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= 031965
(150 letters)
Database: pdbaa
62,578 sequences; 14,973,337 total letters
Searching..................................................done
>pdb|1EQ6|A Chain A, 1.9 Angstrom Resolution Crystal Structure Of The
Saccharomyces Cerevisiae Ran-Binding Protein Mog1p
Length = 189
Score = 52.8 bits (125), Expect = 8e-08, Method: Compositional matrix adjust.
Identities = 48/152 (31%), Positives = 75/152 (49%), Gaps = 20/152 (13%)
Query: 8 ERPLFGGAISSSFPHRFQDVSNIRQVPDHQEVFVDPSRD-----------ESLIFELLDF 56
E L+GGAI++ P F D S +R+VPD QEV+V+ RD ES+I +LL+
Sbjct: 6 EVELYGGAITTVVPPGFIDASTLREVPDTQEVYVNSRRDEEEFEDGLATNESIIVDLLE- 64
Query: 57 KLDVGDNGSAAWF-LQDLATEQDAEGCTLLEQSGVVEAPGLRYKDLPATVTTAVGQMGRQ 115
+D D A F ++DL L++ V + G ++ L V G+
Sbjct: 65 TVDKSDLKEAWQFHVEDLTELNGTTKWEALQEDTVQQ--GTKFTGLVMEVANKWGKPDL- 121
Query: 116 GREAQNIVKVYLANLRLKEVGTDVLVTAYEPL 147
AQ +V + +A +RL + TDV+++ PL
Sbjct: 122 ---AQTVV-IGVALIRLTQFDTDVVISINVPL 149
>pdb|1JHS|A Chain A, Protein Mog1 E65a Mutant
Length = 188
Score = 50.1 bits (118), Expect = 4e-07, Method: Compositional matrix adjust.
Identities = 47/152 (30%), Positives = 74/152 (48%), Gaps = 20/152 (13%)
Query: 8 ERPLFGGAISSSFPHRFQDVSNIRQVPDHQEVFVDPSRD-----------ESLIFELLDF 56
E L+GGAI++ P F D S +R+VPD Q V+V+ RD ES+I +LL+
Sbjct: 5 EVELYGGAITTVVPPGFIDASTLREVPDTQAVYVNSRRDEEEFEDGLATNESIIVDLLE- 63
Query: 57 KLDVGDNGSAAWF-LQDLATEQDAEGCTLLEQSGVVEAPGLRYKDLPATVTTAVGQMGRQ 115
+D D A F ++DL L++ V + G ++ L V G+
Sbjct: 64 TVDKSDLKEAWQFHVEDLTELNGTTKWEALQEDTVQQ--GTKFTGLVMEVANKWGKPDL- 120
Query: 116 GREAQNIVKVYLANLRLKEVGTDVLVTAYEPL 147
AQ +V + +A +RL + TDV+++ PL
Sbjct: 121 ---AQTVV-IGVALIRLTQFDTDVVISINVPL 148
>pdb|1VHO|A Chain A, Crystal Structure Of A Putative PeptidaseENDOGLUCANASE
Length = 346
Score = 28.1 bits (61), Expect = 2.0, Method: Compositional matrix adjust.
Identities = 14/40 (35%), Positives = 23/40 (57%), Gaps = 1/40 (2%)
Query: 5 LYSERPLFGGAISSSFPHRFQDVSNIRQVPDHQEVFVDPS 44
+Y++ + G I PH QD + ++VP + E+FVD S
Sbjct: 103 IYTKNGIERGVIGXLAPH-LQDSESRKKVPTYDEIFVDLS 141
>pdb|3IMM|A Chain A, Crystal Structure Of Putative Glycosyl Hydrolase
(Yp_001301887.1) From Parabacteroides Distasonis Atcc
8503 At 2.00 A Resolution
pdb|3IMM|B Chain B, Crystal Structure Of Putative Glycosyl Hydrolase
(Yp_001301887.1) From Parabacteroides Distasonis Atcc
8503 At 2.00 A Resolution
pdb|3IMM|C Chain C, Crystal Structure Of Putative Glycosyl Hydrolase
(Yp_001301887.1) From Parabacteroides Distasonis Atcc
8503 At 2.00 A Resolution
Length = 201
Score = 26.9 bits (58), Expect = 4.3, Method: Compositional matrix adjust.
Identities = 19/67 (28%), Positives = 32/67 (47%), Gaps = 6/67 (8%)
Query: 9 RPLFGGAISSSF--PHRFQDVSNIRQVPDHQEVFVDPSRDESLIFEL-LDFKLDVGDNGS 65
+PLFG + ++ P + + + + ++ ++DE FEL LDFK DVG N
Sbjct: 8 KPLFGKNLENANYNPEVWSETDGVLGAVKDESIW---TKDEYENFELDLDFKTDVGTNSG 64
Query: 66 AAWFLQD 72
+ D
Sbjct: 65 VVVYCTD 71
>pdb|4A0L|E Chain E, Structure Of Ddb1-Ddb2-Cul4b-Rbx1 Bound To A 12 Bp Abasic
Site Containing Dna-Duplex
pdb|4A0L|H Chain H, Structure Of Ddb1-Ddb2-Cul4b-Rbx1 Bound To A 12 Bp Abasic
Site Containing Dna-Duplex
Length = 726
Score = 26.6 bits (57), Expect = 6.1, Method: Composition-based stats.
Identities = 8/19 (42%), Positives = 16/19 (84%)
Query: 39 VFVDPSRDESLIFELLDFK 57
+ ++P +D++++ ELLDFK
Sbjct: 318 IVINPEKDKTMVQELLDFK 336
>pdb|4A0C|C Chain C, Structure Of The Cand1-Cul4b-Rbx1 Complex
pdb|4A0C|E Chain E, Structure Of The Cand1-Cul4b-Rbx1 Complex
Length = 741
Score = 26.6 bits (57), Expect = 6.1, Method: Composition-based stats.
Identities = 8/19 (42%), Positives = 16/19 (84%)
Query: 39 VFVDPSRDESLIFELLDFK 57
+ ++P +D++++ ELLDFK
Sbjct: 333 IVINPEKDKTMVQELLDFK 351
>pdb|3Q9V|A Chain A, Crystal Structure Of Rra C-Terminal Domain(123-221) From
Deinococcus Radiodurans
pdb|3Q9V|B Chain B, Crystal Structure Of Rra C-Terminal Domain(123-221) From
Deinococcus Radiodurans
Length = 133
Score = 25.8 bits (55), Expect = 8.7, Method: Compositional matrix adjust.
Identities = 14/27 (51%), Positives = 18/27 (66%), Gaps = 2/27 (7%)
Query: 109 VGQMGRQGR--EAQNIVKVYLANLRLK 133
+GQ QGR E N+V V++ANLR K
Sbjct: 85 IGQEIWQGRLPEGSNVVDVHMANLRAK 111
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
0.317 0.136 0.391
Lambda K H
0.267 0.0410 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Hits to DB: 4,379,511
Number of Sequences: 62578
Number of extensions: 168350
Number of successful extensions: 428
Number of sequences better than 100.0: 14
Number of HSP's better than 100.0 without gapping: 7
Number of HSP's successfully gapped in prelim test: 7
Number of HSP's that attempted gapping in prelim test: 421
Number of HSP's gapped (non-prelim): 14
length of query: 150
length of database: 14,973,337
effective HSP length: 90
effective length of query: 60
effective length of database: 9,341,317
effective search space: 560479020
effective search space used: 560479020
T: 11
A: 40
X1: 16 ( 7.3 bits)
X2: 38 (14.6 bits)
X3: 64 (24.7 bits)
S1: 41 (21.7 bits)
S2: 47 (22.7 bits)