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= 034423
(95 letters)
Database: pdbaa
62,578 sequences; 14,973,337 total letters
Searching..................................................done
>pdb|1WZ3|A Chain A, The Crystal Structure Of Plant Atg12
pdb|1WZ3|B Chain B, The Crystal Structure Of Plant Atg12
Length = 96
Score = 163 bits (412), Expect = 3e-41, Method: Compositional matrix adjust.
Identities = 75/93 (80%), Positives = 85/93 (91%)
Query: 3 ATDSPSSTRKVVVHFRATGGAPILKQAKFKISGSDKFAKVIEFLCRHLGRETLFVYVNSA 62
AT+SP+S +K+VVH RATGGAPILKQ+KFK+SGSDKFA VI+FL R L ++LFVYVNSA
Sbjct: 4 ATESPNSVQKIVVHLRATGGAPILKQSKFKVSGSDKFANVIDFLRRQLHSDSLFVYVNSA 63
Query: 63 FSPNPDELVIDLYNNFGFDGKLIVNYACSMAWG 95
FSPNPDE VIDLYNNFGFDGKL+VNYACSMAWG
Sbjct: 64 FSPNPDESVIDLYNNFGFDGKLVVNYACSMAWG 96
>pdb|4GDK|A Chain A, Crystal Structure Of Human Atg12~atg5 Conjugate In
Complex With An N- Terminal Fragment Of Atg16l1
pdb|4GDK|D Chain D, Crystal Structure Of Human Atg12~atg5 Conjugate In
Complex With An N- Terminal Fragment Of Atg16l1
pdb|4GDL|A Chain A, Crystal Structure Of Human Atg12~atg5 Conjugate In
Complex With An N- Terminal Fragment Of Atg16l1
Length = 91
Score = 74.3 bits (181), Expect = 1e-14, Method: Compositional matrix adjust.
Identities = 35/90 (38%), Positives = 55/90 (61%), Gaps = 3/90 (3%)
Query: 9 STRKVVVHFRATGGAPILKQAKFKISGSDKFAKVIEFLCRHL---GRETLFVYVNSAFSP 65
S +K+ + +A G PI+K K+ + + +I+F+ + L E LF+YVN +F+P
Sbjct: 2 SKKKIDILLKAVGDTPIMKTKKWAVERTRTIQGLIDFIKKFLKLVASEQLFIYVNQSFAP 61
Query: 66 NPDELVIDLYNNFGFDGKLIVNYACSMAWG 95
+PD+ V LY FG DGKL+++Y S AWG
Sbjct: 62 SPDQEVGTLYECFGSDGKLVLHYCKSQAWG 91
>pdb|3W1S|C Chain C, Crystal Structure Of Saccharomyces Cerevisiae Atg12-Atg5
Conjugate Bound To The N-Terminal Domain Of Atg16
Length = 91
Score = 62.0 bits (149), Expect = 9e-11, Method: Compositional matrix adjust.
Identities = 31/87 (35%), Positives = 54/87 (62%)
Query: 9 STRKVVVHFRATGGAPILKQAKFKISGSDKFAKVIEFLCRHLGRETLFVYVNSAFSPNPD 68
+ +K+ + F+ G LK + KIS S FA VI FL R L + ++ Y+N++F+P+P
Sbjct: 5 NIQKIQIKFQPIGSIGQLKPSVCKISMSQSFAMVILFLKRRLKMDHVYCYINNSFAPSPQ 64
Query: 69 ELVIDLYNNFGFDGKLIVNYACSMAWG 95
+ + +L+ F + +LIV+Y S+A+G
Sbjct: 65 QNIGELWMQFKTNDELIVSYCASVAFG 91
>pdb|3JXE|A Chain A, Crystal Structure Of Pyrococcus Horikoshii
Tryptophanyl-Trna Synthetase In Complex With Trpamp
pdb|3JXE|B Chain B, Crystal Structure Of Pyrococcus Horikoshii
Tryptophanyl-Trna Synthetase In Complex With Trpamp
Length = 392
Score = 29.6 bits (65), Expect = 0.40, Method: Composition-based stats.
Identities = 14/29 (48%), Positives = 16/29 (55%)
Query: 4 TDSPSSTRKVVVHFRATGGAPILKQAKFK 32
TDSP K V F TGG P LK+ + K
Sbjct: 266 TDSPEDVEKKVWKFTLTGGRPTLKEQREK 294
>pdb|3CIO|A Chain A, The Kinase Domain Of Escherichia Coli Tyrosine Kinase Etk
pdb|3CIO|D Chain D, The Kinase Domain Of Escherichia Coli Tyrosine Kinase Etk
Length = 299
Score = 26.6 bits (57), Expect = 3.3, Method: Composition-based stats.
Identities = 13/40 (32%), Positives = 20/40 (50%), Gaps = 4/40 (10%)
Query: 33 ISGSDKFAKVIEFLCRHLGRETLFVYVNSAFSPNPDELVI 72
++G D+ KVI+ H G+ V PNP EL++
Sbjct: 164 LAGKDELNKVIQ----HFGKGGFDVITRGQVPPNPSELLM 199
>pdb|3ECI|A Chain A, Microtubule-Associated Protein 1 Light Chain 3 Alpha
Isoform A (Map1alc3)
pdb|3ECI|B Chain B, Microtubule-Associated Protein 1 Light Chain 3 Alpha
Isoform A (Map1alc3)
Length = 122
Score = 26.2 bits (56), Expect = 5.1, Method: Compositional matrix adjust.
Identities = 19/93 (20%), Positives = 39/93 (41%), Gaps = 4/93 (4%)
Query: 7 PSSTRKVVVHFRATGGAPILKQAKFKISGSDKFAKVIEFLCRHLG---RETLFVYVNSAF 63
PS ++ ++ P+L + KF + +++++ + R L + F+ VN
Sbjct: 29 PSKIPVIIERYKGEKQLPVLDKTKFLVPDHVNMSELVKIIRRRLQLNPTQAFFLLVNQHS 88
Query: 64 SPNPDELVIDLYNNF-GFDGKLIVNYACSMAWG 95
+ + D+Y DG L + YA +G
Sbjct: 89 MVSVSTPIADIYEQEKDEDGFLYMVYASQETFG 121
>pdb|3N54|B Chain B, Crystal Structure Of The Gerbc Protein
Length = 350
Score = 25.8 bits (55), Expect = 5.7, Method: Composition-based stats.
Identities = 9/22 (40%), Positives = 16/22 (72%)
Query: 65 PNPDELVIDLYNNFGFDGKLIV 86
P P E +IDL + G++GK+++
Sbjct: 127 PMPSEKLIDLTTHSGYNGKIMI 148
>pdb|1KQW|A Chain A, Crystal Structure Of Holo-Crbp From Zebrafish
pdb|1KQX|A Chain A, Crystal Structure Of Apo-Crbp From Zebrafish
Length = 134
Score = 25.4 bits (54), Expect = 9.1, Method: Compositional matrix adjust.
Identities = 15/40 (37%), Positives = 18/40 (45%), Gaps = 9/40 (22%)
Query: 1 MAATDSPSSTRKVVVHFRATGGAPILKQAKFKISGSDKFA 40
M A D +TRK+ VH LKQ K + DKF
Sbjct: 20 MKALDIDFATRKIAVH---------LKQTKVIVQNGDKFE 50
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
0.323 0.137 0.419
Lambda K H
0.267 0.0410 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Hits to DB: 2,923,040
Number of Sequences: 62578
Number of extensions: 105243
Number of successful extensions: 265
Number of sequences better than 100.0: 10
Number of HSP's better than 100.0 without gapping: 5
Number of HSP's successfully gapped in prelim test: 5
Number of HSP's that attempted gapping in prelim test: 259
Number of HSP's gapped (non-prelim): 10
length of query: 95
length of database: 14,973,337
effective HSP length: 62
effective length of query: 33
effective length of database: 11,093,501
effective search space: 366085533
effective search space used: 366085533
T: 11
A: 40
X1: 16 ( 7.5 bits)
X2: 38 (14.6 bits)
X3: 64 (24.7 bits)
S1: 41 (22.0 bits)
S2: 45 (21.9 bits)