RPS-BLAST 2.2.26 [Sep-21-2011]
Database: pdb70
27,921 sequences; 6,701,793 total letters
Searching..................................................done
Query= psy17823
(92 letters)
>1r8s_E ARNO; protein transport/exchange factor, protein transport-exchang
complex; HET: GDP; 1.46A {Homo sapiens} SCOP: a.118.3.1
PDB: 1r8m_E* 1r8q_E* 1s9d_E* 1pbv_A 1bc9_A
Length = 203
Score = 93.2 bits (232), Expect = 1e-25
Identities = 47/64 (73%), Positives = 53/64 (82%), Gaps = 2/64 (3%)
Query: 23 SVLRAFVDLHDFTDLILVQALRQFLWSFRLPGEAQKIDRMMECFAQRYCQLNPNIFTN-- 80
+VL AFVDLH+FTDL LVQALRQFLWSFRLPG+AQKIDRMME FAQRYC NP +F +
Sbjct: 75 AVLHAFVDLHEFTDLNLVQALRQFLWSFRLPGKAQKIDRMMEAFAQRYCLCNPGVFQSTD 134
Query: 81 TAHT 84
T +
Sbjct: 135 TCYV 138
>3ltl_A Brefeldin A-inhibited guanine nucleotide-exchange 1; all alpha,
guanine-nucleotide releasing factor, signaling PR; 2.20A
{Homo sapiens} PDB: 3l8n_A 3swv_A
Length = 211
Score = 93.3 bits (232), Expect = 1e-25
Identities = 34/67 (50%), Positives = 42/67 (62%), Gaps = 2/67 (2%)
Query: 23 SVLRAFVDLHDFTDLILVQALRQFLWSFRLPGEAQKIDRMMECFAQRYCQLNPN--IFTN 80
V+ A+VD HDF+ V ALR FL FRLPGEAQKIDR+ME FA RY + N +F +
Sbjct: 81 EVMYAYVDQHDFSGKDFVSALRMFLEGFRLPGEAQKIDRLMEKFAARYLECNQGQTLFAS 140
Query: 81 TAHTHRL 87
+ L
Sbjct: 141 ADTAYVL 147
>2r09_A Cytohesin-3; autoinhibition, GRP1, PIP3, ARF, 3-phosphoinositide,
pleckst homology domain, guanine-nucleotide releasing
factor, signa protein; HET: 4IP PGE PE5; 1.90A {Mus
musculus} SCOP: a.118.3.1 b.55.1.1 PDB: 2r0d_A*
Length = 347
Score = 95.1 bits (236), Expect = 3e-25
Identities = 46/65 (70%), Positives = 52/65 (80%)
Query: 23 SVLRAFVDLHDFTDLILVQALRQFLWSFRLPGEAQKIDRMMECFAQRYCQLNPNIFTNTA 82
VL+AFV+LH+F DL LVQALRQFLWSFRLPGEAQKIDRMME FA RYC NP +F +T
Sbjct: 77 KVLQAFVELHEFADLNLVQALRQFLWSFRLPGEAQKIDRMMEAFASRYCLCNPGVFQSTD 136
Query: 83 HTHRL 87
+ L
Sbjct: 137 TCYVL 141
>1ku1_A ARF guanine-nucleotide exchange factor 2; SEC7 domain, guanine
nucleotide exchange factor (GEF), ARF small GTP-binding
proteins; 1.93A {Saccharomyces cerevisiae} SCOP:
a.118.3.1 PDB: 1re0_B*
Length = 230
Score = 91.4 bits (227), Expect = 1e-24
Identities = 22/54 (40%), Positives = 36/54 (66%)
Query: 23 SVLRAFVDLHDFTDLILVQALRQFLWSFRLPGEAQKIDRMMECFAQRYCQLNPN 76
S+L ++ L DF+ L + +A+R L FRLPGE+Q+I+R++E F+ YC+
Sbjct: 86 SLLNEYIRLFDFSGLRVDEAIRILLTKFRLPGESQQIERIIEAFSSAYCENQDY 139
>1xsz_A Guanine nucleotide exchange protein; ARF guanine nucleotide
exchange factor, signaling protein; 1.41A {Legionella
pneumophila} SCOP: a.118.3.1 d.129.9.1 PDB: 1xt0_B
Length = 356
Score = 90.9 bits (225), Expect = 1e-23
Identities = 28/65 (43%), Positives = 41/65 (63%)
Query: 23 SVLRAFVDLHDFTDLILVQALRQFLWSFRLPGEAQKIDRMMECFAQRYCQLNPNIFTNTA 82
VL+AF +F V+ LR FL +F+LPGEAQKIDR+++ F+ Y Q NP++ +N
Sbjct: 73 QVLKAFTSQMNFNGQSFVEGLRTFLKTFKLPGEAQKIDRLVQSFSGAYFQQNPDVVSNAD 132
Query: 83 HTHRL 87
+ L
Sbjct: 133 AAYLL 137
>3tr4_A Inorganic pyrophosphatase; central intermediary metabolism,
hydrolase; HET: MSE; 2.00A {Coxiella burnetii}
Length = 178
Score = 29.2 bits (66), Expect = 0.12
Identities = 11/37 (29%), Positives = 18/37 (48%), Gaps = 2/37 (5%)
Query: 12 RDDKTIAVTVPSVLRAFVDLHDFTDL--ILVQALRQF 46
D K +AV V RA+ + D+ +L+ A+ F
Sbjct: 103 EDSKVLAVPVVKACRAYEAIQSLKDISSLLLDAISHF 139
>3gvf_A Inorganic pyrophosphatase; structural genomics, hydrolase, S
structural genomics center for infectious disease,
ssgcid; HET: PGE; 1.75A {Burkholderia pseudomallei
1710B} PDB: 3d63_A* 3eiy_A 3ej0_A* 3ej2_A* 3eiz_A*
Length = 196
Score = 28.9 bits (65), Expect = 0.15
Identities = 9/37 (24%), Positives = 14/37 (37%), Gaps = 2/37 (5%)
Query: 12 RDDKTIAVTVPSVLRAFVDLHDFTDL--ILVQALRQF 46
D K +AV V +L D+ L ++ F
Sbjct: 123 VDAKLVAVPHDKVCPMTANLKSIDDVPAYLKDQIKHF 159
>2bqx_A Inorganic pyrophosphatase; hydrolase; 1.90A {Helicobacter pylori}
PDB: 1ygz_A 2bqy_A
Length = 173
Score = 28.7 bits (65), Expect = 0.16
Identities = 8/37 (21%), Positives = 16/37 (43%), Gaps = 2/37 (5%)
Query: 12 RDDKTIAVTVPSVLRAFVDLHDFTDL--ILVQALRQF 46
D+K IA+ + + + D DL + ++ F
Sbjct: 100 MDEKLIALPIDKIDPTHSYVKDIDDLSKHTLDKIKHF 136
>3fq3_A Inorganic pyrophosphatase:bacterial/archaeal INOR pyrophosphatase;
ssgcid, inorganic phosphatase; 1.90A {Brucella
melitensis biovar abortus 230ORGANISM_TAXID} PDB: 3sw5_A
Length = 197
Score = 28.9 bits (65), Expect = 0.16
Identities = 13/37 (35%), Positives = 23/37 (62%), Gaps = 2/37 (5%)
Query: 12 RDDKTIAVTVPSVLRAFVDLHDFTDL--ILVQALRQF 46
+D+K IAV P + R + +HD+TD+ I ++ + F
Sbjct: 123 KDEKIIAVPSPHLTRRYEKIHDYTDMPEITLKQIAHF 159
>1qez_A Ppase, S-ppase, protein (inorganic pyrophosphatase);
thermostability, magnesium, hydrolase; 2.70A {Sulfolobus
acidocaldarius} SCOP: b.40.5.1
Length = 173
Score = 28.7 bits (65), Expect = 0.17
Identities = 9/37 (24%), Positives = 14/37 (37%), Gaps = 2/37 (5%)
Query: 12 RDDKTIAVTVPSVLRAFVDLHDFTDL--ILVQALRQF 46
D K +AV +F ++ D DL + F
Sbjct: 98 EDAKIVAVPKDKTDPSFSNIKDINDLPQATKNKIVHF 134
>3ld3_A Inorganic pyrophosphatase; structural genomics, seattle structural
genomics center for infectious disease, ssgcid,
hydrolase; 1.75A {Anaplasma phagocytophilum} PDB: 3lo0_A
Length = 199
Score = 28.9 bits (65), Expect = 0.17
Identities = 8/37 (21%), Positives = 19/37 (51%), Gaps = 2/37 (5%)
Query: 12 RDDKTIAVTVPSVLRAFVDLHDFTDL--ILVQALRQF 46
D K +AV V + + ++ +++DL + ++ F
Sbjct: 123 EDAKVLAVPATKVDQYYGNIVNYSDLPSSFLDSISHF 159
>2au7_A Inorganic pyrophosphatase; hydrolase, mutant; 1.05A {Escherichia
coli} PDB: 1i40_A 1i6t_A 1igp_A 1obw_A 2au6_A 2au8_A
2au9_A 2auu_A 1mjy_A 1faj_A 1ino_A 1ipw_A 1jfd_A 2eip_A
1mjz_A 1mjx_A 1mjw_A 3i4q_A*
Length = 175
Score = 28.8 bits (65), Expect = 0.19
Identities = 9/37 (24%), Positives = 16/37 (43%), Gaps = 2/37 (5%)
Query: 12 RDDKTIAVTVPSVLRAFVDLHDFTDL--ILVQALRQF 46
D K +AV + + + + D DL +L + F
Sbjct: 101 EDAKLVAVPHSKLSKEYDHIKDVNDLPELLKAQIAHF 137
>2o0b_A 3-phosphoshikimate 1-carboxyvinyltransferase; shikimate pathway,
EPSP synthase, structural genomics; HET: S3P; 1.15A
{Mycobacterium tuberculosis} PDB: 2o0d_A* 2o0e_A*
2o0x_A* 2o0z_A* 2o15_A 2bjb_A
Length = 450
Score = 28.7 bits (65), Expect = 0.19
Identities = 9/32 (28%), Positives = 13/32 (40%), Gaps = 1/32 (3%)
Query: 12 RDDKTIAVTVPSVLRAF-VDLHDFTDLILVQA 42
D ++ V P+ F VDL +L A
Sbjct: 286 HADSSLEVRGPTGYDGFDVDLRAVGELTPSVA 317
>3d53_A Inorganic pyrophosphatase; seattle structural G center for
infectious disease, ssgcid, hydrolase, magnesium
binding; 2.20A {Rickettsia prowazekii} PDB: 3emj_A*
Length = 173
Score = 27.6 bits (62), Expect = 0.39
Identities = 10/37 (27%), Positives = 17/37 (45%), Gaps = 2/37 (5%)
Query: 12 RDDKTIAVTVPSVLRAFVDLHDFTDL--ILVQALRQF 46
D+K IAV + F + + DL +L + + F
Sbjct: 102 LDEKIIAVPTSKLDITFDHIKELDDLCEMLKKRIVHF 138
>3l8c_A D-alanine--poly(phosphoribitol) ligase subunit 1; structural
genomics, DLTA, ATP-binding, cytoplasm,
nucleotide-binding; 2.41A {Streptococcus pyogenes
serotype M6} PDB: 3lgx_A*
Length = 521
Score = 27.1 bits (61), Expect = 0.67
Identities = 10/41 (24%), Positives = 14/41 (34%), Gaps = 5/41 (12%)
Query: 16 TIAVTVPSVLRAFVDLHDFTDLILVQALRQFLWSFRLPGEA 56
I + PS + DF + AL F + GE
Sbjct: 240 GIWTSTPSFADMAMLSDDFCQAKM-PALTHFYFD----GEE 275
>3e7w_A D-alanine--poly(phosphoribitol) ligase subunit 1; DLTA,
non-ribosomal peptide synthetase, NRPS, adenylation
domain, D-alanylation; HET: AMP; 2.28A {Bacillus
subtilis} PDB: 3e7x_A*
Length = 511
Score = 26.7 bits (60), Expect = 1.2
Identities = 7/41 (17%), Positives = 16/41 (39%), Gaps = 5/41 (12%)
Query: 16 TIAVTVPSVLRAFVDLHDFTDLILVQALRQFLWSFRLPGEA 56
+ + PS ++ + F+ +L F++ GE
Sbjct: 236 NVWTSTPSFVQMCLMDPGFSQDLL-PHADTFMFC----GEV 271
>3fce_A D-alanine--poly(phosphoribitol) ligase subunit 1; DLTA, AMP-forming
domain, adenylation, D-alanine protein ligase, ATP
complex; HET: ATP; 1.90A {Bacillus cereus} PDB: 3fcc_A*
3dhv_A*
Length = 512
Score = 26.3 bits (59), Expect = 1.5
Identities = 8/41 (19%), Positives = 17/41 (41%), Gaps = 5/41 (12%)
Query: 16 TIAVTVPSVLRAFVDLHDFTDLILVQALRQFLWSFRLPGEA 56
+ + PS + F++ +L ++ FL+ GE
Sbjct: 237 QVWTSTPSFAEMCLMEASFSESML-PNMKTFLFC----GEV 272
>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 = 26.0 bits (56), Expect = 2.2
Identities = 14/85 (16%), Positives = 26/85 (30%), Gaps = 28/85 (32%)
Query: 1 MPFAIS-FSLRFRDDKTIAVTVPSVLRAFV------DLHDFT---------DLIL----- 39
M F +++D + AFV D+ D D I+
Sbjct: 7 MDFETGEHQYQYKD------ILSVFEDAFVDNFDCKDVQDMPKSILSKEEIDHIIMSKDA 60
Query: 40 VQALRQFLWSFRLPGEAQKIDRMME 64
V + W+ E + + + +E
Sbjct: 61 VSGTLRLFWTLLSKQE-EMVQKFVE 84
Score = 26.0 bits (56), Expect = 2.3
Identities = 12/75 (16%), Positives = 25/75 (33%), Gaps = 14/75 (18%)
Query: 15 KTIAVTVPSVLRAFVDLHDFTDLILVQALRQFLW-SFRLPGEAQKIDRMMECFAQRYCQL 73
KT V ++ I F W + + ++E + Q+
Sbjct: 163 KT--WVALDVCLSYKVQCKMDFKI-------F-WLNL---KNCNSPETVLEMLQKLLYQI 209
Query: 74 NPNIFTNTAHTHRLK 88
+PN + + H+ +K
Sbjct: 210 DPNWTSRSDHSSNIK 224
>3ite_A SIDN siderophore synthetase; ligase, non-ribosomal peptide
synthesis, NRPS, sidna3, fungal, endophyte; HET: MSE;
2.00A {Neotyphodium lolii}
Length = 562
Score = 24.9 bits (55), Expect = 4.8
Identities = 10/58 (17%), Positives = 14/58 (24%), Gaps = 9/58 (15%)
Query: 16 TIAVTVPSVLRAFVDLHDFTDLILVQALRQFLWSFRLPGEAQKIDRMMECFAQRYCQL 73
T A VPS+L + + L GE + L
Sbjct: 274 THAGIVPSLLDQTGLVPE-----DAPHLVYLGVG----GEKMTPRTQQIWSSSDRVAL 322
>1ckm_A MRNA capping enzyme; nucleotidyltransferase; HET: GTP; 2.50A
{Paramecium bursaria chlorella virus 1} SCOP: b.40.4.6
d.142.2.3 PDB: 1ckn_A* 1cko_A* 1ckn_B*
Length = 330
Score = 24.1 bits (51), Expect = 8.2
Identities = 8/36 (22%), Positives = 14/36 (38%), Gaps = 6/36 (16%)
Query: 9 LRFRDDKTIA---VTVPSVLRAF---VDLHDFTDLI 38
++ R DK A +T L + + + DL
Sbjct: 292 IQGRSDKNQANDRLTYEKTLLNIEENITIDELLDLF 327
>3h5t_A Transcriptional regulator, LACI family; DNA-dependent, protein
structure initiative II(PSI II), NYSGXRC, 11232D),
structural genomics; 2.53A {Corynebacterium glutamicum}
Length = 366
Score = 24.1 bits (53), Expect = 9.3
Identities = 11/37 (29%), Positives = 13/37 (35%), Gaps = 5/37 (13%)
Query: 8 SLRFRDDKTIAVTVPSVLRAFVDLHDFTDLILVQALR 44
SLR R I V + L F D+ V L
Sbjct: 62 SLRTRRAGAIGVLLTEDLTYA-----FEDMASVDFLA 93
>3kyh_C MRNA-capping enzyme subunit alpha; 5' modification, triphosphatase,
guanylyltransferase, complex, hydrolase, mRNA
processing, nucleus; 3.00A {Saccharomyces cerevisiae}
Length = 461
Score = 24.0 bits (50), Expect = 9.6
Identities = 13/33 (39%), Positives = 14/33 (42%), Gaps = 3/33 (9%)
Query: 9 LRFRDDKTIA---VTVPSVLRAFVDLHDFTDLI 38
LRFRDDK V VL + D DL
Sbjct: 368 LRFRDDKLNGNHTSVVQKVLESINDSVSLEDLE 400
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
0.331 0.140 0.441
Gapped
Lambda K H
0.267 0.0733 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Sequences: 27921
Number of Hits to DB: 1,450,762
Number of extensions: 73070
Number of successful extensions: 193
Number of sequences better than 10.0: 1
Number of HSP's gapped: 193
Number of HSP's successfully gapped: 27
Length of query: 92
Length of database: 6,701,793
Length adjustment: 59
Effective length of query: 33
Effective length of database: 5,054,454
Effective search space: 166796982
Effective search space used: 166796982
Neighboring words threshold: 11
Window for multiple hits: 40
X1: 15 ( 7.2 bits)
X2: 38 (14.6 bits)
X3: 64 (24.7 bits)
S1: 40 (22.0 bits)
S2: 51 (23.4 bits)