RPS-BLAST 2.2.26 [Sep-21-2011]
Database: pdb70
27,921 sequences; 6,701,793 total letters
Searching..................................................done
Query= psy7890
(196 letters)
>3v2u_C Protein GAL3; rossmann fold, GHMP superfamily, transcription
regulation, transcription; HET: GLA ATP; 2.10A
{Saccharomyces cerevisiae} PDB: 3v5r_A 2aj4_A*
Length = 520
Score = 84.8 bits (209), Expect = 1e-19
Identities = 28/110 (25%), Positives = 45/110 (40%), Gaps = 8/110 (7%)
Query: 28 GVKFSFEVETKLSSVVVNALDFGSGGWWFESKSSHEIYLEAYRVERFLSVCRS--DISEE 85
L++ V + + +Y E+ RV + L + S ++E
Sbjct: 359 NCSREEFTRDYLTTFPVRFQVL------KLYQRAKHVYSESLRVLKALKMMTSATFHTDE 412
Query: 86 QKLQQLGTLMNQSHTSLATKYECSHEALDSLVTCFREAGAYGARLTGAGW 135
G LMN+S S YECS + + + G++G+RLTGAGW
Sbjct: 413 DFFTDFGRLMNESQASCDKLYECSCIETNQICSIALANGSFGSRLTGAGW 462
>2a2c_A N-acetylgalactosamine kinase; galactokinase, , transferase; HET:
NG1 ADP; 1.65A {Homo sapiens} PDB: 2a2d_A*
Length = 478
Score = 84.2 bits (208), Expect = 2e-19
Identities = 37/74 (50%), Positives = 43/74 (58%), Gaps = 3/74 (4%)
Query: 62 HEIYLEAYRVERFLSVCRSDISEEQKLQQLGTLMNQSHTSLATKYECSHEALDSLVTCFR 121
H EA RV +F +C + E +Q LG LMNQSH S YECS LD LV R
Sbjct: 354 HVYS-EAARVLQFKKICEE--APENMVQLLGELMNQSHMSCRDMYECSCPELDQLVDICR 410
Query: 122 EAGAYGARLTGAGW 135
+ GA G+RLTGAGW
Sbjct: 411 KFGAQGSRLTGAGW 424
>2cz9_A Probable galactokinase; structural genomics, NPPSFA, national
project protein structural and functional analyses;
1.50A {Pyrococcus horikoshii} PDB: 2dei_A* 2dej_A*
1s4e_A*
Length = 350
Score = 74.3 bits (183), Expect = 3e-16
Identities = 25/76 (32%), Positives = 36/76 (47%), Gaps = 7/76 (9%)
Query: 64 IYLEAYRVERFLSVCRSDISEEQKLQQLGTLMNQSHTSLATKYECSHEALDSLVTCFREA 123
I E RV + ++++G ++ +H LA YE S + LD V +
Sbjct: 239 IVRENARVLEVRDALKEG-----NVEEVGKILTTAHWDLAKNYEVSCKELDFFVERALKL 293
Query: 124 GAYGARLTGAGW--CI 137
GAYGARLTGAG+
Sbjct: 294 GAYGARLTGAGFGGSA 309
>2oi2_A Mevalonate kinase; enzyme-inhibitor complex, transferase; HET: DP6;
2.50A {Streptococcus pneumoniae}
Length = 292
Score = 71.6 bits (176), Expect = 2e-15
Identities = 18/56 (32%), Positives = 29/56 (51%), Gaps = 3/56 (5%)
Query: 84 EEQKLQQLGTLMNQSHTSLATKYECSHEALDSLVTCFREAGAYGARLTGAGW--CI 137
++ + LG +++Q+H L + S DSLV GA GA+++G G CI
Sbjct: 208 SQKDAEGLGQILSQAHLHLK-EIGVSSLEADSLVETALSHGALGAKMSGGGLGGCI 262
>1pie_A Galactokinase; galactose, galactosemia, transferase; HET: GLA;
2.10A {Lactococcus lactis} SCOP: d.14.1.5 d.58.26.7
Length = 419
Score = 70.6 bits (173), Expect = 8e-15
Identities = 24/77 (31%), Positives = 34/77 (44%), Gaps = 8/77 (10%)
Query: 64 IYLEAYRVERFLSVCRSDISEEQKLQQLGTLMNQSHTSLATKYECSHEALDSLVTCFREA 123
E R + + L + G L+N SH SL YE + LD+L ++
Sbjct: 303 AVYENNRTKIAQKAFVAG-----NLTKFGELLNASHASLKDDYEVTGLELDTLAETAQKQ 357
Query: 124 -GAYGARLTGAGW--CI 137
G GAR+TGAG+ C
Sbjct: 358 AGVLGARMTGAGFGGCA 374
>1wuu_A Galactokinase; galactosemia, GHMP superfamily, transferase; HET:
GLA ANP; 2.50A {Homo sapiens} SCOP: d.14.1.5 d.58.26.7
Length = 399
Score = 70.1 bits (172), Expect = 1e-14
Identities = 25/77 (32%), Positives = 33/77 (42%), Gaps = 8/77 (10%)
Query: 64 IYLEAYRVERFLSVCRSDISEEQKLQQLGTLMNQSHTSLATKYECSHEALDSLVTCFREA 123
+ E R + + R + G LM +SH SL YE S LD LV
Sbjct: 288 VVGEIRRTAQAAAALRRG-----DYRAFGRLMVESHRSLRDDYEVSCPELDQLVEAALAV 342
Query: 124 -GAYGARLTGAGW--CI 137
G YG+R+TG G+ C
Sbjct: 343 PGVYGSRMTGGGFGGCT 359
>2x7i_A Mevalonate kinase; transferase; HET: CIT; 2.20A {Staphylococcus
aureus}
Length = 308
Score = 69.4 bits (170), Expect = 2e-14
Identities = 17/56 (30%), Positives = 27/56 (48%), Gaps = 3/56 (5%)
Query: 84 EEQKLQQLGTLMNQSHTSLATKYECSHEALDSLVTCFREAGAYGARLTGAGW--CI 137
E K + L + N+ H L SH+ ++ L+ +E GA +LTGAG +
Sbjct: 222 EHHKFEALADIFNECHADLK-ALTVSHDKIEQLMKIGKENGAIAGKLTGAGRGGSM 276
>2hfs_A Mevalonate kinase, putative; GHMP kinase, trypanosomatid parasite,
transferase; 1.75A {Leishmania major} PDB: 2hfu_A*
Length = 332
Score = 68.6 bits (168), Expect = 3e-14
Identities = 20/56 (35%), Positives = 30/56 (53%), Gaps = 3/56 (5%)
Query: 84 EEQKLQQLGTLMNQSHTSLATKYECSHEALDSLVTCFREAGAYGARLTGAGW--CI 137
++ LQ+LG LMN +H + + S L+S+V R GA GA+L+G G
Sbjct: 238 QKGDLQRLGQLMNANHDLCR-QIDVSCRELESIVQTCRTYGALGAKLSGTGRGGIA 292
>1kkh_A Mevalonate kinase; mixed beta sheet, phosphate-binding loop,
beta-alpha-beta, transferase; 2.40A {Methanocaldococcus
jannaschii} SCOP: d.14.1.5 d.58.26.3 PDB: 1vis_A
Length = 317
Score = 65.0 bits (159), Expect = 6e-13
Identities = 23/83 (27%), Positives = 38/83 (45%), Gaps = 11/83 (13%)
Query: 57 ESKSSHEIYLEAYRVERFLSVCRSDISEEQKLQQLGTLMNQSHTSLATKYECSHEALDSL 116
+ ++ EI+ E +V + + + + G LM ++H L K S LD +
Sbjct: 214 KIENKDEIFKEIDKVID-------EALKIKNKEDFGKLMTKNHELLK-KLNISTPKLDRI 265
Query: 117 VTCFREAGAYGARLTGAGW--CI 137
V G +GA+LTGAG C+
Sbjct: 266 VDIGNRFG-FGAKLTGAGGGGCV 287
>3k85_A D-glycero-D-manno-heptose 1-phosphate kinase; bacteriodes
thetaiotaomicron, protein structure initiative II(PSI
II), nysgxrc; 2.28A {Bacteroides thetaiotaomicron}
Length = 357
Score = 57.6 bits (139), Expect = 2e-10
Identities = 10/74 (13%), Positives = 25/74 (33%), Gaps = 9/74 (12%)
Query: 62 HEIYLEAYRVERFLSVCRSDISEEQKLQQLGTLMNQSHTSL-ATKYECSHEALDSLVTCF 120
H+I A + L + + + ++ + + ++ +
Sbjct: 233 HKIKQSAIDTKLAL--------LKGDVGEFARILGEGWENKKKMAGAITNPMIQEAFDVA 284
Query: 121 REAGAYGARLTGAG 134
AGA +++GAG
Sbjct: 285 TGAGAMAGKVSGAG 298
>1kvk_A MK, mevalonate kinase; RMK, ATP, GHMP, transferase; HET: ATP; 2.40A
{Rattus norvegicus} SCOP: d.14.1.5 d.58.26.3 PDB:
2r42_A* 2r3v_A
Length = 395
Score = 50.6 bits (120), Expect = 6e-08
Identities = 19/72 (26%), Positives = 27/72 (37%), Gaps = 6/72 (8%)
Query: 63 EIYLEAYRVERFLSVCRSDISEEQKLQQLGTLMNQSHTSLATKYECSHEALDSLVTCFRE 122
I LE RV + ++ L LM+ + L H +LD L
Sbjct: 270 AISLECERVLG----EMAAAPVPEQYLVLEELMDMNQHHLN-ALGVGHASLDQLCQVTAA 324
Query: 123 AGAYGARLTGAG 134
G ++LTGAG
Sbjct: 325 HG-LHSKLTGAG 335
>3k17_A LIN0012 protein; protein structure initiative II(PSI II), NYSGXRC,
structural genomics, NEW YORK SGX research center for
structural genomics; HET: PGE; 2.10A {Listeria innocua}
Length = 365
Score = 42.7 bits (100), Expect = 3e-05
Identities = 7/56 (12%), Positives = 16/56 (28%), Gaps = 6/56 (10%)
Query: 84 EEQKLQQLGTLMNQSHTSL-----ATKYECSHEALDSLVTCFREAGAYGARLTGAG 134
+ + L + + ++ L L L G + +G+G
Sbjct: 263 HTKDEELLYSSIKENRRILQELGTKAGVNIETSLLKELADSAENMGG-AGKSSGSG 317
>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 = 30.7 bits (68), Expect = 0.18
Identities = 12/33 (36%), Positives = 16/33 (48%), Gaps = 15/33 (45%)
Query: 84 EEQKLQQLGTLMNQSHTSLATK-YECSHEALDS 115
E+Q L++L Q+ SL K Y A DS
Sbjct: 18 EKQALKKL-----QA--SL--KLY-----ADDS 36
>3oeo_A Spheroplast protein Y; LTXXQ, extracytoplasmic stress
response-related, signaling P; 2.70A {Escherichia coli}
Length = 138
Score = 29.9 bits (67), Expect = 0.24
Identities = 7/38 (18%), Positives = 17/38 (44%), Gaps = 1/38 (2%)
Query: 81 DISEEQKLQQLGTLMNQSHTSLATKYECSHEALDSLVT 118
++++ QK QQ+ +M + A+ ++T
Sbjct: 33 NLTDAQK-QQIREIMKGQRDQMKRPPLEERRAMHDIIT 69
>3o39_A Periplasmic protein related to spheroblast format; alpha-helical,
structural genomics, montreal-kingston bacter structural
genomics initiative; HET: MSE; 2.60A {Escherichia coli}
Length = 108
Score = 29.4 bits (66), Expect = 0.29
Identities = 6/38 (15%), Positives = 16/38 (42%), Gaps = 1/38 (2%)
Query: 81 DISEEQKLQQLGTLMNQSHTSLATKYECSHEALDSLVT 118
++++ QK QQ+ +M + A+ ++
Sbjct: 17 NLTDAQK-QQIREIMKGQRDQMKRPPLEERRAMHDIIA 53
>3itf_A Periplasmic adaptor protein CPXP; CPXR, CPXA, cpxrap, CPX-pathway,
envelope stress, transduction; HET: MSE; 1.45A
{Escherichia coli str} PDB: 3qzc_A
Length = 145
Score = 28.8 bits (64), Expect = 0.65
Identities = 11/38 (28%), Positives = 17/38 (44%), Gaps = 1/38 (2%)
Query: 81 DISEEQKLQQLGTLMNQSHTSLATKYECSHEALDSLVT 118
++E Q+ QQ+ LM Q+ E + LVT
Sbjct: 45 SLTEHQR-QQMRDLMQQARHEQPPVNVSELETMHRLVT 81
>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 = 29.4 bits (65), Expect = 0.98
Identities = 20/120 (16%), Positives = 46/120 (38%), Gaps = 27/120 (22%)
Query: 2 LDTVKFSFEVETKLSSVVVNALDFGSGVKFSFEVETKLSS------VVVNALDFGSGGWW 55
+ T + + + + V A S ++ ++ L V+++ + GSG W
Sbjct: 107 MMTRMYIEQRDRLYNDNQVFAKYNVSRLQPYLKLRQALLELRPAKNVLIDGV-LGSGKTW 165
Query: 56 ----------FESKSSHEIYLEAYRVERFLSV--CRSDISEEQKLQQLGTLMNQSHTSLA 103
+ K +I+ +L++ C S + + LQ+L ++ + TS +
Sbjct: 166 VALDVCLSYKVQCKMDFKIF--------WLNLKNCNSPETVLEMLQKLLYQIDPNWTSRS 217
>3lut_A Voltage-gated potassium channel subunit beta-2; voltage gating,
potassium channel, KV1.2, gating charges, no analysis,
ION transport; HET: NAP; 2.90A {Rattus norvegicus}
Length = 367
Score = 27.2 bits (61), Expect = 3.3
Identities = 9/39 (23%), Positives = 13/39 (33%), Gaps = 1/39 (2%)
Query: 91 LGTLMNQ-SHTSLATKYECSHEALDSLVTCFREAGAYGA 128
LGT + + A D+ + F A Y A
Sbjct: 54 LGTWVTFGGQITDEMAEHLMTLAYDNGINLFDTAEVYAA 92
>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 = 27.7 bits (61), Expect = 3.3
Identities = 47/281 (16%), Positives = 80/281 (28%), Gaps = 108/281 (38%)
Query: 2 LDTVKFSFEV--ETKLSS--VVVNALDFGSGVKFSFEVETKLSSV------VVNALDFGS 51
L ++ S + +L+ V L F G E+ + L +V A+
Sbjct: 231 LLSIPISCPLIGVIQLAHYVVTAKLLGFTPG-----ELRSYLKGATGHSQGLVTAVAIAE 285
Query: 52 GGWW--FESKS-------------SHEIY----LEAYRVERF-----------LSVCRSD 81
W F +E Y L +E LS+ S+
Sbjct: 286 TDSWESFFVSVRKAITVLFFIGVRCYEAYPNTSLPPSILEDSLENNEGVPSPMLSI--SN 343
Query: 82 ISEEQKLQQLGTLMNQS-------HTSL---ATKYECS-H-EALDSLVTCFREAGA---- 125
+++EQ +Q N SL A S ++L L R+A A
Sbjct: 344 LTQEQ-VQDYVNKTNSHLPAGKQVEISLVNGAKNLVVSGPPQSLYGLNLTLRKAKAPSGL 402
Query: 126 ------YGAR-------------------LTGAGWCISQDAHLVNIMAWVQSQ---PRWC 157
+ R L A I++D N+ ++ P +
Sbjct: 403 DQSRIPFSERKLKFSNRFLPVASPFHSHLLVPASDLINKDLVKNNV-SFNAKDIQIPVYD 461
Query: 158 ISQDAHLVNIMAWVQSQPRYRLSQVLLENLNENVV---VVW 195
+ L R LS + E + + ++ V W
Sbjct: 462 TFDGSDL-----------R-VLSGSISERIVDCIIRLPVKW 490
>3qne_A Seryl-tRNA synthetase, cytoplasmic; amino acid biosynthesis,
CTG-clade, codon ambiguity, pathoge II aminoacyl-tRNA
synthetase family; 2.00A {Candida albicans} PDB: 3qo7_A*
3qo8_A* 3qo5_A
Length = 485
Score = 27.6 bits (62), Expect = 3.4
Identities = 7/11 (63%), Positives = 10/11 (90%), Gaps = 1/11 (9%)
Query: 118 TCFR-EAGAYG 127
+CFR EAG++G
Sbjct: 276 SCFRREAGSHG 286
>3hul_A HSK, HK, homoserine kinase; structural genomics, putative
homoserine kinase, THRB, amino-acid biosynthesis,
ATP-binding, cytoplasm; 2.19A {Listeria monocytogenes}
Length = 298
Score = 26.8 bits (60), Expect = 4.1
Identities = 9/22 (40%), Positives = 12/22 (54%)
Query: 113 LDSLVTCFREAGAYGARLTGAG 134
L + + GAY A L+GAG
Sbjct: 227 LAQIRDVAKNQGAYAACLSGAG 248
>3vbb_A Seryl-tRNA synthetase, cytoplasmic; coiled-coil, ligase; 2.89A
{Homo sapiens}
Length = 522
Score = 27.0 bits (60), Expect = 5.1
Identities = 7/11 (63%), Positives = 9/11 (81%), Gaps = 1/11 (9%)
Query: 118 TCFR-EAGAYG 127
TCFR E G++G
Sbjct: 299 TCFRQEVGSHG 309
>2kuq_A Fibroblast growth factor receptor substrate 3, LI residue peptide
from ALK tyrosine...; chimera, SNT-2, PTB domain, HALK,
structural genomics; NMR {Homo sapiens} PDB: 2yt2_A
Length = 153
Score = 26.3 bits (57), Expect = 5.5
Identities = 14/88 (15%), Positives = 31/88 (35%), Gaps = 12/88 (13%)
Query: 25 FGS-GVKFSFEVETKLSSVVVNALDFGSGGWWFESKSSHEIYLEAYRVERFLSVCRSDIS 83
+G FSFE + G G + F+ + EI+ ++ + ++
Sbjct: 65 YGYDSNLFSFESGRRC--------QTGQGIFAFKCSRAEEIF---NLLQDLMQCNSINVM 113
Query: 84 EEQKLQQLGTLMNQSHTSLATKYECSHE 111
EE + G+ + + + + H
Sbjct: 114 EEPVIITSGSSGSSGSSGSSGLFRLRHF 141
>3lss_A Seryl-tRNA synthetase; aminoacyl-tRNA synthetase, tRNA ligase,
AARS, serrs, translation, ATP-binding,
nucleotide-binding, structural genomics; HET: ATP; 1.95A
{Trypanosoma brucei} PDB: 3lsq_A*
Length = 484
Score = 26.9 bits (60), Expect = 5.6
Identities = 9/11 (81%), Positives = 10/11 (90%), Gaps = 1/11 (9%)
Query: 118 TCFR-EAGAYG 127
TCFR EAGA+G
Sbjct: 297 TCFRKEAGAHG 307
>1xr0_B FGFR signalling adaptor SNT-1; phosphotyrosine binding domain, PTB,
TRK, NPXPY motif,, signaling protein/growth factor
receptor complex; NMR {Homo sapiens} SCOP: b.55.1.2
Length = 129
Score = 25.8 bits (56), Expect = 6.4
Identities = 11/66 (16%), Positives = 26/66 (39%), Gaps = 12/66 (18%)
Query: 25 FGS-GVKFSFEVETKLSSVVVNALDFGSGGWWFESKSSHEIYLEAYRVERFLSVCRSDIS 83
+G FSFE + + G G + F+ + E++ ++ + ++
Sbjct: 58 YGYDSNLFSFESGRRCQT--------GQGIFAFKCARAEELF---NMLQEIMQNNSINVV 106
Query: 84 EEQKLQ 89
EE ++
Sbjct: 107 EEPVVE 112
>2dq0_A Seryl-tRNA synthetase; coiled-coil, homodimer, structural genomics,
NPPSFA, national project on protein structural and
functional analyses; HET: SSA; 2.60A {Pyrococcus
horikoshii} PDB: 2dq1_A* 2dq2_A 2zr2_A* 2zr3_A
Length = 455
Score = 26.4 bits (59), Expect = 7.5
Identities = 7/10 (70%), Positives = 7/10 (70%), Gaps = 1/10 (10%)
Query: 119 CFR-EAGAYG 127
CFR EAG G
Sbjct: 281 CFRKEAGTAG 290
>3eau_A Voltage-gated potassium channel subunit beta-2; kvbeta, cortisone,
NADPH, cytoplasm, ION transport, ionic channel, NADP,
phosphoprotein; HET: NDP PDN; 1.82A {Rattus norvegicus}
SCOP: c.1.7.1 PDB: 2r9r_A* 2a79_A* 3lnm_A* 1exb_A*
3eb4_A* 3eb3_A* 1qrq_A* 1zsx_A*
Length = 327
Score = 26.0 bits (58), Expect = 8.6
Identities = 8/38 (21%), Positives = 12/38 (31%), Gaps = 1/38 (2%)
Query: 91 LGTLMNQ-SHTSLATKYECSHEALDSLVTCFREAGAYG 127
LGT + + A D+ + F A Y
Sbjct: 20 LGTWVTFGGQITDEMAEHLMTLAYDNGINLFDTAEVYA 57
>2pff_A Fatty acid synthase subunit alpha, 3-oxoacyl-[acyl-carrier-PR;
fatty acid synthase, acyl-carrier-protein, beta-ketoacyl
RED beta-ketoacyl synthase, dehydratase; 4.00A
{Saccharomyces cerevisiae}
Length = 1688
Score = 26.4 bits (58), Expect = 8.6
Identities = 19/85 (22%), Positives = 35/85 (41%), Gaps = 8/85 (9%)
Query: 2 LDTVKFSFEVETKLSSV-VVNALDFGSGVKFSFEVETKLSSVVV----NALDFGSGGWWF 56
L+ + E ++ ++ + K + +ET+ + V++ N FG G +
Sbjct: 582 LEHIDSKSEFAHRIMLTNILRMMGCVKKQKSARGIETRPAQVILPMSPNHGTFGGDGMYS 641
Query: 57 ESKSSHEIYLEAYRVE---RFLSVC 78
ESK S E + E L+VC
Sbjct: 642 ESKLSLETLFNRWHSESWANQLTVC 666
>2dq3_A Seryl-tRNA synthetase; coiled-coil, homodimer, structural genomics,
NPPSFA, nationa on protein structural and functional
analyses; HET: SSA; 3.00A {Aquifex aeolicus}
Length = 425
Score = 25.9 bits (58), Expect = 9.7
Identities = 8/10 (80%), Positives = 9/10 (90%), Gaps = 1/10 (10%)
Query: 119 CFR-EAGAYG 127
C+R EAGAYG
Sbjct: 260 CYRREAGAYG 269
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 0.131 0.403
Gapped
Lambda K H
0.267 0.0685 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Sequences: 27921
Number of Hits to DB: 2,833,762
Number of extensions: 147611
Number of successful extensions: 360
Number of sequences better than 10.0: 1
Number of HSP's gapped: 349
Number of HSP's successfully gapped: 52
Length of query: 196
Length of database: 6,701,793
Length adjustment: 89
Effective length of query: 107
Effective length of database: 4,216,824
Effective search space: 451200168
Effective search space used: 451200168
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: 55 (25.1 bits)