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= 001553
(1055 letters)
Database: pdbaa
62,578 sequences; 14,973,337 total letters
Searching..................................................done
>pdb|1H6U|A Chain A, Internalin H: Crystal Structure Of Fused N-Terminal
Domains
Length = 308
Score = 35.4 bits (80), Expect = 0.16, Method: Composition-based stats.
Identities = 19/55 (34%), Positives = 35/55 (63%), Gaps = 1/55 (1%)
Query: 254 GMRELKVVDLTNMQLFSLPSSIDLLVNLQTLCLDYSTLGDITIIGKLKNLEILSL 308
G++ +K +DLT+ Q+ + + + L NLQ L LD + + +I+ + L NL+ LS+
Sbjct: 105 GLQSIKTLDLTSTQITDV-TPLAGLSNLQVLYLDLNQITNISPLAGLTNLQYLSI 158
>pdb|4FHO|A Chain A, Crystal Structure Of An Internalin C2 (Inlc2) From
Listeria Monocytogenes Str. 4b F2365 At 1.90 A
Resolution
pdb|4FHO|B Chain B, Crystal Structure Of An Internalin C2 (Inlc2) From
Listeria Monocytogenes Str. 4b F2365 At 1.90 A
Resolution
Length = 231
Score = 35.0 bits (79), Expect = 0.20, Method: Composition-based stats.
Identities = 19/55 (34%), Positives = 35/55 (63%), Gaps = 1/55 (1%)
Query: 254 GMRELKVVDLTNMQLFSLPSSIDLLVNLQTLCLDYSTLGDITIIGKLKNLEILSL 308
G++ +K +DLT+ Q+ + + + L NLQ L LD + + +I+ + L NL+ LS+
Sbjct: 111 GLQSIKTLDLTSTQITDV-TPLAGLSNLQVLYLDLNQITNISPLAGLTNLQYLSI 164
>pdb|4FCG|A Chain A, Structure Of The Leucine-Rich Repeat Domain Of The Type
Iii Effector Xcv3220 (Xopl)
Length = 328
Score = 30.4 bits (67), Expect = 5.4, Method: Composition-based stats.
Identities = 38/117 (32%), Positives = 53/117 (45%), Gaps = 18/117 (15%)
Query: 613 IEFAQIRYL--SLGNLPELKSFCCEVKGPSMPPSLFNGKVV-LPNLEALEL--CEI--NV 665
+E+ IR L S+ NL LKS +K + P S + LP LE L+L C N
Sbjct: 190 LEWTGIRSLPASIANLQNLKS----LKIRNSPLSALGPAIHHLPKLEELDLRGCTALRNY 245
Query: 666 KSIWHNQTPCCFQRLTRLIVWGCQKLKFMFYASMIKSLEQLQHLEIRNCTGLQVIIS 722
I+ + P L RLI+ C L + I L QL+ L++R C L + S
Sbjct: 246 PPIFGGRAP-----LKRLILKDCSNL--LTLPLDIHRLTQLEKLDLRGCVNLSRLPS 295
>pdb|1B8P|A Chain A, Malate Dehydrogenase From Aquaspirillum Arcticum
pdb|1B8U|A Chain A, Malate Dehydrogenase From Aquaspirillum Arcticum
pdb|1B8V|A Chain A, Malate Dehydrogenase From Aquaspirillum Arcticum
Length = 329
Score = 30.4 bits (67), Expect = 5.8, Method: Composition-based stats.
Identities = 24/110 (21%), Positives = 44/110 (40%), Gaps = 20/110 (18%)
Query: 577 PSLQRIAVIKCNKMKEIFAIGGEEPDVVDNNNAIENIEFAQIRYLSLGNLPELKSFCCEV 636
P ++R +++ N +IF + G+ D V + N I+ L +GN ++
Sbjct: 97 PGMERKDLLEANA--QIFTVQGKAIDAVASRN---------IKVLVVGNPANTNAYIAMK 145
Query: 637 KGPSMPPSLFNGKVVLPNLEALE---------LCEINVKSIWHNQTPCCF 677
PS+P F + L + AL + I +W N +P +
Sbjct: 146 SAPSLPAKNFTAMLRLDHNRALSQIAAKTGKPVSSIEKLFVWGNHSPTMY 195
>pdb|3E6J|A Chain A, Crystal Structure Of Variable Lymphocyte Receptor (Vlr)
Rbc36 In Complex With H-Trisaccharide
Length = 229
Score = 30.0 bits (66), Expect = 6.9, Method: Compositional matrix adjust.
Identities = 23/74 (31%), Positives = 41/74 (55%), Gaps = 2/74 (2%)
Query: 247 IPQRFFTGMRELKVVDLTNMQLFSLPSSI-DLLVNLQTLCLDYSTLGDITI-IGKLKNLE 304
+P F + +L V+DL QL LPS++ D LV+L+ L + + L ++ I +L +L
Sbjct: 79 LPVGVFDSLTQLTVLDLGTNQLTVLPSAVFDRLVHLKELFMCCNKLTELPRGIERLTHLT 138
Query: 305 ILSLIESDIVEFPE 318
L+L ++ + P
Sbjct: 139 HLALDQNQLKSIPH 152
>pdb|3RFS|A Chain A, Design Of A Binding Scaffold Based On Variable Lymphocyte
Receptors Of Jawless Vertebrates By Module Engineering
pdb|3RFS|B Chain B, Design Of A Binding Scaffold Based On Variable Lymphocyte
Receptors Of Jawless Vertebrates By Module Engineering
Length = 272
Score = 30.0 bits (66), Expect = 7.1, Method: Composition-based stats.
Identities = 39/152 (25%), Positives = 61/152 (40%), Gaps = 24/152 (15%)
Query: 711 IRNCTGLQVIISEGGPGQEPPCFAFRRVTNISLCHLPELTCLYPGLHTSEWPELKKLEVF 770
++ T L +I G Q P F ++TN+ L E +L+ L
Sbjct: 81 LKELTNLTYLILTGNQLQSLPNGVFDKLTNLKELVLVE-------------NQLQSLPDG 127
Query: 771 SCDKLNTFASESFSFHSNEKKQLHVPKQPFFSFEKIFPNLEELGLSIKDIMMLLQGDFPQ 830
DKL + N+ + L P F+K+ NL EL LS + L +G F +
Sbjct: 128 VFDKLTNLTY--LNLAHNQLQSL-----PKGVFDKL-TNLTELDLSYNQLQSLPEGVFDK 179
Query: 831 DHLFGSLKDLEVRDDDSASVPIGLLEKFHGLE 862
LKDL + + SVP G+ ++ L+
Sbjct: 180 ---LTQLKDLRLYQNQLKSVPDGVFDRLTSLQ 208
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 0.139 0.420
Lambda K H
0.267 0.0410 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Hits to DB: 28,937,671
Number of Sequences: 62578
Number of extensions: 1148826
Number of successful extensions: 2818
Number of sequences better than 100.0: 14
Number of HSP's better than 100.0 without gapping: 0
Number of HSP's successfully gapped in prelim test: 14
Number of HSP's that attempted gapping in prelim test: 2806
Number of HSP's gapped (non-prelim): 39
length of query: 1055
length of database: 14,973,337
effective HSP length: 109
effective length of query: 946
effective length of database: 8,152,335
effective search space: 7712108910
effective search space used: 7712108910
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: 57 (26.6 bits)