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= psy8037
(292 letters)
Database: pdbaa
62,578 sequences; 14,973,337 total letters
Searching..................................................done
>pdb|2FNJ|A Chain A, Crystal Structure Of A B30.2SPRY DOMAIN-Containing Protein
Gustavus In Complex With Elongin B And Elongin C
Length = 226
Score = 357 bits (915), Expect = 6e-99, Method: Compositional matrix adjust.
Identities = 162/199 (81%), Positives = 182/199 (91%)
Query: 36 RPGRLDIILDMPPASRETQVKHAWNPEDRSLNIFVKDDDKLTFHRHPVAQSTDCIRGRVG 95
+P R+DI+LDMPPASR+ Q+KH+WN EDRSLNIFVK+DDKLTFHRHPVAQSTDCIRG+VG
Sbjct: 10 KPARIDILLDMPPASRDLQLKHSWNSEDRSLNIFVKEDDKLTFHRHPVAQSTDCIRGKVG 69
Query: 96 FTKGFHIWEVHWSARQRGTHAVVGVGTIDAPLHSVGYQSLVGSNDQSWGWDLGRNRLYHD 155
TKG HIWE++W RQRGTHAVVGV T DAPLHSVGYQSLVGS +QSWGWDLGRN+LYHD
Sbjct: 70 LTKGLHIWEIYWPTRQRGTHAVVGVCTADAPLHSVGYQSLVGSTEQSWGWDLGRNKLYHD 129
Query: 156 SKNNTGLTYPTLLKPDETFVVPDKFLVILDMDEGTLSFVVDGQYLGVAFRGLKGRKLYPI 215
SKN G+TYP +LK DE F+VPDKFLV LDMDEGTLSF+VD QYLG+AFRGL+G+KLYPI
Sbjct: 130 SKNCAGVTYPAILKNDEAFLVPDKFLVALDMDEGTLSFIVDQQYLGIAFRGLRGKKLYPI 189
Query: 216 VSAVWGHCEITMKYIGGLD 234
VSAVWGHCEITM+YIGGLD
Sbjct: 190 VSAVWGHCEITMRYIGGLD 208
>pdb|2IHS|A Chain A, Crystal Structure Of The B30.2SPRY DOMAIN OF GUSTAVUS IN
Complex With A 20-Residue Vasa Peptide
pdb|2IHS|B Chain B, Crystal Structure Of The B30.2SPRY DOMAIN OF GUSTAVUS IN
Complex With A 20-Residue Vasa Peptide
Length = 214
Score = 354 bits (909), Expect = 3e-98, Method: Compositional matrix adjust.
Identities = 161/198 (81%), Positives = 181/198 (91%)
Query: 36 RPGRLDIILDMPPASRETQVKHAWNPEDRSLNIFVKDDDKLTFHRHPVAQSTDCIRGRVG 95
+P R+DI+LDMPPASR+ Q+KH+WN EDRSLNIFVK+DDKLTFHRHPVAQSTDCIRG+VG
Sbjct: 12 KPARIDILLDMPPASRDLQLKHSWNSEDRSLNIFVKEDDKLTFHRHPVAQSTDCIRGKVG 71
Query: 96 FTKGFHIWEVHWSARQRGTHAVVGVGTIDAPLHSVGYQSLVGSNDQSWGWDLGRNRLYHD 155
TKG HIWE++W RQRGTHAVVGV T DAPLHSVGYQSLVGS +QSWGWDLGRN+LYHD
Sbjct: 72 LTKGLHIWEIYWPTRQRGTHAVVGVCTADAPLHSVGYQSLVGSTEQSWGWDLGRNKLYHD 131
Query: 156 SKNNTGLTYPTLLKPDETFVVPDKFLVILDMDEGTLSFVVDGQYLGVAFRGLKGRKLYPI 215
SKN G+TYP +LK DE F+VPDKFLV LDMDEGTLSF+VD QYLG+AFRGL+G+KLYPI
Sbjct: 132 SKNCAGVTYPAILKNDEAFLVPDKFLVALDMDEGTLSFIVDQQYLGIAFRGLRGKKLYPI 191
Query: 216 VSAVWGHCEITMKYIGGL 233
VSAVWGHCEITM+YIGGL
Sbjct: 192 VSAVWGHCEITMRYIGGL 209
>pdb|3F2O|A Chain A, Crystal Structure Of Human SplaRYANODINE RECEPTOR DOMAIN
AND SOCS BOX Containing 1 (Spsb1) In Complex With A
20-Residue Vasa Peptide
pdb|3F2O|B Chain B, Crystal Structure Of Human SplaRYANODINE RECEPTOR DOMAIN
AND SOCS BOX Containing 1 (Spsb1) In Complex With A
20-Residue Vasa Peptide
Length = 233
Score = 329 bits (843), Expect = 1e-90, Method: Compositional matrix adjust.
Identities = 146/203 (71%), Positives = 174/203 (85%)
Query: 32 LAHQRPGRLDIILDMPPASRETQVKHAWNPEDRSLNIFVKDDDKLTFHRHPVAQSTDCIR 91
L + +P RLD++LDMPP S + Q+ H+WN DRSLN+FVK+DDKL FHRHPVAQSTD IR
Sbjct: 29 LDYCKPTRLDLLLDMPPVSYDVQLLHSWNNNDRSLNVFVKEDDKLIFHRHPVAQSTDAIR 88
Query: 92 GRVGFTKGFHIWEVHWSARQRGTHAVVGVGTIDAPLHSVGYQSLVGSNDQSWGWDLGRNR 151
G+VG+T+G H+W++ W+ RQRGTHAVVGV T DAPLHSVGY +LVG+N +SWGWDLGRNR
Sbjct: 89 GKVGYTRGLHVWQITWAMRQRGTHAVVGVATADAPLHSVGYTTLVGNNHESWGWDLGRNR 148
Query: 152 LYHDSKNNTGLTYPTLLKPDETFVVPDKFLVILDMDEGTLSFVVDGQYLGVAFRGLKGRK 211
LYHD KN TYP L+PDETF+VPD FLV LDMD+GTLSF+VDGQY+GVAFRGLKG+K
Sbjct: 149 LYHDGKNQPSKTYPAFLEPDETFIVPDSFLVALDMDDGTLSFIVDGQYMGVAFRGLKGKK 208
Query: 212 LYPIVSAVWGHCEITMKYIGGLD 234
LYP+VSAVWGHCEI M+Y+ GLD
Sbjct: 209 LYPVVSAVWGHCEIRMRYLNGLD 231
>pdb|2JK9|A Chain A, The Structure Of Spla-Ryanodine Receptor Domain And Socs
Box Containing 1 In Complex With A Par-4 Peptide
Length = 212
Score = 328 bits (841), Expect = 2e-90, Method: Compositional matrix adjust.
Identities = 146/203 (71%), Positives = 174/203 (85%)
Query: 32 LAHQRPGRLDIILDMPPASRETQVKHAWNPEDRSLNIFVKDDDKLTFHRHPVAQSTDCIR 91
L + +P RLD++LDMPP S + Q+ H+WN DRSLN+FVK+DDKL FHRHPVAQSTD IR
Sbjct: 8 LDYCKPTRLDLLLDMPPVSYDVQLLHSWNNNDRSLNVFVKEDDKLIFHRHPVAQSTDAIR 67
Query: 92 GRVGFTKGFHIWEVHWSARQRGTHAVVGVGTIDAPLHSVGYQSLVGSNDQSWGWDLGRNR 151
G+VG+T+G H+W++ W+ RQRGTHAVVGV T DAPLHSVGY +LVG+N +SWGWDLGRNR
Sbjct: 68 GKVGYTRGLHVWQITWAMRQRGTHAVVGVATADAPLHSVGYTTLVGNNHESWGWDLGRNR 127
Query: 152 LYHDSKNNTGLTYPTLLKPDETFVVPDKFLVILDMDEGTLSFVVDGQYLGVAFRGLKGRK 211
LYHD KN TYP L+PDETF+VPD FLV LDMD+GTLSF+VDGQY+GVAFRGLKG+K
Sbjct: 128 LYHDGKNQPSKTYPAFLEPDETFIVPDSFLVALDMDDGTLSFIVDGQYMGVAFRGLKGKK 187
Query: 212 LYPIVSAVWGHCEITMKYIGGLD 234
LYP+VSAVWGHCEI M+Y+ GLD
Sbjct: 188 LYPVVSAVWGHCEIRMRYLNGLD 210
>pdb|2V24|A Chain A, Structure Of The Human Spry Domain-Containing Socs Box
Protein Ssb-4
Length = 208
Score = 327 bits (838), Expect = 5e-90, Method: Compositional matrix adjust.
Identities = 147/199 (73%), Positives = 169/199 (84%)
Query: 36 RPGRLDIILDMPPASRETQVKHAWNPEDRSLNIFVKDDDKLTFHRHPVAQSTDCIRGRVG 95
RP RLD +LDMP A Q++HAWNPEDRSLN+FVKDDD+LTFHRHPVAQSTD IRG+VG
Sbjct: 8 RPARLDQLLDMPAAGLAVQLRHAWNPEDRSLNVFVKDDDRLTFHRHPVAQSTDGIRGKVG 67
Query: 96 FTKGFHIWEVHWSARQRGTHAVVGVGTIDAPLHSVGYQSLVGSNDQSWGWDLGRNRLYHD 155
+G H W+++W ARQRGTHAVVGV T APLHSVGY +LVGS+ +SWGWDLGR+RLYHD
Sbjct: 68 HARGLHAWQINWPARQRGTHAVVGVATARAPLHSVGYTALVGSDAESWGWDLGRSRLYHD 127
Query: 156 SKNNTGLTYPTLLKPDETFVVPDKFLVILDMDEGTLSFVVDGQYLGVAFRGLKGRKLYPI 215
KN G+ YP L PDE F +PD LV+LDMDEGTLSF+VDGQYLGVAFRGLKG+KLYP+
Sbjct: 128 GKNQPGVAYPAFLGPDEAFALPDSLLVVLDMDEGTLSFIVDGQYLGVAFRGLKGKKLYPV 187
Query: 216 VSAVWGHCEITMKYIGGLD 234
VSAVWGHCE+TM+YI GLD
Sbjct: 188 VSAVWGHCEVTMRYINGLD 206
>pdb|3EMW|A Chain A, Crystal Structure Of Human SplaRYANODINE RECEPTOR DOMAIN
AND SOCS BOX Containing 2 (Spsb2) In Complex With A
20-Residue Vasa Peptide
Length = 217
Score = 217 bits (553), Expect = 5e-57, Method: Compositional matrix adjust.
Identities = 103/195 (52%), Positives = 131/195 (67%), Gaps = 2/195 (1%)
Query: 37 PGRLDIILDMPPASRETQVKHAWNPEDRSLNIFVKDDDKLTFHRHPVAQSTDCIRGRVGF 96
P L+ +L PP Q +H WNP+D S NI VK+ L F R PVAQSTD RG+ G+
Sbjct: 24 PEGLEELLSAPPPDLGAQRRHGWNPKDCSENIEVKEGG-LYFERRPVAQSTDGARGKRGY 82
Query: 97 TKGFHIWEVHWSARQRGTHAVVGVGTIDAPLHSVGYQSLVGSNDQSWGWDLGRNRLYHDS 156
++G H WE+ W QRGTHAVVGV T APL + Y +L+GSN +SWGWD+GR +LYH S
Sbjct: 83 SRGLHAWEISWPLEQRGTHAVVGVATALAPLQTDHYAALLGSNSESWGWDIGRGKLYHQS 142
Query: 157 KNNTGLTYPTLLKPDETFVVPDKFLVILDMDEGTLSFVVDGQYLGVAFRGLKGRKLYPIV 216
K YP + E VP++ LV+LDM+EGTL + + G YLG AFRGLKGR LYP V
Sbjct: 143 KGPGAPQYPAGTQ-GEQLEVPERLLVVLDMEEGTLGYAIGGTYLGPAFRGLKGRTLYPAV 201
Query: 217 SAVWGHCEITMKYIG 231
SAVWG C++ ++Y+G
Sbjct: 202 SAVWGQCQVRIRYLG 216
>pdb|2AFJ|A Chain A, Spry Domain-Containing Socs Box Protein 2 (Ssb-2)
Length = 226
Score = 216 bits (551), Expect = 8e-57, Method: Compositional matrix adjust.
Identities = 104/195 (53%), Positives = 132/195 (67%), Gaps = 2/195 (1%)
Query: 37 PGRLDIILDMPPASRETQVKHAWNPEDRSLNIFVKDDDKLTFHRHPVAQSTDCIRGRVGF 96
P L+ +L PP Q H WNP+D S NI VK+ L F R PVAQSTD +RG+ G+
Sbjct: 21 PEGLEELLSAPPPDLVAQRHHGWNPKDCSENIDVKEGG-LCFERRPVAQSTDGVRGKRGY 79
Query: 97 TKGFHIWEVHWSARQRGTHAVVGVGTIDAPLHSVGYQSLVGSNDQSWGWDLGRNRLYHDS 156
++G H WE+ W QRGTHAVVGV T APL + Y +L+GSN +SWGWD+GR +LYH S
Sbjct: 80 SRGLHAWEISWPLEQRGTHAVVGVATALAPLQADHYAALLGSNSESWGWDIGRGKLYHQS 139
Query: 157 KNNTGLTYPTLLKPDETFVVPDKFLVILDMDEGTLSFVVDGQYLGVAFRGLKGRKLYPIV 216
K YP + E VVP++ LV+LDM+EGTL + + G YLG AFRGLKGR LYP V
Sbjct: 140 KGLEAPQYPAGPQ-GEQLVVPERLLVVLDMEEGTLGYSIGGTYLGPAFRGLKGRTLYPSV 198
Query: 217 SAVWGHCEITMKYIG 231
SAVWG C++ ++Y+G
Sbjct: 199 SAVWGQCQVRIRYMG 213
>pdb|3EK9|A Chain A, Spry Domain-Containing Socs Box Protein 2: Crystal
Structure And Residues Critical For Protein Binding
Length = 213
Score = 216 bits (551), Expect = 9e-57, Method: Compositional matrix adjust.
Identities = 104/195 (53%), Positives = 132/195 (67%), Gaps = 2/195 (1%)
Query: 37 PGRLDIILDMPPASRETQVKHAWNPEDRSLNIFVKDDDKLTFHRHPVAQSTDCIRGRVGF 96
P L+ +L PP Q H WNP+D S NI VK+ L F R PVAQSTD +RG+ G+
Sbjct: 15 PEGLEELLSAPPPDLVAQRHHGWNPKDCSENIDVKEGG-LCFERRPVAQSTDGVRGKRGY 73
Query: 97 TKGFHIWEVHWSARQRGTHAVVGVGTIDAPLHSVGYQSLVGSNDQSWGWDLGRNRLYHDS 156
++G H WE+ W QRGTHAVVGV T APL + Y +L+GSN +SWGWD+GR +LYH S
Sbjct: 74 SRGLHAWEISWPLEQRGTHAVVGVATALAPLQADHYAALLGSNSESWGWDIGRGKLYHQS 133
Query: 157 KNNTGLTYPTLLKPDETFVVPDKFLVILDMDEGTLSFVVDGQYLGVAFRGLKGRKLYPIV 216
K YP + E VVP++ LV+LDM+EGTL + + G YLG AFRGLKGR LYP V
Sbjct: 134 KGLEAPQYPAGPQ-GEQLVVPERLLVVLDMEEGTLGYSIGGTYLGPAFRGLKGRTLYPSV 192
Query: 217 SAVWGHCEITMKYIG 231
SAVWG C++ ++Y+G
Sbjct: 193 SAVWGQCQVRIRYMG 207
>pdb|3DLB|A Chain A, Crystal Structure Of The Guide-Strand-Containing Argonaute
Protein Silencing Complex
pdb|3DLB|B Chain B, Crystal Structure Of The Guide-Strand-Containing Argonaute
Protein Silencing Complex
pdb|3DLH|A Chain A, Crystal Structure Of The Guide-Strand-Containing Argonaute
Protein Silencing Complex
pdb|3DLH|B Chain B, Crystal Structure Of The Guide-Strand-Containing Argonaute
Protein Silencing Complex
pdb|3F73|A Chain A, Alignment Of Guide-Target Seed Duplex Within An Argonaute
Silencing Complex
pdb|3F73|B Chain B, Alignment Of Guide-Target Seed Duplex Within An Argonaute
Silencing Complex
pdb|3HM9|A Chain A, Crystal Structure Of T. Thermophilus Argonaute Complexed
With Dna Guide Strand And 19-Nt Rna Target Strand
pdb|3HVR|A Chain A, Crystal Structure Of T. Thermophilus Argonaute Complexed
With Dna Guide Strand And 19-Nt Rna Target Strand With
Two Mg2+ At The Cleavage Site
pdb|3HVR|B Chain B, Crystal Structure Of T. Thermophilus Argonaute Complexed
With Dna Guide Strand And 19-Nt Rna Target Strand With
Two Mg2+ At The Cleavage Site
pdb|3HXM|A Chain A, Structure Of An Argonaute Complexed With Guide Dna And
Target Rna Duplex Containing Two Mismatches
Length = 685
Score = 29.3 bits (64), Expect = 3.0, Method: Compositional matrix adjust.
Identities = 22/80 (27%), Positives = 35/80 (43%), Gaps = 4/80 (5%)
Query: 24 FKPVIPRELAHQRPGRLDIILDMPPASRETQVKHAWNPEDRSLNIFVKDDDKLTFHRHPV 83
+P+ P EL RP RL+++LD PP RE R+ + V+ D L P
Sbjct: 16 LRPLNPEEL---RPWRLEVVLD-PPPGREEVYPLLAQVARRAGGVTVRMGDGLASWSPPE 71
Query: 84 AQSTDCIRGRVGFTKGFHIW 103
+ R+G T + ++
Sbjct: 72 VLVLEGTLARMGQTYAYRLY 91
>pdb|3HO1|A Chain A, Crystal Structure Of T. Thermophilus Argonaute N546 Mutant
Protein Complexed With Dna Guide Strand And 12-Nt Rna
Target Strand
Length = 685
Score = 29.3 bits (64), Expect = 3.0, Method: Compositional matrix adjust.
Identities = 22/80 (27%), Positives = 35/80 (43%), Gaps = 4/80 (5%)
Query: 24 FKPVIPRELAHQRPGRLDIILDMPPASRETQVKHAWNPEDRSLNIFVKDDDKLTFHRHPV 83
+P+ P EL RP RL+++LD PP RE R+ + V+ D L P
Sbjct: 16 LRPLNPEEL---RPWRLEVVLD-PPPGREEVYPLLAQVARRAGGVTVRMGDGLASWSPPE 71
Query: 84 AQSTDCIRGRVGFTKGFHIW 103
+ R+G T + ++
Sbjct: 72 VLVLEGTLARMGQTYAYRLY 91
>pdb|3HK2|A Chain A, Crystal Structure Of T. Thermophilus Argonaute N478 Mutant
Protein Complexed With Dna Guide Strand And 19-Nt Rna
Target Strand
pdb|3HK2|B Chain B, Crystal Structure Of T. Thermophilus Argonaute N478 Mutant
Protein Complexed With Dna Guide Strand And 19-Nt Rna
Target Strand
Length = 685
Score = 29.3 bits (64), Expect = 3.0, Method: Compositional matrix adjust.
Identities = 22/80 (27%), Positives = 35/80 (43%), Gaps = 4/80 (5%)
Query: 24 FKPVIPRELAHQRPGRLDIILDMPPASRETQVKHAWNPEDRSLNIFVKDDDKLTFHRHPV 83
+P+ P EL RP RL+++LD PP RE R+ + V+ D L P
Sbjct: 16 LRPLNPEEL---RPWRLEVVLD-PPPGREEVYPLLAQVARRAGGVTVRMGDGLASWSPPE 71
Query: 84 AQSTDCIRGRVGFTKGFHIW 103
+ R+G T + ++
Sbjct: 72 VLVLEGTLARMGQTYAYRLY 91
>pdb|3HJF|A Chain A, Crystal Structure Of T. Thermophilus Argonaute E546 Mutant
Protein Complexed With Dna Guide Strand And 15-Nt Rna
Target Strand
Length = 685
Score = 29.3 bits (64), Expect = 3.0, Method: Compositional matrix adjust.
Identities = 22/80 (27%), Positives = 35/80 (43%), Gaps = 4/80 (5%)
Query: 24 FKPVIPRELAHQRPGRLDIILDMPPASRETQVKHAWNPEDRSLNIFVKDDDKLTFHRHPV 83
+P+ P EL RP RL+++LD PP E A R+ + V+ D L P
Sbjct: 16 LRPLNPEEL---RPWRLEVVLDPPPGREEVYPLLA-QVARRAGGVTVRMGDGLASWSPPE 71
Query: 84 AQSTDCIRGRVGFTKGFHIW 103
+ R+G T + ++
Sbjct: 72 VLVLEGTLARMGQTYAYRLY 91
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 0.141 0.447
Lambda K H
0.267 0.0410 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Hits to DB: 9,519,666
Number of Sequences: 62578
Number of extensions: 423017
Number of successful extensions: 811
Number of sequences better than 100.0: 12
Number of HSP's better than 100.0 without gapping: 8
Number of HSP's successfully gapped in prelim test: 4
Number of HSP's that attempted gapping in prelim test: 789
Number of HSP's gapped (non-prelim): 20
length of query: 292
length of database: 14,973,337
effective HSP length: 98
effective length of query: 194
effective length of database: 8,840,693
effective search space: 1715094442
effective search space used: 1715094442
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: 51 (24.3 bits)