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= 018558
(354 letters)
Database: pdbaa
62,578 sequences; 14,973,337 total letters
Searching..................................................done
>pdb|1WLJ|A Chain A, Human Isg20
Length = 189
Score = 59.3 bits (142), Expect = 3e-09, Method: Compositional matrix adjust.
Identities = 42/172 (24%), Positives = 77/172 (44%), Gaps = 21/172 (12%)
Query: 133 QVVAIACKMVXXXXXXXXXXCGRVCIIDEYENIIFHAYVKPPIPVTSYRYETTGIRPEHL 192
+VVA+ C+MV R +++ + +++ +++P +T YR +G+ P+H+
Sbjct: 6 EVVAMDCEMVGLGPHRESG-LARCSLVNVHGAVLYDKFIRPEGEITDYRTRVSGVTPQHM 64
Query: 193 RDAIPLKQVQRKIQDFLCNGEPMWKIRPRGSRARILVGHGLDHDLDRLQVEYPAIMTRDT 252
A P + +I L + +++VGH L HD L+ + DT
Sbjct: 65 VGATPFAVARLEILQLL--------------KGKLVVGHDLKHDFQALKEDMSGYTIYDT 110
Query: 253 AKYPPLMKTSKLSN----SLKYLTQAYLGYDIQIGI--QDPYDDCVATMRLY 298
+ L + +KL + SL+ L++ L IQ + +D ATM LY
Sbjct: 111 STDRLLWREAKLDHCRRVSLRVLSERLLHKSIQNSLLGHSSVEDARATMELY 162
>pdb|1LLM|C Chain C, Crystal Structure Of A Zif23-Gcn4 Chimera Bound To Dna
pdb|1LLM|D Chain D, Crystal Structure Of A Zif23-Gcn4 Chimera Bound To Dna
Length = 88
Score = 31.2 bits (69), Expect = 0.91, Method: Compositional matrix adjust.
Identities = 20/47 (42%), Positives = 27/47 (57%), Gaps = 4/47 (8%)
Query: 14 KCAACFRQFNRLEHLVEHMRTSYHSVHEP-VCGIC-KKHCRSFESLR 58
+C C R F+R +HL H+RT H+ +P C IC +K RS E R
Sbjct: 5 QCRICMRNFSRSDHLTTHIRT--HTGEKPFACDICGRKFARSDERKR 49
>pdb|1A1F|A Chain A, Dsnr (Zif268 Variant) Zinc Finger-Dna Complex (Gacc
Site)
pdb|1A1G|A Chain A, Dsnr (Zif268 Variant) Zinc Finger-Dna Complex (Gcgt
Site)
Length = 90
Score = 30.8 bits (68), Expect = 1.2, Method: Compositional matrix adjust.
Identities = 21/51 (41%), Positives = 28/51 (54%), Gaps = 4/51 (7%)
Query: 14 KCAACFRQFNRLEHLVEHMRTSYHSVHEP-VCGIC-KKHCRSFESLREHLI 62
+C C R F+R +HL H+RT H+ +P C IC +K RS E R I
Sbjct: 36 QCRICMRNFSRSDHLTTHIRT--HTGEKPFACDICGRKFARSDERKRHTKI 84
>pdb|1A1I|A Chain A, Radr (Zif268 Variant) Zinc Finger-Dna Complex (Gcac
Site)
pdb|1A1J|A Chain A, Radr (Zif268 Variant) Zinc Finger-Dna Complex (Gcgt
Site)
pdb|1A1K|A Chain A, Radr (Zif268 Variant) Zinc Finger-Dna Complex (Gacc
Site)
Length = 90
Score = 30.8 bits (68), Expect = 1.3, Method: Compositional matrix adjust.
Identities = 21/51 (41%), Positives = 28/51 (54%), Gaps = 4/51 (7%)
Query: 14 KCAACFRQFNRLEHLVEHMRTSYHSVHEP-VCGIC-KKHCRSFESLREHLI 62
+C C R F+R +HL H+RT H+ +P C IC +K RS E R I
Sbjct: 36 QCRICMRNFSRSDHLTTHIRT--HTGEKPFACDICGRKFARSDERKRHTKI 84
>pdb|1A1H|A Chain A, Qgsr (Zif268 Variant) Zinc Finger-Dna Complex (Gcac
Site)
Length = 90
Score = 30.8 bits (68), Expect = 1.3, Method: Compositional matrix adjust.
Identities = 21/51 (41%), Positives = 28/51 (54%), Gaps = 4/51 (7%)
Query: 14 KCAACFRQFNRLEHLVEHMRTSYHSVHEP-VCGIC-KKHCRSFESLREHLI 62
+C C R F+R +HL H+RT H+ +P C IC +K RS E R I
Sbjct: 36 QCRICMRNFSRSDHLTTHIRT--HTGEKPFACDICGRKFARSDERKRHTKI 84
>pdb|1AAY|A Chain A, Zif268 Zinc Finger-Dna Complex
pdb|1A1L|A Chain A, Zif268 Zinc Finger-Dna Complex (Gcac Site)
Length = 90
Score = 30.8 bits (68), Expect = 1.3, Method: Compositional matrix adjust.
Identities = 20/47 (42%), Positives = 27/47 (57%), Gaps = 4/47 (8%)
Query: 14 KCAACFRQFNRLEHLVEHMRTSYHSVHEP-VCGIC-KKHCRSFESLR 58
+C C R F+R +HL H+RT H+ +P C IC +K RS E R
Sbjct: 36 QCRICMRNFSRSDHLTTHIRT--HTGEKPFACDICGRKFARSDERKR 80
>pdb|1JK1|A Chain A, Zif268 D20a Mutant Bound To Wt Dna Site
pdb|1JK2|A Chain A, Zif268 D20a Mutant Bound To The Gct Dna Site
Length = 90
Score = 30.4 bits (67), Expect = 1.5, Method: Compositional matrix adjust.
Identities = 20/47 (42%), Positives = 27/47 (57%), Gaps = 4/47 (8%)
Query: 14 KCAACFRQFNRLEHLVEHMRTSYHSVHEP-VCGIC-KKHCRSFESLR 58
+C C R F+R +HL H+RT H+ +P C IC +K RS E R
Sbjct: 36 QCRICMRNFSRSDHLTTHIRT--HTGEKPFACDICGRKFARSDERKR 80
>pdb|1P47|A Chain A, Crystal Structure Of Tandem Zif268 Molecules Complexed
To Dna
pdb|1P47|B Chain B, Crystal Structure Of Tandem Zif268 Molecules Complexed
To Dna
Length = 87
Score = 30.4 bits (67), Expect = 1.7, Method: Compositional matrix adjust.
Identities = 20/47 (42%), Positives = 27/47 (57%), Gaps = 4/47 (8%)
Query: 14 KCAACFRQFNRLEHLVEHMRTSYHSVHEP-VCGIC-KKHCRSFESLR 58
+C C R F+R +HL H+RT H+ +P C IC +K RS E R
Sbjct: 35 QCRICMRNFSRSDHLTTHIRT--HTGEKPFACDICGRKFARSDERKR 79
>pdb|1ZAA|C Chain C, Zinc Finger-Dna Recognition: Crystal Structure Of A
Zif268- Dna Complex At 2.1 Angstroms
Length = 87
Score = 30.0 bits (66), Expect = 2.1, Method: Compositional matrix adjust.
Identities = 20/47 (42%), Positives = 27/47 (57%), Gaps = 4/47 (8%)
Query: 14 KCAACFRQFNRLEHLVEHMRTSYHSVHEP-VCGIC-KKHCRSFESLR 58
+C C R F+R +HL H+RT H+ +P C IC +K RS E R
Sbjct: 36 QCRICMRNFSRSDHLTTHIRT--HTGEKPFACDICGRKFARSDERKR 80
>pdb|2I13|A Chain A, Aart, A Six Finger Zinc Finger Designed To Recognize Ann
Triplets
pdb|2I13|B Chain B, Aart, A Six Finger Zinc Finger Designed To Recognize Ann
Triplets
Length = 190
Score = 28.5 bits (62), Expect = 5.3, Method: Compositional matrix adjust.
Identities = 23/69 (33%), Positives = 31/69 (44%), Gaps = 8/69 (11%)
Query: 15 CAACFRQFNRLEHLVEHMRTSYHSVHEPV-CGICKKHCRSFESLREHL---IGPLPKQ-- 68
C C + F+R +HL EH RT H+ +P C C K + L H G P +
Sbjct: 24 CPECGKSFSRSDHLAEHQRT--HTGEKPYKCPECGKSFSDKKDLTRHQRTHTGEKPYKCP 81
Query: 69 ECKNVFNNR 77
EC F+ R
Sbjct: 82 ECGKSFSQR 90
>pdb|2CSH|A Chain A, Solution Structure Of Tandem Repeat Of The Zf-C2h2
Domains Of Human Zinc Finger Protein 297b
Length = 110
Score = 28.5 bits (62), Expect = 6.7, Method: Composition-based stats.
Identities = 16/48 (33%), Positives = 23/48 (47%), Gaps = 3/48 (6%)
Query: 15 CAACFRQFNRLEHLVEHMRTSYHSVHEPV-CGICKKHCRSFESLREHL 61
C C ++F HLV HM+ H+ +P C IC K +S H+
Sbjct: 40 CGVCGKKFKMKHHLVGHMKI--HTGIKPYECNICAKRFMWRDSFHRHV 85
>pdb|2ADR|A Chain A, Adr1 Dna-Binding Domain From Saccharomyces Cerevisiae,
Nmr, 25 Structures
Length = 60
Score = 28.1 bits (61), Expect = 6.9, Method: Compositional matrix adjust.
Identities = 15/36 (41%), Positives = 20/36 (55%), Gaps = 3/36 (8%)
Query: 15 CAACFRQFNRLEHLVEHMRTSYHSVHEPV-CGICKK 49
C C R F R EHL H R+ H+ +P CG+C +
Sbjct: 5 CEVCTRAFARQEHLKRHYRS--HTNEKPYPCGLCNR 38
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
0.323 0.137 0.431
Lambda K H
0.267 0.0410 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Hits to DB: 10,220,020
Number of Sequences: 62578
Number of extensions: 398196
Number of successful extensions: 775
Number of sequences better than 100.0: 20
Number of HSP's better than 100.0 without gapping: 11
Number of HSP's successfully gapped in prelim test: 9
Number of HSP's that attempted gapping in prelim test: 752
Number of HSP's gapped (non-prelim): 31
length of query: 354
length of database: 14,973,337
effective HSP length: 100
effective length of query: 254
effective length of database: 8,715,537
effective search space: 2213746398
effective search space used: 2213746398
T: 11
A: 40
X1: 16 ( 7.5 bits)
X2: 38 (14.6 bits)
X3: 64 (24.7 bits)
S1: 41 (22.0 bits)
S2: 52 (24.6 bits)