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= 022126
(302 letters)
Database: pdbaa
62,578 sequences; 14,973,337 total letters
Searching..................................................done
>pdb|3NG2|A Chain A, Crystal Structure Of The Rnf4 Ring Domain Dimer
pdb|3NG2|B Chain B, Crystal Structure Of The Rnf4 Ring Domain Dimer
Length = 71
Score = 33.9 bits (76), Expect = 0.12, Method: Composition-based stats.
Identities = 13/41 (31%), Positives = 21/41 (51%)
Query: 15 ISTTCGHLLCTEDANKILSNDAACPICDQVLSKSLMKPVDI 55
+ST CGH+ C++ L N CP C + ++ P+ I
Sbjct: 31 VSTECGHVFCSQCLRDSLKNANTCPTCRKKINHKRYHPIYI 71
>pdb|2XEU|A Chain A, Ring Domain
Length = 64
Score = 33.9 bits (76), Expect = 0.13, Method: Composition-based stats.
Identities = 13/41 (31%), Positives = 21/41 (51%)
Query: 15 ISTTCGHLLCTEDANKILSNDAACPICDQVLSKSLMKPVDI 55
+ST CGH+ C++ L N CP C + ++ P+ I
Sbjct: 24 VSTECGHVFCSQCLRDSLKNANTCPTCRKKINHKRYHPIYI 64
>pdb|4AP4|A Chain A, Rnf4 - Ubch5a - Ubiquitin Heterotrimeric Complex
Length = 133
Score = 33.5 bits (75), Expect = 0.14, Method: Compositional matrix adjust.
Identities = 19/60 (31%), Positives = 27/60 (45%), Gaps = 1/60 (1%)
Query: 12 GRAI-STTCGHLLCTEDANKILSNDAACPICDQVLSKSLMKPVDINPNDEWVNMAMAGVS 70
GR I ST CGH+ C++ L N CP C + ++ P+ I + M G S
Sbjct: 24 GRLIVSTECGHVFCSQCLRDSLKNANTCPTCRKKINHKRYHPIYIGSGTVSCPICMDGYS 83
Score = 30.8 bits (68), Expect = 0.93, Method: Compositional matrix adjust.
Identities = 16/45 (35%), Positives = 23/45 (51%), Gaps = 1/45 (2%)
Query: 12 GRAI-STTCGHLLCTEDANKILSNDAACPICDQVLSKSLMKPVDI 55
GR I ST CGH+ C++ L N CP C + ++ P+ I
Sbjct: 89 GRLIVSTECGHVFCSQCLRDSLKNANTCPTCRKKINHKRYHPIYI 133
>pdb|3HHM|B Chain B, Crystal Structure Of P110alpha H1047r Mutant In Complex
With Nish2 Of P85alpha And The Drug Wortmannin
pdb|3HIZ|B Chain B, Crystal Structure Of P110alpha H1047r Mutant In Complex
With Nish2 Of P85alpha
Length = 373
Score = 31.6 bits (70), Expect = 0.62, Method: Compositional matrix adjust.
Identities = 20/51 (39%), Positives = 29/51 (56%), Gaps = 1/51 (1%)
Query: 137 EQEIESLSKDKQELQEKFSEKSRQKRKLDEMYDQLRSEYESMKRSAIQPSN 187
E IE++ K E +F EKSR+ +L E Y + E + MKR+AI+ N
Sbjct: 118 EDNIEAVGKKLHEYNTQFQEKSREYDRLYEEYTRTSQEIQ-MKRTAIEAFN 167
>pdb|2EA6|A Chain A, Solution Structure Of The Ring Domain Of The Human Ring
Finger Protein 4
Length = 69
Score = 30.8 bits (68), Expect = 0.92, Method: Composition-based stats.
Identities = 11/27 (40%), Positives = 15/27 (55%)
Query: 15 ISTTCGHLLCTEDANKILSNDAACPIC 41
+ST CGH+ C++ L N CP C
Sbjct: 36 VSTECGHVFCSQCLRDSLKNANTCPTC 62
>pdb|2RD0|B Chain B, Structure Of A Human P110alpha/p85alpha Complex
pdb|4A55|B Chain B, Crystal Structure Of P110alpha In Complex With Ish2 Of
P85alpha And The Inhibitor Pik-108
Length = 279
Score = 30.4 bits (67), Expect = 1.1, Method: Compositional matrix adjust.
Identities = 20/51 (39%), Positives = 29/51 (56%), Gaps = 1/51 (1%)
Query: 137 EQEIESLSKDKQELQEKFSEKSRQKRKLDEMYDQLRSEYESMKRSAIQPSN 187
E IE++ K E +F EKSR+ +L E Y + E + MKR+AI+ N
Sbjct: 118 EDNIEAVGKKLHEYNTQFQEKSREYDRLYEEYTRTSQEIQ-MKRTAIEAFN 167
>pdb|3SIG|A Chain A, The X-Ray Crystal Structure Of Poly(Adp-Ribose)
Glycohydrolase (Parg) Bound To Adp-Ribose From
Thermomonospora Curvata
pdb|3SIH|A Chain A, The X-Ray Crystal Structure Of Poly(Adp-Ribose)
Glycohydrolase (Parg) From Thermomonospora Curvata
pdb|3SII|A Chain A, The X-Ray Crystal Structure Of Poly(Adp-Ribose)
Glycohydrolase Bound To The Inhibitor Adp-Hpd From
Thermomonospora Curvata
Length = 277
Score = 30.0 bits (66), Expect = 1.9, Method: Compositional matrix adjust.
Identities = 13/29 (44%), Positives = 16/29 (55%)
Query: 198 FSANMMDNRDPIRKDWSVYSPGTPGPRED 226
F A RDP+ D +YSPG P R+D
Sbjct: 131 FYAFHHRQRDPLYSDHLIYSPGVPVFRDD 159
>pdb|3SIJ|A Chain A, The X-Ray Crystal Structure Of Poly(Adp-Ribose)
Glycohydrolase E115a Mutant From Thermomonospora Curvata
Length = 277
Score = 29.6 bits (65), Expect = 1.9, Method: Compositional matrix adjust.
Identities = 13/29 (44%), Positives = 16/29 (55%)
Query: 198 FSANMMDNRDPIRKDWSVYSPGTPGPRED 226
F A RDP+ D +YSPG P R+D
Sbjct: 131 FYAFHHRQRDPLYSDHLIYSPGVPVFRDD 159
>pdb|2G8C|O Chain O, Atomic-Resolution Crystal Structure Of Borrelia
Burgdorferi Ospa Via Surface Entropy Reduction
Length = 251
Score = 29.6 bits (65), Expect = 2.3, Method: Compositional matrix adjust.
Identities = 15/36 (41%), Positives = 19/36 (52%)
Query: 144 SKDKQELQEKFSEKSRQKRKLDEMYDQLRSEYESMK 179
SKDK +EKF+EK K+ D R EY +K
Sbjct: 94 SKDKSSTEEKFNEKGEVSEKIITRADGTRLEYTGIK 129
>pdb|2OY8|A Chain A, The Crystal Structure Of Ospa Mutant
Length = 320
Score = 28.9 bits (63), Expect = 3.3, Method: Compositional matrix adjust.
Identities = 24/85 (28%), Positives = 36/85 (42%), Gaps = 11/85 (12%)
Query: 104 CRQKCEAMQEKFTEKLE---------QVHTAYQKMAKRCQMMEQEIESLSKDKQELQEKF 154
R + EKF EK E + Y+K ++ ++ E++I DK EKF
Sbjct: 116 TRADKSSTYEKFNEKGELSEKKITRADKSSTYEKFNEKGELSEKKI--TRADKSSTYEKF 173
Query: 155 SEKSRQKRKLDEMYDQLRSEYESMK 179
+EK K+ D R EY +K
Sbjct: 174 NEKGEVSEKIITRADGTRLEYTGIK 198
>pdb|2DFY|X Chain X, Crystal Structure Of A Cyclized Protein Fusion Of Lmo4
Lim Domains 1 And 2 With The Lim Interacting Domain Of
Ldb1
pdb|2DFY|C Chain C, Crystal Structure Of A Cyclized Protein Fusion Of Lmo4
Lim Domains 1 And 2 With The Lim Interacting Domain Of
Ldb1
Length = 195
Score = 28.9 bits (63), Expect = 3.4, Method: Compositional matrix adjust.
Identities = 15/50 (30%), Positives = 25/50 (50%), Gaps = 2/50 (4%)
Query: 1 MRCNACWRELE--GRAISTTCGHLLCTEDANKILSNDAACPICDQVLSKS 48
++C++C +L G + T G +LC D ++ N AC C Q + S
Sbjct: 31 LKCSSCQAQLGDIGTSSYTKSGMILCRNDYIRLFGNSGACSACGQSIPAS 80
>pdb|1RUT|X Chain X, Complex Of Lmo4 Lim Domains 1 And 2 With The Ldb1 Lid
Domain
Length = 188
Score = 28.9 bits (63), Expect = 3.9, Method: Compositional matrix adjust.
Identities = 15/50 (30%), Positives = 25/50 (50%), Gaps = 2/50 (4%)
Query: 1 MRCNACWRELE--GRAISTTCGHLLCTEDANKILSNDAACPICDQVLSKS 48
++C++C +L G + T G +LC D ++ N AC C Q + S
Sbjct: 33 LKCSSCQAQLGDIGTSSYTKSGMILCRNDYIRLFGNSGACSACGQSIPAS 82
>pdb|3IYD|C Chain C, Three-Dimensional Em Structure Of An Intact
Activator-Dependent Transcription Initiation Complex
pdb|4IGC|C Chain C, X-ray Crystal Structure Of Escherichia Coli Sigma70
Holoenzyme
pdb|4IGC|H Chain H, X-ray Crystal Structure Of Escherichia Coli Sigma70
Holoenzyme
Length = 1342
Score = 28.5 bits (62), Expect = 4.3, Method: Composition-based stats.
Identities = 18/58 (31%), Positives = 29/58 (50%), Gaps = 4/58 (6%)
Query: 138 QEIESLSKDKQ-ELQEKFSEKSRQKRKLDEMYDQLRSEYE---SMKRSAIQPSNSFYP 191
++++ L +D+ EL EK Q +L E YD+L+ E+E KR I + P
Sbjct: 987 EKLDKLPRDRWLELGLTDEEKQNQLEQLAEQYDELKHEFEKKLEAKRRKITQGDDLAP 1044
>pdb|3LU0|C Chain C, Molecular Model Of Escherichia Coli Core Rna Polymerase
Length = 1342
Score = 28.5 bits (62), Expect = 4.3, Method: Composition-based stats.
Identities = 18/58 (31%), Positives = 29/58 (50%), Gaps = 4/58 (6%)
Query: 138 QEIESLSKDKQ-ELQEKFSEKSRQKRKLDEMYDQLRSEYE---SMKRSAIQPSNSFYP 191
++++ L +D+ EL EK Q +L E YD+L+ E+E KR I + P
Sbjct: 987 EKLDKLPRDRWLELGLTDEEKQNQLEQLAEQYDELKHEFEKKLEAKRRKITQGDDLAP 1044
>pdb|1OSP|O Chain O, Crystal Structure Of Outer Surface Protein A Of Borrelia
Burgdorferi Complexed With A Murine Monoclonal Antibody
Fab
pdb|1FJ1|E Chain E, Lyme Disease Antigen Ospa In Complex With Neutralizing
Antibody Fab La-2
pdb|1FJ1|F Chain F, Lyme Disease Antigen Ospa In Complex With Neutralizing
Antibody Fab La-2
Length = 257
Score = 28.1 bits (61), Expect = 5.8, Method: Compositional matrix adjust.
Identities = 15/36 (41%), Positives = 19/36 (52%)
Query: 144 SKDKQELQEKFSEKSRQKRKLDEMYDQLRSEYESMK 179
SKDK +EKF+EK K+ D R EY +K
Sbjct: 100 SKDKSSTEEKFNEKGEVSEKIITRADGTRLEYTGIK 135
>pdb|2Y43|A Chain A, Rad18 Ubiquitin Ligase Ring Domain Structure
pdb|2Y43|B Chain B, Rad18 Ubiquitin Ligase Ring Domain Structure
Length = 99
Score = 27.7 bits (60), Expect = 7.2, Method: Compositional matrix adjust.
Identities = 13/41 (31%), Positives = 16/41 (39%)
Query: 1 MRCNACWRELEGRAISTTCGHLLCTEDANKILSNDAACPIC 41
+RC C+ I C H C+ K LS CP C
Sbjct: 23 LRCGICFEYFNIAMIIPQCSHNYCSLCIRKFLSYKTQCPTC 63
>pdb|2J68|A Chain A, Bacterial Dynamin-Like Protein Bdlp, Gdp Bound
pdb|2J69|A Chain A, Bacterial Dynamin-like Protein Bdlp
pdb|2J69|B Chain B, Bacterial Dynamin-like Protein Bdlp
pdb|2J69|C Chain C, Bacterial Dynamin-like Protein Bdlp
pdb|2J69|D Chain D, Bacterial Dynamin-like Protein Bdlp
pdb|2W6D|A Chain A, Bacterial Dynamin-Like Protein Lipid Tube Bound
pdb|2W6D|B Chain B, Bacterial Dynamin-Like Protein Lipid Tube Bound
Length = 695
Score = 27.7 bits (60), Expect = 7.2, Method: Compositional matrix adjust.
Identities = 27/116 (23%), Positives = 54/116 (46%), Gaps = 12/116 (10%)
Query: 97 MNRIVAQCRQKCEAMQEKFTEKLEQVHTAYQKMAKRCQMMEQEIESLSKDKQELQEKFSE 156
+N + + R E Q + +L HT + +A+R ++EQ++ L K ++ +F++
Sbjct: 319 LNTFLTRERAIAELRQVRTLARLACNHTR-EAVARRIPLLEQDVNELKKRIDSVEPEFNK 377
Query: 157 KSR-----QKRKLDEMYDQLRSEYESMKRSAIQPSNSF---YPRNDPDLFSANMMD 204
+ QK ++ Q R+ ES + + N+F + R P+L N+ D
Sbjct: 378 LTGIRDEFQKEIINTRDTQARTISESFRSYVLNLGNTFENDFLRYQPEL---NLFD 430
>pdb|3GI1|A Chain A, Crystal Structure Of The Laminin-Binding Protein Lbp Of
Streptococcus Pyogenes
pdb|3GI1|B Chain B, Crystal Structure Of The Laminin-Binding Protein Lbp Of
Streptococcus Pyogenes
Length = 286
Score = 27.7 bits (60), Expect = 7.3, Method: Compositional matrix adjust.
Identities = 13/52 (25%), Positives = 30/52 (57%), Gaps = 8/52 (15%)
Query: 105 RQKCEAMQEKFTEKLEQV--------HTAYQKMAKRCQMMEQEIESLSKDKQ 148
+++ E + E++T+K ++V HTA+ +AKR + + I +S +++
Sbjct: 160 KKEAEQLTEEYTQKFKKVRSKTFVTQHTAFSYLAKRFGLKQLGISGISPEQE 211
>pdb|2HKD|A Chain A, The Crystal Structure Of Engineered Ospa
Length = 320
Score = 27.7 bits (60), Expect = 8.2, Method: Compositional matrix adjust.
Identities = 23/85 (27%), Positives = 37/85 (43%), Gaps = 11/85 (12%)
Query: 104 CRQKCEAMQEKFTEKLE---------QVHTAYQKMAKRCQMMEQEIESLSKDKQELQEKF 154
R + +EKF EK E + +K ++ ++ E++I DK +EKF
Sbjct: 116 TRADKSSTEEKFNEKGELSEKKITRADKSSTEEKFNEKGELSEKKI--TRADKSSTEEKF 173
Query: 155 SEKSRQKRKLDEMYDQLRSEYESMK 179
+EK K+ D R EY +K
Sbjct: 174 NEKGEVSEKIITRADGTRLEYTGIK 198
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 0.130 0.387
Lambda K H
0.267 0.0410 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Hits to DB: 8,788,159
Number of Sequences: 62578
Number of extensions: 356719
Number of successful extensions: 1217
Number of sequences better than 100.0: 79
Number of HSP's better than 100.0 without gapping: 33
Number of HSP's successfully gapped in prelim test: 46
Number of HSP's that attempted gapping in prelim test: 1122
Number of HSP's gapped (non-prelim): 126
length of query: 302
length of database: 14,973,337
effective HSP length: 98
effective length of query: 204
effective length of database: 8,840,693
effective search space: 1803501372
effective search space used: 1803501372
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: 51 (24.3 bits)