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= 015983
(397 letters)
Database: pdbaa
62,578 sequences; 14,973,337 total letters
Searching..................................................done
>pdb|4FCG|A Chain A, Structure Of The Leucine-Rich Repeat Domain Of The Type
Iii Effector Xcv3220 (Xopl)
Length = 328
Score = 39.7 bits (91), Expect = 0.003, Method: Compositional matrix adjust.
Identities = 35/99 (35%), Positives = 46/99 (46%), Gaps = 12/99 (12%)
Query: 45 VQEFPEKTSSKD---------QLLEIHLEGTAIRGLPASIELLSGNVLLNLKDRKN-LKS 94
+ E PE +S D L + LE T IR LPASI L L +LK R + L +
Sbjct: 163 LTELPEPLASTDASGEHQGLVNLQSLRLEWTGIRSLPASIANLQN--LKSLKIRNSPLSA 220
Query: 95 LPSTINGLRCLRMLHLSGCSKLKNAPETLGKVESLESAV 133
L I+ L L L L GC+ L+N P G L+ +
Sbjct: 221 LGPAIHHLPKLEELDLRGCTALRNYPPIFGGRAPLKRLI 259
Score = 37.7 bits (86), Expect = 0.012, Method: Compositional matrix adjust.
Identities = 25/93 (26%), Positives = 44/93 (47%), Gaps = 1/93 (1%)
Query: 36 FAIELLFRLVQEFPEKTSSKDQLLEIHLEGTAIRGLPASIELLSGNVLLNLKDRKNLKSL 95
A+EL + +FP++ L ++ + LP + + +G L L R L++L
Sbjct: 84 VALELRSVPLPQFPDQAFRLSHLQHXTIDAAGLXELPDTXQQFAGLETLTLA-RNPLRAL 142
Query: 96 PSTINGLRCLRMLHLSGCSKLKNAPETLGKVES 128
P++I L LR L + C +L PE L ++
Sbjct: 143 PASIASLNRLRELSIRACPELTELPEPLASTDA 175
Score = 30.0 bits (66), Expect = 2.2, Method: Compositional matrix adjust.
Identities = 25/73 (34%), Positives = 35/73 (47%), Gaps = 1/73 (1%)
Query: 57 QLLEIHLEG-TAIRGLPASIELLSGNVLLNLKDRKNLKSLPSTINGLRCLRMLHLSGCSK 115
+L E+ L G TA+R P + L LKD NL +LP I+ L L L L GC
Sbjct: 230 KLEELDLRGCTALRNYPPIFGGRAPLKRLILKDCSNLLTLPLDIHRLTQLEKLDLRGCVN 289
Query: 116 LKNAPETLGKVES 128
L P + ++ +
Sbjct: 290 LSRLPSLIAQLPA 302
>pdb|2XDD|A Chain A, A Processed Non-Coding Rna Regulates A Bacterial Antiviral
System
pdb|2XDD|B Chain B, A Processed Non-Coding Rna Regulates A Bacterial Antiviral
System
pdb|2XDD|E Chain E, A Processed Non-Coding Rna Regulates A Bacterial Antiviral
System
Length = 171
Score = 30.0 bits (66), Expect = 2.3, Method: Compositional matrix adjust.
Identities = 32/121 (26%), Positives = 49/121 (40%), Gaps = 16/121 (13%)
Query: 164 STTADYLRDFSIVVPGSEIPEWFEYQNNEGSSITIS--------TPPKTYKNSKLLGYAM 215
S +YL++F VP SE P + + G + I T PK + N+
Sbjct: 8 SKYIEYLKEFDDKVPNSEDPTYQNPKAFIGIVLEIQGHKYLAPLTSPKKWHNNVKESSLS 67
Query: 216 CCVFH---VPK-----YSLPYYIRPLPYPVHGLSINRKPTTPALGGIYLRKQFGQAMSDH 267
C H VP+ +L + I + V L + P TP +Y + QF +A SD
Sbjct: 68 CFKLHENGVPENQLGLINLKFXIPIIEAEVSLLDLGNXPNTPYKRXLYKQLQFIRANSDK 127
Query: 268 L 268
+
Sbjct: 128 I 128
>pdb|2XD0|A Chain A, A Processed Non-Coding Rna Regulates A Bacterial Antiviral
System
pdb|2XD0|B Chain B, A Processed Non-Coding Rna Regulates A Bacterial Antiviral
System
pdb|2XD0|E Chain E, A Processed Non-Coding Rna Regulates A Bacterial Antiviral
System
pdb|2XD0|X Chain X, A Processed Non-Coding Rna Regulates A Bacterial Antiviral
System
pdb|2XD0|Y Chain Y, A Processed Non-Coding Rna Regulates A Bacterial Antiviral
System
pdb|2XD0|Z Chain Z, A Processed Non-Coding Rna Regulates A Bacterial Antiviral
System
pdb|2XDB|A Chain A, A Processed Non-Coding Rna Regulates A Bacterial Antiviral
System
Length = 171
Score = 29.6 bits (65), Expect = 3.2, Method: Compositional matrix adjust.
Identities = 32/121 (26%), Positives = 49/121 (40%), Gaps = 16/121 (13%)
Query: 164 STTADYLRDFSIVVPGSEIPEWFEYQNNEGSSITIS--------TPPKTYKNSKLLGYAM 215
S +YL++F VP SE P + + G + I T PK + N+
Sbjct: 8 SKYIEYLKEFDDKVPNSEDPTYQNPKAFIGIVLEIQGHKYLAPLTSPKKWHNNVKESSLS 67
Query: 216 CCVFH---VPK-----YSLPYYIRPLPYPVHGLSINRKPTTPALGGIYLRKQFGQAMSDH 267
C H VP+ +L + I + V L + P TP +Y + QF +A SD
Sbjct: 68 CFKLHENGVPENQLGLINLKFMIPIIEAEVSLLDLGNMPNTPYKRMLYKQLQFIRANSDK 127
Query: 268 L 268
+
Sbjct: 128 I 128
>pdb|3EEI|A Chain A, Crystal Structure Of 5'-MethylthioadenosineS-
Adenosylhomocysteine Nucleosidase From Neisseria
Meningitidis In Complex With Methylthio-Immucillin-A
pdb|3EEI|B Chain B, Crystal Structure Of 5'-MethylthioadenosineS-
Adenosylhomocysteine Nucleosidase From Neisseria
Meningitidis In Complex With Methylthio-Immucillin-A
Length = 233
Score = 29.6 bits (65), Expect = 3.5, Method: Compositional matrix adjust.
Identities = 18/67 (26%), Positives = 26/67 (38%), Gaps = 1/67 (1%)
Query: 263 AMSDHLFLYYQNREDISEVEFSSPSGSEVKRCGVHPIYVHQG-DKFNQTTDPVWKLNEFG 321
AM + L + E++ V F S E + G + G K N W + EF
Sbjct: 11 AMEQEIELLREMMENVKAVSFGRFSAYEGELAGKRMVLALSGIGKVNAAVATAWIIREFA 70
Query: 322 HDCAEST 328
DC +T
Sbjct: 71 ADCVINT 77
>pdb|3NZT|A Chain A, 2.0 Angstrom Crystal Structure Of Glutamate--Cysteine
Ligase (Gsha) Ftom Francisella Tularensis In Complex
With Amp
Length = 525
Score = 28.9 bits (63), Expect = 5.2, Method: Compositional matrix adjust.
Identities = 13/36 (36%), Positives = 20/36 (55%), Gaps = 3/36 (8%)
Query: 350 DDAGSTTSSERRFL---KRSLEEYVGAAEASGSGCC 382
D AG + ++E+ + K SL+EY+ S GCC
Sbjct: 490 DQAGQSVAAEKELVANDKISLDEYINRYYKSSKGCC 525
>pdb|2XA7|B Chain B, Ap2 Clathrin Adaptor Core In Active Complex With Cargo
Peptides
Length = 592
Score = 28.5 bits (62), Expect = 6.2, Method: Compositional matrix adjust.
Identities = 21/71 (29%), Positives = 33/71 (46%)
Query: 17 KFPDIVQVLWDGTDIRELSFAIELLFRLVQEFPEKTSSKDQLLEIHLEGTAIRGLPASIE 76
K+ I+ L + D + A + +V E+ E+ + D+LLE LEG +
Sbjct: 424 KYESIIATLCENLDSLDEPDARAAMIWIVGEYAERIDNADELLESFLEGFHDESTQVQLT 483
Query: 77 LLSGNVLLNLK 87
LL+ V L LK
Sbjct: 484 LLTAIVKLFLK 494
>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 = 28.5 bits (62), Expect = 6.2, Method: Compositional matrix adjust.
Identities = 21/71 (29%), Positives = 33/71 (46%)
Query: 17 KFPDIVQVLWDGTDIRELSFAIELLFRLVQEFPEKTSSKDQLLEIHLEGTAIRGLPASIE 76
K+ I+ L + D + A + +V E+ E+ + D+LLE LEG +
Sbjct: 424 KYESIIATLCENLDSLDEPDARAAMIWIVGEYAERIDNADELLESFLEGFHDESTQVQLT 483
Query: 77 LLSGNVLLNLK 87
LL+ V L LK
Sbjct: 484 LLTAIVKLFLK 494
>pdb|2UWF|A Chain A, Crystal Structure Of Family 10 Xylanase From Bacillus
Halodurans
Length = 356
Score = 28.1 bits (61), Expect = 8.2, Method: Compositional matrix adjust.
Identities = 15/55 (27%), Positives = 25/55 (45%)
Query: 157 VDKGIKLSTTADYLRDFSIVVPGSEIPEWFEYQNNEGSSITISTPPKTYKNSKLL 211
DK ++ + + F +V S++PEWF N + + P K N +LL
Sbjct: 68 ADKIVEFARKHNMELRFHTLVWHSQVPEWFFIDENGNRMVDETDPEKRKANKQLL 122
>pdb|1W63|B Chain B, Ap1 Clathrin Adaptor Core
pdb|1W63|D Chain D, Ap1 Clathrin Adaptor Core
pdb|1W63|F Chain F, Ap1 Clathrin Adaptor Core
pdb|1W63|H Chain H, Ap1 Clathrin Adaptor Core
pdb|1W63|J Chain J, Ap1 Clathrin Adaptor Core
pdb|1W63|L Chain L, Ap1 Clathrin Adaptor Core
Length = 584
Score = 28.1 bits (61), Expect = 8.5, Method: Compositional matrix adjust.
Identities = 19/71 (26%), Positives = 35/71 (49%)
Query: 17 KFPDIVQVLWDGTDIRELSFAIELLFRLVQEFPEKTSSKDQLLEIHLEGTAIRGLPASIE 76
K+ ++ L + D + A + +V E+ E++ + D+LLE L+G ++
Sbjct: 424 KYESVIATLCENLDSDDEPEARAAMIWIVGEYAERSDNADELLESFLDGFHDESTQVQLQ 483
Query: 77 LLSGNVLLNLK 87
LL+ V L LK
Sbjct: 484 LLTAIVKLFLK 494
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
0.316 0.134 0.400
Lambda K H
0.267 0.0410 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Hits to DB: 12,073,926
Number of Sequences: 62578
Number of extensions: 509360
Number of successful extensions: 1740
Number of sequences better than 100.0: 21
Number of HSP's better than 100.0 without gapping: 7
Number of HSP's successfully gapped in prelim test: 14
Number of HSP's that attempted gapping in prelim test: 1729
Number of HSP's gapped (non-prelim): 23
length of query: 397
length of database: 14,973,337
effective HSP length: 101
effective length of query: 296
effective length of database: 8,652,959
effective search space: 2561275864
effective search space used: 2561275864
T: 11
A: 40
X1: 16 ( 7.3 bits)
X2: 38 (14.6 bits)
X3: 64 (24.7 bits)
S1: 41 (21.6 bits)
S2: 52 (24.6 bits)