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= 035503
(788 letters)
Database: pdbaa
62,578 sequences; 14,973,337 total letters
Searching..................................................done
>pdb|3HYM|B Chain B, Insights Into Anaphase Promoting Complex Tpr Subdomain
Assembly From A Cdc26-Apc6 Structure
pdb|3HYM|D Chain D, Insights Into Anaphase Promoting Complex Tpr Subdomain
Assembly From A Cdc26-Apc6 Structure
pdb|3HYM|F Chain F, Insights Into Anaphase Promoting Complex Tpr Subdomain
Assembly From A Cdc26-Apc6 Structure
pdb|3HYM|H Chain H, Insights Into Anaphase Promoting Complex Tpr Subdomain
Assembly From A Cdc26-Apc6 Structure
pdb|3HYM|J Chain J, Insights Into Anaphase Promoting Complex Tpr Subdomain
Assembly From A Cdc26-Apc6 Structure
pdb|3HYM|L Chain L, Insights Into Anaphase Promoting Complex Tpr Subdomain
Assembly From A Cdc26-Apc6 Structure
Length = 330
Score = 39.7 bits (91), Expect = 0.006, Method: Compositional matrix adjust.
Identities = 33/103 (32%), Positives = 48/103 (46%), Gaps = 7/103 (6%)
Query: 679 LSTCVKSNETELAEYISEHLLQLEPDNPGNYVALSNAYAASGRWNEVSQVRDIMKEKGLR 738
+ T V+ N+ Y+S L+ L P NP ++ A+ Y G NE ++ R + K L
Sbjct: 63 IGTLVELNKANELFYLSHKLVDLYPSNPVSWFAVGCYYLXVGHKNEHAR-RYLSKATTLE 121
Query: 739 KNPGCSWIQIGEELHVFVACDRSHPKTEEIYATLALL--GMHV 779
K G +WI G H F A + H + Y T A L G H+
Sbjct: 122 KTYGPAWIAYG---HSF-AVESEHDQAXAAYFTAAQLXKGCHL 160
>pdb|3SPA|A Chain A, Crystal Structure Of Human Mitochondrial Rna Polymerase
Length = 1134
Score = 36.6 bits (83), Expect = 0.060, Method: Compositional matrix adjust.
Identities = 33/128 (25%), Positives = 60/128 (46%), Gaps = 8/128 (6%)
Query: 436 WNSVILGFLRNGQMNEAKDMFLQMQSLGVQPNLITWTTLISGL-TQNSCGNEAILFFQEM 494
+N+V+LG+ R G E + ++ G+ P+L+++ + + Q+ ++M
Sbjct: 168 YNAVMLGWARQGAFKELVYVLFMVKDAGLTPDLLSYAAALQCMGRQDQDAGTIERCLEQM 227
Query: 495 LETGIKPSTTTITCALSACTDVASLRNGRAIHGYLIRHDLC--LPTPIVTS--LVDMYAK 550
+ G+K T L + D A++ +A+H L LP P+ TS L D+YAK
Sbjct: 228 SQEGLK-LQALFTAVLLSEEDRATVL--KAVHKVKPTFSLPPQLPPPVNTSKLLRDVYAK 284
Query: 551 CGNIHQAK 558
G + K
Sbjct: 285 DGRVSYPK 292
>pdb|1JB0|A Chain A, Crystal Structure Of Photosystem I: A Photosynthetic
Reaction Center And Core Antenna System From
Cyanobacteria
pdb|3PCQ|A Chain A, Femtosecond X-Ray Protein Nanocrystallography
pdb|4FE1|A Chain A, Improving The Accuracy Of Macromolecular Structure
Refinement At 7 A Resolution
Length = 755
Score = 32.0 bits (71), Expect = 1.5, Method: Compositional matrix adjust.
Identities = 22/75 (29%), Positives = 35/75 (46%), Gaps = 6/75 (8%)
Query: 578 GYAMHGLAVEALALFKNLQQKGIDPDSITFTNILNACSHAGLVNEGLELFVGMFSDHQVK 637
G HG+ + + LF+ + GI + + + GLV GL LF G F H+
Sbjct: 131 GGGFHGIQITS-GLFQLWRASGITNEFQLYCTAI-----GGLVMAGLMLFAGWFHYHKRA 184
Query: 638 PSMEHFGCVVNLLSR 652
P +E F V ++L+
Sbjct: 185 PKLEWFQNVESMLNH 199
>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 = 30.4 bits (67), Expect = 4.3, Method: Compositional matrix adjust.
Identities = 14/40 (35%), Positives = 23/40 (57%), Gaps = 1/40 (2%)
Query: 720 GRWNEVSQVRDIMKEKGLRKNPGCSWIQIGEELHVFVACD 759
G N V +R +M+++G K P W+ I E +H+ AC+
Sbjct: 1135 GSQNVVLFLRQLMEKQGFWKTPENKWVTI-ERIHIVGACN 1173
>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 = 30.4 bits (67), Expect = 4.4, Method: Compositional matrix adjust.
Identities = 14/40 (35%), Positives = 23/40 (57%), Gaps = 1/40 (2%)
Query: 720 GRWNEVSQVRDIMKEKGLRKNPGCSWIQIGEELHVFVACD 759
G N V +R +M+++G K P W+ I E +H+ AC+
Sbjct: 1354 GSQNVVLFLRQLMEKQGFWKTPENKWVTI-ERIHIVGACN 1392
>pdb|3A71|A Chain A, High Resolution Structure Of Penicillium Chrysogenum
Alpha-L- Arabinanase
pdb|3A72|A Chain A, High Resolution Structure Of Penicillium Chrysogenum
Alpha-L- Arabinanase Complexed With Arabinobiose
Length = 355
Score = 30.4 bits (67), Expect = 4.5, Method: Compositional matrix adjust.
Identities = 13/39 (33%), Positives = 19/39 (48%)
Query: 703 PDNPGNYVALSNAYAASGRWNEVSQVRDIMKEKGLRKNP 741
P+ P Y + + WNE+S+V D + GLR P
Sbjct: 45 PEPPAVYFPIYRSKDHGKTWNEISRVHDTVNGYGLRYQP 83
>pdb|3RIC|A Chain A, Crystal Structure Of D48v||a47d Mutant Of Human Glycolipid
Transfer Protein Complexed With
3-O-Sulfo-Galactosylceramide Containing Nervonoyl Acyl
Chain (24:1)
Length = 209
Score = 30.0 bits (66), Expect = 4.8, Method: Compositional matrix adjust.
Identities = 16/49 (32%), Positives = 28/49 (57%), Gaps = 2/49 (4%)
Query: 535 CLPTPIVTSLVDMYAKCGNIHQAKRVFDISPSKELPVYNAMISGYAMHG 583
CL +P+ T + D+ + GNI + K V+D +P+K + N + M+G
Sbjct: 36 CLGSPVFTPIKDVIS--GNITKIKAVYDTNPAKFRTLQNILEVEKEMYG 82
>pdb|4G24|A Chain A, Crystal Structure Of Proteinaceous Rnase P 1 (Prorp1) From
A. Thaliana With Mn
pdb|4G26|A Chain A, Crystal Structure Of Proteinaceous Rnase P 1 (Prorp1) From
A. Thaliana With Ca
Length = 501
Score = 30.0 bits (66), Expect = 5.5, Method: Compositional matrix adjust.
Identities = 16/68 (23%), Positives = 33/68 (48%)
Query: 420 LFYQMQLEGISPNIISWNSVILGFLRNGQMNEAKDMFLQMQSLGVQPNLITWTTLISGLT 479
+F QM ++ + PN ++ + + A DM QM++ G+QP L ++ + G
Sbjct: 92 IFKQMIVDKVVPNEATFTNGARLAVAKDDPEMAFDMVKQMKAFGIQPRLRSYGPALFGFC 151
Query: 480 QNSCGNEA 487
+ ++A
Sbjct: 152 RKGDADKA 159
>pdb|3QF4|B Chain B, Crystal Structure Of A Heterodimeric Abc Transporter In
Its Inward- Facing Conformation
Length = 598
Score = 29.3 bits (64), Expect = 8.1, Method: Compositional matrix adjust.
Identities = 22/60 (36%), Positives = 33/60 (55%), Gaps = 7/60 (11%)
Query: 310 VINGME-LDNVLGSSIINFYSKVGLLEDAEVVFSR------MVERDIVTWNLLIASYVQS 362
VIN ++ ++NVLG+SII F+S + L A ++ R +V IV +LI V S
Sbjct: 140 VINDVDNINNVLGNSIIQFFSGIVTLAGAVIMMFRVNVILSLVTLSIVPLTVLITQIVSS 199
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
0.321 0.136 0.404
Lambda K H
0.267 0.0410 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Hits to DB: 22,696,542
Number of Sequences: 62578
Number of extensions: 924133
Number of successful extensions: 2121
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: 2110
Number of HSP's gapped (non-prelim): 16
length of query: 788
length of database: 14,973,337
effective HSP length: 107
effective length of query: 681
effective length of database: 8,277,491
effective search space: 5636971371
effective search space used: 5636971371
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: 55 (25.8 bits)