RPS-BLAST 2.2.26 [Sep-21-2011]
Database: pdb70
27,921 sequences; 6,701,793 total letters
Searching..................................................done
Query= 002141
(960 letters)
>1pu6_A 3-methyladenine DNA glycosylase; helix-hairpin-helix, base excision
repair, hydrolase; HET: KCX; 1.64A {Helicobacter pylori}
SCOP: a.96.1.5 PDB: 1pu7_A* 1pu8_A*
Length = 218
Score = 106 bits (267), Expect = 3e-26
Identities = 30/170 (17%), Positives = 61/170 (35%), Gaps = 10/170 (5%)
Query: 429 KKERPEHTKDSLDWEAVRCADVNKIANTIKERGMNNMLAGRIKDFLNRLVRDHGSVDLEW 488
K D ++ + + + +K+A ++ G N A R+ D +++D S
Sbjct: 56 KNAFILENDDEINLKKIAYIEFSKLAECVRPSGFYNQKAKRLIDLSGNILKDFQS----- 110
Query: 489 LRDVPPDKAKEYLLSFRGLGLKSVECVRLLTLHHLAFPVDTNVGRIAVRLGWVPLQPLPE 548
+ + +E+LL +G+G +S + + VD +LG +
Sbjct: 111 FENFKQEVTREWLLDQKGIGKESADAILCYACAKEVMVVDKYSYLFLKKLGIEI--EDYD 168
Query: 549 SLQLHLLELYPVLESIQKYLWPRLCKLDQRTLY-ELHYQMITFGKVFCTK 597
LQ + E++ L + LY H +++ F K
Sbjct: 169 ELQHFFEKGVQ--ENLNSALALYENTISLAQLYARFHGKIVEFSKQKLEL 216
>3fhg_A Mjogg, N-glycosylase/DNA lyase, DNA-(apurinic; helix-hairpin-helix,
8-oxoguanine, 8-OXOG, DNA damage, DNA repair,
glycosidase, hydrolase; 1.90A {Sulfolobus solfataricus}
Length = 207
Score = 70.4 bits (172), Expect = 7e-14
Identities = 25/151 (16%), Positives = 58/151 (38%), Gaps = 10/151 (6%)
Query: 435 HTKDSLDWEAVR-------CADVNKIANTIKERGMN--NMLAGRIKDFLNRLVRDHGSVD 485
++ ++A+ A+ +I N +K N+ A I ++ +
Sbjct: 45 NSSFISAYQALNCLGQKIYYANEEEIRNILKSCKYRFYNLKAKYIIMAREKVYGRLKE-E 103
Query: 486 LEWLRDVPPDKAKEYLLSFRGLGLKSVECVRLLTLHHLAFPVDTNVGRIAVRLGWVPLQP 545
++ L D A+E LL+ +G+G++ + +D ++ R+G +
Sbjct: 104 IKPLADEDQQLARERLLNIKGIGMQEASHFLRNVGYFDLAIIDRHIIDFMRRIGAIGETN 163
Query: 546 LPESLQLHLLELYPVLESIQKYLWPRLCKLD 576
+ + + + +L+SI L + LD
Sbjct: 164 VKQLSKSLYISFENILKSIASNLNMSVGILD 194
>1orn_A Endonuclease III; DNA repair, DNA glycosylase, [4Fe-4S] cluster,
iron-sulfur cluster, hydrolase/DNA complex; HET: PED;
1.70A {Geobacillus stearothermophilus} SCOP: a.96.1.1
PDB: 1orp_A* 1p59_A*
Length = 226
Score = 69.9 bits (172), Expect = 2e-13
Identities = 38/172 (22%), Positives = 66/172 (38%), Gaps = 26/172 (15%)
Query: 443 EAVRCADVNKIANTIKERGMNNMLAGRIKDFLNRLVRDHGSVDLEWLRDVPPDKAKEYLL 502
+ ++ I+ G+ A I+ L+ + VP D+ + L+
Sbjct: 66 HDYIAVPLEELEQDIRSIGLYRNKARNIQKLCAMLIDKYNGE-------VPRDR--DELM 116
Query: 503 SFRGLGLKSVECVRLLTLHHLAFPVDTNVGRIAVRLGWVPLQPLPESLQLHLLELYPVLE 562
G+G K+ V + A VDT+V R++ RLG+ ++ L+++ P
Sbjct: 117 KLPGVGRKTANVVVSVAFGVPAIAVDTHVERVSKRLGFCRWDDSVLEVEKTLMKIIP--- 173
Query: 563 SIQKYLWPRLCKLDQRTLYELHYQMITFGKVFCTKSKPNCNACPMRGECRHF 614
K W H++MI FG+ C P C +CP+ CR
Sbjct: 174 ---KEEWSIT-----------HHRMIFFGRYHCKAQSPQCPSCPLLHLCREG 211
>3i0w_A 8-oxoguanine-DNA-glycosylase; OGG, cacogg, DNA, 8-OXOG, 8OXOG,
glycosylase, cytosine, hydrolase,lyase/DNA complex; HET:
8OG; 1.73A {Clostridium acetobutylicum} PDB: 3i0x_A*
3f10_A* 3f0z_A
Length = 290
Score = 67.3 bits (164), Expect = 4e-12
Identities = 27/105 (25%), Positives = 52/105 (49%), Gaps = 5/105 (4%)
Query: 467 AGRIKDFLNRLVRDHGSVDLEWLRDVPPDKAKEYLLSFRGLGLKSVECVRLLTLHHL-AF 525
A +KD + + G ++LE+++ + ++ E L F G+G + +C+ L ++ AF
Sbjct: 181 AKYLKD-TVDRIYN-GELNLEYIKSLNDNECHEELKKFMGVGPQVADCIMLFSMQKYSAF 238
Query: 526 PVDTNVGRIAVRLGWVPLQPLPESLQLHLLELYPVLESI-QKYLW 569
PVDT V + + L P + ++ E + L Q+YL+
Sbjct: 239 PVDTWVKKAMMSLYVAP-DVSLKKIRDFGREKFGSLSGFAQQYLF 282
>2abk_A Endonuclease III; DNA-repair, DNA glycosylase; 1.85A {Escherichia
coli} SCOP: a.96.1.1
Length = 211
Score = 65.6 bits (161), Expect = 4e-12
Identities = 36/167 (21%), Positives = 57/167 (34%), Gaps = 27/167 (16%)
Query: 448 ADVNKIANTIKERGMNNMLAGRIKDFLNRLVRDHGSVDLEWLRDVPPDKAKEYLLSFRGL 507
V + IK G+ N A I L+ H VP D+ L + G+
Sbjct: 67 LGVEGVKTYIKTIGLYNSKAENIIKTCRILLEQHNGE-------VPEDR--AALEALPGV 117
Query: 508 GLKSVECVRLLTLHHLAFPVDTNVGRIAVRLGWVPLQPLPESLQLHLLELYPVLESIQKY 567
G K+ V VDT++ R+ R + P E ++ LL++ P
Sbjct: 118 GRKTANVVLNTAFGWPTIAVDTHIFRVCNRTQFAP-GKNVEQVEEKLLKVVP------AE 170
Query: 568 LWPRLCKLDQRTLYELHYQMITFGKVFCTKSKPNCNACPMRGECRHF 614
H+ +I G+ C KP C +C + C +
Sbjct: 171 FKVDC-----------HHWLILHGRYTCIARKPRCGSCIIEDLCEYK 206
>2xhi_A N-glycosylase/DNA lyase; lyase-DNA complex, lyase/DNA complex,
separation-OF-function helix-hairpin-helix, DNA repair;
HET: 8OG; 1.55A {Homo sapiens} PDB: 1ko9_A 1lwy_A*
1hu0_A* 1lwv_A* 1lww_A* 2noe_A* 2noh_A* 2nol_A* 1n3c_A*
1fn7_A* 2noz_A* 1yqk_A 1yqr_A* 1yql_A* 1yqm_A* 2noi_A
1ebm_A* 1m3q_A* 1m3h_A* 1n39_A* ...
Length = 360
Score = 64.0 bits (155), Expect = 7e-11
Identities = 22/123 (17%), Positives = 46/123 (37%), Gaps = 6/123 (4%)
Query: 419 LRRQVEANGGKKERPE--HTKDSLDWEAVRCADVNKIANTIKERGMNNMLAGRIKDFLNR 476
+ R +A G + + + +A+ +V + ++ + L
Sbjct: 174 VERLCQAFGPRLIQLDDVTYHGFPSLQALAGPEVEAHLRKLGLGYRARYVSASARAILEE 233
Query: 477 LVRDHGSVDLEWLRDVPPDKAKEYLLSFRGLGLKSVECVRLLTLHHL-AFPVDTNVGRIA 535
G L+ LR+ ++A + L G+G + + L+ L A PV+ ++ IA
Sbjct: 234 ---QGGLAWLQQLRESSYEEAHKALCILPGVGTCVADKICLMALDKPQAVPVNVHMWHIA 290
Query: 536 VRL 538
R
Sbjct: 291 QRD 293
>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 = 60.6 bits (146), Expect = 2e-09
Identities = 98/627 (15%), Positives = 185/627 (29%), Gaps = 192/627 (30%)
Query: 199 MSSDE-----NSKDEHSQ----FQTLES-NTQRVK--VKDIDDPK---VLSRVSSIPPSS 243
+S +E SKD S F TL S + V+ V+++ ++S + +
Sbjct: 46 LSKEEIDHIIMSKDAVSGTLRLFWTLLSKQEEMVQKFVEEVLRINYKFLMSPIKTEQ--- 102
Query: 244 FHPCLTQDLSVEVESYEMRREETRSSGIS----DVT--DKIALMPEFASQTTDATKLIVA 297
+ S+ Y +R+ + +V+ + + + A +++
Sbjct: 103 ------RQPSMMTRMYIEQRDRLYNDNQVFAKYNVSRLQPYLKLRQALLELRPAKNVLI- 155
Query: 298 GPEAPRHGNKQSRNSMQ-ANKNSIAQHESELFGDSRFAMEPPAHAQKND----LNLPKIS 352
G + + K +A ++ + + + LNL +
Sbjct: 156 ------DG-------VLGSGKTWVA---LDVCLSYKV------QCKMDFKIFWLNLKNCN 193
Query: 353 SGSIDAIESHNALYNRENTQLKSSVSDQNKYDHSFSKELNGIDDATSKSKSTRVSKEKQN 412
S +E L Q+ + + ++ DHS + +L I ++ + SK +N
Sbjct: 194 SPE-TVLEMLQKLL----YQIDPNWTSRS--DHSSNIKLR-IHSIQAELRRLLKSKPYEN 245
Query: 413 -----DFD-WD--------------------SLRRQVEANGGKKERPEHTKDSLD----- 441
+ + + + A +H +L
Sbjct: 246 CLLVLL-NVQNAKAWNAFNLSCKILLTTRFKQVTDFLSAATTTHISLDHHSMTLTPDEVK 304
Query: 442 -----WEAVRCADVNKIANTIKERGMNNMLAGRIKDFLNRLVR-DHGSVD---------L 486
+ R D+ + T R ++ ++A I+D L H + D L
Sbjct: 305 SLLLKYLDCRPQDLPREVLTTNPRRLS-IIAESIRDGLATWDNWKHVNCDKLTTIIESSL 363
Query: 487 EWLRDVPPDKAKEYLLSFRGLGLKSVECVRLLTLHHLAFPVDTNVGRIAVRLGWVPLQP- 545
L P + ++ F L + FP ++ I + L W +
Sbjct: 364 NVL---EPAEYRKM---FDRLSV---------------FPPSAHIPTILLSLIWFDVIKS 402
Query: 546 LPESL--QLH---LLELYPVLESIQKYLWPRLCKLDQRTLYELHYQMIT---FGKVFCTK 597
+ +LH L+E P +I K+ Y LH ++ K F +
Sbjct: 403 DVMVVVNKLHKYSLVEKQPKESTISIPSIYLELKVKLENEYALHRSIVDHYNIPKTFDSD 462
Query: 598 SK-PNCN-------------ACPMRGECRHFASAFASSRLALPGPEEKAIVSANENRTNT 643
P F F R E+K + T
Sbjct: 463 DLIPPYLDQYFYSHIGHHLKNIEHPERMTLFRMVFLDFRFL----EQKIRHDS----TAW 514
Query: 644 QNPAMMINQLPLPLTHATDLPVGKLEIAVNNCEPIIEEPATPEPERVQVSENDIEDTFCE 703
++N L L K I N+ P+ ER+ N I D F
Sbjct: 515 NASGSILNTL-------QQLKFYKPYICDND----------PKYERL---VNAILD-FLP 553
Query: 704 DPEEIPTIKLNMKEFTQTLQ-NYMQEN 729
EE L ++T L+ M E+
Sbjct: 554 KIEE----NLICSKYTDLLRIALMAED 576
Score = 49.9 bits (118), Expect = 5e-06
Identities = 74/591 (12%), Positives = 153/591 (25%), Gaps = 175/591 (29%)
Query: 362 HNALYNRENTQLKSSVSD-QNKYDHSFSKEL--NGIDDATSKSKSTRV--------SKEK 410
H+ + E + + D + ++ +F + D S
Sbjct: 3 HHHHMDFETGEHQYQYKDILSVFEDAFVDNFDCKDVQDMPKSILSKEEIDHIIMSKDAVS 62
Query: 411 QNDFDWDSLRRQVEANGGKKERPEHTKDSLDWEAVRCADVNKIANTIKERGMNNMLAGRI 470
+ +L + + +K E + + + + I ++ M
Sbjct: 63 GTLRLFWTLLSK-QEEMVQKFVEEVLRINYKFLM------SPIKTEQRQPSMMTR---MY 112
Query: 471 KDFLNRLVRDH-----GSVDLEWLRDVPPDKAKEYLLSFR-----------GLGLKSV-- 512
+ +RL D+ +V R P K ++ LL R G G K+
Sbjct: 113 IEQRDRLYNDNQVFAKYNVS----RLQPYLKLRQALLELRPAKNVLIDGVLGSG-KTWVA 167
Query: 513 -ECVRLLTLHHLAFPVDTNVGRIAVRLGWVPL--QPLPESLQLHLLELYPVLESIQKYLW 569
+ + +I W+ L PE++ L +L ++ W
Sbjct: 168 LDVCLSYKVQ-CKMD-----FKIF----WLNLKNCNSPETVLEMLQKLLYQIDPN----W 213
Query: 570 PRLCKLDQRTLYELHYQMITFGKVFCTKSKPNC-----NAC------PMRGECRH-FASA 617
+H ++ +K NC N C+ +
Sbjct: 214 TSRSDHSSNIKLRIHSIQAELRRLLKSKPYENCLLVLLNVQNAKAWNAFNLSCKILLTTR 273
Query: 618 FASSRLALPGPEEKAIVSANENRTNTQNPAMMINQLPLPLTHATDLPVGKLEIAVNNCEP 677
F L I + + T T + + L D L
Sbjct: 274 FKQVTDFLSAATTTHISLDHHSMTLTPDEVKSL------LLKYLDCRPQDL--------- 318
Query: 678 IIEEPATPEPERVQVSENDIEDTFCEDPEEIPTIKLNMKEFTQTLQNYMQENLELQEGDM 737
P E + + P + I ++++ T N+ N + +
Sbjct: 319 -------P-REVLTTN-----------PRRLSIIAESIRDGLATWDNWKHVNCDKLTTII 359
Query: 738 SKALVALTAGAASIPAPKLKNVSRLRTEHQVYE----LPDSHPLLRGMEKREPDDPGRYL 793
+L L P R ++++ P S + P L
Sbjct: 360 ESSLNVLE--------PAE-----YR---KMFDRLSVFPPSAHI-----------PTILL 392
Query: 794 LAIWTPGETANSIQPPESRCSSQEHGKMCDEKTCFSCNSVRESEFQIVRGTILIPCRTAM 853
IW + + ++ + S L+ +
Sbjct: 393 SLIWFDVIK-------------SDVMVVVNK-------LHKYS---------LVEKQPK- 422
Query: 854 RGSFPLNGTYF----QVNEVFADHDSSLKPINVPREWLWN---LPRRTVYF 897
+ + Y ++ +A H S + N+P+ + + P YF
Sbjct: 423 ESTISIPSIYLELKVKLENEYALHRSIVDHYNIPKTFDSDDLIPPYLDQYF 473
Score = 47.5 bits (112), Expect = 2e-05
Identities = 95/695 (13%), Positives = 198/695 (28%), Gaps = 225/695 (32%)
Query: 3 LEERQIENLLLHSFDCFSSAFMSLAANFPLNSKQKPCHGEEITSVIEEPAEYVLDPEDTI 62
+ + + L F L SKQ+ ++++ E VL
Sbjct: 55 IMSKDAVSGTLRLFWT-------------LLSKQE--------EMVQKFVEEVLRIN--Y 91
Query: 63 EW-KEKMSHQPVCDQGSMTLHGSESSEEREVVSSNNSLESSTSVVSSINESKCKLMNS-S 120
++ + + ++ E+R+ + ++N + + +V S + KL +
Sbjct: 92 KFLMSPIKTEQRQPSMMTRMY----IEQRDRLYNDNQVFAKYNV--SRLQPYLKLRQALL 145
Query: 121 EIYPETY---------------NDVLSSPNSLDSSFAPFADGT--ISSSNSNSDAGDSSN 163
E+ P DV S ++ N NS
Sbjct: 146 ELRPAKNVLIDGVLGSGKTWVALDVCLSYKVQCK----MDFKIFWLNLKNCNSP------ 195
Query: 164 VPTLNSFNGSNSFVELLQMVGSTMLHGNYNHRNGHMSSDE-NSKDEHSQFQTLESNTQRV 222
+ +E+LQ + + N+ R+ H S+ + ++ + L +
Sbjct: 196 ----------ETVLEMLQKL-LYQIDPNWTSRSDHSSNIKLRIHSIQAELRRLLKSKPYE 244
Query: 223 K----VKDIDDPKVLSRVSSIPPSSF-HPC---LTQDLSVEVESYEMRREETRSSGISDV 274
+ ++ + K + +F C LT TR ++D
Sbjct: 245 NCLLVLLNVQNAKAWN--------AFNLSCKILLT----------------TRFKQVTDF 280
Query: 275 TDKIALMPEFASQTTDATKLIVAGPEAPRHGNKQSRNSMQANKNSIAQHES-ELFG---D 330
+ S+ + ++ E L D
Sbjct: 281 LS----------------------------AATTTHISLDHHSMTLTPDEVKSLLLKYLD 312
Query: 331 SRFAMEPPAHAQKNDLNLPKISSGSIDAIESHNALYNRENTQLKSSVSDQNKYDHSFSKE 390
R P N L I+ ++I A ++ + H +
Sbjct: 313 CRPQDLPREVLTTNPRRLSIIA----ESIRDGLATWDN--------------WKHVNCDK 354
Query: 391 LNGIDDATSKSKSTRVSKEKQND---FDWDSLRRQVEANGGKKERPEHTKDSLDWEAVRC 447
L I +++ ++ + F + + P + W V
Sbjct: 355 LTTIIESSLNVLEPAEYRKMFDRLSVFPPSA---HI---------PTILLSLI-WFDVIK 401
Query: 448 ADVNKIANTIKERGMNNMLAGRIKDF--------------------LNRLVRDHGSVDLE 487
+DV + N + + + + + K+ L+R + DH ++
Sbjct: 402 SDVMVVVNKLHKYSL---VEKQPKESTISIPSIYLELKVKLENEYALHRSIVDHYNIPKT 458
Query: 488 W-LRDVPPDKAKEYLLSFRGLGLKSVECVRLLTLHHLAFPVDTN-VGR--IAVRLGWVPL 543
+ D+ P +Y S G LK++E +TL + F +D + + W
Sbjct: 459 FDSDDLIPPYLDQYFYSHIGHHLKNIEHPERMTLFRMVF-LDFRFLEQKIRHDSTAWNAS 517
Query: 544 QPLPESLQLHLLELYPVLESIQKYLWPRLCKLDQRTLYE-LHYQMITFGKVFCTKSKPNC 602
+ +LQ L+ Y + Y+ D YE L ++ F P
Sbjct: 518 GSILNTLQ--QLKFY------KPYI------CDNDPKYERLVNAILDF--------LPKI 555
Query: 603 NACPMRGECRHFASAFASSRLALPGPEEKAIVSAN 637
+ + R+AL +E A+
Sbjct: 556 EENLICSKYTDLL------RIALMAEDEAIFEEAH 584
>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 = 58.5 bits (141), Expect = 1e-08
Identities = 90/603 (14%), Positives = 169/603 (28%), Gaps = 232/603 (38%)
Query: 230 PKVLSRVS---SIP-PSSFHPCLTQDLSVEVESYEMRREETRSSGISDVTDKIALMPEFA 285
P LS S + P++ +Q +E+ + + T+ A E
Sbjct: 8 PLTLSHGSLEHVLLVPTASFFIASQ-----------LQEQFNKI-LPEPTEGFAADDEPT 55
Query: 286 SQTTDATKLIVAGPEAPRHGNKQSRNSMQANKNSIAQHESELFGDSRF----AMEPPAHA 341
+ EL G +F +
Sbjct: 56 TPA-------------------------------------ELVG--KFLGYVSSLVEPSK 76
Query: 342 QKNDLNLPKISSGSIDAIESHNALYNRENTQLKSSVSDQNKYD-HSFSKELNGIDDATSK 400
+ + + E+ Y N D H+ + +L +D T+
Sbjct: 77 VGQFDQVLNLC---LTEFENC---YLEGN-------------DIHALAAKLLQEND-TTL 116
Query: 401 SKSTRVSKEKQNDFDWDSLRRQVEANGGKKERPEHTKDSLDWEAVRCADVNKIA------ 454
K+ + ++ + A K + +S + AV + +A
Sbjct: 117 VKTKEL------------IKNYITARIMAKRPFDKKSNSALFRAVGEGNAQLVAIFGGQG 164
Query: 455 NT---IKE-RGMNNMLAGRIKDF-------LNRLVRDHGSVD---------LEWLRDVPP 494
NT +E R + + D L+ L+R + LEWL + P
Sbjct: 165 NTDDYFEELRDLYQTYHVLVGDLIKFSAETLSELIRTTLDAEKVFTQGLNILEWLEN--P 222
Query: 495 DKA--KEYLL----SFRGLGLKSVECVRLLTLHHLAFPVDTNVGRIAVRLGWVP--LQPL 546
K+YLL S +G+ ++L H++ A LG+ P L+
Sbjct: 223 SNTPDKDYLLSIPISCPLIGV-----IQL--AHYVVT---------AKLLGFTPGELRSY 266
Query: 547 PESLQLHLLELYPVL-----ESIQKYLWPRLCKLDQRTLYELHYQMITFGKVF-----CT 596
+ H L + +S W + + + IT +F C
Sbjct: 267 LKGATGHSQGLVTAVAIAETDS-----WE--------SFFVSVRKAITV--LFFIGVRCY 311
Query: 597 KSKPNCNACP-MRGECRHFASAFASSRLALPGPEEKAIVSANENRTNTQNPAMMINQLPL 655
++ PN + P + + S L++ ++ + +TN+
Sbjct: 312 EAYPNTSLPPSILEDSLENNEGVPSPMLSISNLTQEQVQDYVN-KTNSH----------- 359
Query: 656 PLTHATDLPVGK-LEIAVNNCEPIIEEPATPE-------PERVQVSENDIEDTFCE---D 704
LP GK +EI++ N + P+ + + D
Sbjct: 360 -------LPAGKQVEISLVN---------GAKNLVVSGPPQSLYGLNLTLRKAKAPSGLD 403
Query: 705 PEEIPTIKLNMKEFTQ---TLQN------------YMQENLELQEGDMSKALVALTAGAA 749
IP F++ N + +L D+ K V+ A
Sbjct: 404 QSRIP--------FSERKLKFSNRFLPVASPFHSHLLVPASDLINKDLVKNNVSFNAKDI 455
Query: 750 SIP 752
IP
Sbjct: 456 QIP 458
Score = 53.1 bits (127), Expect = 4e-07
Identities = 78/511 (15%), Positives = 137/511 (26%), Gaps = 163/511 (31%)
Query: 515 VRLLTLHHLAFPVDTNVGRIAVRLGWVPLQPLPESLQLHLLELYPVLESIQKYLWPRLCK 574
R LTL H G + L +P + +L E K L
Sbjct: 6 TRPLTLSH---------GSLEHVL------LVPTASFFIASQLQ---EQFNKILPEPTEG 47
Query: 575 L----DQRTLYELHYQMITFGKVFCTKSKPNCNACPMRGEC-----RHFASAFASSR--- 622
+ T EL + + + S + + F + +
Sbjct: 48 FAADDEPTTPAELVGKFLGY-----VSSLVEPSKVGQFDQVLNLCLTEFENCYLEGNDIH 102
Query: 623 -LA--LPGPEEKAIVSANEN-RTNTQNPAMMINQLPLPLTHATDL----PVGKLEI-AV- 672
LA L + +V E + A ++ + P + L G ++ A+
Sbjct: 103 ALAAKLLQENDTTLVKTKELIKNYIT--ARIMAKRPFDKKSNSALFRAVGEGNAQLVAIF 160
Query: 673 ----NNCE-------------PIIEE-------------PATPEPERVQVSENDIEDTFC 702
N + ++ + T + E+V +I + +
Sbjct: 161 GGQGNTDDYFEELRDLYQTYHVLVGDLIKFSAETLSELIRTTLDAEKVFTQGLNILE-WL 219
Query: 703 EDPEEIP--------TIKLNMKEFTQTLQNYM--QENLELQEGDMSKALVALTAGAASIP 752
E+P P I + Q L +Y+ + L G++ L T + +
Sbjct: 220 ENPSNTPDKDYLLSIPISCPLIGVIQ-LAHYVVTAKLLGFTPGELRSYLKGATGHSQGLV 278
Query: 753 APKLKNVSRLRTEHQVYELPDSHPLLRGMEKREPDDPGRYLLAIWTPGETANSIQPPESR 812
++ + + + + + L I G R
Sbjct: 279 TAVA--IAETDSWESFFVS-----VRKAIT---------VLFFI---G----------VR 309
Query: 813 CSSQEHGKMCDEKTCFSCNSVRESEFQI-VRGTILIPCRTAM---RGSFPLNGTYFQVNE 868
C E + S+ S + + +P + M T QV +
Sbjct: 310 C--YE---------AYPNTSLPPSILEDSLENNEGVP--SPMLSISNL-----TQEQVQD 351
Query: 869 VFADHDSSL---KPINVPREWLWNLPRRTVYFGTSIPSIFKGLTTEGIQHCFWRGYVCVR 925
+S L K + + L N + V G P GL R
Sbjct: 352 YVNKTNSHLPAGKQVEIS---LVNGAKNLVVSGP--PQSLYGLNLT------LRKAKAPS 400
Query: 926 GFDQKSRAP---RPLMARLHF-PASKLNKVP 952
G DQ SR P R L F P + P
Sbjct: 401 GLDQ-SRIPFSERKLKFSNRFLPVA----SP 426
Score = 50.4 bits (120), Expect = 3e-06
Identities = 75/569 (13%), Positives = 163/569 (28%), Gaps = 213/569 (37%)
Query: 2 KLEERQIENLLLHSFDCFSSAFM------SLAANFPLNSKQKPCHGEEITSVIEEPAEYV 55
+ Q + +L F + ++ +LAA + + +I+ Y+
Sbjct: 74 PSKVGQFDQVLNLCLTEFENCYLEGNDIHALAAKLLQENDTTL---VKTKELIK---NYI 127
Query: 56 LDPEDTIEWKEKMSHQPVCDQGSMTLHGSESSEEREVVSSNNSLESSTSVVSSINESKCK 115
R + +S++++ ++ E +
Sbjct: 128 --------------------------------TARIMAKRPFDKKSNSALFRAVGEGNAQ 155
Query: 116 LM-------NSS-------EIYPETYN-----------DVLSSPNSLDSSFAP-FADGT- 148
L+ N+ ++Y +TY+ + LS F G
Sbjct: 156 LVAIFGGQGNTDDYFEELRDLY-QTYHVLVGDLIKFSAETLSELIRTTLDAEKVFTQGLN 214
Query: 149 ----ISSSNSNSDAGDSSNVPTLNSFNGSNSFVELLQMVGSTMLHGNYNHRNGHMSSDEN 204
+ + ++ D ++P S + ++Q+ +Y
Sbjct: 215 ILEWLENPSNTPDKDYLLSIPI--SCP----LIGVIQLA-------HY--VVTAKLLGFT 259
Query: 205 SKDEHSQFQTLESNTQRV-------KVKDIDD-----PKVLSRVSSI--------PPSSF 244
+ S + ++Q + + + K ++ + I P +S
Sbjct: 260 PGELRSYLKGATGHSQGLVTAVAIAETDSWESFFVSVRKAITVLFFIGVRCYEAYPNTSL 319
Query: 245 HPCLTQD------------LSV------EVESY--EMRREETRSSGISDVTDKIALMPEF 284
P + +D LS+ +V+ Y + + I+L
Sbjct: 320 PPSILEDSLENNEGVPSPMLSISNLTQEQVQDYVNKTNSHLPAGKQVE-----ISL---V 371
Query: 285 ASQTTDATKLIVAGP--------------EAPRHGNKQSRNSMQANKNSIAQHESELFGD 330
A L+V+GP +AP G QSR I E +L
Sbjct: 372 NG----AKNLVVSGPPQSLYGLNLTLRKAKAP-SGLDQSR---------IPFSERKLKFS 417
Query: 331 SRF----A------MEPPAHAQKNDLNLPKISSGSIDAIESHNALYNRENTQLKSSVSDQ 380
+RF + + P + DL + S +A + +Y+ + SD
Sbjct: 418 NRFLPVASPFHSHLLVPASDLINKDLVKNNV---SFNAKDIQIPVYDTFDG------SDL 468
Query: 381 NKYDHSFSKELNGIDDATSKSKSTRVSKEKQNDFDWDSLRRQVEANGGKKERPEHTKDSL 440
S S+ + +D V W++ + + H L
Sbjct: 469 RVLSGSISERI--VDCIIRL----PV--------KWETT---------TQFKATHI---L 502
Query: 441 DWEAVRCADVNKIANTIKE-RGMNNMLAG 468
D+ + + + + K+ G+ ++AG
Sbjct: 503 DFGPGGASGLGVLTHRNKDGTGVRVIVAG 531
Score = 48.1 bits (114), Expect = 2e-05
Identities = 43/220 (19%), Positives = 75/220 (34%), Gaps = 56/220 (25%)
Query: 649 MINQLPLPLTHATDLPVGKLEIAVN----NCEPIIEEPATPEPERVQVSENDIEDTFCED 704
++ P+ LT GK I N E I++ E +++E+ TF
Sbjct: 1664 IVINNPVNLTIHFGGEKGK-RIRENYSAMIFETIVDGKLKTEKIFKEINEHSTSYTF-RS 1721
Query: 705 PEEIPTIKLNMKEFTQ---TLQNYMQ-ENLELQEGDMSKALV----------ALTAGAAS 750
+ L+ +FTQ TL E+L+ +G + AL + A
Sbjct: 1722 EKG----LLSATQFTQPALTLMEKAAFEDLK-SKGLIPADATFAGHSLGEYAALASLADV 1776
Query: 751 IPAPKLKNVSRLRTEHQVYELPDSHPLLRGM---EKREPDDPGR--YLLAIWTPGETANS 805
+ ++++ + V+ RGM D+ GR Y + PG A S
Sbjct: 1777 MS---IESLVEV-----VF--------YRGMTMQVAVPRDELGRSNYGMIAINPGRVAAS 1820
Query: 806 IQPPESR----CSSQEHGKMCDEKTCFSCNSVRESEFQIV 841
+ + G + E + N E++ Q V
Sbjct: 1821 FSQEALQYVVERVGKRTGWLV-EIVNY--NV--ENQ-QYV 1854
Score = 44.7 bits (105), Expect = 2e-04
Identities = 35/248 (14%), Positives = 69/248 (27%), Gaps = 84/248 (33%)
Query: 182 MVGSTMLHGNYNHRNGHMSSDENSKD---EHSQ---FQTLESNTQRVKVKDIDDPKVLSR 235
M+ T++ G +E+S + T TQ
Sbjct: 1691 MIFETIVDGKLKTEKIFKEINEHSTSYTFRSEKGLLSAT--QFTQ--------------- 1733
Query: 236 VSSIPPSSFHPCLTQDLSVEVESYEMRREETRSSGISDVTDKI---------AL------ 280
P L +E ++E + + G+ AL
Sbjct: 1734 ----------PAL---TLMEKAAFEDLKSK----GLIPADATFAGHSLGEYAALASLADV 1776
Query: 281 MPEFASQTTDATKL-----IVAGPEAPRHGNKQSRNSMQA-NKNSIAQHESELFGDSRFA 334
M ++ + PR +S M A N +A S+ ++
Sbjct: 1777 MS-IE----SLVEVVFYRGMTMQVAVPRDELGRSNYGMIAINPGRVAASFSQ--EALQYV 1829
Query: 335 MEPPAHAQK------NDLNLPK---ISSGSIDAIE------SHNALYNRENTQLKSSVSD 379
+E N N+ +++G + A++ + L + +L+ S+S
Sbjct: 1830 VERVGKRTGWLVEIVNY-NVENQQYVAAGDLRALDTVTNVLNFIKLQKIDIIELQKSLSL 1888
Query: 380 QNKYDHSF 387
+ H F
Sbjct: 1889 EEVEGHLF 1896
Score = 42.7 bits (100), Expect = 6e-04
Identities = 94/608 (15%), Positives = 168/608 (27%), Gaps = 227/608 (37%)
Query: 186 TMLHGNYNHR-----NGHMSSDENSKDEHSQFQ-TLESNTQRVKVKDIDDPK-------- 231
T+ HG+ H + + ++ QF L T+ D D+P
Sbjct: 10 TLSHGSLEHVLLVPTASFFIASQ-LQE---QFNKILPEPTEGF-AAD-DEPTTPAELVGK 63
Query: 232 ----VLSRVSSIPPSSFHPCLTQDLSVEVESYEMRREETRSSGISDVTDKIALMPEFASQ 287
V S V F L L+ E E+ + D+ A + +
Sbjct: 64 FLGYVSSLVEPSKVGQFDQVLNLCLT-EFENCYLEGN--------DIHALAAKLLQENDT 114
Query: 288 TTDATKLIVAGPEAPRHGNKQSRN----SMQANKNSIAQHESELF-----GDSRFAMEPP 338
T TK ++ +N + A + + S LF G+++
Sbjct: 115 TLVKTKELI-------------KNYITARIMAKRPFDKKSNSALFRAVGEGNAQL----- 156
Query: 339 AHA----QKN------DL-NLPKISSGSI-DAIESHNALYNRENTQLKSSVSDQNK-YDH 385
A Q N +L +L + + D I+ + +L + D K +
Sbjct: 157 -VAIFGGQGNTDDYFEELRDLYQTYHVLVGDLIKFSAETLS----ELIRTTLDAEKVFTQ 211
Query: 386 SFSKE--LNGIDDATSKS--KSTRVS--------------KEKQNDFDWDSLRRQVEANG 427
+ L + K S +S K F LR ++
Sbjct: 212 GLNILEWLENPSNTPDKDYLLSIPISCPLIGVIQLAHYVVTAKLLGFTPGELRSYLKGAT 271
Query: 428 GKKERPEHTKD---------SLDWEAVRCADVNKIANTIKERGMNNMLAGRIKDFLNRLV 478
G H++ + WE F +
Sbjct: 272 G------HSQGLVTAVAIAETDSWE----------------------------SFFVSVR 297
Query: 479 RDHGSVDLEWL-------------RDVPPDKAKE----------YLLSFRGLGLKSVECV 515
+ + L +PP ++ +LS L + V+
Sbjct: 298 KA-----ITVLFFIGVRCYEAYPNTSLPPSILEDSLENNEGVPSPMLSISNLTQEQVQDY 352
Query: 516 RLLTLHHLAFPVDTNVGRIAVRLGWVPLQ-----PLPESLQLHLLELYPVLESIQKYLWP 570
T HL P V I++ G P P+S LY + +++K P
Sbjct: 353 VNKTNSHL--PAGKQV-EISLVNG--AKNLVVSGP-PQS-------LYGLNLTLRKAKAP 399
Query: 571 RLCKLDQ-RTLYELHYQM-ITFGKVFCTKSKP-NC----NACPM-RGECRHFASAFASSR 622
LDQ R + + + F F + P + A + + +F +
Sbjct: 400 S--GLDQSRIPFS---ERKLKFSNRFLPVASPFHSHLLVPASDLINKDLVKNNVSFNAKD 454
Query: 623 LALPGPEEKAIVSANENRTNTQNP--------AMMINQLPL--------PLTHATDL-P- 664
+ +P V + ++ + I +LP+ TH D P
Sbjct: 455 IQIP-------VYDTFDGSDLRVLSGSISERIVDCIIRLPVKWETTTQFKATHILDFGPG 507
Query: 665 ----VGKL 668
+G L
Sbjct: 508 GASGLGVL 515
>3n0u_A Probable N-glycosylase/DNA lyase; structural genomics, ISFI, DNA
repair, 8-oxoguanine, base EX repair, PSI-2, protein
structure initiative; 1.50A {Thermotoga maritima}
Length = 219
Score = 48.9 bits (116), Expect = 2e-06
Identities = 26/149 (17%), Positives = 50/149 (33%), Gaps = 14/149 (9%)
Query: 448 ADVNKIANTIKERGMN--NMLAGRIKDFLNRLVRDHGSVDLEWLRDVPPDKAKEYLLSFR 505
+ ++A ++E G A I + L + V + P + + + +
Sbjct: 82 LPLEELAEKLREVGHRYPQKRAEFIVENRKLLGKLKNLVKGD-----PFQSREFLVRNAK 136
Query: 506 GLGLKSVECVRLLTLHHLAFPVDTNVGRIAVRLGWVPLQPLPESLQLHLLELYPVLESIQ 565
G+G K T +D +V R+ R G + P + L + +L +
Sbjct: 137 GIGWKEASHFLRNTGVEDLAILDKHVLRLMKRHGLIQEIP-KGWSKKRYLYVEEILRKVA 195
Query: 566 KYLWPRLCKLDQRTLYELHYQMITFGKVF 594
+ K D L+ + GKV
Sbjct: 196 EAFGESPGKFD------LYLWYLVKGKVD 218
>2jhn_A ALKA, 3-methyladenine DNA-glycosylase; DNA repair,
N1-methyladenine, N3-methylcytosine, hyperthermophiles,
hydrolase; HET: MBO MES; 1.8A {Archaeoglobus fulgidus}
PDB: 2jhj_A
Length = 295
Score = 48.6 bits (116), Expect = 4e-06
Identities = 25/88 (28%), Positives = 39/88 (44%), Gaps = 2/88 (2%)
Query: 484 VDLEWLRDVPPDKAKEYLLSFRGLGLKSVECVRLLTLHHLAFPV-DTNVGRIAVRLGWVP 542
+LE L++ ++A EYL SF+G+G + E V + L FP D V R RL +
Sbjct: 195 ENLEELKEWGEEEAYEYLTSFKGIGRWTAELVLSIALGKNVFPADDLGVRRAVSRLYFNG 254
Query: 543 LQPLPESLQLHLLELYPVLESI-QKYLW 569
E ++ E + YL+
Sbjct: 255 EIQSAEKVREIARERFGRFARDILFYLF 282
>1kg2_A A/G-specific adenine glycosylase; DNA repair, hydrolase; 1.20A
{Escherichia coli} SCOP: a.96.1.2 PDB: 1kg3_A 1muy_A
1kg6_A 1kg5_A 1mun_A 1mud_A 1kg4_A 1weg_A 1wei_A*
1wef_A* 1kg7_A 1kqj_A
Length = 225
Score = 41.4 bits (98), Expect = 6e-04
Identities = 27/107 (25%), Positives = 46/107 (42%), Gaps = 20/107 (18%)
Query: 527 VDTNVGRIAVRLGWVPLQPLPESLQLHLLELYPVLESIQKYLWPRLCKLDQRTLYELHYQ 586
+D NV R+ R + + +P + ++ LW ++ E Q
Sbjct: 137 LDGNVKRVLARC--------------YAVSGWPGKKEVENKLWSLSEQVTPAVGVERFNQ 182
Query: 587 -MITFGKVFCTKSKPNCNACPMRGECRHFASAFASSRLA-LPGPEEK 631
M+ G + CT+SKP C+ CP++ C A A++ A PG + K
Sbjct: 183 AMMDLGAMICTRSKPKCSLCPLQNGCI----AAANNSWALYPGKKPK 225
>1kea_A Possible G-T mismatches repair enzyme; DNA repair, DNA glycosylase,
DNA mismatch, methylation; 2.00A {Methanothermobacter
thermautotrophicusorganism_taxid} SCOP: a.96.1.2
Length = 221
Score = 39.9 bits (94), Expect = 0.002
Identities = 19/90 (21%), Positives = 25/90 (27%), Gaps = 16/90 (17%)
Query: 527 VDTNVGRIAVRLGWVPLQPLPESLQLHLLELYPVLESIQKYLWPRLCKLDQRTLYELHYQ 586
VD N R+ R Y L K LW L
Sbjct: 143 VDANFVRVINRY--------------FGGS-YENLNYNHKALWELAETLVPGGKCRDFNL 187
Query: 587 -MITFGKVFCTKSKPNCNACPMRGECRHFA 615
++ F + C KP C C M C ++
Sbjct: 188 GLMDFSAIICAPRKPKCEKCGMSKLCSYYE 217
>3n5n_X A/G-specific adenine DNA glycosylase; alpha-helices,
helix-hairpin-helix motif, iron-sulfur cluste hydrolase;
2.30A {Homo sapiens}
Length = 287
Score = 40.3 bits (95), Expect = 0.002
Identities = 11/47 (23%), Positives = 16/47 (34%), Gaps = 5/47 (10%)
Query: 587 MITFGKVFCTKSKPNCNACPMRGECRHFASAFASSRLA-LPGPEEKA 632
+ G CT +P C+ CP+ CR A L +
Sbjct: 204 AMELGATVCTPQRPLCSQCPVESLCR----ARQRVEQEQLLASGSLS 246
>2h56_A DNA-3-methyladenine glycosidase; 10174367, EC 3.2.2.-, struc
genomics, PSI-2, protein structure initiative, joint
center structural genomics; 2.55A {Bacillus halodurans}
Length = 233
Score = 39.3 bits (92), Expect = 0.003
Identities = 17/78 (21%), Positives = 28/78 (35%), Gaps = 5/78 (6%)
Query: 482 GSVDLEWLRDVPPDKAKEYLLSFRGLGLKSVECVRLLTLHHL-AFPVDTNVGRIAVRLGW 540
G +D L E L + +G+G + E + +L L VG + ++ G
Sbjct: 121 GRLDFTELEGAEATTVIEKLTAIKGIGQWTAEMFMMFSLGRLDVLS----VGDVGLQRGA 176
Query: 541 VPLQPLPESLQLHLLELY 558
L E LL +
Sbjct: 177 KWLYGNGEGDGKKLLIYH 194
>3fsp_A A/G-specific adenine glycosylase; protein-DNA complex, DNA
glycosylase, transition state analog, DNA repair; HET:
NRI; 2.20A {Geobacillus stearothermophilus} PDB: 3fsq_A*
1rrs_A* 1vrl_A* 1rrq_A* 3g0q_A*
Length = 369
Score = 39.2 bits (92), Expect = 0.005
Identities = 25/108 (23%), Positives = 40/108 (37%), Gaps = 20/108 (18%)
Query: 527 VDTNVGRIAVRLGWVPLQPLPESLQLHLLELYPVLESIQKYLWPRLCKLDQRTLYELHYQ 586
VD NV R+ RL L+ S +K + ++ +
Sbjct: 146 VDGNVMRVLSRL--------------FLVTDDIAKPSTRKRFEQIVREIMAYENPGAFNE 191
Query: 587 -MITFGKVFCTKSKPNCNACPMRGECRHFASAFASSRLA-LPGPEEKA 632
+I G + CT +P+C CP++ C+ AFA LP +K
Sbjct: 192 ALIELGALVCTPRRPSCLLCPVQAYCQ----AFAEGVAEELPVKMKKT 235
>2yg9_A DNA-3-methyladenine glycosidase II, putative; hydrolase, DNA
repair; 1.95A {Deinococcus radiodurans} PDB: 2yg8_A
Length = 225
Score = 38.5 bits (90), Expect = 0.006
Identities = 15/60 (25%), Positives = 22/60 (36%), Gaps = 5/60 (8%)
Query: 482 GSVDLEWLRDVPPDKAKEYLLSFRGLGLKSVECVRLLTLHHL-AFPVDTNVGRIAVRLGW 540
G +D L P + L+ G+G + E L L F G +A+R G
Sbjct: 129 GQIDFAHLSGQPDELVIAELVQLPGIGRWTAEMFLLFALARPDVFS----SGDLALRQGV 184
>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 = 34.5 bits (78), Expect = 0.054
Identities = 6/22 (27%), Positives = 12/22 (54%), Gaps = 1/22 (4%)
Query: 757 KNVSRLRTEHQVYELPDSHPLL 778
+ + +L+ ++Y DS P L
Sbjct: 20 QALKKLQASLKLYA-DDSAPAL 40
Score = 30.3 bits (67), Expect = 1.8
Identities = 10/27 (37%), Positives = 16/27 (59%), Gaps = 2/27 (7%)
Query: 720 QTLQNYMQENLELQEGDMSKALVALTA 746
Q L+ +Q +L+L D + AL A+ A
Sbjct: 20 QALKK-LQASLKLYADDSAPAL-AIKA 44
Score = 29.9 bits (66), Expect = 1.9
Identities = 7/31 (22%), Positives = 10/31 (32%), Gaps = 14/31 (45%)
Query: 621 SRLALPGPEEKAIVSANENRTNTQNPAMMIN 651
+ L L + SA PA+ I
Sbjct: 27 ASLKLYADD-----SA---------PALAIK 43
Score = 29.9 bits (66), Expect = 2.1
Identities = 9/42 (21%), Positives = 15/42 (35%), Gaps = 19/42 (45%)
Query: 137 LDSSFAPFADGTISSSNSNSDAGDSSNVPTLNSFNGSNSFVE 178
L +S +AD DS+ P L + + +E
Sbjct: 25 LQASLKLYAD-------------DSA--PAL-AIKAT---ME 47
Score = 28.8 bits (63), Expect = 4.9
Identities = 8/45 (17%), Positives = 17/45 (37%), Gaps = 17/45 (37%)
Query: 317 KNSIAQHESELFGDSRFAMEPPAHAQKNDLNLPKISSGSIDA-IE 360
K ++ + ++ L +A A P + +I A +E
Sbjct: 19 KQALKKLQASL---KLYA---DDSA-------PAL---AIKATME 47
>3fhf_A Mjogg, N-glycosylase/DNA lyase, DNA-(apurinic; helix-hairpin-helix,
8-oxoguanine, 8-OXOG, DNA damage, DNA repair,
glycosidase; 2.00A {Methanocaldococcus jannaschii} PDB:
3knt_A*
Length = 214
Score = 34.3 bits (78), Expect = 0.13
Identities = 21/132 (15%), Positives = 45/132 (34%), Gaps = 9/132 (6%)
Query: 448 ADVNKIANTIKERGMN--NMLAGRIKDFLNRLVRDHGSVDLEWLRDVPPDKAKEYLL-SF 504
++ +K G A I R ++ A+E+L+ +
Sbjct: 76 LPREELEEKLKNLGHRFYRKRAEYIVL-----ARRFKNIKDIVESFENEKVAREFLVRNI 130
Query: 505 RGLGLKSVECVRLLTLHHLAFPVDTNVGRIAVRLGWVPLQPLPESLQLHLLELYPVLESI 564
+G+G K + +D ++ R ++ P + LE+ +L I
Sbjct: 131 KGIGYKEASHFLRNVGYDDVAIIDRHILRELYENNYIDEIP-KTLSRRKYLEIENILRDI 189
Query: 565 QKYLWPRLCKLD 576
+ + +L +LD
Sbjct: 190 GEEVNLKLSELD 201
>3s6i_A DNA-3-methyladenine glycosylase 1; DNA glycosylase, DNA repair,
helix-hairpin-helix (HHH), ABAS tetrahydrofuran (THF);
HET: 3DR; 2.28A {Schizosaccharomyces pombe}
Length = 228
Score = 33.1 bits (76), Expect = 0.27
Identities = 15/79 (18%), Positives = 33/79 (41%), Gaps = 6/79 (7%)
Query: 482 GSVDL-EWLRDVPPDKAKEYLLSFRGLGLKSVECVRLLTLHHL-AFPVDTNVGRIAVRLG 539
G + E + ++ E L +G+G +VE + + +L+ P +++R G
Sbjct: 121 GLIPTKEEAERLSNEELIERLTQIKGIGRWTVEMLLIFSLNRDDVMP----ADDLSIRNG 176
Query: 540 WVPLQPLPESLQLHLLELY 558
+ L LP+ + +
Sbjct: 177 YRYLHRLPKIPTKMYVLKH 195
>3v0a_B NTNH; botulinum neurotoxin, toxin, neurotoxin associated protein,
progenitor toxin complex, VHH bound interlocked complex;
HET: MES; 2.70A {Clostridium botulinum} PDB: 3v0b_B
Length = 1196
Score = 31.4 bits (70), Expect = 1.7
Identities = 27/119 (22%), Positives = 49/119 (41%), Gaps = 16/119 (13%)
Query: 81 LHGSESSEEREVVSSNNSLESSTSVVSSINESKCKLMNSSEIYPETYNDVLSSPNS---- 136
L ++ E+ +SS+ VVSS ++S S+ ++ S ++
Sbjct: 506 LQAQNTNNEKFSLSSDFVE-----VVSSKDKSLVYSFLSNVMFYLDSIKDNSPIDTDKKY 560
Query: 137 ---LDSSFAPFADGTISSSNSNSDAGDSSNVP----TLNSFNGSNSFVELLQMVGSTML 188
L F ++ ++ N++ G + V LN N S+SFVE Q +G+ L
Sbjct: 561 YLWLREIFRNYSFDITATQEINTNCGINKVVTWFGKALNILNTSDSFVEEFQNLGAISL 619
>3kfu_F Aspartyl/glutamyl-tRNA(Asn/Gln) amidotransferase; ASPRS, gatcab,
ATP-binding, aminoacyl-tRNA synthetase, ligas
nucleotide-binding, protein biosynthesis, ligase-RNA
comple; HET: H2U 5MU PSU; 3.00A {Thermus thermophilus}
Length = 466
Score = 31.0 bits (71), Expect = 2.1
Identities = 15/52 (28%), Positives = 21/52 (40%), Gaps = 20/52 (38%)
Query: 582 ELHYQMITFGKVFCTKS------KPNCNACPMRGECRHFASAFASSRLALPG 627
E+H + T K+FC +PN + CP+ C L LPG
Sbjct: 9 EVHLHLKTRTKMFCGCRADYFGAEPNTHTCPV---C-----------LGLPG 46
>3g13_A Putative conjugative transposon recombinase; resolvase, PSI-II,
target 11223F, structural genomics, prote structure
initiative; 2.00A {Clostridium difficile}
Length = 169
Score = 29.9 bits (68), Expect = 2.5
Identities = 17/88 (19%), Positives = 32/88 (36%), Gaps = 20/88 (22%)
Query: 404 TRVSKEKQNDFDWDSLRRQVEANGGKKERPEHTKDSLDWEAVRC-ADVNKIANTIKER-G 461
RVS + ++ +S + QV+ + K + +W AD + +R
Sbjct: 12 CRVSTDSEDQL--NSYKSQVQY------YTDMIKKNKEWVLADIYADEAITGTQVTKRED 63
Query: 462 MNNML----AGRI-----KDFLNRLVRD 480
M+ G I K ++R R+
Sbjct: 64 FQRMINDCMNGEIDMVFTKS-ISRFARN 90
>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 = 5.8
Identities = 9/64 (14%), Positives = 22/64 (34%), Gaps = 8/64 (12%)
Query: 387 FSKELNGIDDATSKSKSTRVSKEKQNDFDW-----DSLRRQVEANGGKKERPEHTKDSLD 441
K L +D A+ + K K++ +W + + + N + + D
Sbjct: 94 QRKRLQELDAASKVMEQEWREKAKKDLEEWNQRQSEQVEKNKINN---RIADKAFYQQPD 150
Query: 442 WEAV 445
+ +
Sbjct: 151 ADII 154
>1dlc_A Delta-endotoxin CRYIIIA; 2.50A {Bacillus thuringiensis} SCOP:
b.18.1.3 b.77.2.1 f.1.3.1
Length = 584
Score = 29.4 bits (65), Expect = 7.0
Identities = 16/119 (13%), Positives = 37/119 (31%)
Query: 90 REVVSSNNSLESSTSVVSSINESKCKLMNSSEIYPETYNDVLSSPNSLDSSFAPFADGTI 149
R + SN+ + S S + N ++Y N L+ S S + +
Sbjct: 307 RPSIGSNDIITSPFYGNKSSEPVQNLEFNGEKVYRAVANTNLAVWPSAVYSGVTKVEFSQ 366
Query: 150 SSSNSNSDAGDSSNVPTLNSFNGSNSFVELLQMVGSTMLHGNYNHRNGHMSSDENSKDE 208
+ ++ + + + +S +L L Y+H+ ++
Sbjct: 367 YNDQTDEASTQTYDSKRNVGAVSWDSIDQLPPETTDEPLEKGYSHQLNYVMCFLMQGSR 425
>1fny_A BARK lectin, BARK agglutinin I,polypeptide A; legume lectin, jelly
roll, sugar binding protein; 1.81A {Robinia
pseudoacacia} SCOP: b.29.1.1 PDB: 1fnz_A*
Length = 237
Score = 28.6 bits (63), Expect = 7.9
Identities = 19/133 (14%), Positives = 41/133 (30%), Gaps = 7/133 (5%)
Query: 133 SPNSLDSSFAPFADGTISSSNSNSDAGDSSNVPTLNSFNGSNSFVELLQMVGSTMLHGNY 192
+ ++ A D G + FN SN V + T +G++
Sbjct: 78 QAPNPATTADGLAFFLAPVDTQPLDLGGMLGIFKDGYFNKSNQIVAV---EFDTFSNGDW 134
Query: 193 NHRNGHMSSDENSKDEHSQFQTLESNTQRVKVK-DIDDPKVLSRVSSIPPSSFHPCL--- 248
+ + H+ + NS + +N + V + S + PS +
Sbjct: 135 DPKGRHLGINVNSIESIKTVPWNWTNGEVANVFISYEASTKSLTASLVYPSLETSFIIDA 194
Query: 249 TQDLSVEVESYEM 261
D+ + + +
Sbjct: 195 IVDVKIVLPEWVR 207
>3fip_A Outer membrane usher protein PAPC; beta barrel, protein
translocase, cell membrane, cell outer fimbrium,
transmembrane, transport; 3.15A {Escherichia coli} PDB:
2vqi_A*
Length = 493
Score = 29.1 bits (65), Expect = 8.3
Identities = 13/73 (17%), Positives = 22/73 (30%), Gaps = 9/73 (12%)
Query: 149 ISSSNSNSDAGDSSNVPTLNSFNGSNSFVELLQMVGSTMLHGNYNHRNGHMSSDENSKDE 208
++ + S + G S+ + N G N +G L +Y S K
Sbjct: 9 LNGTVSRNYQGGDSHQFSYNGTVGGN--------LGPWRLRADYQGSQEQ-SRYNGEKTT 59
Query: 209 HSQFQTLESNTQR 221
+ F R
Sbjct: 60 NRNFTWSRFYLFR 72
>3h0l_B Aspartyl/glutamyl-tRNA(Asn/Gln) amidotransferase subunit B; multi
protein complex, ligase, protein biosynthesis; HET: ADP;
2.30A {Aquifex aeolicus} PDB: 3h0m_B 3h0r_B*
Length = 478
Score = 29.0 bits (66), Expect = 9.6
Identities = 17/51 (33%), Positives = 22/51 (43%), Gaps = 19/51 (37%)
Query: 582 ELHYQMITFGKVFCTKS-----KPNCNACPMRGECRHFASAFASSRLALPG 627
E+H QM T K+FC +PN N CP+ C L +PG
Sbjct: 12 EIHVQMDTKTKMFCGCKVEFGAEPNTNVCPV---C-----------LGMPG 48
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 0.130 0.380
Gapped
Lambda K H
0.267 0.0472 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Sequences: 27921
Number of Hits to DB: 13,876,224
Number of extensions: 808660
Number of successful extensions: 1282
Number of sequences better than 10.0: 1
Number of HSP's gapped: 1265
Number of HSP's successfully gapped: 47
Length of query: 960
Length of database: 6,701,793
Length adjustment: 103
Effective length of query: 857
Effective length of database: 3,825,930
Effective search space: 3278822010
Effective search space used: 3278822010
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: 62 (28.3 bits)