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= 024520
(266 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 = 97.1 bits (240), Expect = 1e-20, Method: Compositional matrix adjust.
Identities = 76/244 (31%), Positives = 106/244 (43%), Gaps = 30/244 (12%)
Query: 38 GPWRLAHATFYGDE--SASETMGGACGYGNLFSNGYGTDTAALSSTLFNNGYACGTCYQI 95
G W A AT+YG + + GGACG N+ Y TA + +F +G CG+CY++
Sbjct: 17 GKWLTARATWYGQPNGAGAPDNGGACGIKNVNLPPYSGMTACGNVPIFKDGKGCGSCYEV 76
Query: 96 KCYNSPHCYKYVPFTTVTATNLCPPNWSQDSNNGGWCNPPRAHFDMSKPAFMKIGA---- 151
+C P C +T N P HFD+S AF +
Sbjct: 77 RCKEKPECSGNPVTVYITDMNYEPIA--------------PYHFDLSGKAFGSLAKPGLN 122
Query: 152 ---WKAGIVPVLFRRVPCIKPGGIRFAFQ----GNGYWLLVYVMNVAGGGDIASMWVKGT 204
GI+ V FRRV C P G + F N +L V V VA GDI M ++
Sbjct: 123 DKIRHCGIMDVEFRRVRCKYPAGQKIVFHIEKGCNPNYLAVLVKYVADDGDIVLMEIQDK 182
Query: 205 RTG-WISMSHNWGASYQAFATLGGQA-LSFKIQSYSTKETIIAYNVAPANWNVGLTYKSN 262
+ W M +WGA ++ + S ++ S S K+ +IA +V PANW Y SN
Sbjct: 183 LSAEWKPMKLSWGAIWRMDTAKALKGPFSIRLTSESGKK-VIAKDVIPANWRPDAVYTSN 241
Query: 263 VNFH 266
V F+
Sbjct: 242 VQFY 245
>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 = 77.8 bits (190), Expect = 6e-15, Method: Compositional matrix adjust.
Identities = 70/255 (27%), Positives = 109/255 (42%), Gaps = 41/255 (16%)
Query: 33 PIFRPGP---------WRLAHATFYGDESAS--ETMGGACGYGNLFSNGYGTDTAALSST 81
P PGP W A +T+YG + + + GGACGY ++ + T ++
Sbjct: 3 PKVPPGPNITATYGDKWLDAKSTWYGKPTGAGPKDNGGACGYKDVDKPPFSGMTGCGNTP 62
Query: 82 LFNNGYACGTCYQIKCYNSPHCYKYVPFTTVTATNLCPPNWSQDSNNGGWCNPPRAHFDM 141
+F +G CG+C++IKC C +T N P P HFD+
Sbjct: 63 IFKSGRGCGSCFEIKCTKPEACSGEPVVVHITDDNEEP------------IAP--YHFDL 108
Query: 142 SKPAF---MKIGAWK----AGIVPVLFRRVPCIKPGGIRFAFQ----GNGYWLLVYVMNV 190
S AF K G + AG + + FRRV C P G + F N +L + V V
Sbjct: 109 SGHAFGAMAKKGDEQKLRSAGELELQFRRVKCKYPEGTKVTFHVEKGSNPNYLALLVKYV 168
Query: 191 AGGGDIASMWVKGT-RTGWISMSHNWGASYQAFATLGGQALSFKIQSYSTK--ETIIAYN 247
G GD+ ++ +K + WI + +WGA ++ T F ++ Y+T+ A +
Sbjct: 169 NGDGDVVAVDIKEKGKDKWIELKESWGAIWR-IDTPDKLTGPFTVR-YTTEGGTKTEAED 226
Query: 248 VAPANWNVGLTYKSN 262
V P W +Y+S
Sbjct: 227 VIPEGWKADTSYESK 241
>pdb|1W78|A Chain A, E.Coli Folc In Complex With Dhpp And Adp
pdb|1W7K|A Chain A, E.Coli Folc In Complex With Adp, Without Folate Substrate
Length = 422
Score = 30.8 bits (68), Expect = 0.73, Method: Compositional matrix adjust.
Identities = 17/50 (34%), Positives = 20/50 (40%), Gaps = 6/50 (12%)
Query: 68 SNGYGTDTAALSSTLFNNGYACGTCYQIKCYNSPHCYKYVPFTTVTATNL 117
+NG GT L S L GY G Y+SPH +Y V L
Sbjct: 57 TNGKGTTCRTLESILMAAGYKVG------VYSSPHLVRYTERVRVQGQEL 100
>pdb|2H6G|B Chain B, W102t Protein Farnesyltransferase Mutant Complexed With A
Geranylgeranylated Ddptasacvls Peptide Product At 1.85a
Resolution
Length = 437
Score = 28.9 bits (63), Expect = 3.2, Method: Compositional matrix adjust.
Identities = 16/46 (34%), Positives = 25/46 (54%), Gaps = 2/46 (4%)
Query: 3 SFLRSFGFNFILVVLILAIAGKSNALGYTHPIFRPGPWRLAHATFY 48
S + FG +L ++L + NAL THP++ GP ++ AT Y
Sbjct: 371 SIAQHFGSGAMLHDVVLGVP--ENALQPTHPVYNIGPDKVIQATTY 414
>pdb|2H6I|B Chain B, W102tY365F PROTEIN FARNESYLTRANSFERASE DOUBLE MUTANT
COMPLEXED WITH A Geranylgeranylated Ddptasacvls Peptide
Product At 3.0a
Length = 437
Score = 28.9 bits (63), Expect = 3.3, Method: Compositional matrix adjust.
Identities = 16/46 (34%), Positives = 25/46 (54%), Gaps = 2/46 (4%)
Query: 3 SFLRSFGFNFILVVLILAIAGKSNALGYTHPIFRPGPWRLAHATFY 48
S + FG +L ++L + NAL THP++ GP ++ AT Y
Sbjct: 371 SIAQHFGSGAMLHDVVLGVP--ENALQPTHPVYNIGPDKVIQATTY 414
>pdb|1JCQ|B Chain B, Crystal Structure Of Human Protein Farnesyltransferase
Complexed With Farnesyl Diphosphate And The
Peptidomimetic Inhibitor L-739,750
pdb|1LD7|B Chain B, Co-Crystal Structure Of Human Farnesyltransferase With
Farnesyldiphosphate And Inhibitor Compound 66
pdb|1LD8|B Chain B, Co-Crystal Structure Of Human Farnesyltransferase With
Farnesyldiphosphate And Inhibitor Compound 49
pdb|1MZC|B Chain B, Co-Crystal Structure Of Human Farnesyltransferase With
Farnesyldiphosphate And Inhibitor Compound 33a
pdb|1SA4|B Chain B, Human Protein Farnesyltransferase Complexed With Fpp And
R115777
pdb|1S63|B Chain B, Human Protein Farnesyltransferase Complexed With L-778,123
And Fpp
pdb|1TN6|B Chain B, Protein Farnesyltransferase Complexed With A Rap2a Peptide
Substrate And A Fpp Analog At 1.8a Resolution
pdb|2H6F|B Chain B, Protein Farnesyltransferase Complexed With A Farnesylated
Ddptasacvls Peptide Product At 1.5a Resolution
pdb|2F0Y|B Chain B, Crystal Structure Of Human Protein Farnesyltransferase
Complexed With Farnesyl Diphosphate And Hydantoin
Derivative
pdb|2IEJ|B Chain B, Human Protein Farnesyltransferase Complexed With Inhibitor
Compound Stn-48 And Fpp Analog At 1.8a Resolution
pdb|3E37|B Chain B, Protein Farnesyltransferase Complexed With Bisubstrate
Ethylenediamine Scaffold Inhibitor 5
Length = 437
Score = 28.9 bits (63), Expect = 3.3, Method: Compositional matrix adjust.
Identities = 16/46 (34%), Positives = 25/46 (54%), Gaps = 2/46 (4%)
Query: 3 SFLRSFGFNFILVVLILAIAGKSNALGYTHPIFRPGPWRLAHATFY 48
S + FG +L ++L + NAL THP++ GP ++ AT Y
Sbjct: 371 SIAQHFGSGAMLHDVVLGVP--ENALQPTHPVYNIGPDKVIQATTY 414
>pdb|2H6H|B Chain B, Y365f Protein Farnesyltransferase Mutant Complexed With A
Farnesylated Ddptasacvls Peptide Product At 1.8a
Length = 437
Score = 28.9 bits (63), Expect = 3.4, Method: Compositional matrix adjust.
Identities = 16/46 (34%), Positives = 25/46 (54%), Gaps = 2/46 (4%)
Query: 3 SFLRSFGFNFILVVLILAIAGKSNALGYTHPIFRPGPWRLAHATFY 48
S + FG +L ++L + NAL THP++ GP ++ AT Y
Sbjct: 371 SIAQHFGSGAMLHDVVLGVP--ENALQPTHPVYNIGPDKVIQATTY 414
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
0.322 0.137 0.462
Lambda K H
0.267 0.0410 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Hits to DB: 8,934,162
Number of Sequences: 62578
Number of extensions: 392642
Number of successful extensions: 640
Number of sequences better than 100.0: 8
Number of HSP's better than 100.0 without gapping: 3
Number of HSP's successfully gapped in prelim test: 5
Number of HSP's that attempted gapping in prelim test: 628
Number of HSP's gapped (non-prelim): 12
length of query: 266
length of database: 14,973,337
effective HSP length: 97
effective length of query: 169
effective length of database: 8,903,271
effective search space: 1504652799
effective search space used: 1504652799
T: 11
A: 40
X1: 16 ( 7.4 bits)
X2: 38 (14.6 bits)
X3: 64 (24.7 bits)
S1: 41 (21.9 bits)
S2: 50 (23.9 bits)