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= 039884
(757 letters)
Database: pdbaa
62,578 sequences; 14,973,337 total letters
Searching..................................................done
>pdb|2XA7|B Chain B, Ap2 Clathrin Adaptor Core In Active Complex With Cargo
Peptides
Length = 592
Score = 38.5 bits (88), Expect = 0.014, Method: Compositional matrix adjust.
Identities = 52/191 (27%), Positives = 86/191 (45%), Gaps = 21/191 (10%)
Query: 192 AVSVIRNCAEKLEPFVCGFLTSCFLDRDAVEGDLKEFYHE---IIFKIFQCSPQMLLAVI 248
AV I CA K+E +++ D ++ + E +I IF+ P ++I
Sbjct: 373 AVRAIGRCAIKVEQSAERCVSTLL---DLIQTKVNYVVQEAIVVIRDIFRKYPNKYESII 429
Query: 249 PNLIQEL-LVDQVDVRIKAVNLIGKICAQPDNCLADRYPELFVEFLKRFSDKSAEVRLNA 307
L + L +D+ D R + ++G+ + DN AD EL FL+ F D+S +V+L
Sbjct: 430 ATLCENLDSLDEPDARAAMIWIVGEYAERIDN--AD---ELLESFLEGFHDESTQVQLTL 484
Query: 308 LRCAKACYLGGPFRKESREI------LAALESRLLDFDDRVRTEAVIVACDLARSHLKFV 361
L +L P E++E+ LA +S D DR +++ D + +
Sbjct: 485 LTAIVKLFLKKP--SETQELVQQVLSLATQDSDNPDLRDRGYIYWRLLSTDPVTAKEVVL 542
Query: 362 PEK-LISEATE 371
EK LISE T+
Sbjct: 543 SEKPLISEETD 553
>pdb|2VGL|B Chain B, Ap2 Clathrin Adaptor Core
pdb|2JKR|B Chain B, Ap2 Clathrin Adaptor Core With Dileucine Peptide Rm(
Phosphos)qikrllse
pdb|2JKR|E Chain E, Ap2 Clathrin Adaptor Core With Dileucine Peptide Rm(
Phosphos)qikrllse
pdb|2JKT|B Chain B, Ap2 Clathrin Adaptor Core With Cd4 Dileucine Peptide Rm(
Phosphos)eikrllse Q To E Mutant
pdb|2JKT|E Chain E, Ap2 Clathrin Adaptor Core With Cd4 Dileucine Peptide Rm(
Phosphos)eikrllse Q To E Mutant
Length = 591
Score = 38.5 bits (88), Expect = 0.015, Method: Compositional matrix adjust.
Identities = 52/191 (27%), Positives = 86/191 (45%), Gaps = 21/191 (10%)
Query: 192 AVSVIRNCAEKLEPFVCGFLTSCFLDRDAVEGDLKEFYHE---IIFKIFQCSPQMLLAVI 248
AV I CA K+E +++ D ++ + E +I IF+ P ++I
Sbjct: 373 AVRAIGRCAIKVEQSAERCVSTLL---DLIQTKVNYVVQEAIVVIRDIFRKYPNKYESII 429
Query: 249 PNLIQEL-LVDQVDVRIKAVNLIGKICAQPDNCLADRYPELFVEFLKRFSDKSAEVRLNA 307
L + L +D+ D R + ++G+ + DN AD EL FL+ F D+S +V+L
Sbjct: 430 ATLCENLDSLDEPDARAAMIWIVGEYAERIDN--AD---ELLESFLEGFHDESTQVQLTL 484
Query: 308 LRCAKACYLGGPFRKESREI------LAALESRLLDFDDRVRTEAVIVACDLARSHLKFV 361
L +L P E++E+ LA +S D DR +++ D + +
Sbjct: 485 LTAIVKLFLKKP--SETQELVQQVLSLATQDSDNPDLRDRGYIYWRLLSTDPVTAKEVVL 542
Query: 362 PEK-LISEATE 371
EK LISE T+
Sbjct: 543 SEKPLISEETD 553
>pdb|3HTE|A Chain A, Crystal Structure Of Nucleotide-Free Hexameric Clpx
pdb|3HTE|B Chain B, Crystal Structure Of Nucleotide-Free Hexameric Clpx
pdb|3HTE|C Chain C, Crystal Structure Of Nucleotide-Free Hexameric Clpx
pdb|3HTE|D Chain D, Crystal Structure Of Nucleotide-Free Hexameric Clpx
pdb|3HTE|E Chain E, Crystal Structure Of Nucleotide-Free Hexameric Clpx
pdb|3HTE|F Chain F, Crystal Structure Of Nucleotide-Free Hexameric Clpx
Length = 363
Score = 32.3 bits (72), Expect = 1.00, Method: Compositional matrix adjust.
Identities = 21/53 (39%), Positives = 28/53 (52%), Gaps = 14/53 (26%)
Query: 547 DNMTIK---NAEILRDKFLKLI-----------GNKHPEFEFLQLLTSKCLYI 585
DN +I + E ++ LKLI G KHP+ EFLQ+ TSK L+I
Sbjct: 133 DNPSITRDVSGEGVQQALLKLIEGTVAAVPPQGGRKHPQQEFLQVDTSKILFI 185
>pdb|3HWS|A Chain A, Crystal Structure Of Nucleotide-Bound Hexameric Clpx
pdb|3HWS|B Chain B, Crystal Structure Of Nucleotide-Bound Hexameric Clpx
pdb|3HWS|C Chain C, Crystal Structure Of Nucleotide-Bound Hexameric Clpx
pdb|3HWS|D Chain D, Crystal Structure Of Nucleotide-Bound Hexameric Clpx
pdb|3HWS|E Chain E, Crystal Structure Of Nucleotide-Bound Hexameric Clpx
pdb|3HWS|F Chain F, Crystal Structure Of Nucleotide-Bound Hexameric Clpx
Length = 363
Score = 32.3 bits (72), Expect = 1.0, Method: Compositional matrix adjust.
Identities = 21/53 (39%), Positives = 28/53 (52%), Gaps = 14/53 (26%)
Query: 547 DNMTIK---NAEILRDKFLKLI-----------GNKHPEFEFLQLLTSKCLYI 585
DN +I + E ++ LKLI G KHP+ EFLQ+ TSK L+I
Sbjct: 133 DNPSITRDVSGEGVQQALLKLIEGTVAAVPPQGGRKHPQQEFLQVDTSKILFI 185
>pdb|4AM6|A Chain A, C-terminal Domain Of Actin-related Protein Arp8 From S.
Cerevisiae
pdb|4AM6|B Chain B, C-terminal Domain Of Actin-related Protein Arp8 From S.
Cerevisiae
pdb|4AM7|A Chain A, Adp-bound C-terminal Domain Of Actin-related Protein Arp8
From S. Cerevisiae
pdb|4AM7|B Chain B, Adp-bound C-terminal Domain Of Actin-related Protein Arp8
From S. Cerevisiae
Length = 655
Score = 30.4 bits (67), Expect = 3.5, Method: Compositional matrix adjust.
Identities = 17/51 (33%), Positives = 27/51 (52%), Gaps = 3/51 (5%)
Query: 477 KKRFRSEMRYYLSVRKKEKGSCHDETHEQMKNSFVKMSASFPDPSKAEGCF 527
+K FR MRYY ++K G+ H++ +NS ++ + DPS E F
Sbjct: 105 EKNFRERMRYY---KRKVPGNAHEQVVSFNENSKPEIISEKNDPSPIEWIF 152
>pdb|4AX2|A Chain A, New Type Vi-Secreted Toxins And Self-Resistance Proteins
In Serratia Marcescens
Length = 142
Score = 30.0 bits (66), Expect = 5.5, Method: Compositional matrix adjust.
Identities = 21/62 (33%), Positives = 27/62 (43%), Gaps = 4/62 (6%)
Query: 279 NCLADRYPELFVEFLKRFSDKSAEVRLNALRCAKACYLGGPFRKESREILAALESRLLDF 338
N L D+Y EF DKS V LN LR Y K SR+++A R +
Sbjct: 83 NVLIDKYKSRINEFHSETKDKSQGVTLNCLR----LYHSPELDKLSRQLIAGNPDRTWNQ 138
Query: 339 DD 340
D+
Sbjct: 139 DN 140
>pdb|3J0L|K Chain K, Core Of Mammalian 80s Pre-Ribosome In Complex With Trnas
Fitted To A 9.8a Cryo-Em Map: Classic Pre State 1
pdb|3J0O|K Chain K, Core Of Mammalian 80s Pre-Ribosome In Complex With Trnas
Fitted To A 9a Cryo-Em Map: Classic Pre State 2
Length = 140
Score = 29.3 bits (64), Expect = 8.0, Method: Composition-based stats.
Identities = 11/22 (50%), Positives = 15/22 (68%)
Query: 180 QEKDSPYAASQLAVSVIRNCAE 201
+E+ SPYAA Q A+ V+ C E
Sbjct: 55 REESSPYAAMQAAIDVVNRCKE 76
>pdb|2XZM|K Chain K, Crystal Structure Of The Eukaryotic 40s Ribosomal Subunit
In Complex With Initiation Factor 1. This File Contains
The 40s Subunit And Initiation Factor For Molecule 1
pdb|2XZN|K Chain K, Crystal Structure Of The Eukaryotic 40s Ribosomal Subunit
In Complex With Initiation Factor 1. This File Contains
The 40s Subunit And Initiation Factor For Molecule 2
Length = 151
Score = 29.3 bits (64), Expect = 8.0, Method: Composition-based stats.
Identities = 11/22 (50%), Positives = 15/22 (68%)
Query: 180 QEKDSPYAASQLAVSVIRNCAE 201
+E+ SPYAA Q A+ V+ C E
Sbjct: 66 REESSPYAAMQAAIDVVNRCKE 87
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
0.324 0.138 0.408
Lambda K H
0.267 0.0410 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Hits to DB: 19,827,756
Number of Sequences: 62578
Number of extensions: 762983
Number of successful extensions: 1703
Number of sequences better than 100.0: 10
Number of HSP's better than 100.0 without gapping: 2
Number of HSP's successfully gapped in prelim test: 8
Number of HSP's that attempted gapping in prelim test: 1698
Number of HSP's gapped (non-prelim): 12
length of query: 757
length of database: 14,973,337
effective HSP length: 106
effective length of query: 651
effective length of database: 8,340,069
effective search space: 5429384919
effective search space used: 5429384919
T: 11
A: 40
X1: 15 ( 7.0 bits)
X2: 38 (14.6 bits)
X3: 64 (24.7 bits)
S1: 41 (22.0 bits)
S2: 55 (25.8 bits)