RPS-BLAST 2.2.26 [Sep-21-2011]
Database: pdb70
27,921 sequences; 6,701,793 total letters
Searching..................................................done
Query= psy14443
(235 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 = 57.4 bits (138), Expect = 9e-10
Identities = 30/160 (18%), Positives = 49/160 (30%), Gaps = 56/160 (35%)
Query: 2 ESSDIDEER----VAIREELKGLTFEQLQKLKEEMGTKLF-NKKV----FNSKS------ 46
+S + +E ++I LT EQ+Q + + L K+V N
Sbjct: 326 DSLENNEGVPSPMLSIS----NLTQEQVQDYVNKTNSHLPAGKQVEISLVNGAKNLVVSG 381
Query: 47 -PSSKFKEHENKNFKRENKNRPREISSKIPQKKFAQQSAPVI-----PVQKNIPRDPRFD 100
P S N R+ K S+IP F+++ PV P
Sbjct: 382 PPQS--LYGLNLTL-RKAKAPSGLDQSRIP---FSER-KLKFSNRFLPV--ASP------ 426
Query: 101 SLCGTFKEKAFHSAY------KFIDDIREKEISILKKKLK 134
FHS D+ + +S K ++
Sbjct: 427 ----------FHSHLLVPASDLINKDLVKNNVSFNAKDIQ 456
>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 = 43.3 bits (101), Expect = 4e-05
Identities = 16/101 (15%), Positives = 31/101 (30%), Gaps = 13/101 (12%)
Query: 94 PRDPRFDSLCGTFKEKAFHSAYKFIDDIREKEISILKKKLKKEKNPEEKEKVKYLVQRME 153
L T K KF++++ L +K E+ Y+ QR
Sbjct: 59 DAVSGTLRLFWTLLSKQEEMVQKFVEEVLRINYKFLMSPIKTEQRQPSMMTRMYIEQR-- 116
Query: 154 NQMREAKQRHEKDQQEKEEHTARIQ-ALK----------HG 183
+++ Q K + + +++ AL G
Sbjct: 117 DRLYNDNQVFAKYNVSRLQPYLKLRQALLELRPAKNVLIDG 157
Score = 35.2 bits (80), Expect = 0.020
Identities = 43/294 (14%), Positives = 87/294 (29%), Gaps = 108/294 (36%)
Query: 8 EERVAIREELKGLTFEQL------------QKLKEEMGTKLFNKKVFNSKSP------SS 49
+++ LT +++ Q L E+ +P +
Sbjct: 286 TTHISLDHHSMTLTPDEVKSLLLKYLDCRPQDLPREV------LTT----NPRRLSIIAE 335
Query: 50 KFKEHEN--KNFKRENKNRPRE-ISSKI----P---QKKFAQQSAPVIPVQKNIPRDPRF 99
++ N+K N ++ I S + P +K F + S V P +IP
Sbjct: 336 SIRDGLATWDNWKHVNCDKLTTIIESSLNVLEPAEYRKMFDRLS--VFPPSAHIPTI--- 390
Query: 100 DSLCGTFKEKAFHSAYKFI---DDIREKEISILKKKLKK---EKNPEEKEKVKYLVQ-RM 152
L + D I+ + ++ K K EK P+E + +
Sbjct: 391 -LLS--------------LIWFDVIKSDVMVVVNKLHKYSLVEKQPKESTISIPSIYLEL 435
Query: 153 ENQMREAKQRH----EKDQQEKE----------------EHTAR-IQALKHGEK-PLFRK 190
+ ++ H + K H ++ ++H E+ LFR
Sbjct: 436 KVKLENEYALHRSIVDHYNIPKTFDSDDLIPPYLDQYFYSHIGHHLKNIEHPERMTLFRM 495
Query: 191 -------------------KSEKTMLNLVQKFETLKKTGKINKHIEKKTKALKA 225
+ ++LN +Q+ + K I + K + + A
Sbjct: 496 VFLDFRFLEQKIRHDSTAWNASGSILNTLQQLKFYKP--YICDNDPKYERLVNA 547
Score = 34.8 bits (79), Expect = 0.021
Identities = 35/246 (14%), Positives = 69/246 (28%), Gaps = 67/246 (27%)
Query: 11 VAIREELKGLTFEQLQKLKEEMGTKL-----FNK-----KVFNSKSPSSKFKEHENKNF- 59
V+ + L + L +L+ + K V S K + K F
Sbjct: 131 VSRLQPYLKLR-QALLELRPAKNVLIDGVLGSGKTWVALDVCLSYKVQCKM---DFKIFW 186
Query: 60 -KRENKNRPREISSKIPQKKFAQQSAPVIPVQKNIPRDPRF------DSLCGTFKEKAFH 112
+N N P + +K Q P + + + + L K K +
Sbjct: 187 LNLKNCNSPETVL--EMLQKLLYQIDPNWTSRSDHSSNIKLRIHSIQAELRRLLKSKPYE 244
Query: 113 SAYKFIDDIREKEI--------SIL----------------KKKLKKEKN-----PEEKE 143
+ + +++ + IL + + + P+E +
Sbjct: 245 NCLLVLLNVQNAKAWNAFNLSCKILLTTRFKQVTDFLSAATTTHISLDHHSMTLTPDEVK 304
Query: 144 KV--KYLVQRMENQMREAKQRH--------EKDQQEKEEHTARIQALKHGEKPLFRKKSE 193
+ KYL R ++ RE + E + + A KH E
Sbjct: 305 SLLLKYLDCRPQDLPREVLTTNPRRLSIIAESIR----DGLATWDNWKHVNCDKLTTIIE 360
Query: 194 KTMLNL 199
++ L
Sbjct: 361 SSLNVL 366
>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 = 36.1 bits (82), Expect = 0.003
Identities = 6/30 (20%), Positives = 16/30 (53%), Gaps = 2/30 (6%)
Query: 64 KNRPREISSKIPQKKFAQQSAPVIPVQKNI 93
K +++ + + K +A SAP + ++ +
Sbjct: 19 KQALKKLQASL--KLYADDSAPALAIKATM 46
>1i84_S Smooth muscle myosin heavy chain; muscle protein, myosin subfragment
2, heavy meromyosin, essential light chain, motor
protein; HET: MLY; 20.00A {Gallus gallus} SCOP: i.15.1.1
PDB: 3j04_A 3dtp_B 3dtp_A
Length = 1184
Score = 33.7 bits (77), Expect = 0.051
Identities = 17/111 (15%), Positives = 47/111 (42%), Gaps = 5/111 (4%)
Query: 123 EKEISILKKKLKKEKNP-----EEKEKVKYLVQRMENQMREAKQRHEKDQQEKEEHTARI 177
++++ L+++L++E+ EK +++ME+ + + ++ K +E++ R+
Sbjct: 954 QQQMLDLEEQLEEEEAARQKLQLEKVTADGKIKKMEDDILIMEDQNNKLTKERKLLEERV 1013
Query: 178 QALKHGEKPLFRKKSEKTMLNLVQKFETLKKTGKINKHIEKKTKALKAKER 228
L K T L + + ++ K + + + K K +
Sbjct: 1014 SDLTTNLAEEEEKAKNLTKLKNKHESMISELEVRLKKEEKSRQELEKIKRK 1064
Score = 33.3 bits (76), Expect = 0.063
Identities = 22/123 (17%), Positives = 51/123 (41%), Gaps = 18/123 (14%)
Query: 122 REKEISILKKKLKKEKN-----PEEKEKVKYLVQRMENQMREAKQRHEKDQQEKEEHTAR 176
E+ + ++ ++++E+ EK+K++ + +E Q+ E + +K Q EK +
Sbjct: 925 LEEILHEMEARIEEEEERSQQLQAEKKKMQQQMLDLEEQLEEEEAARQKLQLEKVTADGK 984
Query: 177 IQALK-------------HGEKPLFRKKSEKTMLNLVQKFETLKKTGKINKHIEKKTKAL 223
I+ ++ E+ L ++ NL ++ E K K+ E L
Sbjct: 985 IKKMEDDILIMEDQNNKLTKERKLLEERVSDLTTNLAEEEEKAKNLTKLKNKHESMISEL 1044
Query: 224 KAK 226
+ +
Sbjct: 1045 EVR 1047
>2dfs_A Myosin-5A; myosin-V, inhibited state, cryoelectron tomograp
contractIle protein-transport protein complex; 24.00A
{Gallus gallus}
Length = 1080
Score = 33.2 bits (76), Expect = 0.076
Identities = 17/95 (17%), Positives = 39/95 (41%), Gaps = 3/95 (3%)
Query: 131 KKLKKEKNPEEKEKVKYLVQRMENQMREAKQRHEKDQQEKEEHTARIQALKHGEKPLFRK 190
KKLK E E+ K L +EN++ + +++ ++ +E + ++ L+ +
Sbjct: 907 KKLKIEA--RSVERYKKLHIGLENKIMQLQRKIDEQNKEYKSLLEKMNNLE-ITYSTETE 963
Query: 191 KSEKTMLNLVQKFETLKKTGKINKHIEKKTKALKA 225
K + L E K ++++ L+
Sbjct: 964 KLRSDVERLRMSEEEAKNATNRVLSLQEEIAKLRK 998
Score = 28.9 bits (65), Expect = 1.6
Identities = 22/109 (20%), Positives = 41/109 (37%), Gaps = 6/109 (5%)
Query: 124 KEISILKKKLKKEKNPEEKEKVKYLVQRMENQMREAKQRHEKDQQEKEEHTARIQALK-- 181
K + L+ + E EK++ V+R+ EAK + +EE + L
Sbjct: 945 KSLLEKMNNLEITYS-TETEKLRSDVERLRMSEEEAKNATNRVLSLQEEIAKLRKELHQT 1003
Query: 182 HGEKPLFRKKSEKTMLNLVQKFETLKKTGKINKHIEKKTKALKAKERSQ 230
EK + ++K Q LK+ N ++ + + L + Q
Sbjct: 1004 QTEKKTIEEWADKYKHETEQLVSELKEQ---NTLLKTEKEELNRRIHDQ 1049
Score = 28.9 bits (65), Expect = 1.6
Identities = 22/112 (19%), Positives = 45/112 (40%), Gaps = 6/112 (5%)
Query: 123 EKEISILKKKLKKEK---NPEEKEKVKYLVQRMENQMREAKQRHEKDQQEKEEHTARIQA 179
E S +KL+ + E+E + + Q AK R E Q + E+ T A
Sbjct: 955 EITYSTETEKLRSDVERLRMSEEEAKNATNRVLSLQEEIAKLRKELHQTQTEKKTIEEWA 1014
Query: 180 LKHGEKP-LFRKKSEKTMLNLVQKFETLKKTGKINKHIEKKTKALKAKERSQ 230
K+ + + ++ L + E L + +I+ ++ T+ ++ K +
Sbjct: 1015 DKYKHETEQLVSELKEQNTLLKTEKEELNR--RIHDQAKEITETMEKKLVEE 1064
>3gnl_A Uncharacterized protein, DUF633, LMOF2365_1472; structural
genomics, PSI-2, protein structure initiative; 1.50A
{Listeria monocytogenes str}
Length = 244
Score = 32.2 bits (73), Expect = 0.10
Identities = 9/54 (16%), Positives = 22/54 (40%), Gaps = 3/54 (5%)
Query: 131 KKLKKEKNPEEKEKVKYLV---QRMENQMREAKQRHEKDQQEKEEHTARIQALK 181
L KE++ K K ++ Q + + + ++Q + E +I ++
Sbjct: 179 PCLLKEQSAIFKSKWRHEANTWQNIIQTISNNQPVSTENQAKIRELEHKIALVE 232
>1jkw_A Cyclin H; cell cycle, cell division, nuclear protein; 2.60A {Homo
sapiens} SCOP: a.74.1.1 a.74.1.1 PDB: 1kxu_A
Length = 323
Score = 32.0 bits (72), Expect = 0.16
Identities = 11/62 (17%), Positives = 29/62 (46%)
Query: 109 KAFHSAYKFIDDIREKEISILKKKLKKEKNPEEKEKVKYLVQRMENQMREAKQRHEKDQQ 168
K+ + K + R +E+++LK+KL + + E V ++ ++ + +++
Sbjct: 253 KSMRNLVKKYEPPRSEEVAVLKQKLDRCHSAELALNVITKKRKGYEDDDYVSKKSKHEEE 312
Query: 169 EK 170
E
Sbjct: 313 EW 314
>3ghg_C Fibrinogen gamma chain; triple-stranded coiled coil, beta sheets,
alpha helices, AMY amyloidosis, blood coagulation,
disease mutation, glycoprot phosphoprotein; HET: NAG NDG
BMA MAN GAL SIA; 2.90A {Homo sapiens} PDB: 1deq_C
Length = 411
Score = 31.8 bits (72), Expect = 0.19
Identities = 17/90 (18%), Positives = 31/90 (34%), Gaps = 6/90 (6%)
Query: 95 RDPRFDSLCGTFKE-KAFHSAYKFIDDIREKEISILKKKLKK--EKNPEEKEKVKYLVQR 151
D RF S C T F S Y+ + +K++ L+ L + K E K+ +K +
Sbjct: 11 LDERFGSYCPTTCGIADFLSTYQ--TKV-DKDLQSLEDILHQVENKTSEVKQLIKAIQLT 67
Query: 152 MENQMREAKQRHEKDQQEKEEHTARIQALK 181
+ + + I +
Sbjct: 68 YNPDESSKPNMIDAATLKSRKMLEEIMKYE 97
>3kr9_A SAM-dependent methyltransferase; class I rossmann-like
methyltransferase fold; 2.00A {Streptococcus pneumoniae}
PDB: 3ku1_A*
Length = 225
Score = 29.1 bits (65), Expect = 1.0
Identities = 10/55 (18%), Positives = 27/55 (49%)
Query: 131 KKLKKEKNPEEKEKVKYLVQRMENQMREAKQRHEKDQQEKEEHTARIQALKHGEK 185
L KE +P +K + +++E + + +++ +++Q + I+ + H K
Sbjct: 171 PFLSKEVSPVFVQKWQKEAEKLEFALGQIPEKNLEERQVLVDKIQAIKEVLHVSK 225
>3lvg_D LCB, clathrin light chain B; SELF assembly, coated PIT, cytoplasmic
vesicle, membrane, Ca structural protein; 7.94A {Bos
taurus}
Length = 190
Score = 28.2 bits (62), Expect = 1.7
Identities = 7/52 (13%), Positives = 22/52 (42%), Gaps = 1/52 (1%)
Query: 122 REKEISILKKKLKKEKNPEEKEKVKYLVQRMENQMREAKQRHEKDQQEKEEH 173
+ K + L K + ++ K L + + Q E ++++ + + ++
Sbjct: 94 QRKRLQELDAASKVMEQEWREKAKKDLEEWNQRQ-SEQVEKNKINNRIADKA 144
Score = 27.0 bits (59), Expect = 4.8
Identities = 12/74 (16%), Positives = 26/74 (35%), Gaps = 6/74 (8%)
Query: 154 NQMREAKQRHEKDQQEKEEHTARIQALKHGEKPLFRKKSEKTMLNLVQKFETLKKTGKIN 213
Q Q E ++ +EE R+Q L K ++ + E + + +
Sbjct: 75 AQADRLTQEPESIRKWREEQRKRLQELDAASK----VMEQEWREKAKKDLEEWNQ--RQS 128
Query: 214 KHIEKKTKALKAKE 227
+ +EK + +
Sbjct: 129 EQVEKNKINNRIAD 142
>1g8x_A Myosin II heavy chain fused to alpha-actinin 3; motor, lever ARM,
protein engineering, structural protein; HET: ADP; 2.80A
{Dictyostelium discoideum} SCOP: k.1.1.1
Length = 1010
Score = 28.5 bits (64), Expect = 2.3
Identities = 4/50 (8%), Positives = 14/50 (28%)
Query: 123 EKEISILKKKLKKEKNPEEKEKVKYLVQRMENQMREAKQRHEKDQQEKEE 172
E + + + + V L +R + + + + +
Sbjct: 939 EGQSNSDLLSILAQLTELNYNGVPELTERKDTFFAQQWTGVKSSAETYKN 988
>1qvr_A CLPB protein; coiled coil, AAA ATPase, chaperone; HET: ANP; 3.00A
{Thermus thermophilus} SCOP: a.174.1.1 c.37.1.20
c.37.1.20
Length = 854
Score = 28.3 bits (64), Expect = 2.4
Identities = 11/49 (22%), Positives = 27/49 (55%), Gaps = 1/49 (2%)
Query: 133 LKKEKNPEEKEKVKYLVQRMENQMREAKQRHEKDQQEKEEHTARIQALK 181
LKKEK+P+ +E++K + + E + + ++E+E +++ +
Sbjct: 420 LKKEKDPDSQERLKAIEAEIAKLTEEIAKLRAEWEREREILR-KLREAQ 467
>3l4j_A DNA topoisomerase 2; topoisomerase, protein-DNA complex, covalently
linked comple supercoiling; HET: DNA PTR TSP; 2.48A
{Saccharomyces cerevisiae} PDB: 3l4k_A* 1bjt_A 1bgw_A
2rgr_A*
Length = 757
Score = 28.0 bits (62), Expect = 3.5
Identities = 19/118 (16%), Positives = 45/118 (38%), Gaps = 8/118 (6%)
Query: 116 KFIDDIREKEISILKKK-------LKKEKNPEEKEKVKYLVQRMENQMREAKQRHEKDQQ 168
KFI I EKE+++ K L+ P ++ K +++ E +
Sbjct: 608 KFIKMIIEKELTVTNKPRNAIIQELENLGFPRFNKEGKPYYGSPNDEIAEQINDVKGATS 667
Query: 169 EKEEHTARIQALKHGEKPLFRKKSE-KTMLNLVQKFETLKKTGKINKHIEKKTKALKA 225
++E+ + + ++ + +L + T ++ K+ K ++K L+
Sbjct: 668 DEEDEESSHEDTENVINGPEELYGTYEYLLGMRIWSLTKERYQKLLKQKQEKETELEN 725
>3lec_A NADB-rossmann superfamily protein; PSI, MCSG, structural genomics,
midwest CENT structural genomics, protein structure
initiative; 1.80A {Streptococcus agalactiae}
Length = 230
Score = 27.5 bits (61), Expect = 3.5
Identities = 8/51 (15%), Positives = 17/51 (33%), Gaps = 3/51 (5%)
Query: 131 KKLKKEKNPEEKEKVKYLVQRMENQMREAKQRHEKDQQEKEEHTARIQALK 181
L KEK + + ++ + +E+ +IQ +K
Sbjct: 177 PFLLSNNTTVFKEKWQNELNKLTFALNSIPN---SKMEERAILEDKIQDIK 224
>1gpj_A Glutamyl-tRNA reductase; tRNA-dependent tetrapyrrole biosynthesis;
HET: GMC CIT; 1.95A {Methanopyrus kandleri} SCOP:
a.151.1.1 c.2.1.7 d.58.39.1
Length = 404
Score = 27.2 bits (61), Expect = 4.6
Identities = 4/38 (10%), Positives = 18/38 (47%), Gaps = 3/38 (7%)
Query: 119 DDIREKEISILKKKLKKEKNPEEKEKVKYLVQRMENQM 156
+I+++E+ ++LK + + ++ + ++
Sbjct: 339 HEIKDRELERALRRLKTG---DPENVLQDFAEAYTKRL 373
>3m6a_A ATP-dependent protease LA 1; alpha, beta, ATP-binding, hydrolase,
nucleotide-binding, Pro serine protease, stress
response; HET: ADP; 3.40A {Bacillus subtilis} PDB:
1x37_A
Length = 543
Score = 27.1 bits (61), Expect = 5.7
Identities = 8/37 (21%), Positives = 17/37 (45%), Gaps = 1/37 (2%)
Query: 119 DDIREKEISILKKKLKKEKNPEE-KEKVKYLVQRMEN 154
+ + E+ L +K+++ P+ KE + R E
Sbjct: 3 KEGKTGEVQTLTEKIEEAGMPDHVKETALKELNRYEK 39
>3cmw_A Protein RECA, recombinase A; homologous recombination,
recombination/DNA complex; HET: DNA ADP; 2.80A
{Escherichia coli} PDB: 3cmt_A* 3cmx_A* 3cmv_A*
Length = 1706
Score = 26.6 bits (59), Expect = 9.2
Identities = 11/66 (16%), Positives = 23/66 (34%), Gaps = 1/66 (1%)
Query: 55 EN-KNFKRENKNRPREISSKIPQKKFAQQSAPVIPVQKNIPRDPRFDSLCGTFKEKAFHS 113
N + ++N +EI K+ + + ++ S K+KA +
Sbjct: 976 ANATAWLKDNPETAKEIEKKVRELLLSNPNSTTGSTGSASGSSTGSMSAIDENKQKALAA 1035
Query: 114 AYKFID 119
A I+
Sbjct: 1036 ALGQIE 1041
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
0.310 0.127 0.339
Gapped
Lambda K H
0.267 0.0450 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Sequences: 27921
Number of Hits to DB: 3,341,553
Number of extensions: 190068
Number of successful extensions: 1007
Number of sequences better than 10.0: 1
Number of HSP's gapped: 930
Number of HSP's successfully gapped: 194
Length of query: 235
Length of database: 6,701,793
Length adjustment: 91
Effective length of query: 144
Effective length of database: 4,160,982
Effective search space: 599181408
Effective search space used: 599181408
Neighboring words threshold: 11
Window for multiple hits: 40
X1: 16 ( 7.2 bits)
X2: 38 (14.6 bits)
X3: 64 (24.7 bits)
S1: 42 (21.8 bits)
S2: 56 (26.0 bits)