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= 037212
(551 letters)
Database: pdbaa
62,578 sequences; 14,973,337 total letters
Searching..................................................done
>pdb|3VNY|A Chain A, Crystal Structure Of Beta-Glucuronidase From
Acidobacterium Capsulatum
pdb|3VNZ|A Chain A, Crystal Structure Of Beta-Glucuronidase From
Acidobacterium Capsulatum In Complex With D-Glucuronic
Acid
pdb|3VO0|A Chain A, Crystal Structure Of Beta-Glucuronidase From
Acidobacterium Capsulatum Covalent-Bonded With
2-Deoxy-2-Fluoro-D-Glucuronic Acid
Length = 488
Score = 42.7 bits (99), Expect = 6e-04, Method: Compositional matrix adjust.
Identities = 56/264 (21%), Positives = 101/264 (38%), Gaps = 31/264 (11%)
Query: 140 CLTMRRWDELNIFFRRAGAVVTFGLNALRGRIIQSDGSARGAWDSSNAESLMRYTVNKGY 199
+T + L+ F + G + +GLN +G + A ++ A+ L+ +
Sbjct: 115 VITPEAVNNLSEFLDKTGWKLIYGLNLGKGTPENAADEAAYVMETIGADRLLAF------ 168
Query: 200 KIYGWELGNE---LSGNGVGARIGADQYASDVDRLQSIVQNIYKGFKIKPLIIAPGGFFD 256
+LGNE NG+ R + +A+ Q I K P P ++
Sbjct: 169 -----QLGNEPDLFYRNGI--RPASYDFAAYAGDWQRFFTAIRKRVPNAPFA-GPDTAYN 220
Query: 257 ANWFKEFIDKTPNSLQVVTHHIYNLGPGVDDRL-IDKILDPSFLNSGSEPFSSLQSILRS 315
W F DK + ++ ++ H Y GP D + I++++ P+ G + L+ +
Sbjct: 221 TKWLVPFADKFKHDVKFISSHYYAEGPPTDPSMTIERLMKPNPRLLGET--AGLKQV--E 276
Query: 316 SATSAVAWVGEAGGAYNSGHNLVTNAFVFSFWYLDQLGMASIYGTKTYCRQTLIGGNYGL 375
+ T + E Y G V++ F + W D + + G+ GG YG
Sbjct: 277 ADTGLPFRLTETNSCYQGGKQGVSDTFAAALWAGDLMYQQAAAGSTGI---NFHGGGYGW 333
Query: 376 LN------TNTFVPNPGYYSALLW 393
+ F+ P YY LL+
Sbjct: 334 YTPVAGTPEDGFIARPEYYGMLLF 357
>pdb|2Y2W|A Chain A, Elucidation Of The Substrate Specificity And Protein
Structure Of Abfb, A Family 51
Alpha-L-Arabinofuranosidase From Bifidobacterium Longum.
pdb|2Y2W|B Chain B, Elucidation Of The Substrate Specificity And Protein
Structure Of Abfb, A Family 51
Alpha-L-Arabinofuranosidase From Bifidobacterium Longum.
pdb|2Y2W|C Chain C, Elucidation Of The Substrate Specificity And Protein
Structure Of Abfb, A Family 51
Alpha-L-Arabinofuranosidase From Bifidobacterium Longum.
pdb|2Y2W|D Chain D, Elucidation Of The Substrate Specificity And Protein
Structure Of Abfb, A Family 51
Alpha-L-Arabinofuranosidase From Bifidobacterium Longum.
pdb|2Y2W|E Chain E, Elucidation Of The Substrate Specificity And Protein
Structure Of Abfb, A Family 51
Alpha-L-Arabinofuranosidase From Bifidobacterium Longum.
pdb|2Y2W|F Chain F, Elucidation Of The Substrate Specificity And Protein
Structure Of Abfb, A Family 51
Alpha-L-Arabinofuranosidase From Bifidobacterium Longum
Length = 574
Score = 33.9 bits (76), Expect = 0.22, Method: Compositional matrix adjust.
Identities = 42/193 (21%), Positives = 76/193 (39%), Gaps = 17/193 (8%)
Query: 161 TFGLNALRGRIIQSDGSARGAWDSSNAESLMRYTVNKGYKIYGWELGNELSGNGVGARIG 220
T GL A + +G+ AW A+ + + + I W +GNE+ G +
Sbjct: 171 TRGLKAALDELEYVNGAPGTAW----ADQRVANGIEEPMDIKMWCIGNEMDGPWQVGHMS 226
Query: 221 ADQYASDVDRLQSIVQNIYKGFKIKPLIIAPGGFFDA--NWFKEFIDKTPNSLQVVTHHI 278
++YA VD++ ++ G ++ + G + W K + K +L V+ H
Sbjct: 227 PEEYAGAVDKVAHAMKLAESGLELV-ACGSSGAYMPTFGTWEKTVLTKAYENLDFVSCHA 285
Query: 279 YNLGPGVDDRLIDKILDPSFLNSGSEPFSSLQSILRSSATSAVAWVGEAGGAYNSGHNLV 338
Y G R + D FL S SE + + + +A +A A N ++
Sbjct: 286 YYFDRGHKTRAAASMQD--FLAS-SEDMTKFIATVSDAA-------DQAREANNGTKDIA 335
Query: 339 TNAFVFSFWYLDQ 351
+ + WY D+
Sbjct: 336 LSFDEWGVWYSDK 348
>pdb|2X27|X Chain X, Crystal Structure Of The Outer Membrane Protein Oprg From
Pseudomonas Aeruginosa
Length = 212
Score = 29.6 bits (65), Expect = 4.6, Method: Compositional matrix adjust.
Identities = 36/130 (27%), Positives = 52/130 (40%), Gaps = 28/130 (21%)
Query: 255 FDANWFKEFIDKTPNSLQVVTHHIYNLGPGVDDRLID-KILDPSFL---------NSGSE 304
F W E + TP + QV + LGPG+D +L D K L P+ L NS +
Sbjct: 56 FADKWGVELVAATPFNHQV---DVKGLGPGLDGKLADIKQLPPTLLLQYYPMGGTNSAFQ 112
Query: 305 PF------------SSLQSILRSSATSAVAWVGEAGGAYNSGHNLVTNA---FVFSFWYL 349
P+ L S ++ S++ G A G + + N F + WY+
Sbjct: 113 PYGGLGVNYTTFFDEDLASNRKAQGFSSMKLQDSWGLAGELGFDYMLNEHALFNMAVWYM 172
Query: 350 DQLGMASIYG 359
D ASI G
Sbjct: 173 DIDTKASING 182
>pdb|3QYC|A Chain A, Structure Of A Dimeric Anti-Her2 Single Domain Antibody
pdb|3QYC|B Chain B, Structure Of A Dimeric Anti-Her2 Single Domain Antibody
Length = 146
Score = 28.9 bits (63), Expect = 8.0, Method: Compositional matrix adjust.
Identities = 21/66 (31%), Positives = 32/66 (48%), Gaps = 3/66 (4%)
Query: 17 AGHSSFIADSPSR--TASGNVIEGTVFINGTVAIAKTDDNFICATL-DWWPPDKCDYGTC 73
+G S++ ADS T S + + TV++ A+ + C TL D P D C Y
Sbjct: 56 SGGSTYYADSVKGRFTISRDNSKNTVYLQMNSLRAEDTAVYYCVTLPDLCPGDNCTYPDA 115
Query: 74 SWGRAS 79
SWG+ +
Sbjct: 116 SWGQGT 121
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
0.319 0.135 0.413
Lambda K H
0.267 0.0410 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Hits to DB: 15,900,261
Number of Sequences: 62578
Number of extensions: 654920
Number of successful extensions: 1446
Number of sequences better than 100.0: 8
Number of HSP's better than 100.0 without gapping: 4
Number of HSP's successfully gapped in prelim test: 4
Number of HSP's that attempted gapping in prelim test: 1438
Number of HSP's gapped (non-prelim): 12
length of query: 551
length of database: 14,973,337
effective HSP length: 104
effective length of query: 447
effective length of database: 8,465,225
effective search space: 3783955575
effective search space used: 3783955575
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: 54 (25.4 bits)