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= psy8040
(272 letters)
Database: pdbaa
62,578 sequences; 14,973,337 total letters
Searching..................................................done
>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 = 180 bits (457), Expect = 7e-46, Method: Compositional matrix adjust.
Identities = 79/98 (80%), Positives = 89/98 (90%)
Query: 170 RPGRLDIILDMPPASRETQVKHAWNPEDRSLNIFVKDDDKLTFHRHPVAQSTDCIRGRVG 229
+P R+DI+LDMPPASR+ Q+KH+WN EDRSLNIFVK+DDKLTFHRHPVAQSTDCIRG+VG
Sbjct: 12 KPARIDILLDMPPASRDLQLKHSWNSEDRSLNIFVKEDDKLTFHRHPVAQSTDCIRGKVG 71
Query: 230 FTKGFHIWEVHWSARQRGTHAVVGVGTIDAPLHSVGYQ 267
TKG HIWE++W RQRGTHAVVGV T DAPLHSVGYQ
Sbjct: 72 LTKGLHIWEIYWPTRQRGTHAVVGVCTADAPLHSVGYQ 109
>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 = 180 bits (456), Expect = 8e-46, Method: Compositional matrix adjust.
Identities = 79/98 (80%), Positives = 89/98 (90%)
Query: 170 RPGRLDIILDMPPASRETQVKHAWNPEDRSLNIFVKDDDKLTFHRHPVAQSTDCIRGRVG 229
+P R+DI+LDMPPASR+ Q+KH+WN EDRSLNIFVK+DDKLTFHRHPVAQSTDCIRG+VG
Sbjct: 10 KPARIDILLDMPPASRDLQLKHSWNSEDRSLNIFVKEDDKLTFHRHPVAQSTDCIRGKVG 69
Query: 230 FTKGFHIWEVHWSARQRGTHAVVGVGTIDAPLHSVGYQ 267
TKG HIWE++W RQRGTHAVVGV T DAPLHSVGYQ
Sbjct: 70 LTKGLHIWEIYWPTRQRGTHAVVGVCTADAPLHSVGYQ 107
>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 = 162 bits (409), Expect = 2e-40, Method: Compositional matrix adjust.
Identities = 69/104 (66%), Positives = 86/104 (82%)
Query: 166 LAHQRPGRLDIILDMPPASRETQVKHAWNPEDRSLNIFVKDDDKLTFHRHPVAQSTDCIR 225
L + +P RLD++LDMPP S + Q+ H+WN DRSLN+FVK+DDKL FHRHPVAQSTD IR
Sbjct: 29 LDYCKPTRLDLLLDMPPVSYDVQLLHSWNNNDRSLNVFVKEDDKLIFHRHPVAQSTDAIR 88
Query: 226 GRVGFTKGFHIWEVHWSARQRGTHAVVGVGTIDAPLHSVGYQII 269
G+VG+T+G H+W++ W+ RQRGTHAVVGV T DAPLHSVGY +
Sbjct: 89 GKVGYTRGLHVWQITWAMRQRGTHAVVGVATADAPLHSVGYTTL 132
>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 = 161 bits (407), Expect = 4e-40, Method: Compositional matrix adjust.
Identities = 69/104 (66%), Positives = 86/104 (82%)
Query: 166 LAHQRPGRLDIILDMPPASRETQVKHAWNPEDRSLNIFVKDDDKLTFHRHPVAQSTDCIR 225
L + +P RLD++LDMPP S + Q+ H+WN DRSLN+FVK+DDKL FHRHPVAQSTD IR
Sbjct: 8 LDYCKPTRLDLLLDMPPVSYDVQLLHSWNNNDRSLNVFVKEDDKLIFHRHPVAQSTDAIR 67
Query: 226 GRVGFTKGFHIWEVHWSARQRGTHAVVGVGTIDAPLHSVGYQII 269
G+VG+T+G H+W++ W+ RQRGTHAVVGV T DAPLHSVGY +
Sbjct: 68 GKVGYTRGLHVWQITWAMRQRGTHAVVGVATADAPLHSVGYTTL 111
>pdb|2V24|A Chain A, Structure Of The Human Spry Domain-Containing Socs Box
Protein Ssb-4
Length = 208
Score = 159 bits (403), Expect = 1e-39, Method: Compositional matrix adjust.
Identities = 71/100 (71%), Positives = 82/100 (82%)
Query: 170 RPGRLDIILDMPPASRETQVKHAWNPEDRSLNIFVKDDDKLTFHRHPVAQSTDCIRGRVG 229
RP RLD +LDMP A Q++HAWNPEDRSLN+FVKDDD+LTFHRHPVAQSTD IRG+VG
Sbjct: 8 RPARLDQLLDMPAAGLAVQLRHAWNPEDRSLNVFVKDDDRLTFHRHPVAQSTDGIRGKVG 67
Query: 230 FTKGFHIWEVHWSARQRGTHAVVGVGTIDAPLHSVGYQII 269
+G H W+++W ARQRGTHAVVGV T APLHSVGY +
Sbjct: 68 HARGLHAWQINWPARQRGTHAVVGVATARAPLHSVGYTAL 107
>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 = 99.4 bits (246), Expect = 2e-21, Method: Compositional matrix adjust.
Identities = 48/93 (51%), Positives = 59/93 (63%), Gaps = 1/93 (1%)
Query: 171 PGRLDIILDMPPASRETQVKHAWNPEDRSLNIFVKDDDKLTFHRHPVAQSTDCIRGRVGF 230
P L+ +L PP Q +H WNP+D S NI VK+ L F R PVAQSTD RG+ G+
Sbjct: 24 PEGLEELLSAPPPDLGAQRRHGWNPKDCSENIEVKEGG-LYFERRPVAQSTDGARGKRGY 82
Query: 231 TKGFHIWEVHWSARQRGTHAVVGVGTIDAPLHS 263
++G H WE+ W QRGTHAVVGV T APL +
Sbjct: 83 SRGLHAWEISWPLEQRGTHAVVGVATALAPLQT 115
>pdb|2AFJ|A Chain A, Spry Domain-Containing Socs Box Protein 2 (Ssb-2)
Length = 226
Score = 99.4 bits (246), Expect = 2e-21, Method: Compositional matrix adjust.
Identities = 49/99 (49%), Positives = 61/99 (61%), Gaps = 1/99 (1%)
Query: 171 PGRLDIILDMPPASRETQVKHAWNPEDRSLNIFVKDDDKLTFHRHPVAQSTDCIRGRVGF 230
P L+ +L PP Q H WNP+D S NI VK+ L F R PVAQSTD +RG+ G+
Sbjct: 21 PEGLEELLSAPPPDLVAQRHHGWNPKDCSENIDVKEGG-LCFERRPVAQSTDGVRGKRGY 79
Query: 231 TKGFHIWEVHWSARQRGTHAVVGVGTIDAPLHSVGYQII 269
++G H WE+ W QRGTHAVVGV T APL + Y +
Sbjct: 80 SRGLHAWEISWPLEQRGTHAVVGVATALAPLQADHYAAL 118
>pdb|3EK9|A Chain A, Spry Domain-Containing Socs Box Protein 2: Crystal
Structure And Residues Critical For Protein Binding
Length = 213
Score = 99.0 bits (245), Expect = 2e-21, Method: Compositional matrix adjust.
Identities = 49/99 (49%), Positives = 61/99 (61%), Gaps = 1/99 (1%)
Query: 171 PGRLDIILDMPPASRETQVKHAWNPEDRSLNIFVKDDDKLTFHRHPVAQSTDCIRGRVGF 230
P L+ +L PP Q H WNP+D S NI VK+ L F R PVAQSTD +RG+ G+
Sbjct: 15 PEGLEELLSAPPPDLVAQRHHGWNPKDCSENIDVKEGG-LCFERRPVAQSTDGVRGKRGY 73
Query: 231 TKGFHIWEVHWSARQRGTHAVVGVGTIDAPLHSVGYQII 269
++G H WE+ W QRGTHAVVGV T APL + Y +
Sbjct: 74 SRGLHAWEISWPLEQRGTHAVVGVATALAPLQADHYAAL 112
>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 = 30.8 bits (68), Expect = 0.90, Method: Compositional matrix adjust.
Identities = 22/80 (27%), Positives = 35/80 (43%), Gaps = 4/80 (5%)
Query: 158 FKPVIPRELAHQRPGRLDIILDMPPASRETQVKHAWNPEDRSLNIFVKDDDKLTFHRHPV 217
+P+ P EL RP RL+++LD PP E A R+ + V+ D L P
Sbjct: 16 LRPLNPEEL---RPWRLEVVLDPPPGREEVYPLLA-QVARRAGGVTVRMGDGLASWSPPE 71
Query: 218 AQSTDCIRGRVGFTKGFHIW 237
+ 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 = 30.8 bits (68), Expect = 0.90, Method: Compositional matrix adjust.
Identities = 22/80 (27%), Positives = 35/80 (43%), Gaps = 4/80 (5%)
Query: 158 FKPVIPRELAHQRPGRLDIILDMPPASRETQVKHAWNPEDRSLNIFVKDDDKLTFHRHPV 217
+P+ P EL RP RL+++LD PP E A R+ + V+ D L P
Sbjct: 16 LRPLNPEEL---RPWRLEVVLDPPPGREEVYPLLA-QVARRAGGVTVRMGDGLASWSPPE 71
Query: 218 AQSTDCIRGRVGFTKGFHIW 237
+ 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 = 30.8 bits (68), Expect = 0.90, Method: Compositional matrix adjust.
Identities = 22/80 (27%), Positives = 35/80 (43%), Gaps = 4/80 (5%)
Query: 158 FKPVIPRELAHQRPGRLDIILDMPPASRETQVKHAWNPEDRSLNIFVKDDDKLTFHRHPV 217
+P+ P EL RP RL+++LD PP E A R+ + V+ D L P
Sbjct: 16 LRPLNPEEL---RPWRLEVVLDPPPGREEVYPLLA-QVARRAGGVTVRMGDGLASWSPPE 71
Query: 218 AQSTDCIRGRVGFTKGFHIW 237
+ R+G T + ++
Sbjct: 72 VLVLEGTLARMGQTYAYRLY 91
>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 = 30.8 bits (68), Expect = 0.94, Method: Compositional matrix adjust.
Identities = 22/80 (27%), Positives = 35/80 (43%), Gaps = 4/80 (5%)
Query: 158 FKPVIPRELAHQRPGRLDIILDMPPASRETQVKHAWNPEDRSLNIFVKDDDKLTFHRHPV 217
+P+ P EL RP RL+++LD PP E A R+ + V+ D L P
Sbjct: 16 LRPLNPEEL---RPWRLEVVLDPPPGREEVYPLLA-QVARRAGGVTVRMGDGLASWSPPE 71
Query: 218 AQSTDCIRGRVGFTKGFHIW 237
+ R+G T + ++
Sbjct: 72 VLVLEGTLARMGQTYAYRLY 91
>pdb|2QFP|A Chain A, Crystal Structure Of Red Kidney Bean Purple Acid
Phosphatase In Complex With Fluoride
pdb|2QFP|B Chain B, Crystal Structure Of Red Kidney Bean Purple Acid
Phosphatase In Complex With Fluoride
pdb|2QFP|C Chain C, Crystal Structure Of Red Kidney Bean Purple Acid
Phosphatase In Complex With Fluoride
pdb|2QFP|D Chain D, Crystal Structure Of Red Kidney Bean Purple Acid
Phosphatase In Complex With Fluoride
pdb|2QFR|A Chain A, Crystal Structure Of Red Kidney Bean Purple Acid
Phosphatase With Bound Sulfate
pdb|2QFR|B Chain B, Crystal Structure Of Red Kidney Bean Purple Acid
Phosphatase With Bound Sulfate
Length = 424
Score = 28.9 bits (63), Expect = 3.1, Method: Compositional matrix adjust.
Identities = 16/54 (29%), Positives = 26/54 (48%)
Query: 104 ELRRHNYKSCVFPNKTSASYQDHRHHRTRSGRGMSMGQKISNGVKTVNRESSAP 157
E R +++ K + H H RS R ++ KI+NG+ T ++ SAP
Sbjct: 293 EAMRTKFEAWFVKYKVDVVFAGHVHAYERSERVSNIAYKITNGLCTPVKDQSAP 346
>pdb|4DSY|A Chain A, Crystal Structure Of Red Kidney Bean Purple Acid
Phosphatase In Complex With Maybridge Fragment Cc24201
pdb|4DSY|B Chain B, Crystal Structure Of Red Kidney Bean Purple Acid
Phosphatase In Complex With Maybridge Fragment Cc24201
pdb|4DSY|C Chain C, Crystal Structure Of Red Kidney Bean Purple Acid
Phosphatase In Complex With Maybridge Fragment Cc24201
pdb|4DSY|D Chain D, Crystal Structure Of Red Kidney Bean Purple Acid
Phosphatase In Complex With Maybridge Fragment Cc24201
pdb|4DT2|A Chain A, Crystal Structure Of Red Kidney Bean Purple Acid
Phosphatase In Complex With Maybridge Fragment Cc27209
pdb|4DT2|B Chain B, Crystal Structure Of Red Kidney Bean Purple Acid
Phosphatase In Complex With Maybridge Fragment Cc27209
pdb|4DT2|C Chain C, Crystal Structure Of Red Kidney Bean Purple Acid
Phosphatase In Complex With Maybridge Fragment Cc27209
pdb|4DT2|D Chain D, Crystal Structure Of Red Kidney Bean Purple Acid
Phosphatase In Complex With Maybridge Fragment Cc27209
pdb|4DHL|A Chain A, Crystal Structure Of Red Kidney Bean Purple Acid
Phosphatase In Complex With Maybridge Fragment Mo07123
pdb|4DHL|B Chain B, Crystal Structure Of Red Kidney Bean Purple Acid
Phosphatase In Complex With Maybridge Fragment Mo07123
pdb|4DHL|D Chain D, Crystal Structure Of Red Kidney Bean Purple Acid
Phosphatase In Complex With Maybridge Fragment Mo07123
pdb|4DHL|C Chain C, Crystal Structure Of Red Kidney Bean Purple Acid
Phosphatase In Complex With Maybridge Fragment Mo07123
Length = 426
Score = 28.9 bits (63), Expect = 3.3, Method: Compositional matrix adjust.
Identities = 16/54 (29%), Positives = 26/54 (48%)
Query: 104 ELRRHNYKSCVFPNKTSASYQDHRHHRTRSGRGMSMGQKISNGVKTVNRESSAP 157
E R +++ K + H H RS R ++ KI+NG+ T ++ SAP
Sbjct: 295 EAMRTKFEAWFVKYKVDVVFAGHVHAYERSERVSNIAYKITNGLCTPVKDQSAP 348
>pdb|2RHE|A Chain A, Structure Of A Novel Bence-Jones Protein (Rhe) Fragment
At 1.6 Angstroms Resolution
Length = 114
Score = 28.1 bits (61), Expect = 4.9, Method: Compositional matrix adjust.
Identities = 14/42 (33%), Positives = 22/42 (52%)
Query: 3 PNNVKDIPMEVDDFQSSGLSAQFSAELDRVALAIAIRGLEEE 44
P + + +D SG+S +FSA + ++AI GLE E
Sbjct: 41 PGKAPKLLIYYNDLLPSGVSDRFSASKSGTSASLAISGLESE 82
>pdb|3G04|A Chain A, Crystal Structure Of The Tsh Receptor In Complex With A
Thyroid- Stimulating Autoantibody
Length = 216
Score = 28.1 bits (61), Expect = 5.6, Method: Compositional matrix adjust.
Identities = 14/42 (33%), Positives = 22/42 (52%)
Query: 3 PNNVKDIPMEVDDFQSSGLSAQFSAELDRVALAIAIRGLEEE 44
P + + DD SG+S +FS + ++AIRGL+ E
Sbjct: 41 PGKAPKLLIYYDDQLPSGVSDRFSGSRSGTSASLAIRGLQSE 82
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 0.135 0.413
Lambda K H
0.267 0.0410 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Hits to DB: 8,092,277
Number of Sequences: 62578
Number of extensions: 308606
Number of successful extensions: 938
Number of sequences better than 100.0: 18
Number of HSP's better than 100.0 without gapping: 14
Number of HSP's successfully gapped in prelim test: 4
Number of HSP's that attempted gapping in prelim test: 921
Number of HSP's gapped (non-prelim): 18
length of query: 272
length of database: 14,973,337
effective HSP length: 97
effective length of query: 175
effective length of database: 8,903,271
effective search space: 1558072425
effective search space used: 1558072425
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)