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= 044689
(253 letters)
Database: pdbaa
62,578 sequences; 14,973,337 total letters
Searching..................................................done
>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 = 178 bits (451), Expect = 3e-45, Method: Compositional matrix adjust.
Identities = 99/241 (41%), Positives = 141/241 (58%), Gaps = 12/241 (4%)
Query: 13 PKHLNLSAV-GTHWSTAGATWXXXXXXXXXXXXXXX-XXNAVSQSPFSSFVTAIGPSLYK 70
P N++A G W A +TW V + PFS ++K
Sbjct: 6 PPGPNITATYGDKWLDAKSTWYGKPTGAGPKDNGGACGYKDVDKPPFSGMTGCGNTPIFK 65
Query: 71 SGKECGACYQVKCTRHPACSGRAVRVVITDFC--PGGPCVSESAHFDLSGTAFGAMAIPG 128
SG+ CG+C+++KCT+ ACSG V V ITD P P HFDLSG AFGAMA G
Sbjct: 66 SGRGCGSCFEIKCTKPEACSGEPVVVHITDDNEEPIAP-----YHFDLSGHAFGAMAKKG 120
Query: 129 QEEKLRDAGVLEVRYARVACDY-SGRNIAFHVDQGSNPNYLAVVVEFEDGDGDLAGVDVK 187
E+KLR AG LE+++ RV C Y G + FHV++GSNPNYLA++V++ +GDGD+ VD+K
Sbjct: 121 DEQKLRSAGELELQFRRVKCKYPEGTKVTFHVEKGSNPNYLALLVKYVNGDGDVVAVDIK 180
Query: 188 E-GSGEWRAMQQSWGATWKLDAGSELHPPLSLRLTSQYSSQTLVANNVIPQGWMPGATYR 246
E G +W +++SWGA W++D +L P ++R T++ ++T A +VIP+GW +Y
Sbjct: 181 EKGKDKWIELKESWGAIWRIDTPDKLTGPFTVRYTTEGGTKT-EAEDVIPEGWKADTSYE 239
Query: 247 S 247
S
Sbjct: 240 S 240
>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 = 176 bits (447), Expect = 8e-45, Method: Compositional matrix adjust.
Identities = 93/233 (39%), Positives = 134/233 (57%), Gaps = 11/233 (4%)
Query: 24 HWSTAGATWXXXXXXXXXXXXXXX-XXNAVSQSPFSSFVTAIGPSLYKSGKECGACYQVK 82
W TA ATW V+ P+S ++K GK CG+CY+V+
Sbjct: 18 KWLTARATWYGQPNGAGAPDNGGACGIKNVNLPPYSGMTACGNVPIFKDGKGCGSCYEVR 77
Query: 83 CTRHPACSGRAVRVVITD--FCPGGPCVSESAHFDLSGTAFGAMAIPGQEEKLRDAGVLE 140
C P CSG V V ITD + P P HFDLSG AFG++A PG +K+R G+++
Sbjct: 78 CKEKPECSGNPVTVYITDMNYEPIAP-----YHFDLSGKAFGSLAKPGLNDKIRHCGIMD 132
Query: 141 VRYARVACDY-SGRNIAFHVDQGSNPNYLAVVVEFEDGDGDLAGVDVKEG-SGEWRAMQQ 198
V + RV C Y +G+ I FH+++G NPNYLAV+V++ DGD+ +++++ S EW+ M+
Sbjct: 133 VEFRRVRCKYPAGQKIVFHIEKGCNPNYLAVLVKYVADDGDIVLMEIQDKLSAEWKPMKL 192
Query: 199 SWGATWKLDAGSELHPPLSLRLTSQYSSQTLVANNVIPQGWMPGATYRSLVNY 251
SWGA W++D L P S+RLTS+ S + ++A +VIP W P A Y S V +
Sbjct: 193 SWGAIWRMDTAKALKGPFSIRLTSE-SGKKVIAKDVIPANWRPDAVYTSNVQF 244
>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 = 61.2 bits (147), Expect = 6e-10, Method: Compositional matrix adjust.
Identities = 34/93 (36%), Positives = 56/93 (60%), Gaps = 4/93 (4%)
Query: 154 NIAFHVDQGSNPNYLAVVVEFEDGDGDLAGVDVKE-GSGEWRAMQQSWGATWKLDAGSEL 212
+ F V++GSN +LAV+V++E GD +A V+++E GS EW AM + G W D+ L
Sbjct: 3 KVTFTVEKGSNEKHLAVLVKYE-GD-TMAEVELREHGSDEWVAMTKGEGGVWTFDSEEPL 60
Query: 213 HPPLSLRLTSQYSSQTLVANNVIPQGWMPGATY 245
P + R ++ + V ++V+P+ + GATY
Sbjct: 61 QGPFNFRFLTEKGMKN-VFDDVVPEKYTIGATY 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 = 4.0, Method: Compositional matrix adjust.
Identities = 24/86 (27%), Positives = 36/86 (41%), Gaps = 16/86 (18%)
Query: 119 TAFGAMAIPGQEEKLRDAGVLEVRYARVACDYSGRNI------AFHVDQGSNPNY----- 167
T +G + G +KLR + + + YS NI ++D GS+P Y
Sbjct: 17 TEYGLTFVDGDSKKLRPDEIARRMFRPIVEKYSSSNIFIPNGSRLYLDVGSHPEYATAEC 76
Query: 168 --LAVVVEFED-GD--GDLAGVDVKE 188
L ++ FE GD 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 = 27.7 bits (60), Expect = 7.2, Method: Compositional matrix adjust.
Identities = 13/34 (38%), Positives = 22/34 (64%), Gaps = 2/34 (5%)
Query: 203 TWKLDAGSELHPPLSLRLTSQYSSQTLVANNVIP 236
T++ D G+E PP SL++ + ++ +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
0.319 0.134 0.432
Lambda K H
0.267 0.0410 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Hits to DB: 7,715,930
Number of Sequences: 62578
Number of extensions: 305685
Number of successful extensions: 1173
Number of sequences better than 100.0: 10
Number of HSP's better than 100.0 without gapping: 3
Number of HSP's successfully gapped in prelim test: 7
Number of HSP's that attempted gapping in prelim test: 1161
Number of HSP's gapped (non-prelim): 10
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 ( 7.4 bits)
X2: 38 (14.6 bits)
X3: 64 (24.7 bits)
S1: 41 (21.8 bits)
S2: 50 (23.9 bits)