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= 048636
(150 letters)
Database: pdbaa
62,578 sequences; 14,973,337 total letters
Searching..................................................done
>pdb|2P51|A Chain A, Crystal Structure Of The S. Pombe Pop2p Deadenylation
Subunit
pdb|3G0Z|A Chain A, Structure Of S. Pombe Pop2p - Zn2+ And Mn2+ Bound Form
pdb|3G10|A Chain A, Structure Of S. Pombe Pop2p - Mg2+ And Mn2+ Bound Form
Length = 333
Score = 110 bits (274), Expect = 4e-25, Method: Compositional matrix adjust.
Identities = 60/127 (47%), Positives = 81/127 (63%), Gaps = 16/127 (12%)
Query: 25 REVWASNLESEFELISQVIDRYPFISMDTEFPGLVYRP-DVDPSTRPYFRQRKPSDHYKV 83
R+VW++NL+ E LI +I+RYP +SMDTEFPG+V RP V S+ Y HY+
Sbjct: 24 RDVWSTNLQQEMNLIMSLIERYPVVSMDTEFPGVVARPLGVFKSSDDY--------HYQT 75
Query: 84 LKSNVDALNLIQVGLTLSDSSGNLPDLGSGGNNKFIWEFNFRDFDVATDAHAPDSIELLR 143
L++NVD+L +IQ+GL LSD GN P W+FNF F++ D +AP+SIELL
Sbjct: 76 LRANVDSLKIIQIGLALSDEEGNAPV------EACTWQFNFT-FNLQDDMYAPESIELLT 128
Query: 144 LQGIDFE 150
GIDF+
Sbjct: 129 KSGIDFK 135
>pdb|4GMJ|B Chain B, Structure Of Human Not1 Mif4g Domain Co-Crystallized With
Caf1
pdb|4GMJ|D Chain D, Structure Of Human Not1 Mif4g Domain Co-Crystallized With
Caf1
pdb|4GMJ|F Chain F, Structure Of Human Not1 Mif4g Domain Co-Crystallized With
Caf1
Length = 285
Score = 96.7 bits (239), Expect = 4e-21, Method: Compositional matrix adjust.
Identities = 54/126 (42%), Positives = 75/126 (59%), Gaps = 16/126 (12%)
Query: 26 EVWASNLESEFELISQVIDRYPFISMDTEFPGLVYRPDVDPSTRPYFRQRKPSDH-YKVL 84
EVWA NL+ E + I QVI +Y +++MDTEFPG+V RP R +D+ Y++L
Sbjct: 14 EVWACNLDEEMKKIRQVIRKYNYVAMDTEFPGVV--------ARPIGEFRSNADYQYQLL 65
Query: 85 KSNVDALNLIQVGLTLSDSSGNLPDLGSGGNNKFIWEFNFRDFDVATDAHAPDSIELLRL 144
+ NVD L +IQ+GLT + G P S W+FNF+ F++ D +A DSIELL
Sbjct: 66 RCNVDLLKIIQLGLTFMNEQGEYPPGTS------TWQFNFK-FNLTEDMYAQDSIELLTT 118
Query: 145 QGIDFE 150
GI F+
Sbjct: 119 SGIQFK 124
>pdb|2D5R|A Chain A, Crystal Structure Of A Tob-Hcaf1 Complex
Length = 252
Score = 96.3 bits (238), Expect = 6e-21, Method: Compositional matrix adjust.
Identities = 54/126 (42%), Positives = 75/126 (59%), Gaps = 16/126 (12%)
Query: 26 EVWASNLESEFELISQVIDRYPFISMDTEFPGLVYRPDVDPSTRPYFRQRKPSDH-YKVL 84
EVWA NL+ E + I QVI +Y +++MDTEFPG+V RP R +D+ Y++L
Sbjct: 4 EVWACNLDEEMKKIRQVIRKYNYVAMDTEFPGVV--------ARPIGEFRSNADYQYQLL 55
Query: 85 KSNVDALNLIQVGLTLSDSSGNLPDLGSGGNNKFIWEFNFRDFDVATDAHAPDSIELLRL 144
+ NVD L +IQ+GLT + G P S W+FNF+ F++ D +A DSIELL
Sbjct: 56 RCNVDLLKIIQLGLTFMNEQGEYPPGTS------TWQFNFK-FNLTEDMYAQDSIELLTT 108
Query: 145 QGIDFE 150
GI F+
Sbjct: 109 SGIQFK 114
>pdb|4B8A|B Chain B, Structure Of Yeast Not1 Mif4g Domain Co-Crystallized With
Caf1
Length = 286
Score = 95.5 bits (236), Expect = 1e-20, Method: Compositional matrix adjust.
Identities = 56/126 (44%), Positives = 79/126 (62%), Gaps = 13/126 (10%)
Query: 25 REVWASNLESEFELISQVIDRYPFISMDTEFPGLVYRPDVDPSTRPYFRQRKPSDHYKVL 84
R+VW SNL SEF +I Q++ +Y +S+ TEF G + RP FR K HY+ +
Sbjct: 14 RDVWKSNLYSEFAVIRQLVSQYNHVSISTEFVGTLARPIGT------FRS-KVDYHYQTM 66
Query: 85 KSNVDALNLIQVGLTLSDSSGNLPDLGSGGNNKFIWEFNFRDFDVATDAHAPDSIELLRL 144
++NVD LN IQ+GL+LSD++GN PD G W+FNF +FD + + +S+ELLR
Sbjct: 67 RANVDFLNPIQLGLSLSDANGNKPDNGPS-----TWQFNF-EFDPKKEIMSTESLELLRK 120
Query: 145 QGIDFE 150
GI+FE
Sbjct: 121 SGINFE 126
>pdb|1UOC|A Chain A, X-Ray Structure Of The Rnase Domain Of The Yeast Pop2
Protein
pdb|1UOC|B Chain B, X-Ray Structure Of The Rnase Domain Of The Yeast Pop2
Protein
Length = 289
Score = 95.5 bits (236), Expect = 1e-20, Method: Compositional matrix adjust.
Identities = 56/126 (44%), Positives = 79/126 (62%), Gaps = 13/126 (10%)
Query: 25 REVWASNLESEFELISQVIDRYPFISMDTEFPGLVYRPDVDPSTRPYFRQRKPSDHYKVL 84
R+VW SNL SEF +I Q++ +Y +S+ TEF G + RP FR K HY+ +
Sbjct: 17 RDVWKSNLYSEFAVIRQLVSQYNHVSISTEFVGTLARPIGT------FRS-KVDYHYQTM 69
Query: 85 KSNVDALNLIQVGLTLSDSSGNLPDLGSGGNNKFIWEFNFRDFDVATDAHAPDSIELLRL 144
++NVD LN IQ+GL+LSD++GN PD G W+FNF +FD + + +S+ELLR
Sbjct: 70 RANVDFLNPIQLGLSLSDANGNKPDNGPS-----TWQFNF-EFDPKKEIMSTESLELLRK 123
Query: 145 QGIDFE 150
GI+FE
Sbjct: 124 SGINFE 129
>pdb|4B8C|A Chain A, Nuclease Module Of The Yeast Ccr4-Not Complex
pdb|4B8C|C Chain C, Nuclease Module Of The Yeast Ccr4-Not Complex
pdb|4B8C|E Chain E, Nuclease Module Of The Yeast Ccr4-Not Complex
pdb|4B8C|F Chain F, Nuclease Module Of The Yeast Ccr4-Not Complex
Length = 288
Score = 95.5 bits (236), Expect = 1e-20, Method: Compositional matrix adjust.
Identities = 56/126 (44%), Positives = 79/126 (62%), Gaps = 13/126 (10%)
Query: 25 REVWASNLESEFELISQVIDRYPFISMDTEFPGLVYRPDVDPSTRPYFRQRKPSDHYKVL 84
R+VW SNL SEF +I Q++ +Y +S+ TEF G + RP FR K HY+ +
Sbjct: 16 RDVWKSNLYSEFAVIRQLVSQYNHVSISTEFVGTLARPIGT------FRS-KVDYHYQTM 68
Query: 85 KSNVDALNLIQVGLTLSDSSGNLPDLGSGGNNKFIWEFNFRDFDVATDAHAPDSIELLRL 144
++NVD LN IQ+GL+LSD++GN PD G W+FNF +FD + + +S+ELLR
Sbjct: 69 RANVDFLNPIQLGLSLSDANGNKPDNGPS-----TWQFNF-EFDPKKEIMSTESLELLRK 122
Query: 145 QGIDFE 150
GI+FE
Sbjct: 123 SGINFE 128
>pdb|2A1R|A Chain A, Crystal Structure Of Parn Nuclease Domain
pdb|2A1R|B Chain B, Crystal Structure Of Parn Nuclease Domain
pdb|2A1S|A Chain A, Crystal Structure Of Native Parn Nuclease Domain
pdb|2A1S|B Chain B, Crystal Structure Of Native Parn Nuclease Domain
pdb|2A1S|C Chain C, Crystal Structure Of Native Parn Nuclease Domain
pdb|2A1S|D Chain D, Crystal Structure Of Native Parn Nuclease Domain
Length = 430
Score = 36.6 bits (83), Expect = 0.006, Method: Compositional matrix adjust.
Identities = 37/133 (27%), Positives = 55/133 (41%), Gaps = 20/133 (15%)
Query: 26 EVWASNLESEFELISQVIDRYPFISMDTEFPGLVYRPDVDPSTRPYFRQRKPSDHYKVLK 85
E+ SN +S + Q I+ F ++D EF G+ P V T + P + Y+ LK
Sbjct: 2 EIIRSNFKSNLHKVYQAIEEADFFAIDGEFSGISDGPSVSALTNGF---DTPEERYQKLK 58
Query: 86 SNVDALNLIQVGLTLSDSSGNLPDLGSGGNNKFIWE-FNFRDFDVATDAHAPD------- 137
+ L Q GL ++K+I + FNF F + +PD
Sbjct: 59 KHSMDFLLFQFGLCTFKYDYT--------DSKYITKSFNFYVFPKPFNRSSPDVKFVCQS 110
Query: 138 -SIELLRLQGIDF 149
SI+ L QG DF
Sbjct: 111 SSIDFLASQGFDF 123
>pdb|3D45|A Chain A, Crystal Structure Of Mouse Parn In Complex With M7gpppg
pdb|3D45|B Chain B, Crystal Structure Of Mouse Parn In Complex With M7gpppg
Length = 507
Score = 32.0 bits (71), Expect = 0.15, Method: Compositional matrix adjust.
Identities = 34/132 (25%), Positives = 48/132 (36%), Gaps = 18/132 (13%)
Query: 26 EVWASNLESEFELISQVIDRYPFISMDTEFPGLVYRPDVDPSTRPYFRQRKPSDHYKVLK 85
E+ SN + + Q I+ F ++D EF G+ P V T + P + Y+ LK
Sbjct: 4 EIIRSNFKINLHKVYQAIEEADFFAIDGEFSGISDGPSVTALTSGF---DTPEERYQKLK 60
Query: 86 SNVDALNLIQVGLTLSDSSGNLPDLGSGGNNKFIWEFNFRDFDVATDAHAPD-------- 137
+ L Q GL + FNF F +PD
Sbjct: 61 KHSMDFLLFQFGLCAFKYDHT-------DSKHVTKSFNFYVFPKPFSRSSPDVKFVCQSS 113
Query: 138 SIELLRLQGIDF 149
SI+ L QG DF
Sbjct: 114 SIDFLASQGFDF 125
>pdb|3ZUA|A Chain A, A C39-Like Domain
Length = 142
Score = 27.7 bits (60), Expect = 2.6, Method: Compositional matrix adjust.
Identities = 14/35 (40%), Positives = 21/35 (60%), Gaps = 4/35 (11%)
Query: 29 ASNLESEFELISQVIDRYPFISMDTEFPGLVYRPD 63
A +LE + + + + IDR FIS+ P LV+R D
Sbjct: 55 AKSLELKVKQVKKTIDRLNFISL----PALVWRED 85
>pdb|2HUO|A Chain A, Crystal Structure Of Mouse Myo-Inositol Oxygenase In
Complex With Substrate
pdb|3BXD|A Chain A, Crystal Structure Of Mouse Myo-Inositol Oxygenase
(Re-Refined)
Length = 289
Score = 25.8 bits (55), Expect = 9.0, Method: Compositional matrix adjust.
Identities = 10/11 (90%), Positives = 10/11 (90%)
Query: 56 PGLVYRPDVDP 66
P LVYRPDVDP
Sbjct: 13 PSLVYRPDVDP 23
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
0.318 0.139 0.416
Lambda K H
0.267 0.0410 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Hits to DB: 4,480,213
Number of Sequences: 62578
Number of extensions: 172320
Number of successful extensions: 417
Number of sequences better than 100.0: 10
Number of HSP's better than 100.0 without gapping: 9
Number of HSP's successfully gapped in prelim test: 1
Number of HSP's that attempted gapping in prelim test: 396
Number of HSP's gapped (non-prelim): 10
length of query: 150
length of database: 14,973,337
effective HSP length: 90
effective length of query: 60
effective length of database: 9,341,317
effective search space: 560479020
effective search space used: 560479020
T: 11
A: 40
X1: 16 ( 7.4 bits)
X2: 38 (14.6 bits)
X3: 64 (24.7 bits)
S1: 41 (21.7 bits)
S2: 47 (22.7 bits)