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= 009696
(528 letters)
Database: pdbaa
62,578 sequences; 14,973,337 total letters
Searching..................................................done
>pdb|2YUD|A Chain A, Solution Structure Of The Yth Domain In Yth Domain-
Containing Protein 1 (Putative Splicing Factor Yt521)
Length = 180
Score = 70.9 bits (172), Expect = 2e-12, Method: Compositional matrix adjust.
Identities = 48/166 (28%), Positives = 76/166 (45%), Gaps = 18/166 (10%)
Query: 273 TVSRDQYNLPDFQVEYEKAKFYVIKSYSEDDIHKCIKYDVWSSTPNGNKKLDATFNEAEA 332
V +DQ + + + A+F++IKS + +++ VWS+ P KKL+ F A +
Sbjct: 10 AVRKDQTS--KLKYVLQDARFFLIKSNNHENVSLAKAKGVWSTLPVNEKKLNLAFRSARS 67
Query: 333 KADETGTRCPIFLFFSVNGSGQFVGLAEMMGKVDFNKDMDFWQL------DKWNGFFPVK 386
+ L FSV SG+F G A + + W L G F +
Sbjct: 68 ----------VILIFSVRESGKFQGFARLSSESHHGGSPIHWVLPAGMSAKMLGGVFKID 117
Query: 387 WHVIKDVPNTLLRHITLENNENKPVTHSRDTQEIGLKQGLEMLKIF 432
W +++P T H+T NE+KPV RD QEI L+ G ++ +F
Sbjct: 118 WICRRELPFTKSAHLTNPWNEHKPVKIGRDGQEIELECGTQLCLLF 163
>pdb|2YU6|A Chain A, Solution Structure Of The Yth Domain In Yth Domain-
Containing Protein 2
Length = 141
Score = 68.2 bits (165), Expect = 1e-11, Method: Compositional matrix adjust.
Identities = 40/143 (27%), Positives = 73/143 (51%), Gaps = 11/143 (7%)
Query: 291 AKFYVIKSYSEDDIHKCIKYDVWSSTPNGNKKLDATFNEAEAKADETGTRCPIFLFFSVN 350
+++++KS + ++ + +WS+TP+ +KL+ F E+ ++L FSV
Sbjct: 8 VRYFIMKSSNLRNLEISQQKGIWSTTPSNERKLNRAFWESSI----------VYLVFSVQ 57
Query: 351 GSGQFVGLAEMMGKVDFNKDMDFWQLDKWNGFFPVKWHVIKDVPNTLLRHITLENNENKP 410
GSG F G + M ++ K D W G F V+W + +P H+ N+NK
Sbjct: 58 GSGHFQGFSRMSSEIGREKSQD-WGSAGLGGVFKVEWIRKESLPFQFAHHLLNPWNDNKK 116
Query: 411 VTHSRDTQEIGLKQGLEMLKIFK 433
V SRD QE+ + G ++L++++
Sbjct: 117 VQISRDGQELEPQVGEQLLQLWE 139
>pdb|1V3W|A Chain A, Structure Of Ferripyochelin Binding Protein From
Pyrococcus Horikoshii Ot3
pdb|1V67|A Chain A, Structure Of Ferripyochelin Binding Protein From
Pyrococcus Horikoshii Ot3
pdb|2FKO|A Chain A, Structure Of Ph1591 From Pyrococcus Horikoshii Ot3
Length = 173
Score = 35.0 bits (79), Expect = 0.11, Method: Composition-based stats.
Identities = 28/109 (25%), Positives = 50/109 (45%), Gaps = 19/109 (17%)
Query: 3 TSGHAASGMKGEIDQESVGEYG-AQNPSTVHYNYYYPGSNGSFSQVDNNGYIH------- 54
TS ++ ++G+I+Q VG+Y Q+ ++H ++ YP G + + +N +H
Sbjct: 35 TSVWPSAVLRGDIEQIYVGKYSNVQDNVSIHTSHGYPTEIGEYVTIGHNAMVHGAKVGNY 94
Query: 55 ---------TDGSHSGVHSDNGSLLYYLPGYD--PYSTLVGVDGQCVGQ 92
DG+ G H G+ P + YS ++GV G+ V Q
Sbjct: 95 VIIGISSVILDGAKIGDHVIIGAGAVVPPNKEIPDYSLVLGVPGKVVRQ 143
>pdb|3H4L|A Chain A, Crystal Structure Of N Terminal Domain Of A Dna Repair
Prote
pdb|3H4L|B Chain B, Crystal Structure Of N Terminal Domain Of A Dna Repair
Prote
Length = 367
Score = 33.1 bits (74), Expect = 0.38, Method: Compositional matrix adjust.
Identities = 37/125 (29%), Positives = 53/125 (42%), Gaps = 35/125 (28%)
Query: 274 VSRDQYNLPDFQVEYEKA-------KFYVIKSYSEDDIHKCIKYDVWSSTPNGNKKLD-A 325
VS+ +NLP Q E+ K VI+ Y+ I+ IK+ VW+ TP G K L +
Sbjct: 149 VSQLFHNLPVRQKEFSKTFKRQFTKCLTVIQGYAI--INAAIKFSVWNITPKGKKNLILS 206
Query: 326 TFNEAEAKADETGTRCPIFLFFSVNGSGQFVGLAE-------------MMGKVDFNKDMD 372
T + + + + SV G+G GL E M+GK + D D
Sbjct: 207 TMRNSSMRKNIS----------SVFGAGGMRGLEEVDLVLDLNPFKNRMLGK--YTDDPD 254
Query: 373 FWQLD 377
F LD
Sbjct: 255 FLDLD 259
>pdb|3AUS|A Chain A, Crystal Structure Of Bacillus Megaterium Glucose
Dehydrogenase 4 In Ligand-Free Form
pdb|3AUS|B Chain B, Crystal Structure Of Bacillus Megaterium Glucose
Dehydrogenase 4 In Ligand-Free Form
pdb|3AUT|A Chain A, Crystal Structure Of Bacillus Megaterium Glucose
Dehydrogenase 4 In Complex With Nadh
pdb|3AUT|B Chain B, Crystal Structure Of Bacillus Megaterium Glucose
Dehydrogenase 4 In Complex With Nadh
pdb|3AUU|A Chain A, Crystal Structure Of Bacillus Megaterium Glucose
Dehydrogenase 4 In Complex With D-Glucose
pdb|3AUU|B Chain B, Crystal Structure Of Bacillus Megaterium Glucose
Dehydrogenase 4 In Complex With D-Glucose
Length = 269
Score = 30.0 bits (66), Expect = 3.3, Method: Compositional matrix adjust.
Identities = 16/57 (28%), Positives = 28/57 (49%), Gaps = 5/57 (8%)
Query: 445 FNFYENKERSFHGKKSSKPA-----TLQMDIFNDDDFTKQIKSAEKEFDEDSISIIN 496
N+Y N+E + KK + A +Q D+ ++D +++A KEF + I N
Sbjct: 44 INYYNNEEEALDAKKEVEEAGGQAIIVQGDVTKEEDVVNLVQTAIKEFGTLDVMINN 100
>pdb|3AY7|A Chain A, Crystal Structure Of Bacillus Megaterium Glucose
Dehydrogenase 4 G259a Mutant
pdb|3AY7|B Chain B, Crystal Structure Of Bacillus Megaterium Glucose
Dehydrogenase 4 G259a Mutant
Length = 269
Score = 30.0 bits (66), Expect = 3.4, Method: Compositional matrix adjust.
Identities = 16/57 (28%), Positives = 28/57 (49%), Gaps = 5/57 (8%)
Query: 445 FNFYENKERSFHGKKSSKPA-----TLQMDIFNDDDFTKQIKSAEKEFDEDSISIIN 496
N+Y N+E + KK + A +Q D+ ++D +++A KEF + I N
Sbjct: 44 INYYNNEEEALDAKKEVEEAGGQAIIVQGDVTKEEDVVNLVQTAIKEFGTLDVMINN 100
>pdb|3AY6|A Chain A, Crystal Structure Of Bacillus Megaterium Glucose
Dehydrogenase 4 A258f Mutant In Complex With Nadh And
D-Glucose
pdb|3AY6|B Chain B, Crystal Structure Of Bacillus Megaterium Glucose
Dehydrogenase 4 A258f Mutant In Complex With Nadh And
D-Glucose
pdb|3AY6|C Chain C, Crystal Structure Of Bacillus Megaterium Glucose
Dehydrogenase 4 A258f Mutant In Complex With Nadh And
D-Glucose
pdb|3AY6|D Chain D, Crystal Structure Of Bacillus Megaterium Glucose
Dehydrogenase 4 A258f Mutant In Complex With Nadh And
D-Glucose
Length = 269
Score = 30.0 bits (66), Expect = 3.7, Method: Compositional matrix adjust.
Identities = 16/57 (28%), Positives = 28/57 (49%), Gaps = 5/57 (8%)
Query: 445 FNFYENKERSFHGKKSSKPA-----TLQMDIFNDDDFTKQIKSAEKEFDEDSISIIN 496
N+Y N+E + KK + A +Q D+ ++D +++A KEF + I N
Sbjct: 44 INYYNNEEEALDAKKEVEEAGGQAIIVQGDVTKEEDVVNLVQTAIKEFGTLDVMINN 100
>pdb|1YBF|A Chain A, Crystal Structure Of Amp Nucleosidase From Bacteroides
Thetaiotaomicron Vpi-5482
pdb|1YBF|B Chain B, Crystal Structure Of Amp Nucleosidase From Bacteroides
Thetaiotaomicron Vpi-5482
pdb|1YBF|C Chain C, Crystal Structure Of Amp Nucleosidase From Bacteroides
Thetaiotaomicron Vpi-5482
Length = 268
Score = 28.9 bits (63), Expect = 7.9, Method: Compositional matrix adjust.
Identities = 20/69 (28%), Positives = 35/69 (50%), Gaps = 4/69 (5%)
Query: 201 SAFSNQKQGFFPNMVNYSTNGRMWNGNDRYKSRDKFSRAGGLGMPTELIRGPRAENK--- 257
SA N+ + ++ V Y+TN R+W ++++K + + A G+ T + NK
Sbjct: 144 SAIQNKGKDYWTGTV-YTTNRRVWEYDEKFKDYLRSTHASGVDXETATLXTVGFANKIPX 202
Query: 258 SASLEISDK 266
A L ISD+
Sbjct: 203 GALLLISDR 211
>pdb|1ODF|A Chain A, Structure Of Ygr205w Protein
Length = 290
Score = 28.5 bits (62), Expect = 9.2, Method: Compositional matrix adjust.
Identities = 12/20 (60%), Positives = 16/20 (80%), Gaps = 1/20 (5%)
Query: 336 ETGTRCPIFLFFS-VNGSGQ 354
ETG +CP+F+FFS GSG+
Sbjct: 25 ETGNKCPLFIFFSGPQGSGK 44
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
0.312 0.131 0.387
Lambda K H
0.267 0.0410 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Hits to DB: 17,475,883
Number of Sequences: 62578
Number of extensions: 812879
Number of successful extensions: 1265
Number of sequences better than 100.0: 16
Number of HSP's better than 100.0 without gapping: 3
Number of HSP's successfully gapped in prelim test: 13
Number of HSP's that attempted gapping in prelim test: 1258
Number of HSP's gapped (non-prelim): 16
length of query: 528
length of database: 14,973,337
effective HSP length: 103
effective length of query: 425
effective length of database: 8,527,803
effective search space: 3624316275
effective search space used: 3624316275
T: 11
A: 40
X1: 16 ( 7.2 bits)
X2: 38 (14.6 bits)
X3: 64 (24.7 bits)
S1: 42 (21.9 bits)
S2: 54 (25.4 bits)