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= 039308
(312 letters)
Database: pdbaa
62,578 sequences; 14,973,337 total letters
Searching..................................................done
>pdb|2I5Q|A Chain A, Crystal Structure Of Apo L-Rhamnonate Dehydratase From
Escherichia Coli
pdb|2I5Q|B Chain B, Crystal Structure Of Apo L-Rhamnonate Dehydratase From
Escherichia Coli
Length = 415
Score = 30.8 bits (68), Expect = 0.94, Method: Compositional matrix adjust.
Identities = 27/96 (28%), Positives = 43/96 (44%), Gaps = 7/96 (7%)
Query: 108 DGGANDYIV-ALTTNSSVLRSIYSKKQYVDMVIGNLTTIVKEIYKKGGRK-FGILNLGPM 165
D GAN +I + T S R +Q + + L T+V E+ + G+ F + G M
Sbjct: 36 DQGANHWIDDHIATPMSKYRDYEQLRQSFGINV--LGTLVVEVEAENGQTGFAVSTAGEM 93
Query: 166 GCVPAMKELVPSFSGSCLEDGVELPKLHNKALSKAL 201
GC K L G C+ D + +H++ L+ L
Sbjct: 94 GCFIVEKHLNRFIEGKCVSD---IKLIHDQMLNATL 126
>pdb|1YBF|A Chain A, Crystal Structure Of Amp Nucleosidase From Bacteroides
Thetaiotaomicron Vpi-5482
pdb|1YBF|B Chain B, Crystal Structure Of Amp Nucleosidase From Bacteroides
Thetaiotaomicron Vpi-5482
pdb|1YBF|C Chain C, Crystal Structure Of Amp Nucleosidase From Bacteroides
Thetaiotaomicron Vpi-5482
Length = 268
Score = 29.6 bits (65), Expect = 2.4, Method: Compositional matrix adjust.
Identities = 37/130 (28%), Positives = 59/130 (45%), Gaps = 11/130 (8%)
Query: 29 AEYAKLPLI--PTFLPSINQEFTSGVNFASGGAGALTETHQGLAISLKTQVSNFKIVETQ 86
AE+ +P++ T P+ + E + +NF G A A T AI K + K +
Sbjct: 42 AEHYGVPIVGEHTSXPNASAEGVTLINFGXGSANAATIXDLLWAIHPKAVIFLGKCGGLK 101
Query: 87 LKQKLGDAAAKTLVSNAVSLLDGGANDYI---VALTTNSSVLRSIYSKKQY--VDMVIGN 141
L+ LGD L+ A +G +NDY+ V + SVLR+I S Q D G
Sbjct: 102 LENALGD----YLLPIAAIRGEGTSNDYLPEEVPSLPSFSVLRAISSAIQNKGKDYWTGT 157
Query: 142 LTTIVKEIYK 151
+ T + +++
Sbjct: 158 VYTTNRRVWE 167
>pdb|2VPT|A Chain A, Clostridium Thermocellum Family 3 Carbohydrate Esterase
Length = 215
Score = 28.9 bits (63), Expect = 3.4, Method: Compositional matrix adjust.
Identities = 18/51 (35%), Positives = 27/51 (52%)
Query: 258 IKEYEICDDPDEYVFFDSLHLSEKANKQIAKLIWSGTPDVTRPYNLKTLFE 308
+K EI D + + +D LHLSE K+IA + + T D+ R +T E
Sbjct: 159 VKLSEIQFDRNTDISWDGLHLSEIGYKKIANIWYKYTIDILRALAGETQLE 209
>pdb|3KVN|X Chain X, Crystal Structure Of The Full-Length Autotransporter Esta
From Pseudomonas Aeruginosa
pdb|3KVN|A Chain A, Crystal Structure Of The Full-Length Autotransporter Esta
From Pseudomonas Aeruginosa
Length = 632
Score = 28.1 bits (61), Expect = 6.6, Method: Compositional matrix adjust.
Identities = 65/277 (23%), Positives = 105/277 (37%), Gaps = 47/277 (16%)
Query: 46 QEFTSGVNFASGGAGALTETHQGLAISLKTQVSNFKIVE---TQLKQKLG---DAAAKTL 99
Q G N+A GG T Q I +N ++E T L+ + G D A + L
Sbjct: 90 QGIADGNNWAVGG----YRTDQ---IYDSITAANGSLIERDNTLLRSRDGYLVDRARQGL 142
Query: 100 VS--NAVSLLDGGANDYIVALTTNSSVLRSIYSKKQYVDMVIGNLTTIVKEIYKKGGRKF 157
+ NA+ + GG ND++ +L + +++ G L V+ + + G R
Sbjct: 143 GADPNALYYITGGGNDFL-----QGRILNDVQAQQ-----AAGRLVDSVQALQQAGARYI 192
Query: 158 GILNLGPMGCVPAMKELVPSFSGSCLEDGVELPKLHNKALSKALVQLESQLKGIVYANHD 217
+ L +G PA +F G +L N L+ L Q AN
Sbjct: 193 VVWLLPDLGLTPA------TFGGPLQPFASQLSGTFNAELTAQLSQ--------AGANVI 238
Query: 218 SYNSIL---NRINNPSKYGFKEATACCGTGPFRGLSSCGGKRGIKEYEICDDPDEYVFFD 274
N L + NP+ +G GT F G + C DP + +F D
Sbjct: 239 PLNIPLLLKEGMANPASFGLAADQNLIGT-CFSG-NGCTMNPTYGINGSTPDPSKLLFND 296
Query: 275 SLHLSEKANKQIAKLIWSGTPDVTRPYNLKTLFELTY 311
S+H + + IA +S ++ P+ L L E+ +
Sbjct: 297 SVHPTITGQRLIADYTYS---LLSAPWELTLLPEMAH 330
>pdb|2FYW|A Chain A, Crystal Structure Of A Conserved Protein Of Unknown
Function From Streptococcus Pneumoniae
pdb|2FYW|B Chain B, Crystal Structure Of A Conserved Protein Of Unknown
Function From Streptococcus Pneumoniae
pdb|2FYW|C Chain C, Crystal Structure Of A Conserved Protein Of Unknown
Function From Streptococcus Pneumoniae
Length = 267
Score = 28.1 bits (61), Expect = 7.0, Method: Compositional matrix adjust.
Identities = 18/67 (26%), Positives = 30/67 (44%), Gaps = 2/67 (2%)
Query: 212 VYANHDSYNSILNRINNP--SKYGFKEATACCGTGPFRGLSSCGGKRGIKEYEICDDPDE 269
VY +H + + + N +N+ G +E T TGP RG+ G + +E+ +
Sbjct: 97 VYVSHTNIDIVENGLNDWFCQXLGIEETTYLQETGPERGIGRIGNIQPQTFWELAQQVKQ 156
Query: 270 YVFFDSL 276
DSL
Sbjct: 157 VFDLDSL 163
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
0.317 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: 9,587,798
Number of Sequences: 62578
Number of extensions: 400869
Number of successful extensions: 850
Number of sequences better than 100.0: 14
Number of HSP's better than 100.0 without gapping: 5
Number of HSP's successfully gapped in prelim test: 9
Number of HSP's that attempted gapping in prelim test: 845
Number of HSP's gapped (non-prelim): 14
length of query: 312
length of database: 14,973,337
effective HSP length: 99
effective length of query: 213
effective length of database: 8,778,115
effective search space: 1869738495
effective search space used: 1869738495
T: 11
A: 40
X1: 16 ( 7.3 bits)
X2: 38 (14.6 bits)
X3: 64 (24.7 bits)
S1: 41 (21.6 bits)
S2: 51 (24.3 bits)