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= 016606
(386 letters)
Database: pdbaa
62,578 sequences; 14,973,337 total letters
Searching..................................................done
>pdb|3DUP|A Chain A, Crystal Structure Of MuttNUDIX FAMILY HYDROLASE FROM
RHODOSPIRILLUM Rubrum Atcc 11170
pdb|3DUP|B Chain B, Crystal Structure Of MuttNUDIX FAMILY HYDROLASE FROM
RHODOSPIRILLUM Rubrum Atcc 11170
Length = 300
Score = 216 bits (549), Expect = 2e-56, Method: Compositional matrix adjust.
Identities = 116/288 (40%), Positives = 161/288 (55%), Gaps = 10/288 (3%)
Query: 95 YFEKIKICNRGSEMQSEFFPFIIEDQVAGYTHNRFASHLRKYDDVFIYSGNNGGRFGSHV 154
+ + ++ CN + S F F+IE + G+ A L+ + VF + + V
Sbjct: 5 FLKHVQDCN--THDLSNFVRFVIEGRRVGWVRKALAQRLKAHGRVFDVTRDA-------V 55
Query: 155 KLNSKLKTADERTRVVGEVIKCLAEEELIPDIQNELYPVASTFGSPIFFSLDRAAAPYFG 214
L++ L+T RTR V +V+ LA+E ++P + ELY V ++G P LDRA P FG
Sbjct: 56 LLSASLRTPQSRTRAVADVVDRLADEGVVPAPRGELYRVNQSWGEPTLXLLDRAVVPTFG 115
Query: 215 IKAYAVPLNGYVEKDGQKFLWIGKRSQVKSTYPGMLDILAGGGLPHGIACGENIIKECEE 274
++AY V LNGYV LWIG+RS KS PG LD GG P ++ +N+IKEC E
Sbjct: 116 VRAYGVHLNGYVGAGADLHLWIGRRSPDKSVAPGKLDNXVAGGQPADLSLRQNLIKECAE 175
Query: 275 EAGIPRSISNRARPVGAVSYTDINGFSYKRDVIFCYDLKLPEDFVPMNQDGEVESFQLMP 334
EA +P +++ +A PVGA++Y + K D +F YDL LPEDF P N DGE F L P
Sbjct: 176 EADLPEALARQAIPVGAITYCXESPAGIKPDTLFLYDLALPEDFRPHNTDGEXADFXLWP 235
Query: 335 VAHVANVIRRTEFFKPNCSLAIIDFLFRHGYIRPEYF-GYLDLLQSLR 381
A V +R TE FK N +L +IDF RHG I P+ Y ++L LR
Sbjct: 236 AAKVVEAVRTTEAFKFNVNLTVIDFAIRHGLIDPDNEPDYQEILAGLR 283
>pdb|1Q27|A Chain A, Nmr Solution Structure Of Dr0079: An Hypothetical Nudix
Protein From D. Radiodurans
pdb|2O5F|A Chain A, Crystal Structure Of Dr0079 From Deinococcus Radiodurans
At 1.9 Angstrom Resolution
pdb|2O5F|B Chain B, Crystal Structure Of Dr0079 From Deinococcus Radiodurans
At 1.9 Angstrom Resolution
Length = 171
Score = 38.1 bits (87), Expect = 0.009, Method: Compositional matrix adjust.
Identities = 22/74 (29%), Positives = 34/74 (45%), Gaps = 9/74 (12%)
Query: 228 KDGQKFLWIGKRSQVKSTYPGMLDILAGGGLPHGIACGENIIKECEEEAGIPRSISNRAR 287
++ Q LWI +RS KS +P LD+ GG + G E +E EE +
Sbjct: 42 RNSQGQLWIPRRSPSKSLFPNALDVSVGGAVQSGETYEEAFRREAREELNV--------- 92
Query: 288 PVGAVSYTDINGFS 301
+ A+S+ + FS
Sbjct: 93 EIDALSWRPLASFS 106
>pdb|3HYQ|A Chain A, Crystal Structure Of Isopentenyl-Diphosphate
Delta-Isomerase From Salmonella Entericase
Length = 184
Score = 30.4 bits (67), Expect = 1.5, Method: Compositional matrix adjust.
Identities = 22/73 (30%), Positives = 31/73 (42%), Gaps = 2/73 (2%)
Query: 228 KDGQKFLWIGKRSQVKSTYPGMLDILAGGGLPHGIACGENIIKECEEEAGIPRSISNRAR 287
+DGQ L + +RS K +PG+ G G E II+ C E G+ +
Sbjct: 45 EDGQ--LLVTRRSLSKKAWPGVWTNSVCGHPQQGETTEEAIIRRCRFELGVEITDLTPVY 102
Query: 288 PVGAVSYTDINGF 300
P + TD NG
Sbjct: 103 PHFSYRATDPNGI 115
>pdb|3LTV|A Chain A, Mouse-Human Sod1 Chimera
pdb|3LTV|B Chain B, Mouse-Human Sod1 Chimera
pdb|3LTV|C Chain C, Mouse-Human Sod1 Chimera
pdb|3LTV|D Chain D, Mouse-Human Sod1 Chimera
pdb|3LTV|E Chain E, Mouse-Human Sod1 Chimera
pdb|3LTV|F Chain F, Mouse-Human Sod1 Chimera
Length = 153
Score = 30.0 bits (66), Expect = 2.0, Method: Compositional matrix adjust.
Identities = 21/83 (25%), Positives = 38/83 (45%), Gaps = 3/83 (3%)
Query: 107 EMQSEFFPFIIEDQVAGYTHNRFASHLRKYDDVFIYSGNNGGRFGSHVKLNSKLKTADER 166
E ++ P ++ Q+ G T + H+ +Y D + G F H K + ADE
Sbjct: 21 EQKASGEPVVLSGQITGLTEGQHGFHVHQYGDNTQGCTSAGPHFNPHSKKHG--GPADEE 78
Query: 167 TRVVGEVIKCLAEEELIPDIQNE 189
R VG++ A+++ + D+ E
Sbjct: 79 -RHVGDLGNVTADKDGVADVSIE 100
>pdb|2B06|A Chain A, Crystal Structure Of The MuttNUDIX FAMILY PROTEIN FROM
STREPTOCOCCUS Pneumoniae
Length = 155
Score = 28.9 bits (63), Expect = 4.4, Method: Compositional matrix adjust.
Identities = 25/108 (23%), Positives = 49/108 (45%), Gaps = 18/108 (16%)
Query: 255 GGGLPHGIACGENIIKECEEEAGIPRSISNRARPVGAVSYTDINGFSYKRDVIFCYDLKL 314
GG + + A E++I+E EE G+ +I N + VG ++ G Y ++ CY
Sbjct: 42 GGHVENDEAFAESVIREIYEETGL--TIQN-PQLVGIKNWPLDTGGRY---IVICYKATE 95
Query: 315 PEDFVPMNQDGEVE------------SFQLMPVAHVANVIRRTEFFKP 350
+ +++GEV ++ ++P+ + ++EFF P
Sbjct: 96 FSGTLQSSEEGEVSWVQKDQIPNLNLAYDMLPLMEMMEAPDKSEFFYP 143
>pdb|3L84|A Chain A, High Resolution Crystal Structure Of Transketolase From
Campylobacter Jejuni Subsp. Jejuni Nctc 11168
Length = 632
Score = 28.9 bits (63), Expect = 4.6, Method: Compositional matrix adjust.
Identities = 26/96 (27%), Positives = 42/96 (43%), Gaps = 12/96 (12%)
Query: 220 VPLNGYVEKDGQKFLWIGKRSQ------VKSTYPGMLDILAGGGLPHGIACGENIIKECE 273
+ +NG+ ++ K L K+S K+T L G HG GE +IK+ +
Sbjct: 210 LSINGHDYEEINKALEQAKKSTKPCLIIAKTTIAKGAGELEGSHKSHGAPLGEEVIKKAK 269
Query: 274 EEAGIPRSIS------NRARPVGAVSYTDINGFSYK 303
E+AG +IS ++ R AV D+ +K
Sbjct: 270 EQAGFDPNISFHIPQASKIRFESAVELGDLEEAKWK 305
>pdb|3M7I|A Chain A, Crystal Structure Of Transketolase In Complex With
Thiamine Diphosphate, Ribose-5-Phosphate(Pyranose Form)
And Magnesium Ion
pdb|3M34|A Chain A, Crystal Structure Of Transketolase In Complex With Thiamin
D And Calcium Ion
pdb|3M6L|A Chain A, Crystal Structure Of Transketolase In Complex With
Thiamine Diphosphate, Ribose-5-Phosphate And Calcium Ion
Length = 635
Score = 28.9 bits (63), Expect = 4.7, Method: Compositional matrix adjust.
Identities = 26/96 (27%), Positives = 42/96 (43%), Gaps = 12/96 (12%)
Query: 220 VPLNGYVEKDGQKFLWIGKRSQ------VKSTYPGMLDILAGGGLPHGIACGENIIKECE 273
+ +NG+ ++ K L K+S K+T L G HG GE +IK+ +
Sbjct: 213 LSINGHDYEEINKALEQAKKSTKPCLIIAKTTIAKGAGELEGSHKSHGAPLGEEVIKKAK 272
Query: 274 EEAGIPRSIS------NRARPVGAVSYTDINGFSYK 303
E+AG +IS ++ R AV D+ +K
Sbjct: 273 EQAGFDPNISFHIPQASKIRFESAVELGDLEEAKWK 308
>pdb|1PCV|A Chain A, Crystal Structure Of Osmotin, A Plant Antifungal Protein
pdb|1PCV|B Chain B, Crystal Structure Of Osmotin, A Plant Antifungal Protein
Length = 205
Score = 28.9 bits (63), Expect = 5.7, Method: Compositional matrix adjust.
Identities = 15/44 (34%), Positives = 17/44 (38%)
Query: 256 GGLPHGIACGENIIKECEEEAGIPRSISNRARPVGAVSYTDING 299
GG H I C NI EC E +P +N G Y G
Sbjct: 117 GGKCHAIHCTANINGECPRELRVPGGCNNPCTTFGGQQYCCTQG 160
>pdb|1AUN|A Chain A, Pathogenesis-Related Protein 5d From Nicotiana Tabacum
Length = 208
Score = 28.1 bits (61), Expect = 8.8, Method: Compositional matrix adjust.
Identities = 19/76 (25%), Positives = 28/76 (36%), Gaps = 1/76 (1%)
Query: 255 GGGLPHGIACGENIIKECEEEAGIPRSISNRARPVGAVSYTDINGFSYKRDVIFCYDLKL 314
G G HGI C NI EC +P +N G Y G ++ + +
Sbjct: 117 GPGKCHGIQCTANINGECPGSLRVPGGCNNPCTTFGGQQYCCTQGPCGPTELSRWFKQRC 176
Query: 315 PEDFVPMNQDGEVESF 330
P+ + QD +F
Sbjct: 177 PDAYS-YPQDDPTSTF 191
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 0.139 0.422
Lambda K H
0.267 0.0410 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Hits to DB: 12,013,903
Number of Sequences: 62578
Number of extensions: 503586
Number of successful extensions: 1122
Number of sequences better than 100.0: 14
Number of HSP's better than 100.0 without gapping: 8
Number of HSP's successfully gapped in prelim test: 6
Number of HSP's that attempted gapping in prelim test: 1114
Number of HSP's gapped (non-prelim): 14
length of query: 386
length of database: 14,973,337
effective HSP length: 101
effective length of query: 285
effective length of database: 8,652,959
effective search space: 2466093315
effective search space used: 2466093315
T: 11
A: 40
X1: 16 ( 7.4 bits)
X2: 38 (14.6 bits)
X3: 64 (24.7 bits)
S1: 41 (21.9 bits)
S2: 52 (24.6 bits)