RPS-BLAST 2.2.26 [Sep-21-2011]
Database: pdb70
27,921 sequences; 6,701,793 total letters
Searching..................................................done
Query= psy15371
(393 letters)
>2v1n_A KIN17, protein KIN homolog; nuclear protein, winged helix motif;
NMR {Homo sapiens}
Length = 111
Score = 172 bits (438), Expect = 1e-53
Identities = 68/110 (61%), Positives = 85/110 (77%)
Query: 51 QRQLLLFADNADQYLDEFSREFEEGYLELLRRQFSTRRVFANKVYQDYIADREHVHMNAT 110
QRQLLL ++N Q++D FS EF +LELLRR+F T+RV N VY +YI+ REH+HMNAT
Sbjct: 2 QRQLLLASENPQQFMDYFSEEFRNDFLELLRRRFGTKRVHNNIVYNEYISHREHIHMNAT 61
Query: 111 QWETLTEFVKHLGKSGKCVVDETEKGWFVTYIDRDPETIAFQQKMAKKEK 160
QWETLT+F K LG+ G C VDET KGW++ YIDRDPETI Q ++ KK+K
Sbjct: 62 QWETLTDFTKWLGREGLCKVDETPKGWYIQYIDRDPETIRRQLELEKKKK 111
>2ckk_A KIN17; beta barrel, ribosomal protein, ribonucleoprotein, nuclear
protein; 1.45A {Homo sapiens}
Length = 127
Score = 133 bits (335), Expect = 3e-38
Identities = 53/123 (43%), Positives = 80/123 (65%)
Query: 271 QERQNSGEESWLHKNIIVKIVTKNLGEKFYKKKGTVEKVIDKYAAIVSLLDSKHKIKLDQ 330
++++ + + WL IIVKI+TK LGEK++KKK V++VIDKY A+V ++DS K+KLDQ
Sbjct: 4 EKKRTARTDYWLQPEIIVKIITKKLGEKYHKKKAIVKEVIDKYTAVVKMIDSGDKLKLDQ 63
Query: 331 EHLETVIPNLGRQVLILCGKYKGEKAVLKDINIDDCNANVELIDPHYDNKVVRNIDYSHI 390
HLETVIP G+++L+L G Y+G + L+ IN +A + + + V I Y I
Sbjct: 64 THLETVIPAPGKRILVLNGGYRGNEGTLESINEKTFSATIVIETGPLKGRRVEGIQYEDI 123
Query: 391 CKI 393
K+
Sbjct: 124 SKL 126
>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 = 56.4 bits (135), Expect = 9e-09
Identities = 70/478 (14%), Positives = 136/478 (28%), Gaps = 139/478 (29%)
Query: 3 KHEVGTPKYIANKMKAKGLQKLR-----WYCQM--CQKQ------CRDE-----NGFK-- 42
K+ V + K++ + L +LR + K C FK
Sbjct: 128 KYNVSRLQPY-LKLR-QALLELRPAKNVLIDGVLGSGKTWVALDVCLSYKVQCKMDFKIF 185
Query: 43 ------CHTSSE--AHQRQLLLFAD-NADQYLDEFSR---EFEEGYLELLRRQFSTRRVF 90
C++ ++LL D N D S EL RR+
Sbjct: 186 WLNLKNCNSPETVLEMLQKLLYQIDPNWTSRSDHSSNIKLRIHSIQAEL-------RRLL 238
Query: 91 ANKVYQ------DYIADREHVHMNA----------TQWETLTEFVKHLGKSGKCVVDETE 134
+K Y+ + + + NA T+++ +T+F+ + + +
Sbjct: 239 KSKPYENCLLVLLNVQNAKAW--NAFNLSCKILLTTRFKQVTDFLSAATTTHISLDHHSM 296
Query: 135 -------KGWFVTYIDRDPETIAFQQKMAKKE---------KMEQDDNERNMEFLERQIA 178
K + Y+D P+ + + + +D + + +
Sbjct: 297 TLTPDEVKSLLLKYLDCRPQDLPRE---VLTTNPRRLSIIAESIRDGLATWDNW--KHVN 351
Query: 179 LGKEKAAQNA--QQQDPVSNELIRNEDEKLSLKLETFKKPSSSSISLKKV-----NLDKD 231
K + +P E K+ +L F P S+ I + ++ K
Sbjct: 352 CDKLTTIIESSLNVLEP-------AEYRKMFDRLSVF--PPSAHIPTILLSLIWFDVIKS 402
Query: 232 VSESGPSSSSKKFSGEKRK---LTALEQIKLEEEEAKKKRIDQERQNSGEESWLHKNIIV 288
+ K EK+ ++ I LE K +++ E LH+
Sbjct: 403 DVMVVVNKLHKYSLVEKQPKESTISIPSIYLEL----KVKLENEYA-------LHR---- 447
Query: 289 KIVTKNLGEKFYKKKGTVEKVIDKYAAIVSLLDSKHKIKLDQEHLETVIP----NLG--- 341
IV K + + +D+Y S + H ++ T+ +
Sbjct: 448 SIVDHYNIPKTFDSDDLIPPYLDQY--FYSHI-GHHLKNIEHPERMTLFRMVFLDFRFLE 504
Query: 342 ---RQVLILCGKYKGEKAVLKDIN-----IDDCNANVELIDPHYDNKVVRNIDYSHIC 391
R L+ + I D DP Y+ V +D+
Sbjct: 505 QKIRHDSTAWNASGSILNTLQQLKFYKPYICD-------NDPKYERLVNAILDFLPKI 555
Score = 47.9 bits (113), Expect = 5e-06
Identities = 52/393 (13%), Positives = 130/393 (33%), Gaps = 94/393 (23%)
Query: 44 HTSSEAHQRQLLLFADNADQYLDEFSREFEEGYLELLRRQFSTRRVFANKVYQDYIADRE 103
H E + Q + D + D F F+ ++ + + + + I ++
Sbjct: 6 HMDFETGEHQYQ-YKDILSVFEDAFVDNFDCKDVQ-----DMPKSILSKEEIDHIIMSKD 59
Query: 104 HVH--------MNATQWETLTEFVKHLGKSGKCVVDETEKGWFVTYI---DRDPE--TIA 150
V + + Q E + +FV+ V + ++ I R P T
Sbjct: 60 AVSGTLRLFWTLLSKQEEMVQKFVEE--------VLRINYKFLMSPIKTEQRQPSMMTRM 111
Query: 151 FQQKMAKKEKMEQDDNE--------RNMEFLERQIAL-----------------GKEKAA 185
+ + +++++ +DN+ R +L+ + AL GK A
Sbjct: 112 YIE---QRDRL-YNDNQVFAKYNVSRLQPYLKLRQALLELRPAKNVLIDGVLGSGKTWVA 167
Query: 186 QNAQQQDPVSNELIRNEDEKLSLKLETFKKPSSSSISLKK--VNLDKDVSESGPSSSSKK 243
+ V + + + L L+ P + L+K +D + + SS+ K
Sbjct: 168 LDVCLSYKV---QCKMDFKIFWLNLKNCNSPETVLEMLQKLLYQIDPNWTSRSDHSSNIK 224
Query: 244 FSGEKRKLTALEQIKLEEEEAKKKRIDQERQNSGEESWLHKN--IIVKIV-TKNLGEKFY 300
+++ +A+ +R+ + + ++N +++ V F
Sbjct: 225 -------------LRIHSIQAELRRLLKSKP--------YENCLLVLLNVQNAKAWNAFN 263
Query: 301 KKKGTVEKVIDKYAAIVSLLDSKHKIKLDQEHLETVIPNLGRQVLILCGKYKGEKAVLKD 360
+ + ++ + L + + +H + +V L KY + +D
Sbjct: 264 LSCKIL--LTTRFKQVTDFLSAATTTHISLDHHSMTLTP--DEVKSLLLKYLDCRP--QD 317
Query: 361 INIDDCNAN---VELIDPHYDNKVVRNIDYSHI 390
+ + N + +I + + ++ H+
Sbjct: 318 LPREVLTTNPRRLSIIAESIRDGLATWDNWKHV 350
Score = 45.2 bits (106), Expect = 3e-05
Identities = 58/367 (15%), Positives = 114/367 (31%), Gaps = 85/367 (23%)
Query: 46 SSEAHQRQLLLF---ADNADQYLDEFSREFEEGYLELLRRQFSTRRVFANKVYQDYIADR 102
S +A L LF ++ + +F E + L T + + + + YI R
Sbjct: 57 SKDAVSGTLRLFWTLLSKQEEMVQKFVEEVLRINYKFLMSPIKTEQRQPSMMTRMYIEQR 116
Query: 103 EHVH--------MNATQWETLTEFVKHLG--KSGKCVVDE----TEKGWFVTYIDRDPET 148
+ ++ N ++ + + + L + K V+ + + K W + +
Sbjct: 117 DRLYNDNQVFAKYNVSRLQPYLKLRQALLELRPAKNVLIDGVLGSGKTWVALDVCLSYK- 175
Query: 149 IAFQQKMAKK---EKMEQDDNERNMEFLERQIALGKEKAAQNAQQQDPVSNELIRNEDEK 205
Q KM K ++ ++ LE L + + D SN +R +
Sbjct: 176 --VQCKMDFKIFWLNLKNCNSPE--TVLEMLQKLLYQIDPNWTSRSDHSSNIKLRIHSIQ 231
Query: 206 LSLKLETFKKP-----------SSSSISLKKVNL---------DKDVSESGPSSSSKKFS 245
L+ KP ++ NL K V++ ++++ S
Sbjct: 232 AELRRLLKSKPYENCLLVLLNVQNAKA-WNAFNLSCKILLTTRFKQVTDFLSAATTTHIS 290
Query: 246 GEKRKLTALEQIKLEEEEAKK---KRIDQERQNSGEE----SWLHKNIIVKIVTKNLGE- 297
+ +T L +E K K +D Q+ E + +II + + L
Sbjct: 291 LDHHSMT------LTPDEVKSLLLKYLDCRPQDLPREVLTTNPRRLSIIAESIRDGLATW 344
Query: 298 KFYKKKGTVEKVIDKYAAIVSLLDSKHKIKLDQEHLETVIPNLGRQVLILCGKYKGEKAV 357
+K DK I+ LE P R++ +V
Sbjct: 345 DNWKHVN-----CDKL---------TTIIESSLNVLE---PAEYRKMFDRL-------SV 380
Query: 358 L-KDINI 363
+I
Sbjct: 381 FPPSAHI 387
Score = 36.8 bits (84), Expect = 0.014
Identities = 27/223 (12%), Positives = 57/223 (25%), Gaps = 89/223 (39%)
Query: 8 TPKYIANKMKAKGLQKLRWYCQM--------CQKQCRDENGFKCHTSSEAHQRQLL---- 55
+ NK+ L + + + + + + EN + H R ++
Sbjct: 403 DVMVVVNKLHKYSLVE-KQPKESTISIPSIYLELKVKLENEYALH-------RSIVDHYN 454
Query: 56 ---------LFADNADQY-------------LDEFSREFEEGYLEL------LRRQFSTR 87
L DQY E F +L+ +R +
Sbjct: 455 IPKTFDSDDLIPPYLDQYFYSHIGHHLKNIEHPERMTLFRMVFLDFRFLEQKIRHDSTAW 514
Query: 88 RVFAN--------KVYQDYIADREHVHMNATQWE----TLTEFVKHLGKSGKCVVDETEK 135
+ K Y+ YI D N ++E + +F+ +
Sbjct: 515 NASGSILNTLQQLKFYKPYICD------NDPKYERLVNAILDFLPKIE------------ 556
Query: 136 GWFVTYIDRDPETIAFQQKMAKKEKMEQDDNERNMEFLERQIA 178
+ T + + ++E E +Q+
Sbjct: 557 ----ENLICSKYTDLLRIAL-------MAEDEAIFEEAHKQVQ 588
>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 = 43.1 bits (101), Expect = 2e-04
Identities = 41/272 (15%), Positives = 81/272 (29%), Gaps = 108/272 (39%)
Query: 45 TSSEAHQRQLLLFADNADQYLDE---FS---------------------REFEEGYLELL 80
TS A + + + AD + + FS + E Y ++
Sbjct: 1638 TSKAA--QDVW---NRADNHFKDTYGFSILDIVINNPVNLTIHFGGEKGKRIRENYSAMI 1692
Query: 81 RRQFSTRRVFANKVYQD-------YIADREHVHMNATQ-------------WETLT---- 116
++ K++++ Y E ++ATQ +E L
Sbjct: 1693 FETIVDGKLKTEKIFKEINEHSTSYTFRSEKGLLSATQFTQPALTLMEKAAFEDLKSKGL 1752
Query: 117 -------------EF------------------VKHLGKSGKCVVDETEKGWFVTY--ID 143
E+ V + G + + V E G Y I
Sbjct: 1753 IPADATFAGHSLGEYAALASLADVMSIESLVEVVFYRGMTMQVAVPRDELG-RSNYGMIA 1811
Query: 144 RDPETIAFQQKMAKKEKMEQDDNERNMEFLE--------RQIALGKEKAAQNAQQQDPVS 195
+P +A + + + +R +E +Q + A D V+
Sbjct: 1812 INPGRVAASFSQEALQYVVERVGKRTGWLVEIVNYNVENQQYVAAGDLRA-----LDTVT 1866
Query: 196 NELIRNEDEKLSL-KLETFKKPSSSSISLKKV 226
N L + +K+ + +L+ S+SL++V
Sbjct: 1867 NVLNFIKLQKIDIIELQK-------SLSLEEV 1891
Score = 40.8 bits (95), Expect = 8e-04
Identities = 41/216 (18%), Positives = 71/216 (32%), Gaps = 55/216 (25%)
Query: 199 IRNEDEKLSLKLETFKKPSSSSISLKKVNLDKDVSESGPSSSSKKFSGEKRKL--TALEQ 256
IR + F+ + +K+ K+++E S+S F EK L T Q
Sbjct: 1684 IRENYSAM-----IFETIVDGKLKTEKI--FKEINEH---STSYTFRSEKGLLSATQFTQ 1733
Query: 257 --IKLEE----EEAKKKRIDQERQN----S-GEESWL--HKNII-----VKIVTKNLGEK 298
+ L E E+ K K + S GE + L +++ V++V G
Sbjct: 1734 PALTLMEKAAFEDLKSKGLIPADATFAGHSLGEYAALASLADVMSIESLVEVVFYR-GMT 1792
Query: 299 FYKKKGTVEKVIDKYAAIVSLLDSKHKIKLDQEHLETVIP---------------NL-GR 342
E Y ++++ + QE L+ V+ N+ +
Sbjct: 1793 MQVAVPRDELGRSNY-GMIAINPGRVAASFSQEALQYVVERVGKRTGWLVEIVNYNVENQ 1851
Query: 343 QVLILCGKYKG-EKA--VLKDI---NIDDCNANVEL 372
Q + G + + VL I ID L
Sbjct: 1852 QY-VAAGDLRALDTVTNVLNFIKLQKIDIIELQKSL 1886
Score = 40.8 bits (95), Expect = 8e-04
Identities = 50/295 (16%), Positives = 82/295 (27%), Gaps = 87/295 (29%)
Query: 42 KCHTSS---EAHQRQLLLFAD-----NADQYLDEFSREFEEGYLELLRR----------Q 83
K S+ + L A N D Y +E R+ + Y L+ +
Sbjct: 139 KKSNSALFRAVGEGNAQLVAIFGGQGNTDDYFEEL-RDLYQTYHVLVGDLIKFSAETLSE 197
Query: 84 FSTRRVFANKVYQDYIADREHVHMNATQW----ET------------------LTEFV-- 119
+ A KV+ + N +W + +
Sbjct: 198 LIRTTLDAEKVFTQGL--------NILEWLENPSNTPDKDYLLSIPISCPLIGVIQLAHY 249
Query: 120 ----KHLGKSGKCVVDETEKGWFVTYIDRD---PETIAFQQKMAKKEKMEQDDNERNMEF 172
K LG + + KG T + IA + + +
Sbjct: 250 VVTAKLLGFTPGELRSYL-KG--ATGHSQGLVTAVAIA----ETDSWESFFVSVRKAITV 302
Query: 173 L-----ERQIALGKEKAAQNAQQQDPVSNE-------LIRN-EDEKLSLKLETFKK--PS 217
L A + + +NE I N E++ + P+
Sbjct: 303 LFFIGVRCYEAYPNTSLPPSILEDSLENNEGVPSPMLSISNLTQEQVQDYVNKTNSHLPA 362
Query: 218 SS--SISLKKVNLDKDVSESGPSSSSKKFSGEKRKLTA---LEQIKLEEEEAKKK 267
ISL VN K++ SGP S + RK A L+Q ++ E K K
Sbjct: 363 GKQVEISL--VNGAKNLVVSGPPQSLYGLNLTLRKAKAPSGLDQSRIPFSERKLK 415
Score = 28.5 bits (63), Expect = 4.7
Identities = 11/37 (29%), Positives = 14/37 (37%), Gaps = 4/37 (10%)
Query: 41 FKCHTSSEAHQRQLLLFADNADQYLDEFSREFEEGYL 77
F + SS + DQ L+ EFE YL
Sbjct: 64 FLGYVSSLVEPSK----VGQFDQVLNLCLTEFENCYL 96
>2e70_A Transcription elongation factor SPT5; KOW motif, structural
genomics, NPPSFA, national project on protein structural
and functional analyses; NMR {Homo sapiens}
Length = 71
Score = 34.1 bits (78), Expect = 0.008
Identities = 16/51 (31%), Positives = 24/51 (47%), Gaps = 6/51 (11%)
Query: 340 LGRQVLILCGKYKGEKAVLKDINIDDCNANVELIDPHYDNKVVRNIDYSHI 390
+G+ V I G YKG V+KD + A VEL H + + +D +
Sbjct: 20 IGQTVRISQGPYKGYIGVVKDAT--ESTARVEL---HSTCQTIS-VDRQRL 64
>3hbr_A OXA-48; class D beta-lactamase, antibiotic, dimer, hydrolase; HET:
KCX; 1.90A {Klebsiella pneumoniae}
Length = 265
Score = 33.8 bits (77), Expect = 0.070
Identities = 8/29 (27%), Positives = 14/29 (48%)
Query: 123 GKSGKCVVDETEKGWFVTYIDRDPETIAF 151
K+G E + GW+V +++ D F
Sbjct: 207 AKTGYSTRIEPKIGWWVGWVELDDNVWFF 235
>1zu1_A DSRBP-ZFA, RNA binding protein ZFA; zinc finger protein,
helix-loop-helix, helix-turn-helix; NMR {Xenopus
laevis} SCOP: g.37.1.4 g.37.1.4
Length = 127
Score = 30.3 bits (67), Expect = 0.50
Identities = 6/29 (20%), Positives = 11/29 (37%)
Query: 26 WYCQMCQKQCRDENGFKCHTSSEAHQRQL 54
C++C E+ H S H ++
Sbjct: 33 TQCKVCSAVLISESQKLAHYQSRKHANKV 61
Score = 26.5 bits (57), Expect = 9.2
Identities = 8/50 (16%), Positives = 15/50 (30%)
Query: 5 EVGTPKYIANKMKAKGLQKLRWYCQMCQKQCRDENGFKCHTSSEAHQRQL 54
V K+ A + + C +C + H + H + L
Sbjct: 73 SVPAKKFKAAPAEISDGEDRSKCCPVCNMTFSSPVVAESHYIGKTHIKNL 122
>2j49_A Transcription initiation factor TFIID subunit 5; nuclear protein,
transcription regulation, TA TFIID, WD repeat; 2.3A
{Saccharomyces cerevisiae} SCOP: d.379.1.1
Length = 148
Score = 30.2 bits (68), Expect = 0.54
Identities = 15/73 (20%), Positives = 32/73 (43%), Gaps = 3/73 (4%)
Query: 61 ADQYLDEFSREFEEGYLELLRRQFSTRR---VFANKVYQDYIADREHVHMNATQWETLTE 117
A ++ D FS +F++ + + R FS + N+V + + + + M+ T L
Sbjct: 55 ARRFFDRFSPDFKDFHGSEINRLFSVNSIDHIKENEVASAFQSHKYRITMSKTTLNLLLY 114
Query: 118 FVKHLGKSGKCVV 130
F+ G ++
Sbjct: 115 FLNENESIGGSLI 127
>2iwb_A Methicillin resistance MECR1 protein; antibiotic resistance,
bacterial antibiotic resistance, methicillin resistance,
beta-lactamic antibiotics, MRSA; 1.8A {Staphylococcus
aureus} PDB: 2iwc_A* 2iwd_A*
Length = 246
Score = 30.7 bits (69), Expect = 0.64
Identities = 12/30 (40%), Positives = 17/30 (56%), Gaps = 1/30 (3%)
Query: 123 GKSGKCVVDETEK-GWFVTYIDRDPETIAF 151
GK+G +V+ E GWFV Y++ T F
Sbjct: 188 GKTGTGIVNHKEANGWFVGYVETKDNTYYF 217
>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 = 1.5
Identities = 8/27 (29%), Positives = 16/27 (59%), Gaps = 4/27 (14%)
Query: 200 RNEDEKL--SLKLETFKKPSSSSISLK 224
+ +KL SLKL + S+ ++++K
Sbjct: 19 KQALKKLQASLKL--YADDSAPALAIK 43
Score = 26.8 bits (58), Expect = 8.4
Identities = 6/19 (31%), Positives = 12/19 (63%), Gaps = 1/19 (5%)
Query: 247 EKRKLTALE-QIKLEEEEA 264
EK+ L L+ +KL +++
Sbjct: 18 EKQALKKLQASLKLYADDS 36
>2dfs_A Myosin-5A; myosin-V, inhibited state, cryoelectron tomograp
contractIle protein-transport protein complex; 24.00A
{Gallus gallus}
Length = 1080
Score = 30.1 bits (68), Expect = 1.7
Identities = 19/125 (15%), Positives = 49/125 (39%), Gaps = 3/125 (2%)
Query: 152 QQKMAKKEKMEQDDNERNMEFLERQIALGKEKAAQNAQQQDPVSNELIRNEDEKLSLKLE 211
+ EK+ D M E + A + + Q + + EL + + EK +++
Sbjct: 956 ITYSTETEKLRSDVERLRMSEEEAKNATNRVLSLQEEIAK--LRKELHQTQTEKKTIEEW 1013
Query: 212 TFKKPSSSSISLKKVNLDKDVSESGPSSSSKKFSGEKRKLTALEQIKLEEEEAKKKRIDQ 271
K + + ++ + ++ +++ + +++T + KL EE K+ +D
Sbjct: 1014 ADKYKHETEQLVSELKEQNTLLKTEKEELNRRIHDQAKEITETMEKKLVEET-KQLELDL 1072
Query: 272 ERQNS 276
+
Sbjct: 1073 NDERL 1077
>3mca_A HBS1, elongation factor 1 alpha-like protein; protein protein
complex, translation regulation; 2.74A
{Schizosaccharomyces pombe}
Length = 592
Score = 29.7 bits (67), Expect = 1.8
Identities = 17/142 (11%), Positives = 48/142 (33%), Gaps = 10/142 (7%)
Query: 179 LGKEKAAQNAQQQDPVSNELIRNEDEKLSLKLETFKKPSSSSISLKKVNLDKDVSESGPS 238
L K + A+++ ++ + +++ + SS +K ++L+K+ + +
Sbjct: 74 LQKASSKAGAKEKQNTDSQKEKKQNKSKEALADAKDPLDESSNGIKNLSLNKNDEPAFQT 133
Query: 239 SSSKKFSGEKRKLTALEQIKLEEEEAKKKRIDQERQNSGEESWLHKNIIV-------KIV 291
+ K E+ K++++ E +++V K
Sbjct: 134 NGEVKMKNSSESDNQPEKKKIKKQNPTDLVSVPEIFEQSNPK-PVVHLVVTGHVDSGKST 192
Query: 292 TKNLGEKFYKKKGTVEKVIDKY 313
LG ++ + + K
Sbjct: 193 M--LGRIMFELGEINSRSMQKL 212
>3g4p_A Beta-lactamase OXA-24; B-lactamases, enzyme mechanism, carbapenem,
resistance, HYDR; HET: KCX; 1.97A {Acinetobacter
baumannii} PDB: 2jc7_A* 3fyz_A* 3fzc_A* 3fv7_A* 3mbz_A*
3pae_A* 3pag_A*
Length = 244
Score = 29.5 bits (66), Expect = 1.8
Identities = 7/30 (23%), Positives = 15/30 (50%), Gaps = 1/30 (3%)
Query: 123 GKSGKCVVDETEKGWFVTYIDR-DPETIAF 151
KSG + + GW ++++ + + I F
Sbjct: 186 AKSGWGMGVTPQVGWLTGWVEQANGKKIPF 215
>3lvg_D LCB, clathrin light chain B; SELF assembly, coated PIT, cytoplasmic
vesicle, membrane, Ca structural protein; 7.94A {Bos
taurus}
Length = 190
Score = 29.0 bits (64), Expect = 2.3
Identities = 10/68 (14%), Positives = 28/68 (41%), Gaps = 8/68 (11%)
Query: 36 RDENGFKCHTSSEAHQRQLLLFADNADQYLDEFSREFEEGYLELLRRQFSTRRVFANKVY 95
R+E + A + + + A + L+E+++ E ++ + + + R A+K
Sbjct: 91 REEQRKRLQELDAASKVMEQEWREKAKKDLEEWNQRQSE---QVEKNKINNRI--ADK-- 143
Query: 96 QDYIADRE 103
+ +
Sbjct: 144 -AFYQQPD 150
Score = 27.4 bits (60), Expect = 6.2
Identities = 14/75 (18%), Positives = 27/75 (36%), Gaps = 6/75 (8%)
Query: 132 ETEKGWFVTYIDRDPETIAFQQKMAKKEKMEQDDNERNMEFLERQIALGKEKAAQNAQQQ 191
E+ + W R+ + Q+ A + MEQ+ E+ + LE E+ +N
Sbjct: 85 ESIRKW------REEQRKRLQELDAASKVMEQEWREKAKKDLEEWNQRQSEQVEKNKINN 138
Query: 192 DPVSNELIRNEDEKL 206
+ D +
Sbjct: 139 RIADKAFYQQPDADI 153
Score = 27.4 bits (60), Expect = 7.3
Identities = 9/61 (14%), Positives = 25/61 (40%), Gaps = 9/61 (14%)
Query: 247 EKRKLTALEQI-KLEEEEAKKKRIDQERQNSGEESWL--HKNIIVKIVTKNLG--EKFYK 301
E+++ +++ +L+ ++ +E+ E W + K N + FY+
Sbjct: 92 EEQR----KRLQELDAASKVMEQEWREKAKKDLEEWNQRQSEQVEKNKINNRIADKAFYQ 147
Query: 302 K 302
+
Sbjct: 148 Q 148
>2x02_A Beta-lactamase OXA-10; class D, hydrolase, antibiotic resistance;
HET: KCX PG4; 1.35A {Pseudomonas aeruginosa} PDB:
1k4e_A* 1k6r_A* 1k6s_A* 1k4f_A* 2x01_A* 2wgv_A* 2wgw_A*
2wkh_A* 2wki_A 2rl3_A* 2hpb_A 2hp9_A 2hp6_A 2wgi_A*
2hp5_A 1fof_A 1k55_A* 1e4d_A* 1ewz_A 1k54_A* ...
Length = 248
Score = 29.1 bits (65), Expect = 2.4
Identities = 7/32 (21%), Positives = 14/32 (43%), Gaps = 3/32 (9%)
Query: 123 GKSGKCVV---DETEKGWFVTYIDRDPETIAF 151
K+G V W+V +++++ E F
Sbjct: 186 SKTGFSGVGTESNPGVAWWVGWVEKETEVYFF 217
>2joy_A 50S ribosomal protein L14E; protein solution structure, structural
genomics, PSI-2, protein structure initiative; NMR
{Sulfolobus solfataricus} SCOP: b.34.5.7 PDB: 2kds_A
Length = 96
Score = 27.5 bits (61), Expect = 2.5
Identities = 16/51 (31%), Positives = 24/51 (47%), Gaps = 4/51 (7%)
Query: 341 GRQVLILCGKYKGEKAVLKDINIDDCNANVELIDPHYDNKVVRN-IDYSHI 390
GR + + G+ G K V+ DI IDD V + P V R ++ H+
Sbjct: 7 GRICVKVKGREAGSKCVIVDI-IDD--NFVLVTGPKDITGVKRRRVNILHL 54
>3f59_A Ankyrin-1; beta sandwich, ZU5, spectrin binding, alternative P
usage, ANK repeat, cytoskeleton, disease mutation; 2.00A
{Homo sapiens} PDB: 3kbt_C 3kbu_C
Length = 161
Score = 28.5 bits (63), Expect = 2.6
Identities = 8/45 (17%), Positives = 16/45 (35%)
Query: 255 EQIKLEEEEAKKKRIDQERQNSGEESWLHKNIIVKIVTKNLGEKF 299
E E + ++ + G L K + +I+T + F
Sbjct: 112 EHRSRYGESYLDQILNGMDEELGSLEELEKKRVCRIITTDFPLYF 156
>2kw5_A SLR1183 protein; structural genomics, northeast structural genomics
consortium (NESG), PSI-2, protein structure initiative,
unknown function; NMR {Synechocystis} PDB: 3mer_A
Length = 202
Score = 28.7 bits (64), Expect = 2.6
Identities = 7/38 (18%), Positives = 21/38 (55%)
Query: 134 EKGWFVTYIDRDPETIAFQQKMAKKEKMEQDDNERNME 171
G+ VT +D+ +A +++A+++ ++ + N+
Sbjct: 49 SLGYEVTAVDQSSVGLAKAKQLAQEKGVKITTVQSNLA 86
>3m70_A Tellurite resistance protein TEHB homolog; structural genomics,
PSI-2, protein ST initiative; 1.95A {Haemophilus
influenzae}
Length = 286
Score = 28.8 bits (64), Expect = 2.9
Identities = 9/27 (33%), Positives = 14/27 (51%)
Query: 134 EKGWFVTYIDRDPETIAFQQKMAKKEK 160
G+ VT D + +IAF + +KE
Sbjct: 140 LLGYDVTSWDHNENSIAFLNETKEKEN 166
>1xkz_A Regulatory protein BLAR1; beta-lactam receptor, signal
transduction, signaling protein; HET: CAZ EPE; 1.75A
{Staphylococcus aureus} SCOP: e.3.1.1 PDB: 1xa1_A*
1xa7_A* 3q7z_A* 3q7v_A* 3q81_A* 3q82_A* 3uy6_A
Length = 255
Score = 28.7 bits (64), Expect = 2.9
Identities = 10/30 (33%), Positives = 16/30 (53%), Gaps = 1/30 (3%)
Query: 123 GKSGKCVVDETEK-GWFVTYIDRDPETIAF 151
GK+G +V+ GWFV Y+ + + F
Sbjct: 195 GKTGTGIVNGKYNNGWFVGYVITNHDKYYF 224
>2xvm_A Tellurite resistance protein TEHB; antibiotic resistance,
transferase; HET: SAH; 1.48A {Escherichia coli} PDB:
2xva_A* 4dq0_A* 2i6g_A*
Length = 199
Score = 28.6 bits (64), Expect = 3.0
Identities = 6/30 (20%), Positives = 15/30 (50%)
Query: 134 EKGWFVTYIDRDPETIAFQQKMAKKEKMEQ 163
G+ V D++ +IA +++ E ++
Sbjct: 52 ANGYDVDAWDKNAMSIANVERIKSIENLDN 81
>1nrf_A Regulatory protein BLAR1; penicillin-receptor, beta-lactamase
induction, penicillin-binding protein, membrane protein;
2.50A {Bacillus licheniformis} SCOP: e.3.1.1
Length = 262
Score = 28.7 bits (64), Expect = 3.2
Identities = 11/30 (36%), Positives = 17/30 (56%), Gaps = 1/30 (3%)
Query: 123 GKSGKCVVD-ETEKGWFVTYIDRDPETIAF 151
GK+G V++ E GWF+ Y++ T F
Sbjct: 199 GKTGTSVINGELHAGWFIGYVETADNTFFF 228
>1zr9_A Zinc finger protein 593; DNA binding, structural genomics, PSI,
protein structure initiative, center for eukaryotic
structural genomics, CESG; NMR {Homo sapiens} SCOP:
g.37.1.4
Length = 124
Score = 27.7 bits (61), Expect = 3.6
Identities = 8/30 (26%), Positives = 13/30 (43%)
Query: 25 RWYCQMCQKQCRDENGFKCHTSSEAHQRQL 54
C C + D K H S+ H+++L
Sbjct: 50 LHRCLACARYFIDSTNLKTHFRSKDHKKRL 79
>1r9d_A Glycerol dehydratase; radical SAM, lyase; 1.80A {Clostridium
butyricum} SCOP: c.7.1.1 PDB: 1r8w_A 1r9e_A
Length = 787
Score = 28.0 bits (62), Expect = 7.2
Identities = 9/55 (16%), Positives = 17/55 (30%), Gaps = 3/55 (5%)
Query: 36 RDENGFKCHTSSEAHQRQLLLFAD---NADQYLDEFSREFEEGYLELLRRQFSTR 87
+ + + LL A N +D +RE Y + + + R
Sbjct: 577 ELKKTLNNDFKNSEEIQALLKNAPKFGNDIDEVDNLAREGALVYCREVNKYTNPR 631
>2xkj_E Topoisomerase IV; type IIA topoisomerase; 2.20A {Acinetobacter
baumannii} PDB: 2xkk_A*
Length = 767
Score = 27.7 bits (62), Expect = 8.0
Identities = 5/24 (20%), Positives = 12/24 (50%), Gaps = 1/24 (4%)
Query: 249 RKLTALEQIKLEEEEAK-KKRIDQ 271
R L LE++++ E+ + +
Sbjct: 691 RHLAKLEEMEIRHEQDELSAKAAI 714
>1zvu_A Topoisomerase IV subunit A; beta-pinwheel, ATPase, supercoiling,
decatenation, DNA bindi topology; 3.00A {Escherichia
coli}
Length = 716
Score = 27.5 bits (62), Expect = 8.1
Identities = 9/24 (37%), Positives = 16/24 (66%), Gaps = 1/24 (4%)
Query: 249 RKLTALEQIKLEEEEAK-KKRIDQ 271
R L LE++K+ E+++ +K DQ
Sbjct: 397 RHLAKLEEMKIRGEQSELEKERDQ 420
>3izq_1 HBS1P, elongation factor 1 alpha-like protein; NO-GO mRNA decay,
ribosomal protein,hydrolase; 9.50A {Saccharomyces
cerevisiae}
Length = 611
Score = 27.4 bits (61), Expect = 9.8
Identities = 6/108 (5%), Positives = 28/108 (25%), Gaps = 14/108 (12%)
Query: 181 KEKAAQNAQQQDPVSNELIRNEDEKLSLKLETFKKPSSSSISLKKVNLDKDVSESGPSSS 240
K+K + + + +S+ + + ++ +++ E+ +
Sbjct: 79 KKKKTPKKPIAAANGSANVTQKLANISISQQRPNDRLPDWLDEEESEGERNGEEANDEKT 138
Query: 241 SKKFSGEKRKLTALEQIKLEEEEAKKKRIDQERQNSGEESWLHKNIIV 288
+++ + + H + +V
Sbjct: 139 VQRYYKTTVPTKPKKPHDISAFVKSALP--------------HLSFVV 172
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
0.314 0.131 0.371
Gapped
Lambda K H
0.267 0.0439 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Sequences: 27921
Number of Hits to DB: 5,843,707
Number of extensions: 347464
Number of successful extensions: 798
Number of sequences better than 10.0: 1
Number of HSP's gapped: 777
Number of HSP's successfully gapped: 64
Length of query: 393
Length of database: 6,701,793
Length adjustment: 96
Effective length of query: 297
Effective length of database: 4,021,377
Effective search space: 1194348969
Effective search space used: 1194348969
Neighboring words threshold: 11
Window for multiple hits: 40
X1: 16 ( 7.2 bits)
X2: 38 (14.6 bits)
X3: 64 (24.7 bits)
S1: 42 (22.0 bits)
S2: 58 (26.9 bits)