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= 028547
(207 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 = 102 bits (254), Expect = 1e-22, Method: Compositional matrix adjust.
Identities = 63/165 (38%), Positives = 88/165 (53%), Gaps = 12/165 (7%)
Query: 10 YGEPWYWDNRY--AHESGPFDWYQKYPSLAPLIKLYVPSHHQRILIVGCGNSAFSEGMVD 67
Y E YWD RY A +S P+DW+ + S L++ + RIL++GCGNSA S +
Sbjct: 4 YREVEYWDQRYQGAADSAPYDWFGDFSSFRALLEPELRPE-DRILVLGCGNSALSYELFL 62
Query: 68 DGYXXXXXXXXXXXXXXAMMKKYSNRPQLKYIKMDVRQMDEFQTGSFDSVVDKGTLDSLL 127
G+ AM Y++ PQL++ MDVR++D F + SFD V++KGTLD+LL
Sbjct: 63 GGFPNVTSVDYSSVVVAAMQACYAHVPQLRWETMDVRKLD-FPSASFDVVLEKGTLDALL 121
Query: 128 CG--------SNSRQNATQMLKEVWRVLKDKGVYILVTYGAPIYR 164
G S Q+L EV RVL G +I +T AP +R
Sbjct: 122 AGERDPWTVSSEGVHTVDQVLSEVSRVLVPGGRFISMTSAAPHFR 166
>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 = 38.1 bits (87), Expect = 0.004, Method: Compositional matrix adjust.
Identities = 34/127 (26%), Positives = 57/127 (44%), Gaps = 7/127 (5%)
Query: 28 DWYQKYPSLAPLIKLYVPSHHQRILIVGCGNSAFSEGMVDDGYXXXXXXXXXXXXXXAMM 87
++ + +L PL+ Y ++L + CG FS + D G+ A
Sbjct: 20 EYRSRIETLEPLLXKYXKKRG-KVLDLACGVGGFSFLLEDYGFEVVGVDISEDXIRKARE 78
Query: 88 KKYSNRPQLKYIKMDVRQMDEFQTGSFDSVVDKGTLDSLLCGSNSRQNATQMLKEVWRVL 147
S +++I D R++ F+ +FD V+ +DS++ N Q+ KEV RVL
Sbjct: 79 YAKSRESNVEFIVGDARKLS-FEDKTFDYVI---FIDSIVHFEPLELN--QVFKEVRRVL 132
Query: 148 KDKGVYI 154
K G +I
Sbjct: 133 KPSGKFI 139
>pdb|3SM3|A Chain A, Crystal Structure Of Sam-Dependent Methyltransferases
Q8puk2_metma From Methanosarcina Mazei. Northeast
Structural Genomics Consortium Target Mar262
Length = 235
Score = 33.9 bits (76), Expect = 0.061, Method: Compositional matrix adjust.
Identities = 35/140 (25%), Positives = 55/140 (39%), Gaps = 6/140 (4%)
Query: 36 LAPLIKLYVPSHHQRILIVGCGNSAFSEGMVDDGYXXXXXXXXXXXXXXAMMKKYSNRPQ 95
L P+I Y+ + IL +GCG+ S + GY A S
Sbjct: 20 LYPIIHNYLQEDDE-ILDIGCGSGKISLELASKGYSVTGIDINSEAIRLAETAARSPGLN 78
Query: 96 LKYIKMDVRQMDEFQTGSF-DSVVDKGTLDSLLCGSNSRQNATQMLKEVWRVLKDKGVYI 154
K +++ + SF DS D + + L + ++++KEV+RVLK
Sbjct: 79 QKTGGKAEFKVENASSLSFHDSSFDFAVMQAFLTSVPDPKERSRIIKEVFRVLKPGAYLY 138
Query: 155 LVTYGA----PIYRLGMLRD 170
LV +G +YR L D
Sbjct: 139 LVEFGQNWHLKLYRKRYLHD 158
>pdb|2Z87|A Chain A, Crystal Structure Of Chondroitin Polymerase From
Escherichia Coli Strain K4 (K4cp) Complexed With Udp-
Galnac And Udp
pdb|2Z87|B Chain B, Crystal Structure Of Chondroitin Polymerase From
Escherichia Coli Strain K4 (K4cp) Complexed With Udp-
Galnac And Udp
Length = 624
Score = 28.9 bits (63), Expect = 1.9, Method: Compositional matrix adjust.
Identities = 16/70 (22%), Positives = 32/70 (45%), Gaps = 15/70 (21%)
Query: 37 APLIKLYVPSHHQRILIVGCGNSAFSEGMV-------DDGYXXXXXXXXXXXXXXAMMKK 89
PL+ +Y+P+++ IV C SA ++ + DDG + +
Sbjct: 373 VPLVSIYIPAYNCSKYIVRCVESALNQTITDLEVCICDDG--------STDDTLRILQEH 424
Query: 90 YSNRPQLKYI 99
Y+N P++++I
Sbjct: 425 YANHPRVRFI 434
>pdb|2Z86|A Chain A, Crystal Structure Of Chondroitin Polymerase From
Escherichia Coli Strain K4 (K4cp) Complexed With
Udp-Glcua And Udp
pdb|2Z86|B Chain B, Crystal Structure Of Chondroitin Polymerase From
Escherichia Coli Strain K4 (K4cp) Complexed With
Udp-Glcua And Udp
pdb|2Z86|C Chain C, Crystal Structure Of Chondroitin Polymerase From
Escherichia Coli Strain K4 (K4cp) Complexed With
Udp-Glcua And Udp
pdb|2Z86|D Chain D, Crystal Structure Of Chondroitin Polymerase From
Escherichia Coli Strain K4 (K4cp) Complexed With
Udp-Glcua And Udp
Length = 625
Score = 28.9 bits (63), Expect = 1.9, Method: Compositional matrix adjust.
Identities = 16/70 (22%), Positives = 32/70 (45%), Gaps = 15/70 (21%)
Query: 37 APLIKLYVPSHHQRILIVGCGNSAFSEGMV-------DDGYXXXXXXXXXXXXXXAMMKK 89
PL+ +Y+P+++ IV C SA ++ + DDG + +
Sbjct: 374 VPLVSIYIPAYNCSKYIVRCVESALNQTITDLEVCICDDG--------STDDTLRILQEH 425
Query: 90 YSNRPQLKYI 99
Y+N P++++I
Sbjct: 426 YANHPRVRFI 435
>pdb|1R74|A Chain A, Crystal Structure Of Human Glycine N-Methyltransferase
pdb|1R74|B Chain B, Crystal Structure Of Human Glycine N-Methyltransferase
Length = 294
Score = 28.5 bits (62), Expect = 2.8, Method: Compositional matrix adjust.
Identities = 22/117 (18%), Positives = 51/117 (43%), Gaps = 10/117 (8%)
Query: 49 QRILIVGCGNSAFSEGMVDDGYXXXXXXXXXXXXXXAMMKKYSNRPQLKYIKMDVRQMD- 107
QR+L V CG S +V++G+ A+ ++++ R + + K + + +
Sbjct: 58 QRVLDVACGTGVDSIMLVEEGFSVTSVDASDKMLKYALKERWNRRHEPAFDKWVIEEANW 117
Query: 108 --------EFQTGSFDSVVDKGTLDSLLCGSNSRQNATQM-LKEVWRVLKDKGVYIL 155
+ G FD+V+ G + L Q+ ++ LK + +++ G+ ++
Sbjct: 118 MTLDKDVPQSAEGGFDAVICLGNSFAHLPDCKGDQSEHRLALKNIASMVRAGGLLVI 174
>pdb|2AZT|A Chain A, Crystal Structure Of H176n Mutant Of Human Glycine
N-Methyltransferase
pdb|2AZT|B Chain B, Crystal Structure Of H176n Mutant Of Human Glycine
N-Methyltransferase
Length = 295
Score = 28.5 bits (62), Expect = 3.1, Method: Compositional matrix adjust.
Identities = 22/117 (18%), Positives = 51/117 (43%), Gaps = 10/117 (8%)
Query: 49 QRILIVGCGNSAFSEGMVDDGYXXXXXXXXXXXXXXAMMKKYSNRPQLKYIKMDVRQMD- 107
QR+L V CG S +V++G+ A+ ++++ R + + K + + +
Sbjct: 59 QRVLDVACGTGVDSIMLVEEGFSVTSVDASDKMLKYALKERWNRRHEPAFDKWVIEEANW 118
Query: 108 --------EFQTGSFDSVVDKGTLDSLLCGSNSRQNATQM-LKEVWRVLKDKGVYIL 155
+ G FD+V+ G + L Q+ ++ LK + +++ G+ ++
Sbjct: 119 MTLDKDVPQSAEGGFDAVICLGNSFAHLPDCKGDQSEHRLALKNIASMVRAGGLLVI 175
>pdb|4G68|B Chain B, Biochemical And Structural Insights Into Xylan Utilization
By The Thermophilic Bacteriumcaldanaerobius
Polysaccharolyticus
Length = 432
Score = 26.9 bits (58), Expect = 7.6, Method: Compositional matrix adjust.
Identities = 17/79 (21%), Positives = 37/79 (46%), Gaps = 4/79 (5%)
Query: 121 GTLDSLLCGSNSR--QNATQMLKEVWRVLKDKGVYILVTYGAPIYRLGMLRDSCSWNIKL 178
GT+ +L +NS+ A + K + + L D + L+ G P ++ + S +++
Sbjct: 318 GTVGALXVSANSKYKDEAVRAAKYLAKQLSD--MDYLIATGLPAWKYDNIDQSKVDPLEI 375
Query: 179 HVIEKLVVEEKSGHPIWEL 197
++ +V K P W++
Sbjct: 376 QIMNNIVANAKGSVPAWDI 394
>pdb|4G68|A Chain A, Biochemical And Structural Insights Into Xylan Utilization
By The Thermophilic Bacteriumcaldanaerobius
Polysaccharolyticus
Length = 456
Score = 26.9 bits (58), Expect = 7.6, Method: Compositional matrix adjust.
Identities = 17/79 (21%), Positives = 37/79 (46%), Gaps = 4/79 (5%)
Query: 121 GTLDSLLCGSNSR--QNATQMLKEVWRVLKDKGVYILVTYGAPIYRLGMLRDSCSWNIKL 178
GT+ +L +NS+ A + K + + L D + L+ G P ++ + S +++
Sbjct: 342 GTVGALXVSANSKYKDEAVRAAKYLAKQLSD--MDYLIATGLPAWKYDNIDQSKVDPLEI 399
Query: 179 HVIEKLVVEEKSGHPIWEL 197
++ +V K P W++
Sbjct: 400 QIMNNIVANAKGSVPAWDI 418
>pdb|4G68|C Chain C, Biochemical And Structural Insights Into Xylan Utilization
By The Thermophilic Bacteriumcaldanaerobius
Polysaccharolyticus
Length = 432
Score = 26.9 bits (58), Expect = 8.0, Method: Compositional matrix adjust.
Identities = 17/79 (21%), Positives = 37/79 (46%), Gaps = 4/79 (5%)
Query: 121 GTLDSLLCGSNSR--QNATQMLKEVWRVLKDKGVYILVTYGAPIYRLGMLRDSCSWNIKL 178
GT+ +L +NS+ A + K + + L D + L+ G P ++ + S +++
Sbjct: 318 GTVGALXVSANSKYKDEAVRAAKYLAKQLSD--MDYLIATGLPAWKYDNIDQSKVDPLEI 375
Query: 179 HVIEKLVVEEKSGHPIWEL 197
++ +V K P W++
Sbjct: 376 QIMNNIVANAKGSVPAWDI 394
>pdb|1EG5|A Chain A, Nifs-like Protein
pdb|1EG5|B Chain B, Nifs-like Protein
Length = 384
Score = 26.6 bits (57), Expect = 9.7, Method: Compositional matrix adjust.
Identities = 15/62 (24%), Positives = 33/62 (53%), Gaps = 2/62 (3%)
Query: 95 QLKYIKMDVRQMDEFQTGSFDSVVDKGTLDSLLCGSNSRQNATQMLKEVWRVLKDKGVYI 154
++KY+ +D R + + + + +VD+ T + +N+ Q +++V R++K K
Sbjct: 115 KVKYVPVDSRGVVKLE--ELEKLVDEDTFLVSIXAANNEVGTIQPVEDVTRIVKKKNKET 172
Query: 155 LV 156
LV
Sbjct: 173 LV 174
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 0.136 0.431
Lambda K H
0.267 0.0410 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Hits to DB: 6,472,156
Number of Sequences: 62578
Number of extensions: 251010
Number of successful extensions: 831
Number of sequences better than 100.0: 16
Number of HSP's better than 100.0 without gapping: 6
Number of HSP's successfully gapped in prelim test: 10
Number of HSP's that attempted gapping in prelim test: 820
Number of HSP's gapped (non-prelim): 16
length of query: 207
length of database: 14,973,337
effective HSP length: 94
effective length of query: 113
effective length of database: 9,091,005
effective search space: 1027283565
effective search space used: 1027283565
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)