RPS-BLAST 2.2.26 [Sep-21-2011]
Database: pdb70
27,921 sequences; 6,701,793 total letters
Searching..................................................done
Query= psy899
(411 letters)
>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 = 51.4 bits (122), Expect = 4e-07
Identities = 53/343 (15%), Positives = 96/343 (27%), Gaps = 101/343 (29%)
Query: 84 TRKDLKLLLTQLLMGDDVAADYLICY---------LLSRVYCRDEVGFALGKFSLNIFHR 134
+R L L Q L+ A ++ + V C K IF
Sbjct: 132 SRLQPYLKLRQALLELRPA-KNVLIDGVLGSGKTWVALDV-CLSYK--VQCKMDFKIFWL 187
Query: 135 DLATSCSDYAQMLYDILKLLVCKSHYFELNVKSLNETTMIPRKDYNTNRLKSGLLQL-SS 193
+L S +L++L + + N S ++ + + + +++ L +L S
Sbjct: 188 NLKNCNSPE-----TVLEMLQKLLYQIDPNWTSRSDHSSNIK--LRIHSIQAELRRLLKS 240
Query: 194 STY----LILDEIHLQPGQLN--NTGCLNVKAL-----SSVVNNQRMSYDFQFYDGTFPT 242
Y L+L + N N C K L V + F T
Sbjct: 241 KPYENCLLVLLNVQ-NAKAWNAFNLSC---KILLTTRFKQVTD---------FLSAATTT 287
Query: 243 DIPV------LSLSDTKSMLPSDCHIKLKPDPS--CS------SVIRETFS--AAH-QYL 285
I + L+ + KS+L + + P + S+I E+ A
Sbjct: 288 HISLDHHSMTLTPDEVKSLLLKYLDCRPQDLPREVLTTNPRRLSIIAESIRDGLATWDNW 347
Query: 286 KPELLNKIRTYIS-----------------------------------WIQNRGFDIPEN 310
K +K+ T I W D+
Sbjct: 348 KHVNCDKLTTIIESSLNVLEPAEYRKMFDRLSVFPPSAHIPTILLSLIWFDVIKSDVMVV 407
Query: 311 LTEIVQKDFVEMRKENKKTDANDLHTLIVLARLEHLRLRPATH 353
+ ++ + VE + + ++ L L A H
Sbjct: 408 VNKLHKYSLVEKQPKESTISIPSIY----LELKVKLENEYALH 446
Score = 49.9 bits (118), Expect = 1e-06
Identities = 69/446 (15%), Positives = 136/446 (30%), Gaps = 135/446 (30%)
Query: 33 YPVVSKFFGT--W---GSGCFQPCENNRVERPVMELPLKVSST-VSLKDISSE---EIAS 83
Y V K W + C P V + +L ++ S D SS I S
Sbjct: 174 YKVQCKMDFKIFWLNLKN-CNSP---ETVLEMLQKLLYQIDPNWTSRSDHSSNIKLRIHS 229
Query: 84 TRKDLKLLLTQ------LLMGDDVAADYLI------CYLLSRVYCRD-EVGFALGKFSLN 130
+ +L+ LL LL+ +V C +L + R +V L +
Sbjct: 230 IQAELRRLLKSKPYENCLLVLLNVQNAKAWNAFNLSCKIL--LTTRFKQVTDFLS--AAT 285
Query: 131 IFHRDLATSCSDYAQMLY--DILKLLVCKSHYFELNVKSLNETTMIPRKDYNTNRLKSGL 188
H L ++ L ++ LL Y + + L PR+ TN
Sbjct: 286 TTHISL----DHHSMTLTPDEVKSLL---LKYLDCRPQDL------PREVLTTN-----P 327
Query: 189 LQLSSSTYLILDEIHLQPGQLNNTGCLNVKALSSVVNNQRMSYDF-------QFYD--GT 239
+LS +I + I +N +N L++++ S + + +D
Sbjct: 328 RRLS----IIAESIRDGLATWDNWKHVNCDKLTTII---ESSLNVLEPAEYRKMFDRLSV 380
Query: 240 FPTD--IP--VLSL-------SDT---------KSMLPS----------DCHIKLKP--- 266
FP IP +LSL SD S++ +++LK
Sbjct: 381 FPPSAHIPTILLSLIWFDVIKSDVMVVVNKLHKYSLVEKQPKESTISIPSIYLELKVKLE 440
Query: 267 -DPSCSSVIRETFSAA-----------------HQYL-----------KPELLNKIRTYI 297
+ + I + ++ + ++ + L +
Sbjct: 441 NEYALHRSIVDHYNIPKTFDSDDLIPPYLDQYFYSHIGHHLKNIEHPERMTLFRMVFLDF 500
Query: 298 SWIQN--RGFDIPENLTEIVQKDFVEMRKENKKTDANDLHTLIVLARLEHLRLRPATHY- 354
+++ R N + + +++ ND ++ + + +
Sbjct: 501 RFLEQKIRHDSTAWNASGSILNTLQQLKFYKPYICDNDPKYERLVNAILDFLPKIEENLI 560
Query: 355 ---QVDLIRLMSLSHGHSELTEDMWK 377
DL+R+ +L + E+ K
Sbjct: 561 CSKYTDLLRI-ALMAEDEAIFEEAHK 585
Score = 47.2 bits (111), Expect = 7e-06
Identities = 57/384 (14%), Positives = 110/384 (28%), Gaps = 133/384 (34%)
Query: 58 RPVMELPLKVSSTVSLKDI--SSEEIASTRKDLKLLLT------QLLMGDDVAADYLICY 109
+ V ++P + S + I S + ++ T + LL+ Q + + + +Y +
Sbjct: 36 KDVQDMPKSILSKEEIDHIIMSKDAVSGTLRLFWTLLSKQEEMVQKFVEEVLRINY--KF 93
Query: 110 LLSRVYCRDEVGFALGKFSLNIFHRDLATSCSDYAQMLYDILKLLVCKSHYFELNVKSLN 169
L+S + T + M Y E + N
Sbjct: 94 LMSP----------------------IKTEQRQPSMM----------TRMYIEQRDRLYN 121
Query: 170 ETTMIPRKDYNTNR------LKSGLLQLSSSTYLILDEIHLQPGQLNNTG--CLNVKALS 221
+ + YN +R L+ LL+L + +++ G +G + +
Sbjct: 122 DNQVFA--KYNVSRLQPYLKLRQALLELRPAKNVLI---DGVLG----SGKTWVALDVCL 172
Query: 222 SVVNNQRMSYDFQ--FYDGTF---------PTDI-------------PVLSLSDTKSMLP 257
SY Q F P + S SD S +
Sbjct: 173 --------SYKVQCKMDFKIFWLNLKNCNSPETVLEMLQKLLYQIDPNWTSRSDHSSNIK 224
Query: 258 SDCH---------IKLKPDPSCSSVIRETFSAAHQYLKP------------------ELL 290
H +K KP +C V+ +A L
Sbjct: 225 LRIHSIQAELRRLLKSKPYENCLLVLLNVQNAKA--WNAFNLSCKILLTTRFKQVTDFLS 282
Query: 291 NKIRTYISWIQNR-GFDIPENLTEIVQKDFVEMRKENKKTDANDLHTLIV--LARLEHLR 347
T+IS + E ++ K +++ R ++ + + + +A +R
Sbjct: 283 AATTTHISLDHHSMTLTPDEVK-SLLLK-YLDCRPQDLPREVLTTNPRRLSIIAES--IR 338
Query: 348 LRPAT-----HYQVD-LIRLMSLS 365
AT H D L ++ S
Sbjct: 339 DGLATWDNWKHVNCDKLTTIIESS 362
>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 = 37.7 bits (87), Expect = 0.007
Identities = 53/342 (15%), Positives = 94/342 (27%), Gaps = 133/342 (38%)
Query: 58 RPV------MELPLKVSSTVSLKDISSEEIASTRKD--LKLLL--TQLLMGDDVAADYLI 107
RP+ +E L V + +S IAS ++ K+L T+ DD
Sbjct: 7 RPLTLSHGSLEHVLLVPT-------ASFFIASQLQEQFNKILPEPTEGFAADDEPTTPA- 58
Query: 108 CYLLSRVYCRDEVGFALGKFSLNIFHRDLATSCSDYAQMLYDILKLLVCKSHYFELNVKS 167
L+ + F LG + + + + Q +L L + FE
Sbjct: 59 -ELVGK--------F-LG-Y---VSSLVEPSKVGQFDQ----VLNLCLT---EFE----- 92
Query: 168 LNETTMIPRKDYNTNRLKSGLLQLSSSTYLILDEIHLQPGQLNNTGCLNVKALSSVVNNQ 227
+ YL ++IH +L + ++ N
Sbjct: 93 --------------------------NCYLEGNDIHALAAKLLQENDTTLVKTKELIKN- 125
Query: 228 RMSYDFQFYDGTFPTDIPVLSLSDTKSMLPSDCHIKLKPDPSCSSVIRETFSAAH----- 282
+ P S+ S L F A
Sbjct: 126 -------YITARIMAKRPFDKKSN--SAL---------------------FRAVGEGNAQ 155
Query: 283 -------Q-----YLKPELLNKIRTYISWIQNRGFDIPENLTEIVQKDFVEMRKENKKTD 330
Q Y + EL + +TY + +L + + E+ + +
Sbjct: 156 LVAIFGGQGNTDDYFE-ELRDLYQTYHVLV--------GDLIKFSAETLSELIRTTLDAE 206
Query: 331 ANDLHTLIVLARLEHLRLRPATHYQVD------LIRLMSLSH 366
L +L LE+ P Y + LI ++ L+H
Sbjct: 207 KVFTQGLNILEWLENPSNTPDKDYLLSIPISCPLIGVIQLAH 248
Score = 36.6 bits (84), Expect = 0.018
Identities = 25/146 (17%), Positives = 46/146 (31%), Gaps = 48/146 (32%)
Query: 271 SSVIRETFSAAHQYLKPEL---------LNKIRTYISWIQNRGFDIPENLTEIVQKDFVE 321
S ++ ++ A + K N + I + +G I EN + ++ + V+
Sbjct: 1639 SKAAQDVWNRADNHFKDTYGFSILDIVINNPVNLTIHFGGEKGKRIRENYSAMIFETIVD 1698
Query: 322 MRKENKKT--DANDLHTLIVLARLEH----LRLRPATHY-QVDLIRLMSLSH-------- 366
+ + +K + N+ T L T + Q + LM +
Sbjct: 1699 GKLKTEKIFKEINEHSTSYT---FRSEKGLLSA---TQFTQP-ALTLMEKAAFEDLKSKG 1751
Query: 367 ---------GHS--ELTEDMWKVALA 381
GHS E ALA
Sbjct: 1752 LIPADATFAGHSLGEYA------ALA 1771
Score = 28.1 bits (62), Expect = 7.9
Identities = 18/96 (18%), Positives = 33/96 (34%), Gaps = 30/96 (31%)
Query: 3 RDMSSLDVQ-KQPPCPNGYHTRLAQWR--HRVRYPVVSKFFGTWGSGCFQPCENNRVERP 59
+ + L++ ++ P+G L Q R R S F P
Sbjct: 384 QSLYGLNLTLRKAKAPSG----LDQSRIPFSERKLKFSNRFL-----------------P 422
Query: 60 VMELP-----LKVSSTVSLKDISSEEIASTRKDLKL 90
V P L +S + KD+ ++ KD+++
Sbjct: 423 VAS-PFHSHLLVPASDLINKDLVKNNVSFNAKDIQI 457
>4dgw_C PRE-mRNA-splicing factor PRP11; zinc finger; 3.11A {Saccharomyces
cerevisiae}
Length = 231
Score = 31.2 bits (70), Expect = 0.50
Identities = 14/100 (14%), Positives = 32/100 (32%), Gaps = 27/100 (27%)
Query: 1 MKRDMSSLDVQKQPPCPNGYHTRLAQWRHRVRYPVVSKFFGTWGSGCFQPCENNRVERPV 60
+ R +S L++ ++ V++ ++P EN +E P
Sbjct: 144 LIRIVSGLELSDTKQ-KG------------KKFLVIA----------YEPFENIAIELPP 180
Query: 61 MELPLKVSSTVSLKDISSEEIASTR----KDLKLLLTQLL 96
E+ ++ + + +E+ KL Q
Sbjct: 181 NEILFSENNDMDNNNDGVDELNKKCTFWDAISKLYYVQFF 220
>3f9v_A Minichromosome maintenance protein MCM; replicative helicase, DNA
replication, MCM complex, AAA+ Pro ATP-binding,
DNA-binding, helicase; 4.35A {Sulfolobus solfataricus}
Length = 595
Score = 31.5 bits (72), Expect = 0.56
Identities = 19/90 (21%), Positives = 38/90 (42%), Gaps = 17/90 (18%)
Query: 290 LNKIRTYISWIQNRGF-DIPENLTEIVQKDFVEMRKENKKTDANDLH-------TLIVL- 340
++ +R YI++ + I ++ FVEMRK++ +T + + LI +
Sbjct: 504 IDTLRKYIAYARKYVTPKITSEAKNLITDFFVEMRKKSSETPDSPILITPRQLEALIRIS 563
Query: 341 ---ARLEHLRLRP-ATHYQVDL-IRLMSLS 365
A+ + L+ T + I +M L
Sbjct: 564 EAYAK---MALKAEVTREDAERAINIMRLF 590
>3f8t_A Predicted ATPase involved in replication control, CDC46/MCM family;
helicase, MCM homolog, DNA replication, ATP-binding,
DNA-binding; 1.90A {Methanopyrus kandleri AV19}
Length = 506
Score = 30.2 bits (68), Expect = 1.2
Identities = 22/121 (18%), Positives = 38/121 (31%), Gaps = 24/121 (19%)
Query: 260 CHIKLKPDPSCSSVIRETFSAAHQYLKPELLNKIRTYISWIQNRGFD--IPENLTEIVQK 317
+ + P P E + LL R Y+ + + E + ++
Sbjct: 375 AFLGVDPRPG------EPEEQDTEVPSYTLL---RRYLLYAIREHPAPELTEEARKRLEH 425
Query: 318 DFVEMRKENKKTDANDLHTLIVLAR-LEHL----------RLRP-ATHYQVDL-IRLMSL 364
+ R+E ++ L TL V R LE + RL VD+ L+
Sbjct: 426 WYETRREEVEERLGMGLPTLPVTRRQLESVERLAKAHARMRLSDDVEPEDVDIAAELVDW 485
Query: 365 S 365
Sbjct: 486 Y 486
>2czr_A TBP-interacting protein; tata-binding protein (TBP),
hyperthermophilic archaeon, Zn-finger motif,
transcription; 2.30A {Thermococcus kodakarensis} SCOP:
c.52.4.1
Length = 226
Score = 29.6 bits (66), Expect = 1.4
Identities = 19/61 (31%), Positives = 30/61 (49%), Gaps = 4/61 (6%)
Query: 261 HIKLKPDPSCSSVIRETFSAAHQYLKPELLNKIRTYISWIQNRGFDIPENLTEIVQKDFV 320
HI PD + +F ++YLK L + I +I W GF + E+ ++VQ+D
Sbjct: 73 HIVAIPDNGVFYIKNGSFVLTYRYLKATLAD-INDHIVW---SGFKVVEDNGKLVQEDVY 128
Query: 321 E 321
E
Sbjct: 129 E 129
>2odv_A Plectin 1, HD1; plakin domain, spectrin repeat, cytoskeleton,
hemidesmosomes epidermolysis bullosa, structural
protein; 2.05A {Homo sapiens} PDB: 2odu_A
Length = 235
Score = 29.3 bits (65), Expect = 2.2
Identities = 15/105 (14%), Positives = 32/105 (30%), Gaps = 18/105 (17%)
Query: 288 ELLNKIRTYISWIQNRGFDIPENLTEIVQKDFVEMRKENKKTDANDLHTLIVL-----AR 342
LL +R + + + R F EI+ F++ ++ D + +
Sbjct: 22 LLLQWMRHHTAAFEERRFPSSFEEIEILWSQFLKFKEMELPAKEADKNRSKGIYQSLEGA 81
Query: 343 LEHLRLRPATHYQVDLIRLMSLSHGHSELTEDMWKVALAMEKERK 387
++ +L+ Y + E W ER+
Sbjct: 82 VQAGQLKVPPGYHPLDV-------------EKEWGKLHVAILERE 113
>3p7i_A PHND, subunit of alkylphosphonate ABC transporter; phosphonate
binding protein, transport protein; 1.71A {Escherichia
coli UTI89} PDB: 3qk6_A 3quj_A* 3s4u_A
Length = 321
Score = 28.3 bits (63), Expect = 4.1
Identities = 14/100 (14%), Positives = 34/100 (34%), Gaps = 9/100 (9%)
Query: 306 DIPENLTEIVQKDFVEMRKENKKTDANDLHTLIVLARLEHLRLRPATHYQVDLIRLMSLS 365
++ E + + F+ VL RL R ++ Q+ IR ++L
Sbjct: 221 NLSETTKDKIYDFFMNY--------GKTPEEKAVLERLGWAPFRASSDLQLVPIRQLALF 272
Query: 366 HGHSELTEDMWKVALAMEKERKSRPRLGLRKLEEENVQVD 405
+ ++ + + + + + L L+ N +
Sbjct: 273 KEMQSVKDNKG-LNEQDKLAKTTAIQAQLDDLDRLNNALS 311
>2wk1_A NOVP; transferase, O-methyltransferase, novobiocin, TYLF
superfamily; HET: SAH; 1.40A {Streptomyces caeruleus}
Length = 282
Score = 28.3 bits (62), Expect = 4.2
Identities = 17/75 (22%), Positives = 34/75 (45%), Gaps = 10/75 (13%)
Query: 275 RETFSAAHQYLKPELLNKIRTYISWIQNRGFDIPENLTEIVQKD--FVEMRKENKKTDAN 332
+ET S + YL L+ K+ + ++ P + +D + E + +
Sbjct: 29 KETNSDSSLYLD--LMIKV------LAGTVYEDPAHRENFSHRDSTYREEVRNEGRDWPA 80
Query: 333 DLHTLIVLARLEHLR 347
+ HT+I + RLE++R
Sbjct: 81 NAHTMIGIKRLENIR 95
>3n5l_A Binding protein component of ABC phosphonate TRAN; structural
genomics, joint center for structural genomics; HET:
UNL; 1.97A {Pseudomonas aeruginosa}
Length = 310
Score = 28.3 bits (63), Expect = 4.4
Identities = 18/141 (12%), Positives = 48/141 (34%), Gaps = 19/141 (13%)
Query: 271 SSVIRETFSAAHQYLKPELLNKIRT-YIS-WIQNRGF----DIPENLTEIVQKDFVEMRK 324
++ E PE +++ + S I ++ + ++ F +
Sbjct: 175 NTEGMERLELTQ----PEKARQLKVIWKSPLIPGDPLVWRNNLSDEQKNKLRDFFFKYGA 230
Query: 325 ENKKTDANDLHTLIVLARLEHLRLRPATHYQVDLIRLMSLSHGHSELTEDMWKVALAMEK 384
++ VLA L+ + + + Q+ IR + L +++ + + +
Sbjct: 231 NAEQKK--------VLADLQWSKFQASDDDQLLPIRQLELFKQRTDVANNAN-LGAEEKA 281
Query: 385 ERKSRPRLGLRKLEEENVQVD 405
+ L KLE+ + +
Sbjct: 282 AKLKALDEELAKLEKRMAERE 302
>2iut_A DNA translocase FTSK; nucleotide-binding, chromosome partition,
ATP-binding, DNA- cell division, DNA translocation,
KOPS, membrane; HET: DNA SAP; 2.25A {Pseudomonas
aeruginosa} PDB: 2iuu_A*
Length = 574
Score = 27.3 bits (61), Expect = 9.9
Identities = 12/58 (20%), Positives = 22/58 (37%), Gaps = 8/58 (13%)
Query: 55 RVERPV-------MELPLKVSSTVSLKDI-SSEEIASTRKDLKLLLTQLLMGDDVAAD 104
RV + +E+P + V ++ SS E + + L L + G + D
Sbjct: 153 RVVEVIPGKTTVGIEIPNEDRQMVRFSEVLSSPEYDEHKSTVPLALGHDIGGRPIITD 210
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 0.135 0.400
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: 6,146,936
Number of extensions: 357248
Number of successful extensions: 878
Number of sequences better than 10.0: 1
Number of HSP's gapped: 878
Number of HSP's successfully gapped: 19
Length of query: 411
Length of database: 6,701,793
Length adjustment: 96
Effective length of query: 315
Effective length of database: 4,021,377
Effective search space: 1266733755
Effective search space used: 1266733755
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: 58 (26.6 bits)