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= psy1277
(1312 letters)
Database: pdbaa
62,578 sequences; 14,973,337 total letters
Searching..................................................done
>pdb|4GMJ|A Chain A, Structure Of Human Not1 Mif4g Domain Co-Crystallized With
Caf1
pdb|4GMJ|C Chain C, Structure Of Human Not1 Mif4g Domain Co-Crystallized With
Caf1
pdb|4GMJ|E Chain E, Structure Of Human Not1 Mif4g Domain Co-Crystallized With
Caf1
Length = 229
Score = 178 bits (452), Expect = 1e-44, Method: Compositional matrix adjust.
Identities = 103/191 (53%), Positives = 125/191 (65%), Gaps = 11/191 (5%)
Query: 1 MKRASIEFNFHVLYSNFLDEIKLPDVTDMVIKETYRNIKVLLRSDKGIANFSDRTLLKNL 60
MKR SIE NFH LYSNFLD +K P+ MV+ ETYRNIKVLL SDK ANFSDR+LLKNL
Sbjct: 48 MKRVSIEPNFHSLYSNFLDTLKNPEFNKMVLNETYRNIKVLLTSDKAAANFSDRSLLKNL 107
Query: 61 GHWLGMLTLGRNRPILMVDLDLKSLVAEAYKKGQQELLYVVPFVAKVMESCSRSKLISEV 120
GHWLGM+TL +N+PIL DLD+KSL+ EAY KGQQELLYVVPFVAKV+ES RS +
Sbjct: 108 GHWLGMITLAKNKPILHTDLDVKSLLLEAYVKGQQELLYVVPFVAKVLESSIRSVVFRPP 167
Query: 121 EIFLASLVTLVGV--QNTLLPSSLHALIEALVALRRTRDAHSAVALIQKDLVPSYYLKDP 178
+ +++ ++ Q L +L IE L +AL +L P LKD
Sbjct: 168 NPWTMAIMNVLAELHQEHDLKLNLKFEIEVLC---------KNLALDINELKPGNLLKDK 218
Query: 179 DNLKFSELQLA 189
D LK + QL+
Sbjct: 219 DRLKNLDEQLS 229
>pdb|4GML|A Chain A, Crystal Structure Of Human Not1 Mif4g Domain
pdb|4GML|B Chain B, Crystal Structure Of Human Not1 Mif4g Domain
pdb|4GML|C Chain C, Crystal Structure Of Human Not1 Mif4g Domain
pdb|4GML|D Chain D, Crystal Structure Of Human Not1 Mif4g Domain
pdb|4GML|E Chain E, Crystal Structure Of Human Not1 Mif4g Domain
pdb|4GML|F Chain F, Crystal Structure Of Human Not1 Mif4g Domain
Length = 235
Score = 178 bits (452), Expect = 2e-44, Method: Compositional matrix adjust.
Identities = 103/191 (53%), Positives = 125/191 (65%), Gaps = 11/191 (5%)
Query: 1 MKRASIEFNFHVLYSNFLDEIKLPDVTDMVIKETYRNIKVLLRSDKGIANFSDRTLLKNL 60
MKR SIE NFH LYSNFLD +K P+ MV+ ETYRNIKVLL SDK ANFSDR+LLKNL
Sbjct: 54 MKRVSIEPNFHSLYSNFLDTLKNPEFNKMVLNETYRNIKVLLTSDKAAANFSDRSLLKNL 113
Query: 61 GHWLGMLTLGRNRPILMVDLDLKSLVAEAYKKGQQELLYVVPFVAKVMESCSRSKLISEV 120
GHWLGM+TL +N+PIL DLD+KSL+ EAY KGQQELLYVVPFVAKV+ES RS +
Sbjct: 114 GHWLGMITLAKNKPILHTDLDVKSLLLEAYVKGQQELLYVVPFVAKVLESSIRSVVFRPP 173
Query: 121 EIFLASLVTLVGV--QNTLLPSSLHALIEALVALRRTRDAHSAVALIQKDLVPSYYLKDP 178
+ +++ ++ Q L +L IE L +AL +L P LKD
Sbjct: 174 NPWTMAIMNVLAELHQEHDLKLNLKFEIEVLC---------KNLALDINELKPGNLLKDK 224
Query: 179 DNLKFSELQLA 189
D LK + QL+
Sbjct: 225 DRLKNLDEQLS 235
>pdb|4B89|A Chain A, Mif4g Domain Of The Yeast Not1
pdb|4B8A|A Chain A, Structure Of Yeast Not1 Mif4g Domain Co-Crystallized With
Caf1
pdb|4B8C|B Chain B, Nuclease Module Of The Yeast Ccr4-Not Complex
pdb|4B8C|G Chain G, Nuclease Module Of The Yeast Ccr4-Not Complex
pdb|4B8C|H Chain H, Nuclease Module Of The Yeast Ccr4-Not Complex
pdb|4B8C|I Chain I, Nuclease Module Of The Yeast Ccr4-Not Complex
Length = 249
Score = 69.3 bits (168), Expect = 1e-11, Method: Compositional matrix adjust.
Identities = 53/178 (29%), Positives = 86/178 (48%), Gaps = 11/178 (6%)
Query: 2 KRASIEFNFHVLYSNFLDEIKLPDVTDMVIKETYRNIKVLLRSDKGIANFSDRTLLKNLG 61
+RA E N+H LYS + + + ++ T R + VLL + A D+ LKNL
Sbjct: 76 QRAKTEPNYHDLYSKVIVAMGSGLLHQFMVNVTLRQLFVLLSTKDEQA--IDKKHLKNLA 133
Query: 62 HWLGMLTLGRNRPILMVDLDLKSLVAEAYKKGQQELLYVVPFVAKVMESCSRSKLISEVE 121
WLG +TL N+PI ++ + ++ EAYK+ + E+ VVPFV K+++ S SK+
Sbjct: 134 SWLGCITLALNKPIKHKNIAFREMLIEAYKENRLEI--VVPFVTKILQRASESKIFKPPN 191
Query: 122 IFLASLVTLVGVQNTLLPSSLHALIEALVALRRTRDAHSAVALIQKDLVPSYYLKDPD 179
+ ++ L+ N L E V L+ + L K L PS ++ P+
Sbjct: 192 PWTVGILKLLIELNEKANWKLSLTFEVEVLLK-------SFNLTTKSLKPSNFINTPE 242
>pdb|2E7U|A Chain A, Crystal Structure Of Glutamate-1-Semialdehyde
2,1-Aminomutase From Thermus Thermophilus Hb8
Length = 424
Score = 34.3 bits (77), Expect = 0.51, Method: Composition-based stats.
Identities = 40/132 (30%), Positives = 62/132 (46%), Gaps = 22/132 (16%)
Query: 801 LRANHHDQP--MLVERAPGAQTLNSGLPNFSLNAATGPAVHIHSGILQVRGIRDLDDPPG 858
R N+H +LVE GA TL G+P+ +A P + ++ + + +DP G
Sbjct: 140 FRGNYHGHADGLLVEAGSGALTL--GVPS----SAGVPEEYA-----KLTLVLEYNDPEG 188
Query: 859 LFEKTEYLLREWVTIYHSP----AGVKDPNKAFTLFVHQMNCHGILK-SDELITRF---F 910
L E + E I P AGV P + F +H+ +G+L +DE++T F F
Sbjct: 189 LREVLKRRGEEIAAIIFEPVVGNAGVLVPTEDFLKALHEAKAYGVLLIADEVMTGFRLAF 248
Query: 911 RFATSLVVGVSP 922
AT L +G+ P
Sbjct: 249 GGATEL-LGLKP 259
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
0.323 0.136 0.397
Lambda K H
0.267 0.0410 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Hits to DB: 35,532,643
Number of Sequences: 62578
Number of extensions: 1391802
Number of successful extensions: 3179
Number of sequences better than 100.0: 4
Number of HSP's better than 100.0 without gapping: 3
Number of HSP's successfully gapped in prelim test: 1
Number of HSP's that attempted gapping in prelim test: 3174
Number of HSP's gapped (non-prelim): 4
length of query: 1312
length of database: 14,973,337
effective HSP length: 110
effective length of query: 1202
effective length of database: 8,089,757
effective search space: 9723887914
effective search space used: 9723887914
T: 11
A: 40
X1: 16 ( 7.5 bits)
X2: 38 (14.6 bits)
X3: 64 (24.7 bits)
S1: 41 (22.0 bits)
S2: 57 (26.6 bits)