDGIAFQTNILALNAAV 91
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
0.320 0.133 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: 1,117,510
Number of Sequences: 13198
Number of extensions: 40707
Number of successful extensions: 125
Number of sequences better than 10.0: 7
Number of HSP's better than 10.0 without gapping: 6
Number of HSP's successfully gapped in prelim test: 1
Number of HSP's that attempted gapping in prelim test: 113
Number of HSP's gapped (non-prelim): 7
length of query: 218
length of database: 2,899,336
effective HSP length: 85
effective length of query: 133
effective length of database: 1,777,506
effective search space: 236408298
effective search space used: 236408298
T: 11
A: 40
X1: 16 ( 7.4 bits)
X2: 38 (14.6 bits)
X3: 64 (24.7 bits)
S1: 41 (21.8 bits)
S2: 52 (24.6 bits)