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= 037479
(492 letters)
Database: pdbaa
62,578 sequences; 14,973,337 total letters
Searching..................................................done
>pdb|4DQV|A Chain A, Crystal Structure Of Reductase (R) Domain Of Non-Ribosomal
Peptide Synthetase From Mycobacterium Tuberculosis
Length = 478
Score = 48.9 bits (115), Expect = 7e-06, Method: Compositional matrix adjust.
Identities = 45/157 (28%), Positives = 74/157 (47%), Gaps = 13/157 (8%)
Query: 11 ENKTILVTGATGFLAKIFVEKILRVQPNVKKLYLLLRAADAKSATVRFHNEIIGKD--LF 68
E +T+L+TGATGFL + V ++LR +L L+RA + A R D L
Sbjct: 72 ELRTVLLTGATGFLGRYLVLELLRRLDVDGRLICLVRAESDEDARRRLEKTFDSGDPELL 131
Query: 69 RVLKEKNGTHLNALISEKITLVPGDITREDLGVKDSNLREEMWNKLDVVINLAATTNFDE 128
R KE L ++++ +V GD + DLG+ R + +D++++ AA N
Sbjct: 132 RHFKE--------LAADRLEVVAGDKSEPDLGLDQPXWR-RLAETVDLIVDSAAXVNAFP 182
Query: 129 RYDVALDLNTFGAKHVLNFSKKCAKLIVLVHVSTAFV 165
+++ N G ++ + KL +VSTA V
Sbjct: 183 YHEL-FGPNVAGTAELIRIALTT-KLKPFTYVSTADV 217
>pdb|1KEP|A Chain A, The Crystal Structure Of Dtdp-D-Glucose 4,6-Dehydratase
(Rmlb) From Streptococcus Suis With Dtdp-Xylose Bound
pdb|1KEP|B Chain B, The Crystal Structure Of Dtdp-D-Glucose 4,6-Dehydratase
(Rmlb) From Streptococcus Suis With Dtdp-Xylose Bound
pdb|1KER|A Chain A, The Crystal Structure Of Dtdp-D-Glucose 4,6-Dehydratase
(Rmlb) From Streptococcus Suis With Dtdp-D-Glucose Bound
pdb|1KER|B Chain B, The Crystal Structure Of Dtdp-D-Glucose 4,6-Dehydratase
(Rmlb) From Streptococcus Suis With Dtdp-D-Glucose Bound
pdb|1KET|A Chain A, The Crystal Structure Of Dtdp-D-Glucose 4,6-Dehydratase
(Rmlb) From Streptococcus Suis With Thymidine
Diphosphate Bound
pdb|1KET|B Chain B, The Crystal Structure Of Dtdp-D-Glucose 4,6-Dehydratase
(Rmlb) From Streptococcus Suis With Thymidine
Diphosphate Bound
pdb|1OC2|A Chain A, The Structure Of Nadh In The Dtdp-D-Glucose Dehydratase
(Rmlb) Enzyme
pdb|1OC2|B Chain B, The Structure Of Nadh In The Dtdp-D-Glucose Dehydratase
(Rmlb) Enzyme
Length = 348
Score = 38.9 bits (89), Expect = 0.007, Method: Compositional matrix adjust.
Identities = 40/159 (25%), Positives = 68/159 (42%), Gaps = 35/159 (22%)
Query: 13 KTILVTGATGFLAKIFVEKILRVQPNVKKLYLLLRAADAKSATVRFHNEIIGKDLFRVLK 72
K I+VTG GF+ FV + P+V TV L ++
Sbjct: 5 KNIIVTGGAGFIGSNFVHYVYNNHPDVH-------------VTV----------LDKLTY 41
Query: 73 EKNGTHLNALISEKITLVPGDITREDLGVKDSNLREEMWNKLDVVINLAATTNFDERYDV 132
N +L A++ +++ LV GDI D+ L +++ K D +++ AA ++ D +
Sbjct: 42 AGNKANLEAILGDRVELVVGDIA-------DAELVDKLAAKADAIVHYAAESHNDNSLND 94
Query: 133 A---LDLNTFGAKHVLNFSKKCAKLIVLVHVSTAFVWGE 168
+ N G +L ++K I HVST V+G+
Sbjct: 95 PSPFIHTNFIGTYTLLEAARKYD--IRFHHVSTDEVYGD 131
>pdb|2HUN|A Chain A, Crystal Structure Of Hypothetical Protein Ph0414 From
Pyrococcus Horikoshii Ot3
pdb|2HUN|B Chain B, Crystal Structure Of Hypothetical Protein Ph0414 From
Pyrococcus Horikoshii Ot3
Length = 336
Score = 38.5 bits (88), Expect = 0.007, Method: Compositional matrix adjust.
Identities = 47/183 (25%), Positives = 77/183 (42%), Gaps = 38/183 (20%)
Query: 10 LENKTILVTGATGFLAKIFVEKILRVQPNVKKLYLLLRAADAKSATVRFHNEIIGKDLFR 69
+ + +LVTG GF+ F+ IL P+ E+I D +
Sbjct: 1 MHSMKLLVTGGMGFIGSNFIRYILEKHPDW---------------------EVINID--K 37
Query: 70 VLKEKNGTHLNALISE-KITLVPGDITREDLGVKDSNLREEMWNKLDVVINLAATTNFDE 128
+ N +L L + + T V GD V D L +E+ K+D V++LAA ++ D
Sbjct: 38 LGYGSNPANLKDLEDDPRYTFVKGD-------VADYELVKELVRKVDGVVHLAAESHVDR 90
Query: 129 RY---DVALDLNTFGAKHVLNFSKKCAKLIVLVHVSTAFVWGEESGMLYESSFKMGDTLN 185
++ L N G +L ++ + VHVST V+G+ + + SF D L
Sbjct: 91 SISSPEIFLHSNVIGTYTLLESIRRENPEVRFVHVSTDEVYGD----ILKGSFTENDRLM 146
Query: 186 GAS 188
+S
Sbjct: 147 PSS 149
>pdb|2GN4|A Chain A, Crystal Structure Of Udp-Glcnac Inverting
4,6-Dehydratase In Complex With Nadph And Udp-Glcnac
pdb|2GN4|B Chain B, Crystal Structure Of Udp-Glcnac Inverting
4,6-Dehydratase In Complex With Nadph And Udp-Glcnac
pdb|2GN6|A Chain A, Crystal Structure Of Udp-Glcnac Inverting
4,6-Dehydratase In Complex With Nadp And Udp-Glcnac
pdb|2GN6|B Chain B, Crystal Structure Of Udp-Glcnac Inverting
4,6-Dehydratase In Complex With Nadp And Udp-Glcnac
pdb|2GN8|A Chain A, Crystal Structure Of Udp-Glcnac Inverting
4,6-Dehydratase In Complex With Nadp And Udp
pdb|2GN8|B Chain B, Crystal Structure Of Udp-Glcnac Inverting
4,6-Dehydratase In Complex With Nadp And Udp
pdb|2GN9|A Chain A, Crystal Structure Of Udp-glcnac Inverting
4,6-dehydratase In Complex With Nadp And Udp-glc
pdb|2GN9|B Chain B, Crystal Structure Of Udp-glcnac Inverting
4,6-dehydratase In Complex With Nadp And Udp-glc
pdb|2GNA|A Chain A, Crystal Structure Of Udp-Glcnac Inverting
4,6-Dehydratase In Complex With Nadp And Udp-Gal
pdb|2GNA|B Chain B, Crystal Structure Of Udp-Glcnac Inverting
4,6-Dehydratase In Complex With Nadp And Udp-Gal
Length = 344
Score = 35.8 bits (81), Expect = 0.057, Method: Compositional matrix adjust.
Identities = 19/47 (40%), Positives = 27/47 (57%), Gaps = 1/47 (2%)
Query: 1 MELGSVLEFLENKTILVTGATGFLAKIFVEKILRVQPNVKKLYLLLR 47
M + + L+N+TIL+TG TG K FV K+L N KK+ + R
Sbjct: 10 MSMPNHQNMLDNQTILITGGTGSFGKCFVRKVLDTT-NAKKIIVYSR 55
>pdb|1VL0|A Chain A, Crystal Structure Of A Dtdp-4-Dehydrorhamnose Reductase,
Rfbd Ortholog (Ca_c2315) From Clostridium Acetobutylicum
Atcc 824 At 2.05 A Resolution
pdb|1VL0|B Chain B, Crystal Structure Of A Dtdp-4-Dehydrorhamnose Reductase,
Rfbd Ortholog (Ca_c2315) From Clostridium Acetobutylicum
Atcc 824 At 2.05 A Resolution
pdb|1VL0|C Chain C, Crystal Structure Of A Dtdp-4-Dehydrorhamnose Reductase,
Rfbd Ortholog (Ca_c2315) From Clostridium Acetobutylicum
Atcc 824 At 2.05 A Resolution
Length = 292
Score = 35.4 bits (80), Expect = 0.071, Method: Compositional matrix adjust.
Identities = 33/116 (28%), Positives = 58/116 (50%), Gaps = 20/116 (17%)
Query: 60 NEIIGKDLFRVLKEKNGTHLNALISEKITLVPGDITREDLGVKDSNLREEMWN--KLDVV 117
N +G+++ + LK KN + ++P D+ +DL + + + +N K +VV
Sbjct: 21 NGQLGREIQKQLKGKN-----------VEVIPTDV--QDLDITNVLAVNKFFNEKKPNVV 67
Query: 118 INLAATTNFD---ERYDVALDLNTFGAKHVLNFSKKCAKLIVLVHVSTAFVWGEES 170
IN AA T D E+YD+A +N G K++ + I V +ST +V+ E+
Sbjct: 68 INCAAHTAVDKCEEQYDLAYKINAIGPKNLAAAAYSVGAEI--VQISTDYVFDGEA 121
>pdb|3QCW|A Chain A, Structure Of Neurexin 1 Alpha (Domains Lns1-Lns6), No
Splice Inserts
pdb|3QCW|B Chain B, Structure Of Neurexin 1 Alpha (Domains Lns1-Lns6), No
Splice Inserts
Length = 1245
Score = 31.6 bits (70), Expect = 1.0, Method: Compositional matrix adjust.
Identities = 15/54 (27%), Positives = 26/54 (48%)
Query: 242 VMGEMFIEHLKENMSVAIVRPTIITGTYKEPFPGWAEGIRTIDSLAVGYGKGRL 295
V +F+ L + A ++ T+ + +EPF GW +R SLA+ G +
Sbjct: 119 VFSGLFVGGLPPELRAAALKLTLASVREREPFKGWIRDVRVQSSLALPVDSGEV 172
>pdb|3R05|A Chain A, Structure Of Neurexin 1 Alpha (Domains Lns1-Lns6), With
Splice Insert Ss3
pdb|3R05|B Chain B, Structure Of Neurexin 1 Alpha (Domains Lns1-Lns6), With
Splice Insert Ss3
Length = 1254
Score = 31.2 bits (69), Expect = 1.2, Method: Compositional matrix adjust.
Identities = 15/54 (27%), Positives = 26/54 (48%)
Query: 242 VMGEMFIEHLKENMSVAIVRPTIITGTYKEPFPGWAEGIRTIDSLAVGYGKGRL 295
V +F+ L + A ++ T+ + +EPF GW +R SLA+ G +
Sbjct: 119 VFSGLFVGGLPPELRAAALKLTLASVREREPFKGWIRDVRVNSSLALPVDSGEV 172
>pdb|3HZ8|A Chain A, Crystal Structure Of The Oxidized T176v Dsba1 Mutant
Length = 193
Score = 30.8 bits (68), Expect = 2.0, Method: Compositional matrix adjust.
Identities = 15/40 (37%), Positives = 20/40 (50%)
Query: 248 IEHLKENMSVAIVRPTIITGTYKEPFPGWAEGIRTIDSLA 287
++ L E + V I+ G YK F W G+ TID LA
Sbjct: 143 MQELTETFQIDGVPTVIVGGKYKVEFADWESGMNTIDLLA 182
>pdb|1FBR|A Chain A, Fourth And Fifth Fibronectin Type I Module Pair
pdb|2RKY|A Chain A, Crystal Structure Of The Fourth And Fifth Fibronectin F1
Modules In Complex With A Fragment Of Staphylococcus
Aureus Fnbpa-1
pdb|2RKY|C Chain C, Crystal Structure Of The Fourth And Fifth Fibronectin F1
Modules In Complex With A Fragment Of Staphylococcus
Aureus Fnbpa-1
Length = 93
Score = 30.0 bits (66), Expect = 2.9, Method: Composition-based stats.
Identities = 11/34 (32%), Positives = 20/34 (58%), Gaps = 4/34 (11%)
Query: 264 IITGTYKEPFPGWAEGIRTIDSLAVGYGKGRLTC 297
++ T+++P+ GW +D +G G GR+TC
Sbjct: 14 VVGETWEKPYQGWM----MVDCTCLGEGSGRITC 43
>pdb|2RL0|A Chain A, Crystal Structure Of The Fourth And Fifth Fibronectin F1
Modules In Complex With A Fragment Of Staphylococcus
Aureus Fnbpa-5
pdb|2RL0|B Chain B, Crystal Structure Of The Fourth And Fifth Fibronectin F1
Modules In Complex With A Fragment Of Staphylococcus
Aureus Fnbpa-5
pdb|2RL0|D Chain D, Crystal Structure Of The Fourth And Fifth Fibronectin F1
Modules In Complex With A Fragment Of Staphylococcus
Aureus Fnbpa-5
pdb|2RL0|F Chain F, Crystal Structure Of The Fourth And Fifth Fibronectin F1
Modules In Complex With A Fragment Of Staphylococcus
Aureus Fnbpa-5
pdb|2RL0|I Chain I, Crystal Structure Of The Fourth And Fifth Fibronectin F1
Modules In Complex With A Fragment Of Staphylococcus
Aureus Fnbpa-5
pdb|2RL0|K Chain K, Crystal Structure Of The Fourth And Fifth Fibronectin F1
Modules In Complex With A Fragment Of Staphylococcus
Aureus Fnbpa-5
Length = 89
Score = 30.0 bits (66), Expect = 2.9, Method: Composition-based stats.
Identities = 11/34 (32%), Positives = 20/34 (58%), Gaps = 4/34 (11%)
Query: 264 IITGTYKEPFPGWAEGIRTIDSLAVGYGKGRLTC 297
++ T+++P+ GW +D +G G GR+TC
Sbjct: 13 VVGETWEKPYQGWM----MVDCTCLGEGSGRITC 42
>pdb|3TIO|A Chain A, Crystal Structures Of Yrda From Escherichia Coli, A
Homologous Protein Of Gamma-Class Carbonic Anhydrase,
Show Possible Allosteric Conformations
pdb|3TIO|B Chain B, Crystal Structures Of Yrda From Escherichia Coli, A
Homologous Protein Of Gamma-Class Carbonic Anhydrase,
Show Possible Allosteric Conformations
pdb|3TIO|C Chain C, Crystal Structures Of Yrda From Escherichia Coli, A
Homologous Protein Of Gamma-Class Carbonic Anhydrase,
Show Possible Allosteric Conformations
pdb|3TIO|D Chain D, Crystal Structures Of Yrda From Escherichia Coli, A
Homologous Protein Of Gamma-Class Carbonic Anhydrase,
Show Possible Allosteric Conformations
pdb|3TIO|E Chain E, Crystal Structures Of Yrda From Escherichia Coli, A
Homologous Protein Of Gamma-Class Carbonic Anhydrase,
Show Possible Allosteric Conformations
pdb|3TIO|F Chain F, Crystal Structures Of Yrda From Escherichia Coli, A
Homologous Protein Of Gamma-Class Carbonic Anhydrase,
Show Possible Allosteric Conformations
pdb|3TIS|A Chain A, Crystal Structures Of Yrda From Escherichia Coli, A
Homologous Protein Of Gamma-Class Carbonic Anhydrases,
Show Possible Allosteric Conformations
pdb|3TIS|B Chain B, Crystal Structures Of Yrda From Escherichia Coli, A
Homologous Protein Of Gamma-Class Carbonic Anhydrases,
Show Possible Allosteric Conformations
pdb|3TIS|C Chain C, Crystal Structures Of Yrda From Escherichia Coli, A
Homologous Protein Of Gamma-Class Carbonic Anhydrases,
Show Possible Allosteric Conformations
Length = 183
Score = 30.0 bits (66), Expect = 3.3, Method: Compositional matrix adjust.
Identities = 14/34 (41%), Positives = 21/34 (61%), Gaps = 1/34 (2%)
Query: 349 TNLQDYAYRYFTKKPWINKDGKPVKVGK-ITVFH 381
TN+QD + + T K N DG P+ +G+ +TV H
Sbjct: 57 TNIQDGSMLHVTHKSSYNPDGNPLTIGEDVTVGH 90
>pdb|1XLY|A Chain A, X-Ray Structure Of The Rna-Binding Protein She2p
pdb|1XLY|B Chain B, X-Ray Structure Of The Rna-Binding Protein She2p
Length = 234
Score = 29.6 bits (65), Expect = 4.2, Method: Compositional matrix adjust.
Identities = 21/88 (23%), Positives = 38/88 (43%), Gaps = 7/88 (7%)
Query: 204 NELQAEGASEEAITLAMKDLGIKRAKIYGWPNTYVFTKVMGEMFIEHLKENMSVAIVRPT 263
NEL E S + + L + + +K + + N Y+ + E+ + L E++++
Sbjct: 78 NELDPEADSFDKVILPIASMFVKSVETFDLLNYYLTQSLQKEILSKTLNEDLTLTAESIL 137
Query: 264 IITGTYKE--PFPGWAEGIRTIDSLAVG 289
I TY F W I+SL +G
Sbjct: 138 AIDDTYNHFVKFSQWM-----IESLRIG 160
>pdb|3A3T|A Chain A, The Oxidoreductase Nmdsba1 From N. Meningitidis
pdb|3A3T|B Chain B, The Oxidoreductase Nmdsba1 From N. Meningitidis
pdb|3A3T|C Chain C, The Oxidoreductase Nmdsba1 From N. Meningitidis
pdb|3A3T|D Chain D, The Oxidoreductase Nmdsba1 From N. Meningitidis
pdb|3A3T|E Chain E, The Oxidoreductase Nmdsba1 From N. Meningitidis
pdb|3A3T|F Chain F, The Oxidoreductase Nmdsba1 From N. Meningitidis
Length = 210
Score = 29.6 bits (65), Expect = 4.2, Method: Compositional matrix adjust.
Identities = 14/40 (35%), Positives = 19/40 (47%)
Query: 248 IEHLKENMSVAIVRPTIITGTYKEPFPGWAEGIRTIDSLA 287
++ L E + I+ G YK F W G+ TID LA
Sbjct: 160 MQELTETFQIDGTPTVIVGGKYKVEFADWESGMNTIDLLA 199
>pdb|3DVW|A Chain A, Crystal Structure Of Reduced Dsba1 From Neisseria
Meningitidis
Length = 193
Score = 29.3 bits (64), Expect = 5.6, Method: Compositional matrix adjust.
Identities = 14/40 (35%), Positives = 19/40 (47%)
Query: 248 IEHLKENMSVAIVRPTIITGTYKEPFPGWAEGIRTIDSLA 287
++ L E + I+ G YK F W G+ TID LA
Sbjct: 143 MQELTETFQIDGTPTVIVGGKYKVEFADWESGMNTIDLLA 182
>pdb|1SB8|A Chain A, Crystal Structure Of Pseudomonas Aeruginosa
Udp-N-Acetylglucosamine 4- Epimerase Complexed With
Udp-N-Acetylgalactosamine
pdb|1SB9|A Chain A, Crystal Structure Of Pseudomonas Aeruginosa
Udp-N-Acetylglucosamine 4- Epimerase Complexed With
Udp-Glucose
Length = 352
Score = 28.9 bits (63), Expect = 6.2, Method: Compositional matrix adjust.
Identities = 33/168 (19%), Positives = 65/168 (38%), Gaps = 36/168 (21%)
Query: 11 ENKTILVTGATGFLAKIFVEKILRVQPNVKKLYLLLRAADAKSATVRFHNEIIGKDLFRV 70
+ K L+TG GF+ +E +L++ +++G D F
Sbjct: 26 QPKVWLITGVAGFIGSNLLETLLKLD-----------------------QKVVGLDNFAT 62
Query: 71 LKEKNGTHLNALISEK----ITLVPGDITREDLGVKDSNLREEMWNKLDVVINLAATTNF 126
++N + +L+SEK + GDI D D N +D V++ AA +
Sbjct: 63 GHQRNLDEVRSLVSEKQWSNFKFIQGDIRNLD----DCN---NACAGVDYVLHQAALGSV 115
Query: 127 DERYDVALDLNTFGAKHVLNF--SKKCAKLIVLVHVSTAFVWGEESGM 172
+ + N LN + + AK+ + +++ +G+ G+
Sbjct: 116 PRSINDPITSNATNIDGFLNMLIAARDAKVQSFTYAASSSTYGDHPGL 163
>pdb|4B79|A Chain A, The Aeropath Project And Pseudomonas Aeruginosa
High-throughput Crystallographic Studies For Assessment
Of Potential Targets In Early Stage Drug Discovery.
pdb|4B79|B Chain B, The Aeropath Project And Pseudomonas Aeruginosa
High-throughput Crystallographic Studies For Assessment
Of Potential Targets In Early Stage Drug Discovery.
pdb|4AVY|A Chain A, The Aeropath Project And Pseudomonas Aeruginosa
High-throughput Crystallographic Studies For Assessment
Of Potential Targets In Early Stage Drug Discovery.
pdb|4AVY|B Chain B, The Aeropath Project And Pseudomonas Aeruginosa
High-throughput Crystallographic Studies For Assessment
Of Potential Targets In Early Stage Drug Discovery
Length = 242
Score = 28.5 bits (62), Expect = 9.5, Method: Compositional matrix adjust.
Identities = 15/43 (34%), Positives = 25/43 (58%), Gaps = 3/43 (6%)
Query: 94 ITREDLGVKDSNLREEMWN---KLDVVINLAATTNFDERYDVA 133
I RE+L + DS + ++ +LDV++N A + E YD+A
Sbjct: 56 IRREELDITDSQRLQRLFEALPRLDVLVNNAGISRDREEYDLA 98
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
0.322 0.140 0.413
Lambda K H
0.267 0.0410 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Hits to DB: 14,062,658
Number of Sequences: 62578
Number of extensions: 582137
Number of successful extensions: 1470
Number of sequences better than 100.0: 23
Number of HSP's better than 100.0 without gapping: 9
Number of HSP's successfully gapped in prelim test: 14
Number of HSP's that attempted gapping in prelim test: 1458
Number of HSP's gapped (non-prelim): 24
length of query: 492
length of database: 14,973,337
effective HSP length: 103
effective length of query: 389
effective length of database: 8,527,803
effective search space: 3317315367
effective search space used: 3317315367
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: 53 (25.0 bits)