RPS-BLAST 2.2.26 [Sep-21-2011]
Database: pdb70
27,921 sequences; 6,701,793 total letters
Searching..................................................done
Query= psy7778
(117 letters)
>2yu3_A DNA-directed RNA polymerase III 39 kDa polypeptide F variant;
winged helix domain, RNA polymerase III C39 subunit,
structural genomics, NPPSFA; NMR {Homo sapiens}
Length = 95
Score = 98.7 bits (246), Expect = 1e-28
Identities = 48/76 (63%), Positives = 62/76 (81%)
Query: 9 GGNLLYKVKDPVTNEKLKDSDNEEKVVYKIIEEAGNKGIWMRDIRFKSNLMPTQLNKILK 68
LLY++KD K+K SDN+EK+VY+IIE+AGNKGIW RD+R+KSNL T++NKILK
Sbjct: 16 NTGLLYRIKDSQNAGKMKGSDNQEKLVYQIIEDAGNKGIWSRDVRYKSNLPLTEINKILK 75
Query: 69 QLETKKIIKAVKSVAN 84
LE+KK+IKAVKSV+
Sbjct: 76 NLESKKLIKAVKSVSG 91
>2dk5_A DNA-directed RNA polymerase III 39 kDa polypeptide; structural
genomics, winged helix domain, NPPSFA; NMR {Homo
sapiens} SCOP: a.4.5.85
Length = 91
Score = 92.2 bits (229), Expect = 4e-26
Identities = 45/71 (63%), Positives = 56/71 (78%)
Query: 14 YKVKDPVTNEKLKDSDNEEKVVYKIIEEAGNKGIWMRDIRFKSNLMPTQLNKILKQLETK 73
D K+K SDN+EK+VY+IIE+AGNKGIW RD+R+KSNL T++NKILK LE+K
Sbjct: 4 GSSGDSQNAGKMKGSDNQEKLVYQIIEDAGNKGIWSRDVRYKSNLPLTEINKILKNLESK 63
Query: 74 KIIKAVKSVAN 84
K+IKAVKSVA
Sbjct: 64 KLIKAVKSVAA 74
>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 = 30.4 bits (68), Expect = 0.10
Identities = 13/84 (15%), Positives = 30/84 (35%), Gaps = 32/84 (38%)
Query: 27 DSDNEEKVVYKIIEEAG------NKGIWMRDIRFKSNLMPTQ------------LNKILK 68
+ + VV ++ + G N + N+ Q + +L
Sbjct: 1822 SQEALQYVVERVGKRTGWLVEIVN---------Y--NVENQQYVAAGDLRALDTVTNVLN 1870
Query: 69 QLETKKI--IKAVKSVANIEYLTE 90
++ +KI I+ KS+ ++E +
Sbjct: 1871 FIKLQKIDIIELQKSL-SLEEVEG 1893
>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 = 27.5 bits (60), Expect = 1.2
Identities = 14/102 (13%), Positives = 36/102 (35%), Gaps = 25/102 (24%)
Query: 23 EKLKDSDNEEKVVYKIIEEAGNKGIWMRDIRF-KSNL----MPTQLNKILKQLETKKIIK 77
+K + ++ ++ E ++ ++ + F K N+ +L + L +L K +
Sbjct: 96 SPIKTEQRQPSMMTRMYIEQRDR-LYNDNQVFAKYNVSRLQPYLKLRQALLELRPAKNV- 153
Query: 78 AV-------KSVANIEYLTEGTVNAMVLPSRKKREERQDRGV 112
+ K+ + V S K + + D +
Sbjct: 154 LIDGVLGSGKTW-----VA-----LDVCLS-YKVQCKMDFKI 184
Score = 26.0 bits (56), Expect = 3.9
Identities = 13/64 (20%), Positives = 25/64 (39%), Gaps = 6/64 (9%)
Query: 27 DSD-NEEKVVYK-IIEEAGNKGIWMRDIRFKSNLMPTQLNKILKQLETKKIIKAVKSVAN 84
D + E + YK I+ + ++ + K + IL + E II + +V+
Sbjct: 8 DFETGEHQYQYKDILSV--FEDAFVDNFDCKD--VQDMPKSILSKEEIDHIIMSKDAVSG 63
Query: 85 IEYL 88
L
Sbjct: 64 TLRL 67
Score = 25.2 bits (54), Expect = 7.0
Identities = 6/65 (9%), Positives = 22/65 (33%), Gaps = 14/65 (21%)
Query: 57 NLMPTQLNKILKQLETKKIIKAVKSVANIEYLTEGTVNAMV-LPSRKKR--------EER 107
+++ + + + K + KS+ L++ ++ ++ +
Sbjct: 20 DILSVFEDAFVDNFDCKDVQDMPKSI-----LSKEEIDHIIMSKDAVSGTLRLFWTLLSK 74
Query: 108 QDRGV 112
Q+ V
Sbjct: 75 QEEMV 79
>1t10_A GPI, glucose-6-phosphate isomerase, PGI, phosphohexose;
phosphoglucose isomerase, substrate,
D-fructose-6-phosphate; HET: F6P; 2.35A {Leishmania
mexicana mexicana} SCOP: c.80.1.2
Length = 605
Score = 26.9 bits (60), Expect = 1.8
Identities = 16/48 (33%), Positives = 22/48 (45%), Gaps = 6/48 (12%)
Query: 50 RDIRFKSNLMPTQLNKILKQL--ETKKIIKAVKSVANIEYLTEGTVNA 95
F SN+ T + ++LKQ+ E I A K+ E LT NA
Sbjct: 226 LHCFFVSNVDGTHMAEVLKQVNLEETIFIIASKTFTTQETLT----NA 269
>2pjp_A Selenocysteine-specific elongation factor; SELB, protein-RNA
complex, elongation factor, winged- helix, bulge,
translation/RNA complex; 2.30A {Escherichia coli}
Length = 121
Score = 26.3 bits (58), Expect = 1.8
Identities = 14/83 (16%), Positives = 29/83 (34%), Gaps = 5/83 (6%)
Query: 28 SDNEEKVVYKIIEEAGNKGIWMRDIRFKSNLMPTQLNKILKQL-ETKKIIKAVKSVANIE 86
S+ ++ + K G++ W+RD+ ++ + L+Q + I VK
Sbjct: 2 SEEQQAIWQKAEPLFGDEPWWVRDLAKETGTDEQAMRLTLRQAAQQGIITAIVKDR---- 57
Query: 87 YLTEGTVNAMVLPSRKKREERQD 109
Y + R +E
Sbjct: 58 YYRNDRIVEFANMIRDLDQECGS 80
>2e1n_A PEX, period extender; circadian clock, DNA binding protein,
circadian clock protei; 1.80A {Synechococcus elongatus
pcc 7942}
Length = 138
Score = 26.3 bits (58), Expect = 1.9
Identities = 11/57 (19%), Positives = 24/57 (42%), Gaps = 12/57 (21%)
Query: 49 MRDI-RFKSNLMPTQLNK------ILKQLETK-----KIIKAVKSVANIEYLTEGTV 93
DI RF + P L+K +L L + ++I+ +++ L++ +
Sbjct: 15 FEDIYRFFQDPPPHYLSKELAVCYVLAVLRHEDSYGTELIQHLETHWPNYRLSDTVL 71
>3dod_A Adenosylmethionine-8-amino-7-oxononanoate aminotr;
aminotransferase, biotin biosynthesis, pyridoxal
phosphate, adenosyl-L-methionine; HET: PLP; 1.90A
{Bacillus subtilis} PDB: 3drd_A 3du4_A*
Length = 448
Score = 26.4 bits (59), Expect = 2.2
Identities = 12/77 (15%), Positives = 30/77 (38%), Gaps = 14/77 (18%)
Query: 16 VKDPVTNEKLKDSDNEEKVVYKIIEEAGNKGIWMRDIRFKSNLMP------TQLNKILKQ 69
V+ T E + ++ YK+ + G+ R + +P +L+++
Sbjct: 379 VRSKETKEPY---PADRRIGYKVSLKMRELGMLTRPLGDVIAFLPPLASTAEELSEM--- 432
Query: 70 LETKKIIKAVKSVANIE 86
+ +A+ V ++E
Sbjct: 433 --VAIMKQAIHEVTSLE 447
>2wu8_A Glucose-6-phosphate isomerase; gluconeogenesis,
5-phosphoarabinonate (PAB), PGI, cytoplasm, glycolysis;
2.25A {Mycobacterium tuberculosis}
Length = 549
Score = 25.7 bits (57), Expect = 4.0
Identities = 17/48 (35%), Positives = 21/48 (43%), Gaps = 6/48 (12%)
Query: 50 RDIRFKSNLMPTQLNKILKQL--ETKKIIKAVKSVANIEYLTEGTVNA 95
RF SN+ P L L L T I A K+ + +E LT NA
Sbjct: 173 ISARFVSNVDPADLIATLADLDPATTLFIVASKTFSTLETLT----NA 216
>2cxn_A Glucose-6-phosphate isomerase; 1.40A {Mus musculus} PDB: 2cvp_A
2cxo_A* 2cxp_A* 2cxq_A* 2cxr_A* 2cxs_A* 2cxt_A* 2cxu_A
1u0e_A 1u0f_A* 1u0g_A* 1jiq_A 1iri_A 1nuh_A* 1jlh_A
1iat_A 1hm5_A 1g98_A 1hox_A* 1xtb_A* ...
Length = 557
Score = 25.7 bits (57), Expect = 4.5
Identities = 16/48 (33%), Positives = 21/48 (43%), Gaps = 6/48 (12%)
Query: 50 RDIRFKSNLMPTQLNKILKQL--ETKKIIKAVKSVANIEYLTEGTVNA 95
+ F SN+ T + K L L ET I A K+ E +T NA
Sbjct: 179 PRVWFVSNIDGTHIAKTLASLSPETSLFIIASKTFTTQETIT----NA 222
>2iz1_A 6-phosphogluconate dehydrogenase, decarboxylating; pentose shunt,
oxidoreductase, gluconate utilization; HET: ATR RES P33;
2.30A {Lactococcus lactis} PDB: 2iz0_A* 2iyp_A* 2iyo_A*
Length = 474
Score = 25.6 bits (57), Expect = 4.7
Identities = 12/23 (52%), Positives = 17/23 (73%)
Query: 24 KLKDSDNEEKVVYKIIEEAGNKG 46
K KD + E +V KI+++AGNKG
Sbjct: 243 KRKDDEGEGYIVDKILDKAGNKG 265
>3ljk_A Glucose-6-phosphate isomerase; structural genomics, IDP02733,
cytoplasm, gluconeogenesis, glycolysis; HET: MSE MES;
1.48A {Francisella tularensis} PDB: 3m5p_A* 3q7i_A*
3q88_A*
Length = 543
Score = 25.3 bits (56), Expect = 5.3
Identities = 14/48 (29%), Positives = 21/48 (43%), Gaps = 6/48 (12%)
Query: 50 RDIRFKSNLMPTQLNKILKQL--ETKKIIKAVKSVANIEYLTEGTVNA 95
+ F SN+ L + L + ET +I A KS + E L N+
Sbjct: 170 LKVHFVSNVDADSLLQALHVVDPETTLLIIASKSFSTEETLL----NS 213
>3k9t_A Putative peptidase; structural genomics, joint center for ST
genomics, JCSG, protein structure initiative, PSI-2,
aminop hydrolase; 2.37A {Clostridium acetobutylicum}
Length = 435
Score = 25.4 bits (54), Expect = 6.7
Identities = 7/29 (24%), Positives = 14/29 (48%)
Query: 51 DIRFKSNLMPTQLNKILKQLETKKIIKAV 79
DI +KS + ++ L +++K V
Sbjct: 407 DIAYKSGMEFRRIKYAADALYRVELLKLV 435
>3ujh_A Glucose-6-phosphate isomerase; ssgcid, structural genomics, seattle
structural genomics CEN infectious disease; HET: G6Q;
2.10A {Toxoplasma gondii}
Length = 567
Score = 24.9 bits (55), Expect = 7.1
Identities = 10/48 (20%), Positives = 18/48 (37%), Gaps = 6/48 (12%)
Query: 50 RDIRFKSNLMPTQLNKILKQL--ETKKIIKAVKSVANIEYLTEGTVNA 95
R I F +N+ P + + E ++ K+ E + NA
Sbjct: 186 RQIHFLANVDPVDVWLAERGFDPEETLVVVISKTFTTAETMM----NA 229
>2o2c_A GPI, glucose-6-phosphate isomerase, glycosomal, PGI, phosphohexose;
dimer; HET: G6Q; 1.58A {Trypanosoma brucei brucei} PDB:
2o2d_A* 1q50_A
Length = 613
Score = 25.0 bits (55), Expect = 7.5
Identities = 14/48 (29%), Positives = 22/48 (45%), Gaps = 6/48 (12%)
Query: 50 RDIRFKSNLMPTQLNKILKQL--ETKKIIKAVKSVANIEYLTEGTVNA 95
+ F SN+ T + ++LK + E I A K+ E +T NA
Sbjct: 227 LSLHFVSNVDGTHIAEVLKSIDIEATLFIVASKTFTTQETIT----NA 270
>4em6_D Glucose-6-phosphate isomerase; GPI, phosphoglucose isomerase
phosphohexose isomerase, PHI, ssgcid; 1.90A {Brucella
melitensis BV}
Length = 553
Score = 24.9 bits (55), Expect = 8.2
Identities = 14/48 (29%), Positives = 19/48 (39%), Gaps = 6/48 (12%)
Query: 50 RDIRFKSNLMPTQLNKILKQL--ETKKIIKAVKSVANIEYLTEGTVNA 95
F SN+ + L L + II A K+ IE +T NA
Sbjct: 179 PRAHFVSNIDGAHIADTLSPLDPASTLIIVASKTFTTIETMT----NA 222
>3qki_A Glucose-6-phosphate isomerase; structural genomics, structural
genomics consortium, SGC; 1.92A {Plasmodium falciparum}
PDB: 3pr3_A
Length = 597
Score = 25.0 bits (55), Expect = 8.2
Identities = 11/47 (23%), Positives = 22/47 (46%), Gaps = 6/47 (12%)
Query: 51 DIRFKSNLMPTQLNKILKQL--ETKKIIKAVKSVANIEYLTEGTVNA 95
++RF +N+ P +N+ ++ L +I K+ E + NA
Sbjct: 219 NVRFLANVDPNDVNRAIQNLDQYDTLVIIISKTFTTAETML----NA 261
>3b0b_C CENP-X, centromere protein X; histone fold, DNA binding, DNA,
nucleus, DNA binding protein; 2.15A {Gallus gallus}
PDB: 3vh5_D 3vh6_D
Length = 81
Score = 24.1 bits (52), Expect = 8.6
Identities = 6/54 (11%), Positives = 21/54 (38%), Gaps = 4/54 (7%)
Query: 21 TNEKLKDSDNEEKVVYKIIE----EAGNKGIWMRDIRFKSNLMPTQLNKILKQL 70
+ + + + + ++ ++++ EA + + + K+L QL
Sbjct: 23 RDGRTRVNGDALLLMAELLKVFVREAAARAARQAQAEDLEKVDIEHVEKVLPQL 76
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
0.316 0.135 0.367
Gapped
Lambda K H
0.267 0.0756 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Sequences: 27921
Number of Hits to DB: 1,666,934
Number of extensions: 90128
Number of successful extensions: 310
Number of sequences better than 10.0: 1
Number of HSP's gapped: 310
Number of HSP's successfully gapped: 42
Length of query: 117
Length of database: 6,701,793
Length adjustment: 80
Effective length of query: 37
Effective length of database: 4,468,113
Effective search space: 165320181
Effective search space used: 165320181
Neighboring words threshold: 11
Window for multiple hits: 40
X1: 16 ( 7.3 bits)
X2: 38 (14.6 bits)
X3: 64 (24.7 bits)
S1: 41 (21.6 bits)
S2: 51 (23.4 bits)