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= 005970
(667 letters)
Database: pdbaa
62,578 sequences; 14,973,337 total letters
Searching..................................................done
>pdb|1T8Q|A Chain A, Structural Genomics, Crystal Structure Of
Glycerophosphoryl Diester Phosphodiesterase From E. Coli
pdb|1T8Q|B Chain B, Structural Genomics, Crystal Structure Of
Glycerophosphoryl Diester Phosphodiesterase From E. Coli
pdb|1T8Q|C Chain C, Structural Genomics, Crystal Structure Of
Glycerophosphoryl Diester Phosphodiesterase From E. Coli
pdb|1T8Q|D Chain D, Structural Genomics, Crystal Structure Of
Glycerophosphoryl Diester Phosphodiesterase From E. Coli
Length = 336
Score = 42.4 bits (98), Expect = 8e-04, Method: Compositional matrix adjust.
Identities = 47/206 (22%), Positives = 84/206 (40%), Gaps = 20/206 (9%)
Query: 401 NASKSANLLVISKNGASGDYPSCTNLAYQKAISDGVDFIDCPVQMSKDGVPFCLSFINLI 460
NA+ S +VI+ GASG P T A A + G D+++ + +KD NL+
Sbjct: 2 NAADSNEKIVIAHRGASGYLPEHTLPAKAXAYAQGADYLEQDLVXTKDD--------NLV 53
Query: 461 NSTNAAQSKFNSITTTIPEIMAGSG-IFSFSLIWDEIQTLI----PQISNPYFKFKLF-- 513
+ + + P+ G ++ DEI++L I N K + +
Sbjct: 54 VLHDHYLDRVTDVADRFPDRARKDGRYYAIDFTLDEIKSLKFTEGFDIENGK-KVQTYPG 112
Query: 514 RNPKNKNAGKFMKLSDFLEMAKNANSLSGVLISIE---NAVYLAEKQGMSVTNSVMEALG 570
R P K+ + + +E + N +G I I A + ++G + +E L
Sbjct: 113 RFPXGKSDFRVHTFEEEIEFVQGLNHSTGKNIGIYPEIKAPWFHHQEGKDIAAKTLEVLK 172
Query: 571 NAGYNKQTALKVMIQSTDSSVLMKLR 596
GY + KV +Q D+ L +++
Sbjct: 173 KYGYTGKDD-KVYLQCFDADELKRIK 197
Score = 33.5 bits (75), Expect = 0.40, Method: Compositional matrix adjust.
Identities = 24/97 (24%), Positives = 47/97 (48%), Gaps = 9/97 (9%)
Query: 94 VVARGGFSGIFPDSSSIAYSLTLITSAPSVILWCDVQLTKDEAGICFPDLKLDNASNIAQ 153
V+A G SG P+ + A + A L D+ TKD+ + D LD +++A
Sbjct: 11 VIAHRGASGYLPEHTLPAKAXAYAQGAD--YLEQDLVXTKDDNLVVLHDHYLDRVTDVAD 68
Query: 154 IFKTQQKNYLVNGVPTPGWFSIDYTLNDLSNIILNQG 190
F + + +G +++ID+TL+++ ++ +G
Sbjct: 69 RFPDRARK---DGR----YYAIDFTLDEIKSLKFTEG 98
>pdb|1YDY|A Chain A, Crystal Structure Of Periplasmic Glycerophosphodiester
Phosphodiesterase From Escherichia Coli
pdb|1YDY|B Chain B, Crystal Structure Of Periplasmic Glycerophosphodiester
Phosphodiesterase From Escherichia Coli
Length = 356
Score = 40.8 bits (94), Expect = 0.002, Method: Compositional matrix adjust.
Identities = 47/205 (22%), Positives = 84/205 (40%), Gaps = 20/205 (9%)
Query: 402 ASKSANLLVISKNGASGDYPSCTNLAYQKAISDGVDFIDCPVQMSKDGVPFCLSFINLIN 461
A+ S +VI+ GASG P T A A + G D+++ + M+KD NL+
Sbjct: 25 AADSNEKIVIAHRGASGYLPEHTLPAKAMAYAQGADYLEQDLVMTKDD--------NLVV 76
Query: 462 STNAAQSKFNSITTTIPEIMAGSG-IFSFSLIWDEIQTLI----PQISNPYFKFKLF--R 514
+ + + P+ G ++ DEI++L I N K + + R
Sbjct: 77 LHDHYLDRVTDVADRFPDRARKDGRYYAIDFTLDEIKSLKFTEGFDIENGK-KVQTYPGR 135
Query: 515 NPKNKNAGKFMKLSDFLEMAKNANSLSGVLISIE---NAVYLAEKQGMSVTNSVMEALGN 571
P K+ + + +E + N +G I I A + ++G + +E L
Sbjct: 136 FPMGKSDFRVHTFEEEIEFVQGLNHSTGKNIGIYPEIKAPWFHHQEGKDIAAKTLEVLKK 195
Query: 572 AGYNKQTALKVMIQSTDSSVLMKLR 596
GY + KV +Q D+ L +++
Sbjct: 196 YGYTGKDD-KVYLQCFDADELKRIK 219
Score = 36.6 bits (83), Expect = 0.044, Method: Compositional matrix adjust.
Identities = 23/97 (23%), Positives = 47/97 (48%), Gaps = 9/97 (9%)
Query: 94 VVARGGFSGIFPDSSSIAYSLTLITSAPSVILWCDVQLTKDEAGICFPDLKLDNASNIAQ 153
V+A G SG P+ + A ++ A L D+ +TKD+ + D LD +++A
Sbjct: 33 VIAHRGASGYLPEHTLPAKAMAYAQGAD--YLEQDLVMTKDDNLVVLHDHYLDRVTDVAD 90
Query: 154 IFKTQQKNYLVNGVPTPGWFSIDYTLNDLSNIILNQG 190
F + + +++ID+TL+++ ++ +G
Sbjct: 91 RFPDRARK-------DGRYYAIDFTLDEIKSLKFTEG 120
>pdb|3BWV|A Chain A, Crystal Structure Of Deoxyribonucleotidase-like Protein
(np_764060.1) From Staphylococcus Epidermidis Atcc 12228
At 1.55 A Resolution
pdb|3BWV|B Chain B, Crystal Structure Of Deoxyribonucleotidase-like Protein
(np_764060.1) From Staphylococcus Epidermidis Atcc 12228
At 1.55 A Resolution
Length = 180
Score = 38.1 bits (87), Expect = 0.014, Method: Composition-based stats.
Identities = 20/66 (30%), Positives = 34/66 (51%), Gaps = 4/66 (6%)
Query: 323 SLYLLPHTTIVLDAHKERLEVFASNFANDIPISFNYSYDPLTEYLSFIDNGDFSVDG--- 379
+L + PH V+ E +++ + A D+P SF+ Y+ L EY F+D F G
Sbjct: 67 NLDVXPHAQEVVKQLNEHYDIYIATAAXDVPTSFHDKYEWLLEYFPFLDPQHFVFCGRKN 126
Query: 380 -VLSDF 384
+L+D+
Sbjct: 127 IILADY 132
>pdb|2PZ0|A Chain A, Crystal Structure Of Glycerophosphodiester
Phosphodiesterase (Gdpd) From T. Tengcongensis
pdb|2PZ0|B Chain B, Crystal Structure Of Glycerophosphodiester
Phosphodiesterase (Gdpd) From T. Tengcongensis
Length = 252
Score = 37.0 bits (84), Expect = 0.037, Method: Compositional matrix adjust.
Identities = 18/45 (40%), Positives = 27/45 (60%)
Query: 405 SANLLVISKNGASGDYPSCTNLAYQKAISDGVDFIDCPVQMSKDG 449
S LVI+ G S + P T A+++A+ G D I+ VQ++KDG
Sbjct: 9 SMKTLVIAHRGDSKNVPENTIAAFKRAMELGADGIELDVQLTKDG 53
>pdb|1ZCC|A Chain A, Crystal Structure Of Glycerophosphodiester
Phosphodiesterase From Agrobacterium Tumefaciens Str.C58
pdb|1ZCC|B Chain B, Crystal Structure Of Glycerophosphodiester
Phosphodiesterase From Agrobacterium Tumefaciens Str.C58
pdb|1ZCC|C Chain C, Crystal Structure Of Glycerophosphodiester
Phosphodiesterase From Agrobacterium Tumefaciens Str.C58
pdb|1ZCC|D Chain D, Crystal Structure Of Glycerophosphodiester
Phosphodiesterase From Agrobacterium Tumefaciens Str.C58
pdb|1ZCC|E Chain E, Crystal Structure Of Glycerophosphodiester
Phosphodiesterase From Agrobacterium Tumefaciens Str.C58
pdb|1ZCC|F Chain F, Crystal Structure Of Glycerophosphodiester
Phosphodiesterase From Agrobacterium Tumefaciens Str.C58
Length = 248
Score = 34.3 bits (77), Expect = 0.26, Method: Compositional matrix adjust.
Identities = 21/75 (28%), Positives = 36/75 (48%)
Query: 410 VISKNGASGDYPSCTNLAYQKAISDGVDFIDCPVQMSKDGVPFCLSFINLINSTNAAQSK 469
++S GA+ P T A A+ G D+I+ V+ S DGV + + L +TN
Sbjct: 4 IVSHRGANRFAPENTFAAADLALQQGADYIELDVRESADGVLYVIHDETLDRTTNGTGPV 63
Query: 470 FNSITTTIPEIMAGS 484
+ +++ I + AG
Sbjct: 64 GHMLSSEIDTLDAGG 78
>pdb|3QVQ|A Chain A, The Structure Of An Oleispira Antarctica Phosphodiesterase
Olei02445 In Complex With The Product
Sn-Glycerol-3-Phosphate
pdb|3QVQ|B Chain B, The Structure Of An Oleispira Antarctica Phosphodiesterase
Olei02445 In Complex With The Product
Sn-Glycerol-3-Phosphate
pdb|3QVQ|C Chain C, The Structure Of An Oleispira Antarctica Phosphodiesterase
Olei02445 In Complex With The Product
Sn-Glycerol-3-Phosphate
pdb|3QVQ|D Chain D, The Structure Of An Oleispira Antarctica Phosphodiesterase
Olei02445 In Complex With The Product
Sn-Glycerol-3-Phosphate
Length = 252
Score = 33.5 bits (75), Expect = 0.36, Method: Compositional matrix adjust.
Identities = 19/75 (25%), Positives = 35/75 (46%)
Query: 410 VISKNGASGDYPSCTNLAYQKAISDGVDFIDCPVQMSKDGVPFCLSFINLINSTNAAQSK 469
VI+ G+SG P T + A G+ +++ V +S DG+P L +T+
Sbjct: 12 VIAHRGSSGQAPENTLASLHLAGQQGIKWVEIDVXLSGDGIPVIFHDDYLSRTTDGDGLI 71
Query: 470 FNSITTTIPEIMAGS 484
+ + + ++ AGS
Sbjct: 72 YKTPLAELKQLDAGS 86
>pdb|3I10|A Chain A, Crystal Structure Of Putative Glycerophosphoryl Diester
Phosphodiesterase (Np_812074.1) From Bacteroides
Thetaiotaomicron Vpi-5482 At 1.35 A Resolution
Length = 278
Score = 32.7 bits (73), Expect = 0.61, Method: Compositional matrix adjust.
Identities = 19/71 (26%), Positives = 33/71 (46%), Gaps = 1/71 (1%)
Query: 404 KSANLLVISKNGASGDYPSCTNLAYQKAISDGVDFIDCPVQMSKDGVPFCLSFINLINST 463
KS +LV++ G P + A AI+ VD ++ +Q +KDG L N ++ T
Sbjct: 14 KSNKVLVVAHRGNWRSAPENSTAAIDSAIAXKVDIVEIDIQKTKDG-QLILXHDNTLDRT 72
Query: 464 NAAQSKFNSIT 474
+ + + T
Sbjct: 73 TTGKGEIKNWT 83
>pdb|1U8V|A Chain A, Crystal Structure Of 4-Hydroxybutyryl-Coa Dehydratase From
Clostridium Aminobutyricum: Radical Catalysis Involving
A [4fe-4s] Cluster And Flavin
pdb|1U8V|B Chain B, Crystal Structure Of 4-Hydroxybutyryl-Coa Dehydratase From
Clostridium Aminobutyricum: Radical Catalysis Involving
A [4fe-4s] Cluster And Flavin
pdb|1U8V|C Chain C, Crystal Structure Of 4-Hydroxybutyryl-Coa Dehydratase From
Clostridium Aminobutyricum: Radical Catalysis Involving
A [4fe-4s] Cluster And Flavin
pdb|1U8V|D Chain D, Crystal Structure Of 4-Hydroxybutyryl-Coa Dehydratase From
Clostridium Aminobutyricum: Radical Catalysis Involving
A [4fe-4s] Cluster And Flavin
Length = 490
Score = 32.7 bits (73), Expect = 0.68, Method: Compositional matrix adjust.
Identities = 20/55 (36%), Positives = 27/55 (49%), Gaps = 5/55 (9%)
Query: 343 VFASNFANDIPISFNYSYDPLTEYLSFIDNGDFSVDGVLS----DFPLTPSAAVD 393
VF++ + D NY + TEYL +I D VDG ++ D L PSA D
Sbjct: 112 VFSTTYEIDQKYGTNY-HKNFTEYLKYIQENDLIVDGAMTDPKGDRGLAPSAQKD 165
>pdb|2Q7N|A Chain A, Crystal Structure Of Leukemia Inhibitory Factor In Complex
With Lif Receptor (Domains 1-5)
pdb|2Q7N|C Chain C, Crystal Structure Of Leukemia Inhibitory Factor In Complex
With Lif Receptor (Domains 1-5)
Length = 488
Score = 32.7 bits (73), Expect = 0.68, Method: Compositional matrix adjust.
Identities = 22/69 (31%), Positives = 34/69 (49%), Gaps = 9/69 (13%)
Query: 460 INSTNAAQSKFN------SITTTIPEIMAGSGIF---SFSLIWDEIQTLIPQISNPYFKF 510
IN N QSKF S+ PEI+ S F S L W++ + +P SN ++
Sbjct: 69 INYLNGFQSKFTLNEKDVSLIPETPEILDLSADFFTSSLLLKWNDRGSALPHPSNATWEI 128
Query: 511 KLFRNPKNK 519
K+ +NP+ +
Sbjct: 129 KVLQNPRTE 137
>pdb|1O1Z|A Chain A, Crystal Structure Of Glycerophosphodiester
Phosphodiesterase (Gdpd) (Tm1621) From Thermotoga
Maritima At 1.60 A Resolution
Length = 234
Score = 32.3 bits (72), Expect = 0.99, Method: Compositional matrix adjust.
Identities = 15/42 (35%), Positives = 24/42 (57%)
Query: 408 LLVISKNGASGDYPSCTNLAYQKAISDGVDFIDCPVQMSKDG 449
++V+ G S Y T A+ KAI G + ++ V++SKDG
Sbjct: 13 VIVLGHRGYSAKYLENTLEAFMKAIEAGANGVELDVRLSKDG 54
>pdb|1UTY|A Chain A, Crystal Structure Of The Rna Binding Domain Of Bluetongue
Virus Non-Structural Protein 2(Ns2)
pdb|1UTY|B Chain B, Crystal Structure Of The Rna Binding Domain Of Bluetongue
Virus Non-Structural Protein 2(Ns2)
Length = 187
Score = 30.0 bits (66), Expect = 4.0, Method: Composition-based stats.
Identities = 17/68 (25%), Positives = 40/68 (58%), Gaps = 1/68 (1%)
Query: 158 QQKNYLVNGVPTPGWFSIDYTLNDLSNIILNQGVYSRTDKFDGNGFQILTVQDMARQIKP 217
+ K Y++N VP PG + I + +S ++ GV + T++++ F+ ++V MA +++
Sbjct: 52 EPKGYVLN-VPGPGAYRIQDGQDIISLMLTPHGVEATTERWEEWKFEGVSVTPMATRVQY 110
Query: 218 PGLWLNIQ 225
G+ ++ +
Sbjct: 111 NGVMVDAE 118
>pdb|1J8T|A Chain A, Catalytic Domain Of Human Phenylalanine Hydroxylase Fe(Ii)
pdb|1J8U|A Chain A, Catalytic Domain Of Human Phenylalanine Hydroxylase Fe(ii)
In Complex With Tetrahydrobiopterin
pdb|1LRM|A Chain A, Crystal Structure Of Binary Complex Of The Catalytic
Domain Of Human Phenylalanine Hydroxylase With
Dihydrobiopterin (Bh2)
pdb|1KW0|A Chain A, Catalytic Domain Of Human Phenylalanine Hydroxylase
(Fe(Ii) ) In Complex With Tetrahydrobiopterin And
Thienylalanine
pdb|1MMK|A Chain A, Crystal Structure Of Ternary Complex Of The Catalytic
Domain Of Human Phenylalanine Hydroxylase ((Feii))
Complexed With Tetrahydrobiopterin And Thienylalanine
pdb|1MMT|A Chain A, Crystal Structure Of Ternary Complex Of The Catalytic
Domain Of Human Phenylalanine Hydroxylase (Fe(Ii))
Complexed With Tetrahydrobiopterin And Norleucine
Length = 325
Score = 29.3 bits (64), Expect = 7.2, Method: Compositional matrix adjust.
Identities = 12/26 (46%), Positives = 16/26 (61%)
Query: 347 NFANDIPISFNYSYDPLTEYLSFIDN 372
NFA IP F+ YDP T+ + +DN
Sbjct: 299 NFAATIPRPFSVRYDPYTQRIEVLDN 324
>pdb|2PAH|A Chain A, Tetrameric Human Phenylalanine Hydroxylase
pdb|2PAH|B Chain B, Tetrameric Human Phenylalanine Hydroxylase
Length = 335
Score = 29.3 bits (64), Expect = 7.3, Method: Compositional matrix adjust.
Identities = 12/26 (46%), Positives = 16/26 (61%)
Query: 347 NFANDIPISFNYSYDPLTEYLSFIDN 372
NFA IP F+ YDP T+ + +DN
Sbjct: 284 NFAATIPRPFSVRYDPYTQRIEVLDN 309
>pdb|4ANP|A Chain A, Crystal Structure Of Human Phenylalanine Hydroxylase In
Complex With A Pharmacological Chaperone
Length = 324
Score = 29.3 bits (64), Expect = 7.5, Method: Compositional matrix adjust.
Identities = 12/26 (46%), Positives = 16/26 (61%)
Query: 347 NFANDIPISFNYSYDPLTEYLSFIDN 372
NFA IP F+ YDP T+ + +DN
Sbjct: 298 NFAATIPRPFSVRYDPYTQRIEVLDN 323
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 0.133 0.390
Lambda K H
0.267 0.0410 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Hits to DB: 17,756,399
Number of Sequences: 62578
Number of extensions: 702541
Number of successful extensions: 1699
Number of sequences better than 100.0: 17
Number of HSP's better than 100.0 without gapping: 11
Number of HSP's successfully gapped in prelim test: 6
Number of HSP's that attempted gapping in prelim test: 1683
Number of HSP's gapped (non-prelim): 21
length of query: 667
length of database: 14,973,337
effective HSP length: 105
effective length of query: 562
effective length of database: 8,402,647
effective search space: 4722287614
effective search space used: 4722287614
T: 11
A: 40
X1: 16 ( 7.4 bits)
X2: 38 (14.6 bits)
X3: 64 (24.7 bits)
S1: 41 (21.8 bits)
S2: 55 (25.8 bits)