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= 014317
(427 letters)
Database: pdbaa
62,578 sequences; 14,973,337 total letters
Searching..................................................done
>pdb|1FS2|A Chain A, Insights Into Scf Ubiquitin Ligases From The Structure
Of The Skp1-Skp2 Complex
pdb|1FS2|C Chain C, Insights Into Scf Ubiquitin Ligases From The Structure
Of The Skp1-Skp2 Complex
Length = 272
Score = 33.9 bits (76), Expect = 0.18, Method: Compositional matrix adjust.
Identities = 22/73 (30%), Positives = 38/73 (52%), Gaps = 13/73 (17%)
Query: 17 NRLPDDILVNIISHLTLKEAARTSVLSNRWRNLWTFTNSLEFDASESLWNVGFGNLEQER 76
+ LPD++L+ I S L L E + S + RW L + ESLW L++ R
Sbjct: 10 DSLPDELLLGIFSCLCLPELLKVSGVCKRWYRL---------ASDESLWQT----LDEFR 56
Query: 77 SKYINWVNNVLEL 89
++++ N+V+E+
Sbjct: 57 VQHMDLSNSVIEV 69
>pdb|3TOB|A Chain A, Human Mof E350q Crystal Structure With Active Site Lysine
Partially Acetylated
Length = 270
Score = 32.0 bits (71), Expect = 0.59, Method: Compositional matrix adjust.
Identities = 17/45 (37%), Positives = 25/45 (55%)
Query: 154 RGLSGIKFLRCLHFKTVNVNGKDIELFIQNCPLLDRLCVDHSKTL 198
R G + R + V+GKD +++ QN LL +L +DH KTL
Sbjct: 57 RQPPGKEIYRKSNISVYEVDGKDHKIYCQNLCLLAKLFLDHXKTL 101
>pdb|3TOA|A Chain A, Human Mof Crystal Structure With Active Site Lysine
Partially Acetylated
Length = 266
Score = 32.0 bits (71), Expect = 0.61, Method: Compositional matrix adjust.
Identities = 17/45 (37%), Positives = 25/45 (55%)
Query: 154 RGLSGIKFLRCLHFKTVNVNGKDIELFIQNCPLLDRLCVDHSKTL 198
R G + R + V+GKD +++ QN LL +L +DH KTL
Sbjct: 57 RQPPGKEIYRKSNISVYEVDGKDHKIYCQNLCLLAKLFLDHXKTL 101
>pdb|2RA1|A Chain A, Crystal Structure Of The N-Terminal Part Of The Bacterial
S-Layer Protein Sbsc
Length = 412
Score = 32.0 bits (71), Expect = 0.75, Method: Compositional matrix adjust.
Identities = 22/79 (27%), Positives = 37/79 (46%), Gaps = 9/79 (11%)
Query: 17 NRLPDDILVNIISHLTLKEAARTSVLSNRWRNLWTFTNSLEFDASESLWNVGFGNLEQER 76
N+LP+D V++ ++T+K+AA + S LEF +SE L F N ++
Sbjct: 338 NKLPEDSAVDLTKYVTVKDAAGNVIKSGF---------ELEFTSSEKLTQGKFINTTGKK 388
Query: 77 SKYINWVNNVLELHRGSTI 95
S +N + G+ I
Sbjct: 389 SVIVNATVKGTNVTTGNVI 407
>pdb|1GUK|A Chain A, Crystal Structure Of Murine Alpha-Class Gsta4-4
pdb|1GUK|B Chain B, Crystal Structure Of Murine Alpha-Class Gsta4-4
Length = 222
Score = 30.0 bits (66), Expect = 2.4, Method: Compositional matrix adjust.
Identities = 25/99 (25%), Positives = 43/99 (43%), Gaps = 11/99 (11%)
Query: 167 FKTVNVNGKDIELFIQNC-----PLLDRLCVDHSKTLVRLRVIGSSIQLKYLEIQSCYLM 221
FKT + +L + P+ +++ DH + + +G+ + +++ LM
Sbjct: 111 FKTPKEKEESYDLILSRAKTRYFPVFEKILKDHGEAFL----VGNQLSWADIQLLEAILM 166
Query: 222 EEIEISAPSLLSFRYYGQAIKINIENVPQLVDVSIRGSH 260
E E+SAP L F QA K I N+P + GS
Sbjct: 167 VE-ELSAPVLSDFPLL-QAFKTRISNIPTIKKFLQPGSQ 203
>pdb|1B48|A Chain A, Crystal Structure Of Mgsta4-4 In Complex With Gsh
Conjugate Of 4-Hydroxynonenal In One Subunit And Gsh In
The Other: Evidence Of Signaling Across Dimer Interface
In Mgsta4-4
pdb|1B48|B Chain B, Crystal Structure Of Mgsta4-4 In Complex With Gsh
Conjugate Of 4-Hydroxynonenal In One Subunit And Gsh In
The Other: Evidence Of Signaling Across Dimer Interface
In Mgsta4-4
Length = 221
Score = 30.0 bits (66), Expect = 2.5, Method: Compositional matrix adjust.
Identities = 25/99 (25%), Positives = 43/99 (43%), Gaps = 11/99 (11%)
Query: 167 FKTVNVNGKDIELFIQNC-----PLLDRLCVDHSKTLVRLRVIGSSIQLKYLEIQSCYLM 221
FKT + +L + P+ +++ DH + + +G+ + +++ LM
Sbjct: 110 FKTPKEKEESYDLILSRAKTRYFPVFEKILKDHGEAFL----VGNQLSWADIQLLEAILM 165
Query: 222 EEIEISAPSLLSFRYYGQAIKINIENVPQLVDVSIRGSH 260
E E+SAP L F QA K I N+P + GS
Sbjct: 166 VE-ELSAPVLSDFPLL-QAFKTRISNIPTIKKFLQPGSQ 202
>pdb|2D42|A Chain A, Crystal Structure Analysis Of A Non-Toxic Crystal
Protein From Bacillus Thuringiensis
pdb|2D42|B Chain B, Crystal Structure Analysis Of A Non-Toxic Crystal
Protein From Bacillus Thuringiensis
Length = 249
Score = 30.0 bits (66), Expect = 2.8, Method: Compositional matrix adjust.
Identities = 11/38 (28%), Positives = 23/38 (60%)
Query: 18 RLPDDILVNIISHLTLKEAARTSVLSNRWRNLWTFTNS 55
R+PD I+ + ++H+ L T+ SN +++F+N+
Sbjct: 43 RIPDPIVTDPVNHIVLDRRIITNTTSNSLEGVFSFSNA 80
>pdb|1LDK|E Chain E, Structure Of The Cul1-Rbx1-Skp1-F Boxskp2 Scf Ubiquitin
Ligase Complex
Length = 41
Score = 29.3 bits (64), Expect = 4.1, Method: Composition-based stats.
Identities = 17/49 (34%), Positives = 24/49 (48%), Gaps = 9/49 (18%)
Query: 17 NRLPDDILVNIISHLTLKEAARTSVLSNRWRNLWTFTNSLEFDASESLW 65
+ LPD++L+ I S L L E + S + RW L + ESLW
Sbjct: 2 DSLPDELLLGIFSCLCLPELLKVSGVCKRWYRL---------ASDESLW 41
>pdb|1FQV|A Chain A, Insights Into Scf Ubiquitin Ligases From The Structure
Of The Skp1-Skp2 Complex
pdb|1FQV|C Chain C, Insights Into Scf Ubiquitin Ligases From The Structure
Of The Skp1-Skp2 Complex
pdb|1FQV|E Chain E, Insights Into Scf Ubiquitin Ligases From The Structure
Of The Skp1-Skp2 Complex
pdb|1FQV|G Chain G, Insights Into Scf Ubiquitin Ligases From The Structure
Of The Skp1-Skp2 Complex
pdb|1FQV|I Chain I, Insights Into Scf Ubiquitin Ligases From The Structure
Of The Skp1-Skp2 Complex
pdb|1FQV|K Chain K, Insights Into Scf Ubiquitin Ligases From The Structure
Of The Skp1-Skp2 Complex
pdb|1FQV|M Chain M, Insights Into Scf Ubiquitin Ligases From The Structure
Of The Skp1-Skp2 Complex
pdb|1FQV|O Chain O, Insights Into Scf Ubiquitin Ligases From The Structure
Of The Skp1-Skp2 Complex
pdb|2ASS|B Chain B, Crystal Structure Of The Skp1-Skp2-Cks1 Complex
pdb|2AST|B Chain B, Crystal Structure Of Skp1-Skp2-Cks1 In Complex With A
P27 Peptide
Length = 336
Score = 29.3 bits (64), Expect = 4.2, Method: Compositional matrix adjust.
Identities = 17/49 (34%), Positives = 24/49 (48%), Gaps = 9/49 (18%)
Query: 17 NRLPDDILVNIISHLTLKEAARTSVLSNRWRNLWTFTNSLEFDASESLW 65
+ LPD++L+ I S L L E + S + RW L + ESLW
Sbjct: 10 DSLPDELLLGIFSCLCLPELLKVSGVCKRWYRL---------ASDESLW 49
>pdb|1FS1|A Chain A, Insights Into Scf Ubiquitin Ligases From The Structure
Of The Skp1-Skp2 Complex
pdb|1FS1|C Chain C, Insights Into Scf Ubiquitin Ligases From The Structure
Of The Skp1-Skp2 Complex
Length = 53
Score = 29.3 bits (64), Expect = 4.8, Method: Compositional matrix adjust.
Identities = 17/51 (33%), Positives = 24/51 (47%), Gaps = 9/51 (17%)
Query: 17 NRLPDDILVNIISHLTLKEAARTSVLSNRWRNLWTFTNSLEFDASESLWNV 67
+ LPD++L+ I S L L E + S + RW L + ESLW
Sbjct: 10 DSLPDELLLGIFSCLCLPELLKVSGVCKRWYRL---------ASDESLWQT 51
>pdb|3RJO|A Chain A, Crystal Structure Of Erap1 Peptide Binding Domain
Length = 419
Score = 28.5 bits (62), Expect = 7.2, Method: Compositional matrix adjust.
Identities = 25/102 (24%), Positives = 41/102 (40%), Gaps = 9/102 (8%)
Query: 239 QAIKINIENVPQLVDVSIRGSHTFRVTYFVGPIISCFPQLKTLELDSCNEVYMQFSLFEL 298
Q + I ++ + +D+S+ H + + P K +E NEV QF F +
Sbjct: 117 QLVSIGKLSIEKALDLSLYLKHETEIMPVFQGLNELIPMYKLMEKRDMNEVETQFKAFLI 176
Query: 299 PKLIDLRLRVTTPN---------RESLLGLTCIMKACPFLQK 331
L DL + T + R LL L C+ P +Q+
Sbjct: 177 RLLRDLIDKQTWTDEGSVSERMLRSQLLLLACVHNYQPCVQR 218
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 0.140 0.424
Lambda K H
0.267 0.0410 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Hits to DB: 12,368,400
Number of Sequences: 62578
Number of extensions: 500536
Number of successful extensions: 1401
Number of sequences better than 100.0: 18
Number of HSP's better than 100.0 without gapping: 9
Number of HSP's successfully gapped in prelim test: 9
Number of HSP's that attempted gapping in prelim test: 1392
Number of HSP's gapped (non-prelim): 18
length of query: 427
length of database: 14,973,337
effective HSP length: 102
effective length of query: 325
effective length of database: 8,590,381
effective search space: 2791873825
effective search space used: 2791873825
T: 11
A: 40
X1: 15 ( 7.0 bits)
X2: 38 (14.6 bits)
X3: 64 (24.7 bits)
S1: 40 (21.6 bits)
S2: 53 (25.0 bits)