RPS-BLAST 2.2.26 [Sep-21-2011]
Database: pdb70
27,921 sequences; 6,701,793 total letters
Searching..................................................done
Query= psy3261
(342 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 = 74.5 bits (182), Expect = 1e-14
Identities = 62/368 (16%), Positives = 121/368 (32%), Gaps = 94/368 (25%)
Query: 6 QDLYKFYTLPDEVRSAIFELGGITRVFNEQ-TQIFNESSIL-------------IRNCML 51
+ YKF L +++ + +TR++ EQ +++N++ + +R +L
Sbjct: 88 RINYKF--LMSPIKTEQRQPSMMTRMYIEQRDRLYNDNQVFAKYNVSRLQPYLKLRQALL 145
Query: 52 ELVGYLKSMTNFDRPSPRFVLYGEHGVGKSMALVYALQYAHENNYLLVHIPWVLRWFAYP 111
EL RP+ ++ G G GK+ AL + + + + + W
Sbjct: 146 EL-----------RPAKNVLIDGVLGSGKT---WVALD-VCLSYKVQCKMDFKIFWLNLK 190
Query: 112 KEVSHSLTKEGMVDL--NIDAAMWLRHFQKQNTK----WLEDP--RLTTSQEY------- 156
S E + L ID R N K ++ RL S+ Y
Sbjct: 191 NCNSPETVLEMLQKLLYQIDPNWTSRSDHSSNIKLRIHSIQAELRRLLKSKPYENCLLVL 250
Query: 157 --VWSPREKSEANIPLAALIEHGITRVKYASDVVDVLFTEIKKLSTEGVCRTFVCVDGYN 214
V + + + N+ L+ TR K +D + T +S + T +
Sbjct: 251 LNVQNAKAWNAFNLSCKILL---TTRFKQVTDFLSAATT--THISLDHHSMTLTPDEV-K 304
Query: 215 SFFAEKTNCKPEDKSKVLPSRVT----LTRSVINLVQSD----WNN-------------G 253
S + +C+P+D LP V S+I D W+N
Sbjct: 305 SLLLKYLDCRPQD----LPREVLTTNPRRLSIIAESIRDGLATWDNWKHVNCDKLTTIIE 360
Query: 254 AIVLALSPRANLPDRRESHLPLYMLKKAGFESIDPFVPIHV-----PELNDEEFHNLLNL 308
+ + L P + R+ L + +P + ++ + ++N
Sbjct: 361 SSLNVLEP----AEYRKMFDRLSVFPP------SAHIPTILLSLIWFDVIKSDVMVVVNK 410
Query: 309 YESKKWLQ 316
++
Sbjct: 411 LHKYSLVE 418
>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 = 61.6 bits (149), Expect = 2e-10
Identities = 74/428 (17%), Positives = 137/428 (32%), Gaps = 161/428 (37%)
Query: 16 DEVRSAI---FE---LGG------ITRVFNEQTQIFNESSILIRNCMLELVGYLKSMTNF 63
D+V + FE L G ++ E ++ LI+N Y+ +
Sbjct: 81 DQVLNLCLTEFENCYLEGNDIHALAAKLLQENDTTLVKTKELIKN-------YITARIMA 133
Query: 64 DRPSPRFV---LYGEHGVGKSMALVYAL---QYAHENNYL--LVHIPWVLRWFAYPKEV- 114
RP + L+ VG+ A + A+ Q + ++Y L + + Y V
Sbjct: 134 KRPFDKKSNSALF--RAVGEGNAQLVAIFGGQ-GNTDDYFEELRDL-----YQTYHVLVG 185
Query: 115 ----SHSLTKEGMVDLNIDAAMWLRHFQK--QNTKWLEDPRLTTSQEYV----------- 157
+ T ++ +DA + F + +WLE+P T ++Y+
Sbjct: 186 DLIKFSAETLSELIRTTLDAE---KVFTQGLNILEWLENPSNTPDKDYLLSIPISCPLIG 242
Query: 158 ---------------WSPREKSE---------ANIPLAALIEHGITR---VKYASDVVDV 190
++P E + A I + + V
Sbjct: 243 VIQLAHYVVTAKLLGFTPGELRSYLKGATGHSQGLVTAVAIAETDSWESFFVSVRKAITV 302
Query: 191 LF-----------------TEIKK------------LSTEGVCRTFVCVDGYNSFFAEKT 221
LF + ++ LS + + V + KT
Sbjct: 303 LFFIGVRCYEAYPNTSLPPSILEDSLENNEGVPSPMLSISNLTQEQV------QDYVNKT 356
Query: 222 NCK-PEDKSKVLPSRVTLTRSVINLVQSDWNNGA--IVLALSPRA----NLPDRRE---- 270
N P K +V I+LV NGA +V++ P++ NL R+
Sbjct: 357 NSHLPAGK------QV-----EISLV-----NGAKNLVVSGPPQSLYGLNLTLRKAKAPS 400
Query: 271 ----SHLPLYMLKKAGFESIDPFVPIHVPELNDEEFHNLLNLYESKKWLQTSEGREEIAF 326
S +P + +K F + F+P+ P FH+ L L + + + ++F
Sbjct: 401 GLDQSRIP-FSERKLKFSN--RFLPVASP------FHSHL-LVPASDLINKDLVKNNVSF 450
Query: 327 LTK--RVP 332
K ++P
Sbjct: 451 NAKDIQIP 458
>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 = 31.5 bits (70), Expect = 0.18
Identities = 10/40 (25%), Positives = 18/40 (45%), Gaps = 12/40 (30%)
Query: 138 QKQNTKWLEDPRLTTSQEYVWSPREKSEANIPLA--ALIE 175
+KQ K L+ L +++ + + A LA A +E
Sbjct: 18 EKQALKKLQA-SLK-----LYAD-DSAPA---LAIKATME 47
Score = 27.2 bits (59), Expect = 5.1
Identities = 6/21 (28%), Positives = 9/21 (42%), Gaps = 3/21 (14%)
Query: 278 LKKAGFE-SIDPFVPIHVPEL 297
LKK + S+ + P L
Sbjct: 22 LKK--LQASLKLYADDSAPAL 40
>3v9w_A Ribonuclease T; DEDD nucleases family, EXO-nucleases, hydrolase-DNA
complex; HET: DNA; 1.70A {Escherichia coli} PDB: 3ngy_A
3v9u_A* 3ngz_A* 3va3_A* 3v9z_A* 3nh0_A 3nh2_A 3nh1_A*
3v9s_A* 3v9x_A* 3va0_A* 2is3_A
Length = 235
Score = 30.2 bits (68), Expect = 0.76
Identities = 15/78 (19%), Positives = 27/78 (34%), Gaps = 7/78 (8%)
Query: 146 EDPRLTTSQEYVWSPREKSEANIPLAALIEHGITR---VKYA---SDVVDVLFTEIKKLS 199
E L + AN+ AL +GI + A + + +F ++K
Sbjct: 68 EQGWLMPDTTLHFHVEPFVGANLQPEALAFNGIDPNDPDRGAVSGYEALHEIFKVVRKGI 127
Query: 200 TEGVCRTFVCVDGYNSFF 217
C + V +N+ F
Sbjct: 128 KASGCNRAIMV-AHNANF 144
>2npi_A Protein CLP1; CLP1-PCF11 complex, ATP binding, ternary complex,
transcript; HET: ATP; 2.95A {Saccharomyces cerevisiae}
Length = 460
Score = 30.5 bits (68), Expect = 0.88
Identities = 15/83 (18%), Positives = 29/83 (34%), Gaps = 4/83 (4%)
Query: 12 YTLPDEVRSAIFELGGITRVFNEQTQIFNESSILIRNCM---LELVGYLKSMTNFDRPSP 68
YT + + I+ + ++ N ++ + M L L+ + + P
Sbjct: 81 YTFQN-WKFPIYAVEETELLWKCPDLTTNTITVKPNHTMKYIYNLHFMLEKIRMSNFEGP 139
Query: 69 RFVLYGEHGVGKSMALVYALQYA 91
R V+ G GK+ YA
Sbjct: 140 RVVIVGGSQTGKTSLSRTLCSYA 162
>4a35_A Mitochondrial enolase superfamily member 1; isomerase; 1.74A {Homo
sapiens}
Length = 441
Score = 29.8 bits (67), Expect = 1.2
Identities = 16/94 (17%), Positives = 27/94 (28%), Gaps = 20/94 (21%)
Query: 123 MVDLNI-----DAAMWLRHFQKQNTKWLEDPRLTTSQE-YVWSPREKSEANIPLAALIEH 176
M+D N +A W+ K W+E+P + + I +A E
Sbjct: 249 MMDANQRWDVPEAVEWMSKLAKFKPLWIEEPTSPDDILGHATISKALVPLGIGIATG-EQ 307
Query: 177 GITRVKYA----SDVVDVL---------FTEIKK 197
RV + + + L E
Sbjct: 308 CHNRVIFKQLLQAKALQFLQIDSCRLGSVNENLS 341
>3tj4_A Mandelate racemase; enolase, dehydratase, enzyme function
initiative, EFI, lyase; 1.50A {Agrobacterium
tumefaciens}
Length = 372
Score = 29.9 bits (68), Expect = 1.3
Identities = 15/94 (15%), Positives = 27/94 (28%), Gaps = 23/94 (24%)
Query: 123 MVDLN-----IDAAMWLRHFQKQNTKWLEDPRLTTSQEYVWSPRE-KSEANIPLAALIEH 176
+D N + + + W E+P + V S +IP+A E
Sbjct: 201 AIDGNGKWDLPTCQRFCAAAKDLDIYWFEEP---LWYDDVTSHARLARNTSIPIALG-EQ 256
Query: 177 GITRVKY----ASDVVDVL---------FTEIKK 197
T + + V + TE +
Sbjct: 257 LYTVDAFRSFIDAGAVAYVQPDVTRLGGITEYIQ 290
>1huw_A Human growth hormone; 2.00A {Homo sapiens} SCOP: a.26.1.1 PDB:
1kf9_A 1hwg_A 3hhr_A 1a22_A 1bp3_A 1hwh_A 1axi_A 1hgu_A
1z7c_A
Length = 191
Score = 28.7 bits (63), Expect = 2.3
Identities = 18/100 (18%), Positives = 35/100 (35%), Gaps = 2/100 (2%)
Query: 168 IPLAALIEHGITRVKYASDVVDVLFTEIKKLSTEGVCRTFVCVDGYNSFFAEKTNCKPED 227
IPL+ L ++ R + + + E ++ + S ++ P +
Sbjct: 4 IPLSRLADNAWLRADRLNQLAFDTYQEFEEAYIPKEQIHSFWWNPQTSLCPSESIPTPSN 63
Query: 228 KSKVL-PSRVTLTRSVINLVQSDWNNGAIVLALSPRANLP 266
K + S + L R + L+QS W L +L
Sbjct: 64 KEETQQKSNLELLRISLLLIQS-WLEPVQFLRSVFANSLV 102
>1sxj_E Activator 1 40 kDa subunit; clamp loader, processivity clamp, DNA
sliding clamp, AAA+ at polymerase, DNA-binding protein;
HET: AGS ADP; 2.85A {Saccharomyces cerevisiae} SCOP:
a.80.1.1 c.37.1.20
Length = 354
Score = 29.1 bits (65), Expect = 2.4
Identities = 16/77 (20%), Positives = 31/77 (40%), Gaps = 1/77 (1%)
Query: 52 ELVGYLKSMTNFDRPSPRFVLYGEHGVGK-SMALVYALQYAHENNYLLVHIPWVLRWFAY 110
EL +LKS+++ R P +LYG +G GK + + Y L +
Sbjct: 21 ELTNFLKSLSDQPRDLPHLLLYGPNGTGKKTRCMALLESIFGPGVYRLKIDVRQFVTASN 80
Query: 111 PKEVSHSLTKEGMVDLN 127
K + ++ +++
Sbjct: 81 RKLELNVVSSPYHLEIT 97
>2hxt_A L-fuconate dehydratase; enolase superfamily, D-erythromohydr
unknown function; HET: EHM; 1.70A {Xanthomonas
campestris PV} PDB: 1yey_A 2hxu_A* 2hne_A
Length = 441
Score = 28.7 bits (64), Expect = 2.8
Identities = 20/95 (21%), Positives = 34/95 (35%), Gaps = 24/95 (25%)
Query: 123 MVDLN-----IDAAMWLRHFQKQNTKWLEDPRLTTSQEYVWSPRE--KSEANIPLAALIE 175
VD N A W+R + + W+E+P TS + V + +P++ E
Sbjct: 246 AVDANQRWDVGPAIDWMRQLAEFDIAWIEEP---TSPDDVLGHAAIRQGITPVPVSTG-E 301
Query: 176 HGITRVKYA----SDVVDVL---------FTEIKK 197
H RV + + VD++ E
Sbjct: 302 HTQNRVVFKQLLQAGAVDLIQIDAARVGGVNENLA 336
>3cvj_A Putative phosphoheptose isomerase; rossman fold, 3-layer (ABA)
sandwich, structural genomics, J center for structural
genomics, JCSG; HET: MSE; 2.00A {Bacillus halodurans
c-125}
Length = 243
Score = 28.2 bits (62), Expect = 3.4
Identities = 12/93 (12%), Positives = 28/93 (30%), Gaps = 1/93 (1%)
Query: 211 DGYNSFFAEKTNCKPEDKSKVLPSRVTLTRSVINLVQSDWNNGAIVLALSPRANLPDRRE 270
+G + + + +D ++ S + + N GA V+A++ +
Sbjct: 94 EGLSKSYLKLHQVTNKD-VIMIISNSGRNTVPVEMAIESRNIGAKVIAMTSMKHSQKVTS 152
Query: 271 SHLPLYMLKKAGFESIDPFVPIHVPELNDEEFH 303
H L + +D P+
Sbjct: 153 RHKSGKKLYEYADVVLDNGAPVGDAGFQIANSE 185
>3q85_A GTP-binding protein REM 2; G-domain, CAV2 beta, signaling protein;
HET: GNP; 1.76A {Mus musculus}
Length = 169
Score = 27.5 bits (62), Expect = 5.0
Identities = 11/34 (32%), Positives = 14/34 (41%), Gaps = 4/34 (11%)
Query: 69 RFVLYGEHGVGKSMALVYALQYAHENNYLLVHIP 102
+ +L GE GVGKS L A + H
Sbjct: 4 KVMLVGESGVGKS-TL--AGTFG-GLQGDHAHEM 33
>2og9_A Mandelate racemase/muconate lactonizing enzyme; NYSGXRC, protein
structure initiative (PSI) II, PSI-2, 9382A mandelate
racemase; 1.90A {Polaromonas SP} PDB: 3cb3_A*
Length = 393
Score = 27.6 bits (62), Expect = 5.8
Identities = 21/99 (21%), Positives = 29/99 (29%), Gaps = 33/99 (33%)
Query: 123 MVDLN-----IDAAMWLRHFQKQNTKWLEDPRLTTSQEYVWSPRE-KSEANIPLAA---- 172
MVD N A R F+ N W+E+P + + P+A
Sbjct: 211 MVDANQQWDRPTAQRMCRIFEPFNLVWIEEP---LDAYDHEGHAALALQFDTPIATGEML 267
Query: 173 --------LIEHGITRVKYASDVV--DVL----FTEIKK 197
LI H A+D + D T K
Sbjct: 268 TSAAEHGDLIRHR------AADYLMPDAPRVGGITPFLK 300
>1rvk_A Isomerase/lactonizing enzyme; enolase superfamily, MR.GI-17937161,
NYSGXRC, target T1522, structural genomics, PSI; 1.70A
{Agrobacterium tumefaciens} SCOP: c.1.11.2 d.54.1.1
Length = 382
Score = 27.6 bits (62), Expect = 7.1
Identities = 17/95 (17%), Positives = 32/95 (33%), Gaps = 24/95 (25%)
Query: 123 MVDLN-----IDAAMWLRHFQKQNTKWLEDPRLTTSQEYVWSPRE-KSEANIPLAALIEH 176
M+D DA R +K W+E+P ++ + S + +IP+ E
Sbjct: 204 MIDAFHWYSRTDALALGRGLEKLGFDWIEEP---MDEQSLSSYKWLSDNLDIPVVGP-ES 259
Query: 177 GITRVKYASDV-----VDVL---------FTEIKK 197
+ + ++ D+L T K
Sbjct: 260 AAGKHWHRAEWIKAGACDILRTGVNDVGGITPALK 294
>3toy_A Mandelate racemase/muconate lactonizing enzyme FA protein; enolase,
magnesium binding site, lyase; HET: P4C; 1.80A
{Bradyrhizobium SP} PDB: 3tte_A*
Length = 383
Score = 27.2 bits (61), Expect = 7.8
Identities = 19/99 (19%), Positives = 32/99 (32%), Gaps = 33/99 (33%)
Query: 123 MVDLN-----IDAAMWLRHFQKQNTKWLEDPRLTTSQEYVWSPRE-KSEANIPLAA---- 172
M+D N +A + + W+E+P QE + + + IP+ A
Sbjct: 217 MLDFNQSLDPAEATRRIARLADYDLTWIEEP---VPQENLSGHAAVRERSEIPIQAGENW 273
Query: 173 --------LIEHGITRVKYASDVV--DVL----FTEIKK 197
I G ASD + D++ T
Sbjct: 274 WFPRGFAEAIAAG------ASDFIMPDLMKVGGITGWLN 306
>1bo4_A Protein (serratia marcescens aminoglycoside-3-N-
acetyltransferase); eubacterial aminoglyco resistance,
GCN5-related N-acetyltransferase; HET: SPD COA; 2.30A
{Serratia marcescens} SCOP: d.108.1.1
Length = 168
Score = 26.3 bits (58), Expect = 9.7
Identities = 8/66 (12%), Positives = 20/66 (30%), Gaps = 12/66 (18%)
Query: 52 ELVGYLKSMTNFDRPSPRFVLYGE----------HGVGKSMALVYALQYAHENNYLLVHI 101
+VG L + PR +Y G+ ++ + A+ ++++
Sbjct: 86 AVVGALAAYVLPKFEQPRSEIYIYDLAVSGEHRRQGIATAL-INLLKHEANALGAYVIYV 144
Query: 102 PWVLRW 107
Sbjct: 145 -QADYG 149
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 0.410
Gapped
Lambda K H
0.267 0.0634 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Sequences: 27921
Number of Hits to DB: 5,218,408
Number of extensions: 302915
Number of successful extensions: 801
Number of sequences better than 10.0: 1
Number of HSP's gapped: 796
Number of HSP's successfully gapped: 27
Length of query: 342
Length of database: 6,701,793
Length adjustment: 94
Effective length of query: 248
Effective length of database: 4,077,219
Effective search space: 1011150312
Effective search space used: 1011150312
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 (26.3 bits)