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= 039678
(1015 letters)
Database: pdbaa
62,578 sequences; 14,973,337 total letters
Searching..................................................done
>pdb|1WEO|A Chain A, Solution Structure Of Ring-Finger In The Catalytic
Subunit (Irx3) Of Cellulose Synthase
Length = 93
Score = 128 bits (321), Expect = 2e-29, Method: Compositional matrix adjust.
Identities = 56/70 (80%), Positives = 61/70 (87%)
Query: 26 PKPWKSLDGQVCEICGDEIGKMANGDLFLACEECGFPVCRPCYEYERREGTQLCPQCKTR 85
PKP K+LDGQ CEICGD+IG GDLF+AC ECGFP CRPCYEYERREGTQ CPQCKTR
Sbjct: 8 PKPLKNLDGQFCEICGDQIGLTVEGDLFVACNECGFPACRPCYEYERREGTQNCPQCKTR 67
Query: 86 YKRIKGSPRV 95
YKR++GSPRV
Sbjct: 68 YKRLRGSPRV 77
>pdb|4HG6|A Chain A, Structure Of A Cellulose Synthase - Cellulose
Translocation Intermediate
Length = 802
Score = 50.1 bits (118), Expect = 7e-06, Method: Compositional matrix adjust.
Identities = 30/109 (27%), Positives = 55/109 (50%), Gaps = 7/109 (6%)
Query: 706 GWIYGSVTEDILTGFKLHSRGWRSIYCMPKRSAFKGSAPINLSDRLNQALRWALGSVEIF 765
G+ ++TED T ++HSRGW+S+Y R+ G P + + Q RWA G +++
Sbjct: 334 GFAGETITEDAETALEIHSRGWKSLYI--DRAMIAGLQPETFASFIQQRGRWATGMMQML 391
Query: 766 FSRHNPICYGCKEGKIKFLERFAYINTTIYPFTSIPLLAYCLLPAICLL 814
+ NP+ + G + +R Y+N+ + F + + + + P I L
Sbjct: 392 LLK-NPL---FRRG-LGIAQRLCYLNSMSFWFFPLVRMMFLVAPLIYLF 435
Score = 43.5 bits (101), Expect = 6e-04, Method: Compositional matrix adjust.
Identities = 39/130 (30%), Positives = 59/130 (45%), Gaps = 21/130 (16%)
Query: 472 NLVYVSREKRPAFPHNKRAGAMNA-LVRVSGVLTNSSFILNLDCDHYVNNSKAVREAMCF 530
+VY +RE+ + +AG M+A L R+ G L ++ D DH + R F
Sbjct: 213 GVVYSTRERN----EHAKAGNMSAALERLKGEL-----VVVFDADHVPSRDFLARTVGYF 263
Query: 531 LMDPQTGKRVCYVQFPQRF---DGIDKS----DRYSNRNRVFFDINMKGLDGIQGPMYVG 583
+ DP + VQ P F D I ++ DR N +F+ +GLD G + G
Sbjct: 264 VEDPD----LFLVQTPHFFINPDPIQRNLALGDRCPPENEMFYGKIHRGLDRWGGAFFCG 319
Query: 584 TGCVFRRQAL 593
+ V RR+AL
Sbjct: 320 SAAVLRRRAL 329
>pdb|2KU3|A Chain A, Solution Structure Of Brd1 Phd1 Finger
Length = 71
Score = 32.7 bits (73), Expect = 0.99, Method: Composition-based stats.
Identities = 18/48 (37%), Positives = 23/48 (47%), Gaps = 3/48 (6%)
Query: 36 VCEICGDEIGKMANGDLFLACEECGFPVCRPCYEYER-REGTQLCPQC 82
VC IC D G+ N ++ L C+ C V + CY EG LC C
Sbjct: 18 VCSICMD--GESQNSNVILFCDMCNLAVHQECYGVPYIPEGQWLCRHC 63
>pdb|2L43|A Chain A, Structural Basis For Histone Code Recognition By
Brpf2-Phd1 Finger
Length = 88
Score = 32.7 bits (73), Expect = 1.0, Method: Composition-based stats.
Identities = 18/48 (37%), Positives = 23/48 (47%), Gaps = 3/48 (6%)
Query: 36 VCEICGDEIGKMANGDLFLACEECGFPVCRPCYEYER-REGTQLCPQC 82
VC IC D G+ N ++ L C+ C V + CY EG LC C
Sbjct: 27 VCSICMD--GESQNSNVILFCDMCNLAVHQECYGVPYIPEGQWLCRHC 72
>pdb|4AP4|A Chain A, Rnf4 - Ubch5a - Ubiquitin Heterotrimeric Complex
Length = 133
Score = 32.0 bits (71), Expect = 1.8, Method: Composition-based stats.
Identities = 18/73 (24%), Positives = 27/73 (36%), Gaps = 2/73 (2%)
Query: 22 NHEEPKPWKSLDGQV-CEICGDEIGKMANGDLFLACEECGFPVCRPCYEYERREGTQLCP 80
NH+ P G V C IC D ++ + ECG C C + + CP
Sbjct: 59 NHKRYHPIYIGSGTVSCPICMDGYSEIVQNGRLIVSTECGHVFCSQCLR-DSLKNANTCP 117
Query: 81 QCKTRYKRIKGSP 93
C+ + + P
Sbjct: 118 TCRKKINHKRYHP 130
Score = 30.0 bits (66), Expect = 6.8, Method: Composition-based stats.
Identities = 13/57 (22%), Positives = 21/57 (36%), Gaps = 1/57 (1%)
Query: 37 CEICGDEIGKMANGDLFLACEECGFPVCRPCYEYERREGTQLCPQCKTRYKRIKGSP 93
C IC D ++ + ECG C C + + CP C+ + + P
Sbjct: 10 CPICMDGYSEIVQNGRLIVSTECGHVFCSQCLR-DSLKNANTCPTCRKKINHKRYHP 65
>pdb|1G25|A Chain A, Solution Structure Of The N-Terminal Domain Of The Human
Tfiih Mat1 Subunit
Length = 65
Score = 31.2 bits (69), Expect = 3.3, Method: Composition-based stats.
Identities = 17/57 (29%), Positives = 24/57 (42%), Gaps = 2/57 (3%)
Query: 32 LDGQVCEICGDEIGKMANGDLFLACEECGFPVCRPCYEYERREGTQLCPQCKTRYKR 88
+D Q C C + K N L L CG +C C + G CP+C T ++
Sbjct: 1 MDDQGCPRC--KTTKYRNPSLKLMVNVCGHTLCESCVDLLFVRGAGNCPECGTPLRK 55
>pdb|2XEU|A Chain A, Ring Domain
Length = 64
Score = 30.0 bits (66), Expect = 7.0, Method: Composition-based stats.
Identities = 13/57 (22%), Positives = 21/57 (36%), Gaps = 1/57 (1%)
Query: 37 CEICGDEIGKMANGDLFLACEECGFPVCRPCYEYERREGTQLCPQCKTRYKRIKGSP 93
C IC D ++ + ECG C C + + CP C+ + + P
Sbjct: 6 CPICMDGYSEIVQNGRLIVSTECGHVFCSQCLR-DSLKNANTCPTCRKKINHKRYHP 61
>pdb|1SMN|A Chain A, Identification Of The Serratia Endonuclease Dimer:
Structural Basis And Implications For Catalysis
pdb|1SMN|B Chain B, Identification Of The Serratia Endonuclease Dimer:
Structural Basis And Implications For Catalysis
pdb|1QAE|A Chain A, The Active Site Of Serratia Endonuclease Contains A
Conserved Magnesium-Water Cluster
pdb|1QAE|B Chain B, The Active Site Of Serratia Endonuclease Contains A
Conserved Magnesium-Water Cluster
pdb|1G8T|A Chain A, Sm Endonuclease From Seratia Marcenscens At 1.1 A
Resolution
pdb|1G8T|B Chain B, Sm Endonuclease From Seratia Marcenscens At 1.1 A
Resolution
Length = 245
Score = 30.0 bits (66), Expect = 7.1, Method: Compositional matrix adjust.
Identities = 15/38 (39%), Positives = 19/38 (50%)
Query: 517 YVNNSKAVREAMCFLMDPQTGKRVCYVQFPQRFDGIDK 554
++NNS AV FL D T K + QF D I+K
Sbjct: 175 FINNSPAVNHYAAFLFDQNTPKGADFCQFRVTVDEIEK 212
>pdb|1QL0|A Chain A, Sm Endonuclease From Seratia Marcenscens At Atomic
Resolution
pdb|1QL0|B Chain B, Sm Endonuclease From Seratia Marcenscens At Atomic
Resolution
Length = 241
Score = 30.0 bits (66), Expect = 7.4, Method: Compositional matrix adjust.
Identities = 15/38 (39%), Positives = 19/38 (50%)
Query: 517 YVNNSKAVREAMCFLMDPQTGKRVCYVQFPQRFDGIDK 554
++NNS AV FL D T K + QF D I+K
Sbjct: 171 FINNSPAVNHYAAFLFDQNTPKGADFCQFRVTVDEIEK 208
>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 = 30.0 bits (66), Expect = 7.4, Method: Composition-based stats.
Identities = 13/57 (22%), Positives = 21/57 (36%), Gaps = 1/57 (1%)
Query: 37 CEICGDEIGKMANGDLFLACEECGFPVCRPCYEYERREGTQLCPQCKTRYKRIKGSP 93
C IC D ++ + ECG C C + + CP C+ + + P
Sbjct: 13 CPICMDGYSEIVQNGRLIVSTECGHVFCSQCLR-DSLKNANTCPTCRKKINHKRYHP 68
>pdb|2LDR|A Chain A, Solution Structure Of Helix-Ring Domain Of Cbl-B In The
Tyr363 Phosphorylated Form
Length = 82
Score = 29.6 bits (65), Expect = 7.8, Method: Composition-based stats.
Identities = 16/53 (30%), Positives = 22/53 (41%), Gaps = 7/53 (13%)
Query: 35 QVCEICGDEIGKMANGDLFLACEECGFPVCRPCYEYERREGTQLCPQCKTRYK 87
Q+C+IC A D + E CG +C C + Q CP C+ K
Sbjct: 27 QLCKIC-------AENDKDVKIEPCGHLMCTSCLTAWQESDGQGCPFCRCEIK 72
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
0.322 0.138 0.435
Lambda K H
0.267 0.0410 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Hits to DB: 30,227,813
Number of Sequences: 62578
Number of extensions: 1247072
Number of successful extensions: 2406
Number of sequences better than 100.0: 23
Number of HSP's better than 100.0 without gapping: 6
Number of HSP's successfully gapped in prelim test: 17
Number of HSP's that attempted gapping in prelim test: 2390
Number of HSP's gapped (non-prelim): 33
length of query: 1015
length of database: 14,973,337
effective HSP length: 108
effective length of query: 907
effective length of database: 8,214,913
effective search space: 7450926091
effective search space used: 7450926091
T: 11
A: 40
X1: 16 ( 7.4 bits)
X2: 38 (14.6 bits)
X3: 64 (24.7 bits)
S1: 41 (21.9 bits)
S2: 56 (26.2 bits)