RPS-BLAST 2.2.26 [Sep-21-2011]
Database: pdb70
27,921 sequences; 6,701,793 total letters
Searching..................................................done
Query= psy16636
(425 letters)
>3vkg_A Dynein heavy chain, cytoplasmic; AAA+ protein, molecular motor,
microtubles, motor protein; HET: ADP SPM; 2.81A
{Dictyostelium discoideum} PDB: 3vkh_A* 3vkh_C*
Length = 3245
Score = 357 bits (918), Expect = e-111
Identities = 170/425 (40%), Positives = 252/425 (59%), Gaps = 19/425 (4%)
Query: 2 GRTNLPPEKIPWNALITLLSQSIYGGKIDNDFDQRLLGSFLSKLFTTRSFEADFALVANV 61
GR+N+ P+KIPW A+ T+L +IYGG+IDN+FD RLL SFL +LFT +F DF LV ++
Sbjct: 2835 GRSNIDPDKIPWIAVRTILGSTIYGGRIDNEFDMRLLYSFLEQLFTPSAFNPDFPLVPSI 2894
Query: 62 DGATRHINMPDGTRRDHFLHWIESLPDRQTPSWLGLPNSAEKVLLTTRGTDLVAKLLKMQ 121
+++P+GT R HF+ WIE+LP+ TP WLGLP +AE +LL+ + ++ L KMQ
Sbjct: 2895 G-----LSVPEGTTRAHFMKWIEALPEISTPIWLGLPENAESLLLSNKARKMINDLQKMQ 2949
Query: 122 QLEDEDEFAYTEANENKTEERNVDGRPAWMRTLHNSASTWLELLPKALQTLRRTVENIKD 181
E++ E +K E + L + + W +LLPK L+ L+RT +NIKD
Sbjct: 2950 SSEEDGEDDQVSG-SSKKESSSSSSEDKGKAKLRATITEWTKLLPKPLKQLKRTTQNIKD 3008
Query: 182 PLYRYFEREVSSGAALLRDVISDLEDVILICSGGKRQTNYHRLLLSDLVKGMLPARWCRY 241
PL+R FERE+S+G L++ + +DL +++ + SG + TNY R L + + KG++P W Y
Sbjct: 3009 PLFRCFEREISTGGKLVKKITNDLANLLELISGNIKSTNYLRSLTTSISKGIVPKEWKWY 3068
Query: 242 SVPRGCTVIQWVTDFRLRIIQLQQVSLLVSQGGAKELKVYPVWLGGLFNPEAYITATRQC 301
SVP ++ W++DF R+ QL ++S + + VWLGGL NPEAYITATRQ
Sbjct: 3069 SVPETISLSVWISDFSKRMQQLSEIS------ESSDYSSIQVWLGGLLNPEAYITATRQS 3122
Query: 302 IAEANGWSLEELVLDVSITDCMEPEKINTDDCSFRVVGLKLQGAQCRNNELVLTSTILMD 361
++ NGWSLE L L S + E SF V G+ L+GA N++L T +
Sbjct: 3123 ASQLNGWSLENLRLHASSLGKISSE----GGASFNVKGMALEGAVWNNDQLTPTDILSTP 3178
Query: 362 LPVTLVRWVKVESETRQDK---LSLPVYLNSTRTELLFNVDLNITSGQDPHSFYQRGVAL 418
+ + + W + + LS+PVYLN TR+ELLF++DL ++YQR V++
Sbjct: 3179 ISIATLTWKDKDDPIFNNSSSKLSVPVYLNETRSELLFSIDLPYDQSTSKQNWYQRSVSI 3238
Query: 419 LTSTS 423
+ S
Sbjct: 3239 SSWKS 3243
>4akg_A Glutathione S-transferase class-MU 26 kDa isozyme heavy chain
cytoplasmic; motor protein, AAA+ protein, ASCE protein,
P-loop ntpase; HET: ATP ADP; 3.30A {Schistosoma
japonicum} PDB: 4ai6_A* 4akh_A* 4aki_A* 3qmz_A
Length = 2695
Score = 113 bits (284), Expect = 5e-27
Identities = 21/121 (17%), Positives = 43/121 (35%), Gaps = 5/121 (4%)
Query: 4 TNLPPEKIPWNALITLLSQSIYGGKIDNDFDQRLLGSFLSKLFTTRSFEADFALVANVDG 63
IPW + ++ +YGGKID + D ++ + +F + +V V
Sbjct: 2576 ATNSTNNIPWAQVRDHIATIVYGGKIDEEKDLEVVAKLCAHVFC---GSDNLQIVPGVRI 2632
Query: 64 ATRHINMPDGTRRDHFLHWIESL--PDRQTPSWLGLPNSAEKVLLTTRGTDLVAKLLKMQ 121
+ + R + + P SWL LP + + ++ + ++
Sbjct: 2633 PQPLLQQSEEEERARLTAILSNTIEPADSLSSWLQLPRESILNYERLQAKEVASSTEQLL 2692
Query: 122 Q 122
Q
Sbjct: 2693 Q 2693
>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 = 83.6 bits (206), Expect = 3e-17
Identities = 89/502 (17%), Positives = 134/502 (26%), Gaps = 194/502 (38%)
Query: 35 QRLLGSFLSKLFT-TRSFEADFALVANVDGATRHINMPDGTRRDHFLHWIESLPDRQTPS 93
+L F L T F AD + + FL ++ SL +
Sbjct: 31 SQLQEQFNKILPEPTEGFAADDEPTTPAELVGK------------FLGYVSSLVEPSKVG 78
Query: 94 WLGLPNSAEKVLLTT---------RGTD---LVAKLLKMQQLEDEDEF----AYTEANEN 137
++VL G D L AKLL+ Y A
Sbjct: 79 ------QFDQVLNLCLTEFENCYLEGNDIHALAAKLLQENDTTLVKTKELIKNYITA--- 129
Query: 138 KTEERNVDGRPAWMRTLHNSASTWLELLPKALQTLRRTVENIKDPLY----------RYF 187
R + RP NSA L R V L YF
Sbjct: 130 ----RIMAKRP--FDKKSNSA-------------LFRAVGEGNAQLVAIFGGQGNTDDYF 170
Query: 188 E--REV-SSGAALLRDVISDLEDVILICSGGKRQTNYHRLLLSDLVKGMLPARWCRYSVP 244
E R++ + L+ D+I + LS+L++ +
Sbjct: 171 EELRDLYQTYHVLVGDLIKFSAE-----------------TLSELIRT--TLDAEKV-FT 210
Query: 245 RGCTVIQWVTD--------------FRLRIIQLQQ-VSLLVSQGGAKELKVYPVWL---- 285
+G +++W+ + +I + Q +V+ AK L P L
Sbjct: 211 QGLNILEWLENPSNTPDKDYLLSIPISCPLIGVIQLAHYVVT---AKLLGFTPGELRSYL 267
Query: 286 -GGLFNPEAYITATRQCIAEANGW-SLEELVLDV-----SI-TDCME-------PEKINT 330
G + + +TA IAE + W S V I C E P I
Sbjct: 268 KGATGHSQGLVTAV--AIAETDSWESFFVSVRKAITVLFFIGVRCYEAYPNTSLPPSILE 325
Query: 331 DDCS---------FRVVGLKLQGAQCR----NNELVLTSTILMDL------------PVT 365
D + L + Q N+ L + + L P +
Sbjct: 326 DSLENNEGVPSPMLSISNLTQEQVQDYVNKTNSHLPAGKQVEISLVNGAKNLVVSGPPQS 385
Query: 366 L------VRWVKVESETRQDK--LS----------LPV-------YLNST---------R 391
L +R K S Q + S LPV L +
Sbjct: 386 LYGLNLTLRKAKAPSGLDQSRIPFSERKLKFSNRFLPVASPFHSHLLVPASDLINKDLVK 445
Query: 392 TELLFNV-DLNIT-----SGQD 407
+ FN D+ I G D
Sbjct: 446 NNVSFNAKDIQIPVYDTFDGSD 467
Score = 55.1 bits (132), Expect = 3e-08
Identities = 63/395 (15%), Positives = 105/395 (26%), Gaps = 165/395 (41%)
Query: 4 TNLPPEKIPWNALITLLSQ------SIYGG--KIDNDFDQRLLGSFLSKLFTT-RSFEAD 54
P +K +AL + + +I+GG D+ F++ L L+ T D
Sbjct: 133 AKRPFDKKSNSALFRAVGEGNAQLVAIFGGQGNTDDYFEE------LRDLYQTYHVLVGD 186
Query: 55 F---------ALVANVDGATRHINMPDGTRRDHFLHWIE---SLPDRQ----TP-SW--- 94
L+ A + G + L W+E + PD+ P S
Sbjct: 187 LIKFSAETLSELIRTTLDAEKVF--TQGL---NILEWLENPSNTPDKDYLLSIPISCPLI 241
Query: 95 --------------LGL-PNSAEKVL--LTTRGTDLVAKLLKMQQLEDEDEF-------- 129
LG P L T LV + + + + + F
Sbjct: 242 GVIQLAHYVVTAKLLGFTPGELRSYLKGATGHSQGLVTAVA-IAETDSWESFFVSVRKAI 300
Query: 130 ------------AY----TEANENKTEERNVDGRPAWM----------------RT---- 153
AY + + N +G P+ M +T
Sbjct: 301 TVLFFIGVRCYEAYPNTSLPPSILEDSLENNEGVPSPMLSISNLTQEQVQDYVNKTNSHL 360
Query: 154 ---------LHNSASTWLELL-----PKALQTLRRTVENIKDPL----YR--YFEREV-- 191
L N A L P++L L T+ K P R + ER++
Sbjct: 361 PAGKQVEISLVNGAKN----LVVSGPPQSLYGLNLTLRKAKAPSGLDQSRIPFSERKLKF 416
Query: 192 ------------SSGAALLRD----VISDLEDVILICSG------------GKRQTNYHR 223
S LL + DL + + G
Sbjct: 417 SNRFLPVASPFHSH---LLVPASDLINKDLVKNNVSFNAKDIQIPVYDTFDGSDLRVLSG 473
Query: 224 LLLSDLVKGML--PARWCRYSVPRGCTVIQWVTDF 256
+ +V ++ P +W + T + DF
Sbjct: 474 SISERIVDCIIRLPVKWET-TTQFKAT---HILDF 504
Score = 39.3 bits (91), Expect = 0.002
Identities = 39/206 (18%), Positives = 60/206 (29%), Gaps = 66/206 (32%)
Query: 3 RTN--LPPEK---I-----PWNALITLLSQSIYG-------GKIDNDFDQRLLGSFLSKL 45
+TN LP K I N +++ QS+YG K + DQ S++
Sbjct: 355 KTNSHLPAGKQVEISLVNGAKNLVVSGPPQSLYGLNLTLRKAKAPSGLDQ-------SRI 407
Query: 46 -FTTR--SFEADFALVANV-------DGATRHINMPDGTRRDHFLHWIESLPDRQTPSWL 95
F+ R F F L A+ I D + + + + +
Sbjct: 408 PFSERKLKFSNRF-LPVASPFHSHLLVPASDLI-NKDLVKNN--VSF--------NAKDI 455
Query: 96 GLPNSAEKVLLTTRGTDLVAKLLKMQQLEDEDEFAYTEANENKTEERNVDGRPAWMRTLH 155
+P V T G+DL + L + V W T
Sbjct: 456 QIP-----VYDTFDGSDL-------RVLSGSISERIVDCI---IRLP-VK----WETTTQ 495
Query: 156 NSASTWLELLPKALQTLRRTVENIKD 181
A+ L+ P L KD
Sbjct: 496 FKATHILDFGPGGASGLGVLTHRNKD 521
Score = 30.0 bits (67), Expect = 2.0
Identities = 27/164 (16%), Positives = 46/164 (28%), Gaps = 58/164 (35%)
Query: 271 SQ--GGAKEL-KVYP----VWLGGLFNPEAYITATRQCIAEANGWSLEELVLDVSITDCM 323
SQ G +L K VW A + G+S+ ++V++
Sbjct: 1626 SQEQGMGMDLYKTSKAAQDVW------NRA-----DNHFKDTYGFSILDIVIN------- 1667
Query: 324 EPEKINTDDCSFRVVGLKLQGAQCRNNELVLTSTILMDLPVTLVRWVKVESETRQDKLSL 383
N + + G K G + R N + ++D + +
Sbjct: 1668 -----NPVNLTIHFGGEK--GKRIRENYSAMIFETIVD--------------GKLKTEKI 1706
Query: 384 PVYLNSTRTELLFNVD---LNITSGQDPHSFYQRGVALLTSTSL 424
+N T F + L+ T F Q AL
Sbjct: 1707 FKEINEHSTSYTFRSEKGLLSAT------QFTQ--PALTL-MEK 1741
Score = 29.2 bits (65), Expect = 3.0
Identities = 53/292 (18%), Positives = 85/292 (29%), Gaps = 119/292 (40%)
Query: 53 ADFALVANV-DGATRHINMPDGTRRDHFLHWIESLPD--RQTPSWLGLPNSAEKVLLTTR 109
+V + A H G F S+ D P L + EK
Sbjct: 1637 KTSKAAQDVWNRADNHFKDTYG-----F-----SILDIVINNPVNLTIHFGGEK------ 1680
Query: 110 GTDLVAKLLKMQQLEDEDEFAYTEANENKTEERNVDGRPAWMR-----TLHNSASTWL-- 162
G + M E VDG+ + H+++ T+
Sbjct: 1681 GKRIRENYSAM------------------IFETIVDGKLKTEKIFKEINEHSTSYTFRSE 1722
Query: 163 -ELL-------PKALQTLRR-TVENIKD----PLYRYFEREVSSG------AAL--LRDV 201
LL P AL + + E++K P F +G AAL L DV
Sbjct: 1723 KGLLSATQFTQP-ALTLMEKAAFEDLKSKGLIPADATF-----AGHSLGEYAALASLADV 1776
Query: 202 ISDLEDVILICSGGKRQTNYHRLLLSDLVK--GMLPARWCRYSVPRGCTVIQWVTDFRLR 259
+S +E ++ ++V GM +VPR
Sbjct: 1777 MS-IESLV------------------EVVFYRGMTMQV----AVPRD------------- 1800
Query: 260 IIQLQQVSLLVSQGGAKELKVYPVWLGGLFNPEAYITATRQCIAEANGWSLE 311
L S G + + P + F+ EA + + + + GW +E
Sbjct: 1801 -------ELGRSNYGM--IAINPGRVAASFSQEA-LQYVVERVGKRTGWLVE 1842
>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 = 53.7 bits (128), Expect = 7e-08
Identities = 56/418 (13%), Positives = 114/418 (27%), Gaps = 97/418 (23%)
Query: 28 KIDNDFDQRLLGSFLSKLFTTRSFEADFALVANVDGATRHI-NMPDGTRRDHFLHWIESL 86
++FD + + + + + HI D L W
Sbjct: 28 AFVDNFDCKDVQDMPKSILSKEEID--------------HIIMSKDAVSGTLRLFWT--- 70
Query: 87 PDRQTPSWLGLPNSAEKVLLTTRGTDLVAKLLKMQQLEDEDEFAYTE-ANENKTEERNVD 145
L ++ ++V K ++ + L +F + E +
Sbjct: 71 -------------------LLSKQEEMVQKFVE-EVLRINYKFLMSPIKTEQRQPSMMTR 110
Query: 146 GRPAWMRTLHNSASTWLELL---PKALQTLRRTVENIKDPLYRYFEREVS------SG-- 194
L+N + + + LR+ + ++ + V SG
Sbjct: 111 MYIEQRDRLYNDNQVFAKYNVSRLQPYLKLRQALLELRP------AKNVLIDGVLGSGKT 164
Query: 195 ---AALLRD--VISDLEDVILICSGGKRQTNYHRL-LLSDL---VKGMLPARWCRYSVPR 245
+ V ++ I + + L +L L + +R S +
Sbjct: 165 WVALDVCLSYKVQCKMDFKIFWLNLKNCNSPETVLEMLQKLLYQIDPNWTSRSDHSSNIK 224
Query: 246 GCTVIQWVTDFRLRIIQLQQV--SLLVSQGGAKELK-VYPVWLGGLFNPEAYI--TATR- 299
I + R+++ + LLV L V FN I T TR
Sbjct: 225 --LRIHSIQAELRRLLKSKPYENCLLV-------LLNVQNAKAWNAFNLSCKILLT-TRF 274
Query: 300 QCIAEANGWSLEELVLDVSITDCMEPEKINTDDCSFRVVGLKLQG---AQCRNNELVLTS 356
+ + + + + + + P++ + + + Q N L S
Sbjct: 275 KQVTDFLSAATTTHISLDHHSMTLTPDE--VKSLLLKYLDCRPQDLPREVLTTNPRRL-S 331
Query: 357 TI---LMDLPVTLVRWVKVESETRQD--KLSL----PVYLNSTRTEL-LFNVDLNITS 404
I + D T W V + + SL P L +F +I +
Sbjct: 332 IIAESIRDGLATWDNWKHVNCDKLTTIIESSLNVLEPAEYRKMFDRLSVFPPSAHIPT 389
>3k1f_M Transcription initiation factor IIB; RNA polymerase II, TFIIB,
transcription factor, DNA-binding, DNA-directed RNA
polymerase; 4.30A {Saccharomyces cerevisiae}
Length = 197
Score = 30.8 bits (69), Expect = 0.56
Identities = 7/17 (41%), Positives = 9/17 (52%), Gaps = 1/17 (5%)
Query: 140 EERNVDGRPAWMRTLHN 156
++ VD R W RT N
Sbjct: 53 SDKLVDTRSEW-RTFSN 68
>3ojy_B Complement component C8 beta chain; macpf, lipocalin, immune
system; HET: TPO BMA; 2.51A {Homo sapiens}
Length = 537
Score = 29.5 bits (65), Expect = 2.3
Identities = 11/74 (14%), Positives = 22/74 (29%), Gaps = 9/74 (12%)
Query: 285 LGGLFNPEAYITATRQCIAEANGWSLEELVLDVSITDCMEPEKINTDDCSFRVVGLKLQG 344
LGG++ Y + E ++L + C + + V L +
Sbjct: 296 LGGIYE---YTLVMNKEAMERGDYTLNN------VHACAKNDFKIGGAIEEVYVSLGVSV 346
Query: 345 AQCRNNELVLTSTI 358
+CR +
Sbjct: 347 GKCRGILNEIKDRN 360
>3m6z_A Topoisomerase V; helix-hairpin-helix, conformational changes I
protein; HET: PO4; 1.40A {Methanopyrus kandleri} PDB:
3m6k_A* 3m7d_A 3m7g_A
Length = 380
Score = 28.5 bits (63), Expect = 4.6
Identities = 21/75 (28%), Positives = 34/75 (45%)
Query: 136 ENKTEERNVDGRPAWMRTLHNSASTWLELLPKALQTLRRTVENIKDPLYRYFEREVSSGA 195
+ +T +R+V R + L+ E + T R VE+ +D + RY E+ + A
Sbjct: 239 DERTAKRHVKRRDRLLEELYEHLEELSERYLRHPLTRRWIVEHKRDIMRRYLEQRIVECA 298
Query: 196 ALLRDVISDLEDVIL 210
L+D EDV L
Sbjct: 299 LKLQDRYGIREDVAL 313
>3nsz_A CK II alpha, casein kinase II subunit alpha; inhibitor,
transferase-transferase inhibitor CO; HET: ANP; 1.30A
{Homo sapiens} PDB: 2r7i_A 3pe1_A* 1jwh_A* 3pe2_A*
3r0t_A* 3h30_A* 3q9w_A* 3q9x_A* 3q9y_A* 3q9z_A* 3qa0_A
3bqc_A* 2rkp_A* 3c13_A* 3fwq_A 3rps_A* 3mb7_A* 3mb6_A*
3owj_A* 3owk_A* ...
Length = 330
Score = 28.4 bits (64), Expect = 4.7
Identities = 8/39 (20%), Positives = 16/39 (41%)
Query: 81 HWIESLPDRQTPSWLGLPNSAEKVLLTTRGTDLVAKLLK 119
+ + L W +S + L++ D + KLL+
Sbjct: 267 RFNDILGRHSRKRWERFVHSENQHLVSPEALDFLDKLLR 305
>2csb_A Topoisomerase V, TOP61; topoisomerase IB, helix-turn-helix, helix-H
helix, HHH motif, three helix bundle, methanopyrus
kandleri isomerase; 2.30A {Methanopyrus kandleri} SCOP:
a.60.2.4 a.60.2.4 a.60.2.4 a.60.2.4 a.267.1.1 PDB:
2csd_A
Length = 519
Score = 28.5 bits (63), Expect = 4.9
Identities = 21/75 (28%), Positives = 34/75 (45%)
Query: 136 ENKTEERNVDGRPAWMRTLHNSASTWLELLPKALQTLRRTVENIKDPLYRYFEREVSSGA 195
+ +T +R+V R + L+ E + T R VE+ +D + RY E+ + A
Sbjct: 239 DERTAKRHVKRRDRLLEELYEHLEELSERYLRHPLTRRWIVEHKRDIMRRYLEQRIVECA 298
Query: 196 ALLRDVISDLEDVIL 210
L+D EDV L
Sbjct: 299 LKLQDRYGIREDVAL 313
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
0.319 0.135 0.407
Gapped
Lambda K H
0.267 0.0625 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Sequences: 27921
Number of Hits to DB: 6,471,979
Number of extensions: 384276
Number of successful extensions: 664
Number of sequences better than 10.0: 1
Number of HSP's gapped: 652
Number of HSP's successfully gapped: 19
Length of query: 425
Length of database: 6,701,793
Length adjustment: 96
Effective length of query: 329
Effective length of database: 4,021,377
Effective search space: 1323033033
Effective search space used: 1323033033
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: 59 (26.7 bits)