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= 041114
(680 letters)
Database: pdbaa
62,578 sequences; 14,973,337 total letters
Searching..................................................done
>pdb|3IZA|A Chain A, Structure Of An Apoptosome-Procaspase-9 Card Complex
pdb|3IZA|B Chain B, Structure Of An Apoptosome-Procaspase-9 Card Complex
pdb|3IZA|C Chain C, Structure Of An Apoptosome-Procaspase-9 Card Complex
pdb|3IZA|D Chain D, Structure Of An Apoptosome-Procaspase-9 Card Complex
pdb|3IZA|E Chain E, Structure Of An Apoptosome-Procaspase-9 Card Complex
pdb|3IZA|F Chain F, Structure Of An Apoptosome-Procaspase-9 Card Complex
pdb|3IZA|G Chain G, Structure Of An Apoptosome-Procaspase-9 Card Complex
Length = 1263
Score = 40.0 bits (92), Expect = 0.005, Method: Compositional matrix adjust.
Identities = 30/103 (29%), Positives = 49/103 (47%), Gaps = 22/103 (21%)
Query: 198 DILELAQTVTKECGGSPLALITIGRAMAYKKKPEEWRYAIEVL--------RKSSSSEFA 249
D+ E A ++ KEC GSPL + IG + + P W Y ++ L RKSSS ++
Sbjct: 311 DLPEQAHSIIKECKGSPLVVSLIGALL--RDFPNRWEYYLKQLQNKQFKRIRKSSSYDYE 368
Query: 250 GLVKEVYPLLKFSYDSLQNDVIRSCFLYCCLYPEDFAILKRDL 292
L + + S + L+ D+ Y D +IL++D+
Sbjct: 369 ALDEA----MSISVEMLREDIKD--------YYTDLSILQKDV 399
>pdb|1Z6T|A Chain A, Structure Of The Apoptotic Protease-activating Factor 1
Bound To Adp
pdb|1Z6T|B Chain B, Structure Of The Apoptotic Protease-activating Factor 1
Bound To Adp
pdb|1Z6T|C Chain C, Structure Of The Apoptotic Protease-activating Factor 1
Bound To Adp
pdb|1Z6T|D Chain D, Structure Of The Apoptotic Protease-activating Factor 1
Bound To Adp
Length = 591
Score = 39.3 bits (90), Expect = 0.007, Method: Compositional matrix adjust.
Identities = 30/103 (29%), Positives = 49/103 (47%), Gaps = 22/103 (21%)
Query: 198 DILELAQTVTKECGGSPLALITIGRAMAYKKKPEEWRYAIEVL--------RKSSSSEFA 249
D+ E A ++ KEC GSPL + IG + + P W Y ++ L RKSSS ++
Sbjct: 305 DLPEQAHSIIKECKGSPLVVSLIGALL--RDFPNRWEYYLKQLQNKQFKRIRKSSSYDYE 362
Query: 250 GLVKEVYPLLKFSYDSLQNDVIRSCFLYCCLYPEDFAILKRDL 292
L + + S + L+ D+ Y D +IL++D+
Sbjct: 363 ALDEA----MSISVEMLREDIKD--------YYTDLSILQKDV 393
>pdb|3ZYI|A Chain A, Netring2 In Complex With Ngl2
Length = 452
Score = 38.5 bits (88), Expect = 0.014, Method: Compositional matrix adjust.
Identities = 37/116 (31%), Positives = 53/116 (45%), Gaps = 22/116 (18%)
Query: 360 LVCAGRGLKEAPEVKEWETVRRLSLMQNQIKILSEAPTCPHLHYEFKMITDGFFQFMPLL 419
+VC RGL E P+ T R L+LM+N I+++ +A T HLH+ L
Sbjct: 59 VVCTRRGLSEVPQGIPSNT-RYLNLMENNIQMI-QADTFRHLHH---------------L 101
Query: 420 KVLNMSRETNIKELLGELKALVNLKCVNL--EWARDLVTIPLEVISNFSKLRVLRL 473
+VL + R + + +G L +L + L W L IP SKLR L L
Sbjct: 102 EVLQLGRNSIRQIEVGAFNGLASLNTLELFDNW---LTVIPSGAFEYLSKLRELWL 154
>pdb|3SFZ|A Chain A, Crystal Structure Of Full-Length Murine Apaf-1
Length = 1249
Score = 36.6 bits (83), Expect = 0.053, Method: Compositional matrix adjust.
Identities = 29/103 (28%), Positives = 47/103 (45%), Gaps = 22/103 (21%)
Query: 198 DILELAQTVTKECGGSPLALITIGRAMAYKKKPEEWRYAIEVL--------RKSSSSEFA 249
D+ A ++ KEC GSPL + IG + + P W Y + L RKSSS ++
Sbjct: 305 DLPAEAHSIIKECKGSPLVVSLIGALL--RDFPNRWAYYLRQLQNKQFKRIRKSSSYDYE 362
Query: 250 GLVKEVYPLLKFSYDSLQNDVIRSCFLYCCLYPEDFAILKRDL 292
L + + S + L+ D+ Y D +IL++D+
Sbjct: 363 ALDEA----MSISVEMLREDIKD--------YYTDLSILQKDV 393
>pdb|3SHF|A Chain A, Crystal Structure Of The R265s Mutant Of Full-Length
Murine Apaf-1
Length = 1256
Score = 36.2 bits (82), Expect = 0.057, Method: Compositional matrix adjust.
Identities = 29/103 (28%), Positives = 47/103 (45%), Gaps = 22/103 (21%)
Query: 198 DILELAQTVTKECGGSPLALITIGRAMAYKKKPEEWRYAIEVL--------RKSSSSEFA 249
D+ A ++ KEC GSPL + IG + + P W Y + L RKSSS ++
Sbjct: 312 DLPAEAHSIIKECKGSPLVVSLIGALL--RDFPNRWAYYLRQLQNKQFKRIRKSSSYDYE 369
Query: 250 GLVKEVYPLLKFSYDSLQNDVIRSCFLYCCLYPEDFAILKRDL 292
L + + S + L+ D+ Y D +IL++D+
Sbjct: 370 ALDEA----MSISVEMLREDIKD--------YYTDLSILQKDV 400
>pdb|2A19|B Chain B, Pkr Kinase Domain- Eif2alpha- Amp-Pnp Complex.
pdb|2A19|C Chain C, Pkr Kinase Domain- Eif2alpha- Amp-Pnp Complex.
pdb|2A1A|B Chain B, Pkr Kinase Domain-Eif2alpha Complex
Length = 284
Score = 33.5 bits (75), Expect = 0.41, Method: Compositional matrix adjust.
Identities = 22/131 (16%), Positives = 60/131 (45%), Gaps = 6/131 (4%)
Query: 502 QILVSSNKLQSCTRALVLIRFKDSKS-IDVIALARLKHLSTLHFSKCEELEEWKTDYTSG 560
Q+ + +++ T + +++ + K+ +V ALA+L H++ +H++ C + ++ + +S
Sbjct: 26 QVFKAKHRIDGKTYVIKRVKYNNEKAEREVKALAKLDHVNIVHYNGCWDGFDYDPETSSK 85
Query: 561 TVLKSPQPFVFCSLHKVTITFCPKLKGLTFLVFAPNLKCLSLFDCTAMEEIISAGKFVHT 620
+S +F + + FC K ++ K + E+I ++H+
Sbjct: 86 NSSRSKTKCLF-----IQMEFCDKGTLEQWIEKRRGEKLDKVLALELFEQITKGVDYIHS 140
Query: 621 PEMMGNTMDPC 631
+++ + P
Sbjct: 141 KKLINRDLKPS 151
>pdb|2V9S|A Chain A, Second Lrr Domain Of Human Slit2
pdb|2V9S|B Chain B, Second Lrr Domain Of Human Slit2
pdb|2V9S|C Chain C, Second Lrr Domain Of Human Slit2
pdb|2V9S|D Chain D, Second Lrr Domain Of Human Slit2
Length = 220
Score = 29.3 bits (64), Expect = 7.2, Method: Composition-based stats.
Identities = 15/43 (34%), Positives = 22/43 (51%), Gaps = 1/43 (2%)
Query: 358 NFLVCAGRGLKEAPEVKEWETVRRLSLMQNQIKILSEAPTCPH 400
N + C G+GL E P ET+ + L QN IK++ P+
Sbjct: 14 NIVDCRGKGLTEIP-TNLPETITEIRLEQNTIKVIPPGAFSPY 55
>pdb|2FZ4|A Chain A, Crystal Structure Of The N-Terminal Half Of Archaeoglobus
Fulgidus Xpb
Length = 237
Score = 29.3 bits (64), Expect = 7.5, Method: Compositional matrix adjust.
Identities = 12/35 (34%), Positives = 21/35 (60%)
Query: 231 EEWRYAIEVLRKSSSSEFAGLVKEVYPLLKFSYDS 265
E+W+ + + + EF+G +KE+ PL +YDS
Sbjct: 147 EQWKERLGIFGEEYVGEFSGRIKELKPLTVSTYDS 181
>pdb|2V9T|B Chain B, Complex Between The Second Lrr Domain Of Slit2 And The
First Ig Domain From Robo1
Length = 220
Score = 29.3 bits (64), Expect = 7.8, Method: Composition-based stats.
Identities = 15/43 (34%), Positives = 22/43 (51%), Gaps = 1/43 (2%)
Query: 358 NFLVCAGRGLKEAPEVKEWETVRRLSLMQNQIKILSEAPTCPH 400
N + C G+GL E P ET+ + L QN IK++ P+
Sbjct: 14 NIVDCRGKGLTEIP-TNLPETITEIRLEQNTIKVIPPGAFSPY 55
>pdb|2FWR|A Chain A, Structure Of Archaeoglobus Fulgidis Xpb
pdb|2FWR|B Chain B, Structure Of Archaeoglobus Fulgidis Xpb
pdb|2FWR|C Chain C, Structure Of Archaeoglobus Fulgidis Xpb
pdb|2FWR|D Chain D, Structure Of Archaeoglobus Fulgidis Xpb
Length = 472
Score = 28.9 bits (63), Expect = 8.9, Method: Compositional matrix adjust.
Identities = 12/35 (34%), Positives = 21/35 (60%)
Query: 231 EEWRYAIEVLRKSSSSEFAGLVKEVYPLLKFSYDS 265
E+W+ + + + EF+G +KE+ PL +YDS
Sbjct: 147 EQWKERLGIFGEEYVGEFSGRIKELKPLTVSTYDS 181
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
0.323 0.138 0.424
Lambda K H
0.267 0.0410 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Hits to DB: 18,381,443
Number of Sequences: 62578
Number of extensions: 716964
Number of successful extensions: 1595
Number of sequences better than 100.0: 13
Number of HSP's better than 100.0 without gapping: 3
Number of HSP's successfully gapped in prelim test: 10
Number of HSP's that attempted gapping in prelim test: 1592
Number of HSP's gapped (non-prelim): 13
length of query: 680
length of database: 14,973,337
effective HSP length: 105
effective length of query: 575
effective length of database: 8,402,647
effective search space: 4831522025
effective search space used: 4831522025
T: 11
A: 40
X1: 16 ( 7.5 bits)
X2: 38 (14.6 bits)
X3: 64 (24.7 bits)
S1: 41 (22.0 bits)
S2: 55 (25.8 bits)