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= 016352
(391 letters)
Database: pdbaa
62,578 sequences; 14,973,337 total letters
Searching..................................................done
>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 = 42.4 bits (98), Expect = 5e-04, Method: Compositional matrix adjust.
Identities = 36/138 (26%), Positives = 54/138 (39%), Gaps = 24/138 (17%)
Query: 6 FVCEICNKGFQRDQNLQLHRRGHN--LPWK-------------LRQRSTTEIRKRVYVCP 50
+ C C K F ++L H+R H P+K LR T ++ Y CP
Sbjct: 50 YKCPECGKSFSDKKDLTRHQRTHTGEKPYKCPECGKSFSQRANLRAHQRTHTGEKPYACP 109
Query: 51 EPSCVHHNPARALGDLTGIKKHFSRKHGXXXXXXXXXXXXYAVQSDWKAHSKT-CGTKEY 109
E C ++ L ++ H G ++ + + H +T G K Y
Sbjct: 110 E--C-----GKSFSQLAHLRAHQRTHTGEKPYKCPECGKSFSREDNLHTHQRTHTGEKPY 162
Query: 110 KC-DCGTIFSRRDSFITH 126
KC +CG FSRRD+ H
Sbjct: 163 KCPECGKSFSRRDALNVH 180
Score = 39.7 bits (91), Expect = 0.003, Method: Compositional matrix adjust.
Identities = 36/138 (26%), Positives = 54/138 (39%), Gaps = 24/138 (17%)
Query: 6 FVCEICNKGFQRDQNLQLHRRGHN--LPWK-------------LRQRSTTEIRKRVYVCP 50
+ C C K F R +L H+R H P+K L + T ++ Y CP
Sbjct: 22 YACPECGKSFSRSDHLAEHQRTHTGEKPYKCPECGKSFSDKKDLTRHQRTHTGEKPYKCP 81
Query: 51 EPSCVHHNPARALGDLTGIKKHFSRKHGXXXXXXXXXXXXYAVQSDWKAHSKT-CGTKEY 109
E C ++ ++ H G ++ + +AH +T G K Y
Sbjct: 82 E--C-----GKSFSQRANLRAHQRTHTGEKPYACPECGKSFSQLAHLRAHQRTHTGEKPY 134
Query: 110 KC-DCGTIFSRRDSFITH 126
KC +CG FSR D+ TH
Sbjct: 135 KCPECGKSFSREDNLHTH 152
>pdb|2ADR|A Chain A, Adr1 Dna-Binding Domain From Saccharomyces Cerevisiae,
Nmr, 25 Structures
Length = 60
Score = 32.0 bits (71), Expect = 0.55, Method: Composition-based stats.
Identities = 11/23 (47%), Positives = 16/23 (69%)
Query: 6 FVCEICNKGFQRDQNLQLHRRGH 28
FVCE+C + F R ++L+ H R H
Sbjct: 3 FVCEVCTRAFARQEHLKRHYRSH 25
>pdb|1OX4|A Chain A, Towards Understanding The Mechanism Of The Complex
Cyclization Reaction Catalyzed By Imidazole
Glycerophosphate Synthase
pdb|1OX6|A Chain A, Towards Understanding The Mechanism Of The Complex
Cyclization Reaction Catalyzed By Imidazole
Glycerophosphate Synthase
pdb|1OX6|B Chain B, Towards Understanding The Mechanism Of The Complex
Cyclization Reaction Catalyzed By Imidazole
Glycerophosphate Synthase
Length = 555
Score = 32.0 bits (71), Expect = 0.60, Method: Compositional matrix adjust.
Identities = 23/85 (27%), Positives = 38/85 (44%), Gaps = 4/85 (4%)
Query: 307 NNAALMKSLEHDESNKSGNNQSVLNNGDVMTVDFMGIGGSRTRNHFQQQQSQELKFGSGI 366
N +A K L ++ + G + ++ DV T D G Q +E G G+
Sbjct: 221 NYSAEEKELLMNDYSNYGLTRRIIACLDVRTND----QGDLVVTKGDQYDVREKSDGKGV 276
Query: 367 NNIGQPRMQSLNHFQQQQQDVPFLN 391
N+G+P + ++QQ +V FLN
Sbjct: 277 RNLGKPVQLAQKYYQQGADEVTFLN 301
>pdb|1JVN|A Chain A, Crystal Structure Of Imidazole Glycerol Phosphate
Synthase: A Tunnel Through A (BetaALPHA)8 BARREL JOINS
TWO ACTIVE SITES
pdb|1JVN|B Chain B, Crystal Structure Of Imidazole Glycerol Phosphate
Synthase: A Tunnel Through A (BetaALPHA)8 BARREL JOINS
TWO ACTIVE SITES
pdb|1OX4|B Chain B, Towards Understanding The Mechanism Of The Complex
Cyclization Reaction Catalyzed By Imidazole
Glycerophosphate Synthase
pdb|1OX5|A Chain A, Towards Understanding The Mechanism Of The Complex
Cyclization Reaction Catalyzed By Imidazole
Glycerophosphate Synthase
pdb|1OX5|B Chain B, Towards Understanding The Mechanism Of The Complex
Cyclization Reaction Catalyzed By Imidazole
Glycerophosphate Synthase
Length = 555
Score = 32.0 bits (71), Expect = 0.64, Method: Compositional matrix adjust.
Identities = 23/85 (27%), Positives = 38/85 (44%), Gaps = 4/85 (4%)
Query: 307 NNAALMKSLEHDESNKSGNNQSVLNNGDVMTVDFMGIGGSRTRNHFQQQQSQELKFGSGI 366
N +A K L ++ + G + ++ DV T D G Q +E G G+
Sbjct: 221 NYSAEEKELLMNDYSNYGLTRRIIACLDVRTND----QGDLVVTKGDQYDVREKSDGKGV 276
Query: 367 NNIGQPRMQSLNHFQQQQQDVPFLN 391
N+G+P + ++QQ +V FLN
Sbjct: 277 RNLGKPVQLAQKYYQQGADEVTFLN 301
>pdb|1ARF|A Chain A, Structures Of Dna-Binding Mutant Zinc Finger Domains:
Implications For Dna Binding
Length = 29
Score = 31.2 bits (69), Expect = 1.1, Method: Composition-based stats.
Identities = 11/23 (47%), Positives = 15/23 (65%)
Query: 6 FVCEICNKGFQRDQNLQLHRRGH 28
FVCE+C + F R + L+ H R H
Sbjct: 3 FVCEVCTRAFARQEYLKRHYRSH 25
>pdb|1ARD|A Chain A, Structures Of Dna-Binding Mutant Zinc Finger Domains:
Implications For Dna Binding
Length = 29
Score = 31.2 bits (69), Expect = 1.1, Method: Composition-based stats.
Identities = 11/23 (47%), Positives = 16/23 (69%)
Query: 6 FVCEICNKGFQRDQNLQLHRRGH 28
FVCE+C + F R ++L+ H R H
Sbjct: 3 FVCEVCTRAFARQEHLKRHYRSH 25
>pdb|1ARE|A Chain A, Structures Of Dna-Binding Mutant Zinc Finger Domains:
Implications For Dna Binding
Length = 29
Score = 30.8 bits (68), Expect = 1.3, Method: Composition-based stats.
Identities = 11/23 (47%), Positives = 15/23 (65%)
Query: 6 FVCEICNKGFQRDQNLQLHRRGH 28
FVCE+C + F R + L+ H R H
Sbjct: 3 FVCEVCTRAFARQEALKRHYRSH 25
>pdb|1MEY|C Chain C, Crystal Structure Of A Designed Zinc Finger Protein Bound
To Dna
pdb|1MEY|F Chain F, Crystal Structure Of A Designed Zinc Finger Protein Bound
To Dna
pdb|1MEY|G Chain G, Crystal Structure Of A Designed Zinc Finger Protein Bound
To Dna
Length = 87
Score = 30.8 bits (68), Expect = 1.5, Method: Compositional matrix adjust.
Identities = 30/124 (24%), Positives = 41/124 (33%), Gaps = 50/124 (40%)
Query: 6 FVCEICNKGFQRDQNLQLHRRGHNLPWKLRQRSTTEIRKRVYVCPEPSCVHHNPARALGD 65
+ C C K F + NLQ H+R H ++ Y CPE
Sbjct: 5 YKCPECGKSFSQSSNLQKHQRTH-------------TGEKPYKCPE-------------- 37
Query: 66 LTGIKKHFSRKHGXXXXXXXXXXXXYAVQSDWKAHSKT-CGTKEYKC-DCGTIFSRRDSF 123
++ SD + H +T G K YKC +CG FSR D
Sbjct: 38 ---------------------CGKSFSQSSDLQKHQRTHTGEKPYKCPECGKSFSRSDHL 76
Query: 124 ITHR 127
H+
Sbjct: 77 SRHQ 80
>pdb|2EOJ|A Chain A, Solution Structure Of The C2h2 Type Zinc Finger (Region
355- 385) Of Human Zinc Finger Protein 268
Length = 44
Score = 29.6 bits (65), Expect = 3.3, Method: Compositional matrix adjust.
Identities = 8/17 (47%), Positives = 14/17 (82%)
Query: 111 CDCGTIFSRRDSFITHR 127
C+CG +FSR+D ++H+
Sbjct: 16 CECGKVFSRKDQLVSHQ 32
>pdb|2ELZ|A Chain A, Solution Structure Of The 17th Zf-C2h2 Domain From Human
Zinc Finger Protein 224
Length = 46
Score = 28.9 bits (63), Expect = 4.5, Method: Composition-based stats.
Identities = 11/23 (47%), Positives = 15/23 (65%)
Query: 6 FVCEICNKGFQRDQNLQLHRRGH 28
+ CE C KG+ R NL +H+R H
Sbjct: 13 YKCEDCGKGYNRRLNLDMHQRVH 35
>pdb|2YSV|A Chain A, Solution Structure Of C2h2 Type Zinc Finger Domain 17 In
Zinc Finger Protein 473
Length = 42
Score = 28.9 bits (63), Expect = 5.6, Method: Compositional matrix adjust.
Identities = 10/24 (41%), Positives = 14/24 (58%)
Query: 6 FVCEICNKGFQRDQNLQLHRRGHN 29
+VC+ C K F + L +HRR H
Sbjct: 11 YVCQECGKAFTQSSCLSIHRRVHT 34
>pdb|1WDW|B Chain B, Structural Basis Of Mutual Activation Of The Tryptophan
Synthase A2b2 Complex From A Hyperthermophile,
Pyrococcus Furiosus
pdb|1WDW|D Chain D, Structural Basis Of Mutual Activation Of The Tryptophan
Synthase A2b2 Complex From A Hyperthermophile,
Pyrococcus Furiosus
pdb|1WDW|F Chain F, Structural Basis Of Mutual Activation Of The Tryptophan
Synthase A2b2 Complex From A Hyperthermophile,
Pyrococcus Furiosus
pdb|1WDW|H Chain H, Structural Basis Of Mutual Activation Of The Tryptophan
Synthase A2b2 Complex From A Hyperthermophile,
Pyrococcus Furiosus
pdb|1WDW|J Chain J, Structural Basis Of Mutual Activation Of The Tryptophan
Synthase A2b2 Complex From A Hyperthermophile,
Pyrococcus Furiosus
pdb|1WDW|L Chain L, Structural Basis Of Mutual Activation Of The Tryptophan
Synthase A2b2 Complex From A Hyperthermophile,
Pyrococcus Furiosus
Length = 385
Score = 28.5 bits (62), Expect = 6.5, Method: Compositional matrix adjust.
Identities = 23/96 (23%), Positives = 41/96 (42%), Gaps = 4/96 (4%)
Query: 240 HKSLVTSMAPPSFVAIPKDHQSLSAAAASMEEISLSSSAQFFSANIGHAEGSSAMNDVGM 299
H + + + P + I +D QS+ A + L + Q + G S N +G+
Sbjct: 180 HYLIGSVVGPHPYPTIVRDFQSVIGREAKAQ--ILEAEGQLPDVIVACVGGGS--NAMGI 235
Query: 300 FYRFLDQNNAALMKSLEHDESNKSGNNQSVLNNGDV 335
FY F++ L+ + +SG + + LN G V
Sbjct: 236 FYPFVNDKKVKLVGVEAGGKGLESGKHSASLNAGQV 271
>pdb|1DGU|A Chain A, Homology-Based Model Of Calcium-Saturated Cib (Calcium-And
Integrin-Binding Protein)
pdb|1DGV|A Chain A, Homology-Based Model Of Apo Cib (Calcium-And Integrin-
Binding Protein)
pdb|1XO5|A Chain A, Crystal Structure Of Cib1, An Ef-Hand, Integrin And
Kinase- Binding Protein
pdb|1XO5|B Chain B, Crystal Structure Of Cib1, An Ef-Hand, Integrin And
Kinase- Binding Protein
pdb|1Y1A|A Chain A, Crystal Structure Of Calcium And Integrin Binding Protein
pdb|1Y1A|B Chain B, Crystal Structure Of Calcium And Integrin Binding Protein
Length = 183
Score = 28.5 bits (62), Expect = 6.8, Method: Compositional matrix adjust.
Identities = 13/45 (28%), Positives = 23/45 (51%), Gaps = 2/45 (4%)
Query: 115 TIFSRRDSFITHRAFCDALAEESQKANQGLNPQLGHVSEHISSMP 159
T ++++ + HR FC+ L +E + L Q+ E I S+P
Sbjct: 12 TFLTKQEILLAHRRFCELLPQEQRSVESSLRAQVPF--EQILSLP 54
>pdb|1V8Z|A Chain A, X-Ray Crystal Structure Of The Tryptophan Synthase B2
Subunit From Hyperthermophile, Pyrococcus Furiosus
pdb|1V8Z|B Chain B, X-Ray Crystal Structure Of The Tryptophan Synthase B2
Subunit From Hyperthermophile, Pyrococcus Furiosus
pdb|1V8Z|C Chain C, X-Ray Crystal Structure Of The Tryptophan Synthase B2
Subunit From Hyperthermophile, Pyrococcus Furiosus
pdb|1V8Z|D Chain D, X-Ray Crystal Structure Of The Tryptophan Synthase B2
Subunit From Hyperthermophile, Pyrococcus Furiosus
Length = 388
Score = 28.5 bits (62), Expect = 6.9, Method: Compositional matrix adjust.
Identities = 23/96 (23%), Positives = 41/96 (42%), Gaps = 4/96 (4%)
Query: 240 HKSLVTSMAPPSFVAIPKDHQSLSAAAASMEEISLSSSAQFFSANIGHAEGSSAMNDVGM 299
H + + + P + I +D QS+ A + L + Q + G S N +G+
Sbjct: 180 HYLIGSVVGPHPYPTIVRDFQSVIGREAKAQ--ILEAEGQLPDVIVACVGGGS--NAMGI 235
Query: 300 FYRFLDQNNAALMKSLEHDESNKSGNNQSVLNNGDV 335
FY F++ L+ + +SG + + LN G V
Sbjct: 236 FYPFVNDKKVKLVGVEAGGKGLESGKHSASLNAGQV 271
>pdb|2L4H|A Chain A, The Solution Structure Of Calcium Bound Cib1
pdb|2L4I|A Chain A, The Solution Structure Of Magnesium Bound Cib1
pdb|2LM5|A Chain A, Solution Structure Of Ca2+-Cib1 In Complex With The
Cytoplasmic Domain Of The Integrin Aiib Subunit
Length = 214
Score = 28.5 bits (62), Expect = 7.4, Method: Compositional matrix adjust.
Identities = 13/45 (28%), Positives = 23/45 (51%), Gaps = 2/45 (4%)
Query: 115 TIFSRRDSFITHRAFCDALAEESQKANQGLNPQLGHVSEHISSMP 159
T ++++ + HR FC+ L +E + L Q+ E I S+P
Sbjct: 43 TFLTKQEILLAHRRFCELLPQEQRSVESSLRAQVPF--EQILSLP 85
>pdb|2EBT|A Chain A, Solution Structure Of Three Tandem Repeats Of Zf-C2h2
Domains From Human Kruppel-Like Factor 5
Length = 100
Score = 28.1 bits (61), Expect = 9.8, Method: Composition-based stats.
Identities = 10/23 (43%), Positives = 14/23 (60%)
Query: 6 FVCEICNKGFQRDQNLQLHRRGH 28
F C +CN+ F R +L LH + H
Sbjct: 76 FQCGVCNRSFSRSDHLALHMKRH 98
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 0.129 0.386
Lambda K H
0.267 0.0410 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Hits to DB: 9,443,182
Number of Sequences: 62578
Number of extensions: 305630
Number of successful extensions: 805
Number of sequences better than 100.0: 28
Number of HSP's better than 100.0 without gapping: 17
Number of HSP's successfully gapped in prelim test: 11
Number of HSP's that attempted gapping in prelim test: 771
Number of HSP's gapped (non-prelim): 40
length of query: 391
length of database: 14,973,337
effective HSP length: 101
effective length of query: 290
effective length of database: 8,652,959
effective search space: 2509358110
effective search space used: 2509358110
T: 11
A: 40
X1: 16 ( 7.3 bits)
X2: 38 (14.6 bits)
X3: 64 (24.7 bits)
S1: 41 (21.8 bits)
S2: 52 (24.6 bits)