RPS-BLAST 2.2.26 [Sep-21-2011]
Database: pdb70
27,921 sequences; 6,701,793 total letters
Searching..................................................done
Query= psy949
(569 letters)
>3tht_A Alkylated DNA repair protein ALKB homolog 8; structural genomics,
PSI-biology, northeast structural genom consortium,
NESG; HET: AKG; 3.01A {Homo sapiens} PDB: 3thp_A*
Length = 345
Score = 78.3 bits (192), Expect = 6e-16
Identities = 34/175 (19%), Positives = 50/175 (28%), Gaps = 26/175 (14%)
Query: 37 WNEENTKIIARVQNLAFPPNVTPIQYVHVLDLEQKGYIKAHKGYIKAHVDSVRFCGNTIA 96
+ I + + + Y I AH+D+ + I
Sbjct: 172 LSGGLPDICESFLEKWLRKGYIKHKPDQMTINQ---YEPGQG--IPAHIDTHSAFEDEIV 226
Query: 97 GLSLLSDSVMKLVDEKTKTQEILVLLKQRSLYVMKDDARYKFTHEVLENER--------- 147
LSL S+ VM V+L +RSL VM ++RY +TH + +
Sbjct: 227 SLSLGSEIVMDFKHPDGIAVP--VMLPRRSLLVMTGESRYLWTHGITCRKFDTVQASESL 284
Query: 148 -------SYFGDLFVPRGRRISVICRN---TPDPSLIDSSSDTSTNNNPYASMFY 192
RG R S R TP D+ N Y
Sbjct: 285 KSGIITSDVGDLTLSKRGLRTSFTFRKVRQTPCNCSYPLVCDSQRKENLYFQGLE 339
>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 = 58.7 bits (141), Expect = 4e-09
Identities = 62/392 (15%), Positives = 117/392 (29%), Gaps = 117/392 (29%)
Query: 27 HGFRETERSKWNEENTKIIARVQNLAFPPNVTPIQYVHVLDLEQKGYIKAHKGYIKAHVD 86
H + E + + I++ ++ AF V V D+ K + K +D
Sbjct: 4 HHHMDFETGEHQYQYKDILSVFED-AF---VDNFDCKDVQDMP-KSILS------KEEID 52
Query: 87 SVRFCGNTIAGLSLL--------SDSVMKLVDEKTKT------QEILVLLKQRSLYVMKD 132
+ + ++G L + V K V+E + I +Q S+
Sbjct: 53 HIIMSKDAVSGTLRLFWTLLSKQEEMVQKFVEEVLRINYKFLMSPIKTEQRQPSM----M 108
Query: 133 DARYKFTHEVLENERSYFGDLFVPRGRRISVICRN-----TPDPSLI------------- 174
Y + L N+ F V R + + R P +++
Sbjct: 109 TRMYIEQRDRLYNDNQVFAKYNVSRLQPYLKL-RQALLELRPAKNVLIDGVLGSGKTWVA 167
Query: 175 -DSSSDTSTNNNPYASMFYIFFQPRLPEPDLIRLDSSDDVLPTSSQCAGVENPLYPYFVP 233
D +F++ +L +S + VL L
Sbjct: 168 LDVCLSYKVQCKMDFKIFWL---------NLKNCNSPETVL----------EML------ 202
Query: 234 KNLQPQPEKQEEASGSNSSSNSFKQNMDFFSNLSNSSSSQLKSPPSRPS---------SN 284
+ L Q + + +SS+ + + ++ LKS P +
Sbjct: 203 QKLLYQIDPNWTSRSDHSSNIKLRIH-----SIQAELRRLLKSKPYENCLLVLLNVQNAK 257
Query: 285 YHKAFSFHGK----SQDTSNSFDFLTSSST-HPT---HTNGFTTSSISSTFPSEPLPSSQ 336
AF+ K ++ DFL++++T H + H+ T P E
Sbjct: 258 AWNAFNLSCKILLTTRFKQV-TDFLSAATTTHISLDHHSMTLT--------PDEVK---- 304
Query: 337 PKVLSTFMNHSQPPPLSPRKLNNTESKQNLPL 368
+L +++ P L PR E P
Sbjct: 305 -SLLLKYLDCR-PQDL-PR-----EVLTTNPR 328
Score = 44.5 bits (104), Expect = 1e-04
Identities = 70/500 (14%), Positives = 137/500 (27%), Gaps = 156/500 (31%)
Query: 110 DEKTKTQEILVLLKQRSLYVMKD-DARY--KFTHEVLENERSYFGDLF-----VPRGRRI 161
+ + + ++IL + + + + D + +L E + V R+
Sbjct: 13 EHQYQYKDILSVFEDA---FVDNFDCKDVQDMPKSILSKEE--IDHIIMSKDAVSGTLRL 67
Query: 162 SVICRNTPDPSLIDSSSDTSTNNNPYASMFYIFF------QPRLPEPDLIRLDSSDDVLP 215
+ + ++ + N Y F + R P D L
Sbjct: 68 FWTLLSKQE-EMVQKFVEEVLRIN------YKFLMSPIKTEQRQPSMMTRMYIEQRDRLY 120
Query: 216 TSSQCAGVENPLYPYFVPKNLQPQPEKQEEASGSNSSSNSFKQNMDFFSNLSNSSSSQLK 275
+Q Y V + QP + +Q + +L
Sbjct: 121 NDNQ------VFAKYNVSR---LQPYLK------------LRQAL-----------LEL- 147
Query: 276 SPPSRPSSNYHKAFSFHG-----KS---QDTSNSFDFLTSSSTHPTHTNGFTTSSISSTF 327
RP+ N G K+ D S+ F +
Sbjct: 148 ----RPAKN----VLIDGVLGSGKTWVALDVCLSYKVQC--------KMDFKIFWL--NL 189
Query: 328 PSEPLPSSQPKVLSTFMNHSQPPPLSPRKLNNTESKQNLPLN-NLPVNAPRLPLVPTVGP 386
+ P + ++L + + P + ++ N+ L + R L
Sbjct: 190 KNCNSPETVLEMLQKLLYQ-----IDPNWTSRSDHSSNIKLRIHSIQAELRRLLKSKPYE 244
Query: 387 PSYLSYPKPPVLNNGFSHPVQVSRPPSYLSYPKPPVLNNGFSHPVQV---SSNSSSSEFN 443
L VL N VQ ++ N F+ ++ + ++F
Sbjct: 245 NCLL------VLLN-----VQNAK-----------AWN-AFNLSCKILLTTRFKQVTDF- 280
Query: 444 SEAKDFFDSILNNNSTTYPSVAQRNGVFASKPSTSTYASRAAFLN---EQLGPAVPSIAP 500
L+ +TT+ S+ + S +L+ + L V + P
Sbjct: 281 ----------LSAATTTHISLDHHSMTLTPDEVKSLLLK---YLDCRPQDLPREVLTTNP 327
Query: 501 KK-SVICTS-RRHKIFW--WKSNKSPCAKFVLHVRSFMRS-SQKYIRAAFLNEQLGPAVP 555
++ S+I S R W WK C K + S + R F ++L
Sbjct: 328 RRLSIIAESIRDGLATWDNWK--HVNCDKLTTIIESSLNVLEPAEYRKMF--DRL----- 378
Query: 556 SIAPKNV-------CRIYWN 568
S+ P + + W
Sbjct: 379 SVFPPSAHIPTILLS-LIWF 397
Score = 39.8 bits (92), Expect = 0.003
Identities = 32/236 (13%), Positives = 63/236 (26%), Gaps = 97/236 (41%)
Query: 1 MSNSVRHQSSYQDKLLYEY-----DH-----------WDDAIHGFRETE--------RS- 35
+ +S+ + + +++ W D I + S
Sbjct: 359 IESSLNVLEPAEYRKMFDRLSVFPPSAHIPTILLSLIWFDVI--KSDVMVVVNKLHKYSL 416
Query: 36 --KWNEENT----------------------KIIARVQNL-AFPPNVTPIQYVHVLDLEQ 70
K +E+T I+ F + Y LD
Sbjct: 417 VEKQPKESTISIPSIYLELKVKLENEYALHRSIVDHYNIPKTFDSDDLIPPY---LD--- 470
Query: 71 KGYIKAHKGYIKAHVDSV----------------RFCGNTIAGLSLLSDSVMKLVDEKTK 114
Y +H G+ H+ ++ RF I S ++ +++
Sbjct: 471 -QYFYSHIGH---HLKNIEHPERMTLFRMVFLDFRFLEQKIRHDSTAWNASGSILN---- 522
Query: 115 TQEILVLLKQRSLYVMKDDARYKFTHEVLENERSYFGDL--FVPRGRRISVICRNT 168
L LK Y+ +D +Y ER + F+P+ + + T
Sbjct: 523 ---TLQQLKFYKPYICDNDPKY---------ER-LVNAILDFLPKIEENLICSKYT 565
Score = 28.3 bits (62), Expect = 8.3
Identities = 33/220 (15%), Positives = 59/220 (26%), Gaps = 87/220 (39%)
Query: 98 LSLLSDSV------MKLV---DEKTKTQEILVLLKQRSLYVMKDDARYKFT-HEV----- 142
LS+ S + L+ K+ ++ L + SL V K + +
Sbjct: 378 LSVFPPSAHIPTILLSLIWFDVIKSDVMVVVNKLHKYSL-VEKQPKESTISIPSIYLELK 436
Query: 143 --LENER-------------------------------SYFG------------------ 151
LENE S+ G
Sbjct: 437 VKLENEYALHRSIVDHYNIPKTFDSDDLIPPYLDQYFYSHIGHHLKNIEHPERMTLFRMV 496
Query: 152 --DL-FVPRGRRISVICRNTPDPSLIDSSSDTS------TNNNPYASMF---YIFFQPRL 199
D F+ + R N S++++ +N+P + F P+
Sbjct: 497 FLDFRFLEQKIRHDSTAWNAS-GSILNTLQQLKFYKPYICDNDPKYERLVNAILDFLPK- 554
Query: 200 PEPDLIRLDSSDDVLPTSSQCAGVENPLYPYFVPKNLQPQ 239
E +LI +D + + A + F + Q Q
Sbjct: 555 IEENLICSKYTDLL-----RIA-LMAEDEAIFEEAHKQVQ 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 = 46.2 bits (109), Expect = 3e-05
Identities = 69/430 (16%), Positives = 123/430 (28%), Gaps = 115/430 (26%)
Query: 174 IDSSSDTSTNNNPYASMFYIFFQPRLPEPDLIRLDSSDDVLPTSSQCAGVENPLYPYF-- 231
++ T + AS F LPEP + D+ PT+ E L F
Sbjct: 16 LEHVLLVPTASFFIASQLQEQFNKILPEPT-EGFAADDE--PTTP----AE--LVGKFLG 66
Query: 232 -VPKNLQPQPEKQEEASGSNSSSNSFKQNMDFFSN-----LSNSSSSQLKSPPSRPSS-- 283
V ++P Q + N F+ + L+ + + +
Sbjct: 67 YVSSLVEPSKVGQFDQV-LNLCLTEFEN--CYLEGNDIHALAAKLLQENDTTLVKTKELI 123
Query: 284 -NYHKAFSFHGKSQDTSNSFDFLTSSSTHPTHT----NGFTTS--------SISSTFPS- 329
NY A + D ++ + G + + T+
Sbjct: 124 KNYITARIMAKRPFDKKSNSALFRAVGEGNAQLVAIFGGQGNTDDYFEELRDLYQTYHVL 183
Query: 330 -EPLPSSQPKVLSTFM-NHSQPPPLSPRKLNNTESKQNLPLNNLPVNAPRLPLVPTVGPP 387
L + LS + + + LN E L N P N P
Sbjct: 184 VGDLIKFSAETLSELIRTTLDAEKVFTQGLNILEW-----LEN-PSNTP---------DK 228
Query: 388 SYLSYPKPPVLNNGFSHP----VQVSRPPSYLSYPKPPVLNNGFSHPVQVSSNSSSSEFN 443
YL P+ S P +Q++ Y+ K +L GF P ++ S + +
Sbjct: 229 DYLLS--IPI-----SCPLIGVIQLA---HYVVTAK--LL--GF-TPGELRSYLKGATGH 273
Query: 444 SEAKDFFDSILNNNSTTYPSVAQRNGVFASKPSTSTY------ASRAAFLNEQLG----P 493
S+ ++ A A S ++ A F +G
Sbjct: 274 SQG------LV---------TAV---AIAETDSWESFFVSVRKAITVLFF---IGVRCYE 312
Query: 494 AVPSIAPKKSVICTSRRHKIFWWKSNKSPCAKFVLHVRSFMRSS-QKYIRAAFLNEQLGP 552
A P+ + S++ S + + P +L + + + Q Y+ N L
Sbjct: 313 AYPNTSLPPSILEDSLEN------NEGVPSP--MLSISNLTQEQVQDYVNK--TNSHLPA 362
Query: 553 AVP-SIAPKN 561
I+ N
Sbjct: 363 GKQVEISLVN 372
Score = 39.3 bits (91), Expect = 0.005
Identities = 57/398 (14%), Positives = 103/398 (25%), Gaps = 154/398 (38%)
Query: 110 DEKTKTQEILVLLKQRSL-YVMK--DDARYKFTHEVLENERSYFGDLFVPRGRRI-SVIC 165
DE T E++ + L YV + ++ +VL + F + ++ G I ++
Sbjct: 52 DEPTTPAELVG----KFLGYVSSLVEPSKVGQFDQVLNLCLTEFENCYL-EGNDIHALAA 106
Query: 166 RNTPDPSLIDSSSDTSTNNNPYASMFY----IFFQP--RLPEPDLIRLDSSDDVLPTSSQ 219
L+ + T + + +P + L R + +
Sbjct: 107 ------KLLQENDTTLVKTKELIKNYITARIMAKRPFDKKSNSALFR-AVGEGNAQLVAI 159
Query: 220 CAG---VENPL---------YPYFVPKNLQPQPEK-QEEASGSNSSSNSFKQNMDFFSNL 266
G ++ Y V ++ E E + + F Q ++ L
Sbjct: 160 FGGQGNTDDYFEELRDLYQTYHVLVGDLIKFSAETLSELIRTTLDAEKVFTQGLNILEWL 219
Query: 267 SNSSSSQLKSPPSRPSSNY--HKAFSF--HGKSQ-------------DTSNSFDFLTSSS 309
N P + P +Y S G Q +L ++
Sbjct: 220 EN--------PSNTPDKDYLLSIPISCPLIGVIQLAHYVVTAKLLGFTPGELRSYLKGAT 271
Query: 310 TH-----------PTHT-NGFTTSSISS-------------TFPSEPLPSSQPKVLS--- 341
H T + F S + +P+ LP P +L
Sbjct: 272 GHSQGLVTAVAIAETDSWESFFVSVRKAITVLFFIGVRCYEAYPNTSLP---PSILEDSL 328
Query: 342 -------TFM------------------NHSQP--------------------PPLS--- 353
+ M N P PP S
Sbjct: 329 ENNEGVPSPMLSISNLTQEQVQDYVNKTNSHLPAGKQVEISLVNGAKNLVVSGPPQSLYG 388
Query: 354 ----------PRKLNNTE---SKQNLPLNN--LPVNAP 376
P L+ + S++ L +N LPV +P
Sbjct: 389 LNLTLRKAKAPSGLDQSRIPFSERKLKFSNRFLPVASP 426
Score = 33.1 bits (75), Expect = 0.31
Identities = 38/207 (18%), Positives = 69/207 (33%), Gaps = 62/207 (29%)
Query: 7 HQSSYQDKLLYE------YDHWDDAIHGFRETER--SKWNEENTKIIARVQN--LAFPPN 56
H + K + E ++ D G +TE+ + NE +T R + L+
Sbjct: 1675 HFGGEKGKRIRENYSAMIFETIVD---GKLKTEKIFKEINEHSTSYTFRSEKGLLSATQF 1731
Query: 57 VTP----IQYVHVLDLEQKGYIKAHKGYIKAHVDSVRFCGNTIAGLSL--------LSDS 104
P ++ DL+ KG I A D+ AG SL L+D
Sbjct: 1732 TQPALTLMEKAAFEDLKSKGLIPA---------DAT------FAGHSLGEYAALASLAD- 1775
Query: 105 VMKLVDEKTKTQEILVLLKQRSLYVMKDDARYKFTHEVLENERSYFGDLFVPRGRRISVI 164
VM + ++ ++ R + + R E RS +G + + G R++
Sbjct: 1776 VMSIES-------LVEVVFYRGMTMQVAVPR-------DELGRSNYGMIAINPG-RVAAS 1820
Query: 165 CRNTPDPSLIDSSSDTST------NNN 185
+++ + N N
Sbjct: 1821 FSQEALQYVVERVGKRTGWLVEIVNYN 1847
Score = 31.6 bits (71), Expect = 0.86
Identities = 51/316 (16%), Positives = 95/316 (30%), Gaps = 102/316 (32%)
Query: 10 SYQDKL--LYE-YDHW-DDAIHGFRET--ERSKWNEENTKIIARVQNLA---FPPNVTP- 59
Y ++L LY+ Y D I ET E + + K+ + N+ P+ TP
Sbjct: 168 DYFEELRDLYQTYHVLVGDLIKFSAETLSELIRTTLDAEKVFTQGLNILEWLENPSNTPD 227
Query: 60 ----------------IQYVH-VLDLEQKGYIKAHKGYIKAHVDSVRFCGNTI--AGLSL 100
IQ H V+ + G+ G +++++ + A
Sbjct: 228 KDYLLSIPISCPLIGVIQLAHYVVTAKLLGF---TPGELRSYLKGATGHSQGLVTAVAIA 284
Query: 101 LSDSVMKLVDEKTKTQEILVLLKQRS----------LYVMKD----------------DA 134
+DS K +L + R +++D +
Sbjct: 285 ETDSWESFFVSVRKAITVLFFIGVRCYEAYPNTSLPPSILEDSLENNEGVPSPMLSISNL 344
Query: 135 RYKFTHEVLENERSYFGDLFVPRGRRISVICRNTPD-------P-SL---------IDSS 177
+ + + S+ +P G+++ + N P SL +
Sbjct: 345 TQEQVQDYVNKTNSH-----LPAGKQVEISLVNGAKNLVVSGPPQSLYGLNLTLRKAKAP 399
Query: 178 SDTSTNNNPYASM---FYIFFQPRLP--EP----------DLIRLD-SSDDVLPTSSQCA 221
S + P++ F F LP P DLI D ++V +
Sbjct: 400 SGLDQSRIPFSERKLKFSNRF---LPVASPFHSHLLVPASDLINKDLVKNNVSFNAKDIQ 456
Query: 222 GVENPLYPYFVPKNLQ 237
P+Y F +L+
Sbjct: 457 ---IPVYDTFDGSDLR 469
>3i3q_A Alpha-ketoglutarate-dependent dioxygenase ALKB; beta jellyroll, DNA
damage, DNA repair, iron, M binding, oxidoreductase;
HET: AKG; 1.40A {Escherichia coli} PDB: 2fd8_A* 2fdg_A*
2fdh_A* 2fdf_A* 2fdj_A 2fdk_A* 2fdi_A* 3i2o_A* 3i3m_A*
3i49_A* 3t4h_B* 3t3y_A* 3t4v_A* 3o1t_A* 3o1o_A* 3o1m_A*
3o1r_A* 3o1s_A* 3o1p_A* 3o1u_A* ...
Length = 211
Score = 43.4 bits (102), Expect = 7e-05
Identities = 13/83 (15%), Positives = 27/83 (32%), Gaps = 5/83 (6%)
Query: 81 IKAHVDSVRFC-GNTIAGLSLLSDSVMKLVDEKTKTQEILVLLKQRSLYVMKDDARYKFT 139
+ H D I +SL ++ + K +LL+ + V ++R +
Sbjct: 118 LSLHQDKDEPDLRAPIVSVSLGLPAIFQFGGLKRNDPLKRLLLEHGDVVVWGGESRLFY- 176
Query: 140 HEVLENERSYFGDLFVPRGRRIS 162
H + G + R +
Sbjct: 177 HGIQ---PLKAGFHPLTIDCRYN 196
>2iuw_A Alkylated repair protein ALKB homolog 3; oxidoreductase, DNA/RNA
repair, demethylase, beta jellyroll; HET: AKG; 1.50A
{Homo sapiens} SCOP: b.82.2.10
Length = 238
Score = 37.2 bits (85), Expect = 0.009
Identities = 19/108 (17%), Positives = 37/108 (34%), Gaps = 19/108 (17%)
Query: 75 KAHKGYIKAHVDSVRF--CGNTIAGLSLLSDSVMKL--------VDEKTKTQEILVLLKQ 124
+ K + H D IA LS + ++ + T + + + L
Sbjct: 134 RNEKDSVDWHSDDEPSLGRCPIIASLSFGATRTFEMRKKPPPEENGDYTYVERVKIPLDH 193
Query: 125 RSLYVMKDDARYKFTHEVLENERSYFGDLFVPRGRRISVICRNT-PDP 171
+L +M+ + + H V + R R+++ R PDP
Sbjct: 194 GTLLIMEGATQADWQHRVPKEYH--------SREPRVNLTFRTVYPDP 233
>3s57_A Alpha-ketoglutarate-dependent dioxygenase ALKB HO; protein-DNA
complex, jelly-roll fold, dioxygenase, dsDNA BIN plasma,
oxidoreductase-DNA complex; HET: AKG; 1.60A {Homo
sapiens} PDB: 3s5a_A* 3rzg_A 3rzl_A 3rzh_A* 3rzj_A*
3rzk_A* 3rzm_A 3bty_A* 3buc_A* 3h8r_A* 3h8o_A* 3h8x_A*
3btx_A* 3bu0_A* 3btz_A*
Length = 204
Score = 35.9 bits (82), Expect = 0.019
Identities = 15/99 (15%), Positives = 33/99 (33%), Gaps = 17/99 (17%)
Query: 78 KGYIKAHVDSVR--FCGNTIAGLSLLSDSVMKLVDEKTKTQE-------ILVLLKQRSLY 128
+I H D R G+ IA +S + + ++ + + + L SL
Sbjct: 111 SDHICEHRDDERELAPGSPIASVSFGASRDFVFRHKDSRGKSPSRRVAVVRLPLAHGSLL 170
Query: 129 VMKDDARYKFTHEVLENERSYFGDLFVPRGRRISVICRN 167
+M + H + ++ R+++ R
Sbjct: 171 MMNHPTNTHWYHSLPVRKK--------VLAPRVNLTFRK 201
>2htd_A Predicted flavin-nucleotide-binding protein from family
structurally related to pyridoxine...; putative
pyridoxamine 5'-phosphate oxidase; HET: MSE; 1.60A
{Lactobacillus delbrueckii subsp}
Length = 140
Score = 32.9 bits (75), Expect = 0.091
Identities = 15/63 (23%), Positives = 25/63 (39%), Gaps = 10/63 (15%)
Query: 13 DKLLYEYDHWDDAIHGFRETERSKWNEENTKIIARVQNLAF--------PPNVTPIQYVH 64
DK+ + + H + G ++ +K EE + NL + P V P +
Sbjct: 4 DKIHHHHHHENLYFQGMKKLNTNKLTEEQVNLFKN--NLVYLATVDADGNPQVGPKGSMT 61
Query: 65 VLD 67
VLD
Sbjct: 62 VLD 64
>1wy1_A Hypothetical protein PH0671; structural genomics, riken
structural genomics/proteomics in RSGI, transferase;
1.80A {Pyrococcus horikoshii}
Length = 172
Score = 30.2 bits (69), Expect = 1.2
Identities = 8/45 (17%), Positives = 15/45 (33%), Gaps = 8/45 (17%)
Query: 34 RSKWNEENTKIIARVQN--------LAFPPNVTPIQYVHVLDLEQ 70
+ +EE I+ +QN + + I + LE
Sbjct: 45 KHYVDEEMKGILEEIQNDIYKIMGEIGSKGKIEGISEERIKWLEG 89
>3lvg_D LCB, clathrin light chain B; SELF assembly, coated PIT, cytoplasmic
vesicle, membrane, Ca structural protein; 7.94A {Bos
taurus}
Length = 190
Score = 29.7 bits (66), Expect = 1.9
Identities = 7/18 (38%), Positives = 8/18 (44%), Gaps = 1/18 (5%)
Query: 31 ETER-SKWNEENTKIIAR 47
E E KW EE K +
Sbjct: 83 EPESIRKWREEQRKRLQE 100
>1wcv_1 SOJ, segregation protein; ATPase, bacterial, chromosome
segregation; 1.6A {Thermus thermophilus} PDB: 2bej_A*
2bek_A*
Length = 257
Score = 29.0 bits (66), Expect = 3.5
Identities = 9/34 (26%), Positives = 16/34 (47%), Gaps = 4/34 (11%)
Query: 133 DARYKFTHEVLENERSYFGDL----FVPRGRRIS 162
D R +V R++FG+ +PR R++
Sbjct: 180 DGRTLLAQQVEAQLRAHFGEKVFWTVIPRNVRLA 213
>2grx_C Protein TONB; beta barrel, outer membrane, heterocomplex,
inter-protein beta sheet, protein-protein, metal
transport; HET: GCN KDO GMH FTT DAO MYR FCI; 3.30A
{Escherichia coli} SCOP: d.212.1.2 PDB: 1xx3_A
Length = 229
Score = 28.5 bits (63), Expect = 4.7
Identities = 27/166 (16%), Positives = 49/166 (29%), Gaps = 7/166 (4%)
Query: 307 SSSTHPTHTNGFTTSSISSTFPS--EPLPSSQPKVLSTFMNHSQPPPLSPRKLNNTESKQ 364
SS H H++G + E +QP ++ PP + + +
Sbjct: 2 SSHHHHHHSSGLVPRGSHMSVHQVIELPAPAQPISVTMVTPADLEPPQAVQPPPEPVVEP 61
Query: 365 NLPLNNLPVNAPRLPLVPTVGPPSYLSYPKPPVLNNGFSHPVQVSRPPSYLSYPKPPVLN 424
+P P+V P PKP Q R +
Sbjct: 62 EPEPEPIPEPPKEAPVVIEKPKPKPKPKPKPVK-----KVQEQPKRDVKPVESRPASPFE 116
Query: 425 NGFSHPVQVSSNSSSSEFNSEAKDFFDSILNNNSTTYPSVAQRNGV 470
N + S+ ++++ + L+ N YP+ AQ +
Sbjct: 117 NTAPARLTSSTATAATSKPVTSVASGPRALSRNQPQYPARAQALRI 162
>3dzy_A Retinoic acid receptor RXR-alpha; DNA-binding, HOST-virus
interaction, metal-binding, nucleus, receptor,
transcription, transcription regulation, zinc-FIN
activator; HET: DNA REA BRL; 3.10A {Homo sapiens} PDB:
3dzu_A* 3e00_A*
Length = 467
Score = 28.1 bits (62), Expect = 8.6
Identities = 25/121 (20%), Positives = 33/121 (27%), Gaps = 17/121 (14%)
Query: 328 PSEPLPSSQPKVLSTFMNHSQPPPLSPRKLNNTESKQNLPLNNLPVNAPRLPLVPTVGPP 387
K+ ST +N S P P P L P +G P
Sbjct: 4 HHHHHVDDDDKMFSTQVNSSLTSPTGR------------GSMAAPSLHP--SLGPGIGSP 49
Query: 388 SYLSYPKP---PVLNNGFSHPVQVSRPPSYLSYPKPPVLNNGFSHPVQVSSNSSSSEFNS 444
L P +N +S P S P GFS S+ + +S
Sbjct: 50 GQLHSPISTLSSPINGMGPPFSVISSPMGPHSMSVPTTPTLGFSTGSPQLSSPMNPVSSS 109
Query: 445 E 445
E
Sbjct: 110 E 110
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 0.129 0.383
Gapped
Lambda K H
0.267 0.0500 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Sequences: 27921
Number of Hits to DB: 8,069,144
Number of extensions: 450787
Number of successful extensions: 702
Number of sequences better than 10.0: 1
Number of HSP's gapped: 691
Number of HSP's successfully gapped: 34
Length of query: 569
Length of database: 6,701,793
Length adjustment: 99
Effective length of query: 470
Effective length of database: 3,937,614
Effective search space: 1850678580
Effective search space used: 1850678580
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: 60 (27.4 bits)