RPS-BLAST 2.2.26 [Sep-21-2011]
Database: scop70_1_75
13,730 sequences; 2,407,596 total letters
Searching..................................................done
Query= 003602
(808 letters)
>d1rlra2 c.7.1.2 (A:222-748) R1 subunit of ribonucleotide reductase,
C-terminal domain {Escherichia coli [TaxId: 562]}
Length = 525
Score = 426 bits (1095), Expect = e-141
Identities = 138/571 (24%), Positives = 225/571 (39%), Gaps = 71/571 (12%)
Query: 216 SSCFLVCMKDDSIEGIYDTLKECAIISKSAGGIGVSVHNIRATGSYIRGTNGTSNGIVPM 275
SSC L+ DS++ I T GIG++ IRA GS IRG G +P
Sbjct: 2 SSCVLIEC-GDSLDSINATSSAIVKYVSQRAGIGINAGRIRALGSPIRGGEAFHTGCIPF 60
Query: 276 LRVFNDTARYVDQGGGKRKGAFAVYLEPWHADIFEFLDLRKNHGKEEHRARDLFYALWVP 335
+ F + Q GG R GA ++ WH ++ L L+ N G E +R R + Y + +
Sbjct: 61 YKHFQTAVKSCSQ-GGVRGGAATLFYPMWHLEVESLLVLKNNRGVEGNRVRHMDYGVQIN 119
Query: 336 DLFMERVQSNGLWSLFCPNEAPGLADCWGTEFERLYTKYE----KEGKAKKVVQAQNLWF 391
L R+ +LF P++ PGL D + + E Y + K+ V+A L+
Sbjct: 120 KLMYTRLLKGEDITLFSPSDVPGLYDAFFADQEEFERLYTKYEKDDSIRKQRVKAVELFS 179
Query: 392 EILKSQIETGTPYMLFK-DTCNKKSNQQNLGTIKSSNLCTEVIQYTSPTETAVCNLASIA 450
+++ + TG Y+ + ++ SNLC E+ T P IA
Sbjct: 180 LMMQERASTGRIYIQNVDHCNTHSPFDPAIAPVRQSNLCLEIALPTKPLNDVNDENGEIA 239
Query: 451 LPRYVREMGVPMESHPSKLVGSRGSKNRYFDFEKLAEVTGIVTENLNKIIDVNYYPVETA 510
L + + ++L E+ + L+ ++D YP+ A
Sbjct: 240 LCTLSAF-----------------NLGAINNLDELDELAILAVRALDALLDYQDYPIPAA 282
Query: 511 RRSNLRHRPIGIGVQGLADTFILLGMPFDSTEAQQLNKDIFETIYYHALRTSSEIAAREG 570
+R + R +GIGV A G + A L FE I Y+ L+ S+E+A +G
Sbjct: 283 KRGAMGRRTLGIGVINFAYYLAKHGKRYSDGSANNLTHKTFEAIQYYLLKASNELAKEQG 342
Query: 571 PYETYHGSPVSKGILQPDMWGVNPSD------RWDWGGLRDMISKNGVRNSLLVAPMPTA 624
++ + +KGIL D + + +DW LR+ I +G+RNS L A MP+
Sbjct: 343 ACPWFNETTYAKGILPIDTYKKDLDTIANEPLHYDWEALRESIKTHGLRNSTLSALMPSE 402
Query: 625 STSQILGNNECFEPYTSNIYSRRVLSGEFVVVNKHLLHDLTEMGLWSPIIKNKIIYDDGS 684
++SQI EP + + DG
Sbjct: 403 TSSQISNATNGIEPPRGYVSIKASK--------------------------------DGI 430
Query: 685 VQKIPQIPEELKAIYKTVWEIK-QKTLVDMAVDRGCYIDHSQSLNIHMDQPNF------- 736
++++ E L Y+ +WE+ + + +ID S S N + D F
Sbjct: 431 LRQVVPDYEHLHDAYELLWEMPGNDGYLQLVGIMQKFIDQSISANTNYDPSRFPSGKVPM 490
Query: 737 GKLTSLHFHAWLRGLKTGMYYLRSRAAADAI 767
+L A+ G+KT +YY +R D +
Sbjct: 491 QQLLKDLLTAYKFGVKT-LYYQNTRDDIDDL 520
>d1peqa2 c.7.1.2 (A:175-699) R1 subunit of ribonucleotide reductase,
C-terminal domain {Salmonella typhimurium [TaxId:
90371]}
Length = 525
Score = 363 bits (933), Expect = e-117
Identities = 126/571 (22%), Positives = 219/571 (38%), Gaps = 72/571 (12%)
Query: 215 LSSCFLVCMKDDSIEGIYDTLKECAIISKSAGGIGVSVHNIRATGSYIRGTNGTSNGIVP 274
L SCFL+ + +D++E I + +SK GG+ + N+R G+ I+ S+G++P
Sbjct: 1 LVSCFLLRI-EDNMESIGRAVNSALQLSKRGGGVAFLLSNLREAGAPIKRIENQSSGVIP 59
Query: 275 MLRVFNDTARYVDQGGGKRKGAFAVYLEPWHADIFEFLDLRKNHGKEEHRARDLFYALWV 334
++++ D Y +Q G R+GA AVYL H DI FLD ++ + E+ R + L + +
Sbjct: 60 VMKMLEDAFSYANQLG-ARQGAGAVYLHAHHPDILRFLDTKRENADEKIRIKTLSLGVVI 118
Query: 335 PDLFMERVQSNGLWSLFCPNEAPGLADCWGTEF---ERLYTKYEKEGKAKKVVQAQNLWF 391
PD+ + N +LF P + + ER K + A++ +
Sbjct: 119 PDITFRLAKENAQMALFSPYDIQRRYGKPFGDIAISERYDELIADPHVRKTYINARDFFQ 178
Query: 392 EILKSQIETGTPYMLFKDTCNKKSNQQNLGTIKSSNLCTEVIQYTSPTETAVCNLASIAL 451
+ + Q E+G PY++F+DT N+ + I SNLC+E++Q S + NL +
Sbjct: 179 TLAEIQFESGYPYIMFEDTVNRANPIAG--RINMSNLCSEILQVNSASRY-DDNLDYTHI 235
Query: 452 PRYVREMGVPMESHPSKLVGSRGSKNRYFDFEKLAEVTGIVTENLNKIIDVNYYPVETAR 511
+ + + D + E ++ + V +
Sbjct: 236 GHDISCNLGSL---------NIAHVMDSPDIGRTVETAIRGLTAVS--DMSHIRSVPSIA 284
Query: 512 RSNLRHRPIGIGVQGLADTFILLGMPFDSTEAQQLNKDIFETIYYHALRTSSEIAAREGP 571
N IG+G L G+ + S EA F TI +HA+ TS +A G
Sbjct: 285 AGNAASHAIGLGQMNLHGYLAREGIAYGSPEALDFTNLYFYTITWHAVHTSMRLARERGK 344
Query: 572 -YETYHGSPVSKGIL------------------QPDMWGVNPSDRWDWGGLRDMISKNGV 612
+ + S + G G+ R W LRD + + G+
Sbjct: 345 TFAGFAQSRYASGDYFTQYLQDDWQPKTAKVRALFARSGITLPTREMWLKLRDDVMRYGI 404
Query: 613 RNSLLVAPMPTASTSQILGNNECFEPYTSNIYSRRV-LSGEFVVVNKHLLHDLTEMGLWS 671
N L A PT S S I P + I R+ +G +
Sbjct: 405 YNQNLQAVPPTGSISYINHATSSIHPIVAKIEIRKEGKTGRVYYPAPFM----------- 453
Query: 672 PIIKNKIIYDDGSVQKIPQIPEELKAIYKTVWEIKQKTLVDMAVDRGCYIDHSQSLNIHM 731
E +Y+ ++I + ++D + ++D SL +
Sbjct: 454 --------------------TNENLDMYQDAYDIGPEKIIDTYAEATRHVDQGLSLTLFF 493
Query: 732 -DQPNFGKLTSLHFHAWLRGLKTGMYYLRSR 761
D + +AW +G+K+ +YY+R R
Sbjct: 494 PDTATTRDINKAQIYAWRKGIKS-LYYIRLR 523
>d1rlra1 a.98.1.1 (A:10-221) R1 subunit of ribonucleotide reductase,
N-terminal domain {Escherichia coli [TaxId: 562]}
Length = 212
Score = 181 bits (460), Expect = 3e-53
Identities = 52/217 (23%), Positives = 89/217 (41%), Gaps = 13/217 (5%)
Query: 6 RDGKQEAVHFDKITARLKKLSYGLSIEHCDPVLVSQKVCTGVYKGVTTSQLDELAAETAA 65
RDG E ++ DKI L + GL + V + Y G+ TS + E + AA
Sbjct: 1 RDGSTERINLDKIHRVLDWAAEGL--HNVSISQVELRSHIQFYDGIKTSDIHETIIKAAA 58
Query: 66 A-MTTNHPDYASLAARIVVSNLHKNTKKSFSETIKDMYNHYNERSGLKAPLIADDVYDII 124
++ + PDY LAAR+ + +L K F + G + D
Sbjct: 59 DLISRDAPDYQYLAARLAIFHLRKKAYGQFEPPALYDHVVKMVEMGKYDN---HLLEDYT 115
Query: 125 MKNAARLDSEIIYDRDFDYDYFGFKTLERSYLLKVQ--GKVVERPQHMLMRVAVGIHKD- 181
+ ++D+ I +DRD + Y K LE YL++ + G++ E Q + + VA + +
Sbjct: 116 EEEFKQMDTFIDHDRDMTFSYAAVKQLEGKYLVQNRVTGEIYESAQFLYILVAACLFSNY 175
Query: 182 ----DIDSAIKTYHMMSQRWFTHASPTLFNAGTPRAQ 214
+ + Y +S + +P + TP Q
Sbjct: 176 PRETRLQYVKRFYDAVSTFKISLPTPIMSGVRTPTRQ 212
>d1l1la_ c.7.1.4 (A:) B12-dependent (class II) ribonucleotide
reductase {Lactobacillus leichmannii [TaxId: 28039]}
Length = 721
Score = 153 bits (386), Expect = 4e-39
Identities = 61/519 (11%), Positives = 121/519 (23%), Gaps = 96/519 (18%)
Query: 226 DSIEGIYDTLKE------CAIISKSAGGIGVSVHNIRATGSYIRGTNGTSNGIVPMLRVF 279
D+ EG + + + +IR G+ I G GT++G +P++ +
Sbjct: 219 DTREGWVLANALLIDLHFAQTNPDRKQKLILDLSDIRPYGAEIHGFGGTASGPMPLISML 278
Query: 280 NDTARYVDQGGGKRKGAFAVYLEPWHADIFEFLDLRKNHGKEEHRARDLFYALWVPDLFM 339
D ++ G R A + AL D
Sbjct: 279 LDVNEVLNNKAGGRLTAVDAADICNLIGKAVVAGNVRR---------SAELALGSNDDQD 329
Query: 340 ERVQSNGLWSLFCPNEAPGLADCWGTEFERLYTKYEKEGKAKKVVQAQNLWFEILKSQIE 399
L A + + F + I E
Sbjct: 330 FISMKQDQEKLMHHRWASNNSVAVDSAFSG--------------------YQPIAAGIRE 369
Query: 400 TGTPYMLFKDTCNKKS--NQQNLGTIKSSNLCTEVIQYTSPTETAVCNLASIALPRYVRE 457
G P ++ D I T S CNL + +
Sbjct: 370 NGEPGIVNLDLSKNYGRIVDGYQAGIDGDVEGTNPCGEISLANGEPCNLFEVFPLIAEEQ 429
Query: 458 MGVPMESHPSKLVGSRGSKNRYFDFEKLAEVTGIVTENLNKIIDVNYYPVETARRSNLRH 517
+ + K + + Y E +R ++
Sbjct: 430 G-------------------------WDLQEVFALAARYAKRVTFSPYDWEISREIIQKN 464
Query: 518 RPIGIGVQGLADTFILLGMPFDSTEAQQLNKDIFETIYYHALRTSSEIAAREGPYETYHG 577
R IGI + G+ D + T + + +
Sbjct: 465 RRIGISMSGIQDWLLTRLGNRVVTGF-------KDDFDPETHEAIKVPVYDKRAIKMV-- 515
Query: 578 SPVSKGILQPDMWGVNPSDRWDWGGLRDMISKNGVRNSLLVAPMPTASTSQ-ILGNNECF 636
++ D+ G S+ + + T + G +E
Sbjct: 516 ---------DQLYKAVVKADQDY------SKTLGCNESIKHTTVKPSGTVAKLAGASEGM 560
Query: 637 EPYTSNIYSRRVLSGEFVVVNKHLLHDLTEMGLWSPIIKNKIIYDDGSVQKIPQ-IPEEL 695
+ +R+ + + LL L G + I ++ + + P
Sbjct: 561 HFHYGAYLIQRIRFQD----SDPLLPALKACGYR---TEADIYTENTTCVEFPIKAVGAD 613
Query: 696 KAIYKTVWEIKQKTLVDM-AVDRGCYIDHSQSLNIHMDQ 733
+ + + A + + D++ S I
Sbjct: 614 NPNFASAGTVSIAEQFATQAFLQTYWSDNAVSCTITFQD 652
>d1peqa1 a.98.1.1 (A:13-174) R1 subunit of ribonucleotide reductase,
N-terminal domain {Salmonella typhimurium [TaxId:
90371]}
Length = 162
Score = 122 bits (307), Expect = 7e-33
Identities = 29/161 (18%), Positives = 51/161 (31%), Gaps = 23/161 (14%)
Query: 72 PDYASLAARIVVSNLHKNTKK------------SFSETIKDMYNHYNERSGLKAPLIADD 119
DY +L A + NL+ F+ ++ + + L+ +
Sbjct: 2 MDYHALNAML---NLYDKAGHIQFDKDQQAIDAFFATHVRPHSVTFASQHERLGTLVREG 58
Query: 120 VYDIIM------KNAARLDSEIIYDRDFDYDYFGFKTLERSYLLKVQ--GKVVERPQHML 171
YD + RL + G SY LK + +E + +
Sbjct: 59 YYDDAVLARYDRAFVLRLFEHAHASGFRFQTFLGAWKFYTSYTLKTFDGKRYLEHFEDRV 118
Query: 172 MRVAVGIHKDDIDSAIKTYHMMSQRWFTHASPTLFNAGTPR 212
VA+ + + D A + M F A+PT N G +
Sbjct: 119 TMVALTLAQGDETLATQLTDEMLSGRFQPATPTFLNCGKQQ 159
>d1dgsa3 d.142.2.2 (A:1-314) Adenylation domain of NAD+-dependent
DNA ligase {Thermus filiformis [TaxId: 276]}
Length = 314
Score = 28.3 bits (62), Expect = 3.5
Identities = 14/113 (12%), Positives = 33/113 (29%), Gaps = 15/113 (13%)
Query: 96 ETIKDMYNHYNER-SGLKAPLIADDVYDIIMKNAARLDSE---------IIYDRDFDYDY 145
++D+ ++N R L P I+D YD +++ L+
Sbjct: 11 NELRDLIRYHNYRYYVLADPEISDAEYDRLLRELKELEERFPEFKSPDSPTEQVGARPLE 70
Query: 146 FGFKTLERSYLLKVQGKVVE-----RPQHMLMRVAVGIHKDDIDSAIKTYHMM 193
F+ + + + L R A ++ + ++
Sbjct: 71 PTFRPVRHPTRMYSLDNAFTYEEVLAFEERLEREAEAPSLYTVEHKVDGLSVL 123
>d1b04a_ d.142.2.2 (A:) Adenylation domain of NAD+-dependent DNA
ligase {Bacillus stearothermophilus [TaxId: 1422]}
Length = 312
Score = 27.2 bits (59), Expect = 8.1
Identities = 16/162 (9%), Positives = 44/162 (27%), Gaps = 16/162 (9%)
Query: 88 KNTKKSFSETIKDMYNHYNER-SGLKAPLIADDVYDIIMKNAARLDSEIIYDRDFDYDYF 146
+ + + ++++ N Y L P + D YD +M+ ++ + +
Sbjct: 2 RQQAERRAAELRELLNRYGYEYYVLDRPSVPDAEYDRLMQELIAIEEQ-----------Y 50
Query: 147 GFKTLERSYLLKVQGKVVERPQHMLMRVAV----GIHKDDIDSAIKTYHMMSQRWFTHAS 202
S ++ G +E + + RV + + +
Sbjct: 51 PELKTSDSPTQRIGGPPLEAFRKVAHRVPMMSLANAFGEGDLRDFDRRVRQEVGEAAYVC 110
Query: 203 PTLFNAGTPRAQLSSCFLVCMKDDSIEGIYDTLKECAIISKS 244
+ + + V + + E +S
Sbjct: 111 ELAIDGLAVSVRYEDGYFVQGATRGDGTTGEDITENLKTIRS 152
Database: scop70_1_75
Posted date: Mar 27, 2010 6:21 PM
Number of letters in database: 2,407,596
Number of sequences in database: 13,730
Lambda K H
0.319 0.134 0.404
Gapped
Lambda K H
0.267 0.0436 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Sequences: 13730
Number of Hits to DB: 3,059,779
Number of extensions: 146591
Number of successful extensions: 373
Number of sequences better than 10.0: 1
Number of HSP's gapped: 349
Number of HSP's successfully gapped: 8
Length of query: 808
Length of database: 2,407,596
Length adjustment: 93
Effective length of query: 715
Effective length of database: 1,130,706
Effective search space: 808454790
Effective search space used: 808454790
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 (21.8 bits)
S2: 57 (26.5 bits)