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= 028385
(210 letters)
Database: pdbaa
62,578 sequences; 14,973,337 total letters
Searching..................................................done
>pdb|2PXX|A Chain A, Human Putative Methyltransferase Mgc2408
Length = 215
Score = 89.0 bits (219), Expect = 2e-18, Method: Compositional matrix adjust.
Identities = 45/127 (35%), Positives = 70/127 (55%), Gaps = 9/127 (7%)
Query: 20 VMSEDMVKDGYEDIVNIDISSVAIDMMKMKYEEIPQLKYLQMDVRDMSFFEDESFDAVID 79
+S ++ G+ ++ ++D SSV + M+ Y +PQL++ MDVR + F SFD V++
Sbjct: 55 ALSYELFLGGFPNVTSVDYSSVVVAAMQACYAHVPQLRWETMDVRKLD-FPSASFDVVLE 113
Query: 80 KGTLDSLMCGTNAPISAS--------QMLGEVSRLLKPGGIYMLITYGDPKARMIHLKWK 131
KGTLD+L+ G P + S Q+L EVSR+L PGG ++ +T P R H
Sbjct: 114 KGTLDALLAGERDPWTVSSEGVHTVDQVLSEVSRVLVPGGRFISMTSAAPHFRTRHYAQA 173
Query: 132 VYNWKIE 138
Y W +
Sbjct: 174 YYGWSLR 180
>pdb|1VE3|A Chain A, Crystal Structure Of Ph0226 Protein From Pyrococcus
Horikoshii Ot3
pdb|1VE3|B Chain B, Crystal Structure Of Ph0226 Protein From Pyrococcus
Horikoshii Ot3
Length = 227
Score = 37.4 bits (85), Expect = 0.006, Method: Compositional matrix adjust.
Identities = 30/88 (34%), Positives = 50/88 (56%), Gaps = 10/88 (11%)
Query: 29 GYEDIVNIDISSVAIDMMK--MKYEEIPQLKYLQMDVRDMSFFEDESFDAVIDKGTLDSL 86
G+E +V +DIS I + K E ++++ D R +SF ED++FD VI +DS+
Sbjct: 60 GFE-VVGVDISEDXIRKAREYAKSRE-SNVEFIVGDARKLSF-EDKTFDYVI---FIDSI 113
Query: 87 MCGTNAPISASQMLGEVSRLLKPGGIYM 114
+ P+ +Q+ EV R+LKP G ++
Sbjct: 114 V--HFEPLELNQVFKEVRRVLKPSGKFI 139
>pdb|1WZN|A Chain A, Crystal Structure Of The Sam-Dependent Methyltransferase
From Pyrococcus Horikoshii Ot3
pdb|1WZN|B Chain B, Crystal Structure Of The Sam-Dependent Methyltransferase
From Pyrococcus Horikoshii Ot3
pdb|1WZN|C Chain C, Crystal Structure Of The Sam-Dependent Methyltransferase
From Pyrococcus Horikoshii Ot3
Length = 252
Score = 31.6 bits (70), Expect = 0.33, Method: Compositional matrix adjust.
Identities = 26/105 (24%), Positives = 54/105 (51%), Gaps = 12/105 (11%)
Query: 11 TCRRAAPSIVMSEDMVKDGYEDIVNIDISSVAIDMMKMKYEEIP-QLKYLQMDVRDMSFF 69
C P++ ++E GYE +V +D+ + + + K +E ++++LQ DV +++F
Sbjct: 49 ACGTGIPTLELAER----GYE-VVGLDLHEEMLRVARRKAKERNLKIEFLQGDVLEIAF- 102
Query: 70 EDESFDAVIDKGTLDSLMCGTNAPISASQMLGEVSRLLKPGGIYM 114
FDAV ++M + ++ +V+ LKPGG+++
Sbjct: 103 -KNEFDAVT--MFFSTIMYFDEEDLR--KLFSKVAEALKPGGVFI 142
>pdb|2LD4|A Chain A, Solution Structure Of The N-Terminal Domain Of Human
Anamorsin
Length = 176
Score = 28.5 bits (62), Expect = 2.6, Method: Compositional matrix adjust.
Identities = 21/69 (30%), Positives = 37/69 (53%), Gaps = 14/69 (20%)
Query: 47 KMKYEEIPQLKYLQMDVRDMSFFEDESFDAVIDKGTLDSLMCGTNAPISASQMLGEVSRL 106
++ E I QL LQ S ++ SFD + L L+ G+ + ++++L E++R+
Sbjct: 45 RVSVENIKQL--LQ------SAHKESSFDII-----LSGLVPGSTT-LHSAEILAEIARI 90
Query: 107 LKPGGIYML 115
L+PGG L
Sbjct: 91 LRPGGCLFL 99
>pdb|2YUI|A Chain A, Solution Structure Of The N-Terminal Domain In Human
Cytokine-Induced Apoptosis Inhibitor Anamorsin
Length = 182
Score = 28.5 bits (62), Expect = 2.8, Method: Compositional matrix adjust.
Identities = 21/69 (30%), Positives = 37/69 (53%), Gaps = 14/69 (20%)
Query: 47 KMKYEEIPQLKYLQMDVRDMSFFEDESFDAVIDKGTLDSLMCGTNAPISASQMLGEVSRL 106
++ E I QL LQ S ++ SFD + L L+ G+ + ++++L E++R+
Sbjct: 48 RVSVENIKQL--LQ------SAHKESSFDII-----LSGLVPGSTT-LHSAEILAEIARI 93
Query: 107 LKPGGIYML 115
L+PGG L
Sbjct: 94 LRPGGCLFL 102
>pdb|3AWI|A Chain A, Bifunctional Trna Modification Enzyme Mnmc From
Escherichia Coli
pdb|3AWI|B Chain B, Bifunctional Trna Modification Enzyme Mnmc From
Escherichia Coli
pdb|3AWI|C Chain C, Bifunctional Trna Modification Enzyme Mnmc From
Escherichia Coli
pdb|3AWI|D Chain D, Bifunctional Trna Modification Enzyme Mnmc From
Escherichia Coli
pdb|3AWI|E Chain E, Bifunctional Trna Modification Enzyme Mnmc From
Escherichia Coli
pdb|3AWI|F Chain F, Bifunctional Trna Modification Enzyme Mnmc From
Escherichia Coli
Length = 688
Score = 28.1 bits (61), Expect = 3.4, Method: Composition-based stats.
Identities = 13/56 (23%), Positives = 25/56 (44%)
Query: 62 DVRDMSFFEDESFDAVIDKGTLDSLMCGTNAPISASQMLGEVSRLLKPGGIYMLIT 117
D+ +++ D+S + +D LD N + + ++RL +PGG T
Sbjct: 176 DINELTSQLDDSLNQKVDAWFLDGFAPAKNPDMWTQNLFNAMARLARPGGTLATFT 231
>pdb|3PS9|A Chain A, Crystal Structure Of Mnmc From E. Coli
Length = 676
Score = 28.1 bits (61), Expect = 3.4, Method: Composition-based stats.
Identities = 13/56 (23%), Positives = 25/56 (44%)
Query: 62 DVRDMSFFEDESFDAVIDKGTLDSLMCGTNAPISASQMLGEVSRLLKPGGIYMLIT 117
D+ +++ D+S + +D LD N + + ++RL +PGG T
Sbjct: 164 DINELTSQLDDSLNQKVDAWFLDGFAPAKNPDMWTQNLFNAMARLARPGGTLATFT 219
>pdb|3LDU|A Chain A, The Crystal Structure Of A Possible Methylase From
Clostridium Difficile 630
Length = 385
Score = 28.1 bits (61), Expect = 3.6, Method: Compositional matrix adjust.
Identities = 31/135 (22%), Positives = 55/135 (40%), Gaps = 12/135 (8%)
Query: 24 DMVKDGYEDIVN--------IDISSVAIDMMKMKYEEIPQLKYLQMDVRDMSFFEDE-SF 74
D+ KD + I N DI +ID+ + E +Y++ +V D + F+ E F
Sbjct: 243 DVRKDAFNKIDNESKFKIYGYDIDEESIDIARENAEIAGVDEYIEFNVGDATQFKSEDEF 302
Query: 75 DAVIDKGTLDSLMCGTNAPISASQMLGEVSRLLKPGGIYMLITYGDPK---ARMIHLKWK 131
+I + ++ + LG R LK Y++ +Y D + + K K
Sbjct: 303 GFIITNPPYGERLEDKDSVKQLYKELGYAFRKLKNWSYYLITSYEDFEYEFGQKADKKRK 362
Query: 132 VYNWKIELYIIARPG 146
+YN ++ PG
Sbjct: 363 LYNGXLKTNFFQYPG 377
>pdb|2P8J|A Chain A, Crystal Structure Of S-Adenosylmethionine-Dependent
Methyltransferase (Np_349143.1) From Clostridium
Acetobutylicum At 2.00 A Resolution
pdb|2P8J|B Chain B, Crystal Structure Of S-Adenosylmethionine-Dependent
Methyltransferase (Np_349143.1) From Clostridium
Acetobutylicum At 2.00 A Resolution
Length = 209
Score = 27.7 bits (60), Expect = 5.4, Method: Compositional matrix adjust.
Identities = 26/89 (29%), Positives = 43/89 (48%), Gaps = 8/89 (8%)
Query: 25 MVKDGYEDIVNIDISSVAIDMMK-MKYEEIPQLKYLQMDVRDMSFFEDESFDAVIDKGTL 83
V+DGY+ I+IS + + + E +L + D+R + F +DES V GT+
Sbjct: 42 FVEDGYK-TYGIEISDLQLKKAENFSRENNFKLNISKGDIRKLPF-KDESXSFVYSYGTI 99
Query: 84 DSLMCGTNAPISASQMLGEVSRLLKPGGI 112
N + + E+ R+LKPGG+
Sbjct: 100 --FHXRKN---DVKEAIDEIKRVLKPGGL 123
>pdb|2AT2|A Chain A, Molecular Structure Of Bacillus Subtilis Aspartate
Transcarbamoylase At 3.0 Angstroms Resolution
pdb|2AT2|B Chain B, Molecular Structure Of Bacillus Subtilis Aspartate
Transcarbamoylase At 3.0 Angstroms Resolution
pdb|2AT2|C Chain C, Molecular Structure Of Bacillus Subtilis Aspartate
Transcarbamoylase At 3.0 Angstroms Resolution
Length = 300
Score = 27.3 bits (59), Expect = 6.2, Method: Compositional matrix adjust.
Identities = 32/150 (21%), Positives = 65/150 (43%), Gaps = 17/150 (11%)
Query: 4 PSTGTRDTCRRAAPSIVMSEDMVKDGYEDIVNIDISSVAIDMMKMKYEEIPQLKYLQMDV 63
PST TR + A + M +++N+D +S ++ + Y+ I L+ + +DV
Sbjct: 46 PSTRTRFSFEVAEKKLGM----------NVLNLDGTSTSVQKGETLYDTIRTLESIGVDV 95
Query: 64 RDMSFFEDESFDAVIDKGTLDSLMCGTNAPISASQMLGEVSRLLKPGGIYMLIT---YGD 120
+ EDE ++ ++ + + L G +Q L ++ + + + +T +GD
Sbjct: 96 CVIRHSEDEYYEELVSQVNIPILNAGDGCGQHPTQSLLDLMTIYEEFNTFKGLTVSIHGD 155
Query: 121 PKARMIHLKWKVYNWKIELYIIARPGFEKP 150
K H + N ++ + AR F P
Sbjct: 156 IK----HSRVARSNAEVLTRLGARVLFSGP 181
>pdb|3R7D|A Chain A, Crystal Structure Of Unliganded Aspartate
Transcarbamoylase From Bacillus Subtilis
pdb|3R7D|B Chain B, Crystal Structure Of Unliganded Aspartate
Transcarbamoylase From Bacillus Subtilis
pdb|3R7D|C Chain C, Crystal Structure Of Unliganded Aspartate
Transcarbamoylase From Bacillus Subtilis
pdb|3R7F|A Chain A, Crystal Structure Of Cp-Bound Aspartate Transcarbamoylase
From Bacillus Subtilis
pdb|3R7F|B Chain B, Crystal Structure Of Cp-Bound Aspartate Transcarbamoylase
From Bacillus Subtilis
pdb|3R7F|C Chain C, Crystal Structure Of Cp-Bound Aspartate Transcarbamoylase
From Bacillus Subtilis
pdb|3R7L|A Chain A, Crystal Structure Of Pala-Bound Aspartate
Transcarbamoylase From Bacillus Subtilis
pdb|3R7L|B Chain B, Crystal Structure Of Pala-Bound Aspartate
Transcarbamoylase From Bacillus Subtilis
pdb|3R7L|C Chain C, Crystal Structure Of Pala-Bound Aspartate
Transcarbamoylase From Bacillus Subtilis
pdb|3R7L|D Chain D, Crystal Structure Of Pala-Bound Aspartate
Transcarbamoylase From Bacillus Subtilis
pdb|3R7L|E Chain E, Crystal Structure Of Pala-Bound Aspartate
Transcarbamoylase From Bacillus Subtilis
pdb|3R7L|F Chain F, Crystal Structure Of Pala-Bound Aspartate
Transcarbamoylase From Bacillus Subtilis
Length = 304
Score = 26.9 bits (58), Expect = 7.6, Method: Compositional matrix adjust.
Identities = 32/150 (21%), Positives = 65/150 (43%), Gaps = 17/150 (11%)
Query: 4 PSTGTRDTCRRAAPSIVMSEDMVKDGYEDIVNIDISSVAIDMMKMKYEEIPQLKYLQMDV 63
PST TR + A + M +++N+D +S ++ + Y+ I L+ + +DV
Sbjct: 46 PSTRTRFSFEVAEKKLGM----------NVLNLDGTSTSVQKGETLYDTIRTLESIGVDV 95
Query: 64 RDMSFFEDESFDAVIDKGTLDSLMCGTNAPISASQMLGEVSRLLKPGGIYMLIT---YGD 120
+ EDE ++ ++ + + L G +Q L ++ + + + +T +GD
Sbjct: 96 CVIRHSEDEYYEELVSQVNIPILNAGDGCGQHPTQSLLDLMTIYEEFNTFKGLTVSIHGD 155
Query: 121 PKARMIHLKWKVYNWKIELYIIARPGFEKP 150
K H + N ++ + AR F P
Sbjct: 156 IK----HSRVARSNAEVLTRLGARVLFSGP 181
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
0.319 0.137 0.408
Lambda K H
0.267 0.0410 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Hits to DB: 6,881,004
Number of Sequences: 62578
Number of extensions: 295781
Number of successful extensions: 692
Number of sequences better than 100.0: 12
Number of HSP's better than 100.0 without gapping: 6
Number of HSP's successfully gapped in prelim test: 6
Number of HSP's that attempted gapping in prelim test: 684
Number of HSP's gapped (non-prelim): 12
length of query: 210
length of database: 14,973,337
effective HSP length: 95
effective length of query: 115
effective length of database: 9,028,427
effective search space: 1038269105
effective search space used: 1038269105
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: 49 (23.5 bits)