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= 046585
(810 letters)
Database: pdbaa
62,578 sequences; 14,973,337 total letters
Searching..................................................done
>pdb|3D3A|A Chain A, Crystal Structure Of A Beta-Galactosidase From Bacteroides
Thetaiotaomicron
Length = 612
Score = 174 bits (440), Expect = 2e-43, Method: Compositional matrix adjust.
Identities = 108/327 (33%), Positives = 161/327 (49%), Gaps = 29/327 (8%)
Query: 4 EYDANAIIIDGKRKVIIAGSIHYPRSTPEMWPDLIRKAKEGGVDAIETYIFWDVHEPQRR 63
E N +++G+ V+ A IHYPR E W I+ K G + I Y+FW+ HEP+
Sbjct: 9 EVGKNTFLLNGEPFVVKAAEIHYPRIPKEYWEHRIKXCKALGXNTICLYVFWNFHEPEEG 68
Query: 64 KYDFSGNLDFVKFFKLVQDAGLYAIIRIGPYVCAEWNYGGFPMWLHNTPGIQLRTNNDIF 123
+YDF+G D F +L Q+ G Y I+R GPYVCAEW GG P WL I+LR + +
Sbjct: 69 RYDFAGQKDIAAFCRLAQENGXYVIVRPGPYVCAEWEXGGLPWWLLKKKDIKLREQDPYY 128
Query: 124 KNEMQVFTTKIVNMCKEANLFASQGGPIILAQIENEYG--NIMEKYGDAGKKYIKWCANM 181
+++F ++ A+L S+GG II Q+ENEYG I + Y + +K
Sbjct: 129 XERVKLFLNEVGKQL--ADLQISKGGNIIXVQVENEYGAFGIDKPYISEIRDXVKQAGFT 186
Query: 182 AVAQNISEPWIMCQ-----QSDAPEPMINTCN---GFYCDQ----FTPNNPKSPKMWTEN 229
V P C +++A + ++ T N G D+ P +P +E
Sbjct: 187 GV------PLFQCDWNSNFENNALDDLLWTINFGTGANIDEQFKRLKELRPDTPLXCSEF 240
Query: 230 WTGWFKLWGGRDPQRTAEDLAFSVARFFQSGGVLNNYYMYHGGTNFGRTAGGPY-----I 284
W+GWF WG + R+AE+L + + Y HGGT+FG G +
Sbjct: 241 WSGWFDHWGAKHETRSAEELVKGXKEXLDR-NISFSLYXTHGGTSFGHWGGANFPNFSPT 299
Query: 285 ATSYDYNAPLDEYGNLNQPKWGHLKQL 311
TSYDY+AP++E G + PK+ ++ L
Sbjct: 300 CTSYDYDAPINESGKVT-PKYLEVRNL 325
Score = 35.4 bits (80), Expect = 0.11, Method: Compositional matrix adjust.
Identities = 53/225 (23%), Positives = 90/225 (40%), Gaps = 37/225 (16%)
Query: 436 KAARLLDQKEASGDGSDYLWYMTRVDTKDMSLENATLRVSTKGHGLHAYVNGQLIGTQFS 495
K + + EA G + Y T + D + TL ++ ++NG+ + T S
Sbjct: 367 KESEDIRTXEAFDQGWGSILYRTSLSASD---KEQTLLITEAHDWAQVFLNGKKLAT-LS 422
Query: 496 RQATGQQMVTGDDYSFGFDKAVSSLKKGVNVISLLSVTVGLTNYG-AFYDLHPTGLVEGS 554
R G+ +V + LK+G + + +L G N+G YD G+ E
Sbjct: 423 R-LKGEGVVK-----------LPPLKEG-DRLDILVEAXGRXNFGKGIYDWK--GITEKV 467
Query: 555 VLLREKGKDII-DATGYEWSYKVGLNGEAQHFYDPNSKNVNWSCTDVPKDRPMTWYKTSF 613
L +KG +++ D Y + Q+ N++N +P +Y+++F
Sbjct: 468 ELQSDKGVELVKDWQVYTIPVDYSFARDKQYKQQENAEN-----------QP-AYYRSTF 515
Query: 614 KTPPGKEAVVVDLLGMGKGHAWVNGRSIGRYW---PTQIAETSGC 655
+ ++ KG WVNG +IGRYW P Q GC
Sbjct: 516 NLNELGD-TFLNXXNWSKGXVWVNGHAIGRYWEIGPQQTLYVPGC 559
>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 = 160 bits (406), Expect = 2e-39, Method: Compositional matrix adjust.
Identities = 105/309 (33%), Positives = 156/309 (50%), Gaps = 27/309 (8%)
Query: 12 IDGKRKVIIAGSIHYPRSTPEMWPDLIRKAKEGGVDAIETYIFWDVHEPQRRKYDFSGNL 71
+DGK I++G+IHY R PE W + K G + +ETY+ W++HEP ++ F G+L
Sbjct: 12 LDGKSFKILSGAIHYFRVPPEDWYHSLYNLKALGFNTVETYVAWNLHEPCEGEFHFEGDL 71
Query: 72 DFVKFFKLVQDAGLYAIIRIGPYVCAEWNYGGFPMWLHNTPGIQLRTNNDIFKNEMQVFT 131
D KF ++ QD GLYAI+R P++CAEW +GG P WL T +++R+++ + + +
Sbjct: 72 DLEKFLQIAQDLGLYAIVRPSPFICAEWEFGGLPAWLL-TKNMRIRSSDPAYIEAVGRYY 130
Query: 132 TKIVNMCKEANLFASQGGPIILAQIENEYGNIMEK--YGDAGKKYIKWCANMAVAQNISE 189
+++ GG I++ Q+ENEYG+ E Y A ++ ++ C
Sbjct: 131 DQLLPRLVPRL--LDNGGNILMMQVENEYGSYGEDKAYLRAIRQLMEECGVTCPLFTSDG 188
Query: 190 PWIMCQQSDA--PEPMINTCN-------GFYCDQ--FTPNNPKSPKMWTENWTGWFKLWG 238
PW ++ E + T N F Q F + K P M E W GWF W
Sbjct: 189 PWRATLKAGTLIEEDLFVTGNFGSKAPYNFSQMQEFFDEHGKKWPLMCMEFWDGWFNRWK 248
Query: 239 GRDPQRTAEDLAFSVARFFQSGGVLNNYYMYHGGTNFGRTAGG--------PYIATSYDY 290
R ++LA +V + G + N YM+HGGTNFG G P + TSYDY
Sbjct: 249 EPIITRDPKELADAVREVLEQGSI--NLYMFHGGTNFGFMNGCSARGTLDLPQV-TSYDY 305
Query: 291 NAPLDEYGN 299
+A LDE GN
Sbjct: 306 DALLDEEGN 314
Score = 41.2 bits (95), Expect = 0.003, Method: Compositional matrix adjust.
Identities = 68/293 (23%), Positives = 101/293 (34%), Gaps = 93/293 (31%)
Query: 427 DTLDGNGKFKAARLLDQKEASGDGSDYLWYMTRVDTKDMSLENATLRVSTKGHGLHAYVN 486
+TLD + + E G YL Y T + E LR+ YV+
Sbjct: 359 ETLDSLSSPVESLYPQKMEELGQSYGYLLYRTETN---WDAEEERLRIIDGRDRAQLYVD 415
Query: 487 GQLIGTQFSRQATGQQMVTGDDYSFGFDKAVSSLKKGVNVISLLSVTVGLTNYGAFY--D 544
GQ + TQ+ + G D KKG++ + +L +G NYG + D
Sbjct: 416 GQWVKTQYQTE-------------IGEDIFYQGKKKGLSRLDILIENMGRVNYGHKFLAD 462
Query: 545 LHPTGLVEGSVLLREKGKDIIDATGYEWSYKVGLNGEAQHFYDPNSKNVNWSCTDVPKDR 604
G+ G KD+ HF +NW +P D
Sbjct: 463 TQRKGIRTGVC------KDL-------------------HFL------LNWKHYPLPLDN 491
Query: 605 PM-------------TWYKTSFKTPPGKEAVVVDLLGMGKGHAWVNGRSIGRYWPTQIAE 651
P +Y F K+ + DL GKG A+VNG+++GR+W
Sbjct: 492 PEKIDFSKGWTQGQPAFYAYDFTVEEPKDTYL-DLSEFGKGVAFVNGQNLGRFW------ 544
Query: 652 TSGCDPHCNYRGTYKDDKCRTNCGNPSQRWYHVPRSFLNKNADNTLILFEEVG 704
N G P+ Y +P S+L + A N +I+FE G
Sbjct: 545 ---------------------NVG-PTLSLY-IPHSYLKEGA-NRIIIFETEG 573
>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 = 159 bits (402), Expect = 6e-39, Method: Compositional matrix adjust.
Identities = 114/373 (30%), Positives = 171/373 (45%), Gaps = 32/373 (8%)
Query: 1 IKVEYDANAIIIDGKRKVIIAGSIHYPRSTPEMWPDLIRKAKEGGVDAIETYIFWDVHEP 60
+++Y ++ + DG+ I+GSIHY R W D + K K G++AI+TY+ W+ HEP
Sbjct: 9 FEIDYSRDSFLKDGQPFRYISGSIHYSRVPRFYWKDRLLKMKMAGLNAIQTYVPWNFHEP 68
Query: 61 QRRKYDFSGNLDFVKFFKLVQDAGLYAIIRIGPYVCAEWNYGGFPMWLHNTPGIQLRTNN 120
+Y FS + D F +L + GL I+R GPY+CAEW GG P WL I LR+++
Sbjct: 69 WPGQYQFSEDHDVEYFLRLAHELGLLVILRPGPYICAEWEMGGLPAWLLEKESILLRSSD 128
Query: 121 DIFKNEMQVFTTKIVNMCKEANLFASQGGPIILAQIENEYGNIMEKYGDAGKKYIKWCAN 180
+ + + V + K L GGP+I Q+ENEYG+ Y Y+++
Sbjct: 129 PDYLAAVDKWLG--VLLPKMKPLLYQNGGPVITVQVENEYGS----YFACDFDYLRFLQK 182
Query: 181 MAVAQNISEPWIMCQQSDAPEPMIN--TCNGFY-----------CDQFTPNN---PKSPK 224
++ + ++ A + + G Y D F PK P
Sbjct: 183 -RFRHHLGDDVVLFTTDGAHKTFLKCGALQGLYTTVDFGTGSNITDAFLSQRKCEPKGPL 241
Query: 225 MWTENWTGWFKLWGGRDPQRTAEDLAFSVARFFQSGGVLNNYYMYHGGTNFG--RTAGGP 282
+ +E +TGW WG E +A S+ G + N YM+ GGTNF A P
Sbjct: 242 INSEFYTGWLDHWGQPHSTIKTEAVASSLYDILARGASV-NLYMFIGGTNFAYWNGANSP 300
Query: 283 YIA--TSYDYNAPLDEYGNLNQPKWGHLKQLHEAIKQAEKFFTDGIVETKNISTYVNLTQ 340
Y A TSYDY+APL E G+L + + L I++ EK I + Y +T
Sbjct: 301 YAAQPTSYDYDAPLSEAGDLTEKYFA----LRNIIQKFEKVPEGPIPPSTPKFAYGKVTL 356
Query: 341 FTVKATGERFCML 353
+K G +L
Sbjct: 357 EKLKTVGAALDIL 369
Score = 34.7 bits (78), Expect = 0.24, Method: Compositional matrix adjust.
Identities = 15/45 (33%), Positives = 23/45 (51%), Gaps = 4/45 (8%)
Query: 608 WYKTSFKTPPG----KEAVVVDLLGMGKGHAWVNGRSIGRYWPTQ 648
+Y +F P G + + G KG W+NG ++GRYWP +
Sbjct: 528 FYMGNFSIPSGIPDLPQDTFIQFPGWTKGQVWINGFNLGRYWPAR 572
>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 = 127 bits (320), Expect = 2e-29, Method: Compositional matrix adjust.
Identities = 113/415 (27%), Positives = 172/415 (41%), Gaps = 51/415 (12%)
Query: 3 VEYDANAIIIDGKRKVIIAGSIH-YPRSTPEMWPDLIRKAKEGGVDAIETYIFWDVHEPQ 61
V +D ++I ++G+R +I +G +H Y ++ D+ K K G + + Y+ W + E
Sbjct: 6 VTWDEHSIFVNGERLMIFSGEVHPYRLPVASLYIDIFEKVKALGFNCVSFYVDWALLEGN 65
Query: 62 RRKYDFSGNLDFVKFFKLVQDAGLYAIIRIGPYVCAEWNYGGFPMWLHNTPGIQLRTNND 121
Y G D FF ++AG+Y + R GPY+ AE + GGFP WL GI LRT+++
Sbjct: 66 PGHYSAEGIFDLQPFFDAAKEAGIYLLARPGPYINAEVSGGGFPGWLQRVDGI-LRTSDE 124
Query: 122 IFKNEMQVFTTKIVNMCKEANLFASQGGPIILAQIENEYGNIMEKY-GDAGKKYIKWCAN 180
+ + + I +A + + GGPIIL Q ENEY Y G Y+++ +
Sbjct: 125 AYLKATDNYASNIAATIAKAQI--TNGGPIILYQPENEYSGACCGYNGFPDGSYMQYIED 182
Query: 181 MAVAQNISEPWIM----CQQSDAPEPMINTCN---------GFYC--------------- 212
A I P+I +AP + GF C
Sbjct: 183 HARDAGIVVPFISNDAWAAGHNAPGTGAGAVDIYGHDSYPLGFDCANPSTWPSGNLPTYF 242
Query: 213 -DQFTPNNPKSPKMWTENWTGWFKLWGGRDPQRTAEDLAFSVARFFQS-----GGVLNNY 266
+P +P E G F WGG + A L R F G N
Sbjct: 243 HTSHEQQSPSTPYSLVEFQGGAFDPWGGVGFAKCAALLNHEFERVFYKNDFSFGVAFLNL 302
Query: 267 YMYHGGTNFGRTAGGPYIATSYDYNAPLDEYGNLNQPKWGHLKQLHEAIKQAEKFFTDGI 326
YM GGTN+G G P TSYDY + + E N+ + K+ LK L K + +
Sbjct: 303 YMIFGGTNWGNL-GHPGGYTSYDYGSAISESRNITREKYSELKLLGNFAKVSPGYLVANP 361
Query: 327 VETKNISTYVNLTQFTV------KATGERFCMLSNGDNTGDYTADLGPDGKFFVP 375
+ + STY N TV ++ F ++ + DY++ + K VP
Sbjct: 362 GDL-STSTYTNTADLTVTPLLGSNSSASSFFVIRH----SDYSSQASVEYKLTVP 411
>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 = 115 bits (289), Expect = 8e-26, Method: Compositional matrix adjust.
Identities = 104/406 (25%), Positives = 172/406 (42%), Gaps = 46/406 (11%)
Query: 3 VEYDANAIIIDGKRKVIIAGSIH-YPRSTPEMWPDLIRKAKEGGVDAIETYIFWDVHEPQ 61
V +D +++ + G+R VI +G +H + P ++ D+ K K G + + Y+ W + E +
Sbjct: 26 VTWDEHSLFVHGERVVIFSGEVHPFRLPVPSLYLDVFHKIKALGFNTVSFYVDWALLEGK 85
Query: 62 RRKYDFSGNLDFVKFFKLVQDAGLYAIIRIGPYVCAEWNYGGFPMWLHNTPGIQLRTNND 121
++ G FF+ AG+Y + R GPY+ AE + GGFP WL G +LRT+
Sbjct: 86 PGRFRADGIFSLEPFFEAATKAGIYLLARPGPYINAEVSGGGFPGWLQRVKG-KLRTDAP 144
Query: 122 IFKNEMQVFTTKIVNMCKEANLFASQGGPIILAQIENEYGNIMEKYGDAGKKYIKWCANM 181
+ + + I ++ +A + + GGP+IL Q ENEY E K Y+++ +
Sbjct: 145 DYLHATDNYVAHIASIIAKAQI--TNGGPVILYQPENEYSGAAEGVLFPNKPYMQYVIDQ 202
Query: 182 AVAQNISEPWIMCQQSDAPEPMINTCN-------------GFYCDQFT--PNN------- 219
A I P I T GF C + P+N
Sbjct: 203 ARNAGIIVPLINNDAFPGGTGAPGTGLGSVDIYGHDGYPLGFDCAHPSAWPDNGLPTTWR 262
Query: 220 -------PKSPKMWTENWTGWFKLWGGRDPQRTAEDLAFSVARFF-----QSGGVLNNYY 267
P +P E G F +GG ++ + + R F +G + N Y
Sbjct: 263 QDHLNISPSTPFSLVEFQGGAFDPFGGWGFEQCSALVNHEFERVFYKNNMAAGVTIFNIY 322
Query: 268 MYHGGTNFGRTAGGPYIATSYDYNAPLDEYGNLNQPKWGHLKQLHEAIKQAEKFFT---- 323
M GGTN+G G P TSYDY A + E +++ K+ LK + +K + + T
Sbjct: 323 MTFGGTNWGNL-GHPGGYTSYDYGASIREDRRIDREKYSELKLQGQFLKVSPGYITATPE 381
Query: 324 DGIVETKNISTYVNLTQFTVKATGERFCMLS---NGDNTGDYTADL 366
+ + S + +T K +G+ F + + +T YT L
Sbjct: 382 NATQGVYSDSQNIVITPLLAKESGDFFVVRHANYSSTDTASYTVKL 427
>pdb|2XFF|A Chain A, Crystal Structure Of Barley Beta-Amylase Complexed With
Acarbose
pdb|2XFR|A Chain A, Crystal Structure Of Barley Beta-Amylase At Atomic
Resolution
pdb|2XFY|A Chain A, Crystal Structure Of Barley Beta-Amylase Complexed With
Alpha-Cyclodextrin
pdb|2XG9|A Chain A, Crystal Structure Of Barley Beta-Amylase Complexed With
4-O- Alpha-D-Glucopyranosylmoranoline
pdb|2XGB|A Chain A, Crystal Structure Of Barley Beta-Amylase Complexed With
2,3- Epoxypropyl-Alpha-D-Glucopyranoside
pdb|2XGI|A Chain A, Crystal Structure Of Barley Beta-Amylase Complexed With
3,4- Epoxybutyl Alpha-D-Glucopyranoside
Length = 535
Score = 31.6 bits (70), Expect = 1.7, Method: Compositional matrix adjust.
Identities = 19/49 (38%), Positives = 29/49 (59%), Gaps = 4/49 (8%)
Query: 38 IRKAKEGGVDAIETYIFWDVHEPQRRK-YDFSGNLDFVKFFKLVQDAGL 85
+RK E GVD + ++W + E + K YD+S + + F+LVQ AGL
Sbjct: 37 LRKLVEAGVDGVMVDVWWGLVEGKGPKAYDWSA---YKQLFELVQKAGL 82
>pdb|1B1Y|A Chain A, Sevenfold Mutant Of Barley Beta-Amylase
Length = 500
Score = 31.2 bits (69), Expect = 2.2, Method: Compositional matrix adjust.
Identities = 19/49 (38%), Positives = 29/49 (59%), Gaps = 4/49 (8%)
Query: 38 IRKAKEGGVDAIETYIFWDVHEPQRRK-YDFSGNLDFVKFFKLVQDAGL 85
+RK E GVD + ++W + E + K YD+S + + F+LVQ AGL
Sbjct: 33 LRKLVEAGVDGVMVDVWWGLVEGKGPKAYDWSA---YKQLFELVQKAGL 78
>pdb|3U7V|A Chain A, The Structure Of A Putative Beta-Galactosidase From
Caulobacter Crescentus Cb15
Length = 552
Score = 31.2 bits (69), Expect = 2.7, Method: Compositional matrix adjust.
Identities = 44/231 (19%), Positives = 92/231 (39%), Gaps = 37/231 (16%)
Query: 8 NAIIIDGKRKVIIAGSIH----YPRSTPEMWPDLIRKAKEGGVDAIETYIFWDVHEPQRR 63
+A+ +DG + +A ++ +P ++WP + ++ G + ++ I W+ EP
Sbjct: 49 HALXVDGAPFLXLAAQVNNSSAWPSQXAKVWPAI----EKVGANTVQVPIAWEQIEPVEG 104
Query: 64 KYDFSGNLDFVKFFKLVQDAGLYAIIRI-----------GPYVCAEW---NYGGFPMWLH 109
++DFS + L+ + +R+ P EW + FP +
Sbjct: 105 QFDFS-------YLDLLLEQARERKVRLVLLWFGTWKNSSPSYAPEWVKLDDKRFPRLIK 157
Query: 110 NTPGIQLRTNNDIFKNEMQVFTTKIVNMCKEANLFASQGGPIILAQIENE---YGNIMEK 166
+ G + + + + K+ + V + + +I Q+ENE YG++ +
Sbjct: 158 DD-GERSYSXSPLAKSTLDADRKAFVALXTHLKAKDAAQKTVIXVQVENETGTYGSVRD- 215
Query: 167 YGDAGKKYIKWCANMAVAQNI-SEP--WIMCQQSDAPEPMINTCNGFYCDQ 214
+G A +K A + + + ++P W DA E G + DQ
Sbjct: 216 FGPAAQKVFNGPAPATLVKAVGAKPGTWSQAFGKDADEFFHAWHIGRFVDQ 266
>pdb|1HZH|L Chain L, Crystal Structure Of The Intact Human Igg B12 With Broad
And Potent Activity Against Primary Hiv-1 Isolates: A
Template For Hiv Vaccine Design
pdb|1HZH|M Chain M, Crystal Structure Of The Intact Human Igg B12 With Broad
And Potent Activity Against Primary Hiv-1 Isolates: A
Template For Hiv Vaccine Design
pdb|1N0X|L Chain L, Crystal Structure Of A Broadly Neutralizing Anti-Hiv-1
Antibody In Complex With A Peptide Mimotope
pdb|1N0X|M Chain M, Crystal Structure Of A Broadly Neutralizing Anti-Hiv-1
Antibody In Complex With A Peptide Mimotope
pdb|2NY7|L Chain L, Hiv-1 Gp120 Envelope Glycoprotein Complexed With The
Broadly Neutralizing Cd4-Binding-Site Antibody B12
pdb|3RU8|L Chain L, Structure Of An Hiv Epitope Scaffold In Complex With
Neutralizing Antibody B12 Fab
Length = 215
Score = 30.8 bits (68), Expect = 3.5, Method: Compositional matrix adjust.
Identities = 27/96 (28%), Positives = 45/96 (46%), Gaps = 14/96 (14%)
Query: 436 KAARLLDQKEASGDGSDYLWYMTRVDTKDMSLENATLRVSTKGHGLHAYVNGQLIGTQFS 495
+A+ + D+ SG G+D+ +TRV+ +D +L + +G +Y GQ GT+
Sbjct: 55 RASGISDRFSGSGSGTDFTLTITRVEPEDFALYYCQV------YGASSYTFGQ--GTKLE 106
Query: 496 RQATGQQMVTGDDYSFGFDKAVSSLKKG-VNVISLL 530
R+ T F F + LK G +V+ LL
Sbjct: 107 RKRT-----VAAPSVFIFPPSDEQLKSGTASVVCLL 137
>pdb|2OCE|A Chain A, Crystal Structure Of Tex Family Protein Pa5201 From
Pseudomonas Aeruginosa
Length = 780
Score = 29.6 bits (65), Expect = 7.5, Method: Compositional matrix adjust.
Identities = 21/53 (39%), Positives = 27/53 (50%), Gaps = 2/53 (3%)
Query: 513 FDKAVSSLKKGVNVISLLSVTVGLTNYGAFYDL--HPTGLVEGSVLLREKGKD 563
F + V SLK + L V +TN+GAF D+ H GLV S L + KD
Sbjct: 643 FQEGVESLKDLKPGMVLEGVVTNVTNFGAFVDIGVHQDGLVHISALSEKFVKD 695
>pdb|3BZC|A Chain A, Crystal Structure Of The Tex Protein From Pseudomonas
Aeruginosa, Crystal Form I
pdb|3BZK|A Chain A, Crystal Structure Of The Tex Protein From Pseudomonas
Aeruginosa, Crystal Form 2
Length = 785
Score = 29.6 bits (65), Expect = 7.7, Method: Compositional matrix adjust.
Identities = 21/53 (39%), Positives = 27/53 (50%), Gaps = 2/53 (3%)
Query: 513 FDKAVSSLKKGVNVISLLSVTVGLTNYGAFYDL--HPTGLVEGSVLLREKGKD 563
F + V SLK + L V +TN+GAF D+ H GLV S L + KD
Sbjct: 642 FQEGVESLKDLKPGMVLEGVVTNVTNFGAFVDIGVHQDGLVHISALSEKFVKD 694
>pdb|1FA2|A Chain A, Crystal Structure Of Beta-Amylase From Sweet Potato
Length = 498
Score = 29.3 bits (64), Expect = 9.3, Method: Compositional matrix adjust.
Identities = 15/51 (29%), Positives = 30/51 (58%), Gaps = 4/51 (7%)
Query: 36 DLIRKAKEGGVDAIETYIFWDVHEPQ-RRKYDFSGNLDFVKFFKLVQDAGL 85
D +++ K GG D + ++W + E + ++YD+S + + F+LV+ GL
Sbjct: 38 DELKQVKAGGCDGVMVDVWWGIIEAKGPKQYDWSA---YRELFQLVKKCGL 85
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
0.318 0.135 0.429
Lambda K H
0.267 0.0410 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Hits to DB: 27,377,839
Number of Sequences: 62578
Number of extensions: 1282173
Number of successful extensions: 3261
Number of sequences better than 100.0: 17
Number of HSP's better than 100.0 without gapping: 6
Number of HSP's successfully gapped in prelim test: 11
Number of HSP's that attempted gapping in prelim test: 3228
Number of HSP's gapped (non-prelim): 27
length of query: 810
length of database: 14,973,337
effective HSP length: 107
effective length of query: 703
effective length of database: 8,277,491
effective search space: 5819076173
effective search space used: 5819076173
T: 11
A: 40
X1: 16 ( 7.3 bits)
X2: 38 (14.6 bits)
X3: 64 (24.7 bits)
S1: 41 (21.7 bits)
S2: 56 (26.2 bits)