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= psy9123
(118 letters)
Database: pdbaa
62,578 sequences; 14,973,337 total letters
Searching..................................................done
>pdb|2I7X|A Chain A, Structure Of Yeast Cpsf-100 (Ydh1p)
Length = 717
Score = 33.9 bits (76), Expect = 0.025, Method: Compositional matrix adjust.
Identities = 20/64 (31%), Positives = 31/64 (48%), Gaps = 4/64 (6%)
Query: 46 KNQNESGSVLVPCYPSGVIYDLF----ECLSSHLDNSSLTQIPMFFISPVADISLAYSNI 101
K + GSV++P SG DLF E L ++ TQ+P+ +S +L Y+
Sbjct: 236 KGLSSDGSVIIPVDMSGKFLDLFTQVHELLFESTKINAHTQVPVLILSYARGRTLTYAKS 295
Query: 102 LAEW 105
+ EW
Sbjct: 296 MLEW 299
>pdb|2BF6|A Chain A, Atomic Resolution Structure Of The Bacterial Sialidase
Nani From Clostridium Perfringens In Complex With
Alpha-Sialic Acid (Neu5ac)
Length = 449
Score = 28.5 bits (62), Expect = 1.0, Method: Compositional matrix adjust.
Identities = 21/80 (26%), Positives = 34/80 (42%), Gaps = 21/80 (26%)
Query: 1 MFQNGDNLDSLIASTA--SSNGQSKIAVLLHSDLN---------NITCDEKWMR------ 43
+F+NG +D++ +STA + G S I ++ D N + WM+
Sbjct: 164 LFKNGTKIDNINSSTAPLKAKGTSYINLVYSDDDGKTWSEPQNINFQVKKDWMKFLGIAP 223
Query: 44 ----DIKNQNESGSVLVPCY 59
IKN G ++VP Y
Sbjct: 224 GRGIQIKNGEHKGRIVVPVY 243
>pdb|2VK5|A Chain A, The Structure Of Clostridium Perfringens Nani Sialidase
And Its Catalytic Intermediates
pdb|2VK6|A Chain A, The Structure Of Clostridium Perfringens Nani Sialidase
And Its Catalytic Intermediates
pdb|2VK7|A Chain A, The Structure Of Clostridium Perfringens Nani Sialidase
And Its Catalytic Intermediates
pdb|2VK7|B Chain B, The Structure Of Clostridium Perfringens Nani Sialidase
And Its Catalytic Intermediates
Length = 452
Score = 28.5 bits (62), Expect = 1.1, Method: Compositional matrix adjust.
Identities = 21/80 (26%), Positives = 34/80 (42%), Gaps = 21/80 (26%)
Query: 1 MFQNGDNLDSLIASTA--SSNGQSKIAVLLHSDLN---------NITCDEKWMR------ 43
+F+NG +D++ +STA + G S I ++ D N + WM+
Sbjct: 164 LFKNGTKIDNINSSTAPLKAKGTSYINLVYSDDDGKTWSEPQNINFQVKKDWMKFLGIAP 223
Query: 44 ----DIKNQNESGSVLVPCY 59
IKN G ++VP Y
Sbjct: 224 GRGIQIKNGEHKGRIVVPVY 243
>pdb|2O2C|A Chain A, Crystal Structure Of Phosphoglucose Isomerase From T.
Brucei Containing Glucose-6-Phosphate In The Active Site
pdb|2O2C|B Chain B, Crystal Structure Of Phosphoglucose Isomerase From T.
Brucei Containing Glucose-6-Phosphate In The Active Site
pdb|2O2C|C Chain C, Crystal Structure Of Phosphoglucose Isomerase From T.
Brucei Containing Glucose-6-Phosphate In The Active Site
pdb|2O2D|A Chain A, Crystal Structure Of Phosphoglucose Isomerase From
Trypanosoma Brucei Complexed With Citrate
pdb|2O2D|B Chain B, Crystal Structure Of Phosphoglucose Isomerase From
Trypanosoma Brucei Complexed With Citrate
pdb|2O2D|C Chain C, Crystal Structure Of Phosphoglucose Isomerase From
Trypanosoma Brucei Complexed With Citrate
Length = 613
Score = 27.3 bits (59), Expect = 2.1, Method: Composition-based stats.
Identities = 15/42 (35%), Positives = 23/42 (54%), Gaps = 2/42 (4%)
Query: 11 LIASTASSNGQSKIAVLLHSDLNNITCDEKWMRDIKNQNESG 52
+I A +NGQ L+H N I CD ++ I++QN+ G
Sbjct: 431 IIFGEAGTNGQHAFYQLIHQGTNLIPCD--FIGAIQSQNKIG 470
>pdb|3SJ7|A Chain A, Structure Of Beta-Ketoacetyl-Coa Reductase (Fabg) From
Staphylococcus Aureus Complex With Nadph
pdb|3SJ7|B Chain B, Structure Of Beta-Ketoacetyl-Coa Reductase (Fabg) From
Staphylococcus Aureus Complex With Nadph
Length = 252
Score = 26.9 bits (58), Expect = 2.6, Method: Compositional matrix adjust.
Identities = 12/36 (33%), Positives = 18/36 (50%)
Query: 60 PSGVIYDLFECLSSHLDNSSLTQIPMFFISPVADIS 95
P ++ D+ + LS L LTQIP+ DI+
Sbjct: 190 PGFIVSDMTDALSDELKEQMLTQIPLARFGQDTDIA 225
>pdb|2Z8R|A Chain A, Crystal Structure Of Rhamnogalacturonan Lyase Yesw At 1.40
A Resolution
pdb|2Z8R|B Chain B, Crystal Structure Of Rhamnogalacturonan Lyase Yesw At 1.40
A Resolution
pdb|2Z8S|A Chain A, Crystal Structure Of Rhamnogalacturonan Lyase Yesw
Complexed With Digalacturonic Acid
pdb|2Z8S|B Chain B, Crystal Structure Of Rhamnogalacturonan Lyase Yesw
Complexed With Digalacturonic Acid
pdb|2ZUX|A Chain A, Crystal Structure Of Rhamnogalacturonan Lyase Yesw
Complexed With Rhamnose
pdb|2ZUX|B Chain B, Crystal Structure Of Rhamnogalacturonan Lyase Yesw
Complexed With Rhamnose
Length = 591
Score = 25.4 bits (54), Expect = 7.6, Method: Composition-based stats.
Identities = 16/54 (29%), Positives = 26/54 (48%), Gaps = 5/54 (9%)
Query: 2 FQNGDNLDSLIASTASSNGQSKIAVLLHSDLNNITCDEKWMRDIKNQNESGSVL 55
+QNG + + L AS A++N +K L +DL W ++ + E S L
Sbjct: 477 YQNGVSKNMLTASGAAANNGTKATPTLQADLLG-----DWREEVVWRTEDSSAL 525
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
0.315 0.130 0.381
Lambda K H
0.267 0.0410 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Hits to DB: 3,347,847
Number of Sequences: 62578
Number of extensions: 118837
Number of successful extensions: 257
Number of sequences better than 100.0: 9
Number of HSP's better than 100.0 without gapping: 3
Number of HSP's successfully gapped in prelim test: 6
Number of HSP's that attempted gapping in prelim test: 253
Number of HSP's gapped (non-prelim): 9
length of query: 118
length of database: 14,973,337
effective HSP length: 81
effective length of query: 37
effective length of database: 9,904,519
effective search space: 366467203
effective search space used: 366467203
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: 45 (21.9 bits)