BLASTP 2.2.26 [Sep-21-2011]
Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer,
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.
Reference for compositional score matrix adjustment: Altschul, Stephen F.,
John C. Wootton, E. Michael Gertz, Richa Agarwala, Aleksandr Morgulis,
Alejandro A. Schaffer, and Yi-Kuo Yu (2005) "Protein database searches
using compositionally adjusted substitution matrices", FEBS J. 272:5101-5109.
Query= psy13372
(273 letters)
Database: pdbaa
62,578 sequences; 14,973,337 total letters
Searching..................................................done
>pdb|3NGF|A Chain A, Crystal Structure Of Ap Endonuclease, Family 2 From
Brucella Melitensis
pdb|3NGF|B Chain B, Crystal Structure Of Ap Endonuclease, Family 2 From
Brucella Melitensis
Length = 269
Score = 162 bits (410), Expect = 2e-40, Method: Compositional matrix adjust.
Identities = 98/263 (37%), Positives = 145/263 (55%), Gaps = 16/263 (6%)
Query: 7 KLAANLTLLFNDLAANYLDKYRVAAELGFRYIESWFPPVGVTLEQLVAAQTRHGLKQVLI 66
+ AANL+ +FN++ +L+++R+AAE GF +E FP + + +H L QVL
Sbjct: 11 RFAANLSTMFNEVP--FLERFRLAAEAGFGGVEFLFP-YDFDADVIARELKQHNLTQVLF 67
Query: 67 NTEVDE----NFGYAAVKGKESEFRASLEKTIQYACALNIPAIHIMSGKTESSRTQPIAS 122
N + G AA+ G+E EFR +++ + YA AL+ +H MSG TE + A
Sbjct: 68 NMPPGDWAAGERGMAAISGREQEFRDNVDIALHYALALDCRTLHAMSGITEGLDRK--AC 125
Query: 123 EDPYTTLKENLIYACAELERHSLTALIEPVNQHSVPGYYLSSFRVAERLIRELRAHGISN 182
E+ T EN YA +L H +T L+EP+N ++PGY++ A L++ + N
Sbjct: 126 EE---TFIENFRYAADKLAPHGITVLVEPLNTRNMPGYFIVHQLEAVGLVKRVNR---PN 179
Query: 183 VQLQFDFFNAQRICGDLTHTFGACRDLIGHVQIAQAPDRQEPHARGEIDYAYVFELLARE 242
V +Q D ++AQ + GDLT HVQIA PDR EP GE++Y Y+F +L
Sbjct: 180 VAVQLDLYHAQIMDGDLTRLIEKMNGAFSHVQIASVPDRHEPD-EGELNYPYLFSVLESV 238
Query: 243 GYEGYVGLEYKPQGNTKEGLEEF 265
GY G+VG EY P+G T+ GL F
Sbjct: 239 GYRGWVGCEYNPRGKTESGLAWF 261
>pdb|1K77|A Chain A, Crystal Structure Of Ec1530, A Putative Oxygenase From
Escherichia Coli
Length = 260
Score = 125 bits (315), Expect = 2e-29, Method: Compositional matrix adjust.
Identities = 88/266 (33%), Positives = 136/266 (51%), Gaps = 21/266 (7%)
Query: 7 KLAANLTLLFNDLAANYLDKYRVAAELGFRYIESWFPPVGVTLEQLVAAQTRHGLKQVLI 66
+ AANL+ F ++ +++++ A + GF +E FP TL+ + H L L
Sbjct: 3 RFAANLSXXFTEVP--FIERFAAARKAGFDAVEFLFPYNYSTLQIQKQLEQNH-LTLALF 59
Query: 67 NTEVDE----NFGYAAVKGKESEFRASLEKTIQYACALNIPAIHIMSGKTESSRTQPIAS 122
NT + +G +A+ G+E E A ++ ++YA ALN +H+ +G + +
Sbjct: 60 NTAPGDINAGEWGLSALPGREHEAHADIDLALEYALALNCEQVHVXAGVVPAGED----A 115
Query: 123 EDPYTTLKENLIYACAELERHSLTALIEPVNQHSVPGYYLSSFRVAERLIRELRAHGISN 182
E +N+ YA H L+E ++ P Y SS A ++ E+ N
Sbjct: 116 ERYRAVFIDNIRYAADRFAPHGKRILVEALSPGVKPHYLFSSQYQALAIVEEV---ARDN 172
Query: 183 VQLQFDFFNAQRICGDLTHTFGACRDLIG---HVQIAQAPDRQEPHARGEIDYAYVFELL 239
V +Q D F+AQ++ G+LTH RD G HVQIA PDR EP GEI+Y ++F L
Sbjct: 173 VFIQLDTFHAQKVDGNLTHL---IRDYAGKYAHVQIAGLPDRHEPD-DGEINYPWLFRLF 228
Query: 240 AREGYEGYVGLEYKPQGNTKEGLEEF 265
GY+G++G EYKP+G T+EGL F
Sbjct: 229 DEVGYQGWIGCEYKPRGLTEEGLGWF 254
>pdb|2ZVR|A Chain A, Crystal Structure Of A D-Tagatose 3-Epimerase-Related
Protein From Thermotoga Maritima
pdb|2ZVR|B Chain B, Crystal Structure Of A D-Tagatose 3-Epimerase-Related
Protein From Thermotoga Maritima
Length = 290
Score = 31.2 bits (69), Expect = 0.59, Method: Compositional matrix adjust.
Identities = 33/132 (25%), Positives = 61/132 (46%), Gaps = 9/132 (6%)
Query: 139 ELERHSLTALIEPVNQHSVPGYYLSSFRVAERLIRELRAHGISNVQLQFDFFNAQRICGD 198
EL H+ +IEP+N++ ++++ A R++R++ + + V + D F+ +
Sbjct: 159 ELTEHA-KFVIEPLNRYETD--FINTIDDALRILRKINS---NRVGILADTFHMNIEEVN 212
Query: 199 LTHTFGACRDLIGHVQIAQAPDRQEPHARGEIDYAYVFELLAREGYEGYVGLEYKP-QGN 257
+ + + + H +A + +R P G D+ VF L GY YV +E P G
Sbjct: 213 IPESLKRAGEKLYHFHVADS-NRWAPGC-GHFDFRSVFNTLKEIGYNRYVSVECLPLPGG 270
Query: 258 TKEGLEEFLKTF 269
+E E KT
Sbjct: 271 MEEAAEIAFKTL 282
>pdb|1XFD|A Chain A, Structure Of A Human A-Type Potassium Channel Accelerating
Factor Dppx, A Member Of The Dipeptidyl Aminopeptidase
Family
pdb|1XFD|B Chain B, Structure Of A Human A-Type Potassium Channel Accelerating
Factor Dppx, A Member Of The Dipeptidyl Aminopeptidase
Family
pdb|1XFD|C Chain C, Structure Of A Human A-Type Potassium Channel Accelerating
Factor Dppx, A Member Of The Dipeptidyl Aminopeptidase
Family
pdb|1XFD|D Chain D, Structure Of A Human A-Type Potassium Channel Accelerating
Factor Dppx, A Member Of The Dipeptidyl Aminopeptidase
Family
Length = 723
Score = 28.1 bits (61), Expect = 5.7, Method: Compositional matrix adjust.
Identities = 14/39 (35%), Positives = 23/39 (58%), Gaps = 1/39 (2%)
Query: 149 IEPVNQHSVPGYYLSSFRVAERLIRELRAHGISNVQLQF 187
+EP+ QHS GYY+ S ++ + L +SN +LQ+
Sbjct: 81 VEPIYQHSYTGYYVLS-KIPHGDPQSLDPPEVSNAKLQY 118
Database: pdbaa
Posted date: Mar 3, 2013 10:34 PM
Number of letters in database: 14,973,337
Number of sequences in database: 62,578
Lambda K H
0.320 0.136 0.396
Lambda K H
0.267 0.0410 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Hits to DB: 8,095,078
Number of Sequences: 62578
Number of extensions: 325974
Number of successful extensions: 879
Number of sequences better than 100.0: 6
Number of HSP's better than 100.0 without gapping: 2
Number of HSP's successfully gapped in prelim test: 4
Number of HSP's that attempted gapping in prelim test: 870
Number of HSP's gapped (non-prelim): 6
length of query: 273
length of database: 14,973,337
effective HSP length: 97
effective length of query: 176
effective length of database: 8,903,271
effective search space: 1566975696
effective search space used: 1566975696
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: 51 (24.3 bits)