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= 024198
(271 letters)
Database: pdbaa
62,578 sequences; 14,973,337 total letters
Searching..................................................done
>pdb|3GGN|A Chain A, Crystal Structure Of Dr_a0006 From Deinococcus
Radiodurans. Northeast Structural Genomics Consortium
Target Drr147d
pdb|3GGN|B Chain B, Crystal Structure Of Dr_a0006 From Deinococcus
Radiodurans. Northeast Structural Genomics Consortium
Target Drr147d
Length = 155
Score = 41.6 bits (96), Expect = 5e-04, Method: Compositional matrix adjust.
Identities = 34/107 (31%), Positives = 50/107 (46%), Gaps = 9/107 (8%)
Query: 92 IDVPVSVAYNAYSDRESIPRWMPFISSVKILEDKPDLSKWSLKYKA-FGRDIEFSWLARN 150
I P Y + D +P M + SV++L+DK S+W+++ A G SW A
Sbjct: 12 IGKPAEQLYAVWRDLPGLPLLMTHLRSVEVLDDK--RSRWTVEAPAPLG---TVSWEAEL 66
Query: 151 MQPIPNQKIHWRSLEG--LPNRGAVRFFPK-GPSSCIVELTVSYEVP 194
P ++I WRSL G + N G V F P G V + ++Y P
Sbjct: 67 TADEPGKRIAWRSLPGARIENSGEVLFRPAPGARGTEVVVRLTYRPP 113
>pdb|2KCZ|A Chain A, Solution Nmr Structure Of The C-Terminal Domain Of Protein
Dr_a0006 From Deinococcus Radiodurans. Northeast
Structural Genomics Consortium Target Drr147d
Length = 155
Score = 41.2 bits (95), Expect = 5e-04, Method: Compositional matrix adjust.
Identities = 34/107 (31%), Positives = 50/107 (46%), Gaps = 9/107 (8%)
Query: 92 IDVPVSVAYNAYSDRESIPRWMPFISSVKILEDKPDLSKWSLKYKA-FGRDIEFSWLARN 150
I P Y + D +P M + SV++L+DK S+W+++ A G SW A
Sbjct: 12 IGKPAEQLYAVWRDLPGLPLLMTHLRSVEVLDDK--RSRWTVEAPAPLG---AVSWEAEL 66
Query: 151 MQPIPNQKIHWRSLEG--LPNRGAVRFFPK-GPSSCIVELTVSYEVP 194
P ++I WRSL G + N G V F P G V + ++Y P
Sbjct: 67 TADEPGKRIAWRSLPGARIENSGEVLFRPAPGARGTEVVVRLTYRPP 113
>pdb|1XUV|A Chain A, X-Ray Crystal Structure Of Protein Mm0500 From
Methanosarcina Mazei. Northeast Structural Genomics
Consortium Target Mar10.
pdb|1XUV|B Chain B, X-Ray Crystal Structure Of Protein Mm0500 From
Methanosarcina Mazei. Northeast Structural Genomics
Consortium Target Mar10.
pdb|1XUV|C Chain C, X-Ray Crystal Structure Of Protein Mm0500 From
Methanosarcina Mazei. Northeast Structural Genomics
Consortium Target Mar10
Length = 178
Score = 33.1 bits (74), Expect = 0.17, Method: Compositional matrix adjust.
Identities = 23/93 (24%), Positives = 43/93 (46%), Gaps = 4/93 (4%)
Query: 84 QDCTVKSEIDVPVSVAYNAYSDRESIPRWM---PFISSVKILEDKPDLSKWSLKYKAFGR 140
Q+ + E D P + + A++D + +W+ F +++KI E K S ++ G
Sbjct: 22 QEIIITREFDAPRELVFKAFTDPDLYTQWIGPRGFTTALKIFEPKNGGSWQYIQKDPEGN 81
Query: 141 DIEFSWLARNMQPIPNQKIHWRSLEGLPNRGAV 173
+ F + ++ P + I EGLP +G V
Sbjct: 82 EYAFHGVNHDVTE-PERIISTFEFEGLPEKGHV 113
>pdb|2BBA|A Chain A, Crystal Structure And Thermodynamic Characterization Of
The Ephb4 Receptor In Complex With An Ephrin-B2
Antagonist Peptide Reveals The Determinants For Receptor
Specificity
Length = 185
Score = 32.3 bits (72), Expect = 0.29, Method: Compositional matrix adjust.
Identities = 29/111 (26%), Positives = 41/111 (36%), Gaps = 20/111 (18%)
Query: 150 NMQPIPNQKIHWRSLEGLPNRGAVRFF-------------PKGPSSCIVELTVSYEVPQL 196
++Q P Q HW +P RGAV + P+ SC TV Y
Sbjct: 51 DVQRAPGQ-AHWLRTGWVPRRGAVHVYATLRFTMLECLSLPRAGRSCKETFTVFYYESDA 109
Query: 197 LVPLHQHLNLFLKPYLDVDWIALQHLLK------AISRLNFRWSGLGNLIK 241
PY+ VD +A +HL + A ++N + LG L K
Sbjct: 110 DTATALTPAWMENPYIKVDTVAAEHLTRKRPGAEATGKVNVKTLRLGPLSK 160
>pdb|2HLE|A Chain A, Structural And Biophysical Characterization Of The
Ephb4-ephrinb2 Protein Protein Interaction And Receptor
Specificity
Length = 188
Score = 32.3 bits (72), Expect = 0.31, Method: Compositional matrix adjust.
Identities = 29/111 (26%), Positives = 41/111 (36%), Gaps = 20/111 (18%)
Query: 150 NMQPIPNQKIHWRSLEGLPNRGAVRFF-------------PKGPSSCIVELTVSYEVPQL 196
++Q P Q HW +P RGAV + P+ SC TV Y
Sbjct: 54 DVQRAPGQ-AHWLRTGWVPRRGAVHVYATLRFTMLECLSLPRAGRSCKETFTVFYYESDA 112
Query: 197 LVPLHQHLNLFLKPYLDVDWIALQHLLK------AISRLNFRWSGLGNLIK 241
PY+ VD +A +HL + A ++N + LG L K
Sbjct: 113 DTATALTPAWMENPYIKVDTVAAEHLTRKRPGAEATGKVNVKTLRLGPLSK 163
>pdb|1Z94|A Chain A, X-Ray Crystal Structure Of Protein Cv1439 From
Chromobacterium Violaceum. Northeast Structural Genomics
Consortium Target Cvr12.
pdb|1Z94|B Chain B, X-Ray Crystal Structure Of Protein Cv1439 From
Chromobacterium Violaceum. Northeast Structural Genomics
Consortium Target Cvr12.
pdb|1Z94|C Chain C, X-Ray Crystal Structure Of Protein Cv1439 From
Chromobacterium Violaceum. Northeast Structural Genomics
Consortium Target Cvr12.
pdb|1Z94|D Chain D, X-Ray Crystal Structure Of Protein Cv1439 From
Chromobacterium Violaceum. Northeast Structural Genomics
Consortium Target Cvr12.
pdb|1Z94|E Chain E, X-Ray Crystal Structure Of Protein Cv1439 From
Chromobacterium Violaceum. Northeast Structural Genomics
Consortium Target Cvr12.
pdb|1Z94|F Chain F, X-Ray Crystal Structure Of Protein Cv1439 From
Chromobacterium Violaceum. Northeast Structural Genomics
Consortium Target Cvr12
Length = 147
Score = 31.6 bits (70), Expect = 0.51, Method: Compositional matrix adjust.
Identities = 27/120 (22%), Positives = 54/120 (45%), Gaps = 7/120 (5%)
Query: 92 IDVPVSVAYNAYSDRESIPRWMPFISSV-KILE-DKPDLSKWSLKYKAFGRDIEFSWLAR 149
+ P Y A+ D ++ +W+P V K+LE D + ++ AF + ++ R
Sbjct: 11 LSAPPERVYRAFLDPLALAKWLPPEGFVCKVLEHDARVGGAYKXEFLAFASGQKHAFGGR 70
Query: 150 NMQPIPNQKIHWRSL---EGLPNRGAVRFFPKGPSSCIVELTVSYE-VPQLLVPLHQHLN 205
++ +P ++I + GLP + P SC +L++ E +P + P + +L
Sbjct: 71 YLELVPGERIRYTDRFDDAGLPGD-XITTITLAPLSCGADLSIVQEGIPDAIPPENCYLG 129
>pdb|3DC8|A Chain A, Crystal Structure Of Dihydropyrimidinase From
Sinorhizobium Meliloti
pdb|3DC8|B Chain B, Crystal Structure Of Dihydropyrimidinase From
Sinorhizobium Meliloti
Length = 490
Score = 28.1 bits (61), Expect = 5.8, Method: Compositional matrix adjust.
Identities = 19/61 (31%), Positives = 24/61 (39%), Gaps = 11/61 (18%)
Query: 199 PLHQHLNLFLKPYLDVDWIALQHLLKAISRLNFR--------WSGLGNLIKLQVIDFHCG 250
PL QHL L Y D DW H + + FR W+GL + V HC
Sbjct: 260 PLIQHLTLDETEYFDKDW---DHAARRVMSPPFRNKLHQDSLWAGLASGSLQVVATDHCA 316
Query: 251 Y 251
+
Sbjct: 317 F 317
>pdb|1CIY|A Chain A, Insecticidal Toxin: Structure And Channel Formation
Length = 590
Score = 28.1 bits (61), Expect = 6.1, Method: Compositional matrix adjust.
Identities = 25/74 (33%), Positives = 34/74 (45%), Gaps = 7/74 (9%)
Query: 34 SASTSIGRNLKPPSLRRQLLFGVPIPHGSFKRSSSIFTPSRHFFSPVMEWQDCTVKSEID 93
SA+ S G NL+ S R + F P +F SS+FT S H F+ E ++
Sbjct: 523 SATMSSGSNLQSGSFR-TVGFTTPF---NFSNGSSVFTLSAHVFNSGNEVYIDRIEF--- 575
Query: 94 VPVSVAYNAYSDRE 107
VP V + A D E
Sbjct: 576 VPAEVTFEAEYDLE 589
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
0.325 0.139 0.451
Lambda K H
0.267 0.0410 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Hits to DB: 8,273,177
Number of Sequences: 62578
Number of extensions: 335021
Number of successful extensions: 697
Number of sequences better than 100.0: 9
Number of HSP's better than 100.0 without gapping: 1
Number of HSP's successfully gapped in prelim test: 8
Number of HSP's that attempted gapping in prelim test: 694
Number of HSP's gapped (non-prelim): 9
length of query: 271
length of database: 14,973,337
effective HSP length: 97
effective length of query: 174
effective length of database: 8,903,271
effective search space: 1549169154
effective search space used: 1549169154
T: 11
A: 40
X1: 15 ( 7.0 bits)
X2: 38 (14.6 bits)
X3: 64 (24.7 bits)
S1: 40 (21.6 bits)
S2: 51 (24.3 bits)