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= 013395
(444 letters)
Database: pdbaa
62,578 sequences; 14,973,337 total letters
Searching..................................................done
>pdb|1XMB|A Chain A, X-ray Structure Of Iaa-aminoacid Hydrolase From
Arabidopsis Thaliana Gene At5g56660
pdb|2Q43|A Chain A, Ensemble Refinement Of The Protein Crystal Structure Of
Iaa-Aminoacid Hydrolase From Arabidopsis Thaliana Gene
At5g56660
Length = 418
Score = 480 bits (1235), Expect = e-136, Method: Compositional matrix adjust.
Identities = 234/397 (58%), Positives = 300/397 (75%), Gaps = 5/397 (1%)
Query: 42 NSSIKSRIIELANDQDTVNWMKKMRRQIHENPELAYEEFETSELIRRELDQLGIAYRWPV 101
S I+++++E A + +WM K+RR+IHENPEL YEE ETS+LIR EL+ +GI YR+PV
Sbjct: 10 TSQIQTKLLEFAKSPEVFDWMVKIRRKIHENPELGYEELETSKLIRSELELIGIKYRYPV 69
Query: 102 AKTGVVATVGSGSPPFVALRADMDALPIQELVEWEHKSKIDGKMHACGHDAHVAMLLGAA 161
A TGV+ +G+G PPFVALRADMDALPIQE VEWEHKSKI GKMHACGHD HV MLLGAA
Sbjct: 70 AITGVIGYIGTGEPPFVALRADMDALPIQEGVEWEHKSKIAGKMHACGHDGHVTMLLGAA 129
Query: 162 KILQEMRETLKGTVVLIFQPAEERGTGAKDMIQEGVLENVEAIFGLHLVHKYPTGVVASR 221
KIL E R L+GTVVLIFQPAEE +GAK M +EG L+NVEAIFG+HL + P G ASR
Sbjct: 130 KILHEHRHHLQGTVVLIFQPAEEGLSGAKKMREEGALKNVEAIFGIHLSARIPFGKAASR 189
Query: 222 PGDFLAGCGSFKAKISGKGGHAAIPQHCIDPILAVSSSVISLQNIVSREIDPLDSQVVSV 281
G FLAG G F+A I+GKGGHAAIPQH IDP++A SS V+SLQ +VSRE DPLDS+VV+V
Sbjct: 190 AGSFLAGAGVFEAVITGKGGHAAIPQHTIDPVVAASSIVLSLQQLVSRETDPLDSKVVTV 249
Query: 282 AMINGGSSYNMIPDSATVAGTFRAFNKKRFNALRERIEEIIKGQAAVHRCSAEVDFSGRE 341
+ +NGG+++N+IPDS T+ GT RAF F L++R++E+I QAAVHRC+A V+ +
Sbjct: 250 SKVNGGNAFNVIPDSITIGGTLRAFTG--FTQLQQRVKEVITKQAAVHRCNASVNLTPNG 307
Query: 342 HPTLPPTMNDVRIYQHVRRVTAEILGEEN-VKLAPIFTGSEDFAFFLDEIPGSFLLLGML 400
+PPT+N+ +Y+ ++V ++LG+E V+ AP+ GSEDF++F + IPG F LLGM
Sbjct: 308 REPMPPTVNNKDLYKQFKKVVRDLLGQEAFVEAAPVM-GSEDFSYFAETIPGHFSLLGMQ 366
Query: 401 NDSVGSLYPLHSPYFTIDEHVLPIGAVIHAAFAHSYL 437
+++ G HSP + I+E VLP GA IHA+ A YL
Sbjct: 367 DETNGYASS-HSPLYRINEDVLPYGAAIHASMAVQYL 402
>pdb|1YSJ|A Chain A, Crystal Structure Of Bacillus Subtilis Yxep Protein
(Apc1829), A Dinuclear Metal Binding Peptidase From M20
Family
pdb|1YSJ|B Chain B, Crystal Structure Of Bacillus Subtilis Yxep Protein
(Apc1829), A Dinuclear Metal Binding Peptidase From M20
Family
Length = 404
Score = 259 bits (663), Expect = 1e-69, Method: Compositional matrix adjust.
Identities = 155/405 (38%), Positives = 214/405 (52%), Gaps = 26/405 (6%)
Query: 31 KSLNFQTSKSQNSSIKSRIIELANDQDTVNWMKKMRRQIHENPELAYEEFETSELIRREL 90
++L FQ++ + + +R+I RR +HE+PEL+++E ET++ IRR L
Sbjct: 16 ENLYFQSNAXADKAFHTRLI-------------NXRRDLHEHPELSFQEVETTKKIRRWL 62
Query: 91 DQLGIA-YRWPVAKTGVVATV-GSGSPPFVALRADMDALPIQELVEWEHKSKIDGKMHAC 148
++ I P KTGV+A + G P +A+RAD+DALPIQE SK+DG HAC
Sbjct: 63 EEEQIEILDVPQLKTGVIAEIKGREDGPVIAIRADIDALPIQEQTNLPFASKVDGTXHAC 122
Query: 149 GHDAHVAMLLGAAKILQEMRETLKGTVVLIFQPAEERGTGAKDMIQEGVLENVEAIFGLH 208
GHD H A ++G A +L + R LKGTV IFQPAEE GA+ +++ GVL V AIFG H
Sbjct: 123 GHDFHTASIIGTAXLLNQRRAELKGTVRFIFQPAEEIAAGARKVLEAGVLNGVSAIFGXH 182
Query: 209 LVHKYPTGVVASRPGDFLAGCGSFKAKISGKGGHAAIPQHCIDPILAVSSSVISLQNIVS 268
P G + + G A F+ I GKGGHA+IP + IDPI A + LQ++VS
Sbjct: 183 NKPDLPVGTIGVKEGPLXASVDRFEIVIKGKGGHASIPNNSIDPIAAAGQIISGLQSVVS 242
Query: 269 REIDPLDSQVVSVAMINGGSSYNMIPDSATVAGTFRAFNKKRFNALRERIEEIIKGQAAV 328
R I L + VVS+ + G+S+N+IPD A GT R F K+ A+ E + +G AA
Sbjct: 243 RNISSLQNAVVSITRVQAGTSWNVIPDQAEXEGTVRTFQKEARQAVPEHXRRVAEGIAAG 302
Query: 329 HRCSAEVDFSGREHPTLPPTMNDVRIYQHVRRVTAEILGEENVKLAPIFTGSEDFAFFLD 388
+ AE + P LP ND A LG + V A G EDFA + +
Sbjct: 303 YGAQAEFKW----FPYLPSVQNDGTFLNAASEAAAR-LGYQTVH-AEQSPGGEDFALYQE 356
Query: 389 EIPGSFLLLGMLNDSVGSLYPLHSPYFTIDEHVLPIGAVIHAAFA 433
+IPG F+ G H P FT+DE L + + A A
Sbjct: 357 KIPGFFVWXG-----TNGTEEWHHPAFTLDEEALTVASQYFAELA 396
>pdb|4EWT|A Chain A, The Crystal Structure Of A Putative Aminohydrolase From
Methicillin Resistant Staphylococcus Aureus
pdb|4EWT|C Chain C, The Crystal Structure Of A Putative Aminohydrolase From
Methicillin Resistant Staphylococcus Aureus
pdb|4EWT|D Chain D, The Crystal Structure Of A Putative Aminohydrolase From
Methicillin Resistant Staphylococcus Aureus
pdb|4EWT|B Chain B, The Crystal Structure Of A Putative Aminohydrolase From
Methicillin Resistant Staphylococcus Aureus
Length = 392
Score = 217 bits (552), Expect = 1e-56, Method: Compositional matrix adjust.
Identities = 129/367 (35%), Positives = 197/367 (53%), Gaps = 7/367 (1%)
Query: 62 MKKMRRQIHENPELAYEEFETSELIRRELDQLGIAYRWPVAKTGVVATVGSGSP-PFVAL 120
M ++RR +H++PEL++ E ET++ I + V G+ T+ SG P +A+
Sbjct: 16 MIEIRRYLHQHPELSFHEDETAKYIAEFYKGKDVEVETNVGPRGIKVTIDSGKPGKTLAI 75
Query: 121 RADMDALPIQELVEWEHKSKIDGKMHACGHDAHVAMLLGAAKILQEMRETLKGTVVLIFQ 180
RAD DALPI E S+ G MHACGHDAH A +L A+ L EM+++ G VV+I Q
Sbjct: 76 RADFDALPITEDTGLSFASQNKGVMHACGHDAHTAYMLVLAETLAEMKDSFTGKVVVIHQ 135
Query: 181 PAEE-RGTGAKDMIQEGVLENVEAIFGLHLVHKYPTGVVASRPGDFLAGCGSFKAKISGK 239
PAEE GAK MI+ GVL+ V+ + G+H++ TG V RPG G FK K+ GK
Sbjct: 136 PAEEVPPGGAKTMIENGVLDGVDHVLGVHVMSTMKTGKVYYRPGYVQTGRAFFKLKVQGK 195
Query: 240 GGHAAIPQHCIDPILAVSSSVISLQNIVSREIDPLDSQVVSVAMINGGSSYNMIPDSATV 299
GGH + P D I+A S V +LQ +VSR + P ++ VV++ +G +N+I D +
Sbjct: 196 GGHGSSPHMANDAIVAGSYFVTALQTVVSRRLSPFETGVVTIGSFDGKGQFNVIKDVVEI 255
Query: 300 AGTFRAFNKKRFNALRERIEEIIKGQAAVHRCSAEVDFSGREHPTLPPTMNDVRIYQHVR 359
G R + + I+ + KG ++ + ++++ ++P L ND ++V
Sbjct: 256 EGDVRGLTDATKATIEKEIKRLSKGLEDMYGVTCTLEYN-DDYPAL---YNDPEFTEYVA 311
Query: 360 RVTAEILGEENVKLAPIFTGSEDFAFFLDEIPGSFLLLGMLNDSVGSLYPLHSPYFTIDE 419
+ E + V++ SEDFA++ E P +F+ G ++ G +YP H P F I E
Sbjct: 312 KTLKEANLDFGVEMCEPQPPSEDFAYYAKERPSAFIYTGAAVEN-GEIYPHHHPKFNISE 370
Query: 420 HVLPIGA 426
L I A
Sbjct: 371 KSLLISA 377
>pdb|3IO1|A Chain A, Crystal Structure Of Aminobenzoyl-Glutamate Utilization
Protein From Klebsiella Pneumoniae
pdb|3IO1|B Chain B, Crystal Structure Of Aminobenzoyl-Glutamate Utilization
Protein From Klebsiella Pneumoniae
Length = 445
Score = 89.7 bits (221), Expect = 3e-18, Method: Compositional matrix adjust.
Identities = 93/330 (28%), Positives = 147/330 (44%), Gaps = 27/330 (8%)
Query: 23 NFLLSSNEKSLNFQTSKSQNSSIKSRIIELANDQDTVNWMKKMRRQIHENPELAYEEFET 82
+F L + L F+T+ + +LA +D ++ + E A+E
Sbjct: 22 DFHLHAESGWLEFRTASKVADILDGLGYQLALGRDVIDADSRXGLPDEETLARAFE---- 77
Query: 83 SELIRRELDQLGIAYRW-PVAK---TGVVATVGSGSP-PFVALRADMDALPIQELVEWEH 137
R +Q G RW P + GVVAT+ +G P P +A R D DAL + E + H
Sbjct: 78 -----RAREQ-GAPERWLPAFEGGFAGVVATLDTGRPGPTLAFRVDXDALDLNEQHDDSH 131
Query: 138 KSKID-------GKMHACGHDAHVAMLLGAAKILQEMRETLKGTVVLIFQPAEERGTGAK 190
+ D G HACGHD H A+ LG A +L++ L G + LIFQPAEE GA+
Sbjct: 132 RPHRDHFASCNAGXXHACGHDGHTAIGLGLAHVLKQYAAQLNGVIKLIFQPAEEGTRGAR 191
Query: 191 DMIQEGVLENVEAIFGLHLVHKYPTGVVASRPGDFLAGCGSFKAKISGKGGHA-AIPQHC 249
+ GV+++V+ +H+ P G V GD F + SG HA P+
Sbjct: 192 AXVAAGVVDDVDYFTAIHIGTGVPAGTVVC-GGDNFXATTKFDVQFSGVAAHAGGKPEDG 250
Query: 250 IDPILAVSSSVISLQNIVSREIDPLDSQVVSVAMINGGSSYNMIPDSATVAGTFRAFNKK 309
+ +LA + + + L I + V+V + G+ N++P SA + R ++
Sbjct: 251 RNALLAAAQAALGLHAIPPHSA---GASRVNVGVXQAGTGRNVVPSSALLKVETRGESEA 307
Query: 310 RFNALRERIEEIIKGQAAVHRCSAEVDFSG 339
+ ER + ++ G AA + E+ G
Sbjct: 308 INQYVFERAQHVVAGAAAXYEARYELRXXG 337
>pdb|3RAM|A Chain A, Crystal Structure Of Hmra
pdb|3RAM|B Chain B, Crystal Structure Of Hmra
pdb|3RAM|C Chain C, Crystal Structure Of Hmra
pdb|3RAM|D Chain D, Crystal Structure Of Hmra
Length = 394
Score = 77.0 bits (188), Expect = 2e-14, Method: Compositional matrix adjust.
Identities = 75/282 (26%), Positives = 123/282 (43%), Gaps = 39/282 (13%)
Query: 64 KMRRQIHENPELAYEEFETSELIRRELDQLGIAYRWPVA--KTGVVATVGSG-SPPFVAL 120
++ +IHE PEL EE S + L + +A TG +AT SG P +
Sbjct: 20 EISHRIHERPELGNEEIFASRTLIDRLKEHDFEIETEIAGHATGFIATYDSGLDGPAIGF 79
Query: 121 RADMDALPIQELVEWEHKSKIDGKMHACGHDA-HVAMLLGAAKILQEMRETLKGTVVLIF 179
A+ DALP G HACGH+ A +LGA L+++ + + G VV++
Sbjct: 80 LAEYDALP--------------GLGHACGHNIIGTASVLGAIG-LKQVIDQIGGKVVVLG 124
Query: 180 QPAEE---RGTGAKDMIQEGVLENVEAIFGLHLVHKYPTGVVASRPGDFLAGCGSFKAKI 236
PAEE G+ ++ GV++ ++ +H G + D LA K
Sbjct: 125 CPAEEGGENGSAKASYVKAGVIDQIDIALXIH------PGNETYKTIDTLA-VDVLDVKF 177
Query: 237 SGKGGHAAIPQ----HCIDPILAVSSSVISLQNIVSREIDPLDSQVVSVAMINGGSSYNM 292
GK HA+ + +D ++ + V L+ + ++ Q V +++GG + N+
Sbjct: 178 YGKSAHASENADEALNALDAXISYFNGVAQLRQHIKKD------QRVHGVILDGGKAANI 231
Query: 293 IPDSATVAGTFRAFNKKRFNALRERIEEIIKGQAAVHRCSAE 334
IPD RA +K + L E++ +I +G A C E
Sbjct: 232 IPDYTHARFYTRAXTRKELDILTEKVNQIARGAAIQTGCDYE 273
>pdb|1CG2|A Chain A, Carboxypeptidase G2
pdb|1CG2|B Chain B, Carboxypeptidase G2
pdb|1CG2|C Chain C, Carboxypeptidase G2
pdb|1CG2|D Chain D, Carboxypeptidase G2
Length = 393
Score = 51.2 bits (121), Expect = 1e-06, Method: Compositional matrix adjust.
Identities = 45/168 (26%), Positives = 82/168 (48%), Gaps = 12/168 (7%)
Query: 155 AMLLGAAKILQEMRETLKGTVVLIFQPAEERGT-GAKDMIQEGVLENVEAIFGLHLVHKY 213
A++L K+L+E GT+ ++F EE+G+ G++D+IQE EA +++
Sbjct: 125 AVILHTLKLLKEYGVRDYGTITVLFNTDEEKGSFGSRDLIQE------EAKLADYVLSFE 178
Query: 214 PTGVVASRPGDFLAGCGSFKAKISGKGGHA-AIPQHCIDPILAVSSSVISLQNIVSREID 272
PT + +G + I+GK HA A P+ ++ ++ S V+ NI + +
Sbjct: 179 PTSAGDEKLSLGTSGIAYVQVNITGKASHAGAAPELGVNALVEASDLVLRTMNIDDKAKN 238
Query: 273 PLDSQVVSVAMINGGSSYNMIPDSATVAGTFRAFNKKRFNALRERIEE 320
+ ++ A G+ N+IP SAT+ R + F+A + +EE
Sbjct: 239 LRFNWTIAKA----GNVSNIIPASATLNADVRYARNEDFDAAMKTLEE 282
>pdb|1VGY|A Chain A, Crystal Structure Of Succinyl Diaminopimelate
Desuccinylase
pdb|1VGY|B Chain B, Crystal Structure Of Succinyl Diaminopimelate
Desuccinylase
Length = 393
Score = 40.4 bits (93), Expect = 0.002, Method: Compositional matrix adjust.
Identities = 48/222 (21%), Positives = 92/222 (41%), Gaps = 20/222 (9%)
Query: 116 PFVALRADMDALPIQELVEWE----HKSKIDGKMHACG---HDAHVAMLLGAAKILQEMR 168
P V D +P + +W+ ++ DG+++ G +A + A +
Sbjct: 63 PVVCFAGHTDVVPTGPVEKWDSPPFEPAERDGRLYGRGAADXKTSIACFVTACERFVAKH 122
Query: 169 ETLKGTVVLIFQPAEERGT--GAKDMIQEGVLENVEAIFGLHLVHKYPTGVVASRPGDFL 226
+G++ L+ EE G ++ VL+ + + +V + PT V + GD +
Sbjct: 123 PNHQGSIALLITSDEEGDALDGTTKVVD--VLKARDELIDYCIVGE-PTAV--DKLGDXI 177
Query: 227 A----GCGSFKAKISGKGGHAAIPQHCIDPILAVSSSVISL-QNIVSREIDPLDSQVVSV 281
G S + GK GH A P I+P+ + +++ L Q + + +
Sbjct: 178 KNGRRGSLSGNLTVKGKQGHIAYPHLAINPVHTFAPALLELTQEVWDEGNEYFPPTSFQI 237
Query: 282 AMINGGS-SYNMIPDSATVAGTFRAFNKKRFNALRERIEEII 322
+ INGG+ + N+IP V FR + L++R+ I+
Sbjct: 238 SNINGGTGATNVIPGELNVKFNFRFSTESTEAGLKQRVHAIL 279
>pdb|2RB7|A Chain A, Crystal Structure Of Co-Catalytic Metallopeptidase
(Yp_387682.1) From Desulfovibrio Desulfuricans G20 At
1.60 A Resolution
pdb|2RB7|B Chain B, Crystal Structure Of Co-Catalytic Metallopeptidase
(Yp_387682.1) From Desulfovibrio Desulfuricans G20 At
1.60 A Resolution
Length = 364
Score = 35.8 bits (81), Expect = 0.055, Method: Compositional matrix adjust.
Identities = 22/100 (22%), Positives = 41/100 (41%)
Query: 231 SFKAKISGKGGHAAIPQHCIDPILAVSSSVISLQNIVSREIDPLDSQVVSVAMINGGSSY 290
K +GK H A P ++ + + L+ + + E + + V++ I G S
Sbjct: 179 DIKLTCTGKAAHGARPWXGVNAVDLLXEDYTRLKTLFAEENEDHWHRTVNLGRIRAGEST 238
Query: 291 NMIPDSATVAGTFRAFNKKRFNALRERIEEIIKGQAAVHR 330
N +PD A R AL ++I + + G ++ R
Sbjct: 239 NKVPDVAEGWFNIRVTEHDDPGALIDKIRKTVSGTVSIVR 278
>pdb|3RZA|A Chain A, Crystal Structure Of A Tripeptidase (Sav1512) From
Staphylococcus Aureus Subsp. Aureus Mu50 At 2.10 A
Resolution
pdb|3RZA|B Chain B, Crystal Structure Of A Tripeptidase (Sav1512) From
Staphylococcus Aureus Subsp. Aureus Mu50 At 2.10 A
Resolution
Length = 396
Score = 33.9 bits (76), Expect = 0.20, Method: Compositional matrix adjust.
Identities = 59/263 (22%), Positives = 110/263 (41%), Gaps = 27/263 (10%)
Query: 108 ATVGSGSPPFVALRADMD----ALPIQELVEWEHKSKIDGKMHACGHDAHVAMLLGAAKI 163
+T+ G P + L + D A+ ++ +V+ + DG D A L ++
Sbjct: 83 STIEEGEVPKLYLTSHXDTVVPAINVKPIVKDDGYIYSDGTTILGADDK--AGLAAXLEV 140
Query: 164 LQEMRETL--KGTVVLIFQPAEERG-TGAKDMIQEGVLENVEAIFGLHLVHKYPTGV-VA 219
LQ ++E G + + EE G GAK++ E ++A FG + G V
Sbjct: 141 LQVIKEQQIPHGQIQFVITVGEESGLIGAKELNSE----LLDADFGYAIDASADVGTTVV 196
Query: 220 SRPGDFLAGCGSFKAKISGKGGHAAIPQHCIDPILAVSSSVISLQNIVSREIDPLDSQVV 279
P L AKI GK HA+ P+ + I +++ IS + ++D + +
Sbjct: 197 GAPTQXL-----ISAKIIGKTAHASTPKEGVSAI-NIAAKAISRXKL--GQVDEITT--A 246
Query: 280 SVAMINGGSSYNMIPDSATVAGTFRAFNKKRFNALRERIEEIIKGQAAVHRCSAEVDFSG 339
++ +GGS+ N++ D + R+ + +R + ++ + A+ AEV
Sbjct: 247 NIGKFHGGSATNIVADEVILEAEARSHDPERIKTQVKHXTDVFETTASELGGKAEVTVE- 305
Query: 340 REHPTLPPTMND--VRIYQHVRR 360
+ +P N+ V+I Q R
Sbjct: 306 QSYPGFKINDNEAVVKIAQESAR 328
>pdb|3CT9|A Chain A, Crystal Structure Of A Putative Zinc Peptidase
(Np_812461.1) From Bacteroides Thetaiotaomicron Vpi-5482
At 2.31 A Resolution
pdb|3CT9|B Chain B, Crystal Structure Of A Putative Zinc Peptidase
(Np_812461.1) From Bacteroides Thetaiotaomicron Vpi-5482
At 2.31 A Resolution
Length = 356
Score = 33.1 bits (74), Expect = 0.32, Method: Compositional matrix adjust.
Identities = 41/182 (22%), Positives = 79/182 (43%), Gaps = 13/182 (7%)
Query: 142 DGKMHACGHDAHVAMLLGAAKILQEMRETLKGTVVLIFQPAEERGTGAKDMIQEGVLENV 201
+GK++ G + A ++ ++ ++ T + ++ EE +G + + E VL +
Sbjct: 95 NGKLYGLGSNDAGASVVSLLQVFLQLCRTSQNYNLIYLASCEEEVSGKEGI--ESVLPGL 152
Query: 202 EAIFGLHLVHKYPTGVVASRPGDFLAGCGSFKAKISGKGGHAAIPQHCIDPILAVSSSVI 261
+ +V + PT +P G +GK GHAA + + I V + +
Sbjct: 153 PPV-SFAIVGE-PT---EXQPAIAEKGLXVLDVTATGKAGHAARDEG-DNAIYKVLNDIA 206
Query: 262 SLQNIVSREIDPLDSQV-VSVAMINGGSSYNMIPDSATVAGTFRA----FNKKRFNALRE 316
++ + PL V SV +IN G+ +N++PD T R+ N+ F +R+
Sbjct: 207 WFRDYRFEKESPLLGPVKXSVTVINAGTQHNVVPDKCTFVVDIRSNELYSNEDLFAEIRK 266
Query: 317 RI 318
I
Sbjct: 267 HI 268
>pdb|3O6K|H Chain H, Crystal Structure Of Anti-Tat Hiv Fab'11h6h1
pdb|3O6L|H Chain H, Anti-Tat Hiv 11h6h1 Fab' Complexed With A 15-Mer Tat
Peptide
pdb|3O6M|H Chain H, Anti-Tat Hiv 11h6h1 Fab' Complexed With A 9-Mer Tat
Peptide
Length = 219
Score = 30.4 bits (67), Expect = 2.1, Method: Compositional matrix adjust.
Identities = 17/57 (29%), Positives = 26/57 (45%), Gaps = 2/57 (3%)
Query: 281 VAMINGGSSYNMIPDSATVAGTFRAFNKKRFNALRERIEEIIKGQAAVHRCSAEVDF 337
VA I+ G SY PDS V G F N L ++ + A++ C+ + D+
Sbjct: 48 VASISSGGSYTYYPDS--VKGRFTISRDNARNTLYLQMNSLRSEDTALYYCARDYDY 102
>pdb|3UTZ|B Chain B, Endogenous-Like Inhibitory Antibodies Targeting Activated
Metalloproteinase Motifs Show Therapeutic Potential
pdb|3UTZ|C Chain C, Endogenous-Like Inhibitory Antibodies Targeting Activated
Metalloproteinase Motifs Show Therapeutic Potential
pdb|3UTZ|F Chain F, Endogenous-Like Inhibitory Antibodies Targeting Activated
Metalloproteinase Motifs Show Therapeutic Potential
Length = 225
Score = 30.4 bits (67), Expect = 2.1, Method: Compositional matrix adjust.
Identities = 17/52 (32%), Positives = 24/52 (46%), Gaps = 2/52 (3%)
Query: 281 VAMINGGSSYNMIPDSATVAGTFRAFNKKRFNALRERIEEIIKGQAAVHRCS 332
VA I+ G SY PDS V G F N L ++ + G A++ C+
Sbjct: 48 VATISSGGSYTYYPDS--VKGRFTISKDNARNTLYLQMSSLRSGDTALYYCT 97
>pdb|3V6F|A Chain A, Crystal Structure Of An Anti-hbv E-antigen Monoclonal Fab
Fragment (e6), Unbound
pdb|3V6F|C Chain C, Crystal Structure Of An Anti-hbv E-antigen Monoclonal Fab
Fragment (e6), Unbound
pdb|3V6F|E Chain E, Crystal Structure Of An Anti-hbv E-antigen Monoclonal Fab
Fragment (e6), Unbound
pdb|3V6F|H Chain H, Crystal Structure Of An Anti-hbv E-antigen Monoclonal Fab
Fragment (e6), Unbound
pdb|3V6Z|A Chain A, Crystal Structure Of Hepatitis B Virus E-antigen
pdb|3V6Z|C Chain C, Crystal Structure Of Hepatitis B Virus E-antigen
Length = 224
Score = 30.4 bits (67), Expect = 2.3, Method: Compositional matrix adjust.
Identities = 19/65 (29%), Positives = 30/65 (46%), Gaps = 2/65 (3%)
Query: 275 DSQVVSVAMINGGSSYNMIPDSATVAGTFRAFNKKRFNALRERIEEIIKGQAAVHRCSAE 334
D ++ VA I+ G +Y PD TV G F N L ++ + A++ C+ E
Sbjct: 42 DKRLEWVATISSGGNYIYYPD--TVKGRFTISRDNAKNTLYLQMSSLKSEDTAMYYCTRE 99
Query: 335 VDFSG 339
+SG
Sbjct: 100 GAYSG 104
>pdb|3IZS|H Chain H, Localization Of The Large Subunit Ribosomal Proteins Into
A 6.1 A Cryo-Em Map Of Saccharomyces Cerevisiae
Translating 80s Ribosome
pdb|3O58|H Chain H, Yeast 80s Ribosome. This Entry Consists Of The 60s Subunit
Of The First 80s In The Asymmetric Unit.
pdb|3O5H|H Chain H, Yeast 80s Ribosome. This Entry Consists Of The 60s Subunit
Of The Second 80s In The Asymmetric Unit.
pdb|3U5E|G Chain G, The Structure Of The Eukaryotic Ribosome At 3.0 A
Resolution. This Entry Contains Proteins Of The 60s
Subunit, Ribosome A
pdb|3U5I|G Chain G, The Structure Of The Eukaryotic Ribosome At 3.0 A
Resolution. This Entry Contains Proteins Of The 60s
Subunit, Ribosome B
pdb|4B6A|G Chain G, Cryo-Em Structure Of The 60s Ribosomal Subunit In Complex
With Arx1 And Rei1
Length = 256
Score = 30.0 bits (66), Expect = 3.0, Method: Compositional matrix adjust.
Identities = 17/48 (35%), Positives = 24/48 (50%)
Query: 295 DSATVAGTFRAFNKKRFNALRERIEEIIKGQAAVHRCSAEVDFSGREH 342
D T A TF+ FNK R E+ E + K AAV ++ D S + +
Sbjct: 83 DRNTAAETFKLFNKYRPETAAEKKERLTKEAAAVAEGKSKQDASPKPY 130
>pdb|3LQ2|A Chain A, E. Coli Pyruvate Dehydrogenase Complex E1 E235a Mutant
With Low Tdp Concentration
pdb|3LQ2|B Chain B, E. Coli Pyruvate Dehydrogenase Complex E1 E235a Mutant
With Low Tdp Concentration
pdb|3LQ4|A Chain A, E. Coli Pyruvate Dehydrogenase Complex E1 E235a Mutant
With High Tdp Concentration
pdb|3LQ4|B Chain B, E. Coli Pyruvate Dehydrogenase Complex E1 E235a Mutant
With High Tdp Concentration
Length = 886
Score = 28.5 bits (62), Expect = 8.1, Method: Compositional matrix adjust.
Identities = 19/77 (24%), Positives = 37/77 (48%), Gaps = 13/77 (16%)
Query: 41 QNSSIKSRIIELANDQDTVNWMKKMRRQI------------HENPELAY-EEFETSELIR 87
+N SIK R++ + D+ M+ + RQI + ++AY +E E ++++
Sbjct: 507 KNKSIKDRLVPIIADEARTFGMEGLFRQIGIYSPNGQQYTPQDREQVAYYKEDEKGQILQ 566
Query: 88 RELDQLGIAYRWPVAKT 104
+++LG W A T
Sbjct: 567 EGINELGAGCSWLAAAT 583
>pdb|1L8A|A Chain A, E. Coli Pyruvate Dehydrogenase
pdb|1L8A|B Chain B, E. Coli Pyruvate Dehydrogenase
pdb|1RP7|A Chain A, E. Coli Pyruvate Dehydrogenase Inhibitor Complex
pdb|1RP7|B Chain B, E. Coli Pyruvate Dehydrogenase Inhibitor Complex
pdb|2G25|A Chain A, E. Coli Pyruvate Dehydrogenase Phosphonolactylthiamin
Diphosphate Complex
pdb|2G25|B Chain B, E. Coli Pyruvate Dehydrogenase Phosphonolactylthiamin
Diphosphate Complex
pdb|2G28|A Chain A, E. Coli Pyruvate Dehydrogenase H407a Variant
Phosphonolactylthiamin Diphosphate Complex
pdb|2G28|B Chain B, E. Coli Pyruvate Dehydrogenase H407a Variant
Phosphonolactylthiamin Diphosphate Complex
pdb|2G67|A Chain A, E. Coli Pyruvate Dehydrogenase E1 Component (Apoenzyme)
pdb|2G67|B Chain B, E. Coli Pyruvate Dehydrogenase E1 Component (Apoenzyme)
pdb|2IEA|A Chain A, E. Coli Pyruvate Dehydrogenase
pdb|2IEA|B Chain B, E. Coli Pyruvate Dehydrogenase
Length = 886
Score = 28.5 bits (62), Expect = 8.1, Method: Compositional matrix adjust.
Identities = 19/77 (24%), Positives = 37/77 (48%), Gaps = 13/77 (16%)
Query: 41 QNSSIKSRIIELANDQDTVNWMKKMRRQI------------HENPELAY-EEFETSELIR 87
+N SIK R++ + D+ M+ + RQI + ++AY +E E ++++
Sbjct: 507 KNKSIKDRLVPIIADEARTFGMEGLFRQIGIYSPNGQQYTPQDREQVAYYKEDEKGQILQ 566
Query: 88 RELDQLGIAYRWPVAKT 104
+++LG W A T
Sbjct: 567 EGINELGAGCSWLAAAT 583
>pdb|2QTA|A Chain A, E. Coli Pyruvate Dehydrogenase E1 Component E401k Mutant
With Thiamin Diphosphate
pdb|2QTA|B Chain B, E. Coli Pyruvate Dehydrogenase E1 Component E401k Mutant
With Thiamin Diphosphate
pdb|2QTC|A Chain A, E. Coli Pyruvate Dehydrogenase E1 Component E401k Mutant
With Phosphonolactylthiamin Diphosphate
pdb|2QTC|B Chain B, E. Coli Pyruvate Dehydrogenase E1 Component E401k Mutant
With Phosphonolactylthiamin Diphosphate
Length = 886
Score = 28.5 bits (62), Expect = 8.3, Method: Compositional matrix adjust.
Identities = 19/77 (24%), Positives = 37/77 (48%), Gaps = 13/77 (16%)
Query: 41 QNSSIKSRIIELANDQDTVNWMKKMRRQI------------HENPELAY-EEFETSELIR 87
+N SIK R++ + D+ M+ + RQI + ++AY +E E ++++
Sbjct: 507 KNKSIKDRLVPIIADEARTFGMEGLFRQIGIYSPNGQQYTPQDREQVAYYKEDEKGQILQ 566
Query: 88 RELDQLGIAYRWPVAKT 104
+++LG W A T
Sbjct: 567 EGINELGAGCSWLAAAT 583
>pdb|3EXE|B Chain B, Crystal Structure Of The Pyruvate Dehydrogenase (E1p)
Component Of Human Pyruvate Dehydrogenase Complex
pdb|3EXE|D Chain D, Crystal Structure Of The Pyruvate Dehydrogenase (E1p)
Component Of Human Pyruvate Dehydrogenase Complex
pdb|3EXE|F Chain F, Crystal Structure Of The Pyruvate Dehydrogenase (E1p)
Component Of Human Pyruvate Dehydrogenase Complex
pdb|3EXE|H Chain H, Crystal Structure Of The Pyruvate Dehydrogenase (E1p)
Component Of Human Pyruvate Dehydrogenase Complex
pdb|3EXF|B Chain B, Crystal Structure Of The Pyruvate Dehydrogenase (E1p)
Component Of Human Pyruvate Dehydrogenase Complex
pdb|3EXF|D Chain D, Crystal Structure Of The Pyruvate Dehydrogenase (E1p)
Component Of Human Pyruvate Dehydrogenase Complex
pdb|3EXF|F Chain F, Crystal Structure Of The Pyruvate Dehydrogenase (E1p)
Component Of Human Pyruvate Dehydrogenase Complex
pdb|3EXF|H Chain H, Crystal Structure Of The Pyruvate Dehydrogenase (E1p)
Component Of Human Pyruvate Dehydrogenase Complex
pdb|3EXG|B Chain B, Crystal Structure Of The Pyruvate Dehydrogenase (E1p)
Component Of Human Pyruvate Dehydrogenase Complex
pdb|3EXG|D Chain D, Crystal Structure Of The Pyruvate Dehydrogenase (E1p)
Component Of Human Pyruvate Dehydrogenase Complex
pdb|3EXG|F Chain F, Crystal Structure Of The Pyruvate Dehydrogenase (E1p)
Component Of Human Pyruvate Dehydrogenase Complex
pdb|3EXG|H Chain H, Crystal Structure Of The Pyruvate Dehydrogenase (E1p)
Component Of Human Pyruvate Dehydrogenase Complex
pdb|3EXG|J Chain J, Crystal Structure Of The Pyruvate Dehydrogenase (E1p)
Component Of Human Pyruvate Dehydrogenase Complex
pdb|3EXG|L Chain L, Crystal Structure Of The Pyruvate Dehydrogenase (E1p)
Component Of Human Pyruvate Dehydrogenase Complex
pdb|3EXG|N Chain N, Crystal Structure Of The Pyruvate Dehydrogenase (E1p)
Component Of Human Pyruvate Dehydrogenase Complex
pdb|3EXG|P Chain P, Crystal Structure Of The Pyruvate Dehydrogenase (E1p)
Component Of Human Pyruvate Dehydrogenase Complex
pdb|3EXG|R Chain R, Crystal Structure Of The Pyruvate Dehydrogenase (E1p)
Component Of Human Pyruvate Dehydrogenase Complex
pdb|3EXG|T Chain T, Crystal Structure Of The Pyruvate Dehydrogenase (E1p)
Component Of Human Pyruvate Dehydrogenase Complex
pdb|3EXG|V Chain V, Crystal Structure Of The Pyruvate Dehydrogenase (E1p)
Component Of Human Pyruvate Dehydrogenase Complex
pdb|3EXG|X Chain X, Crystal Structure Of The Pyruvate Dehydrogenase (E1p)
Component Of Human Pyruvate Dehydrogenase Complex
pdb|3EXG|Z Chain Z, Crystal Structure Of The Pyruvate Dehydrogenase (E1p)
Component Of Human Pyruvate Dehydrogenase Complex
pdb|3EXG|2 Chain 2, Crystal Structure Of The Pyruvate Dehydrogenase (E1p)
Component Of Human Pyruvate Dehydrogenase Complex
pdb|3EXG|4 Chain 4, Crystal Structure Of The Pyruvate Dehydrogenase (E1p)
Component Of Human Pyruvate Dehydrogenase Complex
pdb|3EXG|6 Chain 6, Crystal Structure Of The Pyruvate Dehydrogenase (E1p)
Component Of Human Pyruvate Dehydrogenase Complex
pdb|3EXH|B Chain B, Crystal Structure Of The Pyruvate Dehydrogenase (E1p)
Component Of Human Pyruvate Dehydrogenase Complex
pdb|3EXH|D Chain D, Crystal Structure Of The Pyruvate Dehydrogenase (E1p)
Component Of Human Pyruvate Dehydrogenase Complex
pdb|3EXH|F Chain F, Crystal Structure Of The Pyruvate Dehydrogenase (E1p)
Component Of Human Pyruvate Dehydrogenase Complex
pdb|3EXH|H Chain H, Crystal Structure Of The Pyruvate Dehydrogenase (E1p)
Component Of Human Pyruvate Dehydrogenase Complex
pdb|3EXI|B Chain B, Crystal Structure Of The Pyruvate Dehydrogenase (E1p)
Component Of Human Pyruvate Dehydrogenase Complex With
The Subunit-Binding Domain (Sbd) Of E2p, But Sbd Cannot
Be Modeled Into The Electron Density
Length = 329
Score = 28.5 bits (62), Expect = 8.3, Method: Compositional matrix adjust.
Identities = 25/95 (26%), Positives = 45/95 (47%), Gaps = 14/95 (14%)
Query: 197 VLENVEAIFGLHLVHKYPTGVVASRPGDFLAGCGSFKAKISGKGGHAAIPQH------CI 250
VLEN E ++G+ ++P ++ DFL G KAKI +G H + H C+
Sbjct: 169 VLEN-ELMYGVPF--EFPP---EAQSKDFLIPIG--KAKIERQGTHITVVSHSRPVGHCL 220
Query: 251 DPILAVSSSVISLQNIVSREIDPLDSQVVSVAMIN 285
+ +S + + I R I P+D + + +++
Sbjct: 221 EAAAVLSKEGVECEVINMRTIRPMDMETIEASVMK 255
>pdb|2OZL|B Chain B, Human Pyruvate Dehydrogenase S264e Variant
pdb|2OZL|D Chain D, Human Pyruvate Dehydrogenase S264e Variant
Length = 341
Score = 28.1 bits (61), Expect = 9.4, Method: Compositional matrix adjust.
Identities = 25/95 (26%), Positives = 45/95 (47%), Gaps = 14/95 (14%)
Query: 197 VLENVEAIFGLHLVHKYPTGVVASRPGDFLAGCGSFKAKISGKGGHAAIPQH------CI 250
VLEN E ++G+ ++P ++ DFL G KAKI +G H + H C+
Sbjct: 181 VLEN-ELMYGVPF--EFPP---EAQSKDFLIPIG--KAKIERQGTHITVVSHSRPVGHCL 232
Query: 251 DPILAVSSSVISLQNIVSREIDPLDSQVVSVAMIN 285
+ +S + + I R I P+D + + +++
Sbjct: 233 EAAAVLSKEGVECEVINMRTIRPMDMETIEASVMK 267
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
0.320 0.135 0.393
Lambda K H
0.267 0.0410 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Hits to DB: 12,642,431
Number of Sequences: 62578
Number of extensions: 514695
Number of successful extensions: 1197
Number of sequences better than 100.0: 21
Number of HSP's better than 100.0 without gapping: 7
Number of HSP's successfully gapped in prelim test: 14
Number of HSP's that attempted gapping in prelim test: 1174
Number of HSP's gapped (non-prelim): 21
length of query: 444
length of database: 14,973,337
effective HSP length: 102
effective length of query: 342
effective length of database: 8,590,381
effective search space: 2937910302
effective search space used: 2937910302
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: 53 (25.0 bits)