RPS-BLAST 2.2.26 [Sep-21-2011]
Database: pdb70
27,921 sequences; 6,701,793 total letters
Searching..................................................done
Query= psy5607
(769 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 = 58.1 bits (140), Expect = 1e-08
Identities = 90/571 (15%), Positives = 158/571 (27%), Gaps = 207/571 (36%)
Query: 248 TVALLLDGQKAFDMTWRFKIIETLKGFNINGYMLRYLCNFLYNRSFKVKCNGSFSNSFPL 307
+A L + + ++I+ Y + R F SNS L
Sbjct: 103 ALAAKLLQENDTTLVKTKELIKN--------Y---ITARIMAKRPFD-----KKSNS-AL 145
Query: 308 QNGIVQGSSLSPVLFIIF-----MNDILDIIKVPLRRL-----LFIDDFLVIARGKVIEL 357
+ +G++ L IF +D + LR L + + D + + + EL
Sbjct: 146 FRAVGEGNA---QLVAIFGGQGNTDDYFE----ELRDLYQTYHVLVGDLIKFSAETLSEL 198
Query: 358 LR--IKIQKALN---DILKWSNQNGLIFSADPKKS--ACILFSRARNPTFPPLFYNGSEL 410
+R + +K +IL+W S P K I S P
Sbjct: 199 IRTTLDAEKVFTQGLNILEWLENP----SNTPDKDYLLSIPIS------CP--------- 239
Query: 411 KFESNIKFLGLYWDAKMNWAL-HINHTKSRAMVALNVLKMVCNKKYGVRRETLLTFYKSY 469
+G+ L H +V +L G L ++ K
Sbjct: 240 -------LIGVI-------QLAHY-------VVTAKLL--------GFTPGELRSYLKGA 270
Query: 470 IMPIFDYGC-------IVYSSAKDY------ILKKLNPVHNAGIRIATGALRSSPVTSLY 516
G + + + + K + + G+R + P TSL
Sbjct: 271 T------GHSQGLVTAVAIAETDSWESFFVSVRKAITVLFFIGVR----CYEAYPNTSL- 319
Query: 517 VESGIPPLSYRRSKMMLNYVSKVGSCPSNPIHKEIFNPILSITDYPANKPKPAII-RVRE 575
PP ++ + + PS P+LSI++ + + V +
Sbjct: 320 -----PP------SILEDSLENNEGVPS---------PMLSISNL----TQEQVQDYVNK 355
Query: 576 LNDFMS-----HFS--NSD--FV---PYQ-----------KHNPPWCFQA--PPVDTSLH 610
N + S N V P Q P Q+ P
Sbjct: 356 TNSHLPAGKQVEISLVNGAKNLVVSGPPQSLYGLNLTLRKAKAPSGLDQSRIP------F 409
Query: 611 VDRKKNISPSVFQKHFLDAISSKYNDCIYLPHSKFLLVSDSMSAIQA--IANICSSYKNS 668
+RK F FL ++S + HS L + I + N S
Sbjct: 410 SERKL-----KFSNRFL-PVASPF-------HSHLL--VPASDLINKDLVKNNVSFNAKD 454
Query: 669 LTSKIYSA--WMDLKSGGKEVTLMWCPSHCGISGNEAVDMAAKNPC--TSTQPLKLCSAC 724
+ +Y DL+ ++ D + P +T K
Sbjct: 455 IQIPVYDTFDGSDLRVLSGSIS----ERIV--------DCIIRLPVKWETTTQFKATHIL 502
Query: 725 DFKPL----VAKIIHNMWQTSWNNLLIPNKL 751
DF P + + H + +++ L
Sbjct: 503 DFGPGGASGLGVLTHRNKDGTGVRVIVAGTL 533
Score = 45.0 bits (106), Expect = 1e-04
Identities = 84/489 (17%), Positives = 149/489 (30%), Gaps = 161/489 (32%)
Query: 18 LHLVVARADTFHKSGSRNLPSNFRPVCNYSIIPKTFEKLVYDKLSPLASISGSLLYWFHS 77
+H + A + L + NY + K P S S L+
Sbjct: 101 IHALAA---KLLQENDTTLVKTKELIKNY------ITARIMAK-RPFDKKSNSALF---- 146
Query: 78 FLTNRTQIVKVRKSKSTPIKVTS--GCGQGGH------MKNLAPPTDSNESIDMDMDIVP 129
R ++ + G GQG +++L + + D++
Sbjct: 147 -----------RAVGEGNAQLVAIFG-GQGNTDDYFEELRDLY--QTYHVLVG---DLIK 189
Query: 130 EKGKK-RALTQSPPPQDN--EKKFDFSSVGKFPKSWGESLILPLLKPGKDRLVPSNYRPI 186
+ L ++ + + + W E+ P P KD L+ PI
Sbjct: 190 FSAETLSELIRTTLDAEKVFTQGLNI-------LEWLEN---PSNTPDKDYLLSI---PI 236
Query: 187 SL-LNCSGKILEKMVNKRLFWV-LENRGLINPFQSGGRFRRSTIDNLVFLEKEAAQGLAK 244
S L + ++ + + V + G P + + +T +QGL
Sbjct: 237 SCPLIG----VIQLAH---YVVTAKLLGF-TPGELRSYLKGATG---------HSQGLV- 278
Query: 245 KECTVALLL---DGQKAFD------MTWRFKI-IETLKGFNI-------------NG--- 278
A+ + D ++F +T F I + + + N
Sbjct: 279 ----TAVAIAETDSWESFFVSVRKAITVLFFIGVRCYEAYPNTSLPPSILEDSLENNEGV 334
Query: 279 --YMLRYLCNFLYNRSFKV--KCNGSFSNSFP----LQNG----IVQGSSLSPVLFIIFM 326
ML + N + K N L NG +V G S + +
Sbjct: 335 PSPMLS-ISNLTQEQVQDYVNKTNSHLPAGKQVEISLVNGAKNLVVSGPPQSLYGLNLTL 393
Query: 327 NDI-----LDIIKVPL--RRLLFIDDFLVIARGKV---IELLRIKIQKALNDILKWSNQN 376
LD ++P R+L F + FL +A LL A + I K +N
Sbjct: 394 RKAKAPSGLDQSRIPFSERKLKFSNRFLPVA---SPFHSHLL----VPASDLINKDLVKN 446
Query: 377 GLIFSADPKKSACILFSRARNPTFPPLF--YNGSELKFESN---------IKFLGLYWDA 425
+ F+A K I P++ ++GS+L+ S I L + W+
Sbjct: 447 NVSFNA---KDIQI-----------PVYDTFDGSDLRVLSGSISERIVDCIIRLPVKWET 492
Query: 426 KMNW-ALHI 433
+ A HI
Sbjct: 493 TTQFKATHI 501
Score = 40.8 bits (95), Expect = 0.002
Identities = 44/280 (15%), Positives = 85/280 (30%), Gaps = 107/280 (38%)
Query: 544 SNPIHKEIFNPI---------LSITDYPANKPKPAII--------RVRELNDFMSHFSNS 586
++ ++++N SI D N P I R+RE M +
Sbjct: 1638 TSKAAQDVWNRADNHFKDTYGFSILDIVINNPVNLTIHFGGEKGKRIRENYSAMIFETIV 1697
Query: 587 D--------FVPYQKHNPPWCFQAPPVDTSLHVDRKKNISPSVFQKHFLDAIS-SKYNDC 637
D F +H+ + F++ L + P++ + + + D
Sbjct: 1698 DGKLKTEKIFKEINEHSTSYTFRSE--KGLL--SATQFTQPALT------LMEKAAFED- 1746
Query: 638 IYLPHSKFLLVSDSM---------SAIQAIANICSSYKNSLTSKIYSAWMDLKSG----- 683
L SK L+ +D+ +A+ ++A++ M ++S
Sbjct: 1747 --L-KSKGLIPADATFAGHSLGEYAALASLADV----------------MSIESLVEVVF 1787
Query: 684 --GKEVTLMWCPSHCGISGNEAVDMAAKNPCTSTQPLKLCSACDFKPLVAKIIHNMWQTS 741
G + + P G M A NP + S + +V ++ +T
Sbjct: 1788 YRGMTMQVA-VPR--DELGRSNYGMIAINP---GRVAASFSQEALQYVVERVGK---RTG 1838
Query: 742 W-----N---------------------NLLIPNKLKRIK 755
W N N+L KL++I
Sbjct: 1839 WLVEIVNYNVENQQYVAAGDLRALDTVTNVLNFIKLQKID 1878
>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 = 57.6 bits (138), Expect = 1e-08
Identities = 66/446 (14%), Positives = 128/446 (28%), Gaps = 116/446 (26%)
Query: 331 DIIKVPLRRLLFIDDFLVIARGKVIELLRIKIQKA-LNDILKWSNQNGLIFSADPKKSAC 389
DI+ V F+D+F V ++ + + K ++ I+ S D
Sbjct: 20 DILSVFEDA--FVDNFDC---KDVQDMPKSILSKEEIDHIIM---------SKDAVSGTL 65
Query: 390 ILFS--RARNPTFPPLFYNGSELKFESNIKFLGLYWDAKMNWALHINHTKSRAMVALNVL 447
LF ++ F N KFL +
Sbjct: 66 RLFWTLLSKQEEMVQKFVEEVL---RINYKFL---MSP---------------------I 98
Query: 448 KMVCNKKYGVRRETLLTFYKSYIMPIFDYGCIVYSSAKDYILKKLNPVHNAGIRIATGAL 507
K + + R Y +++ + Y + +L P +R A L
Sbjct: 99 KTEQRQPSMMTRM-----YIEQRDRLYNDNQVF----AKYNVSRLQPYLK--LRQALLEL 147
Query: 508 RSSPVTSLYVESGIPPLSYRRSKMMLNYVSKVGSCPSNPIHKEIFNPI--LSITDYPANK 565
R + + G K + V C S + ++ I L++ + N
Sbjct: 148 RPAKNVLIDGVLGS-------GKTWV--ALDV--CLSYKVQCKMDFKIFWLNLKNC--NS 194
Query: 566 PKPAIIRVRELNDFMSHFSNSDFVPYQKHNPPWCFQAPPVDTSLHVDRKKNISPSVFQKH 625
P+ + +++L + +P W ++ D S ++ + + + ++
Sbjct: 195 PETVLEMLQKL--------------LYQIDPNWTSRS---DHSSNIKLRIHSIQAELRRL 237
Query: 626 FLDAISSKYNDCIYLPHSKFLLVSD---SMSAIQAIANICSSYKNSLTSKIYSAWMDLKS 682
S Y +C LLV + A A C K LT++ + D S
Sbjct: 238 LK---SKPYENC--------LLVLLNVQNAKAWNAFNLSC---KILLTTR-FKQVTDFLS 282
Query: 683 GGKEVTLMWCPSHCGISGNEAVDMAAKNPCTSTQPLKL-CSACDFKPLVAKII------- 734
+ ++ +E + K +P L P II
Sbjct: 283 AATTTHISLDHHSMTLTPDEVKSLLLK--YLDCRPQDLPREVLTTNPRRLSIIAESIRDG 340
Query: 735 HNMWQTSWNNLLIPNKLKRIKPVIEN 760
W W ++ I+ +
Sbjct: 341 LATWDN-WKHVNCDKLTTIIESSLNV 365
Score = 57.2 bits (137), Expect = 2e-08
Identities = 91/633 (14%), Positives = 191/633 (30%), Gaps = 179/633 (28%)
Query: 151 DFSSVGKFPKSWGESLILPLLKPG--KD---RLVPSNYRPISLLNCSGKILEKMVN---- 201
DF G+ + + IL + + + + V + I S + ++ ++
Sbjct: 8 DFE-TGEHQYQYKD--ILSVFEDAFVDNFDCKDVQDMPKSI----LSKEEIDHIIMSKDA 60
Query: 202 ----KRLFWVLENRG------------------LINPFQSGGR----------FRRSTI- 228
RLFW L ++ L++P ++ R +R +
Sbjct: 61 VSGTLRLFWTLLSKQEEMVQKFVEEVLRINYKFLMSPIKTEQRQPSMMTRMYIEQRDRLY 120
Query: 229 -DNLVFLE------------KEAAQGLAKKECTVALLLDGQKAFDMTW------RFKIIE 269
DN VF + ++A L + +L+DG TW ++
Sbjct: 121 NDNQVFAKYNVSRLQPYLKLRQALLELRPAK---NVLIDGVLGSGKTWVALDVCLSYKVQ 177
Query: 270 TLKGFNI------NGYMLRYLCNFLYNRSFKVKCNGSFSNSFPLQNGIVQGSSLSPVLFI 323
F I N + L +++ N + S S N ++ S+ L
Sbjct: 178 CKMDFKIFWLNLKNCNSPETVLEMLQKLLYQIDPNWT-SRSDHSSNIKLRIHSIQAELRR 236
Query: 324 IFMNDILDIIKVPLRRLLFIDD---------F------LVIARGK-VIELLRIKIQKALN 367
+ + K LL + + F L+ R K V + L ++
Sbjct: 237 LLKS------KPYENCLLVLLNVQNAKAWNAFNLSCKILLTTRFKQVTDFLSAATTTHIS 290
Query: 368 DILKWSNQNGLIFSADPKKSACILFSRARNPTFPPLFYNGSELKFESNIKFLGLY----- 422
+ + + + D KS + + R P + + + +
Sbjct: 291 -----LDHHSMTLTPDEVKSLLLKYLDCRPQDLPREVLTTNPRR----LSIIAESIRDGL 341
Query: 423 --WDAKMNWALHINHTK-SRAM-VALNVLKMVCNKKYGVRRETLLTFYKSYIMPIFDYG- 477
WD NW H+N K + + +LNVL+ +K + + +F
Sbjct: 342 ATWD---NW-KHVNCDKLTTIIESSLNVLEPAEYRKM----------FDR--LSVFPPSA 385
Query: 478 -------CIVYSSAKDY----ILKKLNPVHNAGIRIATGALRSSPVTSLYVESGIPPLSY 526
+++ ++ KL H + + + S+Y+E + +
Sbjct: 386 HIPTILLSLIWFDVIKSDVMVVVNKL---HKYSLVEKQPKESTISIPSIYLELKVKLENE 442
Query: 527 RR--SKMMLNYVSKVGSCPSNPIHKEIFNPILSITDYPANKPKPAIIRVRELNDFMSHFS 584
++ +Y + I + S + + + F F
Sbjct: 443 YALHRSIVDHYNIPKTFDSDDLIPPYLDQYFYSHIGHHLKNIEHP----ERMTLFRMVFL 498
Query: 585 NSDFVPYQK---HNPPWCFQAPPVDTSLHVDR-KKNISPS--VFQ------KHFL----- 627
+ F+ QK + W ++T + K I + ++ FL
Sbjct: 499 DFRFLE-QKIRHDSTAWNASGSILNTLQQLKFYKPYICDNDPKYERLVNAILDFLPKIEE 557
Query: 628 DAISSKYNDCIYL----PHSKFLLVSDSMSAIQ 656
+ I SKY D + + + ++ +Q
Sbjct: 558 NLICSKYTDLLRIALMAEDEA--IFEEAHKQVQ 588
>3kyl_A Telomerase reverse transcriptase; reverse transcriptase; 2.70A
{Tribolium castaneum} PDB: 3du5_A 3du6_A
Length = 596
Score = 38.8 bits (89), Expect = 0.006
Identities = 10/49 (20%), Positives = 21/49 (42%), Gaps = 4/49 (8%)
Query: 305 FPLQNGIVQGSSLSPVLFIIFMNDILDIIKVPLRR----LLFIDDFLVI 349
+ +G++QG LS L ++M + + L + +DD+
Sbjct: 300 YKWNHGLLQGDPLSGCLCELYMAFMDRLYFSNLDKDAFIHRTVDDYFFC 348
>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 = 33.5 bits (77), Expect = 0.086
Identities = 11/44 (25%), Positives = 15/44 (34%), Gaps = 3/44 (6%)
Query: 666 KNSLTSKIYSAWMDLKSGGKEVTLMWCPSHCGISGNEAVDMAAK 709
KN T + + +H G N+ VDM AK
Sbjct: 92 KNEFTQAYAKLMNQYR---GIYSFEKVKAHSGNEFNDYVDMKAK 132
>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 = 33.7 bits (77), Expect = 0.090
Identities = 17/78 (21%), Positives = 29/78 (37%), Gaps = 12/78 (15%)
Query: 640 LPHSKFLLVSDSMSAIQAIANICSSYKNSLTSKIYSAWM---DLKSGGKEVTLMWCPSHC 696
K + +DS A A A++ S + K + + K ++++ CP H
Sbjct: 78 AEGKKLNVYTDSRYAF-ATAHVHSEGREI---KNKNEILALLKALFLPKRLSIIHCPGHQ 133
Query: 697 G-----ISGNEAVDMAAK 709
GN 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 = 34.4 bits (79), Expect = 0.14
Identities = 19/59 (32%), Positives = 31/59 (52%), Gaps = 4/59 (6%)
Query: 647 LVSDSMSAIQAIANICSSYKNSLTSKIYSAWMDLKSGGKEVTLMWCPSHCGISGNEAVD 705
+V+DS A+ I ++ L ++I ++ ++V L W P+H GI GNE VD
Sbjct: 497 IVTDSQYALGIIQAQPDKSESELVNQI----IEQLIKKEKVYLAWVPAHKGIGGNEQVD 551
>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 = 33.2 bits (76), Expect = 0.39
Identities = 17/59 (28%), Positives = 29/59 (49%), Gaps = 4/59 (6%)
Query: 647 LVSDSMSAIQAIANICSSYKNSLTSKIYSAWMDLKSGGKEVTLMWCPSHCGISGNEAVD 705
++ DS Q + I +S SKI + ++ + + + W P+H GI GN+ VD
Sbjct: 494 IIVDS----QYVMGIVASQPTESESKIVNQIIEEMIKKEAIYVAWVPAHKGIGGNQEVD 548
>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 = 31.0 bits (71), Expect = 0.65
Identities = 12/25 (48%), Positives = 14/25 (56%)
Query: 686 EVTLMWCPSHCGISGNEAVDMAAKN 710
+V L W P+H GI GNE VD
Sbjct: 119 KVYLAWVPAHKGIGGNEQVDKLVSA 143
>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 = 30.7 bits (68), Expect = 1.1
Identities = 10/28 (35%), Positives = 14/28 (50%), Gaps = 8/28 (28%)
Query: 411 KFESNIKFLGLYWD--AKMNWALHINHT 436
K ++++K LY D A AL I T
Sbjct: 24 KLQASLK---LYADDSAP---ALAIKAT 45
>2qkb_A Ribonuclease H1, HS-RNAse HC, RNAse H1; RNA/DNA hybrid; 2.40A {Homo
sapiens} PDB: 2qk9_A 2qkk_A*
Length = 154
Score = 29.8 bits (68), Expect = 1.9
Identities = 11/36 (30%), Positives = 18/36 (50%), Gaps = 2/36 (5%)
Query: 677 WMDLK--SGGKEVTLMWCPSHCGISGNEAVDMAAKN 710
++ L+ + G ++ M P H G GNE D A+
Sbjct: 112 FVALERLTQGMDIQWMHVPGHSGFIGNEEADRLARE 147
>3nvq_A Semaphorin-7A; beta-propeller, signaling, signaling protein-protein
binding; HET: NAG NDG; 2.40A {Homo sapiens}
Length = 590
Score = 28.8 bits (63), Expect = 8.3
Identities = 7/70 (10%), Positives = 14/70 (20%)
Query: 574 RELNDFMSHFSNSDFVPYQKHNPPWCFQAPPVDTSLHVDRKKNISPSVFQKHFLDAISSK 633
H + V F + + V R + F +L
Sbjct: 332 ETFQVADRHPEVAQRVEPMGPLKTPLFHSKYHYQKVAVHRMQASHGETFHVLYLTTDRGT 391
Query: 634 YNDCIYLPHS 643
+ +
Sbjct: 392 IHKVVEPGEQ 401
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
0.321 0.136 0.420
Gapped
Lambda K H
0.267 0.0802 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Sequences: 27921
Number of Hits to DB: 11,730,985
Number of extensions: 698336
Number of successful extensions: 1197
Number of sequences better than 10.0: 1
Number of HSP's gapped: 1190
Number of HSP's successfully gapped: 15
Length of query: 769
Length of database: 6,701,793
Length adjustment: 101
Effective length of query: 668
Effective length of database: 3,881,772
Effective search space: 2593023696
Effective search space used: 2593023696
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 (21.9 bits)
S2: 61 (27.1 bits)