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= 017684
(368 letters)
Database: pdbaa
62,578 sequences; 14,973,337 total letters
Searching..................................................done
>pdb|4FLN|A Chain A, Crystal Structure Of Plant Protease Deg2
pdb|4FLN|B Chain B, Crystal Structure Of Plant Protease Deg2
pdb|4FLN|C Chain C, Crystal Structure Of Plant Protease Deg2
Length = 539
Score = 32.3 bits (72), Expect = 0.47, Method: Compositional matrix adjust.
Identities = 21/68 (30%), Positives = 30/68 (44%), Gaps = 2/68 (2%)
Query: 65 PTRRPTGRFSNGLNIPDFISQHIGSEPTLPYLSPELTGSRLLVGANFAS--AGIGILNDT 122
PT + G I F H+G E T+P+ S E R L+ FA A IGI+
Sbjct: 286 PTSDASKVLKEGDVIVSFDDLHVGCEGTVPFRSSERIAFRYLISQKFAGDIAEIGIIRAG 345
Query: 123 GIQFVNII 130
+ V ++
Sbjct: 346 EHKKVQVV 353
>pdb|3U9U|E Chain E, Crystal Structure Of Extracellular Domain Of Human
Erbb4HER4 IN Complex With The Fab Fragment Of Mab1479
pdb|3U9U|F Chain F, Crystal Structure Of Extracellular Domain Of Human
Erbb4HER4 IN Complex With The Fab Fragment Of Mab1479
Length = 625
Score = 32.0 bits (71), Expect = 0.53, Method: Compositional matrix adjust.
Identities = 19/72 (26%), Positives = 36/72 (50%), Gaps = 9/72 (12%)
Query: 251 LYNPQLVQLVKDLNSQYGSEIFVAVNTGKMQYNFISNPRAF--GFTTSKVACCGQGPYNG 308
+YNP QL + N++Y + A K +NF+ + + +SK+ + NG
Sbjct: 242 VYNPTTFQLEHNFNAKY---TYGAFCVKKCPHNFVVDSSSCVRACPSSKM----EVEENG 294
Query: 309 LGLCTPASNLCP 320
+ +C P +++CP
Sbjct: 295 IKMCKPCTDICP 306
>pdb|3U7U|A Chain A, Crystal Structure Of Extracellular Region Of Human
Epidermal Growth Factor Receptor 4 In Complex With
Neuregulin-1 Beta
pdb|3U7U|B Chain B, Crystal Structure Of Extracellular Region Of Human
Epidermal Growth Factor Receptor 4 In Complex With
Neuregulin-1 Beta
pdb|3U7U|C Chain C, Crystal Structure Of Extracellular Region Of Human
Epidermal Growth Factor Receptor 4 In Complex With
Neuregulin-1 Beta
pdb|3U7U|D Chain D, Crystal Structure Of Extracellular Region Of Human
Epidermal Growth Factor Receptor 4 In Complex With
Neuregulin-1 Beta
pdb|3U7U|E Chain E, Crystal Structure Of Extracellular Region Of Human
Epidermal Growth Factor Receptor 4 In Complex With
Neuregulin-1 Beta
pdb|3U7U|F Chain F, Crystal Structure Of Extracellular Region Of Human
Epidermal Growth Factor Receptor 4 In Complex With
Neuregulin-1 Beta
Length = 615
Score = 32.0 bits (71), Expect = 0.54, Method: Compositional matrix adjust.
Identities = 19/72 (26%), Positives = 36/72 (50%), Gaps = 9/72 (12%)
Query: 251 LYNPQLVQLVKDLNSQYGSEIFVAVNTGKMQYNFISNPRAF--GFTTSKVACCGQGPYNG 308
+YNP QL + N++Y + A K +NF+ + + +SK+ + NG
Sbjct: 242 VYNPTTFQLEHNFNAKY---TYGAFCVKKCPHNFVVDSSSCVRACPSSKM----EVEENG 294
Query: 309 LGLCTPASNLCP 320
+ +C P +++CP
Sbjct: 295 IKMCKPCTDICP 306
>pdb|2AHX|A Chain A, Crystal Structure Of Erbb4HER4 EXTRACELLULAR DOMAIN
pdb|2AHX|B Chain B, Crystal Structure Of Erbb4HER4 EXTRACELLULAR DOMAIN
Length = 617
Score = 32.0 bits (71), Expect = 0.55, Method: Compositional matrix adjust.
Identities = 19/72 (26%), Positives = 36/72 (50%), Gaps = 9/72 (12%)
Query: 251 LYNPQLVQLVKDLNSQYGSEIFVAVNTGKMQYNFISNPRAF--GFTTSKVACCGQGPYNG 308
+YNP QL + N++Y + A K +NF+ + + +SK+ + NG
Sbjct: 243 VYNPTTFQLEHNFNAKY---TYGAFCVKKCPHNFVVDSSSCVRACPSSKM----EVEENG 295
Query: 309 LGLCTPASNLCP 320
+ +C P +++CP
Sbjct: 296 IKMCKPCTDICP 307
>pdb|3EBI|A Chain A, Structure Of The M1 Alanylaminopeptidase From Malaria
Complexed With The Phosphinate Dipeptide Analog
Length = 890
Score = 32.0 bits (71), Expect = 0.57, Method: Compositional matrix adjust.
Identities = 19/67 (28%), Positives = 36/67 (53%), Gaps = 1/67 (1%)
Query: 149 LIGPQRTKQLVNGALILITVGGNDFV-NNYYLVPYSARSRQFSLPDYVKYVISEYRKLLT 207
LI P+ K++++ + +T + FV NN + P + R FS P Y++ +++ ++L
Sbjct: 501 LINPENGKEMISQTTLELTKESDTFVFNNIAVKPIPSLFRGFSAPVYIEDQLTDEERILL 560
Query: 208 RLYDLGA 214
YD A
Sbjct: 561 LKYDSDA 567
>pdb|3EBG|A Chain A, Structure Of The M1 Alanylaminopeptidase From Malaria
pdb|3EBH|A Chain A, Structure Of The M1 Alanylaminopeptidase From Malaria
Complexed With Bestatin
Length = 889
Score = 32.0 bits (71), Expect = 0.57, Method: Compositional matrix adjust.
Identities = 19/67 (28%), Positives = 36/67 (53%), Gaps = 1/67 (1%)
Query: 149 LIGPQRTKQLVNGALILITVGGNDFV-NNYYLVPYSARSRQFSLPDYVKYVISEYRKLLT 207
LI P+ K++++ + +T + FV NN + P + R FS P Y++ +++ ++L
Sbjct: 500 LINPENGKEMISQTTLELTKESDTFVFNNIAVKPIPSLFRGFSAPVYIEDQLTDEERILL 559
Query: 208 RLYDLGA 214
YD A
Sbjct: 560 LKYDSDA 566
>pdb|3T8V|A Chain A, A Bestatin-Based Chemical Biology Strategy Reveals
Distinct Roles For Malaria M1- And M17-Family
Aminopeptidases
Length = 895
Score = 32.0 bits (71), Expect = 0.59, Method: Compositional matrix adjust.
Identities = 19/67 (28%), Positives = 36/67 (53%), Gaps = 1/67 (1%)
Query: 149 LIGPQRTKQLVNGALILITVGGNDFV-NNYYLVPYSARSRQFSLPDYVKYVISEYRKLLT 207
LI P+ K++++ + +T + FV NN + P + R FS P Y++ +++ ++L
Sbjct: 500 LINPENGKEMISQTTLELTKESDTFVFNNIAVKPIPSLFRGFSAPVYIEDQLTDEERILL 559
Query: 208 RLYDLGA 214
YD A
Sbjct: 560 LKYDSDA 566
>pdb|3Q43|A Chain A, X-Ray Crystal Structure Of Pfa-M1 Bound To Bestatin
Derivative 15
pdb|3Q44|A Chain A, X-Ray Crystal Structure Of Pfa-M1 Bound To Bestatin
Derivative 16
Length = 891
Score = 32.0 bits (71), Expect = 0.60, Method: Compositional matrix adjust.
Identities = 19/67 (28%), Positives = 36/67 (53%), Gaps = 1/67 (1%)
Query: 149 LIGPQRTKQLVNGALILITVGGNDFV-NNYYLVPYSARSRQFSLPDYVKYVISEYRKLLT 207
LI P+ K++++ + +T + FV NN + P + R FS P Y++ +++ ++L
Sbjct: 501 LINPENGKEMISQTTLELTKESDTFVFNNIAVKPIPSLFRGFSAPVYIEDQLTDEERILL 560
Query: 208 RLYDLGA 214
YD A
Sbjct: 561 LKYDSDA 567
>pdb|3U2P|A Chain A, Crystal Structure Of N-Terminal Three Extracellular
Domains Of Erbb4HER4
Length = 497
Score = 32.0 bits (71), Expect = 0.62, Method: Compositional matrix adjust.
Identities = 20/72 (27%), Positives = 36/72 (50%), Gaps = 9/72 (12%)
Query: 251 LYNPQLVQLVKDLNSQYGSEIFVAVNTGKMQYNFI--SNPRAFGFTTSKVACCGQGPYNG 308
+YNP QL + N++Y + A K +NF+ S+ +SK+ + NG
Sbjct: 242 VYNPTTFQLEHNFNAKY---TYGAFCVKKCPHNFVVDSSSCVRACPSSKM----EVEENG 294
Query: 309 LGLCTPASNLCP 320
+ +C P +++CP
Sbjct: 295 IKMCKPCTDICP 306
>pdb|3DTM|A Chain A, Increased Folding Stability Of Tem-1 Beta-Lactamase By In-
Vitro Selection
Length = 263
Score = 30.8 bits (68), Expect = 1.3, Method: Compositional matrix adjust.
Identities = 18/53 (33%), Positives = 28/53 (52%), Gaps = 3/53 (5%)
Query: 253 NPQLVQLVKDLNSQYGSE---IFVAVNTGKMQYNFISNPRAFGFTTSKVACCG 302
+P+ + VKD Q G+ I + +N+GK+ +F S R +T KV CG
Sbjct: 1 HPETLVKVKDAEDQLGARVGYIELDLNSGKILESFRSEERFPMMSTFKVLLCG 53
>pdb|4B8C|D Chain D, Nuclease Module Of The Yeast Ccr4-Not Complex
pdb|4B8C|J Chain J, Nuclease Module Of The Yeast Ccr4-Not Complex
pdb|4B8C|K Chain K, Nuclease Module Of The Yeast Ccr4-Not Complex
pdb|4B8C|L Chain L, Nuclease Module Of The Yeast Ccr4-Not Complex
Length = 727
Score = 30.0 bits (66), Expect = 2.4, Method: Compositional matrix adjust.
Identities = 20/68 (29%), Positives = 33/68 (48%), Gaps = 4/68 (5%)
Query: 257 VQLVKDLNSQYGSEIFVAVNTGKMQYNFISNPRAFGFTTSK---VACCGQGPYNGLGLCT 313
V + D NS S ++ +NTG++Q + N R FG+ + K + YN +G
Sbjct: 598 VLICGDFNSYINSAVYELINTGRVQIHQEGNGRDFGYMSEKNFSHNLALKSSYNCIGEL- 656
Query: 314 PASNLCPN 321
P +N P+
Sbjct: 657 PFTNFTPS 664
>pdb|2JKV|A Chain A, Structure Of Human Phosphogluconate Dehydrogenase In
Complex With Nadph At 2.53a
pdb|2JKV|B Chain B, Structure Of Human Phosphogluconate Dehydrogenase In
Complex With Nadph At 2.53a
pdb|2JKV|C Chain C, Structure Of Human Phosphogluconate Dehydrogenase In
Complex With Nadph At 2.53a
pdb|2JKV|D Chain D, Structure Of Human Phosphogluconate Dehydrogenase In
Complex With Nadph At 2.53a
pdb|2JKV|E Chain E, Structure Of Human Phosphogluconate Dehydrogenase In
Complex With Nadph At 2.53a
pdb|2JKV|F Chain F, Structure Of Human Phosphogluconate Dehydrogenase In
Complex With Nadph At 2.53a
Length = 505
Score = 29.3 bits (64), Expect = 3.4, Method: Compositional matrix adjust.
Identities = 30/112 (26%), Positives = 47/112 (41%), Gaps = 23/112 (20%)
Query: 119 LNDTGIQFVNIIRMFRQFEYFQEYQNRVTALIGPQRTKQLVNGA-----LILITVGG--- 170
+ND G R + + F + + T ++G Q K++V+ +IL+ G
Sbjct: 44 MNDHGFVVCAFNRTVSKVDDFLANEAKGTKVVGAQSLKEMVSKLKKPRRIILLVKAGQAV 103
Query: 171 NDFVNNYYLVPYSARSRQFSLPDYVKYVI----SEYRKLLTRLYDLGARRVL 218
+DF+ LVP L D +I SEYR R DL A+ +L
Sbjct: 104 DDFIEK--LVP---------LLDTGDIIIDGGNSEYRDTTRRCRDLKAKGIL 144
>pdb|4GWG|A Chain A, Crystal Structure Analysis Of 6-Phosphogluconate
Dehydrogenase Apo- Form
pdb|4GWK|A Chain A, Crystal Structure Of 6-Phosphogluconate Dehydrogenase
Complexed With 3-Phosphoglyceric Acid
Length = 484
Score = 29.3 bits (64), Expect = 3.7, Method: Compositional matrix adjust.
Identities = 30/112 (26%), Positives = 47/112 (41%), Gaps = 23/112 (20%)
Query: 119 LNDTGIQFVNIIRMFRQFEYFQEYQNRVTALIGPQRTKQLVNGA-----LILITVGG--- 170
+ND G R + + F + + T ++G Q K++V+ +IL+ G
Sbjct: 23 MNDHGFVVCAFNRTVSKVDDFLANEAKGTKVVGAQSLKEMVSKLKKPRRIILLVKAGQAV 82
Query: 171 NDFVNNYYLVPYSARSRQFSLPDYVKYVI----SEYRKLLTRLYDLGARRVL 218
+DF+ LVP L D +I SEYR R DL A+ +L
Sbjct: 83 DDFIEK--LVP---------LLDTGDIIIDGGNSEYRDTTRRCRDLKAKGIL 123
>pdb|4DJM|A Chain A, Crystal Structure Of The E. Coli Chaperone Drab
pdb|4DJM|B Chain B, Crystal Structure Of The E. Coli Chaperone Drab
pdb|4DJM|C Chain C, Crystal Structure Of The E. Coli Chaperone Drab
pdb|4DJM|D Chain D, Crystal Structure Of The E. Coli Chaperone Drab
pdb|4DJM|E Chain E, Crystal Structure Of The E. Coli Chaperone Drab
pdb|4DJM|F Chain F, Crystal Structure Of The E. Coli Chaperone Drab
pdb|4DJM|G Chain G, Crystal Structure Of The E. Coli Chaperone Drab
pdb|4DJM|H Chain H, Crystal Structure Of The E. Coli Chaperone Drab
Length = 239
Score = 28.5 bits (62), Expect = 6.6, Method: Compositional matrix adjust.
Identities = 22/103 (21%), Positives = 40/103 (38%), Gaps = 10/103 (9%)
Query: 98 PELTGSRLLVGANFASAGIGILNDTGIQFVNIIRMFRQFEYFQEYQNRVTALIGPQRTKQ 157
P G R G + + + + + I++F + + + V + QR
Sbjct: 111 PPKEGDRWAEGKDGEKKADKVSLNVQLSVSSCIKLFVRPPAVKGRPDDVAGKVEWQRAGN 170
Query: 158 LVNGA--------LILITVGGNDFVNNYYLVPYSARSRQFSLP 192
+ G L +TVGG + Y+ P+S SR++ LP
Sbjct: 171 RLKGVNPTPFYINLSTLTVGGKEVKEREYIAPFS--SREYPLP 211
>pdb|1QGU|B Chain B, Nitrogenase Mo-Fe Protein From Klebsiella Pneumoniae,
Dithionite-Reduced State
pdb|1QGU|D Chain D, Nitrogenase Mo-Fe Protein From Klebsiella Pneumoniae,
Dithionite-Reduced State
pdb|1QH8|B Chain B, Nitrogenase Mofe Protein From Klebsiella Pneumoniae, As-
Crystallized (Mixed Oxidation) State
pdb|1QH8|D Chain D, Nitrogenase Mofe Protein From Klebsiella Pneumoniae, As-
Crystallized (Mixed Oxidation) State
pdb|1QH1|B Chain B, Nitrogenase Mofe Protein From Klebsiella Pneumoniae,
Phenosafranin Oxidized State
pdb|1QH1|D Chain D, Nitrogenase Mofe Protein From Klebsiella Pneumoniae,
Phenosafranin Oxidized State
pdb|1H1L|B Chain B, Nitrogenase Mo-Fe Protein From Klebsiella Pneumoniae, Nifv
Mutant
pdb|1H1L|D Chain D, Nitrogenase Mo-Fe Protein From Klebsiella Pneumoniae, Nifv
Mutant
Length = 519
Score = 28.1 bits (61), Expect = 7.9, Method: Compositional matrix adjust.
Identities = 22/80 (27%), Positives = 34/80 (42%), Gaps = 13/80 (16%)
Query: 224 PLGCVP----AERAMRGRNGQCAADLQRAADLYNPQLVQLVKDLNSQYGSEIFVAVNTGK 279
P+ CV + A+ G N LQ A+ LY P+++ + S +A G
Sbjct: 108 PIACVSDSMTEDAAVFGGNNNMNLGLQNASALYKPEIIAV---------STTCMAEVIGD 158
Query: 280 MQYNFISNPRAFGFTTSKVA 299
FI+N + GF S +A
Sbjct: 159 DLQAFIANAKKDGFVDSSIA 178
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 0.421
Lambda K H
0.267 0.0410 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Hits to DB: 10,629,013
Number of Sequences: 62578
Number of extensions: 452390
Number of successful extensions: 822
Number of sequences better than 100.0: 17
Number of HSP's better than 100.0 without gapping: 2
Number of HSP's successfully gapped in prelim test: 15
Number of HSP's that attempted gapping in prelim test: 818
Number of HSP's gapped (non-prelim): 19
length of query: 368
length of database: 14,973,337
effective HSP length: 100
effective length of query: 268
effective length of database: 8,715,537
effective search space: 2335763916
effective search space used: 2335763916
T: 11
A: 40
X1: 16 ( 7.4 bits)
X2: 38 (14.6 bits)
X3: 64 (24.7 bits)
S1: 41 (21.9 bits)
S2: 52 (24.6 bits)