RPS-BLAST 2.2.22 [Sep-27-2009]
Database: pdb70
24,244 sequences; 5,693,230 total letters
Searching..................................................done
Query= gi|254780333|ref|YP_003064746.1| alanine racemase [Candidatus
Liberibacter asiaticus str. psy62]
(370 letters)
>3kw3_A Alanine racemase; niaid, ssgcid, seattle structural genomics center
for infectious disease, iodide SOAK, LLP, CAT-scratch
disease; HET: LLP; 2.04A {Bartonella henselae}
Length = 376
Score = 276 bits (707), Expect = 5e-75
Identities = 119/365 (32%), Positives = 189/365 (51%), Gaps = 14/365 (3%)
Query: 8 RLKIDLTALKNNWHSMNALSGNARTAAVVKDNAYGLGCEKIAPALYNAGVQDFFVTSVEE 67
ID+ A+ N+ ++ +AVVK NAYGLG KIAPALY AG + FFV +EE
Sbjct: 22 IATIDVRAIVANYRTLAQHVAPTECSAVVKANAYGLGAHKIAPALYQAGCRTFFVAQIEE 81
Query: 68 GVKLRLYTPQARIFVLYGIHPGQ-EKIIFDTNLIPVISSVPQLT-FYSKLMSCGVSHPYA 125
++L+ P+ + L P + E+ + + +IP+++S + + + P
Sbjct: 82 ALQLKAVLPENVMIALLNGFPHKAEEFVAQSGIIPLLNSWSTIEDWQTLCQKKNKKFPAI 141
Query: 126 LQVDTGFNRLGLSLQEALDFTHNSFNKKLGQLSLIISHLACADDPSSHVNSVQLERFRTL 185
+QVDT +RLGL +E N + ++ I+SHLA +D S N+ QL F+ +
Sbjct: 142 IQVDTNMSRLGLDKKELQKLIKNPTIFEKAEIKYILSHLANGEDASHSSNNKQLAAFKRV 201
Query: 186 ISHYKGIEASLASSSGILLGPNYHFQLTRPGISLYGGTDKINKSHPMQTVVTAEARIILI 245
++ + S A+S GI LG +++F L RPGI+LYG P++ VV EA+++
Sbjct: 202 LAQLPTCKVSFANSGGIFLGSDFYFDLVRPGIALYGVDPHGKHPTPLKAVVKVEAQVLQS 261
Query: 246 RKALAGELVSYGGQKKLTRDSLIAVAAIGYADGYPLTLSGLDSEHSPSVFLGGKGFIKGY 305
R AG V Y R S +A +IGYADG+P LS G + G+
Sbjct: 262 RFIDAGIPVGYRESFMTRRPSTLATISIGYADGWPRILSN-----------KGTVYFNGH 310
Query: 306 MVPILGKITMDMTMFDITD-SLSIEVGDYIQIFGPDIKLDDVALASGTTNYDLLVRIGTR 364
+PI+G I+MD + D TD + GD++++ GP L+ V+ + T +++L +G R
Sbjct: 311 KLPIVGHISMDSIIVDATDLDKKPQRGDWVELIGPHQPLEKVSTDTNTIPHEILTSLGKR 370
Query: 365 YAKFY 369
Y + Y
Sbjct: 371 YKRIY 375
>3oo2_A Alanine racemase 1; infectious diseases, center for structural of
infectious diseases (csgid); 2.37A {Staphylococcus
aureus subsp}
Length = 385
Score = 268 bits (687), Expect = 1e-72
Identities = 96/381 (25%), Positives = 158/381 (41%), Gaps = 28/381 (7%)
Query: 3 SNEFLR---LKIDLTALKNNWHSMNALSGNARTAAVVKDNAYGLGCEKIAPALYNAGVQD 59
S+++ R + +DL A+ +N+ + L N AVVK NAYGLG K+A L G
Sbjct: 5 SDKYYRSAYMNVDLNAVASNFKVFSTLHPNKTVMAVVKANAYGLGSVKVARHLMENGATF 64
Query: 60 FFVTSVEEGVKLRLYTPQARIFVLYGIHPGQEKIIFDTNLIPVISSVPQLTFYSKLMS-- 117
F V +++E ++LR++ A+I VL + + + S L K +S
Sbjct: 65 FAVATLDEAIELRMHGITAKILVLGVLPAKDIDKAIQHRVALTVPSKQWLKEAIKNISGE 124
Query: 118 CGVSHPYALQVDTGFNRLGLSLQEAL-DFTHNSFNKKLGQLSLIISHLACADDPSSHVNS 176
+++DTG RLG+ + + + + +H ACAD+P
Sbjct: 125 QEKKLWLHIKLDTGMGRLGIKDTKTYQEVIEIIQQYEQLVFEGVFTHFACADEPGDMTTE 184
Query: 177 VQLERFRTLISHYKGIEASLASSSGILLGPNYHFQLTRPGISLYG----GTDKINKSHPM 232
+ K +S+G LL RPGISLYG + +
Sbjct: 185 QYQRFKDMVNEAIKPEYIHCQNSAGSLLMDCQFCNAIRPGISLYGYYPSEYVQQKVKVHL 244
Query: 233 QTVVTAEARIILIRKALAGELVSYGGQKKLTRDSLIAVAAIGYADGYPLTLSGLDSEHSP 292
+ V A ++ + AGE VSYG T + IA+ IGYADGY +
Sbjct: 245 KPSVQLIANVVQTKTLQAGESVSYGATYTATDPTTIALLPIGYADGYLRIMQ-------- 296
Query: 293 SVFLGGKGFIKGYMVPILGKITMDMTMFDITDSLSIEVGDYIQIFGPD----IKLDDVAL 348
G + G+ ++G++ MD T+ + D ++ GD + + ++ VA
Sbjct: 297 ----GSFVNVNGHQCEVIGRVCMDQTIVKVPD--QVKAGDSVILIDNHRESPQSVEVVAE 350
Query: 349 ASGTTNYDLLVRIGTRYAKFY 369
T NY++L + R + Y
Sbjct: 351 KQHTINYEVLCNLSRRLPRIY 371
>3hur_A Alanine racemase; structural genomics, isomerase, pyridoxal
phosphate, PSI-2, protein structure initiative; 2.50A
{Oenococcus oeni psu-1}
Length = 395
Score = 243 bits (621), Expect = 4e-65
Identities = 84/382 (21%), Positives = 153/382 (40%), Gaps = 36/382 (9%)
Query: 8 RLKIDLTALKNNWHSMNALSGNARTAAVVKDNAYGLGCEKIAPALYNAGVQD-FFVTSVE 66
+ +DL A +N + + + AV+K + YGLG +A A D V++++
Sbjct: 11 WVSVDLDAAAHNLQEIREWTKAKKVYAVLKADGYGLGAIPLAKAFQETASADALIVSNLD 70
Query: 67 EGVKLRLYTPQARIFVLYGIHPGQEKIIFDTNLIPVISSVPQLTFYSKLMSCGVSHPYAL 126
E ++LR I+VL K+ D +++ I S+ L + +L
Sbjct: 71 EALELRQADLTLPIWVLGAWDYSDLKLFIDHDIVITIPSLAWLQNLPD---FEGTLKVSL 127
Query: 127 QVDTGFNRLGLSLQEALDFTHNSFNKKLGQ-LSLIISHLACADDPSSHVNSVQLERFRTL 185
+DTG R+G + + +K L + +H A AD+ + E+ R
Sbjct: 128 AIDTGMTRIGFDKADEISAAKKIIDKNPQLDLFSVYTHFATADEAGEKSKAYFEEQLRRW 187
Query: 186 IS-----HYKGIEASLASSSGILLG---PNYHFQLTRPGISLYG-----GTDKINKSHPM 232
+ S+A+S+ + P F RPG + G G K+ + +
Sbjct: 188 QELTINQGFDPSLFSMANSATCIWHHDDPRISFAAIRPGQLISGVNVSNGELKMPPNLHL 247
Query: 233 QTVVTAEARIILIRKALAGELVSYGGQKKLTRDSLIAVAAIGYADGYPLTLSGLDSEHSP 292
+ + + + I +R + +SYG +++ D +A GY DG+ +
Sbjct: 248 ERIFSVCSEIADVRFVKKDQSLSYGASERMPEDGYVATLPFGYNDGWLRRMQ-------- 299
Query: 293 SVFLGGKGFIKGYMVPILGKITMDMTMFDITDSLSIEVGDYIQIFGPD----IKLDDVAL 348
I G +PI+G+ITMD TM + +G + + G D I +++VA
Sbjct: 300 ----KSSVIINGKRMPIIGRITMDQTMVKLDR--KYPIGTRVTLIGKDGGEQITVEEVAN 353
Query: 349 ASGTTNYDLLVRIGTRYAKFYT 370
S T ++ + R + YT
Sbjct: 354 YSHTIVDEIQTTLAPRIKRIYT 375
>2rjg_A Alanine racemase; alpha/beta barrel, cell shape, cell WALL
biogenesis/degradation, isomerase, peptidoglycan
synthesis, pyridoxal phosphate; HET: KCX PLP; 2.40A
{Escherichia coli} PDB: 2rjh_A* 3b8v_A* 3b8u_A* 3b8t_A*
3b8w_A*
Length = 379
Score = 233 bits (594), Expect = 5e-62
Identities = 109/368 (29%), Positives = 172/368 (46%), Gaps = 21/368 (5%)
Query: 8 RLKIDLTALKNNWHSMNALSGNARTAAVVKDNAYGLGCEKIAPALYNAGVQDFFVTSVEE 67
+ I+ AL++N + L+ ++ AVVK NAYG G + A L +A F V +EE
Sbjct: 25 TVVINRRALRHNLQRLRELAPASKMVAVVKANAYGHGLLETARTLPDADA--FGVARLEE 82
Query: 68 GVKLRLYTPQARIFVLYGIHPGQEK-IIFDTNLIPVISSVPQLTFYSKLMSCGVSHPYAL 126
++LR + +L G ++ I + + + QL + S +
Sbjct: 83 ALRLRAGGITKPVLLLEGFFDARDLPTISAQHFHTAVHNEEQLAALEE-ASLDEPVTVWM 141
Query: 127 QVDTGFNRLGLSLQEALDFTHN-SFNKKLGQLSLIISHLACADDPSSHVNSVQLERFRTL 185
++DTG +RLG+ ++A F H + K + Q I+SH A AD+P QL F T
Sbjct: 142 KLDTGMHRLGVRPEQAEAFYHRLTQCKNVRQPVNIVSHFARADEPKCGATEKQLAIFNTF 201
Query: 186 ISHYKGIEASLASSSGILLGPNYHFQLTRPGISLYGGT----DKINKSHPMQTVVTAEAR 241
G + A+S GILL P HF RPGI LYG + Q V++ +
Sbjct: 202 CEGKPGQRSI-AASGGILLWPQSHFDWVRPGIILYGVSPLEDRSTGADFGCQPVMSLTSS 260
Query: 242 IILIRKALAGELVSYGGQKKLTRDSLIAVAAIGYADGYPLTLSGLDSEHSPSVFLGGKGF 301
+I +R+ AGE V YGG RD+ + V A+GY DGYP G
Sbjct: 261 LIAVREHKAGEPVGYGGTWVSERDTRLGVVAMGYGDGYPRAAPS-----------GTPVL 309
Query: 302 IKGYMVPILGKITMDMTMFDITDSLSIEVGDYIQIFGPDIKLDDVALASGTTNYDLLVRI 361
+ G VPI+G++ MDM D+ + GD + ++G + ++ +A + + Y+L+ R+
Sbjct: 310 VNGREVPIVGRVAMDMICVDLGPQAQDKAGDPVILWGEGLPVERIAEMTKVSAYELITRL 369
Query: 362 GTRYAKFY 369
+R A Y
Sbjct: 370 TSRVAMKY 377
>1bd0_A Alanine racemase; isomerase, pyridoxal phosphate, alanine
phosphonate; HET: IN5; 1.60A {Bacillus
stearothermophilus} SCOP: b.49.2.2 c.1.6.1 PDB: 1sft_A*
2sfp_A* 1l6g_A* 1niu_A* 1l6f_A* 1xql_A* 1xqk_A* 1epv_A*
1ftx_A*
Length = 388
Score = 232 bits (591), Expect = 1e-61
Identities = 99/381 (25%), Positives = 158/381 (41%), Gaps = 29/381 (7%)
Query: 4 NEFLR---LKIDLTALKNNWHSM-NALSGNARTAAVVKDNAYGLGCEKIAPALYNAGVQD 59
N+F R ++DL A+ +N ++ L + AVVK NAYG G ++A AG
Sbjct: 2 NDFHRDTWAEVDLDAIYDNVENLRRLLPDDTHIMAVVKANAYGHGDVQVARTALEAGASR 61
Query: 60 FFVTSVEEGVKLRLYTPQARIFVLYGIHPGQEKIIFDTNLIPVISSVPQLTFYSKLMSCG 119
V ++E + LR +A I VL P + + + L S L S
Sbjct: 62 LAVAFLDEALALREKGIEAPILVLGASRPADAALAAQQRIALTVFRSDWLEEASALYSGP 121
Query: 120 VSHPYALQVDTGFNRLGLSLQEALDFTHNSFNK-KLGQLSLIISHLACADDPSSHVNSVQ 178
+ L++DTG RLG+ +E + L + +H A AD+ ++ S Q
Sbjct: 122 FPIHFHLKMDTGMGRLGVKDEEETKRIVALIERHPHFVLEGLYTHFATADEVNTDYFSYQ 181
Query: 179 LERFRTLISHYKG--IEASLASSSGILLGPNYHFQLTRPGISLYGGT----DKINKSHPM 232
RF ++ A+S+ L P+ F + R GI++YG K +P+
Sbjct: 182 YTRFLHMLEWLPSRPPLVHCANSAASLRFPDRTFNMVRFGIAMYGLAPSPGIKPLLPYPL 241
Query: 233 QTVVTAEARIILIRKALAGELVSYGGQKKLTRDSLIAVAAIGYADGYPLTLSGLDSEHSP 292
+ + +R++ ++K GE VSYG + I IGYADG+ L
Sbjct: 242 KEAFSLHSRLVHVKKLQPGEKVSYGATYTAQTEEWIGTIPIGYADGWLRRLQ-------- 293
Query: 293 SVFLGGKGFIKGYMVPILGKITMDMTMFDITDSLSIEVGDYIQIFGPD----IKLDDVAL 348
+ G PI+G+I MD M + + VG + + G I +DDVA
Sbjct: 294 ----HFHVLVDGQKAPIVGRICMDQCMIRLPG--PLPVGTKVTLIGRQGDEVISIDDVAR 347
Query: 349 ASGTTNYDLLVRIGTRYAKFY 369
T NY++ I R + +
Sbjct: 348 HLETINYEVPCTISYRVPRIF 368
>2vd8_A Alanine racemase; pyridoxal 5'-phosphate, peptidoglycan synthesis,
PLP, OPPF, L-alanine, isomerase, D- alanine, pyridoxal
phosphate; HET: MLY LLP; 1.47A {Bacillus anthracis} PDB:
2vd9_A*
Length = 391
Score = 231 bits (590), Expect = 2e-61
Identities = 89/387 (22%), Positives = 153/387 (39%), Gaps = 32/387 (8%)
Query: 1 MHSNEFLR---LKIDLTALKNNWHSM-NALSGNARTAAVVKDNAYGLGCEKIAPALYNAG 56
M F R +++DL A+ NN + + + AVVK NAYG +A AG
Sbjct: 3 MEEAPFYRDTWVEVDLDAIYNNVTHIXEFIPSDVEIFAVVKGNAYGHDYVPVAXIALEAG 62
Query: 57 VQDFFVTSVEEGVKLRLYTPQARIFVLYGIHPGQEKIIFDTNLIPVISSVPQLTFYSKLM 116
V ++E + LR A I VL P + + ++ + + L
Sbjct: 63 ATRLAVAFLDEALVLRRAGITAPILVLGPSPPRDINVAAENDVALTVFQXEWVDEAIXLW 122
Query: 117 SCGVSHPYALQVDTGFNRLGLS-LQEALDFTHNSFNKKLGQLSLIISHLACADDPSSHVN 175
+ Y + D+G R+G+ E F + +L + +H A AD+ +
Sbjct: 123 DGSSTMXYHINFDSGMGRIGIRERXELXGFLXSLEGAPFLELEGVYTHFATADEVETSYF 182
Query: 176 SVQLERFRTLISH-----YKGIEASLASSSGILLGPNYHFQLTRPGISLYGGT----DKI 226
Q F +S A+S+ L F R GI++YG + +
Sbjct: 183 DXQYNTFLEQLSWLXEFGVDPXFVHTANSAATLRFQGITFNAVRIGIAMYGLSPSVEIRP 242
Query: 227 NKSHPMQTVVTAEARIILIRKALAGELVSYGGQKKLTRDSLIAVAAIGYADGYPLTLSGL 286
++ ++ + I++ + G+ +SY + + IA AIGYADG+ L
Sbjct: 243 FLPFXLEPALSLHTXVAHIKQVIXGDGISYNVTYRTXTEEWIATVAIGYADGWLRRLQ-- 300
Query: 287 DSEHSPSVFLGGKGFIKGYMVPILGKITMDMTMFDITDSLSIEVGDYIQIFGPD----IK 342
G + + G VPI+G++TMD M + + +G + + G I
Sbjct: 301 ----------GFEVLVNGXRVPIVGRVTMDQFMIHLPC--EVPLGTXVTLIGRQGDEYIS 348
Query: 343 LDDVALASGTTNYDLLVRIGTRYAKFY 369
+VA SGT NY+++ I R + +
Sbjct: 349 ATEVAEYSGTINYEIITTISFRVPRIF 375
>1vfs_A Alanine racemase; TIM-barrel, greek-KEY motief, isomerase; HET: KCX
DCS; 1.90A {Streptomyces lavendulae} SCOP: b.49.2.2
c.1.6.1 PDB: 1vfh_A* 1vft_A*
Length = 386
Score = 228 bits (583), Expect = 1e-60
Identities = 100/376 (26%), Positives = 160/376 (42%), Gaps = 29/376 (7%)
Query: 11 IDLTALKNNWHSMNALSGNARTAAVVKDNAYGLGCEKIAPALYNAGVQDFFVTSVEEGVK 70
IDL A++ N ++ A + + AVVK NAYG G A A AG + EE ++
Sbjct: 12 IDLDAVRANVRALRARAPRSALMAVVKSNAYGHGAVPCARAAQEAGAAWLGTATPEEALE 71
Query: 71 LRLYTPQARIFVLYGIHPGQEKIIFDTNLIPVISSVPQLTFYSKLMSCGV-SHPYALQVD 129
LR Q RI G + +T++ +S + L + L+ D
Sbjct: 72 LRAAGIQGRIMCWLWTPGGPWREAIETDIDVSVSGMWALDEVRAAARAAGRTARIQLKAD 131
Query: 130 TGFNRLGLSLQEALDFTHNSF---NKKLGQLSLIISHLACADDPSSHVNSVQLERFRTLI 186
TG R G + + + + Q++ + SH ACAD+P +QL+ FR ++
Sbjct: 132 TGLGRNGCQPADWAELVGAAVAAQAEGTVQVTGVWSHFACADEPGHPSIRLQLDAFRDML 191
Query: 187 SHYK-----GIEASLASSSGILLGPNYHFQLTRPGISLYGGT----DKINKSHPMQTVVT 237
++ + +A+S L P HF L R G+++YG + ++ +T
Sbjct: 192 AYAEKEGVDPEVRHIANSPATLTLPETHFDLVRTGLAVYGVSPSPELGTPAQLGLRPAMT 251
Query: 238 AEARIILIRKALAGELVSYGGQKKLTRDSLIAVAAIGYADGYPLTLSGLDSEHSPSVFLG 297
A + L++ AG VSYG ++ +A+ GYADG P SG
Sbjct: 252 LRASLALVKTVPAGHGVSYGHHYVTESETHLALVPAGYADGIPRNASG-----------R 300
Query: 298 GKGFIKGYMVPILGKITMDMTMFDITDSLSIEVGDYIQIFGPD----IKLDDVALASGTT 353
G + G + G+I MD + D+ + L E GD I G +D A A+ T
Sbjct: 301 GPVLVAGKIRRAAGRIAMDQFVVDLGEDL-AEAGDEAVILGDAERGEPTAEDWAQAAHTI 359
Query: 354 NYDLLVRIGTRYAKFY 369
Y+++ RIG R + Y
Sbjct: 360 AYEIVTRIGGRVPRVY 375
>2dy3_A Alanine racemase; alpha/beta barrel, isomerase; HET: PLP; 2.10A
{Corynebacterium glutamicum}
Length = 361
Score = 227 bits (580), Expect = 2e-60
Identities = 92/370 (24%), Positives = 158/370 (42%), Gaps = 20/370 (5%)
Query: 7 LRLKIDLTALKNNWHSMNALSGNARTAAVVKDNAYGLGCEKIAPALYNAGVQDFFVTSVE 66
L KIDL A+ +N + ++G A+ AVVK NAY G EK+AP + G F V ++
Sbjct: 4 LTTKIDLDAIAHNTRVLKQMAGPAKLMAVVKANAYNHGVEKVAPVIAAHGADAFGVATLA 63
Query: 67 EGVKLRLYTPQARIFVLYGIHPGQEKIIFDTNLIPVISSVPQLTFYSKLMSCGVSHPYAL 126
E ++LR + + D N+ + S + ++
Sbjct: 64 EAMQLRDIGISQEVLCWIWTPEQDFRAAIDRNIDLAVISPAHAKALI--ETDAEHIRVSI 121
Query: 127 QVDTGFNRLGLSLQEALDFTHNSFNKKLGQLSLIISHLACADDPSSHVNSVQLERFRTLI 186
++D+G +R G+ QE +++ + +HLACAD+P + Q+ FR +
Sbjct: 122 KIDSGLHRSGVDEQEWEGVFSALAAAPHIEVTGMFTHLACADEPENPETDRQIIAFRRAL 181
Query: 187 S-----HYKGIEASLASSSGILLGPNYHFQLTRPGISLYGGTDKINKSHPMQTVVTAEAR 241
+ + + +S L + H ++ RPG++ YG H ++ +T EA+
Sbjct: 182 ALARKHGLECPVNHVCNSPAFLTRSDLHMEMVRPGLAFYGLEPVAGLEHGLKPAMTWEAK 241
Query: 242 IILIRKALAGELVSYGGQKKLTRDSLIAVAAIGYADGYPLTLSGLDSEHSPSVFLGGKGF 301
+ ++++ AG+ SYG + +AV GYADG P G
Sbjct: 242 VSVVKQIEAGQGTSYGLTWRAEDRGFVAVVPAGYADGMPRHAQG-----------KFSVT 290
Query: 302 IKGYMVPILGKITMDMTMFDITDSL-SIEVGDYIQIFGPD-IKLDDVALASGTTNYDLLV 359
I G P +G++ MD + + D+ +E G IFG + D A T NY+++
Sbjct: 291 IDGLDYPQVGRVCMDQFVISLGDNPHGVEAGAKAVIFGENGHDATDFAERLDTINYEVVC 350
Query: 360 RIGTRYAKFY 369
R R + Y
Sbjct: 351 RPTGRTVRAY 360
>1rcq_A Catabolic alanine racemase DADX; alpha-beta barrel, beta-structure
for C-terminal domain, internal/external aldimine forms,
isomerase; HET: KCX PLP DLY; 1.45A {Pseudomonas
aeruginosa} SCOP: b.49.2.2 c.1.6.1 PDB: 2odo_A*
Length = 357
Score = 226 bits (577), Expect = 6e-60
Identities = 101/367 (27%), Positives = 165/367 (44%), Gaps = 20/367 (5%)
Query: 8 RLKIDLTALKNNWHSMNALSGNARTAAVVKDNAYGLGCEKIAPALYNAGVQDFFVTSVEE 67
R IDL AL++N+ +G AR AV+K +AYG G + A AL A F V +EE
Sbjct: 5 RALIDLQALRHNYRLAREATG-ARALAVIKADAYGHGAVRCAEALA-AEADGFAVACIEE 62
Query: 68 GVKLRLYTPQA-RIFVLYGIHPGQEKIIFDTNLIPVISSVPQLTFYSKLMSCGVSHPYAL 126
G++LR + + + + ++I + V+ QL + L
Sbjct: 63 GLELREAGIRQPILLLEGFFEASELELIVAHDFWCVVHCAWQLEAIERASLA-RPLNVWL 121
Query: 127 QVDTGFNRLGLSLQEALDFTHNSFNKKLGQLSLIISHLACADDPSSHVNSVQLERFRTLI 186
++D+G +R+G ++ +++SH + AD+ QL F
Sbjct: 122 KMDSGMHRVGFFPEDFRAAHERLRASGKVAKIVMMSHFSRADELDCPRTEEQLAAFSAAS 181
Query: 187 SHYKGIEASLASSSGILLGPNYHFQLTRPGISLYGGT---DKINKSHPMQTVVTAEARII 243
+G SL +S +L P RPGI LYG T + ++ V+T E+++I
Sbjct: 182 QGLEGEI-SLRNSPAVLGWPKVPSDWVRPGILLYGATPFERAHPLADRLRPVMTLESKVI 240
Query: 244 LIRKALAGELVSYGGQKKLTRDSLIAVAAIGYADGYPLTLSGLDSEHSPSVFLGGKGFIK 303
+R AGE V YG + R I V A+GYADGYP + G FI
Sbjct: 241 SVRDLPAGEPVGYGARYSTERRQRIGVVAMGYADGYPRHAAD-----------GTLVFID 289
Query: 304 GYMVPILGKITMDMTMFDITDSLSIEVGDYIQIFGPDIKLDDVALASGTTNYDLLVRIGT 363
G ++G+++MDM D+TD +G ++++GP++ + +A G+ Y LL +
Sbjct: 290 GKPGRLVGRVSMDMLTVDLTDHPQAGLGSRVELWGPNVPVGALAAQFGSIPYQLLCNLK- 348
Query: 364 RYAKFYT 370
R + Y+
Sbjct: 349 RVPRVYS 355
>3e5p_A Alanine racemase; ALR, PLP, SCP, isomerase, pyridoxal phosphate;
HET: PLP EPE 2PE; 2.50A {Enterococcus faecalis} PDB:
3e6e_A*
Length = 371
Score = 225 bits (573), Expect = 2e-59
Identities = 85/375 (22%), Positives = 148/375 (39%), Gaps = 27/375 (7%)
Query: 8 RLKIDLTALKNNWHSM-NALSGNARTAAVVKDNAYGLGCEKIAPALYNAGVQDFFVTSVE 66
RL ID A+ N L AVVK N YG G + A A G F V ++
Sbjct: 10 RLHIDTQAITENVQKECQRLPEGTALFAVVKANGYGHGAVESAKAAKKGGATGFCVALLD 69
Query: 67 EGVKLRLYTPQARIFVLYGIHPGQEKIIFDTNLIPVISSVPQLTFYSKLMSC--GVSHPY 124
E ++LR Q I +L + ++ +L +++ L + ++
Sbjct: 70 EAIELREAGVQDPILILSVVDLAYVPLLIQYDLSVTVATQEWLEAALQQLTPESNTPLRV 129
Query: 125 ALQVDTGFNRLGLSLQEALDFTHNSFNK-KLGQLSLIISHLACADDPSSHVNSVQLERFR 183
L+VDTG R+G E K I +H + AD+ + Q RF+
Sbjct: 130 HLKVDTGMGRIGFLTPEETKQAVRFVQSHKEFLWEGIFTHFSTADEIDTSYFEKQAGRFK 189
Query: 184 TLIS--HYKGIEASLASSSGILLGPNYHFQLTRPGISLYGGT---DKINKSHPMQTVVTA 238
+++ +++S+ L P+ + R G+++YG +K+ S+ ++ +
Sbjct: 190 AVLAVLEELPRYVHVSNSATALWHPDVPGNMIRYGVAMYGLNPSGNKLAPSYALKPALRL 249
Query: 239 EARIILIRKALAGELVSYGGQKKLTRDSLIAVAAIGYADGYPLTLSGLDSEHSPSVFLGG 298
+ +I +++ AGE + YG + I IGYADG+ L G
Sbjct: 250 TSELIHVKRLAAGEGIGYGETYVTEAEEWIGTVPIGYADGWLRHLQ------------GF 297
Query: 299 KGFIKGYMVPILGKITMDMTMFDITDSLSIEVGDYIQIFGPD----IKLDDVALASGTTN 354
+ G I+G++ MD M + + + VG + + G D L VA T +
Sbjct: 298 TVLVNGKRCEIVGRVCMDQCMIRLAE--EVPVGPVVTLVGKDGNEENTLQMVAEKLETIH 355
Query: 355 YDLLVRIGTRYAKFY 369
Y++ R + Y
Sbjct: 356 YEVACTFSQRIPREY 370
>1xfc_A Alanine racemase; alpha-beta barrel, beta-structure for C-terminal
domain, internal aldimine form, isomerase; HET: PLP;
1.90A {Mycobacterium tuberculosis}
Length = 384
Score = 217 bits (553), Expect = 4e-57
Identities = 102/377 (27%), Positives = 167/377 (44%), Gaps = 26/377 (6%)
Query: 8 RLKIDLTALKNNWHSMNALSGNARTAAVVKDNAYGLGCEKIAPALYNAGVQDFFVTSVEE 67
+DL A+++N + +G+A+ AVVK + YG G ++A AG + V +V+E
Sbjct: 13 EAMVDLGAIEHNVRVLREHAGHAQLMAVVKADGYGHGATRVAQTALGAGAAELGVATVDE 72
Query: 68 GVKLRLYTPQARIFVLYGIHPGQEKIIFDTNLIPVISSVPQLTFYSKLM-SCGVSHPYAL 126
+ LR A + ++ +SS+ QL + G + +
Sbjct: 73 ALALRADGITAPVLAWLHPPGIDFGPALLADVQVAVSSLRQLDELLHAVRRTGRTATVTV 132
Query: 127 QVDTGFNRLGLS---LQEALDFTHNSFNKKLGQLSLIISHLACADDPSSHVNSVQLERFR 183
+VDTG NR G+ L + + +L ++SH+ AD P +N VQ +RF
Sbjct: 133 KVDTGLNRNGVGPAQFPAMLTALRQAMAEDAVRLRGLMSHMVYADKPDDSINDVQAQRFT 192
Query: 184 TLISHY-----KGIEASLASSSGILLGPNYHFQLTRPGISLYGGT-DKINKSHPMQTVVT 237
++ + A L++SS + P+ F L RPGI++YG + + +T
Sbjct: 193 AFLAQAREQGVRFEVAHLSNSSATMARPDLTFDLVRPGIAVYGLSPVPALGDMGLVPAMT 252
Query: 238 AEARIILIRKALAGELVSYGGQKKLTRDSLIAVAAIGYADGYPLTLSGLDSEHSPSVFLG 297
+ + L++ AGE VSYG RD+ +A+ IGYADG +L G
Sbjct: 253 VKCAVALVKSIRAGEGVSYGHTWIAPRDTNLALLPIGYADGVFRSLGG-----------R 301
Query: 298 GKGFIKGYMVPILGKITMDMTMFDITDS-LSIEVGDYIQIFGPDIK----LDDVALASGT 352
+ I G P +G+I MD M D+ L + GD +FGP I+ D A GT
Sbjct: 302 LEVLINGRRCPGVGRICMDQFMVDLGPGPLDVAEGDEAILFGPGIRGEPTAQDWADLVGT 361
Query: 353 TNYDLLVRIGTRYAKFY 369
+Y+++ R + Y
Sbjct: 362 IHYEVVTSPRGRITRTY 378
>3co8_A Alanine racemase; protein structure initiative II, PSI-II, NYSGXRC,
PLP, TIM barrel, structural genomics; HET: PLP; 1.70A
{Oenococcus oeni psu-1}
Length = 380
Score = 212 bits (541), Expect = 7e-56
Identities = 83/375 (22%), Positives = 139/375 (37%), Gaps = 28/375 (7%)
Query: 8 RLKIDLTALKNNWHSMNALSGNARTAAVVKDNAYGLGCEKIAPALYNAGVQDFFVTSVEE 67
R++ ++L N +SG VK NAYG G +++ GV V+ ++E
Sbjct: 11 RIEFSKSSLAYNVQYTKQVSGAKTLWLAVKSNAYGHGLLQVSKIARECGVDGLAVSVLDE 70
Query: 68 GVKLRLYTPQARIFVLYGIHPGQEKIIFDTNLIPVISSVPQLTFYSKLMSCGVSHPYALQ 127
G+ +R I +L I I + + +SS+ L K + L
Sbjct: 71 GIAIRQAGIDDFILILGPIDVKYAPIASKYHFLTTVSSLDWLKSADK-ILGKEKLSVNLA 129
Query: 128 VDTGFNRLGLSLQEALDFTHNSFNKKLGQLSLI--ISHLACADDPSSHVNSVQLERFRTL 185
VDTG NR+G+ ++ L + S +H A +D+P H Q R+ L
Sbjct: 130 VDTGMNRIGVRSKKDLKDEIEFLQEHSDHFSYDGIFTHFASSDNPDDHYFQRQKNRWYEL 189
Query: 186 ISHYKGIEASLASSSGILLGPNYHFQ----LTRPGISLYGGTDKINKSHP---MQTVVTA 238
I +SG + + + R G +YG P ++ V
Sbjct: 190 IDGLIMPRYVHVMNSGAAMYHSKELPGCNSIARVGTVVYGVEPSEGVLGPIDKLKPVFEL 249
Query: 239 EARIILIRKALAGELVSYGGQKKLTRDSLIAVAAIGYADGYPLTLSGLDSEHSPSVFLGG 298
++ + ++K AGE +SYG + +RD+ I IGY DG+
Sbjct: 250 KSALTFVKKIPAGEGISYGSKFVTSRDTWIGTLPIGYGDGWLAEYQ------------DF 297
Query: 299 KGFIKGYMVPILGKITMDMTMFDITDSLSIEVGDYIQIFGPD----IKLDDVALASGTTN 354
+ I G +G+I MD M + +G + + G L D+ SG
Sbjct: 298 QLLIDGQKCRQVGQIAMDQMMVALPH--EYPIGTEVTLIGKSGKYENTLYDLHKHSGVPP 355
Query: 355 YDLLVRIGTRYAKFY 369
+ + V R +
Sbjct: 356 WKITVAFSDRLKRMV 370
>3llx_A Predicted amino acid aldolase or racemase; structural genomics,
joint center for structural genomics, JCSG, protein
structure initiative; HET: LLP TRS; 1.50A {Idiomarina
loihiensis}
Length = 376
Score = 67.3 bits (163), Expect = 6e-12
Identities = 46/353 (13%), Positives = 108/353 (30%), Gaps = 49/353 (13%)
Query: 8 RLKIDLTALKNNWHSMNALSG--NARTAAVVKDNAYGLGCEKIAPALYNAGVQDFFVTSV 65
L ID LK+N + + + +K L + A L ++ V+++
Sbjct: 16 YLLIDEAKLKSNINYLKQRVESLGSHLRPHLK----TLRTLEAAGYLLDSKSAPATVSTL 71
Query: 66 EEGVKLRLYTPQARIFVLYGIHPGQEKIIF----DTNLIPVISSVPQLTFYSKLMS-CGV 120
E ++ + +++ NL ++ ++ Q + G
Sbjct: 72 AEAEAYAKAGYTDLLYAVGIAPAKLKRVAALRQQGINLHILLDNITQAQAVVDYAAEFGQ 131
Query: 121 SHPYALQVDTGFNRLGLSLQEAL---DFTHNSFNKKLGQLSLIISHLACADDPSSHVNSV 177
+++D+ +R G+ ++ + S+ + +
Sbjct: 132 DFSVFIEIDSDDHRGGIKPSDSKLLTIAKTLGEHFTGLMTHAGGSYACNTEQGLKNFAKQ 191
Query: 178 QLERFRTLISHYK--GIEASLASSSGILLGPNYHFQLT-------RPGISLYGGTD--KI 226
+ + R ++ + GI ++ S P HF R G+ I
Sbjct: 192 ECDAVRIARNNLETAGIHCAITSVGS---TPTAHFGEDFSDISEVRAGVYTTFDLVMKNI 248
Query: 227 NKSHPMQTVVTAEARIILIRKALAGELVSYGGQKKLTRDSLIAVAAIGYADGYPLTLSGL 286
++ +I K L++ G L+RDS A + G + G
Sbjct: 249 GVCDFSHIAMSVVTTVIGHNKE-KNWLLTDSGWMALSRDSGTAGQNRDFGYGQVCKIDGS 307
Query: 287 DSEHSPSVFLGGKGFIKGYMVPILGKITMDMTMFDITDSLSIE---VGDYIQI 336
+ + + + + +++D+ +E VG ++I
Sbjct: 308 VLDGL-----------------CVNSTSQEHGVIELSDAYQLEDFPVGHQLRI 343
>2pff_B Fatty acid synthase subunit beta; fatty acid synthase,
acyl-carrier-protein, beta-ketoacyl reductase,
beta-ketoacyl synthase, dehydratase; 4.00A
{Saccharomyces cerevisiae}
Length = 2006
Score = 54.6 bits (131), Expect = 4e-08
Identities = 77/491 (15%), Positives = 128/491 (26%), Gaps = 232/491 (47%)
Query: 4 NEFLRLKIDLTALKNNWHSMNA-LSGNARTAAVVKDN---AYGLGCE-------KIAP-A 51
N +L N+ H++ A L T V Y K + A
Sbjct: 93 NCYLE--------GNDIHALAAKLLQENDTTLVKTKELIKNYITARIMAKRPFDKKSNSA 144
Query: 52 LYNAGVQDFFVTSVEEGVKLRLYTPQARIFVLYGIHPGQ--------E-KIIFDT---NL 99
L+ A V EG A++ ++G GQ E + ++ T +
Sbjct: 145 LFRA---------VGEG--------NAQLVAIFG---GQGNTDDYFEELRDLYQTYHVLV 184
Query: 100 IPVISSV-PQL-----------TFYSK-------------------LMSCGVSHP----- 123
+I L +++ L+S +S P
Sbjct: 185 GDLIKFSAETLSELIRTTLDAEKVFTQGLNILEWLENPSNTPDKDYLLSIPISCPLIGVI 244
Query: 124 ----YAL--QVDTGFNRLGLS---LQEAL-----------------------DFTHNSFN 151
Y + ++ LG + L+ L F +
Sbjct: 245 QLAHYVVTAKL------LGFTPGELRSYLKGATGHSQGLVTAVAIAETDSWESFFVSV-- 296
Query: 152 KKLGQLSLII---SHLACAD---DPS-------------SHVNSVQ-LERFRTLISHYKG 191
+K + I + A + PS S + S+ L + + +
Sbjct: 297 RKAITVLFFIGVRCYEAYPNTSLPPSILEDSLENNEGVPSPMLSISNLTQ-EQVQDYVNK 355
Query: 192 IEASLASSSGILL----GPNYHFQLTRPGISLYG------------GTD---------KI 226
+ L + + + G + ++ P SLYG G D K+
Sbjct: 356 TNSHLPAGKQVEISLVNGAK-NLVVSGPPQSLYGLNLTLRKAKAPSGLDQSRIPFSERKL 414
Query: 227 NKSH-------PMQT--VVTAEARIILIRKALAGELVSYGGQKKLTRDSL-IAVAAIGYA 276
S+ P + +V A I K L VS+ + I V Y
Sbjct: 415 KFSNRFLPVASPFHSHLLVPASDLIN---KDLVKNNVSFNA------KDIQIPV----YD 461
Query: 277 DGYPLTLSGLD-SEHSPSVFLGGKGFIKGYMVPILGK-ITMDM------TMFDITDSLSI 328
T G D S S+ + I T F T
Sbjct: 462 -----TFDGSDLRVLSGSI------------SERIVDCIIRLPVKWETTTQFKAT----- 499
Query: 329 EVGDYIQIFGP 339
+I FGP
Sbjct: 500 ----HILDFGP 506
Score = 38.0 bits (88), Expect = 0.003
Identities = 59/369 (15%), Positives = 95/369 (25%), Gaps = 161/369 (43%)
Query: 103 ISSVPQLTFYSKLMSCGVSHPYALQVDTGFNRLGLSLQEALDFTHNSF------------ 150
++ +L K + + +L + + L L N +
Sbjct: 54 PTTPAEL--VGKFLG----YVSSLVEPSKVGQFDQVLNLCLTEFENCYLEGNDIHALAAK 107
Query: 151 -----NKKLGQLSLIISH----LACADDPSSHV------NSVQ----------------- 178
+ L + +I + A P +V
Sbjct: 108 LLQENDTTLVKTKELIKNYITARIMAKRPFDKKSNSALFRAVGEGNAQLVAIFGGQGNTD 167
Query: 179 --LERFRTLISHYKGIEASLASSSGILLGPNYHFQLTR-P--GISLYG-GTDKINK--SH 230
E R L Y + L S L +L R ++ G + I + +
Sbjct: 168 DYFEELRDLYQTYHVLVGDLIKFSAETL-----SELIRTTLDAEKVFTQGLN-ILEWLEN 221
Query: 231 PMQT-----VVTAEARIILIRKALAG--ELVSY-------G---GQKKLTRDSL------ 267
P T +++ LI G +L Y G G+ R L
Sbjct: 222 PSNTPDKDYLLSIPISCPLI-----GVIQLAHYVVTAKLLGFTPGE---LRSYLKGATGH 273
Query: 268 ---IAVAA------------------------IGYA--DGYP---LTLSGL-DS----EH 290
+ A IG + YP L S L DS E
Sbjct: 274 SQGLVTAVAIAETDSWESFFVSVRKAITVLFFIGVRCYEAYPNTSLPPSILEDSLENNEG 333
Query: 291 SPSVFLGGKGFIKGYMVPILGKITMDMTMFDITDSLSIE-VGDYIQIFG---PDIKLDDV 346
PS P M I++ L+ E V DY+ P K ++
Sbjct: 334 VPS--------------P----------MLSISN-LTQEQVQDYVNKTNSHLPAGKQVEI 368
Query: 347 ALASGTTNY 355
+L +G N
Sbjct: 369 SLVNGAKNL 377
Score = 36.1 bits (83), Expect = 0.013
Identities = 35/247 (14%), Positives = 63/247 (25%), Gaps = 102/247 (41%)
Query: 183 RTLISHYKGIEASLASSSGILLGPNYHFQLTRPGISLYGGTDKINKSHPMQTVVTAE--- 239
R L + +E +L+ F ++ L ++ NK P T A
Sbjct: 7 RPLTLSHGSLEHV------LLVPTASFFIASQ----LQ---EQFNKILPEPTEGFAADDE 53
Query: 240 --------ARII--LIRK-------------------------------ALAGELVSYGG 258
+ + + ALA +L+
Sbjct: 54 PTTPAELVGKFLGYVSSLVEPSKVGQFDQVLNLCLTEFENCYLEGNDIHALAAKLLQEND 113
Query: 259 QKKLTRDSLI-----AVAAIG--YADGYPLTLSGL----DSEHSP--SVFLGGKGFIKGY 305
+ LI A + S L ++ ++F GG+G Y
Sbjct: 114 TTLVKTKELIKNYITARIMAKRPFDKKSN---SALFRAVGEGNAQLVAIF-GGQGNTDDY 169
Query: 306 MVPILGKITMD--MTMFDITDSLSIEVGDYIQIFGPDIKLDDVALASGTTNYDLLVRIGT 363
+ ++ L VGD I+ L + L T + +
Sbjct: 170 ---------FEELRDLYQTYHVL---VGDLIKFSAE--TLSE--LIRTTLDAE------- 206
Query: 364 RYAKFYT 370
K +T
Sbjct: 207 ---KVFT 210
Score = 34.1 bits (78), Expect = 0.048
Identities = 43/208 (20%), Positives = 82/208 (39%), Gaps = 57/208 (27%)
Query: 16 LKNNWHSM---NALSGNARTAAVVKD-----NAYGLGCEK--------IAPALYNAGVQD 59
++ N+ +M + G +T + K+ +Y EK PAL
Sbjct: 1684 IRENYSAMIFETIVDGKLKTEKIFKEINEHSTSYTFRSEKGLLSATQFTQPAL------- 1736
Query: 60 FFVTSVE----EGVKLRLYTPQARIFVLYGIHPGQEKIIFDTNLIPVISSVPQLTFYSKL 115
T +E E +K + P F + + G+ + + I S+ ++ FY +
Sbjct: 1737 ---TLMEKAAFEDLKSKGLIPADATFAGHSL--GEYAALASLADVMSIESLVEVVFY-RG 1790
Query: 116 MSCGVSHP--------YAL-QVDTGFNRLGLSL-QEALDFTHNSFNKKLGQLSLIIS--- 162
M+ V+ P Y + ++ G R+ S QEAL + K+ G L I++
Sbjct: 1791 MTMQVAVPRDELGRSNYGMIAINPG--RVAASFSQEALQYVVERVGKRTGWLVEIVNYNV 1848
Query: 163 ----HLACAD----DPSSHV-NSVQLER 181
++A D D ++V N ++L++
Sbjct: 1849 ENQQYVAAGDLRALDTVTNVLNFIKLQK 1876
>3cpg_A Uncharacterized protein; unknown protein, TIM barrel, monomer,
structural genomics, PSI-2, protein structure
initiative; 1.71A {Bifidobacterium adolescentis
ATCC15703}
Length = 282
Score = 52.0 bits (124), Expect = 2e-07
Identities = 37/257 (14%), Positives = 68/257 (26%), Gaps = 53/257 (20%)
Query: 11 IDLTALKNNWHSMNALSGNARTAAVVKDNAYGL-------GCEKIAPALYNAGVQDFFVT 63
+ + H + A A + + L +I A +AGV+
Sbjct: 20 ARAREITDGVHRVLDRIAAAEEQAGREAGSVRLLAATKTRDIGEIM-AAIDAGVRMIGEN 78
Query: 64 SVEE-------------------GVKLRLYTPQARIFVLYGIHPGQE----KIIFDTNLI 100
+E GV A + I Q K++ + I
Sbjct: 79 RPQEVTAKAEGLARRCAERGFSLGVAGAAPDAAAEHIPFHLIGQLQSNKIGKVLPVVDTI 138
Query: 101 PVISSVPQLTFYSKLMSC-GVSHPYALQVDTGFNR--LGLSLQEALDFTHNSFNKKLGQL 157
+ S+ S+ G++ L+V+ G A+ +L
Sbjct: 139 ESVDSIDLAEKISRRAVARGITVGVLLEVNESGEESKSGCDPAHAIRIAQKIGTLDGIEL 198
Query: 158 SLIISHLACADDPSSHVNSVQLERFRTLI-----SHYKGIEASLASSSG--------ILL 204
+++ A D + R S G + S G I
Sbjct: 199 QGLMTIGAHVHDETV--IRRGFSHLRKTRDLILASGEPGTDRCRELSMGMTGDMELAIAE 256
Query: 205 GPNYHFQLTRPGISLYG 221
G + R G +++G
Sbjct: 257 GST----IVRVGTAIFG 269
>1ct5_A Protein (yeast hypothetical protein, selenoMet); TIM barrel,
pyridoxal-5'-phosphate, selenomethionine, MAD,
structural genomics, PSI; HET: PLP; 2.00A {Saccharomyces
cerevisiae} SCOP: c.1.6.2 PDB: 1b54_A*
Length = 256
Score = 33.0 bits (75), Expect = 0.13
Identities = 38/221 (17%), Positives = 78/221 (35%), Gaps = 37/221 (16%)
Query: 34 AVVKDNAYGLGCEKIAPALYNAGVQDFFVTSVEEGV-KLRLYTPQARIFVLYGIHPGQEK 92
V K I LY+ GV++F V+E + K +L + + G+ + K
Sbjct: 45 VVSK----LKPASDIQ-ILYDHGVREFGENYVQELIEKAKLLPDDIKWHFIGGLQTNKCK 99
Query: 93 IIFDTNLIPVISSVPQLTFYSKLMSCGVSH-------PYALQVDTG--FNRLGLSLQEAL 143
+ + + ++ L KL +Q++T + GL+ + +
Sbjct: 100 DLAKVPNLYSVETIDSLKKAKKLNESRAKFQPDCNPILCNVQINTSHEDQKSGLNNEAEI 159
Query: 144 DFTHNSF-NKKLGQLSL--IISHLACADDPSSHVNSVQLERFRTLISHYKGIEASLASS- 199
+ F +++ + L +++ + +S + F TL+ K I+A +S
Sbjct: 160 FEVIDFFLSEECKYIKLNGLMTIGSWNVSHE---DSKENRDFATLVEWKKKIDAKFGTSL 216
Query: 200 ------SG-----ILLGPNYHFQLTRPGISLYGGTDKINKS 229
S I G R G ++G N++
Sbjct: 217 KLSMGMSADFREAIRQGTA----EVRIGTDIFGARPPKNEA 253
>2pff_A Fatty acid synthase subunit alpha, 3-oxoacyl-[acyl-carrier-; fatty
acid synthase, acyl-carrier-protein, beta-ketoacyl
reductase, beta-ketoacyl synthase, dehydratase; 4.00A
{Saccharomyces cerevisiae}
Length = 1688
Score = 29.4 bits (65), Expect = 1.2
Identities = 41/154 (26%), Positives = 61/154 (39%), Gaps = 39/154 (25%)
Query: 10 KIDLTALKNNWHSMN---------ALSGNAR-TAAVVKDNAYGLGCEKIAPALYNAGVQD 59
K+ L L N WHS + A+ G R T + +N G EK+ GV+
Sbjct: 644 KLSLETLFNRWHSESWANQLTVCGAIIGWTRGTGLMSANNIIAEGIEKM-------GVRT 696
Query: 60 FFVTSVEEGVKLR-LYTPQARIFVLYGIHPGQEKIIFDTNLIPVISSVPQLT-FYSKLMS 117
F + E L L TP+ + L P ++ D N + VP+L F +KL
Sbjct: 697 F--SQKEMAFNLLGLLTPE--VVELCQKSP----VMADLN--GGLQFVPELKEFTAKLRK 746
Query: 118 CGVSHPYALQVDTGFNRLGLSLQEALDFTHNSFN 151
V+T R +S++ AL+ H N
Sbjct: 747 --------ELVETSEVRKAVSIETALE--HKVVN 770
>1qoy_A Hemolysin E; toxin, membrane pore former, cytolysin, pores; 2.0A
{Escherichia coli} SCOP: h.4.4.1 PDB: 2wcd_A
Length = 318
Score = 28.9 bits (64), Expect = 1.9
Identities = 20/79 (25%), Positives = 37/79 (46%), Gaps = 9/79 (11%)
Query: 128 VDTGFNRLGLSLQEALDFTHNSFNKKLGQLSLIISHLACADDPSSHVNSVQLERFRTLIS 187
+D G +L + Q++L + SFN G+L + S L S Q+++ R
Sbjct: 135 LDDGITKLNEA-QKSLLVSSQSFNNASGKLLALDSQLTNDFSEKSSYFQSQVDKIRK--- 190
Query: 188 HYKGIEASLASSSGILLGP 206
EA +++G+++GP
Sbjct: 191 -----EAYAGAAAGVVVGP 204
>3jqq_A Ferredoxin NADP reductase; FAD, oxidoreductase; HET: FAD A2P; 2.20A
{Plasmodium falciparum} PDB: 2ok8_A* 2ok7_A* 3jqr_A*
3jqp_A*
Length = 316
Score = 27.9 bits (61), Expect = 3.7
Identities = 4/41 (9%), Positives = 12/41 (29%)
Query: 320 FDITDSLSIEVGDYIQIFGPDIKLDDVALASGTTNYDLLVR 360
+ G I +LD+ +++++
Sbjct: 40 INHNGLFKYLEGHTCGIIPYYNELDNNPNNQINKDHNIINT 80
>1jji_A Carboxylesterase; alpha-beta hydrolase fold; HET: EPE; 2.20A
{Archaeoglobus fulgidus} SCOP: c.69.1.2
Length = 311
Score = 27.6 bits (60), Expect = 4.7
Identities = 8/44 (18%), Positives = 18/44 (40%)
Query: 46 EKIAPALYNAGVQDFFVTSVEEGVKLRLYTPQARIFVLYGIHPG 89
+++ V+D + +++R+Y + VL H G
Sbjct: 45 RQLSQHERVERVEDRTIKGRNGDIRVRVYQQKPDSPVLVYYHGG 88
>2uvk_A YJHT; unknown function, hypothetical protein, sialic acid
metabolism, E. coli, kelch repeat, beta-propeller,
unknown function.; HET: MSE; 1.5A {Escherichia coli}
Length = 357
Score = 26.8 bits (58), Expect = 7.5
Identities = 12/46 (26%), Positives = 18/46 (39%), Gaps = 5/46 (10%)
Query: 2 HSNEFLRLKIDLTALKNNWHSMNALSGNAR---TAAVVKDNAYGLG 44
+ +L D A W ++ A G R T+A + N Y G
Sbjct: 29 AGTAWYKL--DTQAKDKKWTALAAFPGGPRDQATSAFIDGNLYVFG 72
>3ell_A Hasap (heme acquisition protein hasap); alpha beta protein,
heme-binding protein, heme binding protein; HET: HEM;
1.70A {Pseudomonas aeruginosa}
Length = 184
Score = 26.7 bits (59), Expect = 7.7
Identities = 15/87 (17%), Positives = 25/87 (28%), Gaps = 20/87 (22%)
Query: 93 IIFDTNLIPVISSVPQLTFYSKLMSCGVSHPYALQVDTGFNRLGLSLQEALDFTHNSFNK 152
I +L + S P T + KL S ++L + L +S
Sbjct: 67 FIAGGDLHYTLFSNPSHTLWGKLDS-------------------IALGDTLTGGASSGGY 107
Query: 153 KLGQLSLIISHLACADDP-SSHVNSVQ 178
L + S+L +V
Sbjct: 108 ALDSQEVSFSNLGLDSPIAQGRDGTVH 134
>1lln_A Antiviral protein 3; ribosome inactivating protein,
polynucleotide:adenosine, hydrolase; HET: MLY; 1.60A
{Phytolacca americana} SCOP: d.165.1.1
Length = 262
Score = 26.8 bits (59), Expect = 9.0
Identities = 7/67 (10%), Positives = 20/67 (29%), Gaps = 8/67 (11%)
Query: 1 MHSNEFLRLKIDLTALKNNWHSMNALSGNARTAAVVKDNAYGLGCEKIAPALYNAGVQDF 60
+ +L+ NW S+ + + K G + L + + +
Sbjct: 187 FDDANGYQPDPXAISLEKNWDSV--------SXVIAKVGTSGDSTVTLPGDLXDENNKPW 238
Query: 61 FVTSVEE 67
++ +
Sbjct: 239 TTATMND 245
Database: pdb70
Posted date: Jan 26, 2011 11:21 AM
Number of letters in database: 5,693,230
Number of sequences in database: 24,244
Lambda K H
0.320 0.137 0.397
Gapped
Lambda K H
0.267 0.0526 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Sequences: 24244
Number of Hits to DB: 3,101,269
Number of extensions: 142320
Number of successful extensions: 429
Number of sequences better than 10.0: 1
Number of HSP's gapped: 367
Number of HSP's successfully gapped: 29
Length of query: 370
Length of database: 5,693,230
Length adjustment: 94
Effective length of query: 276
Effective length of database: 3,414,294
Effective search space: 942345144
Effective search space used: 942345144
Neighboring words threshold: 11
Window for multiple hits: 40
X1: 16 ( 7.4 bits)
X2: 38 (14.6 bits)
X3: 64 (24.7 bits)
S1: 41 (21.8 bits)
S2: 57 (26.2 bits)