RPS-BLAST 2.2.26 [Sep-21-2011]
Database: pdb70
27,921 sequences; 6,701,793 total letters
Searching..................................................done
Query= psy216
(650 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 = 57.8 bits (139), Expect = 1e-08
Identities = 86/519 (16%), Positives = 153/519 (29%), Gaps = 182/519 (35%)
Query: 111 SLILTHAQLGRNINRANLPRTVKSRLEDLQ-IFDRI----SAQVIKRDEYIAPWELSVPE 165
L L+H L + +P LQ F++I + DE P EL
Sbjct: 8 PLTLSHGSLEHVL---LVPTASFFIASQLQEQFNKILPEPTEGFAADDEPTTPAELVGKF 64
Query: 166 IIYLTS--EKKENLSSVAV-KNAFFQF-----KGENQNSLF------------------- 198
+ Y++S E + V +F +G + ++L
Sbjct: 65 LGYVSSLVEPSKVGQFDQVLNLCLTEFENCYLEGNDIHALAAKLLQENDTTLVKTKELIK 124
Query: 199 CYTDGSKT---------------AANSGCAYI---------TET---ESQVFKLYNENSV 231
Y A G A + T+ E + LY V
Sbjct: 125 NYITARIMAKRPFDKKSNSALFRAVGEGNAQLVAIFGGQGNTDDYFEELR--DLYQTYHV 182
Query: 232 FSSELL-AIFMLLSHICNTRSRPEYIFR----------------DSVFICTDSKS----S 270
+L+ LS + T E +F D ++ + S
Sbjct: 183 LVGDLIKFSAETLSELIRTTLDAEKVFTQGLNILEWLENPSNTPDKDYLLSIPISCPLIG 242
Query: 271 LLALKNIM--------SPNHLVNN----------ILVKI---------NELKILNITVKF 303
++ L + + +P L + ++ + + + +
Sbjct: 243 VIQLAHYVVTAKLLGFTPGELRSYLKGATGHSQGLVTAVAIAETDSWESFFVSVRKAITV 302
Query: 304 L-WI--------PSHLGIAGNVQVDELAKNSQNAP--LLSM--MTSEDLKSAIKK---KL 347
L +I P + + ++ D L N++ P +LS+ +T E ++ + K L
Sbjct: 303 LFFIGVRCYEAYP-NTSLPPSILEDSLE-NNEGVPSPMLSISNLTQEQVQDYVNKTNSHL 360
Query: 348 LSEWHLH------WKNNVI----------NNKLRRIKEDTLL--WKSSFDKDRRKEIVIC 389
+ + KN V+ N LR+ K + L + F + RK
Sbjct: 361 PAGKQVEISLVNGAKNLVVSGPPQSLYGLNLTLRKAKAPSGLDQSRIPFSE--RKLKFSN 418
Query: 390 R-LRIG---HSHLTHNFLLKREDPPLCEWCNVQLSIQHILLECRKFRASRNK---WHLKD 442
R L + HSH LL + + L ++ F A + + D
Sbjct: 419 RFLPVASPFHSH-----LLVPASDLINKD----LVKNNV-----SFNAKDIQIPVYDTFD 464
Query: 443 --DISALLGDDHDEIYKCIIISAQVIKRDEYIAPWELSV 479
D+ L G + I C II V WE +
Sbjct: 465 GSDLRVLSGSISERIVDC-IIRLPV---K-----WETTT 494
Score = 43.9 bits (103), Expect = 2e-04
Identities = 51/327 (15%), Positives = 98/327 (29%), Gaps = 124/327 (37%)
Query: 70 YRTSPIESLYAENGQPPLETRRKI-------LLANYGTRV-KCNPSNPVSL-ILTHAQLG 120
Y+TS A + + YG + +NPV+L I + G
Sbjct: 1636 YKTSKA----A----------QDVWNRADNHFKDTYGFSILDIVINNPVNLTIHFGGEKG 1681
Query: 121 RNINRANLPR-----TVKSRLEDLQIFDRISAQVIKRDEYIAPWELSVPEIIYLTSEKKE 175
+ I R N V +L+ +IF I+ Y + S ++ T +
Sbjct: 1682 KRI-RENYSAMIFETIVDGKLKTEKIFKEINEHSTS---YT--FR-SEKGLLSAT----Q 1730
Query: 176 N------LSSVAVKNAFFQFKGE---NQNSLFC------YTDGSKTAANSGCAYITETES 220
L A AF K + ++ F Y A + A
Sbjct: 1731 FTQPALTLMEKA---AFEDLKSKGLIPADATFAGHSLGEYA------ALASLA------- 1774
Query: 221 QVFKLYNENSVFSSELLAIFMLLSHICNTRSRPEYIF----RDSVFICTDSKSSLLALKN 276
V + E+ V E++ R + RD + S ++A+
Sbjct: 1775 DVMSI--ESLV---EVV------------FYRGMTMQVAVPRDEL---GRSNYGMIAI-- 1812
Query: 277 IMSPNHLVNNI----LVKINELKILNITVKFLWI-----PSHLG----IAGNVQ-VDELA 322
+P + + L + E ++ T + I AG+++ +D +
Sbjct: 1813 --NPGRVAASFSQEALQYVVE-RVGKRTGWLVEIVNYNVE---NQQYVAAGDLRALDTVT 1866
Query: 323 --------KNSQNAPLLSMMTSEDLKS 341
+ L ++ E+++
Sbjct: 1867 NVLNFIKLQKIDIIELQKSLSLEEVEG 1893
Score = 42.3 bits (99), Expect = 6e-04
Identities = 34/194 (17%), Positives = 63/194 (32%), Gaps = 57/194 (29%)
Query: 16 KTW----GLSRACLLRLFY-------AF----VRPIMDYGAVIYGSATQSS-LSKLNTVY 59
+W R + LF+ A+ + P + ++ S LS
Sbjct: 287 DSWESFFVSVRKAITVLFFIGVRCYEAYPNTSLPPSILEDSLENNEGVPSPMLS------ 340
Query: 60 HTALRIISGAYRTSPIESLYAENGQPPLETRRKILLANYGTR--VKCNPSNPVSLILTHA 117
IS + + + N P + +I L N G + V P P SL +
Sbjct: 341 ------ISNLTQEQVQDYVNKTNSHLPAGKQVEISLVN-GAKNLVVSGP--PQSLYGLNL 391
Query: 118 QLGRNI------NRANLP---RTVKSRLEDLQIF------------DRISAQVIKRDEYI 156
L R +++ +P R +K L + D I+ ++K +
Sbjct: 392 TL-RKAKAPSGLDQSRIPFSERKLKFSNRFLPVASPFHSHLLVPASDLINKDLVKNNVSF 450
Query: 157 APWELSVPEIIYLT 170
++ +P +Y T
Sbjct: 451 NAKDIQIP--VYDT 462
Score = 39.3 bits (91), Expect = 0.005
Identities = 41/236 (17%), Positives = 72/236 (30%), Gaps = 76/236 (32%)
Query: 389 CR-LRIGHSHLTHNFLLKREDPPLCEWCNVQLSIQHILLECRKFRASRNKWHLKDDISAL 447
R L + H L H L+ P + F AS+ L++ + +
Sbjct: 6 TRPLTLSHGSLEHVLLV-----PTASF----------------FIASQ----LQEQFNKI 40
Query: 448 LGDDHDEIYKCIIISAQVIKRDEYIAPWELSVPEIIYLTS--EKKENLSSVAV-KNAFFQ 504
L + + DE P EL + Y++S E + V +
Sbjct: 41 LPEPTEGF----------AADDEPTTPAELVGKFLGYVSSLVEPSKVGQFDQVLNLCLTE 90
Query: 505 F-----KGENQNSLFCYTDGSKTAANSGC-----AYIT-----------ETESQVFKLYN 543
F +G + ++L YIT ++ S +F+
Sbjct: 91 FENCYLEGNDIHALAAKLLQENDTTLVKTKELIKNYITARIMAKRPFDKKSNSALFRAVG 150
Query: 544 ENSVFSSELLAIF--------ML--LSHIYSTSSRTEYIFRDSIFICTDSKSSLLA 589
E + +L+AIF L +Y T + D I ++ S L+
Sbjct: 151 EGNA---QLVAIFGGQGNTDDYFEELRDLYQTY---HVLVGDLIKFSAETLSELIR 200
>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 = 55.6 bits (133), Expect = 4e-08
Identities = 86/625 (13%), Positives = 181/625 (28%), Gaps = 152/625 (24%)
Query: 121 RNINRANLPRTVKSRLEDLQIFD--RISAQVIKRDEY----IAPWELS-VPEIIYLTSEK 173
++I V + D + ++ ++E ++ +S + + K
Sbjct: 19 KDILSVFEDAFVD----NFDCKDVQDMPKSILSKEEIDHIIMSKDAVSGTLRLFWTLLSK 74
Query: 174 KENLSSVAVKNAFFQFKGENQNSLFCYTDGSKTAANSGCAYITETESQVFKLYNENSVFS 233
+E + V+ N F KT Q +LYN+N VF+
Sbjct: 75 QEEMVQKFVEEV------LRINYKFLM-SPIKTEQRQPSMMTRMYIEQRDRLYNDNQVFA 127
Query: 234 ----SELLAIFMLLSHICNTRSRPEYIFRDSVFICTDSKSSL--LALKNIMSPNHLVNNI 287
S L L + R + D V K+ + + + I
Sbjct: 128 KYNVSRLQPYLKLRQALLELRPAK-NVLIDGVLGS--GKTWVALDVCLSYKVQCKMDFKI 184
Query: 288 L-VKINELKILNITVKFLWIPSHLGIAGNVQVDELAKNSQNAPLLSMMTSEDLKSAIKKK 346
+ + ++ L + I N + +S N L +++ +++
Sbjct: 185 FWLNLKNCNSPETVLEMLQKLLYQ-IDPNWT--SRSDHSSNIKL----RIHSIQAELRRL 237
Query: 347 LLSEWHLH--------WKNNVI---NNKLRRIKEDTLL---WKSSFDK---DRRKEIVIC 389
L S+ + + N + LL +K D I +
Sbjct: 238 LKSKPYENCLLVLLNVQNAKAWNAFNLSCK-----ILLTTRFKQVTDFLSAATTTHISLD 292
Query: 390 RLRIGHSHLTH--------NFL-LKREDPPLCEWCNVQ-LSIQHILLECRKFRASRNKW- 438
+ LT +L + +D P E + I R A+ + W
Sbjct: 293 HHSMT---LTPDEVKSLLLKYLDCRPQDLPR-EVLTTNPRRLSIIAESIRDGLATWDNWK 348
Query: 439 HLKDD---------ISALLGDDHDEIYK-CII------ISAQVIKRDEYIAPWELSVPEI 482
H+ D ++ L ++ +++ + I ++ W +
Sbjct: 349 HVNCDKLTTIIESSLNVLEPAEYRKMFDRLSVFPPSAHIPTILLSL-----IWFDVIKSD 403
Query: 483 IYLTSEKKENLSSVAVKNAFFQFKGENQNSLF---CYTDGSKTAANSGCAYITETESQVF 539
+ + K S V K ++++ Y + N +
Sbjct: 404 VMVVVNKLHKYSLVE--------KQPKESTISIPSIYLELKVKLENE-----YALHRSIV 450
Query: 540 KLYNENSVFSSELLAIFMLLSHIYS-------TSSRTEY------IFRDSIFICTDSKSS 586
YN F S+ L L + YS E +F D F+ + K
Sbjct: 451 DHYNIPKTFDSDDLIPPYLDQYFYSHIGHHLKNIEHPERMTLFRMVFLDFRFL--EQK-- 506
Query: 587 LLALKNIMSPNHLVNNILVKINELK---------------ILNITVKFLWIPSHLGIAGN 631
+++ + + +IL + +LK ++N + FL I
Sbjct: 507 ---IRHDSTAWNASGSILNTLQQLKFYKPYICDNDPKYERLVNAILDFLPKIEENLICSK 563
Query: 632 ----VQVPFL----EILKSSYKYIQ 648
+++ + I + ++K +Q
Sbjct: 564 YTDLLRIALMAEDEAIFEEAHKQVQ 588
Score = 29.4 bits (65), Expect = 4.4
Identities = 20/98 (20%), Positives = 44/98 (44%), Gaps = 16/98 (16%)
Query: 561 HIYSTSSRTEYIFRDSI------FICT-DSKSSLLALKNIMSPNHLVNNILVKINELKIL 613
H+ + +Y ++D + F+ D K K+I+S +++I++ + +
Sbjct: 6 HMDFETGEHQYQYKDILSVFEDAFVDNFDCKDVQDMPKSILS-KEEIDHIIMSKDAV--- 61
Query: 614 NITVKFLWIPSHLGIAGN--VQVPFLEILKSSYKYIQS 649
+ T++ W L VQ E+L+ +YK++ S
Sbjct: 62 SGTLRLFWT---LLSKQEEMVQKFVEEVLRINYKFLMS 96
>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 = 45.4 bits (108), Expect = 6e-06
Identities = 18/143 (12%), Positives = 36/143 (25%), Gaps = 23/143 (16%)
Query: 192 ENQNSLFCYTDGS-KTAANSGCAYITETESQVFKLY--------NENSVFSSELLAIFML 242
+++ YTDGS + + ++ + E+ A
Sbjct: 2 DDRTEYDVYTDGSYVNGQYAWAYAFVKDGKVHYEDADVGKNPAAATMRNVAGEIAAALYA 61
Query: 243 LSHICNTRSRPEYIFRDSVFICTDSKSSLLALKNIMSPNHLVNNILVK--INELKILNIT 300
+ + + I D + + N + +
Sbjct: 62 VKKASQLGVK--------IRILHDYAG----IAFWATGEWKAKNEFTQAYAKLMNQYRGI 109
Query: 301 VKFLWIPSHLGIAGNVQVDELAK 323
F + +H G N VD AK
Sbjct: 110 YSFEKVKAHSGNEFNDYVDMKAK 132
Score = 35.4 bits (82), Expect = 0.015
Identities = 15/135 (11%), Positives = 32/135 (23%), Gaps = 23/135 (17%)
Query: 508 ENQNSLFCYTDGS-KTAANSGCAYITETESQVFKLY--------NENSVFSSELLAIFML 558
+++ YTDGS + + ++ + E+ A
Sbjct: 2 DDRTEYDVYTDGSYVNGQYAWAYAFVKDGKVHYEDADVGKNPAAATMRNVAGEIAAALYA 61
Query: 559 LSHIYSTSSRTEYIFRDSIFICTDSKSSLLALKNIMSPNHLVNNILVK--INELKILNIT 616
+ + I I D + + N + +
Sbjct: 62 VKKASQLGVK--------IRILHDYAG----IAFWATGEWKAKNEFTQAYAKLMNQYRGI 109
Query: 617 VKFLWIPSHLGIAGN 631
F + +H G N
Sbjct: 110 YSFEKVKAHSGNEFN 124
>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 = 45.1 bits (107), Expect = 5e-05
Identities = 42/128 (32%), Positives = 57/128 (44%), Gaps = 23/128 (17%)
Query: 200 YTDGSKTAAN----SGCA-YITETESQVFKLYNENSVFSSELLAIFMLLSHICNTRSRPE 254
Y DG AAN G A Y+T Q + +EL AI++ L S E
Sbjct: 443 YVDG---AANRETKLGKAGYVTNKGRQKVVPLTNTTNQKTELQAIYLALQD-----SGLE 494
Query: 255 YIFRDSVFICTDSKSSLLALKNIMS-PNHLVNNILVKINELKILNITVKFLWIPSHLGIA 313
V I TDS+ AL I + P+ + ++ +I E I V W+P+H GI
Sbjct: 495 ------VNIVTDSQ---YALGIIQAQPDKSESELVNQIIEQLIKKEKVYLAWVPAHKGIG 545
Query: 314 GNVQVDEL 321
GN QVD+L
Sbjct: 546 GNEQVDKL 553
Score = 37.0 bits (86), Expect = 0.017
Identities = 39/125 (31%), Positives = 54/125 (43%), Gaps = 23/125 (18%)
Query: 516 YTDGSKTAAN----SGCA-YITETESQVFKLYNENSVFSSELLAIFMLLSHIYSTSSRTE 570
Y DG AAN G A Y+T Q + +EL AI++ L S E
Sbjct: 443 YVDG---AANRETKLGKAGYVTNKGRQKVVPLTNTTNQKTELQAIYLALQD-----SGLE 494
Query: 571 YIFRDSIFICTDSKSSLLALKNIMS-PNHLVNNILVKINELKILNITVKFLWIPSHLGIA 629
+ I TDS+ AL I + P+ + ++ +I E I V W+P+H GI
Sbjct: 495 ------VNIVTDSQ---YALGIIQAQPDKSESELVNQIIEQLIKKEKVYLAWVPAHKGIG 545
Query: 630 GNVQV 634
GN QV
Sbjct: 546 GNEQV 550
>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 = 42.9 bits (101), Expect = 6e-05
Identities = 26/164 (15%), Positives = 55/164 (33%), Gaps = 27/164 (16%)
Query: 166 IIYLTSEKKENLSSVAVKNAFFQFKGENQNSLFCYTDGSKTAANS--GCAYITETESQVF 223
I+ T + +L+ + +A + + YTDGS TE++V
Sbjct: 3 ILAETHGTRPDLTDQPIPDADYTW----------YTDGSSFLQEGQRRAGAAVTTETEVI 52
Query: 224 KLYNENSVFSS---ELLAIFMLLSHICNTRSRPEYIFRDSVFICTDSKSSLLALKNIMSP 280
+ S+ EL+A+ L + + + TDS+ +
Sbjct: 53 WARALPAGTSAQRAELIALTQAL----------KMAEGKKLNVYTDSRYAFATAHVHSEG 102
Query: 281 NHLVNNILVK-INELKILNITVKFLWIPSHL-GIAGNVQVDELA 322
+ N + + + L + + P H G + + + +A
Sbjct: 103 REIKNKNEILALLKALFLPKRLSIIHCPGHQKGNSAEARGNRMA 146
Score = 36.0 bits (83), Expect = 0.016
Identities = 25/160 (15%), Positives = 52/160 (32%), Gaps = 27/160 (16%)
Query: 482 IIYLTSEKKENLSSVAVKNAFFQFKGENQNSLFCYTDGSKTAANS--GCAYITETESQVF 539
I+ T + +L+ + +A + + YTDGS TE++V
Sbjct: 3 ILAETHGTRPDLTDQPIPDADYTW----------YTDGSSFLQEGQRRAGAAVTTETEVI 52
Query: 540 KLYNENSVFSS---ELLAIFMLLSHIYSTSSRTEYIFRDSIFICTDSKSSLLALKNIMSP 596
+ S+ EL+A+ L + + + TDS+ +
Sbjct: 53 WARALPAGTSAQRAELIALTQAL----------KMAEGKKLNVYTDSRYAFATAHVHSEG 102
Query: 597 NHLVNNILVK-INELKILNITVKFLWIPSHL-GIAGNVQV 634
+ N + + + L + + P H G + +
Sbjct: 103 REIKNKNEILALLKALFLPKRLSIIHCPGHQKGNSAEARG 142
>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 = 43.6 bits (103), Expect = 2e-04
Identities = 37/128 (28%), Positives = 55/128 (42%), Gaps = 23/128 (17%)
Query: 200 YTDGSKTAAN----SGCA-YITETESQVFKLYNENSVFSSELLAIFMLLSHICNTRSRPE 254
YTDG + N G A Y+T+ K + + +EL A M L+ S P+
Sbjct: 440 YTDG---SCNRQSKEGKAGYVTDRGKDKVKKLEQTTNQQAELEAFAMALTD-----SGPK 491
Query: 255 YIFRDSVFICTDSKSSLLALKNIMS-PNHLVNNILVKINELKILNITVKFLWIPSHLGIA 313
V I DS+ + + S P + I+ +I E I + W+P+H GI
Sbjct: 492 ------VNIIVDSQ---YVMGIVASQPTESESKIVNQIIEEMIKKEAIYVAWVPAHKGIG 542
Query: 314 GNVQVDEL 321
GN +VD L
Sbjct: 543 GNQEVDHL 550
Score = 35.5 bits (82), Expect = 0.061
Identities = 34/128 (26%), Positives = 51/128 (39%), Gaps = 29/128 (22%)
Query: 516 YTDGSKTAAN----SGCA-YITETESQVFKLYNENSVFSSELLAIFMLLSHIYSTSSRTE 570
YTDG + N G A Y+T+ K + + +EL A M L
Sbjct: 440 YTDG---SCNRQSKEGKAGYVTDRGKDKVKKLEQTTNQQAELEAFAMAL----------- 485
Query: 571 YIFRDS---IFICTDSKSSLLALKNIMS-PNHLVNNILVKINELKILNITVKFLWIPSHL 626
DS + I DS+ + + S P + I+ +I E I + W+P+H
Sbjct: 486 ---TDSGPKVNIIVDSQ---YVMGIVASQPTESESKIVNQIIEEMIKKEAIYVAWVPAHK 539
Query: 627 GIAGNVQV 634
GI GN +V
Sbjct: 540 GIGGNQEV 547
>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 = 37.5 bits (88), Expect = 0.003
Identities = 37/149 (24%), Positives = 51/149 (34%), Gaps = 45/149 (30%)
Query: 200 YTDGSKTAANS-----GCAYITETESQVFKLYNE---NSVFSSELLAIFMLLSHICNTRS 251
Y DG AAN Y+T Q + EL AI++ L +
Sbjct: 16 YVDG---AANRETKLGKAGYVTNRGRQKVVTLTDTTNQKT---ELQAIYLAL------QD 63
Query: 252 RPEYIFRDSVFICTDSKSSLLALKNIMS---PNHLVNNIL------VKINEL--KILNI- 299
V I TDS+ I++ N VK +L +I+
Sbjct: 64 SGL-----EVNIVTDSQY----ALGIITQWIHNWKKRGWKTADKKPVKNVDLVNQIIEQL 114
Query: 300 ----TVKFLWIPSHLGIAGNVQVDELAKN 324
V W+P+H GI GN QVD+L
Sbjct: 115 IKKEKVYLAWVPAHKGIGGNEQVDKLVSA 143
>3lvg_D LCB, clathrin light chain B; SELF assembly, coated PIT, cytoplasmic
vesicle, membrane, Ca structural protein; 7.94A {Bos
taurus}
Length = 190
Score = 34.7 bits (79), Expect = 0.046
Identities = 9/55 (16%), Positives = 24/55 (43%), Gaps = 8/55 (14%)
Query: 336 SEDLKSAIK---KKLLSEWHLHWKNNVINNKLRRIKEDTLLWKSSFDKDRRKEIV 387
S+ ++ + KK L EW+ + ++ + K + + +F + +I+
Sbjct: 105 SKVMEQEWREKAKKDLEEWNQRQ-----SEQVEKNKINNRIADKAFYQQPDADII 154
>2qkb_A Ribonuclease H1, HS-RNAse HC, RNAse H1; RNA/DNA hybrid; 2.40A {Homo
sapiens} PDB: 2qk9_A 2qkk_A*
Length = 154
Score = 33.3 bits (77), Expect = 0.094
Identities = 8/27 (29%), Positives = 16/27 (59%)
Query: 298 NITVKFLWIPSHLGIAGNVQVDELAKN 324
+ ++++ +P H G GN + D LA+
Sbjct: 121 GMDIQWMHVPGHSGFIGNEEADRLARE 147
>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 = 32.1 bits (74), Expect = 0.22
Identities = 11/32 (34%), Positives = 17/32 (53%)
Query: 300 TVKFLWIPSHLGIAGNVQVDELAKNSQNAPLL 331
+K+ W+ H G N + DELA+ + P L
Sbjct: 115 QIKWEWVKGHAGHPENERADELARAAAMNPTL 146
>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 = 31.1 bits (69), Expect = 0.63
Identities = 9/45 (20%), Positives = 17/45 (37%), Gaps = 17/45 (37%)
Query: 49 QSSLSKLNTVYHTALRIISGAYRTSPIESLYAENGQPPLETRRKI 93
+ +L KL +L+ LYA++ P L + +
Sbjct: 19 KQALKKL----QASLK-------------LYADDSAPALAIKATM 46
Score = 29.1 bits (64), Expect = 2.3
Identities = 7/25 (28%), Positives = 15/25 (60%), Gaps = 4/25 (16%)
Query: 215 ITETESQVFKLYNENSVFSSELLAI 239
+ + ++ + KLY ++ S+ LAI
Sbjct: 22 LKKLQASL-KLYADD---SAPALAI 42
Score = 29.1 bits (64), Expect = 2.3
Identities = 7/25 (28%), Positives = 15/25 (60%), Gaps = 4/25 (16%)
Query: 531 ITETESQVFKLYNENSVFSSELLAI 555
+ + ++ + KLY ++ S+ LAI
Sbjct: 22 LKKLQASL-KLYADD---SAPALAI 42
>1ril_A Ribonuclease H; hydrolase(endoribonuclease); 2.80A {Thermus
thermophilus} SCOP: c.55.3.1 PDB: 2rpi_A
Length = 166
Score = 29.5 bits (67), Expect = 2.1
Identities = 8/33 (24%), Positives = 15/33 (45%)
Query: 300 TVKFLWIPSHLGIAGNVQVDELAKNSQNAPLLS 332
V+F ++ H G N +VD A+ + +
Sbjct: 120 RVRFHFVKGHTGHPENERVDREARRQAQSQAKT 152
>2e4l_A Ribonuclease HI, RNAse HI; hydrolase, endoribonuclease; 2.00A
{Shewanella oneidensis} PDB: 2zqb_A
Length = 158
Score = 29.4 bits (67), Expect = 2.1
Identities = 9/33 (27%), Positives = 17/33 (51%), Gaps = 1/33 (3%)
Query: 300 TVKFLWIPSHLGIAGNVQVDELAKN-SQNAPLL 331
+ + W+ H G A N + D+LA+ ++ P
Sbjct: 117 QIDWRWVKGHAGHAENERCDQLARAAAEANPTQ 149
>3h08_A RNH (ribonuclease H); RNAse H, 3D-structure, endonuclease,
hydrolase, magnesium, metal-binding; 1.60A
{Chlorobaculum tepidum}
Length = 146
Score = 28.6 bits (65), Expect = 3.1
Identities = 8/24 (33%), Positives = 11/24 (45%)
Query: 300 TVKFLWIPSHLGIAGNVQVDELAK 323
V F + H N + DELA+
Sbjct: 116 RVTFHKVKGHSDNPYNSRADELAR 139
>3slk_A Polyketide synthase extender module 2; rossmann fold, NADPH,
oxidoreductase; HET: NDP; 3.00A {Saccharopolyspora
spinosa}
Length = 795
Score = 29.7 bits (67), Expect = 4.1
Identities = 5/25 (20%), Positives = 11/25 (44%)
Query: 330 LLSMMTSEDLKSAIKKKLLSEWHLH 354
+ +T E L ++ K+ +L
Sbjct: 626 VSESLTVERLDQVLRPKVDGARNLL 650
>1dh3_A Transcription factor CREB; protein-DNA complex, transcription/DNA
complex; HET: DNA; 3.00A {Mus musculus} SCOP: h.1.3.1
Length = 55
Score = 26.2 bits (58), Expect = 5.1
Identities = 12/33 (36%), Positives = 17/33 (51%)
Query: 213 AYITETESQVFKLYNENSVFSSELLAIFMLLSH 245
Y+ E++V L N+N EL A+ L SH
Sbjct: 22 EYVKSLENRVAVLENQNKTLIEELKALKDLYSH 54
Score = 26.2 bits (58), Expect = 5.1
Identities = 12/33 (36%), Positives = 17/33 (51%)
Query: 529 AYITETESQVFKLYNENSVFSSELLAIFMLLSH 561
Y+ E++V L N+N EL A+ L SH
Sbjct: 22 EYVKSLENRVAVLENQNKTLIEELKALKDLYSH 54
>3asa_A LL-diaminopimelate aminotransferase; PLP dependent
aminotransferase; 2.05A {Chlamydia trachomatis} PDB:
3asb_A*
Length = 400
Score = 29.1 bits (66), Expect = 5.4
Identities = 15/65 (23%), Positives = 24/65 (36%), Gaps = 15/65 (23%)
Query: 60 HTALRIISGAYRTSPIES--LYAENG---QPPLETRRKILLANYGTRVKCNPSNPVSLIL 114
+ + ++GA I + EN + P +T IL P+NP +L
Sbjct: 131 YLDIARLTGA---KEIIALPCLQENAFFPEFPEDTHIDILCLCS-------PNNPTGTVL 180
Query: 115 THAQL 119
QL
Sbjct: 181 NKDQL 185
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
0.320 0.134 0.392
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: 9,198,461
Number of extensions: 525224
Number of successful extensions: 856
Number of sequences better than 10.0: 1
Number of HSP's gapped: 843
Number of HSP's successfully gapped: 31
Length of query: 650
Length of database: 6,701,793
Length adjustment: 100
Effective length of query: 550
Effective length of database: 3,909,693
Effective search space: 2150331150
Effective search space used: 2150331150
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: 60 (27.5 bits)