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= 040256
(228 letters)
Database: pdbaa
62,578 sequences; 14,973,337 total letters
Searching..................................................done
>pdb|2HCZ|X Chain X, Crystal Structure Of Expb1 (Zea M 1), A Beta-Expansin And
Group-1 Pollen Allergen From Maize
Length = 245
Score = 100 bits (248), Expect = 8e-22, Method: Compositional matrix adjust.
Identities = 73/242 (30%), Positives = 106/242 (43%), Gaps = 28/242 (11%)
Query: 2 NGAWEDAHATFYGDMSGGETMQ--GACGYGDLKRQGYGLETAALSTALFNNGSTCGACFE 59
NG W A AT+YG +G GACG ++ Y TA + +F +G CG+C+E
Sbjct: 16 NGKWLTARATWYGQPNGAGAPDNGGACGIKNVNLPPYSGMTACGNVPIFKDGKGCGSCYE 75
Query: 60 IICVNDPQWCLKGAGSIKITATNFCPPNYTKTKDIWCNPPQKHFDLSMPMFVKLAP---- 115
+ C P+ C ++ IT N+ P HFDLS F LA
Sbjct: 76 VRCKEKPE-CSGNPVTVYITDMNYEPIA------------PYHFDLSGKAFGSLAKPGLN 122
Query: 116 ---SKAGIIPVRYRRILCSKQGGVK----FEVKGNPNWTLVLVYNVGGAGDVTAVQVKGS 168
GI+ V +RR+ C G K E NPN+ VLV V GD+ ++++
Sbjct: 123 DKIRHCGIMDVEFRRVRCKYPAGQKIVFHIEKGCNPNYLAVLVKYVADDGDIVLMEIQDK 182
Query: 169 -STGWLPMSRNWGQNWQTGTVLLGQG-LSFQVTTSDGKTLQFDNVAPRNWQFGQTFQGRG 226
S W PM +WG W+ T +G S ++T+ GK + +V P NW+ +
Sbjct: 183 LSAEWKPMKLSWGAIWRMDTAKALKGPFSIRLTSESGKKVIAKDVIPANWRPDAVYTSNV 242
Query: 227 NF 228
F
Sbjct: 243 QF 244
>pdb|1N10|A Chain A, Crystal Structure Of Phl P 1, A Major Timothy Grass Pollen
Allergen
pdb|1N10|B Chain B, Crystal Structure Of Phl P 1, A Major Timothy Grass Pollen
Allergen
Length = 241
Score = 97.1 bits (240), Expect = 6e-21, Method: Compositional matrix adjust.
Identities = 71/236 (30%), Positives = 108/236 (45%), Gaps = 28/236 (11%)
Query: 5 WEDAHATFYGDMSGG--ETMQGACGYGDLKRQGYGLETAALSTALFNNGSTCGACFEIIC 62
W DA +T+YG +G + GACGY D+ + + T +T +F +G CG+CFEI C
Sbjct: 19 WLDAKSTWYGKPTGAGPKDNGGACGYKDVDKPPFSGMTGCGNTPIFKSGRGCGSCFEIKC 78
Query: 63 VNDPQWCLKGAGSIKITATNFCPPNYTKTKDIWCNPPQKHFDLSMPMFVKLAPS------ 116
P+ C + IT N P HFDLS F +A
Sbjct: 79 TK-PEACSGEPVVVHITDDNEEPIA------------PYHFDLSGHAFGAMAKKGDEQKL 125
Query: 117 -KAGIIPVRYRRILCSKQGGVK--FEVK--GNPNWTLVLVYNVGGAGDVTAVQVKGS-ST 170
AG + +++RR+ C G K F V+ NPN+ +LV V G GDV AV +K
Sbjct: 126 RSAGELELQFRRVKCKYPEGTKVTFHVEKGSNPNYLALLVKYVNGDGDVVAVDIKEKGKD 185
Query: 171 GWLPMSRNWGQNWQTGTV-LLGQGLSFQVTTSDGKTLQFDNVAPRNWQFGQTFQGR 225
W+ + +WG W+ T L + + TT G + ++V P W+ +++ +
Sbjct: 186 KWIELKESWGAIWRIDTPDKLTGPFTVRYTTEGGTKTEAEDVIPEGWKADTSYESK 241
>pdb|3U7G|A Chain A, Crystal Structure Of Mpnkp Catalytic Fragment (D170a)
Bound To Single- Stranded Dna (Tcctap)
Length = 379
Score = 28.9 bits (63), Expect = 2.5, Method: Compositional matrix adjust.
Identities = 20/71 (28%), Positives = 31/71 (43%), Gaps = 6/71 (8%)
Query: 143 NPNWTLVLVYNVGGAGDVTAVQVKGSSTGWLPMSRNWGQNWQTGTVLLGQGLSFQVTTSD 202
+PN +V+ GAG T +Q S G++ ++R+ +WQ S Q
Sbjct: 218 SPNPEVVVAVGFPGAGKSTFIQEHLVSAGYVHVNRDTLGSWQRCVS------SCQAALRQ 271
Query: 203 GKTLQFDNVAP 213
GK + DN P
Sbjct: 272 GKRVVIDNTNP 282
>pdb|1YJ5|A Chain A, Molecular Architecture Of Mammalian Polynucleotide Kinase,
A Dna Repair Enzyme
pdb|1YJ5|B Chain B, Molecular Architecture Of Mammalian Polynucleotide Kinase,
A Dna Repair Enzyme
Length = 383
Score = 28.9 bits (63), Expect = 2.6, Method: Compositional matrix adjust.
Identities = 20/71 (28%), Positives = 31/71 (43%), Gaps = 6/71 (8%)
Query: 143 NPNWTLVLVYNVGGAGDVTAVQVKGSSTGWLPMSRNWGQNWQTGTVLLGQGLSFQVTTSD 202
+PN +V+ GAG T +Q S G++ ++R+ +WQ S Q
Sbjct: 222 SPNPEVVVAVGFPGAGKSTFIQEHLVSAGYVHVNRDTLGSWQRCVS------SCQAALRQ 275
Query: 203 GKTLQFDNVAP 213
GK + DN P
Sbjct: 276 GKRVVIDNTNP 286
>pdb|3ZVM|A Chain A, The Structural Basis For Substrate Recognition By
Mammalian Polynucleotide Kinase 3' Phosphatase
pdb|3ZVM|B Chain B, The Structural Basis For Substrate Recognition By
Mammalian Polynucleotide Kinase 3' Phosphatase
Length = 416
Score = 28.9 bits (63), Expect = 2.6, Method: Compositional matrix adjust.
Identities = 20/71 (28%), Positives = 31/71 (43%), Gaps = 6/71 (8%)
Query: 143 NPNWTLVLVYNVGGAGDVTAVQVKGSSTGWLPMSRNWGQNWQTGTVLLGQGLSFQVTTSD 202
+PN +V+ GAG T +Q S G++ ++R+ +WQ S Q
Sbjct: 255 SPNPEVVVAVGFPGAGKSTFIQEHLVSAGYVHVNRDTLGSWQRCVS------SCQAALRQ 308
Query: 203 GKTLQFDNVAP 213
GK + DN P
Sbjct: 309 GKRVVIDNTNP 319
>pdb|3U7E|B Chain B, Crystal Structure Of Mpnkp Catalytic Fragment (D170a)
pdb|3U7F|B Chain B, Crystal Structure Of Mpnkp Catalytic Fragment (D170a)
Bound To Single- Stranded Dna (Tcctcp)
pdb|3U7H|B Chain B, Crystal Structure Of Mpnkp Catalytic Fragment (D170a)
Bound To Single- Stranded Dna (Tccttp)
Length = 381
Score = 28.5 bits (62), Expect = 2.9, Method: Compositional matrix adjust.
Identities = 20/71 (28%), Positives = 31/71 (43%), Gaps = 6/71 (8%)
Query: 143 NPNWTLVLVYNVGGAGDVTAVQVKGSSTGWLPMSRNWGQNWQTGTVLLGQGLSFQVTTSD 202
+PN +V+ GAG T +Q S G++ ++R+ +WQ S Q
Sbjct: 220 SPNPEVVVAVGFPGAGKSTFIQEHLVSAGYVHVNRDTLGSWQRCVS------SCQAALRQ 273
Query: 203 GKTLQFDNVAP 213
GK + DN P
Sbjct: 274 GKRVVIDNTNP 284
>pdb|3ZVN|A Chain A, The Structural Basis For Substrate Recognition By
Mammalian Polynucleotide Kinase 3' Phosphatase
Length = 416
Score = 28.5 bits (62), Expect = 3.1, Method: Compositional matrix adjust.
Identities = 20/71 (28%), Positives = 31/71 (43%), Gaps = 6/71 (8%)
Query: 143 NPNWTLVLVYNVGGAGDVTAVQVKGSSTGWLPMSRNWGQNWQTGTVLLGQGLSFQVTTSD 202
+PN +V+ GAG T +Q S G++ ++R+ +WQ S Q
Sbjct: 255 SPNPEVVVAVGFPGAGKSTFIQEHLVSAGYVHVNRDTLGSWQRCVS------SCQAALRQ 308
Query: 203 GKTLQFDNVAP 213
GK + DN P
Sbjct: 309 GKRVVIDNTNP 319
>pdb|3ZVL|A Chain A, The Structural Basis For Substrate Recognition By
Mammalian Polynucleotide Kinase 3' Phosphatase
Length = 416
Score = 28.5 bits (62), Expect = 3.2, Method: Compositional matrix adjust.
Identities = 20/71 (28%), Positives = 31/71 (43%), Gaps = 6/71 (8%)
Query: 143 NPNWTLVLVYNVGGAGDVTAVQVKGSSTGWLPMSRNWGQNWQTGTVLLGQGLSFQVTTSD 202
+PN +V+ GAG T +Q S G++ ++R+ +WQ S Q
Sbjct: 255 SPNPEVVVAVGFPGAGKSTFIQEHLVSAGYVHVNRDTLGSWQRCVS------SCQAALRQ 308
Query: 203 GKTLQFDNVAP 213
GK + DN P
Sbjct: 309 GKRVVIDNTNP 319
>pdb|1BMW|A Chain A, A Fibronectin Type Iii Fold In Plant Allergens: The
Solution Structure Of Phl Pii From Timothy Grass Pollen,
Nmr, 38 Structures
pdb|1WHO|A Chain A, Allergen Phl P 2
pdb|1WHP|A Chain A, Allergen Phl P 2
pdb|2VXQ|A Chain A, Crystal Structure Of The Major Grass Pollen Allergen Phl P
2 In Complex With Its Specific Ige-Fab
Length = 96
Score = 28.1 bits (61), Expect = 4.2, Method: Compositional matrix adjust.
Identities = 22/81 (27%), Positives = 33/81 (40%), Gaps = 2/81 (2%)
Query: 143 NPNWTLVLVYNVGGAGDVTAVQVKGSSTGWLPMSRNWGQNWQTGTVLLGQG-LSFQVTTS 201
N VLV G ++ GS W+ M++ G W + QG +F+ T
Sbjct: 13 NEKHLAVLVKYEGDTMAEVELREHGSDE-WVAMTKGEGGVWTFDSEEPLQGPFNFRFLTE 71
Query: 202 DGKTLQFDNVAPRNWQFGQTF 222
G FD+V P + G T+
Sbjct: 72 KGMKNVFDDVVPEKYTIGATY 92
>pdb|4B7L|A Chain A, Crystal Structure Of Human Filamin B Actin Binding Domain
With 1st Filamin Repeat
pdb|4B7L|B Chain B, Crystal Structure Of Human Filamin B Actin Binding Domain
With 1st Filamin Repeat
Length = 347
Score = 27.3 bits (59), Expect = 7.5, Method: Compositional matrix adjust.
Identities = 19/58 (32%), Positives = 25/58 (43%), Gaps = 15/58 (25%)
Query: 146 WTLVLVYNVG-------GAGDVTAVQVKGSSTGW-------LPMSRNWGQNWQTGTVL 189
WTL+L Y++ G D K GW LP++ N+ QNWQ G L
Sbjct: 115 WTLILHYSISMPVWEDEGDDDAKKQTPKQRLLGWIQNKIPYLPIT-NFNQNWQDGKAL 171
>pdb|3FER|A Chain A, Crystal Structure Of N-Terminal Actin-Binding Domain From
Human Filamin B (Tandem Ch-Domains). Northeast
Structural Genomics Consortium Target Hr5571a.
pdb|3FER|B Chain B, Crystal Structure Of N-Terminal Actin-Binding Domain From
Human Filamin B (Tandem Ch-Domains). Northeast
Structural Genomics Consortium Target Hr5571a.
pdb|3FER|C Chain C, Crystal Structure Of N-Terminal Actin-Binding Domain From
Human Filamin B (Tandem Ch-Domains). Northeast
Structural Genomics Consortium Target Hr5571a.
pdb|3FER|D Chain D, Crystal Structure Of N-Terminal Actin-Binding Domain From
Human Filamin B (Tandem Ch-Domains). Northeast
Structural Genomics Consortium Target Hr5571a
Length = 262
Score = 26.9 bits (58), Expect = 9.1, Method: Compositional matrix adjust.
Identities = 19/58 (32%), Positives = 25/58 (43%), Gaps = 15/58 (25%)
Query: 146 WTLVLVYNVG-------GAGDVTAVQVKGSSTGW-------LPMSRNWGQNWQTGTVL 189
WTL+L Y++ G D K GW LP++ N+ QNWQ G L
Sbjct: 125 WTLILHYSISXPVWEDEGDDDAKKQTPKQRLLGWIQNKIPYLPIT-NFNQNWQDGKAL 181
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
0.319 0.136 0.452
Lambda K H
0.267 0.0410 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Hits to DB: 7,990,404
Number of Sequences: 62578
Number of extensions: 344665
Number of successful extensions: 702
Number of sequences better than 100.0: 14
Number of HSP's better than 100.0 without gapping: 3
Number of HSP's successfully gapped in prelim test: 11
Number of HSP's that attempted gapping in prelim test: 691
Number of HSP's gapped (non-prelim): 14
length of query: 228
length of database: 14,973,337
effective HSP length: 95
effective length of query: 133
effective length of database: 9,028,427
effective search space: 1200780791
effective search space used: 1200780791
T: 11
A: 40
X1: 16 ( 7.4 bits)
X2: 38 (14.6 bits)
X3: 64 (24.7 bits)
S1: 41 (21.8 bits)
S2: 50 (23.9 bits)