RPS-BLAST 2.2.26 [Sep-21-2011]
Database: pdb70
27,921 sequences; 6,701,793 total letters
Searching..................................................done
Query= psy2921
(305 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 = 51.6 bits (123), Expect = 2e-07
Identities = 43/237 (18%), Positives = 84/237 (35%), Gaps = 68/237 (28%)
Query: 36 IFDI-RSRPRNVPVITGSKGGSEMDTVVLIPTLLFKKGS-ISNQLPKIFSMLG---VDY- 89
I DI + P N+ + G + G + ++F+ + KIF + Y
Sbjct: 1661 ILDIVINNPVNLTIHFGGEKGKRI--RENYSAMIFETIVDGKLKTEKIFKEINEHSTSYT 1718
Query: 90 ---DERVL-------PSITT------EVLK--------AVVA-----------------Q 108
++ +L P++T E LK A A
Sbjct: 1719 FRSEKGLLSATQFTQPALTLMEKAAFEDLKSKGLIPADATFAGHSLGEYAALASLADVMS 1778
Query: 109 F-DASELITQR-ELVSQKVNEDLTERAKRFGVILDDISITHLTFGKEFTQAVELKQVAQQ 166
E++ R + V D R+ +G+I + +F +E L+ V ++
Sbjct: 1779 IESLVEVVFYRGMTMQVAVPRDELGRSN-YGMIAINPGRVAASFSQE-----ALQYVVER 1832
Query: 167 EAEKARFLVEKA---EQSKQAAIISAEGDAQAAQLISKSLTEAGDGLVELRRIEAAE 220
++ +LVE +++Q ++A GD +A ++ L L++I+ E
Sbjct: 1833 VGKRTGWLVEIVNYNVENQQ--YVAA-GDLRALDTVTNVLNFIK-----LQKIDIIE 1881
Score = 48.9 bits (116), Expect = 2e-06
Identities = 43/252 (17%), Positives = 77/252 (30%), Gaps = 91/252 (36%)
Query: 41 SRPRNVPVITGSKGGSEMDTVVLIPTLLFKKGSISNQLPKIFSM--------LGVDYDE- 91
+RP +T S G ++ V+L+PT F S QL + F+ D DE
Sbjct: 6 TRP-----LTLSHG--SLEHVLLVPTASFFIAS---QLQEQFNKILPEPTEGFAAD-DEP 54
Query: 92 --------RVL-----------PSITTEVLKAVVAQFDASELITQRE---LVSQKVNEDL 129
+ L +VL + +F+ + + + L ++ + E+
Sbjct: 55 TTPAELVGKFLGYVSSLVEPSKVGQFDQVLNLCLTEFE-NCYLEGNDIHALAAKLLQEND 113
Query: 130 TERAKRFGVILDDISITHLTFGKEFTQAVELKQVAQQEAEKARFLVEKAEQSKQAAIISA 189
T K +I K + A + + + + +A A +++
Sbjct: 114 TTLVKTKELI------------KNYITARIMAKRPFDKKSNSALF--RAVGEGNAQLVAI 159
Query: 190 EGDAQAAQLISKSLTEAGDG-----LVELRR------------IEAAESIAYQLSRSRQV 232
G G G ELR I+ + +L R+
Sbjct: 160 FG---------------GQGNTDDYFEELRDLYQTYHVLVGDLIKFSAETLSELIRTTLD 204
Query: 233 --SYLPSGNNIL 242
G NIL
Sbjct: 205 AEKVFTQGLNIL 216
Score = 31.2 bits (70), Expect = 0.47
Identities = 49/329 (14%), Positives = 97/329 (29%), Gaps = 138/329 (41%)
Query: 65 PTLLFKKGSISNQLPKIFSMLG-----VDYDERVLPSITTEVLKAVVAQFDASELITQRE 119
+ LF+ ++ ++ ++ G DY F+ EL R+
Sbjct: 142 NSALFR--AVGEGNAQLVAIFGGQGNTDDY-------------------FE--EL---RD 175
Query: 120 L--VSQKVNEDLTERAKRFGVILDDISITHLTFGKEFTQAVELKQVAQQEAEK------- 170
L + DL + + L ++ T L K FTQ + + + + +
Sbjct: 176 LYQTYHVLVGDLIKFS---AETLSELIRTTLDAEKVFTQGLNILEWLENPSNTPDKDYLL 232
Query: 171 --------------ARFLV---------EKAEQSKQAAIISAEGDAQAAQLISKSLT--- 204
A ++V + + A ++G A I+++ +
Sbjct: 233 SIPISCPLIGVIQLAHYVVTAKLLGFTPGELRSYLKGATGHSQG-LVTAVAIAETDSWES 291
Query: 205 --EAGDGLVE------LRRIEAA-----------ESI-------AYQLS----RSRQV-- 232
+ + +R EA +S+ + LS QV
Sbjct: 292 FFVSVRKAITVLFFIGVRCYEAYPNTSLPPSILEDSLENNEGVPSPMLSISNLTQEQVQD 351
Query: 233 ------SYLPSGNNI---LFNRSYTSNEMDGGHRA-VIFDRFTGIKNAVVGEGTHF---- 278
S+LP+G + L N G + V+ +G ++ G
Sbjct: 352 YVNKTNSHLPAGKQVEISLVN----------GAKNLVV----SGPPQSLYGLNLTLRKAK 397
Query: 279 --------FVPWVQRPVIFDIRSRPRNVP 299
+P+ +R + F R P P
Sbjct: 398 APSGLDQSRIPFSERKLKFSNRFLPVASP 426
Score = 30.4 bits (68), Expect = 0.85
Identities = 27/129 (20%), Positives = 44/129 (34%), Gaps = 35/129 (27%)
Query: 28 VPWVQRPVIFDIRSRPRNVPVITGSKGGSEMDTVVLIPTLLFKKGSISNQLPKIFSMLGV 87
+P+ +R + F R P P F S+ L ++
Sbjct: 407 IPFSERKLKFSNRFLPVASP---------------------FH----SHLLVPASDLINK 441
Query: 88 DYDERVLPSITTEVLK-AVVAQFDASELITQRELVSQKVNEDLTERAKRFGV---ILDDI 143
D + + S + ++ V FD S+L R L S ++E + + R V
Sbjct: 442 DLVKNNV-SFNAKDIQIPVYDTFDGSDL---RVL-SGSISERIVDCIIRLPVKWETTTQF 496
Query: 144 SITH-LTFG 151
TH L FG
Sbjct: 497 KATHILDFG 505
>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 = 49.9 bits (118), Expect = 7e-07
Identities = 42/302 (13%), Positives = 89/302 (29%), Gaps = 66/302 (21%)
Query: 31 VQRPVI---FDIRSR----PRNVPVITGSKGGSEMDTVVLIPTLLFKKGSISNQLPKIFS 83
VQ F++ + R V + + ++ + + L K
Sbjct: 253 VQNAKAWNAFNLSCKILLTTRFKQVTDFLSAATTTHISLDHHSMTLTPDEVKSLLLKY-- 310
Query: 84 MLGVDYDERVLP-----------SITTEVLKAVVAQFDASELITQREL---VSQKVN--- 126
L + LP SI E ++ +A +D + + +L + +N
Sbjct: 311 -LDCRPQD--LPREVLTTNPRRLSIIAESIRDGLATWDNWKHVNCDKLTTIIESSLNVLE 367
Query: 127 -EDLTERAKRFGVILDDISITHLTFGKEFTQAVELKQVAQQEAEK--ARFLVEKAEQSKQ 183
+ + R V I + + ++ K LVEK Q K+
Sbjct: 368 PAEYRKMFDRLSVFPPSAHIPTILLSLIWFDVIK--SDVMVVVNKLHKYSLVEK--QPKE 423
Query: 184 AAIISAEGDAQAAQL--ISKSLTEAGDGLVELRR--IEAAESIAYQLSRSRQVSYL--PS 237
+ I + I L + L R ++ Y + ++ L P
Sbjct: 424 STI----------SIPSIYLELKVKLENEYALHRSIVD-----HYNIPKTFDSDDLIPPY 468
Query: 238 GNNILFN------RSYTSNEMDGGHRAVIFD-RFTGIKNAVVGEGTHFFVPWVQRPVIFD 290
+ ++ ++ E R V D RF ++ + + T + +
Sbjct: 469 LDQYFYSHIGHHLKNIEHPERMTLFRMVFLDFRF--LEQKIRHDSTAWNASGSILNTLQQ 526
Query: 291 IR 292
++
Sbjct: 527 LK 528
Score = 43.7 bits (102), Expect = 5e-05
Identities = 45/325 (13%), Positives = 104/325 (32%), Gaps = 96/325 (29%)
Query: 5 RAVIFDRFTGIKNAVVGEGTHFFVPW-VQRP-VIFDIRS-----RP-RNVPVITGSKG-G 55
+++ + ++ + + F + V R +R RP +NV +I G G G
Sbjct: 105 PSMMTRMYIEQRDRLYNDN-QVFAKYNVSRLQPYLKLRQALLELRPAKNV-LIDGVLGSG 162
Query: 56 SEMDTVVLIPTLLFKKGSISNQLP-KIF--SMLGVDYDERVLPSITTEVLKAVVAQFDAS 112
T V + L K + ++ KIF ++ + E VL E+L+ ++ Q D +
Sbjct: 163 K---TWVALDVCLSYK--VQCKMDFKIFWLNLKNCNSPETVL-----EMLQKLLYQIDPN 212
Query: 113 ELITQRELVSQKVN-EDLTERAKRFG---------VILDDIS---------------ITH 147
+ K+ + +R ++L ++ +T
Sbjct: 213 WTSRSDHSSNIKLRIHSIQAELRRLLKSKPYENCLLVLLNVQNAKAWNAFNLSCKILLT- 271
Query: 148 LTFGKEFTQAV---ELKQVAQQEAEK-----------ARFLVEKAEQ-SKQAAIISAEGD 192
T K+ T + ++ ++L + + ++ +
Sbjct: 272 -TRFKQVTDFLSAATTTHISLDHHSMTLTPDEVKSLLLKYLDCRPQDLPREVLTTN---- 326
Query: 193 AQAAQLISKSLTEAGDGLVELRRIEAAESIAY-QLSRSRQVSYLPSGNNILFNRSYTSNE 251
+ +I++S+ + L + + + +L+ + S N+L E
Sbjct: 327 PRRLSIIAESIRD------GLATWDNWKHVNCDKLTTIIESSL-----NVL-----EPAE 370
Query: 252 MDGGHRA-----VIFDRFTGIKNAV 271
R +F I +
Sbjct: 371 Y----RKMFDRLSVFPPSAHIPTIL 391
>1win_A Flotillin 2; BAND 7 domain, structural genomics, riken structural
genomics/proteomics initiative, RSGI, cell adhesion; NMR
{Mus musculus} SCOP: d.43.2.1
Length = 143
Score = 41.4 bits (97), Expect = 7e-05
Identities = 11/87 (12%), Positives = 32/87 (36%)
Query: 82 FSMLGVDYDERVLPSITTEVLKAVVAQFDASELITQRELVSQKVNEDLTERAKRFGVILD 141
F V + V+ L++++ ++ R+ ++ V E R G+ +
Sbjct: 56 FLGKNVQDIKNVVLQTLEGHLRSILGTLTVEQIYQDRDQFAKLVREVAAPDVGRMGIEIL 115
Query: 142 DISITHLTFGKEFTQAVELKQVAQQEA 168
+I + ++ ++ Q + +
Sbjct: 116 SFTIKDVYDKVDYLSSLGKTQTSGPSS 142
>3bk6_A PH stomatin; archaea, trimer, coiled- coil, flotillin, SPFH,
membrane fusion, trafficking, transmembrane, membrane
protein; 3.20A {Pyrococcus horikoshii}
Length = 188
Score = 41.4 bits (98), Expect = 1e-04
Identities = 29/129 (22%), Positives = 58/129 (44%), Gaps = 27/129 (20%)
Query: 98 TTEVLKAVVAQFDASELITQRELVSQKVNEDLTERAKRFGVILDDISITHLTFGKEFTQA 157
TT L++V+ Q EL+++R+ ++ ++ + E +G+ + + I K+
Sbjct: 64 TT--LRSVIGQAHLDELLSERDKLNMQLQRIIDEATDPWGIKVTAVEI------KDVELP 115
Query: 158 VELKQVAQQEAEKARFLVEKAEQSKQAAIISAEGDAQAAQLISKSLTEAGDGLVELRRIE 217
+++ ++AE AE+ ++A I AE + QAA+ L E I
Sbjct: 116 AGMQKAMARQAE--------AERERRARITLAEAERQAAE-----------KLREAAEII 156
Query: 218 AAESIAYQL 226
+ +A QL
Sbjct: 157 SEHPMALQL 165
>3lvg_D LCB, clathrin light chain B; SELF assembly, coated PIT, cytoplasmic
vesicle, membrane, Ca structural protein; 7.94A {Bos
taurus}
Length = 190
Score = 34.7 bits (79), Expect = 0.018
Identities = 12/80 (15%), Positives = 36/80 (45%), Gaps = 13/80 (16%)
Query: 100 EVLKAVVAQFDASELITQRELVSQKVNEDLTERAKRFGVILDDISITHLTFGKEFTQAVE 159
E ++ + + + + + S+ + ++ E+AK+ L++ + + ++ VE
Sbjct: 85 ESIRKWREEQR--KRLQELDAASKVMEQEWREKAKKD---LEE-------WNQRQSEQVE 132
Query: 160 LKQVAQQEAEKARFLVEKAE 179
++ + A+KA F +
Sbjct: 133 KNKINNRIADKA-FYQQPDA 151
Score = 30.9 bits (69), Expect = 0.30
Identities = 13/57 (22%), Positives = 20/57 (35%), Gaps = 4/57 (7%)
Query: 164 AQQEAEKARFLVEKAEQSKQAAIISAEGDAQAAQLISKSLTEAGDGLVELRRIEAAE 220
QE E R E EQ K+ + A + K+ + + R+ E E
Sbjct: 80 LTQEPESIRKWRE--EQRKRLQELDAASKVMEQEWREKAKKDLEEW--NQRQSEQVE 132
Score = 28.6 bits (63), Expect = 1.7
Identities = 9/68 (13%), Positives = 22/68 (32%), Gaps = 14/68 (20%)
Query: 156 QAVELKQVAQQEAEKARFLVEKAEQSKQAAIISAEGDAQAAQLISKSLTEAGDGLVELRR 215
Q L+++ + EKA++ + E + + ++ + K+ R
Sbjct: 94 QRKRLQELDAASKVMEQEWREKAKKDLE------EWNQRQSEQVEKNKINN--------R 139
Query: 216 IEAAESIA 223
I
Sbjct: 140 IADKAFYQ 147
>2zvb_A Precorrin-3 C17-methyltransferase; plasmid, structural genomics,
NPPSFA, national project on protein structural and
functional analyses; HET: SAH; 2.00A {Thermus
thermophilus} PDB: 2zvc_A*
Length = 295
Score = 28.9 bits (65), Expect = 2.0
Identities = 8/28 (28%), Positives = 17/28 (60%), Gaps = 1/28 (3%)
Query: 166 QEAEKARFLVEKAEQSKQAAIISAEGDA 193
+E ++A +E+A ++ A++S GD
Sbjct: 59 EELDRAEEALERALSGQRVALVSG-GDP 85
>2zuo_A MVP, major vault protein; repeat domains, protein-protein complex,
cytoplasm, ribonucleoprotein, structural protein; 3.50A
{Rattus norvegicus} PDB: 2zv4_N 2zv5_a 2qzv_A
Length = 861
Score = 28.6 bits (63), Expect = 3.1
Identities = 18/74 (24%), Positives = 28/74 (37%), Gaps = 6/74 (8%)
Query: 156 QAVELKQVAQQEAEKARFLVEKAEQSKQA------AIISAEGDAQAAQLISKSLTEAGDG 209
+ K + Q EAEKAR + + E A A AE A+AA++ +
Sbjct: 687 RLERQKILDQSEAEKARKELLELEAMSMAVESTGNAKAEAESRAEAARIEGEGSVLQAKL 746
Query: 210 LVELRRIEAAESIA 223
+ IE +
Sbjct: 747 KAQALAIETEAELE 760
>1z6t_A APAF-1, apoptotic protease activating factor 1; caspase activation,
ADP, nucleotide binding, CARD, apoptosis; HET: ADP;
2.21A {Homo sapiens}
Length = 591
Score = 28.6 bits (64), Expect = 3.2
Identities = 8/56 (14%), Positives = 19/56 (33%)
Query: 88 DYDERVLPSITTEVLKAVVAQFDASELITQRELVSQKVNEDLTERAKRFGVILDDI 143
+L + + + + L E ++ + + R +ILDD+
Sbjct: 190 QDKSGLLMKLQNLCTRLDQDESFSQRLPLNIEEAKDRLRILMLRKHPRSLLILDDV 245
>3nut_A Precorrin-3 methylase; vitamin B12 pathway, cobalamin,
methyltransferase, transfera; HET: SAH; 2.22A
{Rhodobacter capsulatus}
Length = 251
Score = 27.7 bits (62), Expect = 5.0
Identities = 7/28 (25%), Positives = 16/28 (57%), Gaps = 1/28 (3%)
Query: 166 QEAEKARFLVEKAEQSKQAAIISAEGDA 193
E ++A +E A + ++ ++S+ GD
Sbjct: 63 VELDRATHALEMAAEGRRVVVVSS-GDP 89
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 0.379
Gapped
Lambda K H
0.267 0.0721 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Sequences: 27921
Number of Hits to DB: 4,664,015
Number of extensions: 287348
Number of successful extensions: 628
Number of sequences better than 10.0: 1
Number of HSP's gapped: 622
Number of HSP's successfully gapped: 26
Length of query: 305
Length of database: 6,701,793
Length adjustment: 93
Effective length of query: 212
Effective length of database: 4,105,140
Effective search space: 870289680
Effective search space used: 870289680
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: 57 (25.7 bits)