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= 032263
(144 letters)
Database: pdbaa
62,578 sequences; 14,973,337 total letters
Searching..................................................done
>pdb|2GCC|A Chain A, Solution Structure Of The Gcc-Box Binding Domain, Nmr,
Minimized Mean Structure
pdb|3GCC|A Chain A, Solution Structure Of The Gcc-Box Binding Domain, Nmr, 46
Structures
Length = 70
Score = 101 bits (251), Expect = 2e-22, Method: Compositional matrix adjust.
Identities = 47/64 (73%), Positives = 56/64 (87%)
Query: 55 NYRGVRKRPWGKFAAEIRDRKKNGSRLWLGTYDTPEGAALAYDRAAFKMRGSKAKLNFPS 114
+YRGVR+RPWGKFAAEIRD KNG+R+WLGT++T E AALAYDRAAF+MRGS+A LNFP
Sbjct: 5 HYRGVRQRPWGKFAAEIRDPAKNGARVWLGTFETAEDAALAYDRAAFRMRGSRALLNFPL 64
Query: 115 LIAS 118
+ S
Sbjct: 65 RVNS 68
>pdb|1GCC|A Chain A, Solution Nmr Structure Of The Complex Of Gcc-Box Binding
Domain Of Aterf1 And Gcc-Box Dna, Minimized Average
Structure
Length = 63
Score = 100 bits (249), Expect = 3e-22, Method: Compositional matrix adjust.
Identities = 46/59 (77%), Positives = 54/59 (91%)
Query: 55 NYRGVRKRPWGKFAAEIRDRKKNGSRLWLGTYDTPEGAALAYDRAAFKMRGSKAKLNFP 113
+YRGVR+RPWGKFAAEIRD KNG+R+WLGT++T E AALAYDRAAF+MRGS+A LNFP
Sbjct: 2 HYRGVRQRPWGKFAAEIRDPAKNGARVWLGTFETAEDAALAYDRAAFRMRGSRALLNFP 60
>pdb|3CAI|A Chain A, Crystal Structure Of Mycobacterium Tuberculosis Rv3778c
Protein
pdb|3CAI|B Chain B, Crystal Structure Of Mycobacterium Tuberculosis Rv3778c
Protein
Length = 406
Score = 28.9 bits (63), Expect = 0.98, Method: Compositional matrix adjust.
Identities = 12/43 (27%), Positives = 21/43 (48%)
Query: 4 CEALHDTVKEGWISFDQLDGKSTPHAPPQAQASGFRLQKAATM 46
LH ++ +GW+ FD G P + ++ FR A+T+
Sbjct: 16 VRGLHPSLGDGWVHFDAPAGMLIPDSVATTVSTAFRRSGASTV 58
>pdb|1NKW|E Chain E, Crystal Structure Of The Large Ribosomal Subunit From
Deinococcus Radiodurans
pdb|1SM1|E Chain E, Complex Of The Large Ribosomal Subunit From Deinococcus
Radiodurans With Quinupristin And Dalfopristin
Length = 212
Score = 28.5 bits (62), Expect = 1.2, Method: Compositional matrix adjust.
Identities = 12/44 (27%), Positives = 22/44 (50%)
Query: 70 EIRDRKKNGSRLWLGTYDTPEGAALAYDRAAFKMRGSKAKLNFP 113
++R+++ N SR+ P G + FK++G K +L P
Sbjct: 20 DLRNKEDNMSRIGKQPIAVPSGVTVNAQDGVFKVKGPKGELTVP 63
>pdb|1DS9|A Chain A, Solution Structure Of Chlamydomonas Outer Arm Dynein Light
Chain 1
Length = 198
Score = 28.1 bits (61), Expect = 1.9, Method: Compositional matrix adjust.
Identities = 9/21 (42%), Positives = 18/21 (85%)
Query: 1 MEDCEALHDTVKEGWISFDQL 21
+E+ +A+ DT++E WIS++Q+
Sbjct: 85 IENLDAVADTLEELWISYNQI 105
>pdb|1M9L|A Chain A, Relaxation-Based Refined Structure Of Chlamydomonas Outer
Arm Dynein Light Chain 1
Length = 199
Score = 28.1 bits (61), Expect = 2.0, Method: Compositional matrix adjust.
Identities = 9/21 (42%), Positives = 18/21 (85%)
Query: 1 MEDCEALHDTVKEGWISFDQL 21
+E+ +A+ DT++E WIS++Q+
Sbjct: 86 IENLDAVADTLEELWISYNQI 106
>pdb|2ZVB|A Chain A, Crystal Structure Of Tt0207 From Thermus Thermophilus Hb8
pdb|2ZVC|A Chain A, Form 2 Structure (C2221) Of Tt0207 From Thermus
Thermophilus Hb8
Length = 295
Score = 27.7 bits (60), Expect = 2.3, Method: Compositional matrix adjust.
Identities = 18/58 (31%), Positives = 27/58 (46%), Gaps = 2/58 (3%)
Query: 40 LQKAATMTREIHVRVNYRGVRKRPWGKFAAEIRDRKKNGSRLWLGTYDTPEGAALAYD 97
L K+A R+ G+R+ G + ++ SR + GT+ TP G AL YD
Sbjct: 211 LVKSAYRKRQEVALTTLEGLREAEAGMLTTVVIGNRQ--SRFYEGTFLTPRGYALKYD 266
>pdb|2POZ|A Chain A, Crystal Structure Of A Putative Dehydratase From
Mesorhizobium Loti
pdb|2POZ|B Chain B, Crystal Structure Of A Putative Dehydratase From
Mesorhizobium Loti
pdb|2POZ|C Chain C, Crystal Structure Of A Putative Dehydratase From
Mesorhizobium Loti
pdb|2POZ|D Chain D, Crystal Structure Of A Putative Dehydratase From
Mesorhizobium Loti
pdb|2POZ|E Chain E, Crystal Structure Of A Putative Dehydratase From
Mesorhizobium Loti
pdb|2POZ|F Chain F, Crystal Structure Of A Putative Dehydratase From
Mesorhizobium Loti
pdb|2POZ|G Chain G, Crystal Structure Of A Putative Dehydratase From
Mesorhizobium Loti
pdb|2POZ|H Chain H, Crystal Structure Of A Putative Dehydratase From
Mesorhizobium Loti
Length = 392
Score = 27.3 bits (59), Expect = 3.3, Method: Compositional matrix adjust.
Identities = 13/32 (40%), Positives = 18/32 (56%)
Query: 67 FAAEIRDRKKNGSRLWLGTYDTPEGAALAYDR 98
F +IRDR + + W G DTP+ A A +R
Sbjct: 116 FGGKIRDRVRAYANGWYGAADTPDEFARAVER 147
>pdb|3G5W|A Chain A, Crystal Structure Of Blue Copper Oxidase From Nitrosomonas
Europaea
pdb|3G5W|B Chain B, Crystal Structure Of Blue Copper Oxidase From Nitrosomonas
Europaea
pdb|3G5W|C Chain C, Crystal Structure Of Blue Copper Oxidase From Nitrosomonas
Europaea
pdb|3G5W|D Chain D, Crystal Structure Of Blue Copper Oxidase From Nitrosomonas
Europaea
pdb|3G5W|E Chain E, Crystal Structure Of Blue Copper Oxidase From Nitrosomonas
Europaea
pdb|3G5W|F Chain F, Crystal Structure Of Blue Copper Oxidase From Nitrosomonas
Europaea
Length = 318
Score = 26.9 bits (58), Expect = 3.6, Method: Compositional matrix adjust.
Identities = 19/57 (33%), Positives = 22/57 (38%), Gaps = 8/57 (14%)
Query: 20 QLDGKSTPHAPPQAQASG------FRLQKAATMTREIHVRVNYRGVRKRPWGKFAAE 70
Q DG PHA A G F+ + A TM HV VN + WG E
Sbjct: 70 QSDG--VPHATQHAIEPGDTFTYKFKAEPAGTMWYHCHVNVNEHVTMRGMWGPLIVE 124
>pdb|1NY7|1 Chain 1, Cowpea Mosaic Virus (Cpmv)
pdb|2BFU|S Chain S, X-Ray Structure Of Cpmv Top Component
Length = 189
Score = 26.9 bits (58), Expect = 3.7, Method: Compositional matrix adjust.
Identities = 19/61 (31%), Positives = 30/61 (49%), Gaps = 16/61 (26%)
Query: 16 ISFDQLDGKSTP----------HAPPQAQASGFRLQKAATMTREIHVRVNYR--GVRKRP 63
++FD ++GK TP + PP L+ AA + IHV++N R GV++
Sbjct: 30 VTFDLINGKITPVGDDNWNTHIYNPPIMNV----LRTAAWKSGTIHVQLNVRGAGVKRAD 85
Query: 64 W 64
W
Sbjct: 86 W 86
>pdb|1WX2|A Chain A, Crystal Structure Of The Oxy-Form Of The Copper-Bound
Streptomyces Castaneoglobisporus Tyrosinase Complexed
With A Caddie Protein Prepared By The Addition Of
Hydrogenperoxide
pdb|1WX4|A Chain A, Crystal Structure Of The Oxy-Form Of The Copper-Bound
Streptomyces Castaneoglobisporus Tyrosinase Complexed
With A Caddie Protein Prepared By The Addition Of
Dithiothreitol
pdb|1WX5|A Chain A, Crystal Structure Of The Copper-Free Streptomyces
Castaneoglobisporus Tyrosinase Complexed With A Caddie
Protein In The Monoclinic Crystal
pdb|1WX5|C Chain C, Crystal Structure Of The Copper-Free Streptomyces
Castaneoglobisporus Tyrosinase Complexed With A Caddie
Protein In The Monoclinic Crystal
pdb|1WXC|A Chain A, Crystal Structure Of The Copper-Free Streptomyces
Castaneoglobisporus Tyrosinase Complexed With A Caddie
Protein
pdb|2AHK|A Chain A, Crystal Structure Of The Met-Form Of The Copper-Bound
Streptomyces Castaneoglobisporus Tyrosinase In Complex
With A Caddie Protein Obtained By Soking In Cupric
Sulfate For 6 Months
pdb|2AHL|A Chain A, Crystal Structure Of The Hydroxylamine-Induced Deoxy-Form
Of The Copper-Bound Streptomyces Castaneoglobisporus
Tyrosinase In Complex With A Caddie Protein
pdb|2ZMX|A Chain A, Crystal Structure Of The Met1-Form Of The Copper-Bound
Tyrosinase In Complex With A Caddie Protein From
Streptomyces Castaneoglobisporus Obtained By Soaking In
Cupric Sulfate Solution For 36 Hours
pdb|2ZMY|A Chain A, Crystal Structure Of The Met2-Form Of The Copper-Bound
Tyrosinase In Complex With A Caddie Protein From
Streptomyces Castaneoglobisporus Obtained By Soaking In
Cupric Sulfate Solution For 80 Hours
pdb|2ZMZ|A Chain A, The 1.37-A Crystal Structure Of The Hydroxylamine-Induced
Deoxy-Form Of The Copper-Bound Tyrosinase In Complex
With A Caddie Protein From Streptomyces
Castaneoglobisporus
pdb|2ZWD|A Chain A, Crystal Structure Of The Copper-Bound Tyrosinase In
Complex With A Caddie Protein From Streptomyces
Castaneoglobisporus Obtained By Soaking The Deoxy-Form
Crystal In Dioxygen- Saturated Solution For 5 Minutes
pdb|2ZWE|A Chain A, Crystal Structure Of The Copper-Bound Tyrosinase In
Complex With A Caddie Protein From Streptomyces
Castaneoglobisporus Obtained By Soaking The Deoxy-Form
Crystal In Dioxygen-Saturated Solution For 40 Minutes
pdb|2ZWF|A Chain A, Crystal Structure Of The Copper-Bound Tyrosinase In
Complex With A Caddie Protein From Streptomyces
Castaneoglobisporus Obtained By Soaking The Deoxy-Form
Crystal In Dioxygen-Saturated Solution For 80 Minutes
pdb|2ZWG|A Chain A, Crystal Structure Of The Copper-Bound Tyrosinase In
Complex With A Caddie Protein From Streptomyces
Castaneoglobisporus Obtained By Soaking The Deoxy-Form
Crystal In Dioxygen-Saturated Solution For 12 Hours
pdb|3AWS|A Chain A, Crystal Structure Of Streptomyces Tyrosinase In A Complex
With Caddie Soaked In A Cu(Ii)-Containing Solution For
20 Hr: Occupancy Of Cu(Ii) Is Low
pdb|3AWT|A Chain A, Crystal Structure Of Streptomyces Tyrosinase In A Complex
With Caddie Soaked In A Cu(Ii)-Containing Solution For
20 Hr: Occupancy Of Cu(Ii) Is High
pdb|3AWU|A Chain A, Crystal Structure Of Streptomyces Tyrosinase In A Complex
With Caddie Soaked In A Cu(Ii)-Containing Solution For
40 H
pdb|3AWV|A Chain A, Crystal Structure Of Streptomyces Tyrosinase In A Complex
With Caddie Soaked In A Cu(Ii)-Containing Solution For
80 Hr: Occupancy Of Cua Is Low
pdb|3AWW|A Chain A, Crystal Structure Of Streptomyces Tyrosinase In A Complex
With Caddie Soaked In A Cu(Ii)-Containing Solution For
80 Hr: Occupancy Of Cua Is High
pdb|3AWX|A Chain A, Crystal Structure Of Streptomyces Tyrosinase In A Complex
With Caddie H82q Mutant Soaked In A Cu(Ii)-Containing
Solution For 80 Hr
pdb|3AWY|A Chain A, Crystal Structure Of Streptomyces Tyrosinase In A Complex
With Caddie M84l Mutant Soaked In A Cu(Ii)-Containing
Solution For 80 Hr
pdb|3AWZ|A Chain A, Crystal Structure Of Streptomyces Tyrosinase In A Complex
With Caddie H97q Mutant Soaked In A Cu(Ii)-Containing
Solution For 80 Hr
pdb|3AX0|A Chain A, Crystal Structure Of Streptomyces Tyrosinase In A Complex
With Caddie Y98f Mutant Soaked In A Cu(Ii)-Containing
Solution For 80 Hr
Length = 281
Score = 26.2 bits (56), Expect = 6.7, Method: Compositional matrix adjust.
Identities = 17/47 (36%), Positives = 24/47 (51%)
Query: 43 AATMTREIHVRVNYRGVRKRPWGKFAAEIRDRKKNGSRLWLGTYDTP 89
A+T I+VRV+ R +R G AE+ R + S L + YD P
Sbjct: 122 ASTGNWPINVRVDSRTYLRRSLGGSVAELPTRAEVESVLAISAYDLP 168
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 0.131 0.400
Lambda K H
0.267 0.0410 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Hits to DB: 4,003,423
Number of Sequences: 62578
Number of extensions: 140778
Number of successful extensions: 275
Number of sequences better than 100.0: 11
Number of HSP's better than 100.0 without gapping: 8
Number of HSP's successfully gapped in prelim test: 3
Number of HSP's that attempted gapping in prelim test: 267
Number of HSP's gapped (non-prelim): 11
length of query: 144
length of database: 14,973,337
effective HSP length: 89
effective length of query: 55
effective length of database: 9,403,895
effective search space: 517214225
effective search space used: 517214225
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: 46 (22.3 bits)