RPS-BLAST 2.2.26 [Sep-21-2011]
Database: pdb70
27,921 sequences; 6,701,793 total letters
Searching..................................................done
Query= psy16024
(316 letters)
>2qv7_A Diacylglycerol kinase DGKB; alpha-beta domain 1, beta sandwich
domain 2, protein-ADP COM transferase; HET: ADP; 2.30A
{Staphylococcus aureus} SCOP: e.52.1.2 PDB: 2qvl_A
Length = 337
Score = 82.0 bits (203), Expect = 5e-18
Identities = 42/234 (17%), Positives = 67/234 (28%), Gaps = 42/234 (17%)
Query: 69 NRKSGNGDGSHILSTFRRLLNP--LQVVDLADKSPEEALQWVSLMPSSGQTLILAAGGDG 126
N SG L L + A + +A +++AAGGDG
Sbjct: 32 NPTSGKEQFKRELPDALIKLEKAGYETSAYATEKIGDATLEAERAMHENYDVLIAAGGDG 91
Query: 127 TAAWILNTIHNMKLDPAPSVGIIPLGTGNDLSRVLGWGKLYDRDTCSPFQILDNLTRSKV 186
T ++N I + P +G+IP+GT ND R L LD +
Sbjct: 92 TLNEVVNGI--AEKPNRPKLGVIPMGTVNDFGRALHIPN-------DIMGALDVIIEGHS 142
Query: 187 AHLDRWSVQIKSIRQLRLTRALKC--RWMYNYLSIGVDAQVALDFHNTRESSLYIFSSRA 244
+D K R+ N + G QV+ + +
Sbjct: 143 TKVD----------------IGKMNNRYFINLAAGGQLTQVSYETPSK--------LKSI 178
Query: 245 FNKFLYLTFGTQQAMERGCRDLDQRIELYLDGERVDLPPIESVVVLNIPSWASG 298
F Y G + + + + DG + + S A
Sbjct: 179 VGPFAYYIKGFEMLP----QMKAVDLRIEYDGNVFQGEAL-LFFLGLTNSMAGF 227
>3s40_A Diacylglycerol kinase; structural genomics, the center for
structural genomics of infectious diseases, csgid,
transfer; 2.10A {Bacillus anthracis} PDB: 3t5p_A
Length = 304
Score = 76.6 bits (189), Expect = 3e-16
Identities = 48/234 (20%), Positives = 81/234 (34%), Gaps = 43/234 (18%)
Query: 69 NRKSGNGDGSHILSTFRRLLNPL--QVVDLADKSPEEALQWVSLMPSSGQTLILAAGGDG 126
N K+G GD L+ L + L K +A ++ +S LI+ GGDG
Sbjct: 16 NPKAGQGDLHTNLTKIVPPLAAAFPDLHILHTKEQGDATKYCQEF-ASKVDLIIVFGGDG 74
Query: 127 TAAWILNTIHNMKLDPAPSVGIIPLGTGNDLSRVLGWGKLYDRDTCSPFQILDNLTRSKV 186
T N + L+ P++ IIP GT ND SR LG + + + +T+ V
Sbjct: 75 TVFECTNGL--APLEIRPTLAIIPGGTCNDFSRTLGVPQ-------NIAEAAKLITKEHV 125
Query: 187 AHLDRWSVQIKSIRQLRLTRALKC--RWMYNYLSIGVDAQVALDFHNTRESSLYIFSSRA 244
+D K + N+ IG+ ++V+ +N
Sbjct: 126 KPVD----------------VAKANGQHFLNFWGIGLVSEVS---NNIDAEEK-----AK 161
Query: 245 FNKFLYLTFGTQQAMERGCRDLDQRIELYLDGERVDLPPIESVVVLNIPSWASG 298
K Y + +++ DG+ + + V+V N
Sbjct: 162 LGKIGYYLSTIRTVK----NAETFPVKITYDGQVYEDEAV-LVMVGNGEYLGGI 210
>2bon_A Lipid kinase; DAG kinase, transferase; 1.90A {Escherichia coli}
SCOP: e.52.1.2 PDB: 2jgr_A 2p1r_A
Length = 332
Score = 75.8 bits (187), Expect = 7e-16
Identities = 37/231 (16%), Positives = 70/231 (30%), Gaps = 36/231 (15%)
Query: 69 NRKSGNGDG-SHILSTFRRLLNPLQVVDLADKSPEEALQWVSLMPSSGQTLILAAGGDGT 127
N KS + + R + V +A ++V G ++A GGDGT
Sbjct: 37 NGKSTDNLPLREAIMLLREEGMTIHVR--VTWEKGDAARYVEEARKFGVATVIAGGGDGT 94
Query: 128 AAWILNTIHNMKLDPAPSVGIIPLGTGNDLSRVLGWGKLYDRDTCSPFQILDNLTRSKVA 187
+ + + D P++GI+PLGT ND + +G + + + L
Sbjct: 95 INEVSTALIQCEGDDIPALGILPLGTANDFATSVGIPE-------ALDKALKLAIAGDAI 147
Query: 188 HLDRWSVQIKSIRQLRLTRALKCRWMYNYLSIGVDAQVALDFHNTRESSLYIFSSRAFNK 247
+D + + K N + G ++ + A
Sbjct: 148 AID-------------MAQVNKQTCFINMATGGFGTRITTETPEKL--------KAALGS 186
Query: 248 FLYLTFGTQQAMERGCRDLDQRIELYLDGERVDLPPIESVVVLNIPSWASG 298
Y+ G + R E+ + + + + N G
Sbjct: 187 VSYIIHGLMRMD----TLQPDRCEIRGENFHWQGDAL-VIGIGNGRQAGGG 232
>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 = 47.4 bits (112), Expect = 4e-06
Identities = 62/377 (16%), Positives = 115/377 (30%), Gaps = 149/377 (39%)
Query: 10 LYLTFGTQQAMERGCRD--LDQRIELY----------LDGERVDLPPIESVVVLNIPSWA 57
L FG Q G D ++ +LY + L + + +
Sbjct: 156 LVAIFGGQ-----GNTDDYFEELRDLYQTYHVLVGDLIKFSAETLSELIRTTLDAEKVFT 210
Query: 58 SGVDL--WKLGRGNRKSGNGDGSHILS---TFRRLLNPL-QVVDLA---------DKSPE 102
G+++ W L S D ++LS + PL V+ LA +P
Sbjct: 211 QGLNILEW-L---ENPSNTPDKDYLLSIPISC-----PLIGVIQLAHYVVTAKLLGFTPG 261
Query: 103 EALQWVSLMPSSGQTLILA---AGGDGTAAWILNTIHNMKLDPAPSVGIIPLGTGNDLSR 159
E ++ Q L+ A A D ++ ++ +
Sbjct: 262 ELRSYLKGATGHSQGLVTAVAIAETDSWESFFVSVRKAI--------------------T 301
Query: 160 VLGW-G----KLYDRDTCSPFQILDNLTRSK--------VAHLDRWSVQIKSIRQLRLTR 206
VL + G + Y + P + D+L ++ +++L + VQ + +
Sbjct: 302 VLFFIGVRCYEAYPNTSLPPSILEDSLENNEGVPSPMLSISNLTQEQVQ-DYVNKTN--- 357
Query: 207 ALKCRWMYNYLSIGVDAQVALDFHNTRES--------SLY-------------------I 239
++L G +++L N ++ SLY I
Sbjct: 358 --------SHLPAGKQVEISL--VNGAKNLVVSGPPQSLYGLNLTLRKAKAPSGLDQSRI 407
Query: 240 -FSSRA--F-NKFL---------YLTFGTQQAMERGCRDLDQRIELYLDGERVDLPPIES 286
FS R F N+FL L A + +DL + + + +
Sbjct: 408 PFSERKLKFSNRFLPVASPFHSHLL----VPASDLINKDL-VKNNVSFNAKD-------- 454
Query: 287 VVVLNIPSWAS--GVDL 301
+ IP + + G DL
Sbjct: 455 ---IQIPVYDTFDGSDL 468
Score = 34.3 bits (78), Expect = 0.068
Identities = 29/131 (22%), Positives = 40/131 (30%), Gaps = 49/131 (37%)
Query: 158 SRVLGWGK-LYDRDTCSP------------------FQILD---NLTRSKVAHLDRWSVQ 195
S+ G G LY S F ILD N + H +
Sbjct: 1626 SQEQGMGMDLYKT---SKAAQDVWNRADNHFKDTYGFSILDIVINNPVNLTIHFG--GEK 1680
Query: 196 IKSIRQLRLTRALKCRWMYNYLSI----GVDAQVALD--FHN-TRESSLYIFSSRAFNKF 248
K IR+ NY ++ VD ++ + F S+ Y F S
Sbjct: 1681 GKRIRE-------------NYSAMIFETIVDGKLKTEKIFKEINEHSTSYTFRSE--KGL 1725
Query: 249 LYLTFGTQQAM 259
L T TQ A+
Sbjct: 1726 LSATQFTQPAL 1736
Score = 33.1 bits (75), Expect = 0.13
Identities = 34/210 (16%), Positives = 62/210 (29%), Gaps = 65/210 (30%)
Query: 142 PAPSVGIIPLGTGND--------LSRVLGW-GKLYDRDTCSPF-QILDNLTR-------- 183
P P+ G +D + + LG+ L + F Q+L+
Sbjct: 42 PEPTEGF----AADDEPTTPAELVGKFLGYVSSLVEPSKVGQFDQVLNLCLTEFENCYLE 97
Query: 184 -----SKVAHLDRWSVQIKSIRQLRLTRALKCRWMYNYLSIGVDAQVALD--FHNTRESS 236
+ A L Q ++ +K NY+ A++ F S+
Sbjct: 98 GNDIHALAAKLL----QENDTTLVKTKELIK-----NYI----TARIMAKRPFDKKSNSA 144
Query: 237 LYIFSSRAFNKF-LYLTFGTQQAMERGCRD--LDQRIELY----------LDGERVDLPP 283
L F + L FG Q G D ++ +LY + L
Sbjct: 145 L--FRAVGEGNAQLVAIFGGQ-----GNTDDYFEELRDLYQTYHVLVGDLIKFSAETLSE 197
Query: 284 IESVVVLNIPSWASGVDL--WKLGRGQKSP 311
+ + + G+++ W L +P
Sbjct: 198 LIRTTLDAEKVFTQGLNILEW-LENPSNTP 226
>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 = 33.7 bits (76), Expect = 0.091
Identities = 56/327 (17%), Positives = 95/327 (29%), Gaps = 111/327 (33%)
Query: 76 DGSHILSTFRRLLNPLQVVD-LADKSPEEA---LQWVSLMPSSGQTLILAAGGDGTAA-- 129
D + + +L+ ++ + K L W + S + ++ +
Sbjct: 34 DCKDVQDMPKSILSKEEIDHIIMSKDAVSGTLRLFW--TLLSKQEEMVQKFVEEVLRINY 91
Query: 130 -WILNTIHNMKLDPAPSVGII-----PLGTGNDL------SR------------------ 159
++++ I + P+ + L N + SR
Sbjct: 92 KFLMSPIKTEQRQPSMMTRMYIEQRDRLYNDNQVFAKYNVSRLQPYLKLRQALLELRPAK 151
Query: 160 ------VLGWGK--L-------YDRDTCSPFQI-----------------LDNLTR---- 183
VLG GK + Y F+I L L
Sbjct: 152 NVLIDGVLGSGKTWVALDVCLSYKVQCKMDFKIFWLNLKNCNSPETVLEMLQKLLYQIDP 211
Query: 184 ---SKVAHLDRWSVQIKSIRQLRLTRALKCRWMYNYLSI--GV-DAQV--ALDFH----- 230
S+ H ++I SI+ L R LK + N L + V +A+ A +
Sbjct: 212 NWTSRSDHSSNIKLRIHSIQA-ELRRLLKSKPYENCLLVLLNVQNAKAWNAFNLSCKILL 270
Query: 231 NTRESSLYIFSSRAFNKFLYL-----TFGTQQAMERGCRDLDQRIELYLDGERVDLPPIE 285
TR + F S A + L T + L + YLD DLP E
Sbjct: 271 TTRFKQVTDFLSAATTTHISLDHHSMTLTPDEVKS-----L---LLKYLDCRPQDLPR-E 321
Query: 286 ---------SVVVLNIPSWASGVDLWK 303
S++ +I + D WK
Sbjct: 322 VLTTNPRRLSIIAESIRDGLATWDNWK 348
>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 = 31.1 bits (69), Expect = 0.27
Identities = 9/36 (25%), Positives = 18/36 (50%), Gaps = 11/36 (30%)
Query: 17 QQAMERGCRDLDQRIELYLDGERVDLPP---IESVV 49
+QA+++ L ++LY D D P I++ +
Sbjct: 19 KQALKK----LQASLKLYAD----DSAPALAIKATM 46
Score = 31.1 bits (69), Expect = 0.27
Identities = 9/36 (25%), Positives = 18/36 (50%), Gaps = 11/36 (30%)
Query: 256 QQAMERGCRDLDQRIELYLDGERVDLPP---IESVV 288
+QA+++ L ++LY D D P I++ +
Sbjct: 19 KQALKK----LQASLKLYAD----DSAPALAIKATM 46
Score = 28.4 bits (62), Expect = 2.0
Identities = 6/15 (40%), Positives = 10/15 (66%), Gaps = 3/15 (20%)
Query: 137 NMKL---DPAPSVGI 148
++KL D AP++ I
Sbjct: 28 SLKLYADDSAPALAI 42
>3pvs_A Replication-associated recombination protein A; maintenance of
genome stability Pro recombination; 2.50A {Escherichia
coli}
Length = 447
Score = 27.5 bits (62), Expect = 6.4
Identities = 22/122 (18%), Positives = 34/122 (27%), Gaps = 25/122 (20%)
Query: 88 LNPLQVVDL------ADKSPEEAL--QWVSLMPSSGQTLILAAGGDGTAAWILNTIHNMK 139
L L D+ A + Q + L + + + GD A LNT+ M
Sbjct: 162 LKSLSTEDIEQVLTQAMEDKTRGYGGQDIVLPDETRRAIAELVNGDARRA--LNTLEMMA 219
Query: 140 LDPAPSVGIIPLGTGNDLSRVLGWG-KLYDRDTCSPFQILDNLTRSKVAHLDRWSVQIKS 198
+ L+ + G +D D D S KS
Sbjct: 220 DMAEVDDSGKRVLKPELLTEIAGERSARFDNKG-------DR-------FYDLISALHKS 265
Query: 199 IR 200
+R
Sbjct: 266 VR 267
>2i2c_A Probable inorganic polyphosphate/ATP-NAD kinase 1; NADP bound of
lmnadk1, transferase; HET: DTA PG4; 1.85A {Listeria
monocytogenes egd-e} PDB: 2i1w_A* 2i2a_A* 2i2b_A*
2i29_A* 2i2d_A* 2i2e_A* 3v7u_A* 3v7w_A* 3v7y_A* 3v80_A*
3v8m_A* 3v8n_A* 3v8p_A* 4dy6_A* 2i2f_A* 2q5f_A* 3v8q_A*
3v8r_A*
Length = 272
Score = 26.8 bits (60), Expect = 9.3
Identities = 11/33 (33%), Positives = 18/33 (54%), Gaps = 5/33 (15%)
Query: 118 LILAAGGDGTAAWILNTIHNM--KLDPAPSVGI 148
++++ GGDGT L+ H +LD +GI
Sbjct: 38 IVISIGGDGT---FLSAFHQYEERLDEIAFIGI 67
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
0.321 0.138 0.425
Gapped
Lambda K H
0.267 0.0845 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Sequences: 27921
Number of Hits to DB: 5,043,702
Number of extensions: 308301
Number of successful extensions: 495
Number of sequences better than 10.0: 1
Number of HSP's gapped: 490
Number of HSP's successfully gapped: 21
Length of query: 316
Length of database: 6,701,793
Length adjustment: 94
Effective length of query: 222
Effective length of database: 4,077,219
Effective search space: 905142618
Effective search space used: 905142618
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 (21.9 bits)
S2: 57 (25.5 bits)