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= 023301
(284 letters)
Database: pdbaa
62,578 sequences; 14,973,337 total letters
Searching..................................................done
>pdb|1NIJ|A Chain A, Yjia Protein
pdb|4IXM|A Chain A, Crystal Structure Of Zn(ii)-bound Yjia Gtpase From E. Coli
pdb|4IXM|B Chain B, Crystal Structure Of Zn(ii)-bound Yjia Gtpase From E. Coli
Length = 318
Score = 144 bits (364), Expect = 4e-35, Method: Compositional matrix adjust.
Identities = 97/283 (34%), Positives = 139/283 (49%), Gaps = 30/283 (10%)
Query: 2 VNNGCLCCTVRGDLVKMLLQLAK---KKQGQFDHIVIETTGLAKPAPVIETFCTDELVSQ 58
+ NGC+CC+ +L LL L K QFD +VIE TG+A P P+I+TF + E++ Q
Sbjct: 60 LTNGCICCSRSNELEDALLDLLDNLDKGNIQFDRLVIECTGMADPGPIIQTFFSHEVLCQ 119
Query: 59 YVKLDGVITLVDSKHAMQHLNEVKPRFVVNEAVEQVAYADRIILNKIDLVTETELGSLTE 118
LDGVI LVD+ HA + +N+ F + A QV YADRI+L K D+ E E L E
Sbjct: 120 RYLLDGVIALVDAVHADEQMNQ----FTI--AQSQVGYADRILLTKTDVAGEAE--KLHE 171
Query: 119 RIKHINAMAPVKLAKYGSVDMDFVLGVGGYDLERIDSEVHVDNXXXXXXXXXXXXXXXXX 178
R+ INA APV +G +D+ + G+ LE
Sbjct: 172 RLARINARAPVYTVTHGDIDLGLLFNTNGFMLEE------------------NVVSTKPR 213
Query: 179 XXXXXXXDSAVSSVTIVSEGTLDLDEVDDWLERLIEEKGEDLYRMKGILSVSGSEQQYVF 238
+ +SS+ + + +D+ EV +E L+ E + L R KG+L + G + +F
Sbjct: 214 FHFIADKQNDISSIVVELDYPVDISEVSRVMENLLLESADKLLRYKGMLWIDGEPNRLLF 273
Query: 239 QGVHSTLDGCPGKAWGPDEKRINKLVFIGRNLDETALRKGFKG 281
QGV + WG DEK + +VFIG L E +R F G
Sbjct: 274 QGVQRLYSADWDRPWG-DEKPHSTMVFIGIQLPEEEIRAAFAG 315
>pdb|4IXN|A Chain A, Crystal Structure Of Zn(ii)-bound E37a,c66a,c67a Triple
Mutant Yjia Gtpase
pdb|4IXN|B Chain B, Crystal Structure Of Zn(ii)-bound E37a,c66a,c67a Triple
Mutant Yjia Gtpase
Length = 318
Score = 137 bits (346), Expect = 5e-33, Method: Compositional matrix adjust.
Identities = 95/283 (33%), Positives = 137/283 (48%), Gaps = 30/283 (10%)
Query: 2 VNNGCLCCTVRGDLVKMLLQLAK---KKQGQFDHIVIETTGLAKPAPVIETFCTDELVSQ 58
+ NGC+ + +L LL L K QFD +VIE TG+A P P+I+TF + E++ Q
Sbjct: 60 LTNGCIAASRSNELEDALLDLLDNLDKGNIQFDRLVIECTGMADPGPIIQTFFSHEVLCQ 119
Query: 59 YVKLDGVITLVDSKHAMQHLNEVKPRFVVNEAVEQVAYADRIILNKIDLVTETELGSLTE 118
LDGVI LVD+ HA + +N+ F + A QV YADRI+L K D+ E E L E
Sbjct: 120 RYLLDGVIALVDAVHADEQMNQ----FTI--AQSQVGYADRILLTKTDVAGEAE--KLHE 171
Query: 119 RIKHINAMAPVKLAKYGSVDMDFVLGVGGYDLERIDSEVHVDNXXXXXXXXXXXXXXXXX 178
R+ INA APV +G +D+ + G+ LE
Sbjct: 172 RLARINARAPVYTVTHGDIDLGLLFNTNGFMLEE------------------NVVSTKPR 213
Query: 179 XXXXXXXDSAVSSVTIVSEGTLDLDEVDDWLERLIEEKGEDLYRMKGILSVSGSEQQYVF 238
+ +SS+ + + +D+ EV +E L+ E + L R KG+L + G + +F
Sbjct: 214 FHFIADKQNDISSIVVELDYPVDISEVSRVMENLLLESADKLLRYKGMLWIDGEPNRLLF 273
Query: 239 QGVHSTLDGCPGKAWGPDEKRINKLVFIGRNLDETALRKGFKG 281
QGV + WG DEK + +VFIG L E +R F G
Sbjct: 274 QGVQRLYSADWDRPWG-DEKPHSTMVFIGIQLPEEEIRAAFAG 315
>pdb|1WF3|A Chain A, Crystal Structure Of Gtp-Binding Protein Tt1341 From
Thermus Thermophilus Hb8
Length = 301
Score = 28.5 bits (62), Expect = 4.1, Method: Compositional matrix adjust.
Identities = 24/107 (22%), Positives = 46/107 (42%), Gaps = 14/107 (13%)
Query: 27 QGQFDHIVIETTGLAKPAPVIETFCTDELVSQYVKLDGVITLVDSKH-----------AM 75
+G+ + ++T GL KP + F E+ ++ V+ +VD +H A+
Sbjct: 52 EGRRQIVFVDTPGLHKPMDALGEFMDQEVYEALADVNAVVWVVDLRHPPTPEDELVARAL 111
Query: 76 QHLNEVKPRFVVNEAVEQVAYADRIILNKIDLVTETE---LGSLTER 119
+ L P +V ++ Y + + +L+ E E L +L ER
Sbjct: 112 KPLVGKVPILLVGNKLDAAKYPEEAMKAYHELLPEAEPRMLSALDER 158
>pdb|2E3D|A Chain A, Crystal Structure Of E. Coli Glucose-1-Phosphate
Uridylyltransferase
pdb|2E3D|B Chain B, Crystal Structure Of E. Coli Glucose-1-Phosphate
Uridylyltransferase
pdb|2E3D|C Chain C, Crystal Structure Of E. Coli Glucose-1-Phosphate
Uridylyltransferase
pdb|2E3D|D Chain D, Crystal Structure Of E. Coli Glucose-1-Phosphate
Uridylyltransferase
Length = 302
Score = 27.7 bits (60), Expect = 7.8, Method: Compositional matrix adjust.
Identities = 24/70 (34%), Positives = 37/70 (52%), Gaps = 6/70 (8%)
Query: 198 GTLDLDEVDDWLERLIEEKGEDLYRMKGILSVSGSE----QQYVFQGV-HSTLDGCPGKA 252
G D ++ D ++ LIE++ + Y MKG G++ Q +V G+ H+TL G KA
Sbjct: 234 GAGDEIQLTDAIDMLIEKETVEAYHMKGKSHDCGNKLGYMQAFVEYGIRHNTL-GTEFKA 292
Query: 253 WGPDEKRINK 262
W +E I K
Sbjct: 293 WLEEEMGIKK 302
>pdb|2K52|A Chain A, Structure Of Uncharacterized Protein Mj1198 From
Methanocaldococcus Jannaschii. Northeast Structural
Genomics Target Mjr117b
Length = 80
Score = 27.7 bits (60), Expect = 8.4, Method: Composition-based stats.
Identities = 16/52 (30%), Positives = 29/52 (55%), Gaps = 5/52 (9%)
Query: 64 GVITLVDSKHAMQHLNE-----VKPRFVVNEAVEQVAYADRIILNKIDLVTE 110
GV+T ++ A +LNE ++PR +++ +E + D II+ ID+ E
Sbjct: 11 GVVTRIEKYGAFINLNEQVRGLLRPRDMISLRLENLNVGDEIIVQAIDVRPE 62
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
0.318 0.137 0.397
Lambda K H
0.267 0.0410 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Hits to DB: 7,559,981
Number of Sequences: 62578
Number of extensions: 282994
Number of successful extensions: 848
Number of sequences better than 100.0: 10
Number of HSP's better than 100.0 without gapping: 3
Number of HSP's successfully gapped in prelim test: 7
Number of HSP's that attempted gapping in prelim test: 836
Number of HSP's gapped (non-prelim): 12
length of query: 284
length of database: 14,973,337
effective HSP length: 98
effective length of query: 186
effective length of database: 8,840,693
effective search space: 1644368898
effective search space used: 1644368898
T: 11
A: 40
X1: 16 ( 7.3 bits)
X2: 38 (14.6 bits)
X3: 64 (24.7 bits)
S1: 41 (21.7 bits)
S2: 51 (24.3 bits)