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= 038165
(731 letters)
Database: pdbaa
62,578 sequences; 14,973,337 total letters
Searching..................................................done
>pdb|2ID5|A Chain A, Crystal Structure Of The Lingo-1 Ectodomain
pdb|2ID5|B Chain B, Crystal Structure Of The Lingo-1 Ectodomain
pdb|2ID5|C Chain C, Crystal Structure Of The Lingo-1 Ectodomain
pdb|2ID5|D Chain D, Crystal Structure Of The Lingo-1 Ectodomain
Length = 477
Score = 38.5 bits (88), Expect = 0.012, Method: Compositional matrix adjust.
Identities = 58/223 (26%), Positives = 97/223 (43%), Gaps = 25/223 (11%)
Query: 337 AKRVSLMGNGIESLS--EIPTCPRLVTLLVDENPIVEITDGFFQSMSSLRVLSLSENFHL 394
+ + L N I++L+ E + P L L ++EN + + G F ++ +LR L L N L
Sbjct: 34 TRLLDLGKNRIKTLNQDEFASFPHLEELELNENIVSAVEPGAFNNLFNLRTLGLRSN-RL 92
Query: 395 STLPSGIXXXXXXXXXXXXXAD--ITGLPQELKALEKLRYLNLEYAFN-LSIIPHQLISG 451
+P G+ + + L + L L+ +LE N L I H+ SG
Sbjct: 93 KLIPLGVFTGLSNLTKLDISENKIVILLDYMFQDLYNLK--SLEVGDNDLVYISHRAFSG 150
Query: 452 FSNLEVLRLRGCGCCSVTEEEEANVLCADAEPLMKELLGLKRLNVLSWTFRSSLAVQKFL 511
++LE L L C S+ E +++ L+ +L L+ LN+ +++ F
Sbjct: 151 LNSLEQLTLEKCNLTSIPTEALSHL-----HGLI--VLRLRHLNI------NAIRDYSFK 197
Query: 512 KYPKLVSITQSVWVYQCESAPFNVLHLAYMENLQELDLEYCNL 554
+ +L + S W Y P N L Y NL L + +CNL
Sbjct: 198 RLYRLKVLEISHWPYLDTMTP-NCL---YGLNLTSLSITHCNL 236
>pdb|3L20|A Chain A, Crystal Structure Of A Hypothetical Protein From
Staphylococcus Aureus
pdb|3L20|B Chain B, Crystal Structure Of A Hypothetical Protein From
Staphylococcus Aureus
Length = 172
Score = 33.1 bits (74), Expect = 0.57, Method: Composition-based stats.
Identities = 19/67 (28%), Positives = 33/67 (49%), Gaps = 2/67 (2%)
Query: 95 EMDRLCLGGLCSKNLASSYDFGRKVVMLTDRVINLRKDGEKIEVVVEKAPDGAA--IELP 152
E + L + LCS + + + +L D +N ++D +K+E E+ D ++ IELP
Sbjct: 80 EFEVLGVKVLCSDSFGRADKINNGISLLIDYDVNNKEDADKVEAFYEQIKDHSSIEIELP 139
Query: 153 LAQTIVG 159
A G
Sbjct: 140 FADQFWG 146
>pdb|3OJA|B Chain B, Crystal Structure Of Lrim1APL1C COMPLEX
Length = 597
Score = 32.3 bits (72), Expect = 1.1, Method: Compositional matrix adjust.
Identities = 22/59 (37%), Positives = 30/59 (50%), Gaps = 9/59 (15%)
Query: 350 LSEIP-----TCPRLVTLLVDENPIVEITDGFFQSMSSLRVLSLSEN----FHLSTLPS 399
LS +P P+L TL + N + I D FQ+ +SL+ L LS N LS +PS
Sbjct: 135 LSSLPRGIFHNTPKLTTLSMSNNNLERIEDDTFQATTSLQNLQLSSNRLTHVDLSLIPS 193
>pdb|1H6U|A Chain A, Internalin H: Crystal Structure Of Fused N-Terminal
Domains
Length = 308
Score = 31.6 bits (70), Expect = 1.8, Method: Compositional matrix adjust.
Identities = 30/117 (25%), Positives = 57/117 (48%), Gaps = 13/117 (11%)
Query: 572 GFRSLNTVVLRSCRGKDLTWLVFVQNLKVLYIGFCGDMEEIVSVDKLRDISGI----IG- 626
G +S+ T+ L S + D+T L + NL+VLY+ D+ +I ++ L ++ + IG
Sbjct: 105 GLQSIKTLDLTSTQITDVTPLAGLSNLQVLYL----DLNQITNISPLAGLTNLQYLSIGN 160
Query: 627 ---SERNFFAQLESLSVWRGINLKSVYPNPLP-FPKLKKIEVRECRQLKKLPLNSSS 679
S+ A L L+ + + K +PL P L ++ ++ + PL ++S
Sbjct: 161 AQVSDLTPLANLSKLTTLKADDNKISDISPLASLPNLIEVHLKNNQISDVSPLANTS 217
>pdb|3PJZ|A Chain A, Crystal Structure Of The Potassium Transporter Trkh From
Vibrio Parahaemolyticus
pdb|3PJZ|B Chain B, Crystal Structure Of The Potassium Transporter Trkh From
Vibrio Parahaemolyticus
Length = 494
Score = 31.2 bits (69), Expect = 2.4, Method: Compositional matrix adjust.
Identities = 14/40 (35%), Positives = 21/40 (52%)
Query: 362 LLVDENPIVEITDGFFQSMSSLRVLSLSENFHLSTLPSGI 401
L+ +NP + +TD FF+S S+L + L LP I
Sbjct: 88 FLIADNPNISVTDAFFESFSALTTTGATVIVGLDELPKAI 127
>pdb|3O6N|A Chain A, Crystal Structure Of Apl1 Leucine-Rich Repeat Domain
Length = 390
Score = 30.4 bits (67), Expect = 3.8, Method: Compositional matrix adjust.
Identities = 22/59 (37%), Positives = 30/59 (50%), Gaps = 9/59 (15%)
Query: 350 LSEIP-----TCPRLVTLLVDENPIVEITDGFFQSMSSLRVLSLSEN----FHLSTLPS 399
LS +P P+L TL + N + I D FQ+ +SL+ L LS N LS +PS
Sbjct: 129 LSSLPRGIFHNTPKLTTLSMSNNNLERIEDDTFQATTSLQNLQLSSNRLTHVDLSLIPS 187
>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 = 30.4 bits (67), Expect = 4.1, Method: Composition-based stats.
Identities = 27/104 (25%), Positives = 52/104 (50%), Gaps = 13/104 (12%)
Query: 572 GFRSLNTVVLRSCRGKDLTWLVFVQNLKVLYIGFCGDMEEIVSVDKLRDISGI----IGS 627
G +S+ T+ L S + D+T L + NL+VLY+ D+ +I ++ L ++ + IG+
Sbjct: 111 GLQSIKTLDLTSTQITDVTPLAGLSNLQVLYL----DLNQITNISPLAGLTNLQYLSIGN 166
Query: 628 ER----NFFAQLESLSVWRGINLKSVYPNPL-PFPKLKKIEVRE 666
+ A L L+ R + K +PL P L ++ +++
Sbjct: 167 NQVNDLTPLANLSKLTTLRADDNKISDISPLASLPNLIEVHLKD 210
>pdb|2WFH|A Chain A, The Human Slit 2 Dimerization Domain D4
pdb|2WFH|B Chain B, The Human Slit 2 Dimerization Domain D4
Length = 193
Score = 29.3 bits (64), Expect = 8.9, Method: Compositional matrix adjust.
Identities = 25/82 (30%), Positives = 40/82 (48%), Gaps = 4/82 (4%)
Query: 322 GVKLTEAPK-IEEWEGAKRVSLMGNGIESLSE--IPTCPRLVTLLVDENPIVEITDGFFQ 378
G + T PK + ++ + L N I +LS +L+TL++ N + I F
Sbjct: 40 GNQFTLVPKELSNYKHLTLIDLSNNRISTLSNQSFSNMTQLLTLILSYNRLRCIPPRTFD 99
Query: 379 SMSSLRVLSLSENFHLSTLPSG 400
+ SLR+LSL N +S +P G
Sbjct: 100 GLKSLRLLSLHGN-DISVVPEG 120
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
0.320 0.136 0.405
Lambda K H
0.267 0.0410 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Hits to DB: 20,425,861
Number of Sequences: 62578
Number of extensions: 800511
Number of successful extensions: 1831
Number of sequences better than 100.0: 37
Number of HSP's better than 100.0 without gapping: 11
Number of HSP's successfully gapped in prelim test: 26
Number of HSP's that attempted gapping in prelim test: 1807
Number of HSP's gapped (non-prelim): 56
length of query: 731
length of database: 14,973,337
effective HSP length: 106
effective length of query: 625
effective length of database: 8,340,069
effective search space: 5212543125
effective search space used: 5212543125
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: 55 (25.8 bits)