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= 025673
(249 letters)
Database: pdbaa
62,578 sequences; 14,973,337 total letters
Searching..................................................done
>pdb|1CT9|A Chain A, Crystal Structure Of Asparagine Synthetase B From
Escherichia Coli
pdb|1CT9|B Chain B, Crystal Structure Of Asparagine Synthetase B From
Escherichia Coli
pdb|1CT9|C Chain C, Crystal Structure Of Asparagine Synthetase B From
Escherichia Coli
pdb|1CT9|D Chain D, Crystal Structure Of Asparagine Synthetase B From
Escherichia Coli
Length = 553
Score = 57.8 bits (138), Expect = 6e-09, Method: Compositional matrix adjust.
Identities = 35/126 (27%), Positives = 63/126 (50%), Gaps = 12/126 (9%)
Query: 81 GHIENVALLKQQYGLN---KTANEVIIVIEAYRTLRDRGPYPADQVVRDIQGKFAFILYD 137
G I N L+ +YG +T ++ +++ Y+ ++GP + + D+QG FAF LYD
Sbjct: 75 GEIYNHQALRAEYGDRYQFQTGSDCEVILALYQ---EKGP----EFLDDLQGMFAFALYD 127
Query: 138 SSSKNAFLASDADGSVPFFWGTDSEGHLVLSDDVEIVKKGCGKSFAPFPKACFFTSSGG- 196
S + D G +P + G D G L ++ +++ + C ++ FP + S G
Sbjct: 128 SEKDAYLIGRDHLGIIPLYMGYDEHGQLYVASEMKALVPVC-RTIKEFPAGSYLWSQDGE 186
Query: 197 LRSFEH 202
+RS+ H
Sbjct: 187 IRSYYH 192
>pdb|3P11|A Chain A, Anti-EgfrHER3 FAB DL11 IN COMPLEX WITH DOMAINS I-Iii Of
The Her3 Extracellular Region
Length = 522
Score = 31.6 bits (70), Expect = 0.41, Method: Compositional matrix adjust.
Identities = 37/147 (25%), Positives = 61/147 (41%), Gaps = 29/147 (19%)
Query: 64 LLPRLFAVVDDIFCLFQGHIENVALLKQQYGLNKTANEVIIVIEAYRTLRDRGPYPADQV 123
L R V+ ++ + GH +++ L+ + + V++ + + TL P P +V
Sbjct: 33 LYERCEVVMGNLEIVLTGHNADLSFLQW---IREVTGYVLVAMNEFSTL----PLPNLRV 85
Query: 124 VRDIQ---GKFAFIL---YDSSSKNAF-------LASDADGSVPFFWGTDSEGHL----- 165
VR Q GKFA + Y+++S +A L G V + D H+
Sbjct: 86 VRGTQVYDGKFAIFVMLNYNTNSSHALRQLRLTQLTEILSGGV-YIEKNDKLCHMDTIDW 144
Query: 166 ---VLSDDVEIVKKGCGKSFAPFPKAC 189
V D EIV K G+S P + C
Sbjct: 145 RDIVRDRDAEIVVKDNGRSCPPCHEVC 171
>pdb|1M6B|A Chain A, Structure Of The Her3 (Erbb3) Extracellular Domain
pdb|1M6B|B Chain B, Structure Of The Her3 (Erbb3) Extracellular Domain
Length = 621
Score = 30.8 bits (68), Expect = 0.65, Method: Compositional matrix adjust.
Identities = 37/147 (25%), Positives = 61/147 (41%), Gaps = 29/147 (19%)
Query: 64 LLPRLFAVVDDIFCLFQGHIENVALLKQQYGLNKTANEVIIVIEAYRTLRDRGPYPADQV 123
L R V+ ++ + GH +++ L+ + + V++ + + TL P P +V
Sbjct: 33 LYERCEVVMGNLEIVLTGHNADLSFLQW---VREVTGYVLVAMNEFSTL----PLPNLRV 85
Query: 124 VRDIQ---GKFAFIL---YDSSSKNAF-------LASDADGSVPFFWGTDSEGHL----- 165
VR Q GKFA + Y+++S +A L G V + D H+
Sbjct: 86 VRGTQVYDGKFAIFVMLNYNTNSSHALRQLRLTQLTEILSGGV-YIEKNDKLCHMDTIDW 144
Query: 166 ---VLSDDVEIVKKGCGKSFAPFPKAC 189
V D EIV K G+S P + C
Sbjct: 145 RDIVRDRDAEIVVKDNGRSCPPCHEVC 171
>pdb|1FX5|A Chain A, Crystal Structure Analysis Of Ulex Europaeus Lectin I
pdb|1FX5|B Chain B, Crystal Structure Analysis Of Ulex Europaeus Lectin I
pdb|1JXN|A Chain A, Crystal Structure Of The Lectin I From Ulex Europaeus In
Complex With The Methyl Glycoside Of Alpha-l-fucose
pdb|1JXN|B Chain B, Crystal Structure Of The Lectin I From Ulex Europaeus In
Complex With The Methyl Glycoside Of Alpha-l-fucose
pdb|1JXN|C Chain C, Crystal Structure Of The Lectin I From Ulex Europaeus In
Complex With The Methyl Glycoside Of Alpha-l-fucose
pdb|1JXN|D Chain D, Crystal Structure Of The Lectin I From Ulex Europaeus In
Complex With The Methyl Glycoside Of Alpha-l-fucose
Length = 242
Score = 30.4 bits (67), Expect = 0.91, Method: Compositional matrix adjust.
Identities = 15/39 (38%), Positives = 20/39 (51%)
Query: 85 NVALLKQQYGLNKTANEVIIVIEAYRTLRDRGPYPADQV 123
N ++YGLN AN II + +TL YP+DQ
Sbjct: 154 NAERWNKRYGLNNVANVEIIYEASSKTLTASLTYPSDQT 192
>pdb|3B0V|C Chain C, Trna-Dihydrouridine Synthase From Thermus Thermophilus In
Complex With Trna
pdb|3B0V|D Chain D, Trna-Dihydrouridine Synthase From Thermus Thermophilus In
Complex With Trna
Length = 363
Score = 29.3 bits (64), Expect = 2.1, Method: Compositional matrix adjust.
Identities = 18/54 (33%), Positives = 27/54 (50%), Gaps = 1/54 (1%)
Query: 185 FPKACFFTSSGGLRSFEHPMNELKPVPRVDSSGQVCGSTFKVDAETKKETGMPR 238
FP+ F T+ GG+RS E + LK V V V F ++ ++ G+PR
Sbjct: 216 FPQLTFVTN-GGIRSLEEALFHLKRVDGVXLGRAVYEDPFVLEEADRRVFGLPR 268
>pdb|3B0P|A Chain A, Trna-Dihydrouridine Synthase From Thermus Thermophilus
pdb|3B0P|B Chain B, Trna-Dihydrouridine Synthase From Thermus Thermophilus
pdb|3B0U|X Chain X, Trna-Dihydrouridine Synthase From Thermus Thermophilus In
Complex With Trna Fragment
pdb|3B0U|Y Chain Y, Trna-Dihydrouridine Synthase From Thermus Thermophilus In
Complex With Trna Fragment
Length = 350
Score = 28.9 bits (63), Expect = 2.6, Method: Compositional matrix adjust.
Identities = 18/54 (33%), Positives = 27/54 (50%), Gaps = 1/54 (1%)
Query: 185 FPKACFFTSSGGLRSFEHPMNELKPVPRVDSSGQVCGSTFKVDAETKKETGMPR 238
FP+ F T+ GG+RS E + LK V V V F ++ ++ G+PR
Sbjct: 195 FPQLTFVTN-GGIRSLEEALFHLKRVDGVMLGRAVYEDPFVLEEADRRVFGLPR 247
>pdb|1Z2L|A Chain A, Crystal Structure Of Allantoate-Amidohydrolase From E.Coli
K12 In Complex With Substrate Allantoate
pdb|1Z2L|B Chain B, Crystal Structure Of Allantoate-Amidohydrolase From E.Coli
K12 In Complex With Substrate Allantoate
Length = 423
Score = 28.5 bits (62), Expect = 3.5, Method: Compositional matrix adjust.
Identities = 17/49 (34%), Positives = 23/49 (46%), Gaps = 1/49 (2%)
Query: 145 LASDADGSVPF-FWGTDSEGHLVLSDDVEIVKKGCGKSFAPFPKACFFT 192
+A + P+ FWG+ + L DDV + G SF KAC FT
Sbjct: 125 MAEEEGSRFPYVFWGSKNIFGLANPDDVRNICDAKGNSFVDAMKACGFT 173
>pdb|2IMO|A Chain A, Crystal Structure Of Allantoate Amidohydrolase From
Escherichia Coli At Ph 4.6
pdb|2IMO|B Chain B, Crystal Structure Of Allantoate Amidohydrolase From
Escherichia Coli At Ph 4.6
Length = 423
Score = 27.7 bits (60), Expect = 5.9, Method: Compositional matrix adjust.
Identities = 15/37 (40%), Positives = 18/37 (48%)
Query: 156 FWGTDSEGHLVLSDDVEIVKKGCGKSFAPFPKACFFT 192
FWG+ + L DDV + G SF KAC FT
Sbjct: 137 FWGSKNIFGLANPDDVRNICDAKGNSFVDAXKACGFT 173
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 0.134 0.397
Lambda K H
0.267 0.0410 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Hits to DB: 7,416,356
Number of Sequences: 62578
Number of extensions: 298670
Number of successful extensions: 714
Number of sequences better than 100.0: 9
Number of HSP's better than 100.0 without gapping: 7
Number of HSP's successfully gapped in prelim test: 2
Number of HSP's that attempted gapping in prelim test: 707
Number of HSP's gapped (non-prelim): 9
length of query: 249
length of database: 14,973,337
effective HSP length: 96
effective length of query: 153
effective length of database: 8,965,849
effective search space: 1371774897
effective search space used: 1371774897
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: 50 (23.9 bits)