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= psy9158
(133 letters)
Database: pdbaa
62,578 sequences; 14,973,337 total letters
Searching..................................................done
>pdb|1LJO|A Chain A, Crystal Structure Of An Sm-Like Protein (Af-Sm2) From
Archaeoglobus Fulgidus At 1.95a Resolution
Length = 77
Score = 35.0 bits (79), Expect = 0.013, Method: Compositional matrix adjust.
Identities = 18/65 (27%), Positives = 36/65 (55%), Gaps = 10/65 (15%)
Query: 21 LAKSLVGMITCVDLRNESS-VSGRLEHVDGFMNIYMSREL---------TFESLFIQSRN 70
+ KS+VG I V+++ E + + G+LE VD +MN+Y++ + + + ++ N
Sbjct: 9 MVKSMVGKIIRVEMKGEENQLVGKLEGVDDYMNLYLTNAMECKGEEKVRSLGEIVLRGNN 68
Query: 71 VMFIH 75
V+ I
Sbjct: 69 VVLIQ 73
>pdb|3GQB|A Chain A, Crystal Structure Of The A3b3 Complex From V-atpase
pdb|3GQB|C Chain C, Crystal Structure Of The A3b3 Complex From V-atpase
Length = 578
Score = 28.1 bits (61), Expect = 1.4, Method: Composition-based stats.
Identities = 15/46 (32%), Positives = 21/46 (45%), Gaps = 3/46 (6%)
Query: 88 DALQSKPRQSSSAGRTLKQKRANLMQQEVLEKIQALKKQKMAQGVM 133
DALQ R GR + R + +QQ ++ A K A G+M
Sbjct: 474 DALQDAERLVIEVGRII---REDFLQQNAYHEVDAYSSMKKAYGIM 516
>pdb|3A5C|A Chain A, Inter-Subunit Interaction And Quaternary Rearrangement
Defined By The Central Stalk Of Prokaryotic V1-Atpase
pdb|3A5C|B Chain B, Inter-Subunit Interaction And Quaternary Rearrangement
Defined By The Central Stalk Of Prokaryotic V1-Atpase
pdb|3A5C|C Chain C, Inter-Subunit Interaction And Quaternary Rearrangement
Defined By The Central Stalk Of Prokaryotic V1-Atpase
pdb|3A5C|I Chain I, Inter-Subunit Interaction And Quaternary Rearrangement
Defined By The Central Stalk Of Prokaryotic V1-Atpase
pdb|3A5C|J Chain J, Inter-Subunit Interaction And Quaternary Rearrangement
Defined By The Central Stalk Of Prokaryotic V1-Atpase
pdb|3A5C|K Chain K, Inter-Subunit Interaction And Quaternary Rearrangement
Defined By The Central Stalk Of Prokaryotic V1-Atpase
pdb|3A5D|A Chain A, Inter-Subunit Interaction And Quaternary Rearrangement
Defined By The Central Stalk Of Prokaryotic V1-Atpase
pdb|3A5D|B Chain B, Inter-Subunit Interaction And Quaternary Rearrangement
Defined By The Central Stalk Of Prokaryotic V1-Atpase
pdb|3A5D|C Chain C, Inter-Subunit Interaction And Quaternary Rearrangement
Defined By The Central Stalk Of Prokaryotic V1-Atpase
pdb|3A5D|I Chain I, Inter-Subunit Interaction And Quaternary Rearrangement
Defined By The Central Stalk Of Prokaryotic V1-Atpase
pdb|3A5D|J Chain J, Inter-Subunit Interaction And Quaternary Rearrangement
Defined By The Central Stalk Of Prokaryotic V1-Atpase
pdb|3A5D|K Chain K, Inter-Subunit Interaction And Quaternary Rearrangement
Defined By The Central Stalk Of Prokaryotic V1-Atpase
pdb|3J0J|A Chain A, Fitted Atomic Models Of Thermus Thermophilus V-Atpase
Subunits Into Cryo-Em Map
pdb|3J0J|B Chain B, Fitted Atomic Models Of Thermus Thermophilus V-Atpase
Subunits Into Cryo-Em Map
pdb|3J0J|C Chain C, Fitted Atomic Models Of Thermus Thermophilus V-Atpase
Subunits Into Cryo-Em Map
Length = 578
Score = 26.9 bits (58), Expect = 3.2, Method: Composition-based stats.
Identities = 15/46 (32%), Positives = 21/46 (45%), Gaps = 3/46 (6%)
Query: 88 DALQSKPRQSSSAGRTLKQKRANLMQQEVLEKIQALKKQKMAQGVM 133
DALQ R GR + R + +QQ ++ A K A G+M
Sbjct: 474 DALQDAERLVIEVGRII---REDFLQQNAYHEVDAYCSMKKAYGIM 516
>pdb|1FC7|A Chain A, Photosystem Ii D1 C-Terminal Processing Protease
pdb|1FC9|A Chain A, Photosystem Ii D1 C-Terminal Processing Protease
pdb|1FCF|A Chain A, Photosystem Ii D1 C-Terminal Processing Protease
Length = 388
Score = 26.6 bits (57), Expect = 3.8, Method: Compositional matrix adjust.
Identities = 13/34 (38%), Positives = 18/34 (52%)
Query: 1 MTAVFDSPKEQFLSFNTLACLAKSLVGMITCVDL 34
+ AV D P +FL + LA L + G +T V L
Sbjct: 56 LLAVLDDPFTRFLEPSRLAALRRGTAGSVTGVGL 89
>pdb|1QLV|A Chain A, Pyrone Synthase (Pys) From Gerbera Hybrida
pdb|1QLV|B Chain B, Pyrone Synthase (Pys) From Gerbera Hybrida
pdb|1EE0|A Chain A, 2-Pyrone Synthase Complexed With Acetoacetyl-Coa
pdb|1EE0|B Chain B, 2-Pyrone Synthase Complexed With Acetoacetyl-Coa
Length = 402
Score = 26.6 bits (57), Expect = 4.1, Method: Composition-based stats.
Identities = 24/81 (29%), Positives = 38/81 (46%), Gaps = 2/81 (2%)
Query: 52 NIYMSRELTFESLFIQSRNVMFIHI-PRHVSIVNKVEDALQSKPRQSSSAGRTLKQKRAN 110
NI + E L I N +F + P +I+++VE L K A R + + N
Sbjct: 283 NIENAAEKALSPLGITDWNSVFWMVHPGGRAILDQVERKLNLK-EDKLRASRHVLSEYGN 341
Query: 111 LMQQEVLEKIQALKKQKMAQG 131
L+ VL I ++K+ MA+G
Sbjct: 342 LISACVLFIIDEVRKRSMAEG 362
>pdb|4G1M|B Chain B, Re-Refinement Of Alpha V Beta 3 Structure
Length = 692
Score = 25.8 bits (55), Expect = 7.6, Method: Composition-based stats.
Identities = 16/43 (37%), Positives = 25/43 (58%), Gaps = 2/43 (4%)
Query: 4 VFDSPKEQFLSFNTLACLAKSLV-GMITCVDLRNESSVSGRLE 45
V D P+E LSFN CL ++ G+ +C+ L+ +VS +E
Sbjct: 359 VRDLPEELSLSFNA-TCLNNEVIPGLKSCMGLKIGDTVSFSIE 400
>pdb|4G1E|B Chain B, Crystal Structure Of Integrin Alpha V Beta 3 With
Coil-Coiled Tag
Length = 738
Score = 25.8 bits (55), Expect = 7.6, Method: Composition-based stats.
Identities = 16/43 (37%), Positives = 25/43 (58%), Gaps = 2/43 (4%)
Query: 4 VFDSPKEQFLSFNTLACLAKSLV-GMITCVDLRNESSVSGRLE 45
V D P+E LSFN CL ++ G+ +C+ L+ +VS +E
Sbjct: 359 VRDLPEELSLSFNA-TCLNNEVIPGLKSCMGLKIGDTVSFSIE 400
>pdb|1JV2|B Chain B, Crystal Structure Of The Extracellular Segment Of Integrin
Alphavbeta3
pdb|1L5G|B Chain B, Crystal Structure Of The Extracellular Segment Of Integrin
Avb3 In Complex With An Arg-Gly-Asp Ligand
pdb|1M1X|B Chain B, Crystal Structure Of The Extracellular Segment Of Integrin
Alpha Vbeta3 Bound To Mn2+
pdb|1U8C|B Chain B, A Novel Adaptation Of The Integrin Psi Domain Revealed
From Its Crystal Structure
Length = 692
Score = 25.8 bits (55), Expect = 7.6, Method: Composition-based stats.
Identities = 16/43 (37%), Positives = 25/43 (58%), Gaps = 2/43 (4%)
Query: 4 VFDSPKEQFLSFNTLACLAKSLV-GMITCVDLRNESSVSGRLE 45
V D P+E LSFN CL ++ G+ +C+ L+ +VS +E
Sbjct: 359 VRDLPEELSLSFNA-TCLNNEVIPGLKSCMGLKIGDTVSFSIE 400
>pdb|3IJE|B Chain B, Crystal Structure Of The Complete Integrin Alhavbeta3
Ectodomain Plus An Alpha/beta Transmembrane Fragment
Length = 695
Score = 25.8 bits (55), Expect = 7.6, Method: Composition-based stats.
Identities = 16/43 (37%), Positives = 25/43 (58%), Gaps = 2/43 (4%)
Query: 4 VFDSPKEQFLSFNTLACLAKSLV-GMITCVDLRNESSVSGRLE 45
V D P+E LSFN CL ++ G+ +C+ L+ +VS +E
Sbjct: 359 VRDLPEELSLSFNA-TCLNNEVIPGLKSCMGLKIGDTVSFSIE 400
>pdb|3FCS|B Chain B, Structure Of Complete Ectodomain Of Integrin Aiibb3
pdb|3FCS|D Chain D, Structure Of Complete Ectodomain Of Integrin Aiibb3
Length = 690
Score = 25.8 bits (55), Expect = 7.6, Method: Composition-based stats.
Identities = 16/43 (37%), Positives = 25/43 (58%), Gaps = 2/43 (4%)
Query: 4 VFDSPKEQFLSFNTLACLAKSLV-GMITCVDLRNESSVSGRLE 45
V D P+E LSFN CL ++ G+ +C+ L+ +VS +E
Sbjct: 359 VRDLPEELSLSFNA-TCLNNEVIPGLKSCMGLKIGDTVSFSIE 400
>pdb|3NID|B Chain B, The Closed Headpiece Of Integrin Alphaiib Beta3 And Its
Complex With An Alpahiib Beta3 -Specific Antagonist That
Does Not Induce Opening
pdb|3NID|D Chain D, The Closed Headpiece Of Integrin Alphaiib Beta3 And Its
Complex With An Alpahiib Beta3 -Specific Antagonist That
Does Not Induce Opening
pdb|3NIF|B Chain B, The Closed Headpiece Of Integrin Iib 3 And Its Complex
With An Iib 3 - Specific Antagonist That Does Not Induce
Opening
pdb|3NIF|D Chain D, The Closed Headpiece Of Integrin Iib 3 And Its Complex
With An Iib 3 - Specific Antagonist That Does Not Induce
Opening
pdb|3NIG|B Chain B, The Closed Headpiece Of Integrin Iib 3 And Its Complex
With An Iib 3 - Specific Antagonist That Does Not Induce
Opening
pdb|3NIG|D Chain D, The Closed Headpiece Of Integrin Iib 3 And Its Complex
With An Iib 3 - Specific Antagonist That Does Not Induce
Opening
Length = 471
Score = 25.4 bits (54), Expect = 9.1, Method: Composition-based stats.
Identities = 16/43 (37%), Positives = 25/43 (58%), Gaps = 2/43 (4%)
Query: 4 VFDSPKEQFLSFNTLACLAKSLV-GMITCVDLRNESSVSGRLE 45
V D P+E LSFN CL ++ G+ +C+ L+ +VS +E
Sbjct: 359 VRDLPEELSLSFNA-TCLNNEVIPGLKSCMGLKIGDTVSFSIE 400
>pdb|3T3M|B Chain B, A Novel High Affinity Integrin Alphaiibbeta3 Receptor
Antagonist That Unexpectedly Displaces Mg2+ From The
Beta3 Midas
pdb|3T3M|D Chain D, A Novel High Affinity Integrin Alphaiibbeta3 Receptor
Antagonist That Unexpectedly Displaces Mg2+ From The
Beta3 Midas
pdb|3T3P|B Chain B, A Novel High Affinity Integrin Alphaiibbeta3 Receptor
Antagonist That Unexpectedly Displaces Mg2+ From The
Beta3 Midas
pdb|3T3P|D Chain D, A Novel High Affinity Integrin Alphaiibbeta3 Receptor
Antagonist That Unexpectedly Displaces Mg2+ From The
Beta3 Midas
Length = 472
Score = 25.4 bits (54), Expect = 9.2, Method: Composition-based stats.
Identities = 16/43 (37%), Positives = 25/43 (58%), Gaps = 2/43 (4%)
Query: 4 VFDSPKEQFLSFNTLACLAKSLV-GMITCVDLRNESSVSGRLE 45
V D P+E LSFN CL ++ G+ +C+ L+ +VS +E
Sbjct: 359 VRDLPEELSLSFNA-TCLNNEVIPGLKSCMGLKIGDTVSFSIE 400
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
0.321 0.130 0.352
Lambda K H
0.267 0.0410 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Hits to DB: 3,014,392
Number of Sequences: 62578
Number of extensions: 93533
Number of successful extensions: 414
Number of sequences better than 100.0: 23
Number of HSP's better than 100.0 without gapping: 20
Number of HSP's successfully gapped in prelim test: 3
Number of HSP's that attempted gapping in prelim test: 394
Number of HSP's gapped (non-prelim): 23
length of query: 133
length of database: 14,973,337
effective HSP length: 88
effective length of query: 45
effective length of database: 9,466,473
effective search space: 425991285
effective search space used: 425991285
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: 46 (22.3 bits)