RPS-BLAST 2.2.26 [Sep-21-2011]
Database: pdb70
27,921 sequences; 6,701,793 total letters
Searching..................................................done
Query= psy14167
(341 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 = 40.0 bits (93), Expect = 0.001
Identities = 30/243 (12%), Positives = 65/243 (26%), Gaps = 80/243 (32%)
Query: 136 NHRYF----YMFMIYTLLGCAFLFIIGYRPAYSILVANSKHFDFHYENVHDVLAAIPEGK 191
YF ++ Y +L + S L+ + + + ++L +
Sbjct: 166 TDDYFEELRDLYQTYHVLVGDLIKFSA--ETLSELIRTTLDAEKVFTQGLNILEWLEN-- 221
Query: 192 LGRRDTMFFRSSFQPMKIPLSYYLETYQFRYKSLMFLSLV-LC--VIFCAVLTLS----- 243
P P YL + S + ++ L V+ +L +
Sbjct: 222 --------------PSNTPDKDYLLSIPI---SCPLIGVIQLAHYVVTAKLLGFTPGELR 264
Query: 244 ------LWH------AKLISGGETSVEFLKNKYEMTKKKKEGGTFKNPFDFGWKTNWRIF 291
H A I+ ++ F + + F
Sbjct: 265 SYLKGATGHSQGLVTAVAIAETDSWESFFVSVRKAIT-------------------VLFF 305
Query: 292 LGLYGGRTIWRHILLPST--HKPLDNG---------VTWTTSEDIQAMI---NGK-PSKD 336
+G+ + + LP + L+N ++ T E +Q + N P+
Sbjct: 306 IGVRCYEA-YPNTSLPPSILEDSLENNEGVPSPMLSISNLTQEQVQDYVNKTNSHLPAGK 364
Query: 337 TLH 339
+
Sbjct: 365 QVE 367
Score = 33.5 bits (76), Expect = 0.11
Identities = 28/178 (15%), Positives = 50/178 (28%), Gaps = 54/178 (30%)
Query: 3 HAFVEPIFWVVDSVLISIGP-FLTVLVIFISGFTVFIAYWILFPFYRRQSEWLAY---TL 58
H V + L + L +F G I W+ P ++L +
Sbjct: 181 HVLVGDLIKFSAETLSELIRTTLDAEKVFTQGLN--ILEWLENPSNTPDKDYLLSIPISC 238
Query: 59 AVIGNWILINFVFNYYMGFSTSPGHPPKHSVSSKSSDVCKKC-LTPKPPRTHHC--SICD 115
+IG +I +Y + K TP R++ +
Sbjct: 239 PLIG---VIQLA-HYVV--------------------TAKLLGFTPGELRSYLKGATGHS 274
Query: 116 QCILKMDHHCPWMNHCVGH---WNHRYFYMFMIYTLLGCAFLFIIGYR-----PAYSI 165
Q ++ + W F++ + + LF IG R P S+
Sbjct: 275 QGLV--------TAVAIAETDSWES--FFVSVRKAI---TVLFFIGVRCYEAYPNTSL 319
Score = 33.5 bits (76), Expect = 0.13
Identities = 42/245 (17%), Positives = 75/245 (30%), Gaps = 80/245 (32%)
Query: 160 RP--------AYSILVANSKHFDFHYENVHDV-LAAIPEGKLGRRDTMFFRSSFQPMKIP 210
RP + +LV + F + + +PE T F + +P P
Sbjct: 7 RPLTLSHGSLEHVLLVPTASF--FIASQLQEQFNKILPE------PTEGFAADDEP-TTP 57
Query: 211 LSYYLETYQFRYKSLMFLSLVL----CVIFCAVLTLSLWH---------------AKLIS 251
++ L ++S ++ F VL L L AKL+
Sbjct: 58 AELVG-----KF--LGYVSSLVEPSKVGQFDQVLNLCLTEFENCYLEGNDIHALAAKLLQ 110
Query: 252 GGETSV----EFLKNKYE---MTKKKKEGGTFKNPFDFGWKTNWRIFLGLYGG------- 297
+T++ E +KN M K+ + + F + N ++ ++GG
Sbjct: 111 ENDTTLVKTKELIKNYITARIMAKRPFDKKSNSALFRAVGEGNAQLVA-IFGGQGNTDDY 169
Query: 298 ----RTIWRH--------------ILLPSTHKPLDNGVTWTTSEDIQAMING---KPSKD 336
R +++ L LD +T +I + P KD
Sbjct: 170 FEELRDLYQTYHVLVGDLIKFSAETLSELIRTTLDAEKVFTQGLNILEWLENPSNTPDKD 229
Query: 337 TLHSC 341
L S
Sbjct: 230 YLLSI 234
Score = 28.5 bits (63), Expect = 4.5
Identities = 21/125 (16%), Positives = 46/125 (36%), Gaps = 31/125 (24%)
Query: 163 YSILVANSKHFDFHYENVHDVLA--------AIPEGKLGRRDT-MFFRSSFQPMKIPLSY 213
Y+ L + + E++ +V+ A+P +LGR + M + P ++ S+
Sbjct: 1767 YAALASLADVMSI--ESLVEVVFYRGMTMQVAVPRDELGRSNYGMI---AINPGRVAASF 1821
Query: 214 YLETYQFRYKSLMFLSLVLCVI--F-CA----VLTLSLWHAKLISGGETSVEFLKNKYEM 266
E Q+ + + + L I + V +G +++ + N
Sbjct: 1822 SQEALQYVVERVGKRTGWLVEIVNYNVENQQYV----------AAGDLRALDTVTNVLNF 1871
Query: 267 TKKKK 271
K +K
Sbjct: 1872 IKLQK 1876
>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 = 32.1 bits (72), Expect = 0.31
Identities = 31/214 (14%), Positives = 49/214 (22%), Gaps = 67/214 (31%)
Query: 91 SKSSDVCKKCLTPKP---PR----TH--HCSICDQCILKMDHHCPWMNHCVGHWNHRYFY 141
+ + K L +P PR T+ SI + D W N W H
Sbjct: 301 DEVKSLLLKYLDCRPQDLPREVLTTNPRRLSIIAE--SIRDGLATWDN-----WKH-VNC 352
Query: 142 MFMIYTLLGC-AFLFIIGYRPAYSILVANSKHFDFHYENVHDVLAAIPEGKLGR------ 194
+ + L YR + L F + H IP L
Sbjct: 353 DKLTTIIESSLNVLEPAEYRKMFDRLSV----FP---PSAH-----IPTILLSLIWFDVI 400
Query: 195 -RDTMFF------RSSFQPMKIPLSYYLETYQFRYKSLMFLSLVLCVIFCAVLTLSLWHA 247
D M S + + + + K + L H
Sbjct: 401 KSDVMVVVNKLHKYSLVEKQPKESTISIPSIYLELKVKLENEYAL-------------HR 447
Query: 248 KLISGGETSVEFLKNKYEMTKKKKEGGTFKNPFD 281
++ + Y + K D
Sbjct: 448 SIV-----------DHYNIPKTFDSDDLIPPYLD 470
Score = 29.1 bits (64), Expect = 2.5
Identities = 26/182 (14%), Positives = 52/182 (28%), Gaps = 55/182 (30%)
Query: 97 CKKCLTPKPPRTHHCSICD-------QCILKMDHH-------------CPWMNHCVGHWN 136
K L K P+ SI + + H + +
Sbjct: 412 HKYSLVEKQPKESTISIPSIYLELKVKLENEYALHRSIVDHYNIPKTFDSD--DLIPPYL 469
Query: 137 HRYFYMFMIYTLLGCAFLFIIGYRPAYSILVANSKHFDFHYENVHDVLAAIPEGKLGRRD 196
+YFY + + L + + DF + + E K+ R D
Sbjct: 470 DQYFYSHIGHHLKNI--------EHPERMTLFRMVFLDFRF---------L-EQKI-RHD 510
Query: 197 TMFF--RSSFQPMKIPLSYYLE-------TYQFRYKSLM-FL----SLVLCVIFCAVLTL 242
+ + S L +Y Y+ +++ FL ++C + +L +
Sbjct: 511 STAWNASGSILNTLQQLKFYKPYICDNDPKYERLVNAILDFLPKIEENLICSKYTDLLRI 570
Query: 243 SL 244
+L
Sbjct: 571 AL 572
>2dkt_A Ring finger and CHY zinc finger domain- containing protein 1;
RCHY1, structural genomics, NPPSFA; NMR {Mus musculus}
SCOP: g.89.1.1 g.93.1.1 PDB: 2k2c_A
Length = 143
Score = 30.0 bits (67), Expect = 0.60
Identities = 9/34 (26%), Positives = 13/34 (38%), Gaps = 3/34 (8%)
Query: 95 DVCKKCLTPKPPRTHHCSICDQCI---LKMDHHC 125
+ C C HC C+ C+ L+ H C
Sbjct: 102 ESCGICRIGPKEDFFHCLKCNLCLTTNLRGKHKC 135
>1w7p_D VPS36P, YLR417W; ESCRT-II complex, endosomal protein sorting,
protein transpo; 3.60A {Saccharomyces cerevisiae} SCOP:
a.4.5.54 a.4.5.54
Length = 566
Score = 30.4 bits (67), Expect = 0.88
Identities = 9/38 (23%), Positives = 16/38 (42%)
Query: 78 STSPGHPPKHSVSSKSSDVCKKCLTPKPPRTHHCSICD 115
+ P P++ S ++C C P+ +C IC
Sbjct: 164 AIDPNANPQNQFGVNSENICPACTFANHPQIGNCEICG 201
>2i50_A Ubiquitin carboxyl-terminal hydrolase 16; alpha/beta zinc-finger,
ring-finger, ZNF-UBP, metalloprotein, ubiquitin-binding
protein, USP; NMR {Homo sapiens}
Length = 126
Score = 28.9 bits (64), Expect = 1.1
Identities = 4/33 (12%), Positives = 12/33 (36%)
Query: 83 HPPKHSVSSKSSDVCKKCLTPKPPRTHHCSICD 115
K ++ + ++C+ C T + +
Sbjct: 17 GNLKKALVNVEWNICQDCKTDNKVKDKAEEETE 49
>3ppg_A 5-methyltetrahydropteroyltriglutamate--homocystei
methyltransferase; cobalamin-independent, surface
entropy reduction; 1.98A {Candida albicans} PDB: 3ppf_A
3pph_A 3ppc_A
Length = 789
Score = 30.2 bits (68), Expect = 1.2
Identities = 6/21 (28%), Positives = 9/21 (42%)
Query: 283 GWKTNWRIFLGLYGGRTIWRH 303
K + G+ GR IW+
Sbjct: 312 ILKDGQTLSAGVVDGRNIWKT 332
>2zxe_A Na, K-ATPase alpha subunit; membrane protein, ION pump, ATPase, K+
binding, haloacid dehydrogenease superfamily, phosphate
analogue; HET: CLR NAG NDG; 2.40A {Squalus acanthias}
PDB: 3a3y_A* 3b8e_A* 3kdp_A* 3n2f_A* 3n23_A* 1mo7_A
1mo8_A* 1q3i_A
Length = 1028
Score = 29.1 bits (66), Expect = 2.7
Identities = 13/54 (24%), Positives = 22/54 (40%), Gaps = 2/54 (3%)
Query: 21 GPFLTVLVIFISGFTVFIAYWILFPFYRRQSEWLAYTLAVIGNWILINFVFNYY 74
G F +L +I F+AY I + Y V+ +++ F+YY
Sbjct: 103 GGFSILL--WIGAILCFLAYGIQAATEDEPANDNLYLGVVLSTVVIVTGCFSYY 154
>2nq5_A 5-methyltetrahydropteroyltriglutamate-- homocysteine
methyltransferase; structural genomics, target 6426D,
PSI; 1.90A {Streptococcus mutans} PDB: 3l7s_A 3l7r_A
3t0c_A
Length = 755
Score = 29.0 bits (65), Expect = 2.9
Identities = 8/20 (40%), Positives = 9/20 (45%)
Query: 283 GWKTNWRIFLGLYGGRTIWR 302
G IF G+ GR IW
Sbjct: 274 GAFKGKEIFAGVIDGRNIWS 293
>2vrw_B P95VAV, VAV1, proto-oncogene VAV; lipoprotein, GTP-binding,
metal-binding, phosphoprotein, exchange factor, RAC,
GTPase, membrane domain; 1.85A {Mus musculus} PDB:
3bji_A 1f5x_A
Length = 406
Score = 28.3 bits (63), Expect = 3.7
Identities = 9/43 (20%), Positives = 16/43 (37%), Gaps = 2/43 (4%)
Query: 78 STSPGHPPK-HSVSSKSS-DVCKKCLTPKPPRTHHCSICDQCI 118
+T+ GH + S +S C+ L + + C C
Sbjct: 342 ATANGHDFQMFSFEETTSCKACQMLLRGTFYQGYRCYRCRAPA 384
>1u1j_A 5-methyltetrahydropteroyltriglutamate-- homocysteine
methyltransferase; methionine, synthase,
methyltetrahydrofolate; HET: C2F; 2.40A {Arabidopsis
thaliana} SCOP: c.1.22.2 c.1.22.2 PDB: 1u1h_A* 1u1u_A
1u22_A*
Length = 765
Score = 27.9 bits (62), Expect = 6.4
Identities = 7/25 (28%), Positives = 11/25 (44%)
Query: 278 NPFDFGWKTNWRIFLGLYGGRTIWR 302
+ G+ +F G+ GR IW
Sbjct: 276 DLVKAGFPEGKYLFAGVVDGRNIWA 300
>2kob_A Uncharacterized protein; alpha beta, structural genomics, PSI-2,
protein structure initiative; NMR {Clostridium leptum
dsm 753}
Length = 108
Score = 26.2 bits (58), Expect = 6.6
Identities = 13/45 (28%), Positives = 20/45 (44%), Gaps = 5/45 (11%)
Query: 298 RTIWRHILLPSTHKPLDNGVTWTTSEDIQAMINGKP-SKDTLHSC 341
+ R+ L P K L DIQ++IN +K+TL +
Sbjct: 29 KNYCRNHLSPLYMKSLSE----ILPADIQSIINETKLAKNTLKAI 69
>3quf_A Extracellular solute-binding protein, family 1; structural
genomics, PSI-biology, midwest center for structu
genomics, MCSG; HET: MSE; 1.70A {Bifidobacterium longum
subsp}
Length = 414
Score = 27.4 bits (61), Expect = 6.9
Identities = 9/65 (13%), Positives = 14/65 (21%), Gaps = 2/65 (3%)
Query: 264 YEMTKKKKEGGTFKNPFDFGWKTNWRIFLGLYGGRTIWRHILLPSTHKPLDNGVTWTTSE 323
EM KK G F + T + +G + T +
Sbjct: 164 IEMGKKINSNG--STAFLEDFNTQIAGSFTGLLASYYGEQGKSGDLDADIWSGKSTFTKD 221
Query: 324 DIQAM 328
Sbjct: 222 WTPVF 226
>4ap4_A E3 ubiquitin ligase RNF4; ligase-signalling protein complex,
chimera; 2.21A {Rattus norvegicus}
Length = 133
Score = 26.7 bits (58), Expect = 7.3
Identities = 11/51 (21%), Positives = 19/51 (37%), Gaps = 1/51 (1%)
Query: 75 MGFSTSPGHPPKHSVSSKSSDV-CKKCLTPKPPRTHHCSICDQCILKMDHH 124
M + + VS++ V C +CL + C C + I +H
Sbjct: 79 MDGYSEIVQNGRLIVSTECGHVFCSQCLRDSLKNANTCPTCRKKINHKRYH 129
>3mpx_A FYVE, rhogef and PH domain-containing protein 5; structural
genomics consortium, DH domain, SGC, L binding protein;
2.80A {Homo sapiens}
Length = 434
Score = 27.7 bits (61), Expect = 7.4
Identities = 11/46 (23%), Positives = 14/46 (30%), Gaps = 2/46 (4%)
Query: 75 MGFSTSPGHPPKHSVSSKSSDVCKKCLTPKPP--RTHHCSICDQCI 118
S G P V +C C R HHC C + +
Sbjct: 356 ERLGVSLGERPPTLVPVTHVMMCMNCGCDFSLTLRRHHCHACGKIV 401
>3ky9_A Proto-oncogene VAV; calponin homology domain, DBL homology domain,
pleckst homology domain, C1 domain, guanine-nucleotide
releasing FA metal-binding; 2.73A {Homo sapiens} PDB:
2d86_A
Length = 587
Score = 27.3 bits (60), Expect = 9.0
Identities = 10/44 (22%), Positives = 17/44 (38%), Gaps = 4/44 (9%)
Query: 78 STSPGHPPKHSVSSKSSDVCKKC---LTPKPPRTHHCSICDQCI 118
+T+ GH + S + + CK C L + + C C
Sbjct: 514 ATANGHDFQM-FSFEETTSCKACQMLLRGTFYQGYRCHRCRASA 556
>3tx3_A Uncharacterized protein involved in cysteine BIOS; structural
genomics, PSI-biology, NEW YORK consortium on MEM
protein structure, nycomps; HET: LDA; 2.30A {Idiomarina
loihiensis}
Length = 249
Score = 26.9 bits (59), Expect = 9.9
Identities = 15/72 (20%), Positives = 32/72 (44%), Gaps = 1/72 (1%)
Query: 11 WVVDSVLISIGPFLTVLVIFISGFTVFIAYWI-LFPFYRRQSEWLAYTLAVIGNWILINF 69
+VV +L ++ F ++ ++ P + + E++ + LAVI L +F
Sbjct: 32 YVVVPILTNLILFSLAFTWLYGEVDYWLNRFMSWLPDFFQWLEFILWPLAVITIIALFSF 91
Query: 70 VFNYYMGFSTSP 81
+F+ M +P
Sbjct: 92 IFSTIMHLIAAP 103
>3ixz_A Potassium-transporting ATPase alpha; ION pump, H+, K+-ATPase,
P-type ATPase, membrane protein, hydrolase, aluminium
fluoride, ATP-binding; 6.50A {Sus scrofa} PDB: 2xzb_A
1iwc_A 1iwf_A
Length = 1034
Score = 27.2 bits (61), Expect = 9.9
Identities = 7/49 (14%), Positives = 19/49 (38%)
Query: 26 VLVIFISGFTVFIAYWILFPFYRRQSEWLAYTLAVIGNWILINFVFNYY 74
+++++ IA+ I ++ Y + +++ F YY
Sbjct: 111 QCLMWVAAAICLIAFAIQASEGDLTTDDNLYLALALIAVVVVTGCFGYY 159
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
0.329 0.142 0.485
Gapped
Lambda K H
0.267 0.0548 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Sequences: 27921
Number of Hits to DB: 5,526,139
Number of extensions: 323470
Number of successful extensions: 1082
Number of sequences better than 10.0: 1
Number of HSP's gapped: 1076
Number of HSP's successfully gapped: 43
Length of query: 341
Length of database: 6,701,793
Length adjustment: 94
Effective length of query: 247
Effective length of database: 4,077,219
Effective search space: 1007073093
Effective search space used: 1007073093
Neighboring words threshold: 11
Window for multiple hits: 40
X1: 15 ( 7.1 bits)
X2: 38 (14.6 bits)
X3: 64 (24.7 bits)
S1: 40 (21.8 bits)
S2: 58 (26.5 bits)