RPS-BLAST 2.2.26 [Sep-21-2011]
Database: pdb70
27,921 sequences; 6,701,793 total letters
Searching..................................................done
Query= 003575
(810 letters)
>3hnc_A Ribonucleoside-diphosphate reductase large subuni; oxidoreductase,
ribonucleotide reductase, allosteric enzyme, binding,
DNA replication; HET: TTP; 2.41A {Homo sapiens} PDB:
3hnd_A* 3hne_A* 3hnf_A*
Length = 792
Score = 1239 bits (3208), Expect = 0.0
Identities = 527/811 (64%), Positives = 652/811 (80%), Gaps = 20/811 (2%)
Query: 1 MYVIKRDGRKEPVRFDKITARLKKLSYGLSKEHCDPVLVAQKVCAGVYKGVTTTQLDELA 60
M+VIKRDGR+E V FDKIT+R++KL YGL+ + DP + KV G+Y GVTT +LD LA
Sbjct: 1 MHVIKRDGRQERVMFDKITSRIQKLCYGLNMDFVDPAQITMKVIQGLYSGVTTVELDTLA 60
Query: 61 AETAAAMTVNHPDYALLAGRVAVSNLHKITKNSFSETIKDMYNYYNKRSGKKASLVADDV 120
AETAA +T HPDYA+LA R+AVSNLHK TK FS+ ++D+YNY N +GK + +VA
Sbjct: 61 AETAATLTTKHPDYAILAARIAVSNLHKETKKVFSDVMEDLYNYINPHNGKHSPMVAKST 120
Query: 121 YEIIMKNAACLDGAIIYDRDFDFDYFGFKTLERSYLLKMDSRVVERPQHMLMRVSVGIHK 180
+I++ N L+ AIIYDRDF ++YFGFKTLERSYLLK++ +V ERPQHMLMRVSVGIHK
Sbjct: 121 LDIVLANKDRLNSAIIYDRDFSYNYFGFKTLERSYLLKINGKVAERPQHMLMRVSVGIHK 180
Query: 181 DDTDSALKTYHLMSQHWFTHATPTLFNAGTPQPQLSSCFLLCMKDDSIEGIYDTLKKCAI 240
+D D+A++TY+L+S+ WFTHA+PTLFNAGT +PQLSSCFLL MKDDSIEGIYDTLK+CA+
Sbjct: 181 EDIDAAIETYNLLSERWFTHASPTLFNAGTNRPQLSSCFLLSMKDDSIEGIYDTLKQCAL 240
Query: 241 ISKSAGGIGLSIHNIRASGSYIHGTNGSSNGIVPMLQVFNDTARYVDQGGGKRKGAFAIY 300
ISKSAGGIG+++ IRA+GSYI GTNG+SNG+VPML+V+N+TARYVDQGG KR GAFAIY
Sbjct: 241 ISKSAGGIGVAVSCIRATGSYIAGTNGNSNGLVPMLRVYNNTARYVDQGGNKRPGAFAIY 300
Query: 301 LEPWHADIFEFLDLRKNQGKEECRARDLFYALWVPDLFMERVRDDGKWSLFCPSDASGLA 360
LEPWH DIFEFLDL+KN GKEE RARDLF+ALW+PDLFM+RV + WSL CP++ GL
Sbjct: 301 LEPWHLDIFEFLDLKKNTGKEEQRARDLFFALWIPDLFMKRVETNQDWSLMCPNECPGLD 360
Query: 361 DSWGIEFEHLYSQYEEEGRAKMVISARKLWFEILNSQIETGTPYMLFKDSCNRKSNQQNL 420
+ WG EFE LY+ YE++GR + V+ A++LW+ I+ SQ ETGTPYML+KDSCNRKSNQQNL
Sbjct: 361 EVWGEEFEKLYASYEKQGRVRKVVKAQQLWYAIIESQTETGTPYMLYKDSCNRKSNQQNL 420
Query: 421 GTIKSSNLCTEIVEFSSPEETAVCNLASIALPRYVREKGVPVQSNVSKLVGSRDSKNRLF 480
GTIK SNLCTEIVE++S +E AVCNLAS+AL YV + +
Sbjct: 421 GTIKCSNLCTEIVEYTSKDEVAVCNLASLALNMYV-------------------TSEHTY 461
Query: 481 DFERLAEVTKIITENLNKIIDVNHYPIETTRRSNLRHRPIGIGIQGLADTFILLGLPFES 540
DF++LAEVTK++ NLNKIID+N+YP+ SN RHRPIGIG+QGLAD FIL+ PFES
Sbjct: 462 DFKKLAEVTKVVVRNLNKIIDINYYPVPEACLSNKRHRPIGIGVQGLADAFILMRYPFES 521
Query: 541 PEAQQLNKDIFETIYYHALKASAELAVKDGPYETYFGSPMSKGILQVDMWNITPSDRWDW 600
EAQ LNK IFETIYY AL+AS +LA + GPYETY GSP+SKGILQ DMWN+TP+D WDW
Sbjct: 522 AEAQLLNKQIFETIYYGALEASCDLAKEQGPYETYEGSPVSKGILQYDMWNVTPTDLWDW 581
Query: 601 SSLREMISKNGVRNSLLVAPMPTASTSQILGNNECFEPYTSNIYTRRVLSGEFIVVNKHL 660
L+E I+K G+RNSLL+APMPTAST+QILGNNE EPYTSNIYTRRVLSGEF +VN HL
Sbjct: 582 KVLKEKIAKYGIRNSLLIAPMPTASTAQILGNNESIEPYTSNIYTRRVLSGEFQIVNPHL 641
Query: 661 LKDLTELGLWSHALKTKIIYENGSVSKISEIPEELKAIYKTVWEIKQKTLVDMAADRGCY 720
LKDLTE GLW +K +II NGS+ I EIP++LK +YKTVWEI QKT++ MAA+RG +
Sbjct: 642 LKDLTERGLWHEEMKNQIIACNGSIQSIPEIPDDLKQLYKTVWEISQKTVLKMAAERGAF 701
Query: 721 IDQSQSLNIHMEQPDHGKLTSLHFYAWSKGMKTGMYYLRTRAAADAIKFTVDTSVLNN-E 779
IDQSQSLNIH+ +P++GKLTS+HFY W +G+KTGMYYLRTR AA+ I+FT++ L + E
Sbjct: 702 IDQSQSLNIHIAEPNYGKLTSMHFYGWKQGLKTGMYYLRTRPAANPIQFTLNKEKLKDKE 761
Query: 780 KANRADNDVEANLAQVVCSLKNQEECMACGS 810
K ++ + + E N A +VCSL+N++EC+ CGS
Sbjct: 762 KVSKEEEEKERNTAAMVCSLENRDECLMCGS 792
>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 = 1218 bits (3152), Expect = 0.0
Identities = 494/805 (61%), Positives = 636/805 (79%), Gaps = 17/805 (2%)
Query: 1 MYVIKRDGRKEPVRFDKITARLKKLSYGLSKEHCDPVLVAQKVCAGVYKGVTTTQLDELA 60
MYV KRDGRKEPV+FDKITAR+ +L YGL +H D V V Q++ +GVY+GVTT +LD LA
Sbjct: 1 MYVYKRDGRKEPVQFDKITARISRLCYGLDPKHIDAVKVTQRIISGVYEGVTTIELDNLA 60
Query: 61 AETAAAMTVNHPDYALLAGRVAVSNLHKITKNSFSETIKDMYNYYNKRSGKKASLVADDV 120
AET A MT HPDYA LA R+A+SNLHK T FS+ ++D+Y Y N +GK A +++DDV
Sbjct: 61 AETCAYMTTVHPDYATLAARIAISNLHKQTTKQFSKVVEDLYRYVNAATGKPAPMISDDV 120
Query: 121 YEIIMKNAACLDGAIIYDRDFDFDYFGFKTLERSYLLKMDSRVVERPQHMLMRVSVGIHK 180
Y I+M+N L+ AI+YDRDF + YFGFKTLERSYLL+++ +V ERPQH++MRV++GIH
Sbjct: 121 YNIVMENKDKLNSAIVYDRDFQYSYFGFKTLERSYLLRINGQVAERPQHLIMRVALGIHG 180
Query: 181 DDTDSALKTYHLMSQHWFTHATPTLFNAGTPQPQLSSCFLLCMKDDSIEGIYDTLKKCAI 240
D ++AL+TY+LMS +FTHA+PTLFNAGTP+PQ+SSCFL+ MK+DSIEGIYDTLK+CA+
Sbjct: 181 RDIEAALETYNLMSLKYFTHASPTLFNAGTPKPQMSSCFLVAMKEDSIEGIYDTLKECAL 240
Query: 241 ISKSAGGIGLSIHNIRASGSYIHGTNGSSNGIVPMLQVFNDTARYVDQGGGKRKGAFAIY 300
ISK+AGGIGL IHNIR++GSYI GTNG+SNG++PM++VFN+TARYVDQGG KR GAFA+Y
Sbjct: 241 ISKTAGGIGLHIHNIRSTGSYIAGTNGTSNGLIPMIRVFNNTARYVDQGGNKRPGAFALY 300
Query: 301 LEPWHADIFEFLDLRKNQGKEECRARDLFYALWVPDLFMERVRDDGKWSLFCPSDASGLA 360
LEPWHADIF+F+D+RKN GKEE RARDLF ALW+PDLFM+RV ++G W+LF P+ A GL+
Sbjct: 301 LEPWHADIFDFIDIRKNHGKEEIRARDLFPALWIPDLFMKRVEENGTWTLFSPTSAPGLS 360
Query: 361 DSWGIEFEHLYSQYEEEGRAKMVISARKLWFEILNSQIETGTPYMLFKDSCNRKSNQQNL 420
D +G EFE LY++YE+EGR K I A+KLW+ IL +Q ETGTP++++KD+CNRKSNQ+NL
Sbjct: 361 DCYGDEFEALYTRYEKEGRGK-TIKAQKLWYSILEAQTETGTPFVVYKDACNRKSNQKNL 419
Query: 421 GTIKSSNLCTEIVEFSSPEETAVCNLASIALPRYVREKGVPVQSNVSKLVGSRDSKNRLF 480
G IKSSNLC EIVE+S+P+ETAVCNLAS+ALP ++ S D K +
Sbjct: 420 GVIKSSNLCCEIVEYSAPDETAVCNLASVALPAFIET--------------SEDGKTSTY 465
Query: 481 DFERLAEVTKIITENLNKIIDVNHYPIETTRRSNLRHRPIGIGIQGLADTFILLGLPFES 540
+F++L E+ K++T NLN++ID N+YP+E R+SN+RHRPI +G+QGLADTF+LL LPF+S
Sbjct: 466 NFKKLHEIAKVVTRNLNRVIDRNYYPVEEARKSNMRHRPIALGVQGLADTFMLLRLPFDS 525
Query: 541 PEAQQLNKDIFETIYYHALKASAELAVKDGPYETYFGSPMSKGILQVDMWNITPSDRWDW 600
EA+ LN IFETIY+ +++AS ELA KDGPYET+ GSP S+GILQ DMW+ P WDW
Sbjct: 526 EEARLLNIQIFETIYHASMEASCELAQKDGPYETFQGSPASQGILQFDMWDQKPYGMWDW 585
Query: 601 SSLREMISKNGVRNSLLVAPMPTASTSQILGNNECFEPYTSNIYTRRVLSGEFIVVNKHL 660
+LR+ I K+GVRNSL +APMPTASTSQILG NECFEP TSN+Y+RRVLSGEF VVN +L
Sbjct: 586 DTLRKDIMKHGVRNSLTMAPMPTASTSQILGYNECFEPVTSNMYSRRVLSGEFQVVNPYL 645
Query: 661 LKDLTELGLWSHALKTKIIYENGSVSKISEIPEELKAIYKTVWEIKQKTLVDMAADRGCY 720
L+DL +LG+W +K +I +NGS+ + +P+ELK +YKTVWEI QKT+++MAADR Y
Sbjct: 646 LRDLVDLGIWDEGMKQYLITQNGSIQGLPNVPQELKDLYKTVWEISQKTIINMAADRSVY 705
Query: 721 IDQSQSLNIHMEQPDHGKLTSLHFYAWSKGMKTGMYYLRTRAAADAIKFTVDTSVLNNEK 780
IDQS SLN+ + P GKLTS+HFY W KG+KTGMYYLRT+AA+ AI+FT+D + +
Sbjct: 706 IDQSHSLNLFLRAPTMGKLTSMHFYGWKKGLKTGMYYLRTQAASAAIQFTIDQKIADQAT 765
Query: 781 ANRADNDVEANLAQV--VCSLKNQE 803
N AD + + S +
Sbjct: 766 ENVADISNLKRPSYMPSSASYAASD 790
Score = 29.1 bits (65), Expect = 7.1
Identities = 6/18 (33%), Positives = 9/18 (50%)
Query: 791 NLAQVVCSLKNQEECMAC 808
N + C++ N E C C
Sbjct: 869 NSKVIACAIDNPEACEMC 886
>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 = 1107 bits (2866), Expect = 0.0
Identities = 462/691 (66%), Positives = 562/691 (81%), Gaps = 19/691 (2%)
Query: 74 YALLAGRVAVSNLHKITKNSFSETIKDMYNYYNKRSGKKASLVADDVYEIIMKNAACLDG 133
A+LA R+AVSNLHK TK FS+ ++D+YNY N +GK + +VA +I++ N L+
Sbjct: 1 MAILAARIAVSNLHKETKKVFSDVMEDLYNYINPHNGKHSPMVAKSTLDIVLANKDRLNS 60
Query: 134 AIIYDRDFDFDYFGFKTLERSYLLKMDSRVVERPQHMLMRVSVGIHKDDTDSALKTYHLM 193
AIIYDRDF ++YFGFKTLERSYLLK++ +V ERPQHMLMRVSVGIHK+D D+A++TY+L+
Sbjct: 61 AIIYDRDFSYNYFGFKTLERSYLLKINGKVAERPQHMLMRVSVGIHKEDIDAAIETYNLL 120
Query: 194 SQHWFTHATPTLFNAGTPQPQLSSCFLLCMKDDSIEGIYDTLKKCAIISKSAGGIGLSIH 253
S+ WFTHA+PTLFNAGT +PQLSSCFLL MKDDSIEGIYDTLK+CA+ISKSAGGIG+++
Sbjct: 121 SERWFTHASPTLFNAGTNRPQLSSCFLLSMKDDSIEGIYDTLKQCALISKSAGGIGVAVS 180
Query: 254 NIRASGSYIHGTNGSSNGIVPMLQVFNDTARYVDQGGGKRKGAFAIYLEPWHADIFEFLD 313
IRA+GSYI GTNG+SNG+VPML+V+N+TARYVDQGG KR GAFAIYLEPWH DIFEFLD
Sbjct: 181 CIRATGSYIAGTNGNSNGLVPMLRVYNNTARYVDQGGNKRPGAFAIYLEPWHLDIFEFLD 240
Query: 314 LRKNQGKEECRARDLFYALWVPDLFMERVRDDGKWSLFCPSDASGLADSWGIEFEHLYSQ 373
L+KN GKEE RARDLF+ALW+PDLFM+RV + WSL CP++ GL + WG EFE LY+
Sbjct: 241 LKKNTGKEEQRARDLFFALWIPDLFMKRVETNQDWSLMCPNECPGLDEVWGEEFEKLYAS 300
Query: 374 YEEEGRAKMVISARKLWFEILNSQIETGTPYMLFKDSCNRKSNQQNLGTIKSSNLCTEIV 433
YE++GR + V+ A++LW+ I+ SQ ETGTPYML+KDSCNRKSNQQNLGTIK SNLCTEIV
Sbjct: 301 YEKQGRVRKVVKAQQLWYAIIESQTETGTPYMLYKDSCNRKSNQQNLGTIKCSNLCTEIV 360
Query: 434 EFSSPEETAVCNLASIALPRYVREKGVPVQSNVSKLVGSRDSKNRLFDFERLAEVTKIIT 493
E++S +E AVCNLAS+AL YV + +DF++LAEVTK++
Sbjct: 361 EYTSKDEVAVCNLASLALNMYVTSEHT-------------------YDFKKLAEVTKVVV 401
Query: 494 ENLNKIIDVNHYPIETTRRSNLRHRPIGIGIQGLADTFILLGLPFESPEAQQLNKDIFET 553
NLNKIID+N+YP+ SN RHRPIGIG+QGLAD FIL+ PFES EAQ LNK IFET
Sbjct: 402 RNLNKIIDINYYPVPEACLSNKRHRPIGIGVQGLADAFILMRYPFESAEAQLLNKQIFET 461
Query: 554 IYYHALKASAELAVKDGPYETYFGSPMSKGILQVDMWNITPSDRWDWSSLREMISKNGVR 613
IYY AL+AS +LA + GPYETY GSP+SKGILQ DMWN+TP+D WDW L+E I+K G+R
Sbjct: 462 IYYGALEASCDLAKEQGPYETYEGSPVSKGILQYDMWNVTPTDLWDWKVLKEKIAKYGIR 521
Query: 614 NSLLVAPMPTASTSQILGNNECFEPYTSNIYTRRVLSGEFIVVNKHLLKDLTELGLWSHA 673
NSLL+APMPTAST+QILGNNE EPYTSNIYTRRVLSGEF +VN HLLKDLTE GLW
Sbjct: 522 NSLLIAPMPTASTAQILGNNESIEPYTSNIYTRRVLSGEFQIVNPHLLKDLTERGLWHEE 581
Query: 674 LKTKIIYENGSVSKISEIPEELKAIYKTVWEIKQKTLVDMAADRGCYIDQSQSLNIHMEQ 733
+K +II NGS+ I EIP++LK +YKTVWEI QKT++ MAA+RG +IDQSQSLNIH+ +
Sbjct: 582 MKNQIIACNGSIQSIPEIPDDLKQLYKTVWEISQKTVLKMAAERGAFIDQSQSLNIHIAE 641
Query: 734 PDHGKLTSLHFYAWSKGMKTGMYYLRTRAAA 764
P++GKLTS+HFY W +G+KTGMYYLRTRA
Sbjct: 642 PNYGKLTSMHFYGWKQGLKTGMYYLRTRAHH 672
>2xap_A Ribonucleoside-diphosphate reductase 1 subunit alpha;
oxidoreductase, DNA replication, allosteric enzyme,
nucleotide-binding; HET: NIY; 2.10A {Escherichia coli}
PDB: 2xo5_A* 2x0x_A 2r1r_A 3r1r_A* 3uus_A* 1r1r_A
2xav_A* 7r1r_A 2xax_A* 6r1r_A 2xaw_A* 5r1r_A 2xo4_A*
2xak_A* 4r1r_A* 2xaz_A* 2xay_A* 1rlr_A 1qfn_B
Length = 761
Score = 1079 bits (2794), Expect = 0.0
Identities = 208/816 (25%), Positives = 330/816 (40%), Gaps = 104/816 (12%)
Query: 1 MYVIKRDGRKEPVRFDKITARLKKLSYGLSKEHCDPVLVAQKVCAGVYKGVTTTQLDELA 60
+ V KRDG E + DKI L + GL + V + Y G+ T+ + E
Sbjct: 5 LLVTKRDGSTERINLDKIHRVLDWAAEGL--HNVSISQVELRSHIQFYDGIKTSDIHETI 62
Query: 61 AETAAAM-TVNHPDYALLAGRVAVSNLHKITKNSFSETIKDMYNYYNK--RSGKKASLVA 117
+ AA + + + PDY LA R+A+ +L K F +Y++ K GK + +
Sbjct: 63 IKAAADLISRDAPDYQYLAARLAIFHLRKKAYGQFEPP--ALYDHVVKMVEMGKYDNHLL 120
Query: 118 DDVYEIIMKNAACLDGAIIYDRDFDFDYFGFKTLERSYLL--KMDSRVVERPQHMLMRVS 175
+D E + +D I +DRD F Y K LE YL+ ++ + E Q + + V+
Sbjct: 121 EDYTE---EEFKQMDTFIDHDRDMTFSYAAVKQLEGKYLVQNRVTGEIYESAQFLYILVA 177
Query: 176 VGIH-----KDDTDSALKTYHLMSQHWFTHATPTLFNAGTPQPQLSSCFLLCMKDDSIEG 230
+ + + Y +S + TP + TP Q SSC L+ DS++
Sbjct: 178 ACLFSNYPRETRLQYVKRFYDAVSTFKISLPTPIMSGVRTPTRQFSSCVLIEC-GDSLDS 236
Query: 231 IYDTLKKCAIISKSAGGIGLSIHNIRASGSYIHGTNGSSNGIVPMLQVFNDTARYVDQGG 290
I T GIG++ IRA GS I G G +P + F + QGG
Sbjct: 237 INATSSAIVKYVSQRAGIGINAGRIRALGSPIRGGEAFHTGCIPFYKHFQTAVKSCSQGG 296
Query: 291 GKRKGAFAIYLEPWHADIFEFLDLRKNQGKEECRARDLFYALWVPDLFMERVRDDGKWSL 350
R GA ++ WH ++ L L+ N+G E R R + Y + + L R+ +L
Sbjct: 297 -VRGGAATLFYPMWHLEVESLLVLKNNRGVEGNRVRHMDYGVQINKLMYTRLLKGEDITL 355
Query: 351 FCPSDASGLADSWGI---EFEHLYSQYEEEGR-AKMVISARKLWFEILNSQIETGTPYML 406
F PSD GL D++ EFE LY++YE++ K + A +L+ ++ + TG Y+
Sbjct: 356 FSPSDVPGLYDAFFADQEEFERLYTKYEKDDSIRKQRVKAVELFSLMMQERASTGRIYIQ 415
Query: 407 FKDSCNRKSN-QQNLGTIKSSNLCTEIVEFSSPE--------ETAVCNLASIALPRYVRE 457
D CN S + ++ SNLC EI + P E A+C L++ L
Sbjct: 416 NVDHCNTHSPFDPAIAPVRQSNLCLEIALPTKPLNDVNDENGEIALCTLSAFNLGAIN-- 473
Query: 458 KGVPVQSNVSKLVGSRDSKNRLFDFERLAEVTKIITENLNKIIDVNHYPIETTRRSNLRH 517
+ + L E+ + L+ ++D YPI +R +
Sbjct: 474 -----------------------NLDELEELAILAVRALDALLDYQDYPIPAAKRGAMGR 510
Query: 518 RPIGIGIQGLADTFILLGLPFESPEAQQLNKDIFETIYYHALKASAELAVKDGPYETYFG 577
R +GIG+ A G + A L FE I Y+ LKAS ELA + G +
Sbjct: 511 RTLGIGVINFAYYLAKHGKRYSDGSANNLTHKTFEAIQYYLLKASNELAKEQGACPWFNE 570
Query: 578 SPMSKGILQVDMWN------ITPSDRWDWSSLREMISKNGVRNSLLVAPMPTASTSQILG 631
+ +KGIL +D + +DW +LRE I +G+RNS L A MP+ ++SQI
Sbjct: 571 TTYAKGILPIDTYKKDLDTIANEPLHYDWEALRESIKTHGLRNSTLSALMPSETSSQISN 630
Query: 632 NNECFEPYTSNIYTRRVLSGEFIVVNKHLLKDLTELGLWSHALKTKIIYENGSVSKISEI 691
EP + + G V
Sbjct: 631 ATNGIEPPRGYVSIKASKDGILRQVVPDY------------------------------- 659
Query: 692 PEELKAIYKTVWEIK-QKTLVDMAADRGCYIDQSQSLNIHM-------EQPDHGKLTSLH 743
E L Y+ +WE+ + + +IDQS S N + + +L
Sbjct: 660 -EHLHDAYELLWEMPGNDGYLQLVGIMQKFIDQSISANTNYDPSRFPSGKVPMQQLLKDL 718
Query: 744 FYAWSKGMKTGMYYLRTRAAADAIKFTVDTSVLNNE 779
A+ G+KT +Y TR A+ + + S+ ++
Sbjct: 719 LTAYKFGVKT-LYXQNTRDGAEDAQDDLVPSIQDDG 753
>1peq_A Ribonucleoside-diphosphate reductase 2 alpha chain; stranded
alpha/beta barrel, protein-specificity-effector complex,
DTTP; HET: TTP; 2.80A {Salmonella typhimurium} SCOP:
a.98.1.1 c.7.1.2 PDB: 1peo_A* 1pem_A* 1peu_A* 2bq1_E*
Length = 714
Score = 932 bits (2412), Expect = 0.0
Identities = 172/766 (22%), Positives = 285/766 (37%), Gaps = 122/766 (15%)
Query: 59 LAAETAAAMTVNHPDYALLAGRVAVSNL--HKITKNSFSETIKDMYNYYNKRSGKKAS-- 114
+A T + DY L + + + H + S AS
Sbjct: 1 MATTTPERVMQETMDYHALNAMLNLYDKAGHIQFDKDQQAIDAFFATHVRPHSVTFASQH 60
Query: 115 -----LVADDVYEIIM------KNAACLDGAIIYDRDFDFDYFGFKTLERSYLLKMD--S 161
LV + Y+ + L + G SY LK
Sbjct: 61 ERLGTLVREGYYDDAVLARYDRAFVLRLFEHAHASGFRFQTFLGAWKFYTSYTLKTFDGK 120
Query: 162 RVVERPQHMLMRVSVGIHKDDTDSALKTYHLMSQHWFTHATPTLFNAGTPQ-PQLSSCFL 220
R +E + + V++ + + D A + M F ATPT N G Q +L SCFL
Sbjct: 121 RYLEHFEDRVTMVALTLAQGDETLATQLTDEMLSGRFQPATPTFLNCGKQQRGELVSCFL 180
Query: 221 LCMKDDSIEGIYDTLKKCAIISKSAGGIGLSIHNIRASGSYIHGTNGSSNGIVPMLQVFN 280
L + +D++E I + +SK GG+ + N+R +G+ I S+G++P++++
Sbjct: 181 LRI-EDNMESIGRAVNSALQLSKRGGGVAFLLSNLREAGAPIKRIENQSSGVIPVMKMLE 239
Query: 281 DTARYVDQGGGKRKGAFAIYLEPWHADIFEFLDLRKNQGKEECRARDLFYALWVPDLFME 340
D Y +Q G R+GA A+YL H DI FLD ++ E+ R + L + +PD+
Sbjct: 240 DAFSYANQLG-ARQGAGAVYLHAHHPDILRFLDTKRENADEKIRIKTLSLGVVIPDITFR 298
Query: 341 RVRDDGKWSLFCPSDASGLADSWGIEFE-----HLYSQYEEEGR-AKMVISARKLWFEIL 394
+++ + +LF P D + +G F Y + + K I+AR + +
Sbjct: 299 LAKENAQMALFSPYD---IQRRYGKPFGDIAISERYDELIADPHVRKTYINARDFFQTLA 355
Query: 395 NSQIETGTPYMLFKDSCNRKSNQQNLGTIKSSNLCTEIVEFSSPE------------ETA 442
Q E+G PY++F+D+ NR + G I SNLC+EI++ +S
Sbjct: 356 EIQFESGYPYIMFEDTVNRANPIA--GRINMSNLCSEILQVNSASRYDDNLDYTHIGHDI 413
Query: 443 VCNLASIALPRYVREKGVPVQSNVSKLVGSRDSKNRLFDFERLAEVTKIITENLNKIIDV 502
CNL S+ + + D + + L + D+
Sbjct: 414 SCNLGSLNIAHVM-------------------------DSPDIGRTVETAIRGLTAVSDM 448
Query: 503 NHY-PIETTRRSNLRHRPIGIGIQGLADTFILLGLPFESPEAQQLNKDIFETIYYHALKA 561
+H + + N IG+G L G+ + SPEA F TI +HA+
Sbjct: 449 SHIRSVPSIAAGNAASHAIGLGQMNLHGYLAREGIAYGSPEALDFTNLYFYTITWHAVHT 508
Query: 562 SAELAVKDGP-YETYFGSPMSKGIL----QVDMWN--------------ITPSDRWDWSS 602
S LA + G + + S + G D W IT R W
Sbjct: 509 SMRLARERGKTFAGFAQSRYASGDYFTQYLQDDWQPKTAKVRALFARSGITLPTREMWLK 568
Query: 603 LREMISKNGVRNSLLVAPMPTASTSQILGNNECFEPYTSNIYTRRV-LSGEFIVVNKHLL 661
LR+ + + G+ N L A PT S S I P + I R+ +G +
Sbjct: 569 LRDDVMRYGIYNQNLQAVPPTGSISYINHATSSIHPIVAKIEIRKEGKTGRVYYPAPFM- 627
Query: 662 KDLTELGLWSHALKTKIIYENGSVSKISEIPEELKAIYKTVWEIKQKTLVDMAADRGCYI 721
E +Y+ ++I + ++D A+ ++
Sbjct: 628 ------------------------------TNENLDMYQDAYDIGPEKIIDTYAEATRHV 657
Query: 722 DQSQSLNIHM-EQPDHGKLTSLHFYAWSKGMKTGMYYLRTRAAADA 766
DQ SL + + + YAW KG+K+ +YY+R R A
Sbjct: 658 DQGLSLTLFFPDTATTRDINKAQIYAWRKGIKS-LYYIRLRQLALE 702
>3o0q_A Ribonucleoside-diphosphate reductase; alpha/beta barrel,
adenosylcobalamin dependent, ribonucle reductase; HET:
TTP GDP ADN; 1.80A {Thermotoga maritima} PDB: 1xjf_A*
1xjg_A* 1xje_A* 1xjk_A* 1xjm_A* 1xjn_A* 3o0n_A* 3o0o_A*
1xjj_A*
Length = 644
Score = 851 bits (2200), Expect = 0.0
Identities = 154/692 (22%), Positives = 262/692 (37%), Gaps = 99/692 (14%)
Query: 131 LDGAIIYDRDFDFDYFGFKTLERSYLLK-MDSRVVERP-QHMLMRVSVGI---------- 178
L I D + L Y +K +D +E + + RV+ +
Sbjct: 3 LSDLISRWIDVEPSKNAQIILRDRYFMKDLDGNYLETKWEDVARRVARVVATAELLNPSY 62
Query: 179 -HKDDTDSALKT----YHLMSQHWFTHATPTLFNAG------------------------ 209
+ D + + ++ F +PTLFNAG
Sbjct: 63 KKNEKLDRIKEWEDIFFRVLKARLFIPNSPTLFNAGLGVKHDLLWKPIDQMTLEDYEEIY 122
Query: 210 ---TPQPQLSSCFLLCMKDDSIEGIYDTLKKCAIISKSAGGIGLSIHNIRASGSYIHGTN 266
LS+CF++ + DSIE I++ +K+ A+I+K GG+G + +R GS++ GT+
Sbjct: 123 RSRNHLHMLSACFVVPV-GDSIEEIFEAVKEYALITKVGGGVGSNFSELRPKGSFVAGTH 181
Query: 267 GSSNGIVPMLQVFNDTARYVDQGGGKRKGAFAIYLEPWHADIFEFLDLRKNQGKEEC-RA 325
G ++G V + VFN V Q G +R+GA L H DI EF+D +K E
Sbjct: 182 GKASGPVSFMHVFNSAISVVKQ-GSRRRGALMGILNINHPDIEEFIDAKKENTGEAVLNF 240
Query: 326 RDLFYALWV-PDLFMERVRDDGKWSLFCPSDASGLADSWGIEFEHLYSQYEEEGRAKMVI 384
+L + ++ +DG+ L P + +
Sbjct: 241 FNLSVGFPMDKKEILKLYEEDGELELSHP-----------------------RSTIRKKV 277
Query: 385 SARKLWFEILNSQIETGTPYMLFKDSCNRKSNQQNLGTIKSSNLCTEIVEFSSPEETAVC 444
R+L+ +I + ++G P + F N+ I S+N C EI + C
Sbjct: 278 KIRELFRKIATNAWKSGDPGLAFLGEMNKYYPLYPHRKINSTNPCGEI----GLSDYEAC 333
Query: 445 NLASIALPRYVREKGVPVQSNVSKLVGSRDSKNRLFDFERLAEVTKIITENLNKIIDVNH 504
NL SI + ++ D E L E+ +I L+ +IDVN
Sbjct: 334 NLGSIDVAKFYNNGF--------------------VDLEALQELVQIAVRFLDNVIDVNV 373
Query: 505 YPIETTRRSNLRHRPIGIGIQGLADTFILLGLPFESPEAQQLNKDIFETIYYHALKASAE 564
+PI+ ++ R +G+GI G AD L +P+ S EA+ ++ I HA + S E
Sbjct: 374 FPIDKITKAVKESRRLGLGIMGFADLLYKLEIPYNSQEARDFAANLMAFIALHAHRTSYE 433
Query: 565 LAVKDGPYETYFGSPMSKGILQVDMWNITPSDRWDWSSLREMISKNGVRNSLLVAPMPTA 624
L + G + S + + S+ D ++K RN L+ PT
Sbjct: 434 LGKEKGNFPLLEISRYRTE-DNFVPFAMGMSNYDDEIREVMKMTKEFRRNVALLTIAPTG 492
Query: 625 STSQILGNNECFEPYTSNIYTRRVLSGEFIVVNKHLLKDLTELGLWSHALKT--KIIYEN 682
S S I + EP YTR V + + + L LK K + E
Sbjct: 493 SISNIADTSSGLEPNFLLAYTRFVTKEDGTKEPLLYVNQVLREKLNPEILKRIEKELIEK 552
Query: 683 GSVSKISEIPEELKAIYKTVWEIKQKTLVDMAADRGCYIDQSQSLNIHM-EQPDHGKLTS 741
GS+ I ++PE++K ++ +I + M Y+D + S I+M + + +
Sbjct: 553 GSLKDIPDVPEKIKKVFVVALDIDPMDHLLMQDAFQRYVDNNISKTINMPQSATVDDVLN 612
Query: 742 LHFYAWSKGMKTGMYYLRTRAAADAIKFTVDT 773
++ A ++ Y + + T
Sbjct: 613 VYLEALRTNVRGITVYRDGSLQTQVLTKALKT 644
>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 = 66.4 bits (161), Expect = 3e-11
Identities = 96/654 (14%), Positives = 190/654 (29%), Gaps = 186/654 (28%)
Query: 114 SLVAD-DVYEI--IMKNAACLDGAIIYDRDFDFDYFGFKTLERSY-----LLKMDSRVVE 165
+ V + D ++ + K+ I+ + D + + LL +V+
Sbjct: 28 AFVDNFDCKDVQDMPKS-------ILSKEEIDHIIMSKDAVSGTLRLFWTLLSKQEEMVQ 80
Query: 166 RPQHMLMRVSVG-----IHKDDTDSALKTYHLMSQHWFTHATPTLF---NAGTPQP--QL 215
+ ++R++ I + ++ T + Q + +F N QP +L
Sbjct: 81 KFVEEVLRINYKFLMSPIKTEQRQPSMMTRMYIEQRDRLYNDNQVFAKYNVSRLQPYLKL 140
Query: 216 SSCFLLCMKDDSIEGIY------------DTLKKCAIISKSAGGIGLSIHNIRASGSYIH 263
LL ++ I D + K I +++
Sbjct: 141 RQA-LLELRPAKNVLIDGVLGSGKTWVALDVCLSYKVQCKMDFKI-----------FWLN 188
Query: 264 -GTNGSSNGIVPMLQVFNDTARYVDQGGGKRKGAFAIYLEPWHADIFEFLDLRKNQGKEE 322
S ++ MLQ +D R +D + LR + +
Sbjct: 189 LKNCNSPETVLEMLQ---KLLYQIDPNWTSR------------SDHSSNIKLRIHSIQA- 232
Query: 323 CRARDLFYALWVPD--LFMERVRDDGKWSLF---CP-----SDASGLADSWG------IE 366
R L + + L + V++ W+ F C + D I
Sbjct: 233 -ELRRLLKSKPYENCLLVLLNVQNAKAWNAFNLSCKILLTTRFKQ-VTDFLSAATTTHIS 290
Query: 367 FEHLYSQY-EEEGRAKMVISARKLWFEI--LNSQIETGTPYML------FKDSCNRKSNQ 417
+H +E ++ + + L L ++ T P L +D N
Sbjct: 291 LDHHSMTLTPDEVKS---LLLKYLDCRPQDLPREVLTTNPRRLSIIAESIRDGLATWDNW 347
Query: 418 QNLGTIKSSNLCTEIVEFSSPEETAVC--NLA----SIALPRYV------REKGVPVQSN 465
+++ K + + + P E L+ S +P + V
Sbjct: 348 KHVNCDKLTTIIESSLNVLEPAEYRKMFDRLSVFPPSAHIPTILLSLIWFDVIKSDVMVV 407
Query: 466 VSKLVGS----RDSKNRLFDFERLAEVTKIITEN---LNKIIDVNHYPIETTRRSNLRHR 518
V+KL + K + K+ EN L++ I V+HY I
Sbjct: 408 VNKLHKYSLVEKQPKESTISIPSIYLELKVKLENEYALHRSI-VDHYNI----------- 455
Query: 519 PIGIGIQGLADTFILLGLPFESPEAQQLNKDIFETIYYHALKASAELAVKDGPYETYFGS 578
+ L++ + I +H LK E + + F
Sbjct: 456 --------------PKTFDSDDLIPPYLDQYFYSHIGHH-LKN-IEHPERMTLFRMVF-- 497
Query: 579 PMSKGILQVDMWNITPSDRWDWSSLREMISKNGVRNSLLVAPMPTASTSQILGNNECFEP 638
+D R+ L + I + A + S L + ++P
Sbjct: 498 --------LDF-------RF----LEQKIRHDS------TAWNASGSILNTLQQLKFYKP 532
Query: 639 Y---TSNIYTRRVLS--------GEFIVVNKHLLKDLTELGLWSHALKTKIIYE 681
Y Y R V + E ++ +K+ DL + L + + + I+E
Sbjct: 533 YICDNDPKYERLVNAILDFLPKIEENLICSKYT--DLLRIALMA---EDEAIFE 581
Score = 51.8 bits (123), Expect = 8e-07
Identities = 66/468 (14%), Positives = 119/468 (25%), Gaps = 165/468 (35%)
Query: 407 FKDSCNRKSNQQNLGTIKSSNLCTEIVEFSSPEETAVCNLASIALPRYVREKGVPVQSNV 466
F D+ + K Q +I S I+ S + L + K + V
Sbjct: 29 FVDNFDCKDVQDMPKSILSKEEIDHIIM-SKDAVSGTLRLFWT-----LLSKQ---EEMV 79
Query: 467 SKLVGSRDSKNRLFDFERLAEV-------TKIITENLNKIIDVNH----Y------PIET 509
K V N F + T++ E +++ + N Y P
Sbjct: 80 QKFVEEVLRINYKFLMSPIKTEQRQPSMMTRMYIEQRDRLYNDNQVFAKYNVSRLQPYLK 139
Query: 510 TRRS--NLRHRPIGIGIQG--------LA-----DTFILLGLPFE----------SPEA- 543
R++ LR + I G +A + + F+ SPE
Sbjct: 140 LRQALLELRPAK-NVLIDGVLGSGKTWVALDVCLSYKVQCKMDFKIFWLNLKNCNSPETV 198
Query: 544 -QQLNKDIFETIYYHALKASAELAVKDGPYETYFGSPMSKGILQVDMWNITPSDRWDWSS 602
+ L + Y + S L++ +
Sbjct: 199 LEMLQ-----KLLYQIDPNWTSRS-----------DHSSNIKLRIHSIQ---------AE 233
Query: 603 LREMISKNGVRNSLLVAPMPTASTSQILGN---NECFEPY---------TSNIYTRRVLS 650
LR ++ N LL +L N + + + T LS
Sbjct: 234 LRRLLKSKPYENCLL-----------VLLNVQNAKAWNAFNLSCKILLTTRFKQVTDFLS 282
Query: 651 G--EFIVVNKHLLKDLTE---LGLWSHALKTKIIYENGSVSKISEIPEELKAI------- 698
+ H LT L L + ++P E+
Sbjct: 283 AATTTHISLDHHSMTLTPDEVKSLLLKYLDC----------RPQDLPREVLTTNPRRLSI 332
Query: 699 --------------YKTVWEIKQKTLVDMAAD-------RGCYIDQS---QSLNI----- 729
+K V K T+++ + + R + S S +I
Sbjct: 333 IAESIRDGLATWDNWKHVNCDKLTTIIESSLNVLEPAEYRKMFDRLSVFPPSAHIPTILL 392
Query: 730 -----HMEQPDHGK-LTSLHFYA----WSKGMKTGMY--YLRTRAAAD 765
+ + D + LH Y+ K + YL + +
Sbjct: 393 SLIWFDVIKSDVMVVVNKLHKYSLVEKQPKESTISIPSIYLELKVKLE 440
Score = 51.8 bits (123), Expect = 8e-07
Identities = 78/547 (14%), Positives = 144/547 (26%), Gaps = 192/547 (35%)
Query: 9 RKEPVRFDKITARLKKLS-------YGLSKEHCDPVLVAQKVCAGVYKGVTTTQLDELAA 61
R +P K+ L +L G+ G K +A
Sbjct: 133 RLQPY--LKLRQALLELRPAKNVLIDGV---------------LGSGKTW-------VAL 168
Query: 62 ETAAAMTV--NHPD--YALLAGRV--------AVSNL-HKITKN-----SFSETIKDMYN 103
+ + V + L + L ++I N S IK +
Sbjct: 169 DVCLSYKVQCKMDFKIFWLNLKNCNSPETVLEMLQKLLYQIDPNWTSRSDHSSNIKLRIH 228
Query: 104 --------YYNKRSGKKASLVADDVY--EIIMK-NAAC--------------LDGAIIYD 138
+ + LV +V + N +C L A
Sbjct: 229 SIQAELRRLLKSKPYENCLLVLLNVQNAKAWNAFNLSCKILLTTRFKQVTDFLSAATTTH 288
Query: 139 RDFDFDYFGFKTLERSYLLKMDSRVVERPQHMLMRVSVGIH-----------KDDTDSAL 187
D E LL + ++ L R + + +D
Sbjct: 289 ISLDHHSMTLTPDEVKSLL---LKYLDCRPQDLPREVLTTNPRRLSIIAESIRDGLA--- 342
Query: 188 KTYHLMSQHW-------FTHATPTLFNAGTPQPQLSSCF---------------LLC--- 222
+W T + N P + F LL
Sbjct: 343 -----TWDNWKHVNCDKLTTIIESSLNVLEP-AEYRKMFDRLSVFPPSAHIPTILLSLIW 396
Query: 223 --MKDDSIEGIYDTLKKCAIISKSAGGIGLSIHNI-------RASGSYIHGTNGSSNGIV 273
+ + + + L K +++ K +SI +I + +H +
Sbjct: 397 FDVIKSDVMVVVNKLHKYSLVEKQPKESTISIPSIYLELKVKLENEYALHRS-------- 448
Query: 274 PMLQVFNDTARYVDQGGGKRKGAFAIYLEPWHAD--IFEFLD--LRKNQGKEECRARDLF 329
++ +N + D L P + D + + L+ + E LF
Sbjct: 449 -IVDHYNIPKTF-DSDD----------LIPPYLDQYFYSHIGHHLKNIEHPER---MTLF 493
Query: 330 YALWVPDL-FMER-VRDDGKWSLFCPSDASGLADSWGIEFEHLYSQYEEEGRAKMVISAR 387
+++ D F+E+ +R D S + L ++F Y Y I
Sbjct: 494 RMVFL-DFRFLEQKIRHDSTAWNASGSILNTLQQ---LKF---YKPY---------ICDN 537
Query: 388 KLWFEILNSQIETGTPYMLFKDSCNRKSNQQNLGTIKSSNLCTEIVEFS-SPEETAVCNL 446
+E L + I F +NL I S T+++ + E+ A+
Sbjct: 538 DPKYERLVNAILD------FLPKIE-----ENL--ICSK--YTDLLRIALMAEDEAIFEE 582
Query: 447 ASIALPR 453
A + R
Sbjct: 583 AHKQVQR 589
Score = 36.4 bits (83), Expect = 0.047
Identities = 36/284 (12%), Positives = 82/284 (28%), Gaps = 81/284 (28%)
Query: 536 LPFESPEAQQLNKDIFETIYYHALKASAELAVKDGPYETYFGSPMSKGILQVDMWNITPS 595
+ FE+ E Q KDI ++ A KD DM
Sbjct: 7 MDFETGEHQYQYKDILS-VFEDAFV--DNFDCKDVQ----------------DM------ 41
Query: 596 DRWDWSSLREMISKNGVRNSLLVAPMPTASTSQILGNNECFEPYTSNIYTRRVLSGEFIV 655
+ ++SK + + ++++ + T ++ + + F
Sbjct: 42 -------PKSILSKEEIDH-IIMSKDAVSGTLRLFW---TLLSKQEEMVQK------F-- 82
Query: 656 VNKHLLKDLTELGLWSHALKTKIIYENGSVSKISEI-PEELKAIYKTVWEIKQKTLVDMA 714
V + L + + L + I E S ++ + E+ +Y +
Sbjct: 83 VEEVLRINYK----F---LMSPIKTEQRQPSMMTRMYIEQRDRLYNDN-----QVFAKYN 130
Query: 715 ADRGCYIDQSQSLNIHMEQPDHGKLTSLHFYAWSKGMK-TGMYYLRTRAAADAIKFTVDT 773
R + L + + K + G+ +G +T A D
Sbjct: 131 VSR---LQPYLKLRQALLELRPAKNVLID------GVLGSG----KTWVALDVCLSYKVQ 177
Query: 774 SVLNNE-------KANRADNDVE--ANL-AQVVCSLKNQEECMA 807
++ + N + +E L Q+ + ++ + +
Sbjct: 178 CKMDFKIFWLNLKNCNSPETVLEMLQKLLYQIDPNWTSRSDHSS 221
Score = 33.3 bits (75), Expect = 0.39
Identities = 22/143 (15%), Positives = 40/143 (27%), Gaps = 31/143 (21%)
Query: 676 TKIIYENGSVSKISEIPEELKAIYKTVW--EIKQKTLVDMAADRGCYIDQSQSLNIHMEQ 733
K I + I + + + W KQ+ +V + +
Sbjct: 42 PKSILSKEEIDHIIMSKDAVSGTLRLFWTLLSKQEEMVQKFVEEV-------------LR 88
Query: 734 PDHGKL-TSLHFYAWSKGMKTGMY-YLRTRAAADAIKFTVDTSVLNNEKANRADNDVEAN 791
++ L + + M T MY R R D F K N +
Sbjct: 89 INYKFLMSPIKTEQRQPSMMTRMYIEQRDRLYNDNQVFA---------KYNVSRLQPYLK 139
Query: 792 LAQVVCSLKNQE----ECMA-CG 809
L Q + L+ + + + G
Sbjct: 140 LRQALLELRPAKNVLIDGVLGSG 162
>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 = 60.4 bits (146), Expect = 2e-09
Identities = 120/693 (17%), Positives = 193/693 (27%), Gaps = 263/693 (37%)
Query: 16 DKITARLKKLSYGLSKEHCDPVLVAQKVCAGVYKGVTTTQLDE-----LAAETAAAMTVN 70
D + R LS+G S EH +LV + +QL E L T +
Sbjct: 2 DAYSTRPLTLSHG-SLEH--VLLVP----TASF--FIASQLQEQFNKILPEPTEGFAADD 52
Query: 71 HPDYAL-LAGR----VAVSNLHKITKNSFSETIKDMYNYYNKRSGKKASLVADDVYEIIM 125
P L G+ V+ S + F + + + L +D++ +
Sbjct: 53 EPTTPAELVGKFLGYVS-SLVEPSKVGQFDQVLNLCLTEFEN-----CYLEGNDIHAL-- 104
Query: 126 KNAACLDGAIIYDRDFDFDYFGFKTLERSYL---LKMDSRVVERPQHMLMR-VSVGIHK- 180
AA L + D K L ++Y+ + ++ L R V G +
Sbjct: 105 --AAKLLQ------ENDTTLVKTKELIKNYITARIMAKRPFDKKSNSALFRAVGEGNAQL 156
Query: 181 -------DDTDSALK-------TYHLMSQHWFTHATPTLFNAGTPQPQLSSCF------- 219
+TD + TYH++ + TL F
Sbjct: 157 VAIFGGQGNTDDYFEELRDLYQTYHVLVGDLIKFSAETLSELIRTTLDAEKVFTQGLNIL 216
Query: 220 -LLCMKDDSIEGIYDTLKKCAIISKSAGGIGLS--IHNI---RASG-------SYIHGTN 266
L ++ + Y L I S IG+ H + + G SY+ G
Sbjct: 217 EWLENPSNTPDKDY--LLSIPI---SCPLIGVIQLAHYVVTAKLLGFTPGELRSYLKGAT 271
Query: 267 GSSNGIVPMLQVFNDTARYVDQGGGKRKGAFAIYLEP-WHADIFEFLDLRKNQGKEECRA 325
G S G+V A AI W F +
Sbjct: 272 GHSQGLVT---------------------AVAIAETDSWE----SFFVSVRK-------- 298
Query: 326 RDLFYALWVPDLFMERVRDDGKWSLFCPSDASGLADSW-GIEFEHLYSQYEEEGRAKMVI 384
A+ LF + G+ Y
Sbjct: 299 -----AI--------------TV-LF-----------FIGVRCYEAYPNTS--------- 318
Query: 385 SARKLWFEILNSQIET--GTP-YMLFKDSCNRKSNQQNLGTIKSSNLCTEIVEFSSPEET 441
L IL +E G P ML S + + +Q + +N P
Sbjct: 319 ----LPPSILEDSLENNEGVPSPML---SISNLTQEQVQDYVNKTNS-------HLPAGK 364
Query: 442 AVCNLASIAL---PR-YVREKGVPVQSNVSKLVGSRDSKNRLFDFE-RLAEVTKIITENL 496
V I+L + V VS G S L+ L + +
Sbjct: 365 QV----EISLVNGAKNLV----------VS---GPPQS---LYGLNLTLRKAKAPSGLDQ 404
Query: 497 NKIIDVNHYPIETTRRSNLRHR--PIGIGIQGLADTFILLGLPFESP---EA-QQLNKDI 550
++I P + R+ +R P+ PF S A +NKD+
Sbjct: 405 SRI------PF-SERKLKFSNRFLPV--------------ASPFHSHLLVPASDLINKDL 443
Query: 551 FE-TIYYHALKASAELAVKDGP-YETYFGSPM---SKGILQ--VDMWNITPSDRWDW--- 600
+ + ++A ++ + P Y+T+ GS + S I + VD I W
Sbjct: 444 VKNNVSFNA----KDIQI---PVYDTFDGSDLRVLSGSISERIVDC--II-RLPVKWETT 493
Query: 601 ----------------SSLREMISKN----GVR 613
S L + +N GVR
Sbjct: 494 TQFKATHILDFGPGGASGLGVLTHRNKDGTGVR 526
Score = 58.5 bits (141), Expect = 9e-09
Identities = 82/520 (15%), Positives = 148/520 (28%), Gaps = 191/520 (36%)
Query: 2 YVIKRDGRKEPVRFDKITARLKKL------SYGLSKE--HCDPVLVAQKVCAGVYKGVTT 53
YV + +FD++ L Y L H L A+
Sbjct: 67 YVSSLVEPSKVGQFDQV---LNLCLTEFENCY-LEGNDIHA---LAAK--LLQENDTTLV 117
Query: 54 TQLDELAAETAAAMTVNHPDY-----ALLAGRVAVSNLHKI---------TKNSFSETIK 99
+ + A + P AL R ++ T + F E ++
Sbjct: 118 KTKELIKNYITARIMAKRPFDKKSNSALF--RAVGEGNAQLVAIFGGQGNTDDYFEE-LR 174
Query: 100 DMYNYYNKRSGKKASLVADDVYEIIMKNAACL--------DGAIIYDRDFDF-------- 143
D+Y Y+ LV D +I +A L D ++ + +
Sbjct: 175 DLYQTYH-------VLVGD----LIKFSAETLSELIRTTLDAEKVFTQGLNILEWLENPS 223
Query: 144 -----DYFGFKTLERSY----LLKMDSRVV------ERPQHMLMRVS--VGIHKD----- 181
DY ++ S ++++ VV P + + G +
Sbjct: 224 NTPDKDYL--LSIPISCPLIGVIQLAHYVVTAKLLGFTPGELRSYLKGATGHSQGLVTAV 281
Query: 182 -----DT-----DSALKTYHLM------SQHWFTHAT--PTLF------NAGTPQPQLSS 217
D+ S K ++ + + + P++ N G P P LS
Sbjct: 282 AIAETDSWESFFVSVRKAITVLFFIGVRCYEAYPNTSLPPSILEDSLENNEGVPSPMLS- 340
Query: 218 CFLLCMKDDSIEGIYDTLKKCAIISKSAGGIGLSIHNIRASGSYIHGTNGSSNGIV---P 274
+ + + E + D + K + + +S+ NG+ N +V P
Sbjct: 341 -----ISNLTQEQVQDYVNKTNSHLPAGKQVEISLV------------NGAKNLVVSGPP 383
Query: 275 M-LQVFNDTARYV------DQG---GGKRKGAFAI-YL---EPWH----ADIFEFLDLRK 316
L N T R DQ +RK F+ +L P+H + ++
Sbjct: 384 QSLYGLNLTLRKAKAPSGLDQSRIPFSERKLKFSNRFLPVASPFHSHLLVPASDLINKDL 443
Query: 317 NQGKEECRARDLFYALW-------------------VPDLFMERVRDDGKWSL------- 350
+ A+D+ ++ V + V+ W
Sbjct: 444 VKNNVSFNAKDIQIPVYDTFDGSDLRVLSGSISERIVDCIIRLPVK----WETTTQFKAT 499
Query: 351 ----FCPSDASGLADSWGIEFEHLYSQYEEEGRAKMVISA 386
F P ASGL L + ++G VI A
Sbjct: 500 HILDFGPGGASGLGV--------LTHR-NKDGTGVRVIVA 530
Score = 43.9 bits (103), Expect = 2e-04
Identities = 28/171 (16%), Positives = 47/171 (27%), Gaps = 64/171 (37%)
Query: 369 HLYSQYEEEGRAKMVISARKLW------------FEILN------------------SQI 398
LY + +A+ +W F IL+ +I
Sbjct: 1634 DLYKTSK---------AAQDVWNRADNHFKDTYGFSILDIVINNPVNLTIHFGGEKGKRI 1684
Query: 399 ETGTPYMLFKDSCNRKSNQQNLGTIKSSNLCTEIVEFSSPEE----T-----AVCNLASI 449
M+F+ + K + + K N + F S + T A+ L
Sbjct: 1685 RENYSAMIFETIVDGKLKTEKI--FKEINEHSTSYTFRSEKGLLSATQFTQPALT-LMEK 1741
Query: 450 ALPRYVREKG-VPVQSNV--------SKLVGSRDSKNRLFDFERLAEVTKI 491
A ++ KG +P + + L D E L EV
Sbjct: 1742 AAFEDLKSKGLIPADATFAGHSLGEYAALASLADV----MSIESLVEVVFY 1788
Score = 43.5 bits (102), Expect = 3e-04
Identities = 52/312 (16%), Positives = 88/312 (28%), Gaps = 116/312 (37%)
Query: 523 GIQ--GLADTFILLGLPF--ESPEAQQLNKDIFETIYYHALKA---SAELAVKDGPYE-- 573
G Q G+ G+ S A +D++ H S V + P
Sbjct: 1625 GSQEQGM-------GMDLYKTSKAA----QDVWNRADNHFKDTYGFSILDIVINNPVNLT 1673
Query: 574 TYFGSPMSKGILQVDMWNITPSDRWDWSSLREMISKNGVRNSLLVAPMPTASTSQILGNN 633
+FG K I R ++S++ +G + + ++
Sbjct: 1674 IHFGGEKGKRI------------RENYSAMIFETIVDGKLKTEKIFKEINEHSTSY---- 1717
Query: 634 ECFEPYTSNIYTRRVLSGEFIVVNKHLLKDLTE-----LGLWSHALKTKIIYENGSVSKI 688
F E K LL T+ L L A + + G
Sbjct: 1718 -TFR-------------SE-----KGLL-SATQFTQPALTLMEKAA-FEDLKSKGL---- 1752
Query: 689 SEIPE----------ELKAIYKT--VWEIKQKTLVDMAADRGCYIDQSQSLNIHMEQPDH 736
IP E A+ V I+ LV++ RG + + + + +
Sbjct: 1753 --IPADATFAGHSLGEYAALASLADVMSIES--LVEVVFYRGMTMQVA------VPRDEL 1802
Query: 737 GKLTSLHFYAWSKGMKTGMYYLR-TRAAA----DAIKFTVDTSVLNNEKANRADNDVE-A 790
G+ GM + R AA +A+++ V+ R VE
Sbjct: 1803 GR------------SNYGMIAINPGRVAASFSQEALQYVVE------RVGKRTGWLVEIV 1844
Query: 791 NL----AQVVCS 798
N Q V +
Sbjct: 1845 NYNVENQQYVAA 1856
Score = 37.0 bits (85), Expect = 0.036
Identities = 38/276 (13%), Positives = 81/276 (29%), Gaps = 82/276 (29%)
Query: 518 RPIGIGIQGLADTFILLGLPFES-PEAQQLNKDIFETIYYHALKASA---------ELAV 567
RP+ + L ++ P S A QL ++ F I + A EL
Sbjct: 7 RPLTLSHGSLEHVLLV---PTASFFIASQL-QEQFNKILPEPTEGFAADDEPTTPAELVG 62
Query: 568 KDGPYETYFGSPMSKG-------ILQVDMWNITPSDRWDWSSLREMISKNGVRNSLLVAP 620
K + Y S + +L + + + N + ++L A
Sbjct: 63 K---FLGYVSSLVEPSKVGQFDQVLNLCLTEFE----------NCYLEGNDI-HAL-AAK 107
Query: 621 MPTASTSQILGNNECFEPYTSNIYTRRVLSGEFIVVNKHLLKDLTELGLWSHALKTKIIY 680
+ + + ++ E + Y T R+++ + L+
Sbjct: 108 LLQENDTTLVKTKELIKNY----ITARIMAKRPF-------DKKSNSALFRAV------- 149
Query: 681 ENGSVSKI---------SEIP-EELKAIYKT----VWEIKQKTLVDMAADRGCYIDQSQS 726
G+ ++ ++ EEL+ +Y+T V L+ +A+
Sbjct: 150 GEGNA-QLVAIFGGQGNTDDYFEELRDLYQTYHVLV-----GDLIKFSAET----LSELI 199
Query: 727 LNIHMEQPDHGKLTSLHFYAWSKGMKT--GMYYLRT 760
+ + L+ W + YL +
Sbjct: 200 RTTLDAEKVFTQ--GLNILEWLENPSNTPDKDYLLS 233
Score = 33.1 bits (75), Expect = 0.45
Identities = 44/276 (15%), Positives = 78/276 (28%), Gaps = 92/276 (33%)
Query: 250 LSIHNIRASGSYIHGTNGSSNGIVPMLQVFNDTARYVDQGGGKRKGAFAIYLEPWHADIF 309
L+IH G I N + + D G K + F E + F
Sbjct: 1672 LTIHFGGEKGKRIR-----ENYSAMIFETIVD-------GKLKTEKIFKEINEHSTSYTF 1719
Query: 310 E----FLDLRKN-QGKEECRARDLF---YALWVPDLFMERVRDDGKWSLFCPSDA----- 356
L + Q A L A + E ++ G P+DA
Sbjct: 1720 RSEKGLLSATQFTQ-----PA--LTLMEKAAF------EDLKSKG----LIPADATFAGH 1762
Query: 357 S-G-------LADSWGIE-----------FEHLYSQYEEEGRAKMVISARKLWFEILNSQ 397
S G LAD IE + +E GR+ + A I +
Sbjct: 1763 SLGEYAALASLADVMSIESLVEVVFYRGMTMQVAVPRDELGRSNYGMIA------INPGR 1816
Query: 398 IETGTPYMLFKDSCNRKSNQQNLGTIKSSNLCTEIVEFSSPEETAVC--NLASI----AL 451
+ + R + + L EIV ++ + V +L ++ +
Sbjct: 1817 VAASFSQEALQYVVERVGKR-------TGWLV-EIVNYNVENQQYVAAGDLRALDTVTNV 1868
Query: 452 PRYVREKGVPVQSNVSKLVGSRDSKNRLFDFERLAE 487
+++ + + + +L S E +
Sbjct: 1869 LNFIKLQKID----IIELQKS-------LSLEEVEG 1893
>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 = 32.6 bits (73), Expect = 0.21
Identities = 14/51 (27%), Positives = 18/51 (35%), Gaps = 22/51 (43%)
Query: 723 QSQSLNIHMEQPDHGKL-TSLHFYAWSKGMKTGMYYLRTRAAADAIKFTVD 772
+ Q+L KL SL YA A A AIK T++
Sbjct: 18 EKQALK---------KLQASLKLYA------------DDSAPALAIKATME 47
Score = 29.5 bits (65), Expect = 2.6
Identities = 9/32 (28%), Positives = 13/32 (40%), Gaps = 11/32 (34%)
Query: 542 EAQQLNKDIFET---IYYH------ALKASAE 564
E Q L K + +Y A+KA+ E
Sbjct: 18 EKQALKK--LQASLKLYADDSAPALAIKATME 47
>1m2t_B Mistletoe lectin I B chain; ribosome inactivation, ribosome
inhibitor, hydrolase; HET: NAG FUC ADE; 1.89A {Viscum
album} SCOP: b.42.2.1 b.42.2.1 PDB: 2r9k_B* 3d7w_B*
3cef_B* 1sz6_B* 1pum_B* 1puu_B* 2rg9_B* 3o5w_B* 1onk_B*
1oql_B* 1tfm_B* 1pc8_B* 1yf8_B* 1ce7_B* 2mll_B*
Length = 263
Score = 29.8 bits (66), Expect = 3.6
Identities = 10/33 (30%), Positives = 13/33 (39%), Gaps = 4/33 (12%)
Query: 401 GTPYMLFKDSCNRKSNQQ----NLGTIKSSNLC 429
G L+ N NQ GTI+S+ C
Sbjct: 32 GNQIQLWPSKSNNDPNQLWTIKKDGTIRSNGSC 64
>3pih_A Uvrabc system protein A; hydrolase, ABC ATPase, DNA repair,
nucleotide excision repai hydrolase-DNA complex; HET:
DNA; 2.90A {Thermotoga maritima}
Length = 916
Score = 29.4 bits (67), Expect = 6.6
Identities = 10/21 (47%), Positives = 15/21 (71%)
Query: 494 ENLNKIIDVNHYPIETTRRSN 514
EN++K+I ++ PI T RSN
Sbjct: 656 ENIDKMIAIDQSPIGRTPRSN 676
>3ux8_A Excinuclease ABC, A subunit; UVRA, nucleotide excision repair, DNA
repair, ABC ATPase, DN binding protein; HET: ADP; 2.10A
{Geobacillus}
Length = 670
Score = 29.0 bits (66), Expect = 6.6
Identities = 11/21 (52%), Positives = 16/21 (76%)
Query: 494 ENLNKIIDVNHYPIETTRRSN 514
E+L+K+ID++ PI T RSN
Sbjct: 394 EHLDKVIDIDQSPIGRTPRSN 414
>2r6f_A Excinuclease ABC subunit A; UVRA, nucleotide excision repair, DNA
repair, ABC ATPase, at cassette, DNA damage, DNA
excision; HET: ADP; 3.20A {Geobacillus
stearothermophilus} PDB: 3uwx_A
Length = 972
Score = 28.6 bits (65), Expect = 9.5
Identities = 11/21 (52%), Positives = 16/21 (76%)
Query: 494 ENLNKIIDVNHYPIETTRRSN 514
E+L+K+ID++ PI T RSN
Sbjct: 696 EHLDKVIDIDQSPIGRTPRSN 716
>2ygr_A Uvrabc system protein A; hydrolase, nucleotide excision repair;
3.40A {Mycobacterium tuberculosis} PDB: 3zqj_A
Length = 993
Score = 28.6 bits (65), Expect = 9.8
Identities = 8/21 (38%), Positives = 14/21 (66%)
Query: 494 ENLNKIIDVNHYPIETTRRSN 514
+ L+K++ ++ PI T RSN
Sbjct: 714 DYLDKLVRIDQSPIGRTPRSN 734
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 0.134 0.398
Gapped
Lambda K H
0.267 0.0818 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Sequences: 27921
Number of Hits to DB: 12,386,892
Number of extensions: 759032
Number of successful extensions: 1552
Number of sequences better than 10.0: 1
Number of HSP's gapped: 1485
Number of HSP's successfully gapped: 32
Length of query: 810
Length of database: 6,701,793
Length adjustment: 101
Effective length of query: 709
Effective length of database: 3,881,772
Effective search space: 2752176348
Effective search space used: 2752176348
Neighboring words threshold: 11
Window for multiple hits: 40
X1: 16 ( 7.4 bits)
X2: 38 (14.6 bits)
X3: 64 (24.7 bits)
S1: 41 (21.7 bits)
S2: 61 (27.1 bits)