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= 017210
(375 letters)
Database: pdbaa
62,578 sequences; 14,973,337 total letters
Searching..................................................done
>pdb|2XRI|A Chain A, Crystal Structure Of Human Eri1 Exoribonuclease 3
Length = 224
Score = 144 bits (363), Expect = 7e-35, Method: Compositional matrix adjust.
Identities = 80/211 (37%), Positives = 122/211 (57%), Gaps = 5/211 (2%)
Query: 79 DFGSWSTFYPD-SQKPQEFQYFVVIDFEATCDKDKNPYPQEIIEFPSVIVSSVTGQLEAC 137
D G+ + ++ S PQ + YF+V+DFEATCDK + +PQEIIEFP + ++ T ++E+
Sbjct: 12 DLGTENLYFQSMSFPPQRYHYFLVLDFEATCDKPQI-HPQEIIEFPILKLNGRTMEIEST 70
Query: 138 FQTYVRPTCNQLLSDFCKDLTGIQQIQVDRGVTLSEALLRHDKWLENKGIKNTNF--AVV 195
F YV+P + L+ FC +LTGI Q VD +L + L R D+W+ +G+ + N V
Sbjct: 71 FHMYVQPVVHPQLTPFCTELTGIIQAMVDGQPSLQQVLERVDEWMAKEGLLDPNVKSIFV 130
Query: 196 TWSNWDCRVMLESECRFKKIWKPPYFNRWINLKVPFHEVFGG-VRCNLKEAVEMAGLAWQ 254
T +WD +VML +C++ + YF +WINLK + G + L + + L
Sbjct: 131 TCGDWDLKVMLPGQCQYLGLPVADYFKQWINLKKAYSFAMGCWPKNGLLDMNKGLSLQHI 190
Query: 255 GRAHCGLDDAKNTARLLALLMHRGFKFSITN 285
GR H G+DD KN A ++ L +RGF F T+
Sbjct: 191 GRPHSGIDDCKNIANIMKTLAYRGFIFKQTS 221
>pdb|4HXH|B Chain B, Structure Of Mrna Stem-loop, Human Stem-loop Binding
Protein And 3'hexo Ternary Complex
pdb|4HXH|E Chain E, Structure Of Mrna Stem-loop, Human Stem-loop Binding
Protein And 3'hexo Ternary Complex
Length = 303
Score = 136 bits (343), Expect = 2e-32, Method: Compositional matrix adjust.
Identities = 71/192 (36%), Positives = 107/192 (55%), Gaps = 4/192 (2%)
Query: 96 FQYFVVIDFEATCDKDKNP-YPQEIIEFPSVIVSSVTGQLEACFQTYVRPTCNQLLSDFC 154
+ Y +IDFEATC++ P + EIIEFP V++++ T ++E FQ YVRP N LSDFC
Sbjct: 73 YDYICIIDFEATCEEGNPPEFVHEIIEFPVVLLNTHTLEIEDTFQQYVRPEINTQLSDFC 132
Query: 155 KDLTGIQQIQVDRGVTLSEALLRHDKWLENKGIKNT-NFAVVTWSNWDCRVMLESECRFK 213
LTGI Q QVDR T + L + W + K + ++++T +WD L +C+
Sbjct: 133 ISLTGITQDQVDRADTFPQVLKKVIDWXKLKELGTKYKYSLLTDGSWDXSKFLNIQCQLS 192
Query: 214 KIWKPPYFNRWINLKVPFHEVFGGVRCNLKEAV--EMAGLAWQGRAHCGLDDAKNTARLL 271
++ PP+ +WIN++ + + R K + E G + GR HCGLDD+KN AR+
Sbjct: 193 RLKYPPFAKKWINIRKSYGNFYKVPRSQTKLTIXLEKLGXDYDGRPHCGLDDSKNIARIA 252
Query: 272 ALLMHRGFKFSI 283
+ G + I
Sbjct: 253 VRXLQDGCELRI 264
>pdb|1W0H|A Chain A, Crystallographic Structure Of The Nuclease Domain Of
3'hexo, A Deddh Family Member, Bound To Ramp
Length = 204
Score = 135 bits (341), Expect = 3e-32, Method: Compositional matrix adjust.
Identities = 71/192 (36%), Positives = 107/192 (55%), Gaps = 4/192 (2%)
Query: 96 FQYFVVIDFEATCDKDKNP-YPQEIIEFPSVIVSSVTGQLEACFQTYVRPTCNQLLSDFC 154
+ Y +IDFEATC++ P + EIIEFP V++++ T ++E FQ YVRP N LSDFC
Sbjct: 9 YDYICIIDFEATCEEGNPPEFVHEIIEFPVVLLNTHTLEIEDTFQQYVRPEINTQLSDFC 68
Query: 155 KDLTGIQQIQVDRGVTLSEALLRHDKWLENKGIKNT-NFAVVTWSNWDCRVMLESECRFK 213
LTGI Q QVDR T + L + W + K + ++++T +WD L +C+
Sbjct: 69 ISLTGITQDQVDRADTFPQVLKKVIDWXKLKELGTKYKYSLLTDGSWDXSKFLNIQCQLS 128
Query: 214 KIWKPPYFNRWINLKVPFHEVFGGVRCNLKEAV--EMAGLAWQGRAHCGLDDAKNTARLL 271
++ PP+ +WIN++ + + R K + E G + GR HCGLDD+KN AR+
Sbjct: 129 RLKYPPFAKKWINIRKSYGNFYKVPRSQTKLTIXLEKLGXDYDGRPHCGLDDSKNIARIA 188
Query: 272 ALLMHRGFKFSI 283
+ G + I
Sbjct: 189 VRXLQDGCELRI 200
>pdb|1ZBH|A Chain A, 3'-End Specific Recognition Of Histone Mrna Stem-Loop By
3'- Exonuclease
pdb|1ZBH|B Chain B, 3'-End Specific Recognition Of Histone Mrna Stem-Loop By
3'- Exonuclease
pdb|1ZBH|C Chain C, 3'-End Specific Recognition Of Histone Mrna Stem-Loop By
3'- Exonuclease
pdb|1ZBH|D Chain D, 3'-End Specific Recognition Of Histone Mrna Stem-Loop By
3'- Exonuclease
Length = 299
Score = 135 bits (339), Expect = 5e-32, Method: Compositional matrix adjust.
Identities = 69/196 (35%), Positives = 110/196 (56%), Gaps = 4/196 (2%)
Query: 96 FQYFVVIDFEATCDKDKNP-YPQEIIEFPSVIVSSVTGQLEACFQTYVRPTCNQLLSDFC 154
+ Y +IDFEATC++ P + EIIEFP V++++ T ++E FQ YVRP N LSDFC
Sbjct: 77 YDYICIIDFEATCEEGNPPEFVHEIIEFPVVLLNTHTLEIEDTFQQYVRPEINTQLSDFC 136
Query: 155 KDLTGIQQIQVDRGVTLSEALLRHDKWLENKGIKNT-NFAVVTWSNWDCRVMLESECRFK 213
LTGI Q QVDR T + L + ++ K + ++++T +WD L +C+
Sbjct: 137 ISLTGITQDQVDRADTFPQVLKKVIDLMKLKELGTKYKYSLLTDGSWDMSKFLNIQCQLS 196
Query: 214 KIWKPPYFNRWINLKVPFHEVFGGVRCNLKEAV--EMAGLAWQGRAHCGLDDAKNTARLL 271
++ PP+ +WIN++ + + R K + E G+ + GR +CGLDD+KN AR+
Sbjct: 197 RLKYPPFAKKWINIRKSYGNFYKVPRSQTKLTIMLEKLGMDYDGRPNCGLDDSKNIARIA 256
Query: 272 ALLMHRGFKFSITNSL 287
++ G + I +
Sbjct: 257 VRMLQDGCELRINEKM 272
>pdb|1ZBU|A Chain A, Crystal Structure Of Full-Length 3'-Exonuclease
pdb|1ZBU|B Chain B, Crystal Structure Of Full-Length 3'-Exonuclease
pdb|1ZBU|C Chain C, Crystal Structure Of Full-Length 3'-Exonuclease
pdb|1ZBU|D Chain D, Crystal Structure Of Full-Length 3'-Exonuclease
Length = 349
Score = 133 bits (334), Expect = 2e-31, Method: Compositional matrix adjust.
Identities = 70/192 (36%), Positives = 106/192 (55%), Gaps = 4/192 (2%)
Query: 96 FQYFVVIDFEATCDKDKNP-YPQEIIEFPSVIVSSVTGQLEACFQTYVRPTCNQLLSDFC 154
+ Y +IDFEATC++ P + EIIEFP V++++ T ++E FQ YVRP N LSDFC
Sbjct: 127 YDYICIIDFEATCEEGNPPEFVHEIIEFPVVLLNTHTLEIEDTFQQYVRPEINTQLSDFC 186
Query: 155 KDLTGIQQIQVDRGVTLSEALLRHDKWLENKGIKNT-NFAVVTWSNWDCRVMLESECRFK 213
LTGI Q QVDR T + L + + K + ++++T +WD L +C+
Sbjct: 187 ISLTGITQDQVDRADTFPQVLKKVIDLXKLKELGTKYKYSLLTDGSWDXSKFLNIQCQLS 246
Query: 214 KIWKPPYFNRWINLKVPFHEVFGGVRCNLKEAV--EMAGLAWQGRAHCGLDDAKNTARLL 271
++ PP+ +WIN++ + + R K + E G + GR HCGLDD+KN AR+
Sbjct: 247 RLKYPPFAKKWINIRKSYGNFYKVPRSQTKLTIXLEKLGXDYDGRPHCGLDDSKNIARIA 306
Query: 272 ALLMHRGFKFSI 283
+ G + I
Sbjct: 307 VRXLQDGCELRI 318
>pdb|3CG7|A Chain A, Crystal Structure Of Cell-Death Related Nuclease 4 (Crn-4)
pdb|3CG7|B Chain B, Crystal Structure Of Cell-Death Related Nuclease 4 (Crn-4)
pdb|3CM5|A Chain A, Crystal Structure Of Cell-Death Related Nuclease 4 (Crn-4)
Bound With Mn
pdb|3CM5|B Chain B, Crystal Structure Of Cell-Death Related Nuclease 4 (Crn-4)
Bound With Mn
pdb|3CM6|A Chain A, Crystal Structure Of Cell-Death Related Nuclease 4 (Crn-4)
Bound With Er
pdb|3CM6|B Chain B, Crystal Structure Of Cell-Death Related Nuclease 4 (Crn-4)
Bound With Er
Length = 308
Score = 87.8 bits (216), Expect = 9e-18, Method: Compositional matrix adjust.
Identities = 56/201 (27%), Positives = 88/201 (43%), Gaps = 9/201 (4%)
Query: 96 FQYFVVIDFEATCDKDKNPYPQEIIEFPSVIVSSVTGQL--EACFQTYVRPTCNQLLSDF 153
F +++DFE T D YP E+I+F V ++ + F YV+P N+ L+
Sbjct: 18 FDTLLILDFETTSDAANQDYPCEVIQFAIVAYDVPNDKIREDISFNKYVKPVLNRTLTKN 77
Query: 154 CKDLTGIQQIQVDRGVTLSEALLRHDKWLENKGIKNTNFAVVTWSNWDCRVMLESECRFK 213
C D TGI Q +D T + +WL G++ FA V S D + + + +
Sbjct: 78 CVDFTGIPQRSIDTADTFDVVYEQFQQWLITLGLEEGKFAFVCDSRQDLWRIAQYQMKLS 137
Query: 214 KIWKPPYFNRWINLKVPFHEVFG-------GVRCNLKEAVEMAGLAWQGRAHCGLDDAKN 266
I P +F ++INL F N+ + E L GRAH +DD N
Sbjct: 138 NIQMPAFFRQYINLYKIFTNEMDRMGPKELSATTNIGKMNEYYDLPTIGRAHDAMDDCLN 197
Query: 267 TARLLALLMHRGFKFSITNSL 287
A +L +++ G K ++ L
Sbjct: 198 IATILQRMINMGAKVTVNELL 218
>pdb|3HHS|B Chain B, Crystal Structure Of Manduca Sexta Prophenoloxidase
Length = 684
Score = 29.3 bits (64), Expect = 3.6, Method: Compositional matrix adjust.
Identities = 24/94 (25%), Positives = 42/94 (44%), Gaps = 7/94 (7%)
Query: 40 LKDDTIVHPGGDAGESIHQLSSEFVEYSNEFYNNPTYQH--DFGSWSTFYPDSQKPQEFQ 97
L + +I+ P +H + F Y+++ P ++H FG + P ++
Sbjct: 348 LMESSIISPNRGYYGDLHNMGHVFAAYTHD----PDHRHLEQFGVMGDSATAMRDPFFYR 403
Query: 98 YFVVIDFEATCDKDK-NPYPQEIIEFPSVIVSSV 130
+ +D K+K PY E ++FP V VSSV
Sbjct: 404 WHRFVDDVFNIYKEKLTPYTNERLDFPGVRVSSV 437
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 0.136 0.447
Lambda K H
0.267 0.0410 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Hits to DB: 12,400,161
Number of Sequences: 62578
Number of extensions: 521906
Number of successful extensions: 953
Number of sequences better than 100.0: 7
Number of HSP's better than 100.0 without gapping: 6
Number of HSP's successfully gapped in prelim test: 1
Number of HSP's that attempted gapping in prelim test: 930
Number of HSP's gapped (non-prelim): 7
length of query: 375
length of database: 14,973,337
effective HSP length: 100
effective length of query: 275
effective length of database: 8,715,537
effective search space: 2396772675
effective search space used: 2396772675
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: 52 (24.6 bits)