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= psy4734
(367 letters)
Database: pdbaa
62,578 sequences; 14,973,337 total letters
Searching..................................................done
>pdb|3VKG|A Chain A, X-Ray Structure Of An Mtbd Truncation Mutant Of Dynein Motor
Domain
pdb|3VKG|B Chain B, X-Ray Structure Of An Mtbd Truncation Mutant Of Dynein Motor
Domain
Length = 3245
Score = 137 bits (344), Expect = 1e-32, Method: Compositional matrix adjust.
Identities = 65/182 (35%), Positives = 109/182 (59%), Gaps = 11/182 (6%)
Query: 174 HLKKIFEVRHGLMVVGESFGGKTTAYQTLADSLTDIAAKKSATMKEFKTGYKIINPKSIT 233
L +I + HG+M+VG S GGKTT+++ +++ + KS +++PK+IT
Sbjct: 898 QLHQILNINHGVMMVGPSGGGKTTSWEVYLEAIEQVDNIKSEA--------HVMDPKAIT 949
Query: 234 MGQLYGEFDSASHEWRDGILAKTFREM---AVSTTPDRKWIMFDGPIDAVWIENMNTVLD 290
QL+G D + EW DG+ T R + + R WI+FDG +D W+EN+N++LD
Sbjct: 950 KDQLFGSLDLTTREWTDGLFTATLRRIIDNVRGESTKRHWIIFDGDVDPEWVENLNSLLD 1009
Query: 291 DNKKLCLINGEIIKMSNTMNLIFECENLEFASPATVSRVGMIYFELKCISWTTFFLSYQN 350
DNK L L NGE + + N + ++FE ++L++A+ AT+SR GM++F + ++ F +Y +
Sbjct: 1010 DNKLLTLPNGERLALPNNVRVMFEVQDLKYATLATISRCGMVWFSEEILTTQMIFQNYLD 1069
Query: 351 EL 352
L
Sbjct: 1070 TL 1071
Score = 82.4 bits (202), Expect = 3e-16, Method: Compositional matrix adjust.
Identities = 43/131 (32%), Positives = 76/131 (58%), Gaps = 1/131 (0%)
Query: 1 MQDILDIWLQVQGTWMYLEPIFS-SEDIMRQMPEESRNFKTVDQIWKTIMLFVNKDPHIL 59
++ +LD+W+ VQ W+YLE IFS S DI + +P ES FK+++ + I+ V+ P IL
Sbjct: 235 VRSLLDVWIDVQRRWVYLEGIFSGSGDINQLLPAESTRFKSINSEFIAILKKVSGAPLIL 294
Query: 60 QATEMEDMLKNFNKCNLMLELIQKGLNDYLEXXXXXXXXXXXXSNDELLEILSETKDPLR 119
+ +E + + + + +L +QK L +YLE +++LLEI+ +KD ++
Sbjct: 295 EVLAIERIQQTMERLSDLLGKVQKALGEYLERQRSAFARFYFVGDEDLLEIIGNSKDIIK 354
Query: 120 VQPHLKKIFEA 130
+Q H +K+F
Sbjct: 355 IQKHFRKMFAG 365
>pdb|3VKH|A Chain A, X-Ray Structure Of A Functional Full-Length Dynein Motor
Domain
pdb|3VKH|B Chain B, X-Ray Structure Of A Functional Full-Length Dynein Motor
Domain
Length = 3367
Score = 137 bits (344), Expect = 1e-32, Method: Compositional matrix adjust.
Identities = 65/182 (35%), Positives = 109/182 (59%), Gaps = 11/182 (6%)
Query: 174 HLKKIFEVRHGLMVVGESFGGKTTAYQTLADSLTDIAAKKSATMKEFKTGYKIINPKSIT 233
L +I + HG+M+VG S GGKTT+++ +++ + KS +++PK+IT
Sbjct: 898 QLHQILNINHGVMMVGPSGGGKTTSWEVYLEAIEQVDNIKSEA--------HVMDPKAIT 949
Query: 234 MGQLYGEFDSASHEWRDGILAKTFREM---AVSTTPDRKWIMFDGPIDAVWIENMNTVLD 290
QL+G D + EW DG+ T R + + R WI+FDG +D W+EN+N++LD
Sbjct: 950 KDQLFGSLDLTTREWTDGLFTATLRRIIDNVRGESTKRHWIIFDGDVDPEWVENLNSLLD 1009
Query: 291 DNKKLCLINGEIIKMSNTMNLIFECENLEFASPATVSRVGMIYFELKCISWTTFFLSYQN 350
DNK L L NGE + + N + ++FE ++L++A+ AT+SR GM++F + ++ F +Y +
Sbjct: 1010 DNKLLTLPNGERLALPNNVRVMFEVQDLKYATLATISRCGMVWFSEEILTTQMIFQNYLD 1069
Query: 351 EL 352
L
Sbjct: 1070 TL 1071
Score = 82.8 bits (203), Expect = 3e-16, Method: Compositional matrix adjust.
Identities = 43/131 (32%), Positives = 76/131 (58%), Gaps = 1/131 (0%)
Query: 1 MQDILDIWLQVQGTWMYLEPIFS-SEDIMRQMPEESRNFKTVDQIWKTIMLFVNKDPHIL 59
++ +LD+W+ VQ W+YLE IFS S DI + +P ES FK+++ + I+ V+ P IL
Sbjct: 235 VRSLLDVWIDVQRRWVYLEGIFSGSGDINQLLPAESTRFKSINSEFIAILKKVSGAPLIL 294
Query: 60 QATEMEDMLKNFNKCNLMLELIQKGLNDYLEXXXXXXXXXXXXSNDELLEILSETKDPLR 119
+ +E + + + + +L +QK L +YLE +++LLEI+ +KD ++
Sbjct: 295 EVLAIERIQQTMERLSDLLGKVQKALGEYLERQRSAFARFYFVGDEDLLEIIGNSKDIIK 354
Query: 120 VQPHLKKIFEA 130
+Q H +K+F
Sbjct: 355 IQKHFRKMFAG 365
>pdb|3QMZ|A Chain A, Crystal Structure Of The Cytoplasmic Dynein Heavy Chain
Motor Domain
pdb|3QMZ|B Chain B, Crystal Structure Of The Cytoplasmic Dynein Heavy Chain
Motor Domain
Length = 2486
Score = 100 bits (250), Expect = 1e-21, Method: Compositional matrix adjust.
Identities = 52/168 (30%), Positives = 90/168 (53%), Gaps = 12/168 (7%)
Query: 180 EVRHGLMVVGESFGGKTTAYQTLADSLTDIAAKKSATMKEFKTGYKIINPKSITMGQLYG 239
+ + L++VG++ GKT ++T+ D++ + +I+ K +T LYG
Sbjct: 702 KTQQALILVGKAGCGKTATWKTVIDAMAIFDGHANVVY--------VIDTKVLTKESLYG 753
Query: 240 EFDSASHEWRDGILAKTFREMAVSTTP----DRKWIMFDGPIDAVWIENMNTVLDDNKKL 295
A+ EWRDG+ R + T R W++FD +D ++E MN+VLDDNK L
Sbjct: 754 SMLKATLEWRDGLFTSILRRVNDDITGTFKNSRIWVVFDSDLDPEYVEAMNSVLDDNKIL 813
Query: 296 CLINGEIIKMSNTMNLIFECENLEFASPATVSRVGMIYFELKCISWTT 343
L NGE + + ++FE +NL+ +PAT++R G+++F S ++
Sbjct: 814 TLPNGERLPIPPNFRILFETDNLDHTTPATITRCGLLWFSTDVCSISS 861
Score = 37.0 bits (84), Expect = 0.016, Method: Compositional matrix adjust.
Identities = 30/129 (23%), Positives = 57/129 (44%), Gaps = 1/129 (0%)
Query: 8 WLQVQGTWMYLEPIFSSE-DIMRQMPEESRNFKTVDQIWKTIMLFVNKDPHILQATEMED 66
W++VQ W+ L I DI +P E+ FK++ +K I + ++ + +
Sbjct: 82 WVEVQFYWLDLYGILGENLDIQNFLPLETSKFKSLTSEYKMITTRAFQLDTTIEVIHIPN 141
Query: 67 MLKNFNKCNLMLELIQKGLNDYLEXXXXXXXXXXXXSNDELLEILSETKDPLRVQPHLKK 126
L++I+ L+ +LE ND+LL+I+ K +V +KK
Sbjct: 142 FDTTLKLTIDSLKMIKSSLSTFLERQRRQFPRFYFLGNDDLLKIIGSGKHHDQVSKFMKK 201
Query: 127 IFEASMALI 135
+F + ++I
Sbjct: 202 MFGSIESII 210
>pdb|4AI6|A Chain A, Dynein Motor Domain - Adp Complex
pdb|4AI6|B Chain B, Dynein Motor Domain - Adp Complex
pdb|4AKG|A Chain A, Dynein Motor Domain - Atp Complex
pdb|4AKG|B Chain B, Dynein Motor Domain - Atp Complex
pdb|4AKH|A Chain A, Dynein Motor Domain - Amppnp Complex
pdb|4AKH|B Chain B, Dynein Motor Domain - Amppnp Complex
pdb|4AKI|A Chain A, Dynein Motor Domain - Luac Derivative
pdb|4AKI|B Chain B, Dynein Motor Domain - Luac Derivative
Length = 2695
Score = 100 bits (250), Expect = 1e-21, Method: Compositional matrix adjust.
Identities = 52/168 (30%), Positives = 90/168 (53%), Gaps = 12/168 (7%)
Query: 180 EVRHGLMVVGESFGGKTTAYQTLADSLTDIAAKKSATMKEFKTGYKIINPKSITMGQLYG 239
+ + L++VG++ GKT ++T+ D++ + +I+ K +T LYG
Sbjct: 921 KTQQALILVGKAGCGKTATWKTVIDAMAIFDGHANVVY--------VIDTKVLTKESLYG 972
Query: 240 EFDSASHEWRDGILAKTFREMAVSTTP----DRKWIMFDGPIDAVWIENMNTVLDDNKKL 295
A+ EWRDG+ R + T R W++FD +D ++E MN+VLDDNK L
Sbjct: 973 SMLKATLEWRDGLFTSILRRVNDDITGTFKNSRIWVVFDSDLDPEYVEAMNSVLDDNKIL 1032
Query: 296 CLINGEIIKMSNTMNLIFECENLEFASPATVSRVGMIYFELKCISWTT 343
L NGE + + ++FE +NL+ +PAT++R G+++F S ++
Sbjct: 1033 TLPNGERLPIPPNFRILFETDNLDHTTPATITRCGLLWFSTDVCSISS 1080
Score = 37.0 bits (84), Expect = 0.015, Method: Compositional matrix adjust.
Identities = 30/129 (23%), Positives = 57/129 (44%), Gaps = 1/129 (0%)
Query: 8 WLQVQGTWMYLEPIFSSE-DIMRQMPEESRNFKTVDQIWKTIMLFVNKDPHILQATEMED 66
W++VQ W+ L I DI +P E+ FK++ +K I + ++ + +
Sbjct: 301 WVEVQFYWLDLYGILGENLDIQNFLPLETSKFKSLTSEYKMITTRAFQLDTTIEVIHIPN 360
Query: 67 MLKNFNKCNLMLELIQKGLNDYLEXXXXXXXXXXXXSNDELLEILSETKDPLRVQPHLKK 126
L++I+ L+ +LE ND+LL+I+ K +V +KK
Sbjct: 361 FDTTLKLTIDSLKMIKSSLSTFLERQRRQFPRFYFLGNDDLLKIIGSGKHHDQVSKFMKK 420
Query: 127 IFEASMALI 135
+F + ++I
Sbjct: 421 MFGSIESII 429
>pdb|1PAF|A Chain A, The 2.5 Angstroms Structure Of Pokeweed Antiviral Protein
pdb|1PAF|B Chain B, The 2.5 Angstroms Structure Of Pokeweed Antiviral Protein
pdb|1PAG|A Chain A, The 2.5 Angstroms Structure Of Pokeweed Antiviral Protein
pdb|1PAG|B Chain B, The 2.5 Angstroms Structure Of Pokeweed Antiviral Protein
pdb|1QCG|A Chain A, Low Temperature Structure Of Pokeweed Antiviral Protein
pdb|1QCG|B Chain B, Low Temperature Structure Of Pokeweed Antiviral Protein
pdb|1QCI|A Chain A, Low Temperature Structure Of Pokeweed Antiviral Protein
Complexed With Adenine
pdb|1QCI|B Chain B, Low Temperature Structure Of Pokeweed Antiviral Protein
Complexed With Adenine
pdb|1QCJ|A Chain A, Low Temperature Complex Of Pokeweed Antiviral Protein With
Pteoric Acid
pdb|1QCJ|B Chain B, Low Temperature Complex Of Pokeweed Antiviral Protein With
Pteoric Acid
pdb|1D6A|A Chain A, Structure Of Pokeweed Antiviral Protein Complexed With
Guanine
pdb|1D6A|B Chain B, Structure Of Pokeweed Antiviral Protein Complexed With
Guanine
Length = 262
Score = 29.3 bits (64), Expect = 3.2, Method: Compositional matrix adjust.
Identities = 13/46 (28%), Positives = 25/46 (54%), Gaps = 3/46 (6%)
Query: 228 NPKSITMGQLYGEFDSASHEWRDGILAKTFREMAVSTTPDRKWIMF 273
NPK + + + +G+ +A H+ ++G+L K + S KWI+
Sbjct: 198 NPKVLNLQETWGKISTAIHDAKNGVLPKPLELVDASGA---KWIVL 240
>pdb|1BCI|A Chain A, C2 Domain Of Cytosolic Phospholipase A2, Nmr, Minimized
Average Structure
Length = 138
Score = 29.3 bits (64), Expect = 4.0, Method: Compositional matrix adjust.
Identities = 15/43 (34%), Positives = 25/43 (58%), Gaps = 2/43 (4%)
Query: 257 FREMAVSTTPD--RKWIMFDGPIDAVWIENMNTVLDDNKKLCL 297
+ E+ +STTPD ++ F+ I+ VW E +LD N++ L
Sbjct: 45 YVELFISTTPDSRKRTRHFNNDINPVWNETFEFILDPNQENVL 87
>pdb|1CJY|A Chain A, Human Cytosolic Phospholipase A2
pdb|1CJY|B Chain B, Human Cytosolic Phospholipase A2
Length = 749
Score = 28.9 bits (63), Expect = 4.5, Method: Compositional matrix adjust.
Identities = 15/43 (34%), Positives = 25/43 (58%), Gaps = 2/43 (4%)
Query: 257 FREMAVSTTPD--RKWIMFDGPIDAVWIENMNTVLDDNKKLCL 297
+ E+ +STTPD ++ F+ I+ VW E +LD N++ L
Sbjct: 45 YVELFISTTPDSRKRTRHFNNDINPVWNETFEFILDPNQENVL 87
>pdb|3JRN|A Chain A, Crystal Structure Of Tir Domain From Arabidopsis Thaliana
Length = 176
Score = 28.9 bits (63), Expect = 5.1, Method: Compositional matrix adjust.
Identities = 27/110 (24%), Positives = 46/110 (41%), Gaps = 21/110 (19%)
Query: 164 ETKDPLRVQPHLKKIFEV-RHGLMVVGESFGGKTTAYQTLADSLTDIAAKKSATMKEFKT 222
E ++ R P LK EV R ++VV E++ + L ++ D K S T+
Sbjct: 45 ELENGQRFSPELKSPIEVSRFAVVVVSENYAASSWCLDELV-TIMDFEKKGSITVMPIFY 103
Query: 223 GYKIINPKSITMGQLYGEFDSASHEWRDGILAKTFREMAVSTTPDR--KW 270
G + P + W+ G+LA+ F++ A P++ KW
Sbjct: 104 G---VEPNHV--------------RWQTGVLAEQFKKHASREDPEKVLKW 136
>pdb|1RLW|A Chain A, Calcium-Phospholipid Binding Domain From Cytosolic
Phospholipase A2
Length = 126
Score = 28.9 bits (63), Expect = 5.1, Method: Compositional matrix adjust.
Identities = 15/43 (34%), Positives = 25/43 (58%), Gaps = 2/43 (4%)
Query: 257 FREMAVSTTPD--RKWIMFDGPIDAVWIENMNTVLDDNKKLCL 297
+ E+ +STTPD ++ F+ I+ VW E +LD N++ L
Sbjct: 30 YVELFISTTPDSRKRTRHFNNDINPVWNETFEFILDPNQENVL 72
>pdb|2WC7|A Chain A, Crystal Structure Of Nostoc Punctiforme Debranching
Enzyme( Npde)(Acarbose Soaked)
pdb|2WCS|A Chain A, Crystal Structure Of Debranching Enzyme From Nostoc
Punctiforme (Npde)
pdb|2WKG|A Chain A, Nostoc Punctiforme Debranching Enzyme (Npde)(Native Form)
Length = 488
Score = 28.9 bits (63), Expect = 5.4, Method: Compositional matrix adjust.
Identities = 13/40 (32%), Positives = 23/40 (57%), Gaps = 4/40 (10%)
Query: 212 KKSATMKEFKTGYKIINPKSITMGQLYGEFDSASHEWRDG 251
K +EF+ K INP++ +G+++G+ S +W DG
Sbjct: 216 KTPGFWQEFRDRTKAINPEAYIVGEVWGD----SRQWLDG 251
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
0.318 0.134 0.389
Lambda K H
0.267 0.0410 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Hits to DB: 9,769,948
Number of Sequences: 62578
Number of extensions: 359323
Number of successful extensions: 940
Number of sequences better than 100.0: 11
Number of HSP's better than 100.0 without gapping: 5
Number of HSP's successfully gapped in prelim test: 6
Number of HSP's that attempted gapping in prelim test: 915
Number of HSP's gapped (non-prelim): 21
length of query: 367
length of database: 14,973,337
effective HSP length: 100
effective length of query: 267
effective length of database: 8,715,537
effective search space: 2327048379
effective search space used: 2327048379
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: 52 (24.6 bits)