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= 003498
(815 letters)
Database: pdbaa
62,578 sequences; 14,973,337 total letters
Searching..................................................done
>pdb|3THC|A Chain A, Crystal Structure Of Human Beta-Galactosidase In Complex
With Galactose
pdb|3THC|B Chain B, Crystal Structure Of Human Beta-Galactosidase In Complex
With Galactose
pdb|3THC|C Chain C, Crystal Structure Of Human Beta-Galactosidase In Complex
With Galactose
pdb|3THC|D Chain D, Crystal Structure Of Human Beta-Galactosidase In Complex
With Galactose
pdb|3THD|A Chain A, Crystal Structure Of Human Beta-Galactosidase In Complex
With 1- Deoxygalactonojirimycin
pdb|3THD|B Chain B, Crystal Structure Of Human Beta-Galactosidase In Complex
With 1- Deoxygalactonojirimycin
pdb|3THD|C Chain C, Crystal Structure Of Human Beta-Galactosidase In Complex
With 1- Deoxygalactonojirimycin
pdb|3THD|D Chain D, Crystal Structure Of Human Beta-Galactosidase In Complex
With 1- Deoxygalactonojirimycin
Length = 654
Score = 171 bits (433), Expect = 2e-42, Method: Compositional matrix adjust.
Identities = 135/411 (32%), Positives = 190/411 (46%), Gaps = 45/411 (10%)
Query: 33 VSYDSKAIAINGKRRILISGSIHYPRSSPEMWPDLIQKAKDGGLDVIQTYVFWNGHEPSP 92
+ Y + +G+ ISGSIHY R W D + K K GL+ IQTYV WN HEP P
Sbjct: 11 IDYSRDSFLKDGQPFRYISGSIHYSRVPRFYWKDRLLKMKMAGLNAIQTYVPWNFHEPWP 70
Query: 93 GKYYFEGNYDLVKFIKLAKQAGLYVNLRIGPYVCAEWNFGGFPVWLKYIPGINFRTENGP 152
G+Y F ++D+ F++LA + GL V LR GPY+CAEW GG P WL I R+ +
Sbjct: 71 GQYQFSEDHDVEYFLRLAHELGLLVILRPGPYICAEWEMGGLPAWLLEKESILLRSSDPD 130
Query: 153 FKAEMHKFTKKIVDMMKAERLFESQGGPIILSQIENEYGPMEYEIGAPGRSYTRWAAK-M 211
+ A + K+ ++ MK L GGP+I Q+ENEYG A Y R+ K
Sbjct: 131 YLAAVDKWLGVLLPKMKP--LLYQNGGPVITVQVENEYG----SYFACDFDYLRFLQKRF 184
Query: 212 AVGLGTGVPWIMCKQDDAPDPLIN--TCNGFY-----------CDYFSPNKAYKPK---M 255
LG V ++ D A + G Y D F + +PK +
Sbjct: 185 RHHLGDDV--VLFTTDGAHKTFLKCGALQGLYTTVDFGTGSNITDAFLSQRKCEPKGPLI 242
Query: 256 WTEAWTGWYTEFGGPVPHRPVEDLAFSVAKFIQKGGSFINYYMYHGGTNFG--RTAGGPF 313
+E +TGW +G P E +A S+ + +G S +N YM+ GGTNF A P+
Sbjct: 243 NSEFYTGWLDHWGQPHSTIKTEAVASSLYDILARGAS-VNLYMFIGGTNFAYWNGANSPY 301
Query: 314 IA--TSYDYDAPLDEYGLLRQPKWGHLKDLHRAIKLCEPALVSGNPTVMPLGNYQEAHVF 371
A TSYDYDAPL E G L + + + + K+ E + P P Y + +
Sbjct: 302 AAQPTSYDYDAPLSEAGDLTEKYFALRNIIQKFEKVPEGPI----PPSTPKFAYGKVTLE 357
Query: 372 KSKSACAAF--------LANYNQRTFAKVAFGNQHYNLPPWSISILPDCKN 414
K K+ AA + + TF +V QHY + ++ DC N
Sbjct: 358 KLKTVGAALDILCPSGPIKSLYPLTFIQV---KQHYGFVLYRTTLPQDCSN 405
Score = 38.1 bits (87), Expect = 0.018, Method: Compositional matrix adjust.
Identities = 25/68 (36%), Positives = 32/68 (47%), Gaps = 6/68 (8%)
Query: 602 HSLSGGSSVEWAEGSLVAQRQPLTWYRTTFSAPAGNAPLALD----MGSMGKGQVWVNGQ 657
H SG WA S + +Y FS P+G L D KGQVW+NG
Sbjct: 506 HRDSGHHDEAWAHNS--SNYTLPAFYMGNFSIPSGIPDLPQDTFIQFPGWTKGQVWINGF 563
Query: 658 SIGRHWPA 665
++GR+WPA
Sbjct: 564 NLGRYWPA 571
>pdb|3D3A|A Chain A, Crystal Structure Of A Beta-Galactosidase From Bacteroides
Thetaiotaomicron
Length = 612
Score = 168 bits (426), Expect = 1e-41, Method: Compositional matrix adjust.
Identities = 116/329 (35%), Positives = 164/329 (49%), Gaps = 25/329 (7%)
Query: 30 EGSVSYDSKAIAINGKRRILISGSIHYPRSSPEMWPDLIQKAKDGGLDVIQTYVFWNGHE 89
EG+ +NG+ ++ + IHYPR E W I+ K G + I YVFWN HE
Sbjct: 5 EGTFEVGKNTFLLNGEPFVVKAAEIHYPRIPKEYWEHRIKXCKALGXNTICLYVFWNFHE 64
Query: 90 PSPGKYYFEGNYDLVKFIKLAKQAGLYVNLRIGPYVCAEWNFGGFPVWLKYIPGINFRTE 149
P G+Y F G D+ F +LA++ G YV +R GPYVCAEW GG P WL I R +
Sbjct: 65 PEEGRYDFAGQKDIAAFCRLAQENGXYVIVRPGPYVCAEWEXGGLPWWLLKKKDIKLREQ 124
Query: 150 NGPFKAEMHKFTKKIVDMMKAERLFESQGGPIILSQIENEYGPMEYEIGAPGRSYTRWAA 209
+ + + F ++ + ++ S+GG II Q+ENEYG + I P S R
Sbjct: 125 DPYYXERVKLFLNEVGKQLADLQI--SKGGNIIXVQVENEYGA--FGIDKPYISEIRDXV 180
Query: 210 KMAVGLGTGVPWIMCK-----QDDAPDPLINTCN---GFYCD-YFSPNKAYKPKM---WT 257
K A G TGVP C +++A D L+ T N G D F K +P +
Sbjct: 181 KQA-GF-TGVPLFQCDWNSNFENNALDDLLWTINFGTGANIDEQFKRLKELRPDTPLXCS 238
Query: 258 EAWTGWYTEFGGPVPHRPVEDLAFSVAKFIQKGGSFINYYMYHGGTNFGRTAGGPF---- 313
E W+GW+ +G R E+L + + + SF + Y HGGT+FG G F
Sbjct: 239 EFWSGWFDHWGAKHETRSAEELVKGXKEXLDRNISF-SLYXTHGGTSFGHWGGANFPNFS 297
Query: 314 -IATSYDYDAPLDEYGLLRQPKWGHLKDL 341
TSYDYDAP++E G + PK+ +++L
Sbjct: 298 PTCTSYDYDAPINESGKV-TPKYLEVRNL 325
Score = 38.9 bits (89), Expect = 0.011, Method: Compositional matrix adjust.
Identities = 57/248 (22%), Positives = 89/248 (35%), Gaps = 55/248 (22%)
Query: 493 SGNYPVLTVMSAGHALHVFVNGQLAGT-----AYGSLEFPKLTFTEGVNMRAGINKIALL 547
S L + A VF+NG+ T G ++ P L EG +++ +L
Sbjct: 394 SDKEQTLLITEAHDWAQVFLNGKKLATLSRLKGEGVVKLPPLK--EG-------DRLDIL 444
Query: 548 SIAVGLPNVGPHFETWNAGVLGPVTLNGLNEGRRDLSWQKWTYKIGLEGEKLNLHSLSGG 607
A G N G W G+ V L WQ +T + +S +
Sbjct: 445 VEAXGRXNFGKGIYDWK-GITEKVELQSDKGVELVKDWQVYTIPVD--------YSFARD 495
Query: 608 SSVEWAEGSLVAQRQPLTWYRTTFSAPAGNAPLALDMGSMGKGQVWVNGQSIGRHWPAYK 667
+ E A+ QP +YR+TF+ L+ + KG VWVNG +IGR+W
Sbjct: 496 KQYKQQEN---AENQP-AYYRSTFNLNELGDTF-LNXXNWSKGXVWVNGHAIGRYWEI-- 548
Query: 668 ASGSCGYCSYTGTYTEKKCLSNCGEASQRWYHVPRSWLKPTGNLLVVFEEWGGNPNGISL 727
Q+ +VP WLK N +++ + G +
Sbjct: 549 -------------------------GPQQTLYVPGCWLKKGENEIIILDXAGPSKAETEG 583
Query: 728 VRREIDSV 735
+R+ I V
Sbjct: 584 LRQPILDV 591
>pdb|4E8C|A Chain A, Crystal Structure Of Streptococcal Beta-Galactosidase In
Complex With Galactose
pdb|4E8C|B Chain B, Crystal Structure Of Streptococcal Beta-Galactosidase In
Complex With Galactose
pdb|4E8D|A Chain A, Crystal Structure Of Streptococcal Beta-Galactosidase
pdb|4E8D|B Chain B, Crystal Structure Of Streptococcal Beta-Galactosidase
Length = 595
Score = 154 bits (388), Expect = 2e-37, Method: Compositional matrix adjust.
Identities = 100/315 (31%), Positives = 153/315 (48%), Gaps = 41/315 (13%)
Query: 42 INGKRRILISGSIHYPRSSPEMWPDLIQKAKDGGLDVIQTYVFWNGHEPSPGKYYFEGNY 101
++GK ++SG+IHY R PE W + K G + ++TYV WN HEP G+++FEG+
Sbjct: 12 LDGKSFKILSGAIHYFRVPPEDWYHSLYNLKALGFNTVETYVAWNLHEPCEGEFHFEGDL 71
Query: 102 DLVKFIKLAKQAGLYVNLRIGPYVCAEWNFGGFPVWLKYIPGINFRTENGPFKAEMHKFT 161
DL KF+++A+ GLY +R P++CAEW FGG P WL + R+ + + + ++
Sbjct: 72 DLEKFLQIAQDLGLYAIVRPSPFICAEWEFGGLPAWL-LTKNMRIRSSDPAYIEAVGRYY 130
Query: 162 KKIVDMMKAERLFESQGGPIILSQIENEYGPMEYEIGAPGRSYTRWAAKMAVGLGTGVPW 221
+++ + GG I++ Q+ENEYG ++Y R ++ G P
Sbjct: 131 DQLLPRLVPRL--LDNGGNILMMQVENEYGSY-----GEDKAYLRAIRQLMEECGVTCPL 183
Query: 222 IMCKQDDAP------------DPLINTCN---------GFYCDYFSPNKAYKPKMWTEAW 260
D P + L T N ++F + P M E W
Sbjct: 184 FTS---DGPWRATLKAGTLIEEDLFVTGNFGSKAPYNFSQMQEFFDEHGKKWPLMCMEFW 240
Query: 261 TGWYTEFGGPVPHRPVEDLAFSVAKFIQKGGSFINYYMYHGGTNFGRTAGGPF------- 313
GW+ + P+ R ++LA +V + +++G IN YM+HGGTNFG G
Sbjct: 241 DGWFNRWKEPIITRDPKELADAVREVLEQGS--INLYMFHGGTNFGFMNGCSARGTLDLP 298
Query: 314 IATSYDYDAPLDEYG 328
TSYDYDA LDE G
Sbjct: 299 QVTSYDYDALLDEEG 313
Score = 47.0 bits (110), Expect = 5e-05, Method: Compositional matrix adjust.
Identities = 66/262 (25%), Positives = 104/262 (39%), Gaps = 68/262 (25%)
Query: 475 YLWYMTDVKIDPSEGFLRSGNYPVLTVMSAGHALHVFVNGQLAGTAYGSLEFPKLTFTEG 534
YL Y T+ D E LR ++ ++V+GQ T Y + E + F +G
Sbjct: 385 YLLYRTETNWDAEEERLR--------IIDGRDRAQLYVDGQWVKTQYQT-EIGEDIFYQG 435
Query: 535 VNMRAGINKIALLSIAVGLPNVGPHF--ETWNAGVLGPV--TLNGLNEGRRDLSWQKWTY 590
+ G++++ +L +G N G F +T G+ V L+ L L+W+ Y
Sbjct: 436 --KKKGLSRLDILIENMGRVNYGHKFLADTQRKGIRTGVCKDLHFL------LNWKH--Y 485
Query: 591 KIGLEG-EKLNLHSLSGGSSVEWAEGSLVAQRQPLTW-YRTTFSAPAGNAPLALDMGSMG 648
+ L+ EK++ S W +G QP + Y T P LD+ G
Sbjct: 486 PLPLDNPEKIDF-------SKGWTQG------QPAFYAYDFTVEEPKDTY---LDLSEFG 529
Query: 649 KGQVWVNGQSIGRHWPAYKASGSCGYCSYTGTYTEKKCLSNCGEASQRWYHVPRSWLKPT 708
KG +VNGQ++GR W N G ++P S+LK
Sbjct: 530 KGVAFVNGQNLGRFW-------------------------NVGPTLS--LYIPHSYLKEG 562
Query: 709 GNLLVVFEEWGGNPNGISLVRR 730
N +++FE G I L R+
Sbjct: 563 ANRIIIFETEGQYKEEIHLTRK 584
>pdb|1TG7|A Chain A, Native Structure Of Beta-Galactosidase From Penicillium
Sp.
pdb|1XC6|A Chain A, Native Structure Of Beta-Galactosidase From Penicillium
Sp. In Complex With Galactose
Length = 971
Score = 123 bits (308), Expect = 4e-28, Method: Compositional matrix adjust.
Identities = 110/369 (29%), Positives = 162/369 (43%), Gaps = 41/369 (11%)
Query: 33 VSYDSKAIAINGKRRILISGSIH-YPRSSPEMWPDLIQKAKDGGLDVIQTYVFWNGHEPS 91
V++D +I +NG+R ++ SG +H Y ++ D+ +K K G + + YV W E +
Sbjct: 6 VTWDEHSIFVNGERLMIFSGEVHPYRLPVASLYIDIFEKVKALGFNCVSFYVDWALLEGN 65
Query: 92 PGKYYFEGNYDLVKFIKLAKQAGLYVNLRIGPYVCAEWNFGGFPVWLKYIPGINFRTENG 151
PG Y EG +DL F AK+AG+Y+ R GPY+ AE + GGFP WL+ + GI RT +
Sbjct: 66 PGHYSAEGIFDLQPFFDAAKEAGIYLLARPGPYINAEVSGGGFPGWLQRVDGI-LRTSDE 124
Query: 152 PFKAEMHKFTKKIVDMMKAERLFESQGGPIILSQIENEY-GPMEYEIGAPGRSYTRWAAK 210
+ + I + ++ + GGPIIL Q ENEY G G P SY ++
Sbjct: 125 AYLKATDNYASNIAATIAKAQI--TNGGPIILYQPENEYSGACCGYNGFPDGSYMQYIED 182
Query: 211 MAVGLGTGVPWIM----CKQDDAPDPLINTCN---------GFYC------------DYF 245
A G VP+I +AP + GF C YF
Sbjct: 183 HARDAGIVVPFISNDAWAAGHNAPGTGAGAVDIYGHDSYPLGFDCANPSTWPSGNLPTYF 242
Query: 246 SPNKAYK----PKMWTEAWTGWYTEFGGPVPHRPVEDLAFSVAKFIQK-----GGSFINY 296
+ + P E G + +GG + L + K G +F+N
Sbjct: 243 HTSHEQQSPSTPYSLVEFQGGAFDPWGGVGFAKCAALLNHEFERVFYKNDFSFGVAFLNL 302
Query: 297 YMYHGGTNFGRTAGGPFIATSYDYDAPLDEYGLLRQPKWGHLKDLHRAIKLCEPALVSGN 356
YM GGTN+G G P TSYDY + + E + + K+ LK L K+ P + N
Sbjct: 303 YMIFGGTNWGNL-GHPGGYTSYDYGSAISESRNITREKYSELKLLGNFAKVS-PGYLVAN 360
Query: 357 PTVMPLGNY 365
P + Y
Sbjct: 361 PGDLSTSTY 369
>pdb|3OG2|A Chain A, Native Crystal Structure Of Trichoderma Reesei
Beta-Galactosidase
pdb|3OGR|A Chain A, Complex Structure Of Beta-Galactosidase From Trichoderma
Reesei With Galactose
pdb|3OGS|A Chain A, Complex Structure Of Beta-Galactosidase From Trichoderma
Reesei With Iptg
pdb|3OGV|A Chain A, Complex Structure Of Beta-Galactosidase From Trichoderma
Reesei With Petg
Length = 1003
Score = 110 bits (274), Expect = 4e-24, Method: Compositional matrix adjust.
Identities = 98/387 (25%), Positives = 159/387 (41%), Gaps = 62/387 (16%)
Query: 29 VEGSVSYDSKAIAINGKRRILISGSIH-YPRSSPEMWPDLIQKAKDGGLDVIQTYVFWNG 87
++ V++D ++ ++G+R ++ SG +H + P ++ D+ K K G + + YV W
Sbjct: 22 LQNIVTWDEHSLFVHGERVVIFSGEVHPFRLPVPSLYLDVFHKIKALGFNTVSFYVDWAL 81
Query: 88 HEPSPGKYYFEGNYDLVKFIKLAKQAGLYVNLRIGPYVCAEWNFGGFPVWLKYIPGINFR 147
E PG++ +G + L F + A +AG+Y+ R GPY+ AE + GGFP WL+ + G R
Sbjct: 82 LEGKPGRFRADGIFSLEPFFEAATKAGIYLLARPGPYINAEVSGGGFPGWLQRVKG-KLR 140
Query: 148 TENGPFKAEMHKFTKKIVDMMKAERLFESQGGPIILSQIENEYGPMEYEIGAPGRSYTRW 207
T+ + + I ++ ++ + GGP+IL Q ENEY + P + Y ++
Sbjct: 141 TDAPDYLHATDNYVAHIASIIAKAQI--TNGGPVILYQPENEYSGAAEGVLFPNKPYMQY 198
Query: 208 AAKMAVGLGTGVPWIMCKQDDAPDPLINTCN----------------GFYCDYFSPNKAY 251
A G VP I +DA GF C +
Sbjct: 199 VIDQARNAGIIVPLI---NNDAFPGGTGAPGTGLGSVDIYGHDGYPLGFDCAH------- 248
Query: 252 KPKMWTEAW--TGWYTEFGGPVPHRPVEDLAFSVAKFIQKGG------------------ 291
P W + T W + P P + F F GG
Sbjct: 249 -PSAWPDNGLPTTWRQDHLNISPSTPFSLVEFQGGAFDPFGGWGFEQCSALVNHEFERVF 307
Query: 292 ---------SFINYYMYHGGTNFGRTAGGPFIATSYDYDAPLDEYGLLRQPKWGHLKDLH 342
+ N YM GGTN+G G P TSYDY A + E + + K+ LK
Sbjct: 308 YKNNMAAGVTIFNIYMTFGGTNWGNL-GHPGGYTSYDYGASIREDRRIDREKYSELKLQG 366
Query: 343 RAIKLCEPALVSGNPTVMPLGNYQEAH 369
+ +K+ P ++ P G Y ++
Sbjct: 367 QFLKVS-PGYITATPENATQGVYSDSQ 392
>pdb|2OAS|A Chain A, Crystal Structure Of 4-Hydroxybutyrate Coenzyme A
Transferase (Atoa) In Complex With Coa From Shewanella
Oneidensis, Northeast Structural Genomics Target Sor119.
pdb|2OAS|B Chain B, Crystal Structure Of 4-Hydroxybutyrate Coenzyme A
Transferase (Atoa) In Complex With Coa From Shewanella
Oneidensis, Northeast Structural Genomics Target Sor119
Length = 436
Score = 32.7 bits (73), Expect = 0.92, Method: Compositional matrix adjust.
Identities = 28/114 (24%), Positives = 47/114 (41%), Gaps = 4/114 (3%)
Query: 488 EGFLRSGNYPVLTVMSAGHALHVFVNGQLAGTAYGSLEFPKLTFTEGVNMRAGINKI--A 545
+GF+ + + SA +H F G A G + +G ++ GI I A
Sbjct: 160 DGFIHIDRFAAVYEQSASLPIHSFATGDAVSLAIG--QHVAELVRDGDCLQXGIGAIPDA 217
Query: 546 LLSIAVGLPNVGPHFETWNAGVLGPVTLNGLNEGRRDLSWQKWTYKIGLEGEKL 599
+LS G ++G H E ++ G+L V +N ++ K L +KL
Sbjct: 218 VLSCLTGHKDLGVHTELFSDGILQLVEKGVINNTKKRFYPGKLVTGFALGSQKL 271
>pdb|1ICH|A Chain A, Solution Structure Of The Tumor Necrosis Factor Receptor-1
Death Domain
Length = 112
Score = 30.0 bits (66), Expect = 4.9, Method: Composition-based stats.
Identities = 21/73 (28%), Positives = 34/73 (46%), Gaps = 8/73 (10%)
Query: 570 PVTLNGLNEGRRDLSWQKWTYKIGLEGEKLNLHSLSGGSSVEWAEGSLVAQRQPLTWYRT 629
P TL + E L W+++ ++GL +++ L G + A+ S++A TW R
Sbjct: 13 PATLYAVVENVPPLRWKEFVKRLGLSDHEIDRLELQNGRCLREAQYSMLA-----TWRRR 67
Query: 630 TFSAPAGNAPLAL 642
T P A L L
Sbjct: 68 T---PRREATLEL 77
>pdb|3CXM|A Chain A, Leishmania Naiffi Uracil-Dna Glycosylase In Complex With
5-Bromouracil
Length = 268
Score = 29.3 bits (64), Expect = 9.0, Method: Compositional matrix adjust.
Identities = 11/23 (47%), Positives = 13/23 (56%)
Query: 685 KCLSNCGEASQRWYHVPRSWLKP 707
+C S C EA QR H+P W P
Sbjct: 240 RCFSACNEALQRMSHLPMHWQLP 262
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 0.137 0.446
Lambda K H
0.267 0.0410 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Hits to DB: 28,102,228
Number of Sequences: 62578
Number of extensions: 1330487
Number of successful extensions: 2822
Number of sequences better than 100.0: 10
Number of HSP's better than 100.0 without gapping: 6
Number of HSP's successfully gapped in prelim test: 4
Number of HSP's that attempted gapping in prelim test: 2790
Number of HSP's gapped (non-prelim): 19
length of query: 815
length of database: 14,973,337
effective HSP length: 107
effective length of query: 708
effective length of database: 8,277,491
effective search space: 5860463628
effective search space used: 5860463628
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: 56 (26.2 bits)