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= 022356
(298 letters)
Database: pdbaa
62,578 sequences; 14,973,337 total letters
Searching..................................................done
>pdb|2AJ0|A Chain A, Solution Structure Of Apocada
pdb|2AJ1|A Chain A, Solution Structure Of Apocada
Length = 71
Score = 35.8 bits (81), Expect = 0.032, Method: Composition-based stats.
Identities = 20/59 (33%), Positives = 32/59 (54%), Gaps = 8/59 (13%)
Query: 217 VLRVS-LHCKGCEGKVRKHLSRMKGVSSFNIDFAAKKVTVVGDVTPLSVLASISKVKNA 274
V RV L C C K +++ ++GV+ ++F A K+TV G+ ASI +V+ A
Sbjct: 6 VYRVDGLSCTNCAAKFERNVKEIEGVTEAIVNFGASKITVTGE-------ASIQQVEQA 57
>pdb|3PZP|A Chain A, Human Dna Polymerase Kappa Extending Opposite A Cis-Syn
Thymine Dimer
pdb|3PZP|B Chain B, Human Dna Polymerase Kappa Extending Opposite A Cis-Syn
Thymine Dimer
Length = 517
Score = 35.0 bits (79), Expect = 0.047, Method: Compositional matrix adjust.
Identities = 23/67 (34%), Positives = 33/67 (49%), Gaps = 3/67 (4%)
Query: 107 PLAEQTNKILSSTNNDATIYKDCYTAMPADIKKKSCAQLGDFITPPGSSRYLLSDAGFID 166
P+A + +LS++N A + AMP I K+ C QL I PP +Y +
Sbjct: 116 PIAVGSMSMLSTSNYHARRF-GVRAAMPGFIAKRLCPQL--IIVPPNFDKYRAVSKEVKE 172
Query: 167 GLSDYDP 173
L+DYDP
Sbjct: 173 ILADYDP 179
>pdb|1T94|A Chain A, Crystal Structure Of The Catalytic Core Of Human Dna
Polymerase Kappa
pdb|1T94|B Chain B, Crystal Structure Of The Catalytic Core Of Human Dna
Polymerase Kappa
Length = 459
Score = 35.0 bits (79), Expect = 0.049, Method: Compositional matrix adjust.
Identities = 23/67 (34%), Positives = 33/67 (49%), Gaps = 3/67 (4%)
Query: 107 PLAEQTNKILSSTNNDATIYKDCYTAMPADIKKKSCAQLGDFITPPGSSRYLLSDAGFID 166
P+A + +LS++N A + AMP I K+ C QL I PP +Y +
Sbjct: 60 PIAVGSMSMLSTSNYHARRF-GVRAAMPGFIAKRLCPQL--IIVPPNFDKYRAVSKEVKE 116
Query: 167 GLSDYDP 173
L+DYDP
Sbjct: 117 ILADYDP 123
>pdb|2OH2|A Chain A, Ternary Complex Of Human Dna Polymerase
pdb|2OH2|B Chain B, Ternary Complex Of Human Dna Polymerase
pdb|2W7O|A Chain A, Structure And Activity Of Bypass Synthesis By Human Dna
Polymerase Kappa Opposite The 7,8-Dihydro-8-
Oxodeoxyguanosine Adduct
pdb|2W7O|B Chain B, Structure And Activity Of Bypass Synthesis By Human Dna
Polymerase Kappa Opposite The 7,8-Dihydro-8-
Oxodeoxyguanosine Adduct
pdb|2W7P|A Chain A, Structure And Activity Of Bypass Synthesis By Human Dna
Polymerase Kappa Opposite The 7,8-Dihydro-8-
Oxodeoxyguanosine Adduct
pdb|2W7P|B Chain B, Structure And Activity Of Bypass Synthesis By Human Dna
Polymerase Kappa Opposite The 7,8-Dihydro-8-
Oxodeoxyguanosine Adduct
pdb|3IN5|A Chain A, Structure Of Human Dna Polymerase Kappa Inserting Datp
Opposite An 8-Oxog Dna Lesion
pdb|3IN5|B Chain B, Structure Of Human Dna Polymerase Kappa Inserting Datp
Opposite An 8-Oxog Dna Lesion
Length = 508
Score = 35.0 bits (79), Expect = 0.054, Method: Compositional matrix adjust.
Identities = 23/67 (34%), Positives = 33/67 (49%), Gaps = 3/67 (4%)
Query: 107 PLAEQTNKILSSTNNDATIYKDCYTAMPADIKKKSCAQLGDFITPPGSSRYLLSDAGFID 166
P+A + +LS++N A + AMP I K+ C QL I PP +Y +
Sbjct: 109 PIAVGSMSMLSTSNYHARRF-GVRAAMPGFIAKRLCPQL--IIVPPNFDKYRAVSKEVKE 165
Query: 167 GLSDYDP 173
L+DYDP
Sbjct: 166 ILADYDP 172
>pdb|1KQK|A Chain A, Solution Structure Of The N-Terminal Domain Of A Potential
Copper-Translocating P-Type Atpase From Bacillus
Subtilis In The Cu(I)loaded State
Length = 80
Score = 32.7 bits (73), Expect = 0.27, Method: Composition-based stats.
Identities = 17/53 (32%), Positives = 32/53 (60%), Gaps = 4/53 (7%)
Query: 222 LHCKGCEGKVRKHLSRMKGVSSFNIDFAAKKVTVVGDVTPLSVLASISKVKNA 274
+ C C ++ K L++++GV++ ++FA + VTV + P AS+S +K A
Sbjct: 12 MTCAACANRIEKRLNKIEGVANAPVNFALETVTV--EYNPKE--ASVSDLKEA 60
>pdb|2VOY|A Chain A, Cryoem Model Of Copa, The Copper Transporting Atpase From
Archaeoglobus Fulgidus
pdb|1JWW|A Chain A, Nmr Characterization Of The N-Terminal Domain Of A
Potential Copper-Translocating P-Type Atpase From
Bacillus Subtilis
Length = 80
Score = 32.7 bits (73), Expect = 0.28, Method: Composition-based stats.
Identities = 17/53 (32%), Positives = 32/53 (60%), Gaps = 4/53 (7%)
Query: 222 LHCKGCEGKVRKHLSRMKGVSSFNIDFAAKKVTVVGDVTPLSVLASISKVKNA 274
+ C C ++ K L++++GV++ ++FA + VTV + P AS+S +K A
Sbjct: 12 MTCAACANRIEKRLNKIEGVANAPVNFALETVTV--EYNPKE--ASVSDLKEA 60
>pdb|2RML|A Chain A, Solution Structure Of The N-Terminal Soluble Domains Of
Bacillus Subtilis Copa
Length = 147
Score = 32.0 bits (71), Expect = 0.48, Method: Compositional matrix adjust.
Identities = 17/53 (32%), Positives = 32/53 (60%), Gaps = 4/53 (7%)
Query: 222 LHCKGCEGKVRKHLSRMKGVSSFNIDFAAKKVTVVGDVTPLSVLASISKVKNA 274
+ C C ++ K L++++GV++ ++FA + VTV + P AS+S +K A
Sbjct: 83 MTCAACANRIEKRLNKIEGVANAPVNFALETVTV--EYNPKE--ASVSDLKEA 131
>pdb|1P6T|A Chain A, Structure Characterization Of The Water Soluble Region Of
P- Type Atpase Copa From Bacillus Subtilis
Length = 151
Score = 31.6 bits (70), Expect = 0.51, Method: Compositional matrix adjust.
Identities = 17/53 (32%), Positives = 32/53 (60%), Gaps = 4/53 (7%)
Query: 222 LHCKGCEGKVRKHLSRMKGVSSFNIDFAAKKVTVVGDVTPLSVLASISKVKNA 274
+ C C ++ K L++++GV++ ++FA + VTV + P AS+S +K A
Sbjct: 83 MTCAACANRIEKRLNKIEGVANAPVNFALETVTV--EYNPKE--ASVSDLKEA 131
>pdb|1JK9|B Chain B, Heterodimer Between H48f-Ysod1 And Yccs
pdb|1JK9|D Chain D, Heterodimer Between H48f-Ysod1 And Yccs
Length = 249
Score = 31.6 bits (70), Expect = 0.55, Method: Compositional matrix adjust.
Identities = 11/49 (22%), Positives = 27/49 (55%)
Query: 220 VSLHCKGCEGKVRKHLSRMKGVSSFNIDFAAKKVTVVGDVTPLSVLASI 268
+ +HC+ C ++ L + G++S N D + ++V V P +++ ++
Sbjct: 13 IPMHCENCVNDIKACLKNVPGINSLNFDIEQQIMSVESSVAPSTIINTL 61
>pdb|1OSD|A Chain A, Crystal Structure Of Oxidized Merp From Ralstonia
Metallidurans Ch34
pdb|1OSD|B Chain B, Crystal Structure Of Oxidized Merp From Ralstonia
Metallidurans Ch34
Length = 72
Score = 31.2 bits (69), Expect = 0.71, Method: Compositional matrix adjust.
Identities = 15/47 (31%), Positives = 25/47 (53%), Gaps = 1/47 (2%)
Query: 213 NQVVVLRV-SLHCKGCEGKVRKHLSRMKGVSSFNIDFAAKKVTVVGD 258
Q V L V + C C V+K +S+++GVS ++ F ++ V D
Sbjct: 2 TQTVTLSVPGMTCSACPITVKKAISKVEGVSKVDVTFETRQAVVTFD 48
>pdb|1AFI|A Chain A, Structure Of The Reduced Form Of Merp, The Periplasmic
Protein From The Bacterial Mercury Detoxification
System, Nmr, 20 Structures
pdb|1AFJ|A Chain A, Structure Of The Mercury-Bound Form Of Merp, The
Periplasmic Protein From The Bacterial Mercury
Detoxification System, Nmr, 20 Structures
pdb|2HQI|A Chain A, Nmr Solution Structure Of The Oxidized Form Of Merp, 14
Structures
Length = 72
Score = 31.2 bits (69), Expect = 0.76, Method: Composition-based stats.
Identities = 19/52 (36%), Positives = 28/52 (53%), Gaps = 1/52 (1%)
Query: 214 QVVVLRV-SLHCKGCEGKVRKHLSRMKGVSSFNIDFAAKKVTVVGDVTPLSV 264
Q V L V + C C V+K LS+++GVS ++ F ++ V D T SV
Sbjct: 3 QTVTLAVPGMTCAACPITVKKALSKVEGVSKVDVGFEKREAVVTFDDTKASV 54
>pdb|1QUP|A Chain A, Crystal Structure Of The Copper Chaperone For Superoxide
Dismutase
pdb|1QUP|B Chain B, Crystal Structure Of The Copper Chaperone For Superoxide
Dismutase
Length = 222
Score = 29.6 bits (65), Expect = 2.1, Method: Compositional matrix adjust.
Identities = 11/46 (23%), Positives = 24/46 (52%)
Query: 223 HCKGCEGKVRKHLSRMKGVSSFNIDFAAKKVTVVGDVTPLSVLASI 268
HC+ C ++ L + G++S N D + +V V P +++ ++
Sbjct: 15 HCENCVNDIKACLKNVPGINSLNFDIEQQIXSVESSVAPSTIINTL 60
>pdb|2LDI|A Chain A, Nmr Solution Structure Of Ziaan Sub Mutant
Length = 71
Score = 29.6 bits (65), Expect = 2.2, Method: Composition-based stats.
Identities = 12/42 (28%), Positives = 22/42 (52%)
Query: 222 LHCKGCEGKVRKHLSRMKGVSSFNIDFAAKKVTVVGDVTPLS 263
+ C C + + L R+KGV+ ++ A ++TV D +S
Sbjct: 12 MRCAACASSIERALERLKGVAEASVTVATGRLTVTYDPKQVS 53
>pdb|2G9O|A Chain A, Solution Structure Of The Apo Form Of The Third Metal-
Binding Domain Of Atp7a Protein (Menkes Disease Protein)
pdb|2GA7|A Chain A, Solution Structure Of The Copper(I) Form Of The Third
Metal- Binding Domain Of Atp7a Protein (Menkes Disease
Protein)
Length = 90
Score = 29.3 bits (64), Expect = 2.9, Method: Composition-based stats.
Identities = 17/53 (32%), Positives = 25/53 (47%), Gaps = 3/53 (5%)
Query: 222 LHCKGCEGKVRKHLSRMKGVSSFNIDFAAKKVTVV---GDVTPLSVLASISKV 271
+HCK C + LS ++ VSS + + VV VTP S+ +I V
Sbjct: 12 MHCKSCVSNIESTLSALQYVSSIVVSLENRSAIVVYNASSVTPESLRKAIEAV 64
>pdb|2OFH|X Chain X, Solution Structure Of The N-Terminal Domain Of The
Zinc(Ii) Atpase Ziaa In Its Apo Form
Length = 111
Score = 28.9 bits (63), Expect = 3.3, Method: Compositional matrix adjust.
Identities = 12/35 (34%), Positives = 20/35 (57%)
Query: 224 CKGCEGKVRKHLSRMKGVSSFNIDFAAKKVTVVGD 258
C C+ K+ L R+KGV+ ++ A ++TV D
Sbjct: 19 CTSCKLKIEGSLERLKGVAEASVTVATGRLTVTYD 53
>pdb|2OFG|X Chain X, Solution Structure Of The N-Terminal Domain Of The
Zinc(Ii) Atpase Ziaa In Its Apo Form
Length = 111
Score = 28.9 bits (63), Expect = 3.3, Method: Compositional matrix adjust.
Identities = 12/35 (34%), Positives = 20/35 (57%)
Query: 224 CKGCEGKVRKHLSRMKGVSSFNIDFAAKKVTVVGD 258
C C+ K+ L R+KGV+ ++ A ++TV D
Sbjct: 14 CTSCKLKIEGSLERLKGVAEASVTVATGRLTVTYD 48
>pdb|2GCF|A Chain A, Solution Structure Of The N-Terminal Domain Of The
Coppper(I) Atpase Pacs In Its Apo Form
Length = 73
Score = 28.5 bits (62), Expect = 4.2, Method: Composition-based stats.
Identities = 11/42 (26%), Positives = 23/42 (54%), Gaps = 2/42 (4%)
Query: 222 LHCKGCEGKVRKHLSRMKGVSSFNIDFAAKKVTVV--GDVTP 261
+ C C + + ++++ GV S ++FA ++ V G+ TP
Sbjct: 12 MRCAACASSIERAIAKVPGVQSCQVNFALEQAVVSYHGETTP 53
>pdb|2XMW|A Chain A, Pacs, N-Terminal Domain, From Synechocystis Pcc6803
Length = 71
Score = 28.5 bits (62), Expect = 4.3, Method: Composition-based stats.
Identities = 11/42 (26%), Positives = 23/42 (54%), Gaps = 2/42 (4%)
Query: 222 LHCKGCEGKVRKHLSRMKGVSSFNIDFAAKKVTVV--GDVTP 261
+ C C + + ++++ GV S ++FA ++ V G+ TP
Sbjct: 12 MRCAACASSIERAIAKVPGVQSCQVNFALEQAVVSYHGETTP 53
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 0.133 0.394
Lambda K H
0.267 0.0410 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Hits to DB: 6,918,324
Number of Sequences: 62578
Number of extensions: 226324
Number of successful extensions: 472
Number of sequences better than 100.0: 19
Number of HSP's better than 100.0 without gapping: 12
Number of HSP's successfully gapped in prelim test: 7
Number of HSP's that attempted gapping in prelim test: 460
Number of HSP's gapped (non-prelim): 19
length of query: 298
length of database: 14,973,337
effective HSP length: 98
effective length of query: 200
effective length of database: 8,840,693
effective search space: 1768138600
effective search space used: 1768138600
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: 51 (24.3 bits)