RPS-BLAST 2.2.26 [Sep-21-2011]
Database: pdb70
27,921 sequences; 6,701,793 total letters
Searching..................................................done
Query= psy3156
(557 letters)
>2jg0_A Periplasmic trehalase; family 37, hydrolase, inhibitor, glycoside
hydrolase, glycosidase, 1-thiatrehazolin; HET: TTZ;
1.50A {Escherichia coli} SCOP: a.102.1.9 PDB: 2jf4_A*
2jjb_A* 2wyn_A*
Length = 535
Score = 388 bits (998), Expect = e-130
Identities = 158/523 (30%), Positives = 243/523 (46%), Gaps = 52/523 (9%)
Query: 10 NVFPNDSKSFVDLKLKQPEDVILAKFRALLTNNADPDTTTLTNFVNEYFEAGNELQVWSP 69
+FP D K+F D +ILA +R + L +FVN F E + + P
Sbjct: 25 KLFP-DQKTFADAVPNSDPLMILADYRMQ----QNQSGFDLRHFVNVNFTLPKEGEKYVP 79
Query: 70 PDFTSNPSIENKISDAKYRQFALDLNQIWKELGRIVKQDVRDNPQLYSLIYTPNGFFIPG 129
P+ + ++ +W L R + + + SL+ P + +PG
Sbjct: 80 PE---------------GQSLREHIDGLWPVLTRSTE----NTEKWDSLLPLPEPYVVPG 120
Query: 130 GRFRELYYWDTYWIVQGILLCDMKDSARGVIENIISLVDQFGFMPNGARVYYLERSQPPL 189
GRFRE+YYWD+Y+ + G+ D ++ N +D +G +PNG R YYL RSQPP
Sbjct: 121 GRFREVYYWDSYFTMLGLAESGHWDKVADMVANFAHEIDTYGHIPNGNRSYYLSRSQPPF 180
Query: 190 LIPMAASYAKYTGDTNFIRTHLKSLTNEFEYWMKRHMVT--------VEKNGKYYTMARY 241
M A++ GD ++ +L + E+ YWM V K + RY
Sbjct: 181 FALMVELLAQHEGDA-ALKQYLPQMQKEYAYWMDGVENLQAGQQEKRVVKLQDGTLLNRY 239
Query: 242 YAPSRGPRPESYREDYHEAADLQTEDEKNFLYSELKAGAETGWDFSSRWFIARDGSNRGG 301
+ PRPES+ ED A +Y +L++ A +GWDFSSRW N
Sbjct: 240 WDDRDTPRPESWVEDIATAKSN-PNRPATEIYRDLRSAAASGWDFSSRWM-----DNPQQ 293
Query: 302 LKYIRTTSIIPVDLNAILQMNANYLSEWWLKFGNKDLSAKYKKIAYQLLEAIHEVLWNEQ 361
L +RTTSI+PVDLN+++ L+ G+ ++ +Y+ +A + I + LWN+Q
Sbjct: 294 LNTLRTTSIVPVDLNSLMFKMEKILARASKAAGDNAMANQYETLANARQKGIEKYLWNDQ 353
Query: 362 VGVWLDYDIKNKKPRNYFYVSNITPLWTLSYKFSKQYVAERVLQYLRDNEIITKDNQVKF 421
G + DYD+K+ K RN + + PL+ + + A ++ + + ++
Sbjct: 354 QGWYADYDLKSHKVRNQLTAAALFPLYVNAA---AKDRANKMATATK-------THLLQP 403
Query: 422 YGTPTSLFNSTQQWDYPNAWAPLQAFIIQGLDYTQDKLAKQVAYRLAEKWLFTNYMGYET 481
G T+ S QQWD PN WAPLQ + Q+ K+VA ++ +L Y+
Sbjct: 404 GGLNTTSVKSGQQWDAPNGWAPLQWVATE---GLQNYGQKEVAMDISWHFLTNVQHTYDR 460
Query: 482 SKAMFEKYDVELIGKTGNGGEYEAQTGFGWTNGFAFELLNRYG 524
K + EKYDV G G GGEY Q GFGWTNG ++L+
Sbjct: 461 EKKLVEKYDVSTTGTGGGGGEYPLQDGFGWTNGVTLKMLDLIC 503
>3c68_A Uncharacterized protein YGJK; GH63, processing alpha-glucosidase,
alpha/alpha barrel, hydrolase; HET: BMA; 1.50A
{Escherichia coli} PDB: 3c67_A* 2ds3_A* 3c69_A* 3d3i_A
Length = 761
Score = 188 bits (477), Expect = 1e-51
Identities = 72/563 (12%), Positives = 158/563 (28%), Gaps = 95/563 (16%)
Query: 38 LLTNNADPDTTTLTNFVNEYFEAGNELQVWSPPDFTSNPSIENKISDAKYRQFALDLNQI 97
N + TT ++ + + ++Q+ + ++ +Y + L
Sbjct: 217 AHINGSTTLYTTYSHLLTAQEVSKEQMQIRDILARPAFYLTASQQRWEEYLKKGLTNPDA 276
Query: 98 WKELGRIVKQDVRDNPQLY--SLIYTPNGFFIPGGRFR-----ELYYWDTYWIVQGILLC 150
E R+ + + + P R + + WDT+ +
Sbjct: 277 TPEQTRVAVKAIETLNGNWRSPGGAVKFNTVTPSVTGRWFSGNQTWPWDTWKQAFAMAHF 336
Query: 151 DMKDSARGVIE---------NIISLVDQFGFMPN------------GARVYYLERSQPPL 189
+ D A+ I GF+P+ + ++P L
Sbjct: 337 NP-DIAKENIRAVFSWQIQPGDSVRPQDVGFVPDLIAWNLSPERGGDGGNWNERNTKPSL 395
Query: 190 LIPMAASYAKYTGDTNFIRTHLKSLTNEFEYWMK------------RHMVTVEKNGKYYT 237
T D ++ L ++W++ N +
Sbjct: 396 AAWSVMEVYNVTQDKTWVAEMYPKLVAYHDWWLRNRDHNGNGVPEYGATRDKAHNTESGE 455
Query: 238 MARYYAPSRGPRPESYREDYHEAADLQTEDEKNFLYSELKAGAETGWDFSSRWFIARDGS 297
M +S +Y + D +++ A E+G D ++ +
Sbjct: 456 MLFTVKKGDKEETQSGLNNYARVVEKGQYDSLEI-PAQVAASWESGRDDAAVFGFIDKEQ 514
Query: 298 NRGGLKYIRT----------------------TSIIPVDLNAILQMNANYLSEWWLKFGN 335
+ VD + + + +YL+E G
Sbjct: 515 LDKYVANGGKRSDWTVKFAENRSQDGTLLGYSLLQESVDQASYMYSDNHYLAEMATILGK 574
Query: 336 KDLSAKYKKIAYQLLEAIHEVLWNEQVGVWLDYDIKNKKPRNYFY-------VSNITPLW 388
+ + +Y+++A QL + I+ +++ + D I++K N
Sbjct: 575 PEEAKRYRQLAQQLADYINTCMFDPTTQFYYDVRIEDKPLANGCAGKPIVERGKGPEGWS 634
Query: 389 TLSYKFSKQYVAERVLQYLRDNEIITKDNQVKFYGTPT-----SLFNSTQQWDYPNAWAP 443
L + Q A+ V++ + D + T F + W W
Sbjct: 635 PLFNGAATQANADAVVKVMLDPKEFNTF-----VPLGTAALTNPAFGADIYWRGR-VWVD 688
Query: 444 LQAFIIQGLD-YTQDKLAKQVAYRLAEKWLFTNYMGYETSKAMFEKYDVELIGKTGNGGE 502
F ++G++ Y A ++A F + G + E Y+ G
Sbjct: 689 QFWFGLKGMERYGYRDDALKLADT-----FFRHAKGLTADGPIQENYNPL-------TGA 736
Query: 503 YEAQTGFGWTNGFAFELLNRYGK 525
+ F W+ + L N + +
Sbjct: 737 QQGAPNFSWSAAHLYMLYNDFFR 759
>2z07_A Putative uncharacterized protein TTHA0978; uncharacterized
conserved protein, structural genomics, NPPSFA; 2.10A
{Thermus thermophilus}
Length = 420
Score = 151 bits (382), Expect = 1e-40
Identities = 63/430 (14%), Positives = 114/430 (26%), Gaps = 62/430 (14%)
Query: 124 GFFIPG-GRFRELYYWDTYWIVQGILLCDMKDSAR-------------GVIENIISLVDQ 169
F +P G + + WD+ +I G D + + + G++ +I+
Sbjct: 19 AFTVPAHGLYPYQWLWDSAFIALGWTQVDWERAWQELLCLFDYGQGPDGMLPHIVFHEQS 78
Query: 170 FGFMP--------NGARVYYLERSQPPLLIPMAASYAKYTGDTN----FIRTHLKSLTNE 217
+ P A+ +QPP++ + + D + R L
Sbjct: 79 RDYFPGPDVWGREARAQPATSGITQPPVVATVVRYLYEKDPDRDRARERARYLFPKLLAF 138
Query: 218 FEYWMKRHMVTVEKNGKYYTMARYYAP-SRGPRPESYREDYHEAADLQTEDEKNFLYSEL 276
+ S R + D K+ E
Sbjct: 139 HRWLYHARDPYRTGLVVIVHPWESGMDNSPAWDKPLSRVPVENLPPYERRDVKHVNPEER 198
Query: 277 KAGAETGWDFSSRWFIARDGSNRGGLKYIRTTSIIPVDLNAILQMNANYLSEWWLKFGNK 336
+ S + R + + ++ V NAILQ L +
Sbjct: 199 PRKEDYDRYLSLLYLFRRLEYDPREIYRQSPFKVVDVGFNAILQRANRDLYALAVLLQED 258
Query: 337 DLSAKYKKIAYQLLEAIHEVLWNEQVGVWLDYDIKNKKPRNYFYVSNITPLWTLSYKFSK 396
+ E E LW+ + G + +D+ +P + PL+
Sbjct: 259 PYEIEEWI---VRGEVGLEALWDREAGFYFSWDLVAGEPIAVKTSAGFLPLFA---GTPH 312
Query: 397 QYVAERVLQYLRDNEIITKDNQVKFYGTPT-----SLFNSTQQWDYPNAWAPLQAFIIQG 451
Q A + Q + Y P+ F + W P W + + +G
Sbjct: 313 QGRASLLAQEAERWGEKAR------YLLPSVDPTSPFFEPGRYWRGPV-WINVNWMVAEG 365
Query: 452 L-DYTQDKLAKQVAYRLAEKWLFTNYMGYETSKAMFEKYDVELIGKTGNGGEYEAQTGFG 510
DY LA ++ + E YD G+ GF
Sbjct: 366 FRDYGFAALAARLKADALALM---------EREGFREYYDPL-------TGQGRGGEGFS 409
Query: 511 WTNGFAFELL 520
W+ A
Sbjct: 410 WSAALALFWT 419
>2pff_B Fatty acid synthase subunit beta; fatty acid synthase,
acyl-carrier-protein, beta-ketoacyl RED beta-ketoacyl
synthase, dehydratase; 4.00A {Saccharomyces cerevisiae}
Length = 2006
Score = 48.5 bits (115), Expect = 5e-06
Identities = 64/457 (14%), Positives = 131/457 (28%), Gaps = 175/457 (38%)
Query: 158 GVIENIIS-----------LVDQF-GFMPNGARVYYLE---RSQPPLLIPMAASYAKYTG 202
G +E+++ L +QF +P + + + L+ K+ G
Sbjct: 14 GSLEHVLLVPTASFFIASQLQEQFNKILPEPTEGFAADDEPTTPAELV-------GKFLG 66
Query: 203 DTNFIRTH------------LKSLTNEFE--YWMKR---HMVTVE-------KNGKYYTM 238
++ + L EFE Y ++ H + + K +
Sbjct: 67 ---YVSSLVEPSKVGQFDQVLNLCLTEFENCY-LEGNDIHALAAKLLQENDTTLVKTKEL 122
Query: 239 AR-YY-APSRGPRPESYREDYHEAADLQTEDEKNFLYSELKAGAETGWDFSSRWFIARDG 296
+ Y A RP + + S L F + +G
Sbjct: 123 IKNYITARIMAKRPFDKKSN-----------------SAL---------FRA----VGEG 152
Query: 297 SNR-----GGLKYIRTTSIIPVDLNAILQMNAN-YLSEWWLKFGNKDLSAKYKKIAYQLL 350
+ + GG Q N + Y E L +DL Y + L+
Sbjct: 153 NAQLVAIFGG------------------QGNTDDYFEE--L----RDLYQTYHVLVGDLI 188
Query: 351 EAIHEVLWNE---------------QVGVWLDYDIKNKKP-RNYF---YVSNITPLWTLS 391
+ E L + WL+ + P ++Y +S PL +
Sbjct: 189 KFSAETLSELIRTTLDAEKVFTQGLNILEWLEN--PSNTPDKDYLLSIPIS--CPLIGV- 243
Query: 392 YKFSKQYVAERVLQYLRDNEIITKDNQVKFYGTPTSLFNSTQQWDYPNAWAPLQAFIIQG 451
+ + V ++L + TP L + + ++ + A I
Sbjct: 244 IQLAHYVVTAKLLGF-----------------TPGELRSYL-KGATGHSQGLVTAVAIAE 285
Query: 452 LDYTQDKLAKQVAYRLAEKWLFTNYMGYETSKAMFEKYDVE--LIGKTGNGGEYEAQTGF 509
D + + V R A LF ++G +A + + ++ + E
Sbjct: 286 TD-SWESFFVSV--RKAITVLF--FIGVRCYEA-YPNTSLPPSILEDSLENNE------- 332
Query: 510 GWTNGFAFELLNRYGKTISFNNTQELIEQENASGESD 546
G +L+ ++ Q+ + + N+ +
Sbjct: 333 ----GVPSPMLSISN--LTQEQVQDYVNKTNSHLPAG 363
Score = 40.4 bits (94), Expect = 0.002
Identities = 29/164 (17%), Positives = 46/164 (28%), Gaps = 73/164 (44%)
Query: 399 VAERVLQYLRDNEIITKDNQVKFYGTPTSLFNSTQQWDYPNAWAPLQAFIIQGLDYTQDK 458
E++ + + NE T F L ++TQ +TQ
Sbjct: 1702 KTEKIFKEI--NEHSTS---YTFRS-EKGLLSATQ--------------------FTQ-- 1733
Query: 459 LAKQVAYRLAEKWLFTNYMGYETSKAMFEKYDVELIGKTGN--------G---GEYEAQT 507
A L KA FE + G G GEY A
Sbjct: 1734 ----PA-------LTL------MEKAAFE-----DLKSKGLIPADATFAGHSLGEYAALA 1771
Query: 508 GFGWTNGFAFE----LLNRYGKTISFNNTQELIEQENASGESDY 547
+ + E ++ G T+ Q + ++ G S+Y
Sbjct: 1772 SLA--DVMSIESLVEVVFYRGMTM-----QVAVPRD-ELGRSNY 1807
Score = 30.4 bits (68), Expect = 2.3
Identities = 54/310 (17%), Positives = 89/310 (28%), Gaps = 125/310 (40%)
Query: 287 SSRWFIARDGSNRGGLKYIRTTSIIPVDLNAILQMNANYLSEWWLKFGNKDLSAKYKKIA 346
S+R GS + ++P A+ L E +F NK L + A
Sbjct: 5 STRPLTLSHGS-------LEHVLLVP----TASFFIASQLQE---QF-NKILPEPTEGFA 49
Query: 347 YQLLEAIHEVLWNEQVGVWLDYDIKNKKPRNYFYVSNITPLWTLSYK-FSKQYVAERVLQ 405
E E VG +L Y +P V + L F E
Sbjct: 50 ADD-EPTTPA---ELVGKFLGYVSSLVEPSK---VGQFDQVLNLCLTEF------EN--C 94
Query: 406 YLRDNEI---------------ITKDNQVKFY-------------GTPTSLFNSTQQWDY 437
YL N+I + +K Y + ++LF + + +
Sbjct: 95 YLEGNDIHALAAKLLQENDTTLVKTKELIKNYITARIMAKRPFDKKSNSALFRAVGEGN- 153
Query: 438 PNAWAPLQAFII---QG--LDYTQDKLAKQVAYRLAEKWLFTNYMGYETSKAMFEKYDVE 492
A L I QG DY ++ L + L Y+T + +
Sbjct: 154 ----AQL--VAIFGGQGNTDDYFEE---------LRD--L------YQTYHVLVG----D 186
Query: 493 LIGKTGNGGEYEAQTGFGWTNGFAFELLNR-----------YGKTISFNNTQELIEQENA 541
LI F+ E L+ + + ++ E +E +
Sbjct: 187 LI-------------------KFSAETLSELIRTTLDAEKVFTQGLNI---LEWLENPSN 224
Query: 542 SGESDYLLES 551
+ + DYLL
Sbjct: 225 TPDKDYLLSI 234
>1vt4_I APAF-1 related killer DARK; drosophila apoptosome, apoptosis,
programmed cell death; HET: DTP; 6.90A {Drosophila
melanogaster} PDB: 3iz8_A*
Length = 1221
Score = 47.9 bits (113), Expect = 9e-06
Identities = 72/478 (15%), Positives = 134/478 (28%), Gaps = 184/478 (38%)
Query: 4 KCKVIGNVFPNDSKSFVDLKLKQPEDVILAKFRALLTNNADPDTTTLTNFVNEYFEAGNE 63
+CK+ +F +++LK + +L + LL DP+ T+ ++ + +
Sbjct: 177 QCKMDFKIF------WLNLKNCNSPETVLEMLQKLLYQ-IDPNWTSRSDHSSNIKLRIHS 229
Query: 64 LQ---------------------VWSPP-----DF-------TSNPSIENKISDAKYRQF 90
+Q V + + T + + +S A
Sbjct: 230 IQAELRRLLKSKPYENCLLVLLNVQNAKAWNAFNLSCKILLTTRFKQVTDFLSAATTTHI 289
Query: 91 ALD------------------LNQIWKELGRIVKQDVRDNPQLYSLIYTPNGFFIPGGRF 132
+LD L+ ++L R + + NP+ S+I
Sbjct: 290 SLDHHSMTLTPDEVKSLLLKYLDCRPQDLPR---EVLTTNPRRLSII---------AESI 337
Query: 133 RE-LYYWDTYWIVQGILLCDMKDSARGVIENIISLVDQFGFMPNGARVYYLERS--QPPL 189
R+ L WD + V CD + +IE+ +++++ P R + S P
Sbjct: 338 RDGLATWDNWKHVN----CDKLTT---IIESSLNVLE-----PAEYRKMFDRLSVFPPSA 385
Query: 190 LIPMAASYAKYTGDTNFIRTHLKSLTNEFEYWMKRHMVT-------VEKNGKYYTMARYY 242
IP L + + +V VEK K T
Sbjct: 386 HIPTIL---------------LSLIWFDVIKSDVMVVVNKLHKYSLVEKQPKEST---IS 427
Query: 243 APSRGPRPESYREDYHEAADLQTEDEKNFL--YSELKAGAETGWDFSSRWFIARDGSNRG 300
PS Y + + + ++ + Y+ K D + D
Sbjct: 428 IPSI------YL-ELKVKLENEYALHRSIVDHYNIPKT--FDSDDLIPPYL---DQ---- 471
Query: 301 GLKYIRTTSIIPVDLNAILQMNANYLSEWWLKFGNKDLSAKYKKIAYQLLEAIHEVLWNE 360
Y Y I + L H
Sbjct: 472 ---YF------------------------------------YSHIGHHLKNIEHPERMTL 492
Query: 361 QVGVWLDYD-IKNKKPRNYFYVSNITPLW--------TLS-YKFSKQYVAERVLQYLR 408
V+LD+ ++ K + + + W TL KF K Y+ + +Y R
Sbjct: 493 FRMVFLDFRFLEQK-------IRHDSTAWNASGSILNTLQQLKFYKPYICDNDPKYER 543
Score = 41.8 bits (97), Expect = 6e-04
Identities = 70/526 (13%), Positives = 139/526 (26%), Gaps = 174/526 (33%)
Query: 1 MNQKCKVIGNVFPNDSKSFV-DLKLKQPEDVILAKFRALLTNN------ADPDTTTLTNF 53
+ K I +VF + FV + K +D+ +++L+ D + T
Sbjct: 14 HQYQYKDILSVFEDA---FVDNFDCKDVQDMP----KSILSKEEIDHIIMSKDAVSGTLR 66
Query: 54 VNEYFEAGNELQVWS------PPDF---TSNPSIENKISDAKYRQFALDLNQIWKELGRI 104
+ + E V ++ S E + R + ++++ +
Sbjct: 67 LFWTLLSKQEEMVQKFVEEVLRINYKFLMSPIKTEQRQPSMMTRMYIEQRDRLYNDNQVF 126
Query: 105 VKQDV-RDNP------QLYSLIYTPNGFFIPGGRFRELYYWDTYWIVQGILLCDMKDSAR 157
K +V R P L L P + +L+ + S +
Sbjct: 127 AKYNVSRLQPYLKLRQALLEL--RPA---------------------KNVLIDGVLGSGK 163
Query: 158 GVIENIISLVDQFGF---MPNGARVYYL---ERSQPPLLIPMAASYAKYTGDTNFIRTHL 211
+ + + + M +++L + P ++ M L
Sbjct: 164 TWV--ALDVCLSYKVQCKMDFK--IFWLNLKNCNSPETVLEM-----------------L 202
Query: 212 KSLTNEFEYWMKRHMVTVEKNGKYYTMARYYAPSRGPRPESYREDYHEAAD-----LQTE 266
+ L Y + + SR + + H L+++
Sbjct: 203 QKL--------------------LYQIDPNWT-SRSDHSSNIKLRIHSIQAELRRLLKSK 241
Query: 267 DEKNFL--------YSELKAGAETGWDFSSR-WFIARDGSNRGGLKYIRTTSIIPVDLNA 317
+N L A ++ S + R L TT I +
Sbjct: 242 PYENCLLVLLNVQNAKAWNA-----FNLSCKILLTTRFKQVTDFLSAATTTHISLDHHSM 296
Query: 318 ILQM--NANYLSEWWLKFGNKDLSAKYKKIAYQLLEAIHEVL------WNEQVGVWLDYD 369
L + L ++ L +DL + + L I E + W+ W +
Sbjct: 297 TLTPDEVKSLLLKY-LDCRPQDLPREVLTTNPRRLSIIAESIRDGLATWDN----WKHVN 351
Query: 370 IKNKKPRNYFYVSNITPLWTLSYKFSKQYVAERVLQYLRDNEIITKDNQVKFYGTPTSLF 429
K + + E L L E + + S+F
Sbjct: 352 CD---------------------KLTT--IIESSLNVLEPAEY--RKMFDRL-----SVF 381
Query: 430 NSTQQWDYPNAWAPLQAFII--QGLDY--TQDKLAKQVAYRLAEKW 471
P+A P + + + K Y L EK
Sbjct: 382 P-------PSAHIPTILLSLIWFDVIKSDVMVVVNKLHKYSLVEKQ 420
Score = 30.6 bits (68), Expect = 1.6
Identities = 19/156 (12%), Positives = 44/156 (28%), Gaps = 32/156 (20%)
Query: 366 LDYDIKNKKPRNYFYVSNITPLWTLSYKFSKQYVAERVLQYLRDNEIITKDNQVKFYGTP 425
+D++ + Y Y +I + F + + V + I++K+ +
Sbjct: 7 MDFETGEHQ---YQY-KDILSV--FEDAFVDNFDCKDVQDMPK--SILSKEEIDHIIMSK 58
Query: 426 TSLFNSTQQWDYPNAWAPLQAFIIQGLDYTQDKLAKQVAYRLAEKWLFTNYMGYETSKAM 485
++ + K +++ + E+ L NY K +
Sbjct: 59 DAV---------------SGTLRL--FWTLLSK-QEEMVQKFVEEVLRINY------KFL 94
Query: 486 FEKYDVELIGKTGNGGEYEAQTGFGWTNGFAFELLN 521
E + Y Q + + F N
Sbjct: 95 MSPIKTEQRQPSMMTRMYIEQRDRLYNDNQVFAKYN 130
>3cih_A Putative alpha-rhamnosidase; structural genomics, protein structure
initiative II, NYSGXRC, (alpha/alpha)6 barrel domain;
2.33A {Bacteroides thetaiotaomicron vpi-5482}
Length = 739
Score = 38.9 bits (90), Expect = 0.004
Identities = 14/96 (14%), Positives = 38/96 (39%), Gaps = 3/96 (3%)
Query: 316 NAILQMNANYLSEWWLKFGNKDLSAKYKKIAYQLLEAIHEVLWNEQVGVWLDYDIKNKKP 375
+ + ++ G+KD KY+K+A L + WN Q ++ + ++
Sbjct: 457 QVLFCRSLETMALCADLVGDKDGQQKYEKLASALKAKLEPTFWNNQKQAFVHNCVDGRQS 516
Query: 376 RNYFYVSNITPLWTLSYKFSKQYVAERVLQYLRDNE 411
+N+ +++ + + + + Q + N+
Sbjct: 517 DAVTRYANM---FSVFFDYLNADKQQAIKQSVLLND 549
>3k8t_A Ribonucleoside-diphosphate reductase large chain; eukaryotic
ribonucleotide reductase, nucleotide analogs, all enzyme
ATP-binding; HET: DGT 2A5; 2.10A {Saccharomyces
cerevisiae} PDB: 1zyz_A 2cvs_A 2cvt_A* 2cvu_A* 2cvv_A*
1zzd_A* 2cvw_A* 2cvy_A* 2eud_A* 2zlf_A 2zlg_A* 2cvx_A*
3paw_A 3s87_A* 3s8b_A* 3s8c_A* 3s8a_A* 3tb9_A* 3tba_A*
Length = 888
Score = 33.0 bits (75), Expect = 0.34
Identities = 38/145 (26%), Positives = 52/145 (35%), Gaps = 14/145 (9%)
Query: 159 VIENIISLVDQFGFMPNGARVYYLERSQPPLLIPMAASYAKYTGDTNFIRTHLKSLTNEF 218
V N VDQ G GA YLE I K G L
Sbjct: 278 VFNNTARYVDQGGNKRPGAFALYLEPWHAD--IFDFIDIRKNHGKEEIRARDLFPALWIP 335
Query: 219 EYWMKRHMVTVEKNGKYYTMARYYAPSR----GPRPESYREDYHEAADLQTEDEKNFLYS 274
+ +MKR VE+NG + + AP G E+ Y + +T + YS
Sbjct: 336 DLFMKR----VEENGTWTLFSPTSAPGLSDCYGDEFEALYTRYEKEGRGKTIKAQKLWYS 391
Query: 275 ELKAGAETGWDFSSRWFIARDGSNR 299
L+A ETG + + + +D NR
Sbjct: 392 ILEAQTETG----TPFVVYKDACNR 412
>2okx_A Rhamnosidase B; alpha barrel, glycoside hydrolase family 78, I
hydrolase; 1.90A {Bacillus SP}
Length = 956
Score = 32.9 bits (74), Expect = 0.36
Identities = 12/65 (18%), Positives = 24/65 (36%)
Query: 315 LNAILQMNANYLSEWWLKFGNKDLSAKYKKIAYQLLEAIHEVLWNEQVGVWLDYDIKNKK 374
N L G + + + A L E I+ VLW+E+ ++D + +
Sbjct: 698 QNLFLVKALRDSRALAAAAGATEEADAFAARADLLAETINAVLWDEEKRAYIDCIHADGR 757
Query: 375 PRNYF 379
+ +
Sbjct: 758 RSDVY 762
>1sfx_A Conserved hypothetical protein AF2008; structural genomics, HTH MOT
protein structure initiative, midwest center for
structural genomics; 1.55A {Archaeoglobus fulgidus}
SCOP: a.4.5.50
Length = 109
Score = 30.3 bits (68), Expect = 0.44
Identities = 22/123 (17%), Positives = 42/123 (34%), Gaps = 19/123 (15%)
Query: 159 VIENIISLVDQFGFMPNGARVYYLERSQPPLLIPMAASYAKYTG-DTNFIRTHLKSLTNE 217
+ ++ +++ F P+ R+Y L + + + A+ F+R LK L
Sbjct: 5 PLGELVKALEKLSFKPSDVRIYSLLLERGGM---RVSEIARELDLSARFVRDRLKVL--- 58
Query: 218 FEYWMKRHMVTVEKNGKYYTMARYYAPSRGPRPESYREDYHEAADLQTEDEKNFLYSELK 277
+KR V E K + Y A PE +++ E +
Sbjct: 59 ----LKRGFVRREIVEKGWVGYIYSAEK----PEKVLKEFKS----SILGEIERIEKMFT 106
Query: 278 AGA 280
G+
Sbjct: 107 DGS 109
>3d3z_A Actibind; RNAse, hydrolase; HET: NAG D3Z; 1.70A {Aspergillus niger}
Length = 247
Score = 31.4 bits (70), Expect = 0.67
Identities = 10/29 (34%), Positives = 14/29 (48%)
Query: 424 TPTSLFNSTQQWDYPNAWAPLQAFIIQGL 452
+P TQ WDY + P ++ I GL
Sbjct: 25 SPGGSLLQTQFWDYDPSDGPSDSWTIHGL 53
>3g4n_A Aerolysin; toxin, cytolytic toxin, pore-forming toxin, membrane,
secret; 2.10A {Aeromonas hydrophila} PDB: 3g4o_A 1pre_A
1z52_A 3c0n_A 3c0m_A 3c0o_A*
Length = 470
Score = 30.9 bits (69), Expect = 1.1
Identities = 16/62 (25%), Positives = 21/62 (33%)
Query: 453 DYTQDKLAKQVAYRLAEKWLFTNYMGYETSKAMFEKYDVELIGKTGNGGEYEAQTGFGWT 512
D Q + Y A W TN G K+ L+G+T E A +
Sbjct: 209 DTPQSGYDVTLRYDTATNWSKTNTYGLSEKVTTKNKFKWPLVGETELSIEIAANQSWASQ 268
Query: 513 NG 514
NG
Sbjct: 269 NG 270
>2ws9_3 P1; 3.00A {Equine rhinitis a virus} PDB: 2wff_3 2xbo_3*
Length = 226
Score = 30.4 bits (68), Expect = 1.4
Identities = 20/120 (16%), Positives = 37/120 (30%), Gaps = 7/120 (5%)
Query: 158 GVIENIISLVDQFGFMPNGARVYYLERSQPPLLIPMAASYAKYTGDTNFIRTHLKSLTNE 217
G N I + Q + + Y E + P+ T++ SL++
Sbjct: 38 GRFTNFIDVAKQTYSFCSISGKPYFEVTNTSGDEPLFQ-MDVSLSAAELHGTYVASLSSF 96
Query: 218 FEYWMKRHMVTVEKNGKYYTMARY---YAPSRGPRPESYRED---YHEAADLQTEDEKNF 271
F + G T A++ + P P++ E H D+ +F
Sbjct: 97 FAQYRGSLNFNFIFTGAAATKAKFLVAFVPPHSAAPKTRDEAMACIHAVWDVGLNSAFSF 156
>2vbf_A Branched-chain alpha-ketoacid decarboxylase; KDCA, flavoprotein,
THDP-dependent enzymes, thiamine pyrophosphate, lyase;
HET: TPP; 1.60A {Lactococcus lactis} PDB: 2vbg_A*
Length = 570
Score = 30.2 bits (69), Expect = 2.0
Identities = 17/105 (16%), Positives = 36/105 (34%), Gaps = 26/105 (24%)
Query: 348 QLLEAIHEVLWNEQVGVWLDYDIKNKKPRNYFYVSNITPLWTLSYKFSKQYVAERVLQYL 407
++ ++ E+ E G ++D + P + ++ + + V
Sbjct: 345 AVVSSLSELKGIEYEGQYIDKQYEEFIPSSA----PLSQ----------DRLWQAVESLT 390
Query: 408 RDNEIITKDNQVKFYGTPTSLFNSTQQWDYPNAWAPLQAFIIQGL 452
+ NE I + TS F ++ + N+ FI Q L
Sbjct: 391 QSNETIVAE-------QGTSFFGASTIFLKSNS-----RFIGQPL 423
>1qzv_F Plant photosystem I: subunit PSAF; photosynthesis,plant
photosynthetic reaction center, peripheral antenna; HET:
CL1 PQN; 4.44A {Pisum sativum} SCOP: i.5.1.1
Length = 154
Score = 29.1 bits (64), Expect = 2.3
Identities = 6/21 (28%), Positives = 7/21 (33%), Gaps = 2/21 (9%)
Query: 230 EKNG--KYYTMARYYAPSRGP 248
EK K + YA P
Sbjct: 18 EKQALKKLQASLKLYADDSAP 38
Score = 28.4 bits (62), Expect = 4.5
Identities = 3/21 (14%), Positives = 9/21 (42%), Gaps = 3/21 (14%)
Query: 62 NELQVWSP---PDFTSNPSIE 79
L++++ P ++E
Sbjct: 27 ASLKLYADDSAPALAIKATME 47
>2xc7_A Phosphorylated adapter RNA export protein; RNA binding protein,
protein-RNA complex, nuclear export; NMR {Homo sapiens}
Length = 104
Score = 28.0 bits (62), Expect = 2.7
Identities = 18/93 (19%), Positives = 39/93 (41%), Gaps = 9/93 (9%)
Query: 453 DYTQDKLAKQVAYRLAEK-----WLFTNYMGYETSKAMFEKYDVELIGKTGNGGEYEAQT 507
+ +Q+K+A ++++RL E +G + + + + + + NGG +
Sbjct: 5 EDSQEKVADEISFRLQEPKKDLIARVVRIIGNKKAIELLM--ETAEVEQ--NGGLFIMNG 60
Query: 508 GFGWTNGFAFELLNRYGKTISFNNTQELIEQEN 540
T G F L + +IS +++ EN
Sbjct: 61 SRRRTPGGVFLNLLKNTPSISEEQIKDIFYIEN 93
>3gs9_A Protein GP18; NP_465809.1, structural genomics center for
structural genomics, JCSG, protein structure INI PSI-2;
HET: MLY MSE; 1.70A {Listeria monocytogenes egd-e}
Length = 342
Score = 29.7 bits (66), Expect = 2.8
Identities = 29/197 (14%), Positives = 57/197 (28%), Gaps = 39/197 (19%)
Query: 367 DYDIKNKKPRNYFYVSNITPLWTLSYKFSKQYVAERVLQYLRDNEIITKDNQVKFYGTPT 426
D+ N++ F + WT + +S ++ + + + ++ V F G
Sbjct: 10 DFWXNNEEILTDFDXDSFCESWTENEMWSIEFXVAQTPKNAHCYSFLDYESSVYFRG--- 66
Query: 427 SLFNSTQQWDYPNAWAPLQAFIIQGLDYTQDKL-------AKQVAYRLAEKWLFTNYMGY 479
Q F+++ L + A + Y + G
Sbjct: 67 ------------------QEFVVKQLSHDAVGKTLSKDIRAPHIYYTCQDGRQDDAITGS 108
Query: 480 ETSKAMFE--------KYDVELIGKTGNGGEYEAQTGFGWTNGFAF--ELLNRYGKTISF 529
T + + E+I + E Q FG N +LL+ YG +
Sbjct: 109 FTLEQCLTHIFXTDNRGFSWEIIDPSNIL-EXVQQENFGNNNYLTLIDQLLDDYGVVVIP 167
Query: 530 NNTQELIEQENASGESD 546
+N + G
Sbjct: 168 DNRHLVFXPREIYGAKT 184
>2vsm_A NIV-G, hemagglutinin-neuraminidase; developmental protein,
henipavirus, neurogenesis, glycoprotein, paramyxovirus,
envelope protein, cell surface receptor, hendra, virion;
HET: NAG; 1.80A {Nipah virus} PDB: 3d11_A* 3d12_A*
2vwd_A* 2vsk_A 2x9m_A*
Length = 416
Score = 29.7 bits (66), Expect = 2.9
Identities = 8/46 (17%), Positives = 19/46 (41%), Gaps = 1/46 (2%)
Query: 137 YWDTYWIVQGILLCDMKDSARGVIENIISLVDQFGFMPNGARVYYL 182
Y + G+L ++ D + I + DQ + + +++Y
Sbjct: 216 PNSHYILRSGLLKYNLSDGENPKVV-FIEISDQRLSIGSPSKIYDS 260
>2mev_3 Mengo virus coat protein (subunit VP3); cardio picornavirus coat
protein, icosahedral virus; 3.00A {Mengo virus} SCOP:
b.121.4.1 PDB: 1mec_3
Length = 231
Score = 29.2 bits (65), Expect = 3.1
Identities = 22/122 (18%), Positives = 40/122 (32%), Gaps = 8/122 (6%)
Query: 158 GVIENIISLVDQFGFMPN--GARVYYLERSQPPLLIPMAASYAKYTGDTNFIRTHLKSLT 215
G ++ + + F+ N V Y+E S + A Y + T L +L+
Sbjct: 39 GEYKDFLEIAQIPTFIGNKVPNAVPYIEASNTAVKTQPLAVYQVTLSCSCLANTFLAALS 98
Query: 216 NEFEYWMKRHMVTVEKNGKYYTMARY---YAPSRGPRPESYRED---YHEAADLQTEDEK 269
F + + T G ++ Y P +P S + + DL
Sbjct: 99 RNFAQYRGSLVYTFVFTGTAMMKGKFLIAYTPPGAGKPTSRDQAMQATYAIWDLGLNSSY 158
Query: 270 NF 271
+F
Sbjct: 159 SF 160
>1t8s_A AMP nucleosidase; alpha-beta-alpha sandwich, alpha-beta fold,
hydrolase; HET: FMP; 2.60A {Escherichia coli} SCOP:
c.56.2.1 PDB: 1t8r_A* 1t8w_A 1t8y_A 2guw_A
Length = 484
Score = 29.2 bits (65), Expect = 3.7
Identities = 17/76 (22%), Positives = 28/76 (36%), Gaps = 8/76 (10%)
Query: 438 PNAWAPLQAFIIQGLDYTQDKLAKQVAYRL---AEKWLFTNYMGYETSKAMFEKYDVELI 494
P ++PL F + +D++ +L + LFTNY Y F ++ I
Sbjct: 165 PTEFSPLSHFDARRVDFSLARLRHYTGTPVEHFQPFVLFTNYTRYVD---EFVRWGCSQI 221
Query: 495 GKTGNGGEYEAQTGFG 510
Y A + G
Sbjct: 222 --LDPDSPYIALSCAG 235
>2uz1_A Benzaldehyde lyase; thiamine diphosphate, thiamine pyrophosphate,
benzoin, flavoprotein; HET: TPP; 1.65A {Pseudomonas
fluorescens} PDB: 2ag1_A* 2ag0_A* 2uz1_B* 3iae_A*
3iaf_A* 3d7k_A*
Length = 563
Score = 29.0 bits (66), Expect = 4.2
Identities = 8/80 (10%), Positives = 24/80 (30%), Gaps = 16/80 (20%)
Query: 343 KKIAYQLLEAIHEVLWNEQVGVWLDY--DIKNKKPRNYFYVSN----ITPLWTLSYKFSK 396
L +A + G W D+ ++ + S+ + P
Sbjct: 323 GGTIEALAQATAQDAAWPDRGDWCAKVTDLAQERYASIAAKSSSEHALHP---------- 372
Query: 397 QYVAERVLQYLRDNEIITKD 416
+ ++ + +++ + D
Sbjct: 373 FHASQVIAKHVDAGVTVVAD 392
>1pby_A Quinohemoprotein amine dehydrogenase 60 kDa subunit;
oxidoreductase; HET: TRW HEM; 1.70A {Paracoccus
denitrificans} SCOP: a.3.1.7 a.3.1.7 b.1.18.14 b.1.18.14
b.61.4.1 PDB: 1jju_A*
Length = 489
Score = 28.5 bits (63), Expect = 6.7
Identities = 10/71 (14%), Positives = 17/71 (23%), Gaps = 12/71 (16%)
Query: 453 DYTQDKLAKQVAYRLAEKWLFTNYM-------GYETSKAMFEKYDVELIGKTGNG----- 500
Y + A + ++ G K E Y+V + +G
Sbjct: 159 TYPLGEAPDAYADDASGAYVLAGRQPGRGDYTGRLVLKKAGEDYEVTMTLDFADGSRSFS 218
Query: 501 GEYEAQTGFGW 511
G W
Sbjct: 219 GTGRILGAGEW 229
>2wgh_A Ribonucleoside-diphosphate reductase large subunit; DNA
replication, allosteric enzyme, nucleotide-binding,
cytoplasm, ATP-binding, polymorphism; HET: DTP; 2.30A
{Homo sapiens}
Length = 676
Score = 28.6 bits (64), Expect = 7.0
Identities = 35/149 (23%), Positives = 49/149 (32%), Gaps = 21/149 (14%)
Query: 159 VIENIISLVDQFGFMPNGARVYYLERSQPPLLIPMAASYAKYTGDTNFIRTHLKS---LT 215
V N VDQ G GA YLE I K TG L +
Sbjct: 205 VYNNTARYVDQGGNKRPGAFAIYLEPWHLD--IFEFLDLKKNTGKEEQRARDLFFALWIP 262
Query: 216 NEFEYWMKRHMVTVEKNGKYYTMARYYAP----SRGPRPESYREDY-HEAADLQTEDEKN 270
+ F MKR VE N + M P G E Y + + +
Sbjct: 263 DLF---MKR----VETNQDWSLMCPNECPGLDEVWGEEFEKLYASYEKQGRVRKVVKAQQ 315
Query: 271 FLYSELKAGAETGWDFSSRWFIARDGSNR 299
Y+ +++ ETG + + + +D NR
Sbjct: 316 LWYAIIESQTETG----TPYMLYKDSCNR 340
>1v3e_A Hemagglutinin-neuraminidase glycoprotein; PIV3 HN,
native+zanamavir, hexagonal, hydrolase; HET: NAG ZMR;
1.89A {Human parainfluenza virus 3} SCOP: b.68.1.1 PDB:
1v2i_A* 1v3c_A* 1v3d_A* 1v3b_A*
Length = 431
Score = 28.1 bits (62), Expect = 8.1
Identities = 5/46 (10%), Positives = 21/46 (45%), Gaps = 1/46 (2%)
Query: 137 YWDTYWIVQGILLCDMKDSARGVIENIISLVDQFGFMPNGARVYYL 182
++ +V I++ D ++ ++ + ++ + + + R+ L
Sbjct: 230 WFSDRRMVNSIIVVDKGLNSIPKLK-VWTISMRQNYWGSEGRLLLL 274
>1cqx_A Flavohemoprotein; globin fold, six-stranded antiparallel beta
sheet, helix-FLA five-stranded parallel beta sheet,
lipid binding protein; HET: HEM FAD DGG; 1.75A
{Cupriavidus necator} SCOP: a.1.1.2 b.43.4.2 c.25.1.5
PDB: 3ozu_A* 3ozv_B* 3ozw_A*
Length = 403
Score = 27.8 bits (62), Expect = 9.3
Identities = 7/28 (25%), Positives = 11/28 (39%)
Query: 227 VTVEKNGKYYTMARYYAPSRGPRPESYR 254
V ++ R Y+ S P +YR
Sbjct: 193 VAIDVPALGLQQIRQYSLSDMPNGRTYR 220
Database: pdb70
Posted date: Sep 4, 2012 3:40 AM
Number of letters in database: 6,701,793
Number of sequences in database: 27,921
Lambda K H
0.318 0.135 0.416
Gapped
Lambda K H
0.267 0.0614 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Sequences: 27921
Number of Hits to DB: 8,859,551
Number of extensions: 542739
Number of successful extensions: 1311
Number of sequences better than 10.0: 1
Number of HSP's gapped: 1283
Number of HSP's successfully gapped: 41
Length of query: 557
Length of database: 6,701,793
Length adjustment: 98
Effective length of query: 459
Effective length of database: 3,965,535
Effective search space: 1820180565
Effective search space used: 1820180565
Neighboring words threshold: 11
Window for multiple hits: 40
X1: 16 ( 7.3 bits)
X2: 38 (14.6 bits)
X3: 64 (24.7 bits)
S1: 41 (21.7 bits)
S2: 60 (27.1 bits)