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= 025404
(253 letters)
Database: pdbaa
62,578 sequences; 14,973,337 total letters
Searching..................................................done
>pdb|1WLJ|A Chain A, Human Isg20
Length = 189
Score = 63.9 bits (154), Expect = 8e-11, Method: Compositional matrix adjust.
Identities = 37/109 (33%), Positives = 61/109 (55%), Gaps = 15/109 (13%)
Query: 136 KAVAMDCEMVGGGSNGTLDLCARVCLVDEDENVIFHTYVQPQLPVTNYRYEVTGLTEEDI 195
+ VAMDCEMVG G + L AR LV+ V++ +++P+ +T+YR V+G+T + +
Sbjct: 6 EVVAMDCEMVGLGPHRESGL-ARCSLVNVHGAVLYDKFIRPEGEITDYRTRVSGVTPQHM 64
Query: 196 KNAMPLKEVKDKILEILNNGESTGRLMLDDGKARLLVGHGLEHDLDSLR 244
A P + +IL++L K +L+VGH L+HD +L+
Sbjct: 65 VGATPFAVARLEILQLL--------------KGKLVVGHDLKHDFQALK 99
>pdb|2DMD|A Chain A, Solution Structure Of The N-Terminal C2h2 Type
Zinc-Binding Domain Of The Zinc Finger Protein 64,
Isoforms 1 And 2
Length = 96
Score = 34.7 bits (78), Expect = 0.053, Method: Compositional matrix adjust.
Identities = 22/54 (40%), Positives = 28/54 (51%), Gaps = 3/54 (5%)
Query: 11 STARHKCVACYKQFKRKDHLIEHMKISYHSVHQP-KCAVCQKLSKSFESLREHL 63
S+ HKC C K F RKD L HM+ H+ +P KC C + SL +HL
Sbjct: 5 SSGPHKCEVCGKCFSRKDKLKTHMRC--HTGVKPYKCKTCDYAAADSSSLNKHL 56
>pdb|2CSH|A Chain A, Solution Structure Of Tandem Repeat Of The Zf-C2h2
Domains Of Human Zinc Finger Protein 297b
Length = 110
Score = 34.7 bits (78), Expect = 0.057, Method: Compositional matrix adjust.
Identities = 20/49 (40%), Positives = 28/49 (57%), Gaps = 3/49 (6%)
Query: 17 CVACYKQFKRKDHLIEHMKISYHSVHQP-KCAVCQKLSKSFESLREHLT 64
C C K+FK K HL+ HMKI H+ +P +C +C K +S H+T
Sbjct: 40 CGVCGKKFKMKHHLVGHMKI--HTGIKPYECNICAKRFMWRDSFHRHVT 86
>pdb|2YT9|A Chain A, Solution Structure Of C2h2 Type Zinc Finger Domain 345
In Zinc Finger Protein 278
Length = 95
Score = 32.7 bits (73), Expect = 0.20, Method: Compositional matrix adjust.
Identities = 20/57 (35%), Positives = 30/57 (52%), Gaps = 3/57 (5%)
Query: 15 HKCVACYKQFKRKDHLIEHMKISYHSVHQPKCAVCQKLSKSFESLREHLTGPLSKAH 71
+ C C +FKRKD + H++ SV +P +CQ K F S +HL G + + H
Sbjct: 36 YSCPVCGLRFKRKDRMSYHVRSHDGSVGKP--YICQSCGKGF-SRPDHLNGHIKQVH 89
>pdb|2P1J|A Chain A, Crystal Structure Of A Polc-Type Dna Polymerase Iii
Exonuclease Domain From Thermotoga Maritima
pdb|2P1J|B Chain B, Crystal Structure Of A Polc-Type Dna Polymerase Iii
Exonuclease Domain From Thermotoga Maritima
Length = 186
Score = 31.2 bits (69), Expect = 0.53, Method: Compositional matrix adjust.
Identities = 16/54 (29%), Positives = 31/54 (57%), Gaps = 5/54 (9%)
Query: 161 LVDEDENVIFHTYVQPQLPVTNYRYEVTGLTEEDIKNAMPLKEVKDKILEILNN 214
+VDE +HT ++P ++ E+TG+T+E ++N ++EV + L L +
Sbjct: 44 IVDE-----YHTLIKPSREISRKSSEITGITQEMLENKRSIEEVLPEFLGFLED 92
>pdb|3KZQ|A Chain A, The Crystal Structure Of The Protein With Unknown
Function From Vibrio Parahaemolyticus Rimd 2210633
pdb|3KZQ|B Chain B, The Crystal Structure Of The Protein With Unknown
Function From Vibrio Parahaemolyticus Rimd 2210633
pdb|3KZQ|C Chain C, The Crystal Structure Of The Protein With Unknown
Function From Vibrio Parahaemolyticus Rimd 2210633
pdb|3KZQ|D Chain D, The Crystal Structure Of The Protein With Unknown
Function From Vibrio Parahaemolyticus Rimd 2210633
pdb|3KZQ|E Chain E, The Crystal Structure Of The Protein With Unknown
Function From Vibrio Parahaemolyticus Rimd 2210633
pdb|3KZQ|F Chain F, The Crystal Structure Of The Protein With Unknown
Function From Vibrio Parahaemolyticus Rimd 2210633
Length = 208
Score = 30.4 bits (67), Expect = 0.87, Method: Compositional matrix adjust.
Identities = 12/41 (29%), Positives = 19/41 (46%)
Query: 34 MKISYHSVHQPKCAVCQKLSKSFESLREHLTGPLSKAHCSG 74
M I + VH P C+ C + E L++ L G + + G
Sbjct: 1 MNIKLYYVHDPMCSWCWGYKPTIEKLKQQLPGVIQFEYVVG 41
>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 = 30.0 bits (66), Expect = 1.1, Method: Compositional matrix adjust.
Identities = 25/69 (36%), Positives = 29/69 (42%), Gaps = 8/69 (11%)
Query: 17 CVACYKQFKRKDHLIEHMKISYHSVHQP-KCAVCQKLSKSFESLREHL---TG--PLSKA 70
C C K F R DHL EH + H+ +P KC C K + L H TG P
Sbjct: 24 CPECGKSFSRSDHLAEHQRT--HTGEKPYKCPECGKSFSDKKDLTRHQRTHTGEKPYKCP 81
Query: 71 HCSGIFSDR 79
C FS R
Sbjct: 82 ECGKSFSQR 90
>pdb|4AFY|A Chain A, Crystal Structure Of The Fimx Eal Domain In Complex With
Reaction Product Pgpg
pdb|4AFY|B Chain B, Crystal Structure Of The Fimx Eal Domain In Complex With
Reaction Product Pgpg
pdb|4AG0|A Chain A, Crystal Structure Of Fimx Eal Domain
pdb|4AG0|B Chain B, Crystal Structure Of Fimx Eal Domain
Length = 274
Score = 29.3 bits (64), Expect = 2.1, Method: Compositional matrix adjust.
Identities = 20/76 (26%), Positives = 34/76 (44%), Gaps = 6/76 (7%)
Query: 53 SKSFESLREHLTGPLSKAHCSGIFSDRGCNLCMNIFDSPSSLIKHKEACSLSAPVPFEKT 112
+ S+ + LT L+ HC S GC+L +P + +KH + F +
Sbjct: 154 ATSYLKQAKQLTQGLATLHCQAAISQFGCSL------NPFNALKHLTVQFIKIDGSFVQD 207
Query: 113 LSNAESQKKISGAIDE 128
L+ E+Q+ + G I E
Sbjct: 208 LNQVENQEILKGLIAE 223
>pdb|4J40|A Chain A, Crystal Structure Of The Dual-domain Ggdef-eal Module Of
Fimx From Pseudomonas Aeruginosa
pdb|4J40|B Chain B, Crystal Structure Of The Dual-domain Ggdef-eal Module Of
Fimx From Pseudomonas Aeruginosa
Length = 437
Score = 29.3 bits (64), Expect = 2.4, Method: Compositional matrix adjust.
Identities = 23/103 (22%), Positives = 46/103 (44%), Gaps = 10/103 (9%)
Query: 30 LIEHMKISYHSVHQPKCAVCQKLSK----SFESLREHLTGPLSKAHCSGIFSDRGCNLCM 85
L+ + ++ + P ++ ++S+ S+ + LT L+ HC S GC+L
Sbjct: 290 LLPWLGVALKAARLPPESLVFQISEADATSYLKQAKQLTQGLATLHCQAAISQFGCSL-- 347
Query: 86 NIFDSPSSLIKHKEACSLSAPVPFEKTLSNAESQKKISGAIDE 128
+P + +KH + F + L+ E+Q+ + G I E
Sbjct: 348 ----NPFNALKHLTVQFIKIDGSFVQDLNQVENQEILKGLIAE 386
>pdb|2DRP|A Chain A, The Crystal Structure Of A Two Zinc-Finger Peptide
Reveals An Extension To The Rules For Zinc-FingerDNA
RECOGNITION
pdb|2DRP|D Chain D, The Crystal Structure Of A Two Zinc-Finger Peptide
Reveals An Extension To The Rules For Zinc-FingerDNA
RECOGNITION
Length = 66
Score = 28.9 bits (63), Expect = 2.7, Method: Compositional matrix adjust.
Identities = 12/28 (42%), Positives = 19/28 (67%)
Query: 9 KRSTARHKCVACYKQFKRKDHLIEHMKI 36
KR+ + C C+K+F RKD++ H+KI
Sbjct: 35 KRNVKVYPCPFCFKEFTRKDNMTAHVKI 62
>pdb|3HV8|A Chain A, Crystal Structure Of Fimx Eal Domain From Pseudomonas
Aeruginosa Bound To C-Di-Gmp
Length = 268
Score = 28.9 bits (63), Expect = 2.8, Method: Compositional matrix adjust.
Identities = 20/76 (26%), Positives = 34/76 (44%), Gaps = 6/76 (7%)
Query: 53 SKSFESLREHLTGPLSKAHCSGIFSDRGCNLCMNIFDSPSSLIKHKEACSLSAPVPFEKT 112
+ S+ + LT L+ HC S GC+L +P + +KH + F +
Sbjct: 148 ATSYLKQAKQLTQGLATLHCQAAISQFGCSL------NPFNALKHLTVQFIKIDGSFVQD 201
Query: 113 LSNAESQKKISGAIDE 128
L+ E+Q+ + G I E
Sbjct: 202 LNQVENQEILKGLIAE 217
>pdb|3HV9|A Chain A, Crystal Structure Of Fimx Eal Domain From Pseudomonas
Aeruginosa
Length = 265
Score = 28.9 bits (63), Expect = 3.0, Method: Compositional matrix adjust.
Identities = 20/76 (26%), Positives = 34/76 (44%), Gaps = 6/76 (7%)
Query: 53 SKSFESLREHLTGPLSKAHCSGIFSDRGCNLCMNIFDSPSSLIKHKEACSLSAPVPFEKT 112
+ S+ + LT L+ HC S GC+L +P + +KH + F +
Sbjct: 145 ATSYLKQAKQLTQGLATLHCQAAISQFGCSL------NPFNALKHLTVQFIKIDGSFVQD 198
Query: 113 LSNAESQKKISGAIDE 128
L+ E+Q+ + G I E
Sbjct: 199 LNQVENQEILKGLIAE 214
>pdb|1X6E|A Chain A, Solution Structures Of The C2h2 Type Zinc Finger Domain
Of Human Zinc Finger Protein 24
Length = 72
Score = 28.9 bits (63), Expect = 3.1, Method: Compositional matrix adjust.
Identities = 20/59 (33%), Positives = 28/59 (47%), Gaps = 7/59 (11%)
Query: 15 HKCVACYKQFKRKDHLIEHMKISYHSVHQP-KCAVCQKLSKSFESL----REHLTGPLS 68
+ CV C K F R L++H ++ H+ +P KC C K L R H +GP S
Sbjct: 15 YGCVECGKAFSRSSILVQHQRV--HTGEKPYKCLECGKAFSQNSGLINHQRIHTSGPSS 71
>pdb|2EE8|A Chain A, Solution Structure Of Three Zf-C2h2 Domains From Mouse
Protein Odd-Skipped-Related 2 Splicing Isoform 2
Length = 106
Score = 28.9 bits (63), Expect = 3.1, Method: Compositional matrix adjust.
Identities = 17/36 (47%), Positives = 22/36 (61%), Gaps = 3/36 (8%)
Query: 17 CVACYKQFKRKDHLIEHMKISYHSVHQP-KCAVCQK 51
C C+K F+R+DHL +H I HS +P KC C K
Sbjct: 48 CDICHKAFRRQDHLRDHRYI--HSKEKPFKCQECGK 81
>pdb|4ASI|A Chain A, Crystal Structure Of Human Acaca C-Terminal Domain
pdb|4ASI|B Chain B, Crystal Structure Of Human Acaca C-Terminal Domain
pdb|4ASI|C Chain C, Crystal Structure Of Human Acaca C-Terminal Domain
pdb|4ASI|D Chain D, Crystal Structure Of Human Acaca C-Terminal Domain
pdb|4ASI|E Chain E, Crystal Structure Of Human Acaca C-Terminal Domain
pdb|4ASI|F Chain F, Crystal Structure Of Human Acaca C-Terminal Domain
Length = 769
Score = 28.5 bits (62), Expect = 3.6, Method: Composition-based stats.
Identities = 20/61 (32%), Positives = 30/61 (49%), Gaps = 4/61 (6%)
Query: 157 ARVCLVDEDENVIFHTYVQPQLPVTNYRYEVTGLTEEDIKNAMPLKEVKDKILEILNNGE 216
AR+ L +E ++ +V P+ P YRY LT +D K L V + +E + GE
Sbjct: 153 ARIGLAEEIRHMFHVAWVDPEDPYKGYRYLY--LTPQDYKRVSALNSVHCEHVE--DEGE 208
Query: 217 S 217
S
Sbjct: 209 S 209
>pdb|2EL5|A Chain A, Solution Structure Of The 18th Zf-C2h2 Domain From Human
Zinc Finger Protein 268
Length = 42
Score = 28.5 bits (62), Expect = 3.7, Method: Compositional matrix adjust.
Identities = 10/22 (45%), Positives = 13/22 (59%)
Query: 15 HKCVACYKQFKRKDHLIEHMKI 36
++C C K F RKD LI H +
Sbjct: 11 YECSECGKAFNRKDQLISHQRT 32
>pdb|2EPS|A Chain A, Solution Structure Of The 4th Zinc Finger Domain Of Zinc
Finger Protein 278
Length = 54
Score = 28.1 bits (61), Expect = 4.6, Method: Composition-based stats.
Identities = 14/32 (43%), Positives = 17/32 (53%)
Query: 17 CVACYKQFKRKDHLIEHMKISYHSVHQPKCAV 48
C +C K F R DHL H+K + S KC V
Sbjct: 15 CQSCGKGFSRPDHLNGHIKQVHTSERPHKCQV 46
>pdb|3VE1|A Chain A, The 2.9 Angstrom Crystal Structure Of Transferrin Binding
Protein B (Tbpb) From Serogroup B M982 Neisseria
Meningitidis In Complex With Human Transferrin
pdb|3VE1|C Chain C, The 2.9 Angstrom Crystal Structure Of Transferrin Binding
Protein B (Tbpb) From Serogroup B M982 Neisseria
Meningitidis In Complex With Human Transferrin
pdb|3VE2|A Chain A, The 2.1 Angstrom Crystal Structure Of Transferrin Binding
Protein B (Tbpb) From Serogroup B M982 Neisseria
Meningitidis
pdb|3VE2|B Chain B, The 2.1 Angstrom Crystal Structure Of Transferrin Binding
Protein B (Tbpb) From Serogroup B M982 Neisseria
Meningitidis
Length = 658
Score = 27.7 bits (60), Expect = 5.8, Method: Compositional matrix adjust.
Identities = 16/39 (41%), Positives = 20/39 (51%), Gaps = 4/39 (10%)
Query: 109 FEKTLSNAESQKKISGAIDEKRTCRGPKAVAMDCEMVGG 147
FE T AES +D+K T R PKA D ++ GG
Sbjct: 574 FEGTAKTAES----GFDLDQKNTTRTPKAYITDAKVKGG 608
>pdb|2EMM|A Chain A, Solution Structure Of The C2h2 Type Zinc Finger (Region
544- 576) Of Human Zinc Finger Protein 95 Homolog
Length = 46
Score = 27.7 bits (60), Expect = 7.0, Method: Compositional matrix adjust.
Identities = 11/22 (50%), Positives = 14/22 (63%)
Query: 15 HKCVACYKQFKRKDHLIEHMKI 36
HKC C K F + HLI+H +I
Sbjct: 13 HKCNECGKSFIQSAHLIQHQRI 34
>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 = 27.3 bits (59), Expect = 7.9, Method: Compositional matrix adjust.
Identities = 16/47 (34%), Positives = 26/47 (55%), Gaps = 4/47 (8%)
Query: 16 KCVACYKQFKRKDHLIEHMKISYHSVHQP-KCAVC-QKLSKSFESLR 60
+C C + F R DHL H++ H+ +P C +C +K ++S E R
Sbjct: 5 QCRICMRNFSRSDHLTTHIRT--HTGEKPFACDICGRKFARSDERKR 49
>pdb|2EOO|A Chain A, Solution Structure Of The C2h2 Type Zinc Finger (Region
425- 457) Of Human Zinc Finger Protein 95 Homolog
Length = 46
Score = 27.3 bits (59), Expect = 8.2, Method: Compositional matrix adjust.
Identities = 11/22 (50%), Positives = 13/22 (59%)
Query: 17 CVACYKQFKRKDHLIEHMKISY 38
C C K F R HLIEH+K +
Sbjct: 15 CNECGKNFGRHSHLIEHLKRHF 36
>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 = 27.3 bits (59), Expect = 8.6, Method: Compositional matrix adjust.
Identities = 16/47 (34%), Positives = 26/47 (55%), Gaps = 4/47 (8%)
Query: 16 KCVACYKQFKRKDHLIEHMKISYHSVHQP-KCAVC-QKLSKSFESLR 60
+C C + F R DHL H++ H+ +P C +C +K ++S E R
Sbjct: 36 QCRICMRNFSRSDHLTTHIRT--HTGEKPFACDICGRKFARSDERKR 80
>pdb|1A1H|A Chain A, Qgsr (Zif268 Variant) Zinc Finger-Dna Complex (Gcac
Site)
Length = 90
Score = 26.9 bits (58), Expect = 9.5, Method: Compositional matrix adjust.
Identities = 16/47 (34%), Positives = 26/47 (55%), Gaps = 4/47 (8%)
Query: 16 KCVACYKQFKRKDHLIEHMKISYHSVHQP-KCAVC-QKLSKSFESLR 60
+C C + F R DHL H++ H+ +P C +C +K ++S E R
Sbjct: 36 QCRICMRNFSRSDHLTTHIRT--HTGEKPFACDICGRKFARSDERKR 80
>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 = 26.9 bits (58), Expect = 9.5, Method: Compositional matrix adjust.
Identities = 16/47 (34%), Positives = 26/47 (55%), Gaps = 4/47 (8%)
Query: 16 KCVACYKQFKRKDHLIEHMKISYHSVHQP-KCAVC-QKLSKSFESLR 60
+C C + F R DHL H++ H+ +P C +C +K ++S E R
Sbjct: 36 QCRICMRNFSRSDHLTTHIRT--HTGEKPFACDICGRKFARSDERKR 80
>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 = 26.9 bits (58), Expect = 9.6, Method: Compositional matrix adjust.
Identities = 16/47 (34%), Positives = 26/47 (55%), Gaps = 4/47 (8%)
Query: 16 KCVACYKQFKRKDHLIEHMKISYHSVHQP-KCAVC-QKLSKSFESLR 60
+C C + F R DHL H++ H+ +P C +C +K ++S E R
Sbjct: 36 QCRICMRNFSRSDHLTTHIRT--HTGEKPFACDICGRKFARSDERKR 80
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
0.318 0.134 0.402
Lambda K H
0.267 0.0410 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Hits to DB: 7,670,065
Number of Sequences: 62578
Number of extensions: 303247
Number of successful extensions: 984
Number of sequences better than 100.0: 46
Number of HSP's better than 100.0 without gapping: 18
Number of HSP's successfully gapped in prelim test: 28
Number of HSP's that attempted gapping in prelim test: 938
Number of HSP's gapped (non-prelim): 68
length of query: 253
length of database: 14,973,337
effective HSP length: 97
effective length of query: 156
effective length of database: 8,903,271
effective search space: 1388910276
effective search space used: 1388910276
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: 50 (23.9 bits)