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= psy230
(222 letters)
Database: pdbaa
62,578 sequences; 14,973,337 total letters
Searching..................................................done
>pdb|2NN6|G Chain G, Structure Of The Human Rna Exosome Composed Of Rrp41,
Rrp45, Rrp46, Rrp43, Mtr3, Rrp42, Csl4, Rrp4, And Rrp40
Length = 289
Score = 192 bits (489), Expect = 8e-50, Method: Compositional matrix adjust.
Identities = 94/214 (43%), Positives = 145/214 (67%), Gaps = 13/214 (6%)
Query: 6 LSLNAEP----RLILGPGLRRESSAILVSQSGILRHAKPFT------YYVDYIQRRYVPT 55
LSLNA R++ GPGLRR +LV++ G LRH +P + Y+VD Q+RYVP
Sbjct: 67 LSLNARACSRVRVVCGPGLRRCGDRLLVTKCGRLRHKEPGSGSGGGVYWVDSQQKRYVPV 126
Query: 56 RGDLVIGVVTSRVGDNYRVDIGSHDPAVLSYLAFEGATKKNPPKVETGDVVAGKLLTANK 115
+GD VIG+VT++ GD ++VD+G +PA LSYL+FEGATK+N P V+ GD++ G+ + ANK
Sbjct: 127 KGDHVIGIVTAKSGDIFKVDVGGSEPASLSYLSFEGATKRNRPNVQVGDLIYGQFVVANK 186
Query: 116 DMESEMVCVDSRGKEFIMGIL-NDGYLLHTSISLCRKLLNPKCPLLKQLAKRSRQKMELS 174
DME EMVC+DS G+ MG++ DG L ++ L RKLL P C +++++ K +E+
Sbjct: 187 DMEPEMVCIDSCGRANGMGVIGQDGLLFKVTLGLIRKLLAPDCEIIQEVGK--LYPLEIV 244
Query: 175 IGMNGKIWIRCESFSDTVRVGNLIMSCELLSYEE 208
GMNG+IW++ ++ T+ + N++ +CE ++ ++
Sbjct: 245 FGMNGRIWVKAKTIQQTLILANILEACEHMTSDQ 278
>pdb|4IFD|G Chain G, Crystal Structure Of An 11-subunit Eukaryotic Exosome
Complex Bound To Rna
Length = 242
Score = 140 bits (352), Expect = 7e-34, Method: Compositional matrix adjust.
Identities = 78/211 (36%), Positives = 125/211 (59%), Gaps = 12/211 (5%)
Query: 1 MAGDTLSLNAEPRLILGPGLRRE--SSAILVSQSGILR-----HAKPFTYYVDYIQRRYV 53
GD+ ++ + LGPG+ + + I +G+L + T Y+DY +RY+
Sbjct: 8 FPGDSFPVDPTTPVKLGPGIYCDPNTQEIRPVNTGVLHVSAKGKSGVQTAYIDYSSKRYI 67
Query: 54 PTRGDLVIGVVTSRVGDNYRVDIGSHDPAV-LSYLAFEGATKKNPPKVETGDVVAGKLLT 112
P+ D VIGV+ D+Y+V + + +V LSY+AF A+KKN P ++ GD+V ++ T
Sbjct: 68 PSVNDFVIGVIIGTFSDSYKVSLQNFSSSVSLSYMAFPNASKKNRPTLQVGDLVYARVCT 127
Query: 113 ANKDMESEMVCVDS-RGKEFIMGILNDGYLLHTSISLCRKLL-NPKCPLLKQLAKRSRQK 170
A K++E+E+ C DS G++ GIL DG ++ +++ R+LL N PLLK LA + K
Sbjct: 128 AEKELEAEIECFDSTTGRDAGFGILEDGMIIDVNLNFARQLLFNNDFPLLKVLAAHT--K 185
Query: 171 MELSIGMNGKIWIRCESFSDTVRVGNLIMSC 201
E++IG+NGKIW++CE S+T+ IM C
Sbjct: 186 FEVAIGLNGKIWVKCEELSNTLACYRTIMEC 216
>pdb|2JA9|A Chain A, Structure Of The N-Terminal Deletion Of Yeast Exosome
Component Rrp40
Length = 175
Score = 129 bits (324), Expect = 1e-30, Method: Compositional matrix adjust.
Identities = 65/155 (41%), Positives = 101/155 (65%), Gaps = 5/155 (3%)
Query: 50 RRYVPTRGDLVIGVVTSRVGDNYRVDIGSHDPAV-LSYLAFEGATKKNPPKVETGDVVAG 108
+RY+P+ D VIGV+ D+Y+V + + +V LSY+AF A+KKN P ++ GD+V
Sbjct: 1 KRYIPSVNDFVIGVIIGTFSDSYKVSLQNFSSSVSLSYMAFPNASKKNRPTLQVGDLVYA 60
Query: 109 KLLTANKDMESEMVCVDS-RGKEFIMGILNDGYLLHTSISLCRKLL-NPKCPLLKQLAKR 166
++ TA K++E+E+ C DS G++ GIL DG ++ +++ R+LL N PLLK LA
Sbjct: 61 RVCTAEKELEAEIECFDSTTGRDAGFGILEDGMIIDVNLNFARQLLFNNDFPLLKVLAAH 120
Query: 167 SRQKMELSIGMNGKIWIRCESFSDTVRVGNLIMSC 201
+ K E++IG+NGKIW++CE S+T+ IM C
Sbjct: 121 T--KFEVAIGLNGKIWVKCEELSNTLACYRTIMEC 153
>pdb|2Z0S|A Chain A, Crystal Structure Of Putative Exosome Complex Rna-Binding
Protein
Length = 235
Score = 46.2 bits (108), Expect = 1e-05, Method: Compositional matrix adjust.
Identities = 40/139 (28%), Positives = 68/139 (48%), Gaps = 12/139 (8%)
Query: 52 YVPTRGDLVIGVVTSRVGDNYRVDIGSHDPAVLSYLAFEG-----ATKKNPPKVETGDVV 106
YVP GD+VIG++ S N+ VDI S AVLS F G A ++ GD +
Sbjct: 62 YVPQAGDVVIGLIQSVGIMNWFVDINSPYVAVLSVQDFLGRPFNPAVDDMQSLLKVGDYI 121
Query: 107 AGKLLTANKDMESEMVCVDSRGKEFIMGILNDGYLLHTSISLCRKLLNPKCPLLKQLAKR 166
K++ +K S ++ V G +G + G ++ S + +++ K +LK L ++
Sbjct: 122 KAKVVAFDK-TRSPLLTVQGEG----LGRIVRGKIVEISPAKVPRVIGRKMSMLKTLEEK 176
Query: 167 SRQKMELSIGMNGKIWIRC 185
+ K + + NG+I + C
Sbjct: 177 TECK--IFVARNGRIHLEC 193
>pdb|2BA0|A Chain A, Archaeal Exosome Core
pdb|2BA0|B Chain B, Archaeal Exosome Core
pdb|2BA0|C Chain C, Archaeal Exosome Core
Length = 229
Score = 44.7 bits (104), Expect = 4e-05, Method: Compositional matrix adjust.
Identities = 47/191 (24%), Positives = 84/191 (43%), Gaps = 25/191 (13%)
Query: 1 MAGDTLSLNAEPRLILGPGLRRESSAILVSQSGILRHAKPFTYYVDYIQRRYVPTRGDLV 60
+ GD LS N PR G G E + G+ + + ++ RY P+ GD+V
Sbjct: 6 LPGDLLSTN--PRA-AGYGTYVEGGKVYAKIIGLFDQTETHVRVIP-LKGRYTPSVGDVV 61
Query: 61 IGVVTSRVGDNYRVDIGSHDPAVLSYLAF-------EGATKKNPPKV-ETGDVVAGKLLT 112
IG++ + + VDI S Y AF E K P +V + GD + K+L
Sbjct: 62 IGIIREVAANGWAVDIYS------PYQAFLPVSENPEMKPNKKPNEVLDIGDAIIAKVLN 115
Query: 113 ANKDMESEMVCVDSRGKEFIMGILNDGYLLHTSISLCRKLLNPKCPLLKQLAKRSRQKME 172
+ M+ + K+ I + G ++ + + +++ K ++K L +S ++
Sbjct: 116 IDPKMKVTLTM-----KDRICRPIRFGRIVAINPARVPRVIGKKGSMIKLL--KSELDVQ 168
Query: 173 LSIGMNGKIWI 183
+ +G NG IW+
Sbjct: 169 IVVGQNGLIWV 179
>pdb|3U44|A Chain A, Crystal Structure Of Addab-Dna Complex
pdb|3U4Q|A Chain A, Structure Of Addab-Dna Complex At 2.8 Angstroms
Length = 1232
Score = 33.1 bits (74), Expect = 0.13, Method: Compositional matrix adjust.
Identities = 23/77 (29%), Positives = 37/77 (48%), Gaps = 4/77 (5%)
Query: 101 ETGDVVAGKLLTANKDMESEMVCVDSRGKEFIMGILNDGYLLHTSISLCRKLLNPKC--- 157
E DVV + ++K +E +V V G+ F M LN YLL + K ++P+
Sbjct: 783 EQEDVVRLMTIHSSKGLEFPVVFVAGLGRNFNMMDLNKSYLLDKELGFGTKYIHPQLRIS 842
Query: 158 -PLLKQLAKRSRQKMEL 173
P L +A + + + EL
Sbjct: 843 YPTLPLIAMKKKMRREL 859
>pdb|4IFD|H Chain H, Crystal Structure Of An 11-subunit Eukaryotic Exosome
Complex Bound To Rna
Length = 361
Score = 33.1 bits (74), Expect = 0.13, Method: Compositional matrix adjust.
Identities = 42/155 (27%), Positives = 63/155 (40%), Gaps = 20/155 (12%)
Query: 48 IQRRYVPTRGDLVIGVVTSRVGDNYRVDIGSHDPAVLSYLAFEGATKKNPPKVETGDVVA 107
++ RY P GD V+G + ++VDIG AVL + N P G ++
Sbjct: 102 LKGRYAPETGDHVVGRIAEVGNKRWKVDIGGKQHAVLMLGSV------NLP----GGILR 151
Query: 108 GKLLTANKDMESEMVCVDSRGKEFIMGILNDGYL-LHTSISLCRKLLNPK-CPLLKQLAK 165
K + M S + D E + + DG LHT KL N C + L
Sbjct: 152 RKSESDELQMRSFLKEGDLLNAE-VQSLFQDGSASLHTRSLKYGKLRNGMFCQVPSSLIV 210
Query: 166 RSRQ-------KMELSIGMNGKIWIRCESFSDTVR 193
R++ + + +G+NG IW+R S D R
Sbjct: 211 RAKNHTHNLPGNITVVLGVNGYIWLRKTSQMDLAR 245
>pdb|1E4Y|A Chain A, Mutant P9l Of Adenylate Kinase From E. Coli, Modified In
The Gly-Loop
pdb|1E4Y|B Chain B, Mutant P9l Of Adenylate Kinase From E. Coli, Modified In
The Gly-Loop
Length = 214
Score = 31.6 bits (70), Expect = 0.34, Method: Compositional matrix adjust.
Identities = 16/29 (55%), Positives = 18/29 (62%)
Query: 94 KKNPPKVETGDVVAGKLLTANKDMESEMV 122
K NPPKVE D V G+ LT KD + E V
Sbjct: 136 KFNPPKVEGKDDVTGEELTTRKDDQEETV 164
>pdb|1E4V|A Chain A, Mutant G10v Of Adenylate Kinase From E. Coli, Modified In
The Gly-Loop
pdb|1E4V|B Chain B, Mutant G10v Of Adenylate Kinase From E. Coli, Modified In
The Gly-Loop
Length = 214
Score = 31.6 bits (70), Expect = 0.35, Method: Compositional matrix adjust.
Identities = 16/29 (55%), Positives = 18/29 (62%)
Query: 94 KKNPPKVETGDVVAGKLLTANKDMESEMV 122
K NPPKVE D V G+ LT KD + E V
Sbjct: 136 KFNPPKVEGKDDVTGEELTTRKDDQEETV 164
>pdb|1AKE|A Chain A, Structure Of The Complex Between Adenylate Kinase From
Escherichia Coli And The Inhibitor Ap5a Refined At 1.9
Angstroms Resolution: A Model For A Catalytic Transition
State
pdb|1AKE|B Chain B, Structure Of The Complex Between Adenylate Kinase From
Escherichia Coli And The Inhibitor Ap5a Refined At 1.9
Angstroms Resolution: A Model For A Catalytic Transition
State
pdb|1ANK|A Chain A, The Closed Conformation Of A Highly Flexible Protein: The
Structure Of E. Cloi Adenylate Kinase With Bound Amp And
Amppnp
pdb|1ANK|B Chain B, The Closed Conformation Of A Highly Flexible Protein: The
Structure Of E. Cloi Adenylate Kinase With Bound Amp And
Amppnp
pdb|4AKE|A Chain A, Adenylate Kinase
pdb|4AKE|B Chain B, Adenylate Kinase
pdb|2ECK|A Chain A, Structure Of Phosphotransferase
pdb|2ECK|B Chain B, Structure Of Phosphotransferase
pdb|3HPQ|A Chain A, Crystal Structure Of Wild-Type Adenylate Kinase From E.
Coli, In Complex With Ap5a
pdb|3HPQ|B Chain B, Crystal Structure Of Wild-Type Adenylate Kinase From E.
Coli, In Complex With Ap5a
Length = 214
Score = 31.6 bits (70), Expect = 0.35, Method: Compositional matrix adjust.
Identities = 16/29 (55%), Positives = 18/29 (62%)
Query: 94 KKNPPKVETGDVVAGKLLTANKDMESEMV 122
K NPPKVE D V G+ LT KD + E V
Sbjct: 136 KFNPPKVEGKDDVTGEELTTRKDDQEETV 164
>pdb|1X9R|A Chain A, Umecyanin From Horse Raddish- Crystal Structure Of The
Oxidised Form
pdb|1X9R|B Chain B, Umecyanin From Horse Raddish- Crystal Structure Of The
Oxidised Form
pdb|1X9U|A Chain A, Umecyanin From Horse Raddish- Crystal Structure Of The
Reduced Form
pdb|1X9U|B Chain B, Umecyanin From Horse Raddish- Crystal Structure Of The
Reduced Form
Length = 116
Score = 30.0 bits (66), Expect = 0.96, Method: Compositional matrix adjust.
Identities = 16/35 (45%), Positives = 20/35 (57%), Gaps = 2/35 (5%)
Query: 65 TSRVGDNYRVDI--GSHDPAVLSYLAFEGATKKNP 97
T RVGD D G HD AV++ AF+ K+NP
Sbjct: 29 TFRVGDELEFDFAAGMHDVAVVTKDAFDNCKKENP 63
>pdb|2CIQ|A Chain A, Structure-Based Functional Annotation: Yeast Ymr099c Codes
For A D-Hexose-6-Phosphate Mutarotase
Length = 297
Score = 29.3 bits (64), Expect = 1.6, Method: Compositional matrix adjust.
Identities = 19/52 (36%), Positives = 23/52 (44%), Gaps = 2/52 (3%)
Query: 54 PTRG--DLVIGVVTSRVGDNYRVDIGSHDPAVLSYLAFEGATKKNPPKVETG 103
P RG LV V D + + H A S F G TK+NPP V+ G
Sbjct: 55 PVRGGIPLVFPVFGKNSTDEHLSKLPQHGLARNSTWEFLGQTKENPPTVQFG 106
>pdb|2CIR|A Chain A, Structure-Based Functional Annotation: Yeast Ymr099c Codes
For A D-Hexose-6-Phosphate Mutarotase. Complex With
Glucose-6-Phosphate
pdb|2CIS|A Chain A, Structure-Based Functional Annotation: Yeast Ymr099c Codes
For A D-Hexose-6-Phosphate Mutarotase. Complex With
Tagatose-6-Phosphate
Length = 297
Score = 29.3 bits (64), Expect = 1.7, Method: Compositional matrix adjust.
Identities = 19/52 (36%), Positives = 23/52 (44%), Gaps = 2/52 (3%)
Query: 54 PTRG--DLVIGVVTSRVGDNYRVDIGSHDPAVLSYLAFEGATKKNPPKVETG 103
P RG LV V D + + H A S F G TK+NPP V+ G
Sbjct: 55 PVRGGIPLVFPVFGKNSTDEHLSKLPQHGLARNSTWEFLGQTKENPPTVQFG 106
>pdb|3HPR|A Chain A, Crystal Structure Of V148g Adenylate Kinase From E. Coli,
In Complex With Ap5a
pdb|3HPR|B Chain B, Crystal Structure Of V148g Adenylate Kinase From E. Coli,
In Complex With Ap5a
Length = 214
Score = 28.9 bits (63), Expect = 2.2, Method: Compositional matrix adjust.
Identities = 15/29 (51%), Positives = 17/29 (58%)
Query: 94 KKNPPKVETGDVVAGKLLTANKDMESEMV 122
K NPPKVE D G+ LT KD + E V
Sbjct: 136 KFNPPKVEGKDDGTGEELTTRKDDQEETV 164
>pdb|2QX7|A Chain A, Structure Of Eugenol Synthase From Ocimum Basilicum
pdb|2QX7|B Chain B, Structure Of Eugenol Synthase From Ocimum Basilicum
pdb|2QYS|A Chain A, Structure Of Eugenol Synthase From Ocimum Basilicum
pdb|2QYS|B Chain B, Structure Of Eugenol Synthase From Ocimum Basilicum
pdb|2QZZ|A Chain A, Structure Of Eugenol Synthase From Ocimum Basilicum
pdb|2QZZ|B Chain B, Structure Of Eugenol Synthase From Ocimum Basilicum
pdb|2R6J|A Chain A, Structure Of Eugenol Synthase From Ocimum Basilicum
pdb|2R6J|B Chain B, Structure Of Eugenol Synthase From Ocimum Basilicum
Length = 318
Score = 28.1 bits (61), Expect = 3.7, Method: Compositional matrix adjust.
Identities = 12/36 (33%), Positives = 19/36 (52%)
Query: 42 TYYVDYIQRRYVPTRGDLVIGVVTSRVGDNYRVDIG 77
+Y+++Y+ R Y P V G ++ NY DIG
Sbjct: 160 SYFINYLLRPYDPKDEITVYGTGEAKFAMNYEQDIG 195
>pdb|2R2G|A Chain A, Structure Of Eugenol Synthase From Ocimum Basilicum
Complexed With Emdf
pdb|2R2G|B Chain B, Structure Of Eugenol Synthase From Ocimum Basilicum
Complexed With Emdf
Length = 318
Score = 28.1 bits (61), Expect = 3.7, Method: Compositional matrix adjust.
Identities = 12/36 (33%), Positives = 19/36 (52%)
Query: 42 TYYVDYIQRRYVPTRGDLVIGVVTSRVGDNYRVDIG 77
+Y+++Y+ R Y P V G ++ NY DIG
Sbjct: 160 SYFINYLLRPYDPKDEITVYGTGEAKFAMNYEQDIG 195
>pdb|2QW8|A Chain A, Structure Of Eugenol Synthase From Ocimum Basilicum
pdb|2QW8|B Chain B, Structure Of Eugenol Synthase From Ocimum Basilicum
Length = 314
Score = 28.1 bits (61), Expect = 3.8, Method: Compositional matrix adjust.
Identities = 12/36 (33%), Positives = 19/36 (52%)
Query: 42 TYYVDYIQRRYVPTRGDLVIGVVTSRVGDNYRVDIG 77
+Y+++Y+ R Y P V G ++ NY DIG
Sbjct: 156 SYFINYLLRPYDPKDEITVYGTGEAKFAMNYEQDIG 191
>pdb|3C3X|A Chain A, The Multiple Phenylpropene Synthases In Both Clarkia
Breweri And Petunia Hybrida Represent Two Distinct
Lineages
pdb|3C3X|B Chain B, The Multiple Phenylpropene Synthases In Both Clarkia
Breweri And Petunia Hybrida Represent Two Distinct
Lineages
Length = 318
Score = 28.1 bits (61), Expect = 3.9, Method: Compositional matrix adjust.
Identities = 12/36 (33%), Positives = 19/36 (52%)
Query: 42 TYYVDYIQRRYVPTRGDLVIGVVTSRVGDNYRVDIG 77
+Y+++Y+ R Y P V G ++ NY DIG
Sbjct: 160 SYFINYLLRPYDPKDEITVYGTGEAKFAMNYEQDIG 195
>pdb|2VZU|A Chain A, Complex Of Amycolatopsis Orientalis Exo-Chitosanase Csxa
D469a With Pnp-Beta-D-Glucosamine
pdb|2VZU|B Chain B, Complex Of Amycolatopsis Orientalis Exo-Chitosanase Csxa
D469a With Pnp-Beta-D-Glucosamine
Length = 1032
Score = 27.7 bits (60), Expect = 5.3, Method: Composition-based stats.
Identities = 17/55 (30%), Positives = 25/55 (45%), Gaps = 5/55 (9%)
Query: 72 YRVDIGSHDPAVLSYLAFEGATKK-----NPPKVETGDVVAGKLLTANKDMESEM 121
YR D+ D + +YL F G K N KV T D V G + D+ +++
Sbjct: 123 YRTDLNVDDTSSRTYLDFSGVLSKADVWVNGTKVATKDQVNGAYTRHDLDITAQV 177
>pdb|2VZT|A Chain A, Complex Of Amycolatopsis Orientalis Exo-Chitosanase Csxa
E541a With Pnp-Beta-D-Glucosamine
pdb|2VZT|B Chain B, Complex Of Amycolatopsis Orientalis Exo-Chitosanase Csxa
E541a With Pnp-Beta-D-Glucosamine
pdb|2VZV|A Chain A, Substrate Complex Of Amycolatopsis Orientalis Exo-
Chitosanase Csxa E541a With Chitosan
pdb|2VZV|B Chain B, Substrate Complex Of Amycolatopsis Orientalis Exo-
Chitosanase Csxa E541a With Chitosan
Length = 1032
Score = 27.7 bits (60), Expect = 5.3, Method: Composition-based stats.
Identities = 17/55 (30%), Positives = 25/55 (45%), Gaps = 5/55 (9%)
Query: 72 YRVDIGSHDPAVLSYLAFEGATKK-----NPPKVETGDVVAGKLLTANKDMESEM 121
YR D+ D + +YL F G K N KV T D V G + D+ +++
Sbjct: 123 YRTDLNVDDTSSRTYLDFSGVLSKADVWVNGTKVATKDQVNGAYTRHDLDITAQV 177
>pdb|2VZS|A Chain A, Chitosan Product Complex Of Amycolatopsis Orientalis Exo-
Chitosanase Csxa
pdb|2VZS|B Chain B, Chitosan Product Complex Of Amycolatopsis Orientalis Exo-
Chitosanase Csxa
pdb|2X05|A Chain A, Inhibition Of The Exo-Beta-D-Glucosaminidase Csxa By A
Glucosamine-Configured Castanospermine And An Amino-
Australine Analogue
pdb|2X05|B Chain B, Inhibition Of The Exo-Beta-D-Glucosaminidase Csxa By A
Glucosamine-Configured Castanospermine And An Amino-
Australine Analogue
pdb|2X09|A Chain A, Inhibition Of The Exo-Beta-D-Glucosaminidase Csxa By A
Glucosamine-Configured Castanospermine And An Amino-
Australine Analogue
pdb|2X09|B Chain B, Inhibition Of The Exo-Beta-D-Glucosaminidase Csxa By A
Glucosamine-Configured Castanospermine And An Amino-
Australine Analogue
Length = 1032
Score = 27.7 bits (60), Expect = 5.3, Method: Composition-based stats.
Identities = 17/55 (30%), Positives = 25/55 (45%), Gaps = 5/55 (9%)
Query: 72 YRVDIGSHDPAVLSYLAFEGATKK-----NPPKVETGDVVAGKLLTANKDMESEM 121
YR D+ D + +YL F G K N KV T D V G + D+ +++
Sbjct: 123 YRTDLNVDDTSSRTYLDFSGVLSKADVWVNGTKVATKDQVNGAYTRHDLDITAQV 177
>pdb|2VZO|A Chain A, Crystal Structure Of Amycolatopsis Orientalis Exo-
Chitosanase Csxa
pdb|2VZO|B Chain B, Crystal Structure Of Amycolatopsis Orientalis Exo-
Chitosanase Csxa
Length = 1032
Score = 27.7 bits (60), Expect = 5.3, Method: Composition-based stats.
Identities = 17/55 (30%), Positives = 25/55 (45%), Gaps = 5/55 (9%)
Query: 72 YRVDIGSHDPAVLSYLAFEGATKK-----NPPKVETGDVVAGKLLTANKDMESEM 121
YR D+ D + +YL F G K N KV T D V G + D+ +++
Sbjct: 123 YRTDLNVDDTSSRTYLDFSGVLSKADVWVNGTKVATKDQVNGAYTRHDLDITAQV 177
>pdb|2NN6|H Chain H, Structure Of The Human Rna Exosome Composed Of Rrp41,
Rrp45, Rrp46, Rrp43, Mtr3, Rrp42, Csl4, Rrp4, And Rrp40
Length = 308
Score = 26.9 bits (58), Expect = 9.7, Method: Compositional matrix adjust.
Identities = 39/176 (22%), Positives = 62/176 (35%), Gaps = 32/176 (18%)
Query: 45 VDYIQRRYVPTRGDLVIGVVTSRVGDNYRVDIGSHDPAVLSYLAFE---GATKKNPPKVE 101
V ++ RY+ GD+V+G +T ++V+ S +VL + G ++ + E
Sbjct: 84 VKALKTRYIGEVGDIVVGRITEVQQKRWKVETNSRLDSVLLLSSMNLPGGELRRRSAEDE 143
Query: 102 ---TGDVVAGKLLTANKDMESEMVCVDSRGKEFIMGILNDGYLLHTSISLCRKLLNPKCP 158
G + G L++A V + G L G L+ S SL +
Sbjct: 144 LAMRGFLQEGDLISAEVQAVFSDGAVSLHTRSLKYGKLGQGVLVQVSPSLVK-------- 195
Query: 159 LLKQLAKRSRQKMELS---------IGMNGKIWIRCESFSDTVRVGNLIMSCELLS 205
RQK +G NG IWI G I + E +S
Sbjct: 196 ---------RQKTHFHDLPCGASVILGNNGFIWIYPTPEHKEEEAGGFIANLEPVS 242
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 0.138 0.404
Lambda K H
0.267 0.0410 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Hits to DB: 6,473,284
Number of Sequences: 62578
Number of extensions: 256150
Number of successful extensions: 517
Number of sequences better than 100.0: 26
Number of HSP's better than 100.0 without gapping: 15
Number of HSP's successfully gapped in prelim test: 11
Number of HSP's that attempted gapping in prelim test: 491
Number of HSP's gapped (non-prelim): 26
length of query: 222
length of database: 14,973,337
effective HSP length: 95
effective length of query: 127
effective length of database: 9,028,427
effective search space: 1146610229
effective search space used: 1146610229
T: 11
A: 40
X1: 16 ( 7.4 bits)
X2: 38 (14.6 bits)
X3: 64 (24.7 bits)
S1: 41 (21.8 bits)
S2: 49 (23.5 bits)