RPS-BLAST 2.2.26 [Sep-21-2011]
Database: pdb70
27,921 sequences; 6,701,793 total letters
Searching..................................................done
Query= psy11456
(574 letters)
>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 = 74.3 bits (182), Expect = 6e-14
Identities = 90/554 (16%), Positives = 150/554 (27%), Gaps = 212/554 (38%)
Query: 83 TPLHFVTNNKFLGLLWDAKMNWSLHIQYIKSRAMNSLNALKMVSCKKFGVRRDVLLKFYK 142
TP V KFLG Y+ S V K G VL
Sbjct: 56 TPAELVG--KFLG--------------YVSSL----------VEPSKVGQFDQVLNLCLT 89
Query: 143 SFTLPILDYGCYIYSSAKDSVLNKLNTVHHAGIRIATGALRSSPVVSLYVDSGIPPLFLR 202
F L + N +H + L ++ + +
Sbjct: 90 EFENCYL----------------EGNDIH-------------ALAAKLLQENDTTLV--K 118
Query: 203 RSKLMLNYVS--KISASPF-NPAQKVLFHQDMSG-----TIF----TVNKPKPLYVRFRE 250
+L+ NY++ ++ PF + LF G IF + Y F E
Sbjct: 119 TKELIKNYITARIMAKRPFDKKSNSALFRAVGEGNAQLVAIFGGQGNTDD----Y--FEE 172
Query: 251 IANFINVLDSSEIAPYVRFVPPWSNCAPPVDQCLGEGKKSDTAPVVFQKMFHEVINI--- 307
+ + Y V + L + +K+F + +NI
Sbjct: 173 LRDLYQT--------YHVLVGDLIKFSAETLSELIR------TTLDAEKVFTQGLNILEW 218
Query: 308 -KYPNHTICFTDGSKSPDV---TGCAFS---IGDMVQ-----STL----LNPINSIFSAE 351
+ P++T PD S IG ++Q T P +
Sbjct: 219 LENPSNT---------PDKDYLLSIPISCPLIG-VIQLAHYVVTAKLLGFTPGE--LRSY 266
Query: 352 LIAIFLCLEAIIDSPSNQFLIVSDSRSALA-ALANVRFSNPLVTKVFSTW-SYLKLCDK- 408
L + ++ +A+A A +W S+ K
Sbjct: 267 LKGATGHSQGLV--------------TAVAIAET-------------DSWESFFVSVRKA 299
Query: 409 -EVSFIWCPSHCGIRGNEIVDVAAKNPSDL---------APS-----KLCTPEDLKPFIA 453
V F G+R E + PS L PS T E ++ ++
Sbjct: 300 ITVLF-----FIGVRCYEAYPNTSLPPSILEDSLENNEGVPSPMLSISNLTQEQVQDYVN 354
Query: 454 SLMKTEWQNQWNNVPSTNKLKSIRPYIKHWNTSNQDRRIKEVILTRMRIGHTR-LTH--N 510
N ++P+ ++ I N + ++++ G + L
Sbjct: 355 KT------NS--HLPAGKQV-----EISLVNGAKN------LVVS----GPPQSLYGLNL 391
Query: 511 HLFTKSAPPIC-QCGAPLSVRHILSCHR--------HDHIRSSLHP-PPSLGDDEEGVTS 560
L AP Q P S R + +R H H+ L P + D
Sbjct: 392 TLRKAKAPSGLDQSRIPFSERKLKFSNRFLPVASPFHSHL---LVPASDLINKDLVKNNV 448
Query: 561 LFTYLQQLDI--YH 572
F + + I Y
Sbjct: 449 SFN-AKDIQIPVYD 461
Score = 50.4 bits (120), Expect = 1e-06
Identities = 52/305 (17%), Positives = 87/305 (28%), Gaps = 94/305 (30%)
Query: 244 LYVRF---REIAN-----FINVLDSSEIAPYVRFVPPWSNCAPPVDQCLGEGKKSDTAPV 295
LY +++ N F + S I V +N P G+K
Sbjct: 1635 LYKTSKAAQDVWNRADNHFKDTYGFS-ILDIVI-----NN--PVNLTIHFGGEKGKRIRE 1686
Query: 296 VFQKMFHEVINIKYPNHTICFTDGSKSPDVTGCAFSIGDMVQSTLLNPINS---IFSAEL 352
+ M E I F + + T F + + L + + E
Sbjct: 1687 NYSAMIFETIVDGKLKTEKIFKE--INEHSTSYTFR-SE--KGLLSATQFTQPALTLME- 1740
Query: 353 IAIFLCLEAIIDSPSNQFLIVSDSR---------SALAALANVRFSNPLVTKVFSTWSYL 403
A F L++ + LI +D+ +ALA+LA+V S + +
Sbjct: 1741 KAAFEDLKS-------KGLIPADATFAGHSLGEYAALASLADV-MS-------IESLVEV 1785
Query: 404 -----KLCDKEVSFIWCPSHCGIRGNEIVDVAAKNPSDLAPSKLCTPEDLKPFIASLMKT 458
V P G + A NP +A S + E L+ + + K
Sbjct: 1786 VFYRGMTMQVAV-----PR--DELGRSNYGMIAINPGRVAAS--FSQEALQYVVERVGK- 1835
Query: 459 EWQNQW-----N-NVP--------------------STNKLKSIRPYIKHWNTSNQDRRI 492
+ W N NV + KL+ I I S +
Sbjct: 1836 --RTGWLVEIVNYNVENQQYVAAGDLRALDTVTNVLNFIKLQKID--IIELQKSLSLEEV 1891
Query: 493 KEVIL 497
+ +
Sbjct: 1892 EGHLF 1896
Score = 36.6 bits (84), Expect = 0.031
Identities = 34/156 (21%), Positives = 54/156 (34%), Gaps = 31/156 (19%)
Query: 330 FSI--GDMVQSTLLNPINSIFSAE-LIAIFLCLEAIIDSPSNQFLIVSDSRSALAALANV 386
++ G ++ LL P S F A L F I+ P+ F D + A L
Sbjct: 9 LTLSHGS-LEHVLLVPTASFFIASQLQEQFN---KILPEPTEGF-AADDEPTTPAELV-G 62
Query: 387 RF-------SNPLVTKVFSTWSYLKLCDKEVSFIWCPSHCGIRGNEIVDVAAKNPSDLAP 439
+F P F L L + E ++ GN+I +AAK +
Sbjct: 63 KFLGYVSSLVEPSKVGQFDQVLNLCLTEFENCYL--------EGNDIHALAAKLLQENDT 114
Query: 440 SKLCTPEDLKPFIASLMKTEWQNQWNNVPSTNKLKS 475
+ + T E +K +I + + P K S
Sbjct: 115 TLVKTKELIKNYITARIMA-------KRPFDKKSNS 143
Score = 32.7 bits (74), Expect = 0.47
Identities = 35/195 (17%), Positives = 56/195 (28%), Gaps = 57/195 (29%)
Query: 14 RVLFIDDLLIIGRGKDLDLLIQRFQHTLDEIHLWAETNGTLFSTDPGKSVCIDFHRLRVA 73
VLF IG R L S + + V
Sbjct: 301 TVLFF-----IG---------VRCYEAYPNTSLPPSILED--SLENNEGV---------- 334
Query: 74 RSPILSYNGTPLHFVTN-----NKFLGLLWDAKMNWSLHI---QYIKS---RAMNSLN-A 121
SP+LS + V + N L ++ SL + S +++ LN
Sbjct: 335 PSPMLSISNLTQEQVQDYVNKTNSHLPA--GKQVEISLVNGAKNLVVSGPPQSLYGLNLT 392
Query: 122 LKMVSCK--------KFGVRRDVLLKFYKSFTLPILD-YGCYIYSSAKDSVLNKLNTVHH 172
L+ F R+ LKF F LP+ + ++ A D + L
Sbjct: 393 LRKAKAPSGLDQSRIPFSERK---LKFSNRF-LPVASPFHSHLLVPASDLINKDLVK--- 445
Query: 173 AGIRIATGALRSSPV 187
+ ++ PV
Sbjct: 446 NNVSFNAKDIQ-IPV 459
Score = 30.0 bits (67), Expect = 2.7
Identities = 11/43 (25%), Positives = 14/43 (32%), Gaps = 14/43 (32%)
Query: 527 LSVRHI-LSCHRHDHIRSSLHPPPSLGDDEEGVTSLFTYLQQL 568
S R + LS H + L P T+ F QL
Sbjct: 4 YSTRPLTLS---HGSLEHVLLVP----------TASFFIASQL 33
>1vt4_I APAF-1 related killer DARK; drosophila apoptosome, apoptosis,
programmed cell death; HET: DTP; 6.90A {Drosophila
melanogaster} PDB: 3iz8_A*
Length = 1221
Score = 56.0 bits (134), Expect = 3e-08
Identities = 85/568 (14%), Positives = 154/568 (27%), Gaps = 186/568 (32%)
Query: 134 RDVLLKFYKSFTLPILDYGCY--------IYSSAK-DSVLNKLNTVHHAGIRIATGALRS 184
+D+L F +F + ++ C I S + D ++ + V +G L S
Sbjct: 19 KDILSVFEDAF---VDNFDCKDVQDMPKSILSKEEIDHIIMSKDAV--SGTLRLFWTLLS 73
Query: 185 SP--VVSLYVDSGIPPLFLRRSKLMLNY---VSKISASPFNPAQKVLFHQDMSGTIFTVN 239
+V +V+ + NY +S I P+ + + ++ N
Sbjct: 74 KQEEMVQKFVEEVLRI----------NYKFLMSPIKTEQRQPSMMTRMYIEQRDRLYNDN 123
Query: 240 KP-KPLYV-RFREIANFINVLDSSEIAPYVRFVPPWSNCAPPVDQCLGEGKKSDTAPV-- 295
+ V R + L A V +D LG GK V
Sbjct: 124 QVFAKYNVSRLQPYLKLRQALLELRPAKNV-----------LIDGVLGSGKTWVALDVCL 172
Query: 296 ---VFQKMFHEV--INIKYPN---------HTICFT---------DGSKSPDVTGCAFSI 332
V KM ++ +N+K N + + D S + + SI
Sbjct: 173 SYKVQCKMDFKIFWLNLKNCNSPETVLEMLQKLLYQIDPNWTSRSDHSSNIKLR--IHSI 230
Query: 333 GDMVQSTLLNPI--NS------IFSAELIAIFL--C--L-----EAIIDSPSNQF----- 370
++ L + N + +A+ F C L + + D S
Sbjct: 231 QAELRRLLKSKPYENCLLVLLNVQNAKAWNAFNLSCKILLTTRFKQVTDFLSAATTTHIS 290
Query: 371 -------LIVSDSRSALAALANVRFS---------NPLVTKVF--------STWSYLK-- 404
L + +S L + R NP + +TW K
Sbjct: 291 LDHHSMTLTPDEVKSLLLKYLDCRPQDLPREVLTTNPRRLSIIAESIRDGLATWDNWKHV 350
Query: 405 LCDKEVSFIWCPSHCGIRGNEIVD--VAAKNPSDLAPS-KLCT--PEDLK-PFIASLMKT 458
CDK I++ + P++ + P P L+
Sbjct: 351 NCDKL--------------TTIIESSLNVLEPAEYRKMFDRLSVFPPSAHIP--TILLSL 394
Query: 459 EWQNQWNNVPS--TNKLKSIRPYIKHWNTSNQDRRIKEVIL-TRMRIGHTRLTHNHLFTK 515
W + + NKL K S I + L ++++ + H +
Sbjct: 395 IWFDVIKSDVMVVVNKLHKYSLVEKQPKEST--ISIPSIYLELKVKLENEYALHRSIVDH 452
Query: 516 SAPPICQCGAPLS------------VRHILSCHRHD--------------------HIRS 543
P L H+ + + H +
Sbjct: 453 YNIPKTFDSDDLIPPYLDQYFYSHIGHHLKNIEHPERMTLFRMVFLDFRFLEQKIRHDST 512
Query: 544 SLHPPPSLGDDEEGVTSLFTYLQQLDIY 571
+ + S+ + LQQL Y
Sbjct: 513 AWNASGSILNT----------LQQLKFY 530
Score = 44.5 bits (104), Expect = 9e-05
Identities = 57/410 (13%), Positives = 115/410 (28%), Gaps = 139/410 (33%)
Query: 9 KPPLKRVLFI-DDLLIIGRGKDLD--------LLIQRFQHTLDEI------HLWAETNGT 53
P + L + + + K + LL RF+ D + H+ + +
Sbjct: 240 SKPYENCLLVLLN---VQNAKAWNAFNLSCKILLTTRFKQVTDFLSAATTTHISLDHHSM 296
Query: 54 LFSTDPGKSVCIDFHRLRVARSPILSYNGTPLHFVTNNKFLGLLWDAKMNWSLHIQYIK- 112
+ D KS+ + + R P P L ++ ++ + K
Sbjct: 297 TLTPDEVKSLLLKYLDCRPQDLPREVLTTNPRR-------LSIIAESIRDGLATWDNWKH 349
Query: 113 ------SRAM-NSLNALKMVSCKK----FGV-RRDV------------------------ 136
+ + +SLN L+ +K V
Sbjct: 350 VNCDKLTTIIESSLNVLEPAEYRKMFDRLSVFPPSAHIPTILLSLIWFDVIKSDVMVVVN 409
Query: 137 -------LLKFYKSFTLPILDYGCYIYSSAKDSVLNKLNTVHHAGIRIATGALRSSPVVS 189
+ K K T+ I IY K + N+ H I ++
Sbjct: 410 KLHKYSLVEKQPKESTISIPS----IYLELKVKLENE--YALHRSIVDHYNIPKT----- 458
Query: 190 LYVDSGIPPLFLRRSKLMLNYV-SKIS--ASPFNPAQKV-LFHQDMSGTIFTVNKPKPLY 245
+ + P +L Y S I +++ LF ++
Sbjct: 459 -FDSDDLIPPYLD------QYFYSHIGHHLKNIEHPERMTLFRM--------------VF 497
Query: 246 VRFREIANFINVLDSSEIAPYVRFVPPWSNCAPPVDQCLGEGKK-----SDTAPVVFQKM 300
+ FR F+ +R N + + L + K D P ++++
Sbjct: 498 LDFR----FLEQ--------KIRHDSTAWNASGSILNTLQQLKFYKPYICDNDPK-YERL 544
Query: 301 FHEVIN--IKYPNHTICFTDGSKSPDVTGCAFSIGDMVQSTLLNPINSIF 348
+ +++ K + IC S D+++ L+ +IF
Sbjct: 545 VNAILDFLPKIEENLIC------SKYT--------DLLRIALMAEDEAIF 580
>3p1g_A Xenotropic murine leukemia virus-related virus (X H domain; XMRV,
RNAse H, reverse transcriptase, transcription; 1.50A
{Xenotropic mulv-related virus} PDB: 3v1q_A 3v1o_A
3v1r_A* 2hb5_A
Length = 165
Score = 48.3 bits (115), Expect = 8e-07
Identities = 35/138 (25%), Positives = 55/138 (39%), Gaps = 17/138 (12%)
Query: 307 IKYPNHTICFTDGSKS----PDVTGCAFSIGD-MVQSTLLNPINSIFSAELIAIFLCLEA 361
I ++T +TDGS G A + ++ + L S AELIA+ +A
Sbjct: 19 IPDADYTW-YTDGSSFLQEGQRRAGAAVTTETEVIWARALPAGTSAQRAELIAL---TQA 74
Query: 362 IIDSPSNQFLIVSDSRSALAALANVRFSNPLVTKVFSTWSYLKLCDK--EVSFIWCPSHC 419
+ + + + +DSR A A +V + + LK +S I CP H
Sbjct: 75 LKMAEGKKLNVYTDSRYAFATA-HVHSEGREIKNKNEILALLKALFLPKRLSIIHCPGHQ 133
Query: 420 G-----IRGNEIVDVAAK 432
RGN + D AA+
Sbjct: 134 KGNSAEARGNRMADQAAR 151
>2zd1_A Reverse transcriptase/ribonuclease H; P51/P66, hetero dimer, NNRTI,
nonnucleoside inhibitor, AIDS, HIV, rilpivirine,
diarylpyrimidine, DAPY, DNA recombination; HET: T27;
1.80A {Human immunodeficiency virus 1} PDB: 3is9_A*
3irx_A* 2ze2_A* 3bgr_A* 3qlh_A* 3klf_A* 3qo9_A* 1dlo_A
1bqm_A 2be2_A* 1s6q_A* 1s6p_A* 1s9g_A* 1suq_A* 2b5j_A*
2b6a_A* 2ban_A* 1s9e_A* 1hni_A* 1hnv_A* ...
Length = 557
Score = 47.1 bits (112), Expect = 1e-05
Identities = 29/82 (35%), Positives = 43/82 (52%), Gaps = 12/82 (14%)
Query: 350 AELIAIFLCLEAIIDSPSNQFLIVSDSRSALAALAN--VRFSNPLVTKVFSTWSYLKLCD 407
EL AI+L L+ DS + IV+DS+ AL + + + LV ++ +L
Sbjct: 479 TELQAIYLALQ---DSGL-EVNIVTDSQYALGIIQAQPDKSESELVNQIIE-----QLIK 529
Query: 408 KEVSFI-WCPSHCGIRGNEIVD 428
KE ++ W P+H GI GNE VD
Sbjct: 530 KEKVYLAWVPAHKGIGGNEQVD 551
>2kq2_A Ribonuclease H-related protein; PSI, NESG, protein structure, APO
enzyme, structural genomics, protein structure
initiative; NMR {Desulfitobacterium hafniense dcb-2}
PDB: 2kw4_A
Length = 147
Score = 43.9 bits (104), Expect = 2e-05
Identities = 19/128 (14%), Positives = 35/128 (27%), Gaps = 16/128 (12%)
Query: 316 FTDGSKSPDVTGCAFSI-----------GDMVQSTLLNPINSIFSAELIAIFLCLEAIID 364
+TDGS A++ + E+ A ++
Sbjct: 10 YTDGSYVNGQYAWAYAFVKDGKVHYEDADVGKNPA--AATMRNVAGEIAAALYAVKKASQ 67
Query: 365 SPSNQFLIVSDSRSALAALANVRFSNPLVTKVFSTWSYLKLCDKEVSFIWCPSHCGIRGN 424
+ I+ D + T+ + + SF +H G N
Sbjct: 68 LGV-KIRILHDYAGIAFWATGEWKAKNEFTQAY--AKLMNQYRGIYSFEKVKAHSGNEFN 124
Query: 425 EIVDVAAK 432
+ VD+ AK
Sbjct: 125 DYVDMKAK 132
>1mu2_A HIV-2 RT; HIV-2 reverse transcriptase, AIDS, polymerase, drug
design, transferase; 2.35A {Human immunodeficiency virus
2} SCOP: c.55.3.1 e.8.1.2 PDB: 1mu2_B
Length = 555
Score = 45.1 bits (107), Expect = 4e-05
Identities = 23/82 (28%), Positives = 40/82 (48%), Gaps = 12/82 (14%)
Query: 350 AELIAIFLCLEAIIDSPSNQFLIVSDSRSALAALAN--VRFSNPLVTKVFSTWSYLKLCD 407
AEL A + L DS + I+ DS+ + +A+ + +V ++ ++
Sbjct: 476 AELEAFAMALT---DSGP-KVNIIVDSQYVMGIVASQPTESESKIVNQIIE-----EMIK 526
Query: 408 KEVSFI-WCPSHCGIRGNEIVD 428
KE ++ W P+H GI GN+ VD
Sbjct: 527 KEAIYVAWVPAHKGIGGNQEVD 548
>2qkb_A Ribonuclease H1, HS-RNAse HC, RNAse H1; RNA/DNA hybrid; 2.40A {Homo
sapiens} PDB: 2qk9_A 2qkk_A*
Length = 154
Score = 35.2 bits (82), Expect = 0.018
Identities = 12/43 (27%), Positives = 18/43 (41%), Gaps = 6/43 (13%)
Query: 400 WSYL-KLCDK-EVSFIWCPSHCGIRGNEIVDV----AAKNPSD 436
+ L +L ++ ++ P H G GNE D AK D
Sbjct: 112 FVALERLTQGMDIQWMHVPGHSGFIGNEEADRLAREGAKQSED 154
>4dgw_C PRE-mRNA-splicing factor PRP11; zinc finger; 3.11A {Saccharomyces
cerevisiae}
Length = 231
Score = 35.1 bits (80), Expect = 0.044
Identities = 20/125 (16%), Positives = 41/125 (32%), Gaps = 27/125 (21%)
Query: 233 GTIFTVNKPKPLYVRFREIANFINVLDSSEIAPYVRFVPPW--SNCAPPVDQCL---GEG 287
G VN N ++ D +++ P +R V S+ + L E
Sbjct: 117 GMAIQVNYSS------EVKENSVDSDDKAKVPPLIRIVSGLELSDTKQKGKKFLVIAYE- 169
Query: 288 KKSDTAPVVFQKMFHEVINIKYPNHTICFTDGSKSPDVTGCAFSIGDMVQSTLLNPINSI 347
P E I I+ P + I F++ + + + + T + I+ +
Sbjct: 170 ------P-------FENIAIELPPNEILFSENNDMDNNNDGVDELNK--KCTFWDAISKL 214
Query: 348 FSAEL 352
+ +
Sbjct: 215 YYVQF 219
>3qio_A GAG-POL polyprotein; RNAse H, inhibitor, nuclease, transferase,
hydrolase- complex; HET: QID; 1.40A {Hiv-1 M} PDB:
3qin_A* 3hyf_A* 1o1w_A 3lp3_A* 1hrh_A 3k2p_A* 1rdh_A
Length = 150
Score = 33.3 bits (77), Expect = 0.078
Identities = 14/31 (45%), Positives = 16/31 (51%), Gaps = 1/31 (3%)
Query: 404 KLCDKE-VSFIWCPSHCGIRGNEIVDVAAKN 433
+L KE V W P+H GI GNE VD
Sbjct: 113 QLIKKEKVYLAWVPAHKGIGGNEQVDKLVSA 143
>1jl1_A Ribonuclease HI; RNAse HI, protein stability, thermostability,
hydrogen exchange, cooperativity, hydrolase; 1.30A
{Escherichia coli} SCOP: c.55.3.1 PDB: 1f21_A 1jxb_A
1g15_A 1rch_A 1rdd_A 1rnh_A* 2rn2_A 1rda_A 1law_A 1rdb_A
1lav_A 3aa4_A 1rbu_A 1gob_A 1rdc_A 1kvc_A 3aa3_A 3aa2_A
3aa5_X 1rbv_A ...
Length = 155
Score = 31.7 bits (73), Expect = 0.28
Identities = 10/38 (26%), Positives = 15/38 (39%), Gaps = 5/38 (13%)
Query: 403 LKLCDK-EVSFIWCPSHCGIRGNEIVDV----AAKNPS 435
+ ++ + W H G NE D AA NP+
Sbjct: 108 DAALGQHQIKWEWVKGHAGHPENERADELARAAAMNPT 145
>2pff_A Fatty acid synthase subunit alpha, 3-oxoacyl-[acyl-carrier-PR;
fatty acid synthase, acyl-carrier-protein, beta-ketoacyl
RED beta-ketoacyl synthase, dehydratase; 4.00A
{Saccharomyces cerevisiae}
Length = 1688
Score = 32.9 bits (75), Expect = 0.31
Identities = 19/90 (21%), Positives = 30/90 (33%), Gaps = 19/90 (21%)
Query: 418 HCGIR--GNEIVDV-AAKNPSDLAPSKLCTPEDLKPFIAS-----LMKTEWQNQWNNVPS 469
H GIR E+ + + + + EDL+PF AS K + ++ +
Sbjct: 901 HSGIRLIEPELFNGYNPEKKEMIQEVIV--EEDLEPFEASKETAEQFKHQHGDKVDIFEI 958
Query: 470 TN------KLKS-IRPYIKHWNTSNQDRRI 492
KL YI DR +
Sbjct: 959 PETGEYSVKLLKGATLYIP--KALRFDRLV 986
>3h08_A RNH (ribonuclease H); RNAse H, 3D-structure, endonuclease,
hydrolase, magnesium, metal-binding; 1.60A
{Chlorobaculum tepidum}
Length = 146
Score = 31.3 bits (72), Expect = 0.41
Identities = 11/38 (28%), Positives = 12/38 (31%), Gaps = 5/38 (13%)
Query: 403 LKLCDK-EVSFIWCPSHCGIRGNEIVDV----AAKNPS 435
LKL V+F H N D A K S
Sbjct: 109 LKLTTLHRVTFHKVKGHSDNPYNSRADELARLAIKENS 146
>1ril_A Ribonuclease H; hydrolase(endoribonuclease); 2.80A {Thermus
thermophilus} SCOP: c.55.3.1 PDB: 2rpi_A
Length = 166
Score = 31.0 bits (71), Expect = 0.48
Identities = 13/50 (26%), Positives = 16/50 (32%), Gaps = 1/50 (2%)
Query: 403 LKLCDK-EVSFIWCPSHCGIRGNEIVDVAAKNPSDLAPSKLCTPEDLKPF 451
L V F + H G NE VD A+ + C P F
Sbjct: 113 LLAMAPHRVRFHFVKGHTGHPENERVDREARRQAQSQAKTPCPPRAPTLF 162
>2e4l_A Ribonuclease HI, RNAse HI; hydrolase, endoribonuclease; 2.00A
{Shewanella oneidensis} PDB: 2zqb_A
Length = 158
Score = 30.2 bits (69), Expect = 1.1
Identities = 11/46 (23%), Positives = 17/46 (36%), Gaps = 5/46 (10%)
Query: 403 LKLCDK-EVSFIWCPSHCGIRGNEIVDVAAKNPSDLAPSKLCTPED 447
K ++ + W H G NE D A+ ++ P T D
Sbjct: 110 DKAAQLHQIDWRWVKGHAGHAENERCDQLARAAAEANP----TQID 151
>3kbt_A Beta-I spectrin, spectrin beta chain, erythrocyte; complex,
spectrin, spectrin repeat, three helix bundle, ANKY
binding, disease mutation, structural protein, ZU5
sandwich; 2.75A {Homo sapiens} PDB: 3kbu_A
Length = 326
Score = 30.3 bits (68), Expect = 1.6
Identities = 10/45 (22%), Positives = 15/45 (33%), Gaps = 2/45 (4%)
Query: 22 LIIGRGKDLD--LLIQRFQHTLDEIHLWAETNGTLFSTDPGKSVC 64
LI R + L + R+ +T EI + D G
Sbjct: 205 LIDTRMQLLAASYDLHRYFYTGAEILGLIDEKHRELPEDVGLDAS 249
>1quu_A Human skeletal muscle alpha-actinin 2; triple-helix coiled coil,
contractIle protein; 2.50A {Homo sapiens} SCOP: a.7.1.1
a.7.1.1
Length = 250
Score = 30.0 bits (67), Expect = 1.8
Identities = 7/35 (20%), Positives = 12/35 (34%), Gaps = 1/35 (2%)
Query: 26 RGKDLDLLIQRFQHTLDEIHLW-AETNGTLFSTDP 59
R + L+ L ++F+ W L D
Sbjct: 8 RLERLEHLAEKFRQKASTHETWAYGKEQILLQKDY 42
>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 = 28.0 bits (61), Expect = 5.8
Identities = 7/23 (30%), Positives = 13/23 (56%), Gaps = 2/23 (8%)
Query: 182 LRSSPVVSLYVDSGIPPLFLRRS 204
L++S + LY D P L ++ +
Sbjct: 25 LQAS--LKLYADDSAPALAIKAT 45
>2qjt_B Nicotinamide-nucleotide adenylyltransferase; two individual
domains, hydrolase; HET: AMP; 2.30A {Francisella
tularensis} PDB: 2r5w_B
Length = 352
Score = 28.0 bits (62), Expect = 8.5
Identities = 12/111 (10%), Positives = 25/111 (22%), Gaps = 2/111 (1%)
Query: 362 IIDSPSNQFLIVSDSRSALAALANVRFSNPLVTKVFSTWSYLKLCDKEVSFIWCPSHCGI 421
+ D + + R + A S +V + + SY E +I ++
Sbjct: 82 LADYFYQEQKWQDELRKNVYKHAKNNNSIAIVGHIKDSSSYYIRSFPEWDYIGVDNYKNF 141
Query: 422 RGNEIVD--VAAKNPSDLAPSKLCTPEDLKPFIASLMKTEWQNQWNNVPST 470
E S + +Q+
Sbjct: 142 NATEFRQKFYNGIISKQYMCSNDPKLGTYNFLTKFMDTQVYQDLVAENNYV 192
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
0.323 0.138 0.429
Gapped
Lambda K H
0.267 0.0515 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Sequences: 27921
Number of Hits to DB: 8,961,627
Number of extensions: 531080
Number of successful extensions: 1017
Number of sequences better than 10.0: 1
Number of HSP's gapped: 1003
Number of HSP's successfully gapped: 28
Length of query: 574
Length of database: 6,701,793
Length adjustment: 99
Effective length of query: 475
Effective length of database: 3,937,614
Effective search space: 1870366650
Effective search space used: 1870366650
Neighboring words threshold: 11
Window for multiple hits: 40
X1: 16 ( 7.5 bits)
X2: 38 (14.6 bits)
X3: 64 (24.7 bits)
S1: 41 (22.0 bits)
S2: 60 (27.4 bits)