RPS-BLAST 2.2.26 [Sep-21-2011]
Database: pdb70
27,921 sequences; 6,701,793 total letters
Searching..................................................done
Query= psy3174
(265 letters)
>3mkr_A Coatomer subunit epsilon; tetratricopeptide repeats (TPR),
beta-hairpin, alpha-solenoi transport protein; 2.60A
{Bos taurus}
Length = 291
Score = 141 bits (355), Expect = 1e-40
Identities = 95/252 (37%), Positives = 138/252 (54%), Gaps = 46/252 (18%)
Query: 10 DELFDVRNSYYLGNYQQCIKEGQRLKATDPKVLLEKDFYVCRSYLAQKKYKVVLEEKLPE 69
DELFDV+N++Y+G+YQQCI E QR+K + P+ +E+D ++ R+YLAQ+KY VVL+E P
Sbjct: 1 DELFDVKNAFYIGSYQQCINEAQRVKPSSPERDVERDVFLYRAYLAQRKYGVVLDEIKPS 60
Query: 70 ---ELSCIKVLAEYLSIPSKNGSS------------------------------------ 90
EL +++ AEYL+ S+ +
Sbjct: 61 SAPELQAVRMFAEYLASHSRRDAIVAELDREMSRSVDVTNTTFLLMAASIYFYDQNPDAA 120
Query: 91 ----NFGTHLEINALKIHTYLTMYRNDLALKELKVMQDKDEDHTLTQLCSAWVHIANNVD 146
+ G LE A+ + L + R DLA KELK MQD+DED TLTQL +AWV +A +
Sbjct: 121 LRTLHQGDSLECMAMTVQILLKLDRLDLARKELKKMQDQDEDATLTQLATAWVSLAAGGE 180
Query: 147 KLNEAFYTLQDLIDKYGSTPMLVNAQVAVLIAQDKYEEAWDLLQDTAG---DSEDTLINN 203
KL +A+Y Q++ DK T +L+N Q A +AQ ++E A +LQ+ +TLIN
Sbjct: 181 KLQDAYYIFQEMADKCSPTLLLLNGQAACHMAQGRWEAAEGVLQEALDKDSGHPETLINL 240
Query: 204 MVTAGRLGKGNE 215
+V + LGK E
Sbjct: 241 VVLSQHLGKPPE 252
>3mv2_B Coatomer subunit epsilon; vesicular membrane coat COAT protein
complex I, protein TRAN; 2.90A {Saccharomyces
cerevisiae} PDB: 3mv3_B
Length = 310
Score = 132 bits (332), Expect = 5e-37
Identities = 39/271 (14%), Positives = 74/271 (27%), Gaps = 71/271 (26%)
Query: 7 NEVDELFDVRNSYYLGNYQQCIKEGQRLKATDPKVLLEKDFYVCRSYLAQKKYKVVLEEK 66
+ + F+++ +YY GN+ QC++E ++ FY ++ LA +Y +
Sbjct: 12 QDPMDYFNIKQNYYTGNFVQCLQEIEKFSKVTD---NTLLFYKAKTLLALGQY-----QS 63
Query: 67 LPEELSCIKVLAEYLSIPSKN--------------------------------------- 87
KVL Y+
Sbjct: 64 QDPTSKLGKVLDLYVQFLDTKNIEELENLLKDKQNSPYELYLLATAQAILGDLDKSLETC 123
Query: 88 ----GSSNFGTHLEINALKIHTYLTMYRNDLALKELKVMQDKDEDHT------LTQLCSA 137
+ E+ L I L A + ED + L +
Sbjct: 124 VEGIDNDEAEGTTELLLLAIEVALLNNNVSTASTIFDNYTNAIEDTVSGDNEMILNLAES 183
Query: 138 WVHIANNVDKLNEAFYTLQDLIDKYGSTPMLVNAQVAVLIAQDKYEEAWDLLQDTAGD-- 195
++ A N + FY ++L + + + + + Q EA +++ D
Sbjct: 184 YIKFATNKETATSNFYYYEELSQTFPTWKTQ-LGLLNLHLQQRNIAEAQGIVELLLSDYY 242
Query: 196 -----------SEDTLINNMVTAGRLGKGNE 215
L N + A G E
Sbjct: 243 SVEQKENAVLYKPTFLANQITLALMQGLDTE 273
>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 = 44.3 bits (104), Expect = 3e-05
Identities = 42/251 (16%), Positives = 71/251 (28%), Gaps = 88/251 (35%)
Query: 45 KDFYVCRSYLAQKKYKVVLEE---KLPEEL--SCIKVLAEYLSIPSKNGSSNFGTHLEIN 99
D Y S AQ V + S + ++ P N + +FG
Sbjct: 1633 MDLYK-TSKAAQD----VWNRADNHFKDTYGFSILDIVINN---P-VNLTIHFGGE---K 1680
Query: 100 ALKIH-TYLTM-YRN--DLALKELKVMQDKDEDHTLTQLCSAWVHIANNVDKLNEAFYTL 155
+I Y M + D LK K+ ++ +E T F +
Sbjct: 1681 GKRIRENYSAMIFETIVDGKLKTEKIFKEINEH--STSYT----------------FRSE 1722
Query: 156 QDLIDKYGSTPMLVNAQVAVL---IAQDKYE--EAWDLLQDT---AGDS----------- 196
+ L+ T Q A+ A +E ++ L+ AG S
Sbjct: 1723 KGLLSA---T---QFTQPALTLMEKAA--FEDLKSKGLIPADATFAGHSLGEYAALASLA 1774
Query: 197 -----EDT---------LINNMVTAGRLGKGNE--MSVSPPFLFRSDETTATLDACGLQS 240
E + V LG+ N ++++P A+ LQ
Sbjct: 1775 DVMSIESLVEVVFYRGMTMQVAVPRDELGRSNYGMIAINP------GRVAASFSQEALQY 1828
Query: 241 NSESTPRDSGE 251
E + +G
Sbjct: 1829 VVERVGKRTGW 1839
Score = 43.9 bits (103), Expect = 4e-05
Identities = 56/371 (15%), Positives = 92/371 (24%), Gaps = 161/371 (43%)
Query: 2 SSTADNE---VDELFDVRNSYYLG------------NYQQCIK------EGQRLKATD-- 38
AD+E EL +LG + Q + E L+ D
Sbjct: 47 GFAADDEPTTPAELV----GKFLGYVSSLVEPSKVGQFDQVLNLCLTEFENCYLEGNDIH 102
Query: 39 ---------PKVLLEKDFYVCRSYLAQKKYKVVLEEKLPEELSCIKVLAEYLSIPSKNGS 89
L K + ++Y + K P K +
Sbjct: 103 ALAAKLLQENDTTLVKTKELIKNY-----ITARIMAKRP---------------FDKKSN 142
Query: 90 SNFGTHLEINALKIHT----------YL-------TMYR---NDL------ALKELKVMQ 123
S + ++ Y Y DL L EL +
Sbjct: 143 SALFRAVGEGNAQLVAIFGGQGNTDDYFEELRDLYQTYHVLVGDLIKFSAETLSEL-IRT 201
Query: 124 DKDEDHTLTQLCS--AWVHIAN---NVDKLNEAFYTLQDLI------------DKYGSTP 166
D + TQ + W+ + + D L + LI G TP
Sbjct: 202 TLDAEKVFTQGLNILEWLENPSNTPDKDYLLSIPISCP-LIGVIQLAHYVVTAKLLGFTP 260
Query: 167 ---------MLVNAQ---VAVLIAQDKYEEAWDLLQDTAGDSEDTLINNMVTAGRLGKGN 214
++Q AV IA DS ++ ++ A +
Sbjct: 261 GELRSYLKGATGHSQGLVTAVAIA--------------ETDSWESFFVSVRKAITV---- 302
Query: 215 EMSVSPPFLF----RSDETT--ATLDACGLQS---NSESTP----------RDSGERKIS 255
LF R E +L L+ N+E P ++ + ++
Sbjct: 303 --------LFFIGVRCYEAYPNTSLPPSILEDSLENNEGVPSPMLSISNLTQEQVQDYVN 354
Query: 256 ---AELPGESQ 263
+ LP Q
Sbjct: 355 KTNSHLPAGKQ 365
Score = 41.6 bits (97), Expect = 2e-04
Identities = 52/307 (16%), Positives = 100/307 (32%), Gaps = 110/307 (35%)
Query: 9 VDELFDVRNSY--YLGNYQQCIKE-GQRLK-----ATDPKVLLEKDFYVCRSYLAQKKYK 60
+EL R+ Y Y IK + L D + + + + +L
Sbjct: 170 FEEL---RDLYQTYHVLVGDLIKFSAETLSELIRTTLDAEKVFTQGLNI-LEWLEN---- 221
Query: 61 VVLEEKLPEE-------LSC--IKV--LAEYLSIPSKNGSS--NFGTHLE---------I 98
P++ +SC I V LA Y+ G + ++L+ +
Sbjct: 222 ---PSNTPDKDYLLSIPISCPLIGVIQLAHYVVTAKLLGFTPGELRSYLKGATGHSQGLV 278
Query: 99 NALKI---HTYLTMYRNDLALKELKVMQDKDEDHTLTQLCSAWV----HIANNVDKLNEA 151
A+ I ++ + + + K + V+ ++ + A L +
Sbjct: 279 TAVAIAETDSWESFFVS--VRKAITVL--------------FFIGVRCYEAYPNTSLPPS 322
Query: 152 FYTLQDLIDK-YGS-TPMLVNAQVAVL-IAQDKYEEAWDLLQDTAGDSED---TLIN--- 202
L+D ++ G +PML ++ + Q++ ++ + + +L+N
Sbjct: 323 --ILEDSLENNEGVPSPML-----SISNLTQEQVQDYVNKTNSHLPAGKQVEISLVNGAK 375
Query: 203 NMVTAGRLGKGNEMSVSPP-------FLFRSDETTATLDACGLQSNSESTPRDSGERK-- 253
N+V +G PP R + + LD QS P ERK
Sbjct: 376 NLVVSG-----------PPQSLYGLNLTLRKAKAPSGLD----QSR---IPFS--ERKLK 415
Query: 254 ISAE-LP 259
S LP
Sbjct: 416 FSNRFLP 422
Score = 28.1 bits (62), Expect = 3.8
Identities = 36/279 (12%), Positives = 78/279 (27%), Gaps = 106/279 (37%)
Query: 3 STADNEVDELFD-----VRNSYYLG---------------NYQQCIKEGQRLKATDPKVL 42
+ D+ + F + +++G + ++ + P +
Sbjct: 284 AETDSW-ESFFVSVRKAITVLFFIGVRCYEAYPNTSLPPSILEDSLENNE----GVPSPM 338
Query: 43 LEKDFYVCRSYLAQKKYKVVLEE---KLPEELSCIKVLAEYLSIPSKNGSSNF---GTHL 96
L + L Q++ + + + LP + + I NG+ N G
Sbjct: 339 L-----SISN-LTQEQVQDYVNKTNSHLPAG--------KQVEISLVNGAKNLVVSG--- 381
Query: 97 EINALKIHTYLTMYRNDLALKELKVMQDKDED----------------------HTLTQL 134
++Y +L L++ K D+ H+ L
Sbjct: 382 --------PPQSLYGLNLTLRKAKAPSGLDQSRIPFSERKLKFSNRFLPVASPFHSHL-L 432
Query: 135 CSAWVHIANNVDKLNEAF------------YTLQDLIDKYGS-TPMLVNAQVAVLIAQDK 181
A I ++ K N +F + DL GS + +V+ + L +
Sbjct: 433 VPASDLINKDLVKNNVSFNAKDIQIPVYDTFDGSDLRVLSGSISERIVD-CIIRLPVK-- 489
Query: 182 YEEAWDLLQDTA-------GDSEDTLINNMVTAGRLGKG 213
W+ G + + + + G G
Sbjct: 490 ----WETTTQFKATHILDFGPGGASGLGVLTHRNKDGTG 524
>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 = 28.8 bits (63), Expect = 1.1
Identities = 10/26 (38%), Positives = 14/26 (53%), Gaps = 5/26 (19%)
Query: 97 EINALK-IHTYLTMYRND----LALK 117
E ALK + L +Y +D LA+K
Sbjct: 18 EKQALKKLQASLKLYADDSAPALAIK 43
>2r5s_A Uncharacterized protein VP0806; APC090868.1, vibrio
parahaemolyticus RIMD 22 structural genomics, PSI-2,
protein structure initiative; HET: MES; 2.14A {Vibrio
parahaemolyticus}
Length = 176
Score = 27.2 bits (60), Expect = 4.3
Identities = 16/97 (16%), Positives = 34/97 (35%), Gaps = 2/97 (2%)
Query: 95 HLEINALKIHTYLTMYRNDLALKELKVMQDKDEDHTLTQLCSAWVHIANNVDKLNEAFYT 154
++ K L + +LA + L + + +D++ L A + + + E
Sbjct: 39 RGDVKLAKADCLLETKQFELAQELLATIPLEYQDNSYKSLI-AKLELHQQAAESPEL-KR 96
Query: 155 LQDLIDKYGSTPMLVNAQVAVLIAQDKYEEAWDLLQD 191
L+ + L + EEA +LL +
Sbjct: 97 LEQELAANPDNFELACELAVQYNQVGRDEEALELLWN 133
Score = 26.5 bits (58), Expect = 7.6
Identities = 15/77 (19%), Positives = 31/77 (40%)
Query: 147 KLNEAFYTLQDLIDKYGSTPMLVNAQVAVLIAQDKYEEAWDLLQDTAGDSEDTLINNMVT 206
+ +A +Q L D+ S + A+ L+ ++E A +LL + +D +++
Sbjct: 21 EHAQALNVIQTLSDELQSRGDVKLAKADCLLETKQFELAQELLATIPLEYQDNSYKSLIA 80
Query: 207 AGRLGKGNEMSVSPPFL 223
L + S L
Sbjct: 81 KLELHQQAAESPELKRL 97
>2fi9_A Outer membrane protein; bartonella hense protein structure
initiative, midwest center for structural genomics,
MCSG; 1.80A {Bartonella henselae} SCOP: c.103.1.1
Length = 128
Score = 26.7 bits (59), Expect = 4.9
Identities = 11/80 (13%), Positives = 23/80 (28%), Gaps = 5/80 (6%)
Query: 147 KLNEAFYTLQDLIDKYGSTPMLVNAQV---AVLIAQDKYEEAWDLLQDTAGDSEDTLINN 203
++ EA + + ID YG+ +++ + ++
Sbjct: 6 QIREAHFPGRAPIDAYGNGGFRFADMSHRGSIICIPSGIYGIDMTGPVPTQEDISRVLEE 65
Query: 204 MVTAGRL--GKGNEMSVSPP 221
L G G E+ P
Sbjct: 66 SDQIEVLLIGTGVELLRLPE 85
>3ctv_A HBD-10, 3-hydroxyacyl-COA dehydrogenase; structural genomics,
APC7539, PSI-2, protein structure initiative; 2.46A
{Archaeoglobus fulgidus dsm 4304}
Length = 110
Score = 25.7 bits (57), Expect = 7.6
Identities = 12/81 (14%), Positives = 23/81 (28%), Gaps = 18/81 (22%)
Query: 148 LNEAFYTLQ---------DLIDKYG-STPM--LVNAQVAVLIAQDKYEEAWDLLQDTAGD 195
+NEA ++ D K G + P ++A ++ + + L G
Sbjct: 28 INEAVKLVEMGVATPQDIDTAIKLGLNRPFGPF---ELAKQFGAEQIAKRLEELAKQFGK 84
Query: 196 SE---DTLINNMVTAGRLGKG 213
+ L G
Sbjct: 85 KIFEPAKTLKEGKLEELLKAG 105
>1f0y_A HCDH, L-3-hydroxyacyl-COA dehydrogenase; abortive ternary complex,
oxidoreductase; HET: CAA NAD; 1.80A {Homo sapiens} SCOP:
a.100.1.3 c.2.1.6 PDB: 3rqs_A 1lsj_A* 1il0_A* 1lso_A*
1m76_A* 1m75_A* 1f14_A 1f12_A 1f17_A* 3had_A* 2hdh_A*
3hdh_A*
Length = 302
Score = 26.8 bits (60), Expect = 8.0
Identities = 4/13 (30%), Positives = 7/13 (53%)
Query: 200 LINNMVTAGRLGK 212
+N +V + GK
Sbjct: 280 SLNKLVAENKFGK 292
>1zej_A HBD-9, 3-hydroxyacyl-COA dehydrogenase; structural genomics, joint
center for structural genomics, J protein structure
initiative, PSI; HET: PE8; 2.00A {Archaeoglobus
fulgidus}
Length = 293
Score = 26.4 bits (59), Expect = 8.7
Identities = 13/79 (16%), Positives = 23/79 (29%), Gaps = 14/79 (17%)
Query: 148 LNEAFYTLQ--------DLIDKYG---STPMLVNAQVAVLIAQDKYEEAWDLLQDTAGDS 196
L+EA ++ D + K+ + I D A L GD
Sbjct: 184 LSEASRMIEEGVRAEDVDRVWKHHLGLLYTLFGPLGNLDYIGLDVAYYASLYLYKRFGDE 243
Query: 197 EDT---LINNMVTAGRLGK 212
+ + + G +G
Sbjct: 244 KFKPPEWLQEKIKKGEVGV 262
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
0.313 0.130 0.368
Gapped
Lambda K H
0.267 0.0585 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Sequences: 27921
Number of Hits to DB: 3,878,286
Number of extensions: 222792
Number of successful extensions: 331
Number of sequences better than 10.0: 1
Number of HSP's gapped: 326
Number of HSP's successfully gapped: 19
Length of query: 265
Length of database: 6,701,793
Length adjustment: 92
Effective length of query: 173
Effective length of database: 4,133,061
Effective search space: 715019553
Effective search space used: 715019553
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 (21.9 bits)
S2: 56 (25.7 bits)