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= psy2348
(131 letters)
Database: pdbaa
62,578 sequences; 14,973,337 total letters
Searching..................................................done
>pdb|3RDW|A Chain A, Putative Arsenate Reductase From Yersinia Pestis
pdb|3RDW|B Chain B, Putative Arsenate Reductase From Yersinia Pestis
Length = 121
Score = 27.3 bits (59), Expect = 2.1, Method: Compositional matrix adjust.
Identities = 23/76 (30%), Positives = 41/76 (53%), Gaps = 7/76 (9%)
Query: 9 EVLVHLDLKGAPPSLTYLKEILPILAYTGATSLLIEWEDTLPYSLGFDNTNPFRETEIFI 68
+V+++L+ PPS+ LKE+L L ++ A L+ ED L +L D+ T+ +
Sbjct: 33 QVVLYLE---TPPSVDKLKELLQQLGFSDARQLMRTKED-LYKTLNLDDRG---LTQDQL 85
Query: 69 ILAAAESNGLASIPLV 84
+ A A++ L P+V
Sbjct: 86 LQAMADNPKLIERPIV 101
>pdb|3IZR|E Chain E, Localization Of The Large Subunit Ribosomal Proteins Into
A 5.5 A Cryo-Em Map Of Triticum Aestivum Translating 80s
Ribosome
Length = 180
Score = 26.2 bits (56), Expect = 5.7, Method: Compositional matrix adjust.
Identities = 13/32 (40%), Positives = 19/32 (59%)
Query: 94 LKVKEFAKMRQNFNDTRFICPNARSSLDLVFK 125
LKVKE+ +R+NF+DT + +DL K
Sbjct: 86 LKVKEYELLRRNFSDTGCFGFGIQEHIDLGMK 117
>pdb|3PHA|A Chain A, The Crystal Structure Of The W169y Mutant Of
Alpha-Glucosidase (Gh31 Family) From Ruminococcus Obeum
Atcc 29174 In Complex With Acarbose
pdb|3PHA|B Chain B, The Crystal Structure Of The W169y Mutant Of
Alpha-Glucosidase (Gh31 Family) From Ruminococcus Obeum
Atcc 29174 In Complex With Acarbose
pdb|3PHA|C Chain C, The Crystal Structure Of The W169y Mutant Of
Alpha-Glucosidase (Gh31 Family) From Ruminococcus Obeum
Atcc 29174 In Complex With Acarbose
pdb|3PHA|D Chain D, The Crystal Structure Of The W169y Mutant Of
Alpha-Glucosidase (Gh31 Family) From Ruminococcus Obeum
Atcc 29174 In Complex With Acarbose
Length = 667
Score = 25.8 bits (55), Expect = 7.1, Method: Composition-based stats.
Identities = 10/28 (35%), Positives = 17/28 (60%)
Query: 81 IPLVPLYSDMDFVLKVKEFAKMRQNFND 108
IP+ +Y D+D++ K+F +NF D
Sbjct: 192 IPIDMIYMDIDYMQDFKDFTVNEKNFPD 219
>pdb|3NUK|A Chain A, The Crystal Structure Of The W169y Mutant Of
Alpha-Glucosidase (Family 31) From Ruminococcus Obeum
Atcc 29174
pdb|3NUK|B Chain B, The Crystal Structure Of The W169y Mutant Of
Alpha-Glucosidase (Family 31) From Ruminococcus Obeum
Atcc 29174
Length = 666
Score = 25.8 bits (55), Expect = 7.1, Method: Composition-based stats.
Identities = 10/28 (35%), Positives = 17/28 (60%)
Query: 81 IPLVPLYSDMDFVLKVKEFAKMRQNFND 108
IP+ +Y D+D++ K+F +NF D
Sbjct: 192 IPIDMIYMDIDYMQDFKDFTVNEKNFPD 219
>pdb|3NSX|A Chain A, The Crystal Structure Of The The Crystal Structure Of The
D420a Mutant Of The Alpha-Glucosidase (Family 31) From
Ruminococcus Obeum Atcc 29174
pdb|3NSX|B Chain B, The Crystal Structure Of The The Crystal Structure Of The
D420a Mutant Of The Alpha-Glucosidase (Family 31) From
Ruminococcus Obeum Atcc 29174
Length = 666
Score = 25.8 bits (55), Expect = 7.1, Method: Composition-based stats.
Identities = 10/28 (35%), Positives = 17/28 (60%)
Query: 81 IPLVPLYSDMDFVLKVKEFAKMRQNFND 108
IP+ +Y D+D++ K+F +NF D
Sbjct: 192 IPIDMIYMDIDYMQDFKDFTVNEKNFPD 219
>pdb|3M6D|A Chain A, The Crystal Structure Of The D307a Mutant Of Glycoside
Hydrolase (Family 31) From Ruminococcus Obeum Atcc 29174
pdb|3M6D|B Chain B, The Crystal Structure Of The D307a Mutant Of Glycoside
Hydrolase (Family 31) From Ruminococcus Obeum Atcc 29174
pdb|3MKK|A Chain A, The Crystal Structure Of The D307a Mutant Of Glycoside
Hydrolase (Family 31) From Ruminococcus Obeum Atcc 29174
In Complex With Isomaltose
pdb|3MKK|B Chain B, The Crystal Structure Of The D307a Mutant Of Glycoside
Hydrolase (Family 31) From Ruminococcus Obeum Atcc 29174
In Complex With Isomaltose
pdb|3POC|A Chain A, The Crystal Structure Of The D307a Mutant Of
Alpha-Glucosidase (Family 31) From Ruminococcus Obeum
Atcc 29174 In Complex With Acarbose
pdb|3POC|B Chain B, The Crystal Structure Of The D307a Mutant Of
Alpha-Glucosidase (Family 31) From Ruminococcus Obeum
Atcc 29174 In Complex With Acarbose
Length = 666
Score = 25.8 bits (55), Expect = 7.1, Method: Composition-based stats.
Identities = 10/28 (35%), Positives = 17/28 (60%)
Query: 81 IPLVPLYSDMDFVLKVKEFAKMRQNFND 108
IP+ +Y D+D++ K+F +NF D
Sbjct: 192 IPIDMIYMDIDYMQDFKDFTVNEKNFPD 219
>pdb|3M46|A Chain A, The Crystal Structure Of The D73a Mutant Of Glycoside
Hydrolase (Family 31) From Ruminococcus Obeum Atcc 29174
pdb|3M46|B Chain B, The Crystal Structure Of The D73a Mutant Of Glycoside
Hydrolase (Family 31) From Ruminococcus Obeum Atcc 29174
Length = 666
Score = 25.8 bits (55), Expect = 7.1, Method: Composition-based stats.
Identities = 10/28 (35%), Positives = 17/28 (60%)
Query: 81 IPLVPLYSDMDFVLKVKEFAKMRQNFND 108
IP+ +Y D+D++ K+F +NF D
Sbjct: 192 IPIDMIYMDIDYMQDFKDFTVNEKNFPD 219
>pdb|2J1L|A Chain A, Crystal Structure Of Human Rho-Related Gtp-Binding Protein
Rhod
Length = 214
Score = 25.4 bits (54), Expect = 8.7, Method: Compositional matrix adjust.
Identities = 21/62 (33%), Positives = 31/62 (50%), Gaps = 9/62 (14%)
Query: 3 TPSTFKEVLVHLDLKGAPPSLTYLK-------EILPILAYTGATSLLIEWEDTLPYSLGF 55
TP+ F+ +V+L +KG P L + L L Y A+ LL+ ++ T P S F
Sbjct: 64 TPTVFERYMVNLQVKGKPVHLHIWDTAGQDDYDRLRPLFYPDASVLLLCFDVTSPNS--F 121
Query: 56 DN 57
DN
Sbjct: 122 DN 123
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
0.323 0.139 0.409
Lambda K H
0.267 0.0410 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Hits to DB: 3,729,918
Number of Sequences: 62578
Number of extensions: 139655
Number of successful extensions: 187
Number of sequences better than 100.0: 11
Number of HSP's better than 100.0 without gapping: 9
Number of HSP's successfully gapped in prelim test: 2
Number of HSP's that attempted gapping in prelim test: 178
Number of HSP's gapped (non-prelim): 11
length of query: 131
length of database: 14,973,337
effective HSP length: 88
effective length of query: 43
effective length of database: 9,466,473
effective search space: 407058339
effective search space used: 407058339
T: 11
A: 40
X1: 16 ( 7.5 bits)
X2: 38 (14.6 bits)
X3: 64 (24.7 bits)
S1: 41 (21.9 bits)
S2: 46 (22.3 bits)