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= 024303
(269 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 = 177 bits (449), Expect = 5e-45, Method: Compositional matrix adjust.
Identities = 87/204 (42%), Positives = 129/204 (63%), Gaps = 10/204 (4%)
Query: 68 VSQSPFSSFVTAIGPSLYKSGKECGACYQVKCTRHPACSGKAVRVVITD--FCPGGPCVS 125
V+ P+S ++K GK CG+CY+V+C P CSG V V ITD + P P
Sbjct: 47 VNLPPYSGMTACGNVPIFKDGKGCGSCYEVRCKEKPECSGNPVTVYITDMNYEPIAP--- 103
Query: 126 ESAHFDLSGTAFGAMAIPGQEEKLRDAGVLEVRYARVACDY-SGRNIAFHVDQGSNPNYL 184
HFDLSG AFG++A PG +K+R G+++V + RV C Y +G+ I FH+++G NPNYL
Sbjct: 104 --YHFDLSGKAFGSLAKPGLNDKIRHCGIMDVEFRRVRCKYPAGQKIVFHIEKGCNPNYL 161
Query: 185 AVVVEFEDGDGDLAGVDVKEG-SGEWRAMQQSWGATWKLNAGSELHPPLSLRLTSQYSGQ 243
AV+V++ DGD+ +++++ S EW+ M+ SWGA W+++ L P S+RLTS+ SG+
Sbjct: 162 AVLVKYVADDGDIVLMEIQDKLSAEWKPMKLSWGAIWRMDTAKALKGPFSIRLTSE-SGK 220
Query: 244 TLVANNVIPQGWMPGATYRSLVNY 267
++A +VIP W P A Y S V +
Sbjct: 221 KVIAKDVIPANWRPDAVYTSNVQF 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 = 176 bits (446), Expect = 1e-44, Method: Compositional matrix adjust.
Identities = 98/241 (40%), Positives = 140/241 (58%), Gaps = 12/241 (4%)
Query: 29 PKHLNLSAV-GTHWSTAGATWXXXXXXXXXXXXXXX-XXNAVSQSPFSSFVTAIGPSLYK 86
P N++A G W A +TW V + PFS ++K
Sbjct: 6 PPGPNITATYGDKWLDAKSTWYGKPTGAGPKDNGGACGYKDVDKPPFSGMTGCGNTPIFK 65
Query: 87 SGKECGACYQVKCTRHPACSGKAVRVVITDFC--PGGPCVSESAHFDLSGTAFGAMAIPG 144
SG+ CG+C+++KCT+ ACSG+ V V ITD P P HFDLSG AFGAMA G
Sbjct: 66 SGRGCGSCFEIKCTKPEACSGEPVVVHITDDNEEPIAP-----YHFDLSGHAFGAMAKKG 120
Query: 145 QEEKLRDAGVLEVRYARVACDY-SGRNIAFHVDQGSNPNYLAVVVEFEDGDGDLAGVDVK 203
E+KLR AG LE+++ RV C Y G + FHV++GSNPNYLA++V++ +GDGD+ VD+K
Sbjct: 121 DEQKLRSAGELELQFRRVKCKYPEGTKVTFHVEKGSNPNYLALLVKYVNGDGDVVAVDIK 180
Query: 204 E-GSGEWRAMQQSWGATWKLNAGSELHPPLSLRLTSQYSGQTLVANNVIPQGWMPGATYR 262
E G +W +++SWGA W+++ +L P ++R T++ G A +VIP+GW +Y
Sbjct: 181 EKGKDKWIELKESWGAIWRIDTPDKLTGPFTVRYTTE-GGTKTEAEDVIPEGWKADTSYE 239
Query: 263 S 263
S
Sbjct: 240 S 240
>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 = 60.8 bits (146), Expect = 7e-10, Method: Compositional matrix adjust.
Identities = 34/93 (36%), Positives = 56/93 (60%), Gaps = 4/93 (4%)
Query: 170 NIAFHVDQGSNPNYLAVVVEFEDGDGDLAGVDVKE-GSGEWRAMQQSWGATWKLNAGSEL 228
+ F V++GSN +LAV+V++E GD +A V+++E GS EW AM + G W ++ L
Sbjct: 3 KVTFTVEKGSNEKHLAVLVKYE-GD-TMAEVELREHGSDEWVAMTKGEGGVWTFDSEEPL 60
Query: 229 HPPLSLRLTSQYSGQTLVANNVIPQGWMPGATY 261
P + R ++ G V ++V+P+ + GATY
Sbjct: 61 QGPFNFRFLTE-KGMKNVFDDVVPEKYTIGATY 92
>pdb|4B0T|A Chain A, Structure Of The Pup Ligase Pafa Of The Prokaryotic
Ubiquitin-Like Modification Pathway In Complex With Adp
pdb|4B0T|B Chain B, Structure Of The Pup Ligase Pafa Of The Prokaryotic
Ubiquitin-Like Modification Pathway In Complex With Adp
Length = 493
Score = 28.5 bits (62), Expect = 3.8, Method: Compositional matrix adjust.
Identities = 23/86 (26%), Positives = 35/86 (40%), Gaps = 16/86 (18%)
Query: 135 TAFGAMAIPGQEEKLRDAGVLEVRYARVACDYSGRNI------AFHVDQGSNPNY----- 183
T +G + G +KLR + + + YS NI ++D GS+P Y
Sbjct: 17 TEYGLTFVDGDSKKLRPDEIARRMFRPIVEKYSSSNIFIPNGSRLYLDVGSHPEYATAEC 76
Query: 184 --LAVVVEFE---DGDGDLAGVDVKE 204
L ++ FE D D VD +E
Sbjct: 77 DNLTQLINFEKAGDVIADRMAVDAEE 102
>pdb|3IC1|A Chain A, Crystal Structure Of Zinc-Bound Succinyl-Diaminopimelate
Desuccinylase From Haemophilus Influenzae
pdb|3IC1|B Chain B, Crystal Structure Of Zinc-Bound Succinyl-Diaminopimelate
Desuccinylase From Haemophilus Influenzae
pdb|3ISZ|A Chain A, Crystal Structure Of Mono-zinc Form Of
Succinyl-diaminopimelate Desuccinylase From Haemophilus
Influenzae
pdb|3ISZ|B Chain B, Crystal Structure Of Mono-zinc Form Of
Succinyl-diaminopimelate Desuccinylase From Haemophilus
Influenzae
Length = 377
Score = 28.1 bits (61), Expect = 5.7, Method: Compositional matrix adjust.
Identities = 13/34 (38%), Positives = 23/34 (67%), Gaps = 2/34 (5%)
Query: 219 TWKLNAGSELHPPLSLRLTSQYSGQTLVANNVIP 252
T++ + G+E PP SL++ + ++G +NNVIP
Sbjct: 217 TYQWDKGNEFFPPTSLQIANIHAGTG--SNNVIP 248
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 0.132 0.424
Lambda K H
0.267 0.0410 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Hits to DB: 7,663,308
Number of Sequences: 62578
Number of extensions: 305701
Number of successful extensions: 906
Number of sequences better than 100.0: 10
Number of HSP's better than 100.0 without gapping: 4
Number of HSP's successfully gapped in prelim test: 6
Number of HSP's that attempted gapping in prelim test: 893
Number of HSP's gapped (non-prelim): 10
length of query: 269
length of database: 14,973,337
effective HSP length: 97
effective length of query: 172
effective length of database: 8,903,271
effective search space: 1531362612
effective search space used: 1531362612
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: 51 (24.3 bits)