RPS-BLAST 2.2.26 [Sep-21-2011]
Database: pdb70
27,921 sequences; 6,701,793 total letters
Searching..................................................done
Query= psy14701
(136 letters)
>2fvt_A Conserved hypothetical protein; MTH938-like fold, structural
genomics, PSI, protein structure initiative; NMR
{Rhodopseudomonas palustris} SCOP: c.103.1.1
Length = 135
Score = 89.6 bits (222), Expect = 4e-24
Identities = 27/115 (23%), Positives = 43/115 (37%), Gaps = 5/115 (4%)
Query: 2 GFRLSNNSVVVGPLAVFNKCVFSWNILDDSDINMESLSLFLHLEPKLDVLIIGLGD-FKF 60
GF G L V+ W++ I+ SL +D LI+G G
Sbjct: 23 GFYF-AGMSHQGSLLFLPDAVWGWDVTKPEQIDRYSLQRVFDNANAIDTLIVGTGADVWI 81
Query: 61 NHTKLIPVINEVRKHCNVEVLPTERAIATFNFMVSEGRVAGAALVP-PVRISFTE 114
+L + + ++ + T AI T+N M+ E R AAL+ P+
Sbjct: 82 APRQLREALRG--VNVVLDTMQTGPAIRTYNIMIGERRRVAAALIAVPLEHHHHH 134
>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 = 83.0 bits (205), Expect = 9e-22
Identities = 24/107 (22%), Positives = 45/107 (42%), Gaps = 5/107 (4%)
Query: 2 GFRLSNNSVVVGPLAVFNKCVFSWNILDDSDINMESLSLFLHLEPKLDVLIIGLGD-FKF 60
GFR + G + ++ ++ E +S L +++VL+IG G
Sbjct: 25 GFRF-ADMSHRGSIICIPSGIYGIDM-TGPVPTQEDISRVLEESDQIEVLLIGTGVELLR 82
Query: 61 NHTKLIPVINEVRKHCNVEVLPTERAIATFNFMVSEGRVAGAALVPP 107
+L ++ E K + + + T A+ TFN +++E R A L
Sbjct: 83 LPEELRVLLWE--KRISSDTMSTGAAVRTFNVLLAEDRAVAALLFAV 127
>2gm2_A Conserved hypothetical protein; MTH938-like fold, structural
genomics, PSI, protein structure initiative; NMR
{Xanthomonas campestris PV}
Length = 132
Score = 80.2 bits (198), Expect = 1e-20
Identities = 20/108 (18%), Positives = 44/108 (40%), Gaps = 7/108 (6%)
Query: 2 GFRLSNNSVVVGPLAVF-NKCVFSWNILDDSDINMESLSLFLHLEPKLDVLIIGLGD-FK 59
++ N ++ + ++ V W + + + L L P V+++G G+ +
Sbjct: 21 HAKV-NEQILQQSFILMPDELVEHWPVPSLGQLQPAHMDAVLALNP--AVILLGTGERQQ 77
Query: 60 FNHTKLIPVINEVRKHCNVEVLPTERAIATFNFMVSEGRVAGAALVPP 107
F T ++ + +E + A T+N + SEGR A++
Sbjct: 78 FPSTDVLAACLT--RGIGLEAMTNAAAARTYNVLASEGRRVALAMIVG 123
>3cpk_A Uncharacterized protein Q7W7N7_borpa; BPP2477, BER31, NESG,
structural genomics, PSI-2, protein structure
initiative; 2.50A {Bordetella parapertussis 12822} PDB:
2k2e_A
Length = 150
Score = 69.8 bits (170), Expect = 3e-16
Identities = 25/130 (19%), Positives = 42/130 (32%), Gaps = 27/130 (20%)
Query: 2 GFRLSNNSVVVGPLAVF-NKCVFSWNILDDSDINMESLSLFLHLEP-------------- 46
+ N +A V SW + +DI L L
Sbjct: 21 YIEV-NQVRFSHAIAFAPEGPVASWPVQRPADITASLLQQAAGLAEVVRDPLAFLDEPEA 79
Query: 47 --------KLDVLIIGLGD-FKFNHTKLIPVINEVRKHCNVEVLPTERAIATFNFMVSEG 97
+VL++G G + + + VE + T+ A T+N +++EG
Sbjct: 80 GAGARPANAPEVLLVGTGRRQHLLGPEQVRPLLA--MGVGVEAMDTQAAARTYNILMAEG 137
Query: 98 RVAGAALVPP 107
R AL+P
Sbjct: 138 RRVVVALLPD 147
>2ab1_A Hypothetical protein; HS.95870, DUF498, structural genomics,
protein structure INI PSI, center for eukaryotic
structural genomics, CESG; 2.59A {Homo sapiens} SCOP:
c.103.1.1 PDB: 2q4q_A
Length = 122
Score = 64.2 bits (156), Expect = 2e-14
Identities = 17/108 (15%), Positives = 43/108 (39%), Gaps = 7/108 (6%)
Query: 2 GFRLSNNSVVVGPLAVFNKCVFSWNILD---DSDINMESLSLFLHLEPKLDVLIIGLGDF 58
++ ++ V+ +W+ + + ++ + +E + L+IG G
Sbjct: 13 QMKVKGSNTTYKDCKVWPGGSRTWDWRETGTEHSPGVQPADVKEVVEKGVQTLVIGRGMS 72
Query: 59 KFNHT--KLIPVINEVRKHCNVEVLPTERAIATFNFMVSEGRVAGAAL 104
+ + + + +V VL TE+A+ +N +V++G G
Sbjct: 73 EALKVPSSTVEYLKK--HGIDVRVLQTEQAVKEYNALVAQGVRVGGVF 118
>2cyj_A Hypothetical protein PH1505; conserved hypothetical protein,
structural genomics, NPPSFA; HET: OCS; 1.50A {Pyrococcus
horikoshii} SCOP: c.103.1.1
Length = 118
Score = 42.3 bits (99), Expect = 3e-06
Identities = 13/59 (22%), Positives = 25/59 (42%), Gaps = 2/59 (3%)
Query: 44 LEPKLDVLIIGLGDFKFNHTKLIPVINEVRKHCNVEVLPTERAIATFNFMVSEGRVAGA 102
L DVL++G G + L+P ++ + V PT+ A+ + + R+
Sbjct: 57 LVEDFDVLLVGTGIYGM--LSLLPESKKLVEDKEVIEKPTKEALKLLEELWGKKRILAI 113
>1ihn_A Hypothetical protein MTH938; methanobacterium thermoautotrophicum,
unknown function; 2.20A
{Methanothermobacterthermautotrophicus} SCOP: c.103.1.1
Length = 113
Score = 42.3 bits (99), Expect = 4e-06
Identities = 21/61 (34%), Positives = 26/61 (42%), Gaps = 9/61 (14%)
Query: 44 LEPKLDVLIIGLGDFKFNHTKLIPVINEVRKHCNVEVLPTERAIATFNFMVSEGRVAGAA 103
LE K + +IIG G H L E + VLPT AI +N S GR A
Sbjct: 58 LEEKPESIIIGSG----VHGAL-----ETGFRSDATVLPTCEAIKRYNEERSAGRRVAAI 108
Query: 104 L 104
+
Sbjct: 109 I 109
>1ez0_A ALDH, aldehyde dehydrogenase; nucleotide binding domain, NADP+,
oxidoreductase; HET: NAP; 2.10A {Vibrio harveyi} SCOP:
c.82.1.1 PDB: 1eyy_A*
Length = 510
Score = 28.8 bits (65), Expect = 0.48
Identities = 9/28 (32%), Positives = 13/28 (46%), Gaps = 3/28 (10%)
Query: 89 TFNFMVSEGRVAGAALV--PPVR-ISFT 113
F + R G ALV P ++ + FT
Sbjct: 201 IFTLLQGNQRALGQALVSHPEIKAVGFT 228
>2pt6_A Spermidine synthase; transferase, structural genomics consor
SGC,dcadoMet complex; HET: S4M 1PG; 2.00A {Plasmodium
falciparum} PDB: 2pss_A* 2pt9_A*
Length = 321
Score = 28.1 bits (63), Expect = 0.83
Identities = 13/40 (32%), Positives = 22/40 (55%), Gaps = 9/40 (22%)
Query: 40 LFLHLEPKLDVLIIGLGDFKFNHTKLIPVINEVRKHCNVE 79
+ + EPK +VL++G GD +I E+ K+ +VE
Sbjct: 111 MTVSKEPK-NVLVVGGGDGG--------IIRELCKYKSVE 141
>2b2c_A Spermidine synthase; beta-alpha, transferase; 2.50A {Caenorhabditis
elegans} SCOP: c.66.1.17
Length = 314
Score = 28.1 bits (63), Expect = 0.83
Identities = 17/40 (42%), Positives = 22/40 (55%), Gaps = 9/40 (22%)
Query: 40 LFLHLEPKLDVLIIGLGDFKFNHTKLIPVINEVRKHCNVE 79
+F H +PK VLIIG GD ++ EV KH +VE
Sbjct: 103 MFAHPDPK-RVLIIGGGDGG--------ILREVLKHESVE 133
>1xj5_A Spermidine synthase 1; structural genomics, protein structure
initiative, CESG, AT1G23820, putrescine aminopropyl
transferase, SPDS1; 2.70A {Arabidopsis thaliana} SCOP:
c.66.1.17 PDB: 2q41_A
Length = 334
Score = 28.1 bits (63), Expect = 0.90
Identities = 14/40 (35%), Positives = 19/40 (47%), Gaps = 9/40 (22%)
Query: 40 LFLHLEPKLDVLIIGLGDFKFNHTKLIPVINEVRKHCNVE 79
L PK VL+IG GD V+ EV +H ++E
Sbjct: 115 LCSIPNPK-KVLVIGGGDGG--------VLREVARHASIE 145
>2i7c_A Spermidine synthase; transferase, structural genomics consor; HET:
AAT 1PG; 1.71A {Plasmodium falciparum} PDB: 2hte_A*
3b7p_A* 3rie_A* 2pwp_A*
Length = 283
Score = 28.0 bits (63), Expect = 0.91
Identities = 13/40 (32%), Positives = 22/40 (55%), Gaps = 9/40 (22%)
Query: 40 LFLHLEPKLDVLIIGLGDFKFNHTKLIPVINEVRKHCNVE 79
+ + EPK +VL++G GD +I E+ K+ +VE
Sbjct: 73 MTVSKEPK-NVLVVGGGDGG--------IIRELCKYKSVE 103
>1uir_A Polyamine aminopropyltransferase; spermidien synthase, spermine
synthase, riken STR genomics/proteomics initiative,
RSGI; 2.00A {Thermus thermophilus} SCOP: c.66.1.17 PDB:
3anx_A*
Length = 314
Score = 28.1 bits (63), Expect = 0.93
Identities = 15/40 (37%), Positives = 19/40 (47%), Gaps = 9/40 (22%)
Query: 40 LFLHLEPKLDVLIIGLGDFKFNHTKLIPVINEVRKHCNVE 79
+ H EPK VLI+G G+ + EV KH VE
Sbjct: 72 MLTHPEPK-RVLIVGGGEGA--------TLREVLKHPTVE 102
>1uzb_A 1-pyrroline-5-carboxylate dehydrogenase; oxidoreductase, riken
structural genomics/proteomics initiative, RSGI,
structural genomics; 1.4A {Thermus thermophilus} SCOP:
c.82.1.1 PDB: 2eiw_A 2bhq_A* 2bhp_A* 2bja_A* 2bjk_A*
2ehq_A* 2ehu_A* 2eii_A* 2eit_A* 2ej6_A 2ejd_A* 2ejl_A
2iy6_A* 2j40_A* 2j5n_A*
Length = 516
Score = 27.9 bits (63), Expect = 1.00
Identities = 12/27 (44%), Positives = 15/27 (55%), Gaps = 3/27 (11%)
Query: 90 FNFMVSEGRVAGAALV--PPVR-ISFT 113
NF+ G GA LV P +R I+FT
Sbjct: 233 VNFLPGVGEEVGAYLVEHPRIRFINFT 259
>3bwc_A Spermidine synthase; SAM, SGPP, structura genomics, PSI, protein
structure initiative, structural GEN pathogenic protozoa
consortium; HET: MSE SAM; 2.30A {Trypanosoma cruzi} PDB:
3bwb_A*
Length = 304
Score = 27.7 bits (62), Expect = 1.1
Identities = 17/42 (40%), Positives = 21/42 (50%), Gaps = 9/42 (21%)
Query: 38 LSLFLHLEPKLDVLIIGLGDFKFNHTKLIPVINEVRKHCNVE 79
SL H +P+ VLIIG GD V+ EV +H VE
Sbjct: 88 TSLCSHPKPE-RVLIIGGGDGG--------VLREVLRHGTVE 120
>3b4w_A Aldehyde dehydrogenase; RV0223C-NAD complex, structural genomics,
PSI-2, protein STR initiative; HET: NAD GOL; 1.80A
{Mycobacterium tuberculosis}
Length = 495
Score = 27.9 bits (63), Expect = 1.2
Identities = 8/27 (29%), Positives = 12/27 (44%), Gaps = 4/27 (14%)
Query: 90 FNFMVSEGRVAGAALV--PPVR-ISFT 113
+ +V G G AL P + +FT
Sbjct: 206 LS-VVPGGIETGQALTSNPDIDMFTFT 231
>3v4c_A Aldehyde dehydrogenase (NADP+); structural genomics, PSI-biology,
nysgrc, NEW YORK structura genomics research consortium;
HET: PE4; 1.91A {Sinorhizobium meliloti}
Length = 528
Score = 27.7 bits (62), Expect = 1.3
Identities = 9/28 (32%), Positives = 14/28 (50%), Gaps = 3/28 (10%)
Query: 89 TFNFMVSEGRVAGAALV--PPVR-ISFT 113
F+ + R G ALV P ++ + FT
Sbjct: 234 VFSLIQGGSRDVGHALVQHPHIKAVGFT 261
>2o07_A Spermidine synthase; structural genomics, structural genomics
consortium, SGC, transferase; HET: SPD MTA; 1.89A {Homo
sapiens} SCOP: c.66.1.17 PDB: 2o06_A* 2o05_A* 2o0l_A*
3rw9_A*
Length = 304
Score = 27.7 bits (62), Expect = 1.3
Identities = 17/40 (42%), Positives = 20/40 (50%), Gaps = 9/40 (22%)
Query: 40 LFLHLEPKLDVLIIGLGDFKFNHTKLIPVINEVRKHCNVE 79
L H P+ VLIIG GD V+ EV KH +VE
Sbjct: 90 LCSHPNPR-KVLIIGGGDGG--------VLREVVKHPSVE 120
>1inl_A Spermidine synthase; beta-barrel, rossman fold, structural
genomics, PSI, protein structure initiative; 1.50A
{Thermotoga maritima} SCOP: c.66.1.17 PDB: 1jq3_A*
Length = 296
Score = 27.2 bits (61), Expect = 1.5
Identities = 18/40 (45%), Positives = 21/40 (52%), Gaps = 9/40 (22%)
Query: 40 LFLHLEPKLDVLIIGLGDFKFNHTKLIPVINEVRKHCNVE 79
+FLH PK VLIIG GD + EV KH +VE
Sbjct: 85 MFLHPNPK-KVLIIGGGDGG--------TLREVLKHDSVE 115
>1iy9_A Spermidine synthase; rossmann fold, structural genomics, PSI,
protein structure initiative, northeast structural
genomics consortium, NESG; 2.30A {Bacillus subtilis}
SCOP: c.66.1.17
Length = 275
Score = 27.2 bits (61), Expect = 1.5
Identities = 15/40 (37%), Positives = 21/40 (52%), Gaps = 9/40 (22%)
Query: 40 LFLHLEPKLDVLIIGLGDFKFNHTKLIPVINEVRKHCNVE 79
LF H P+ VL++G GD VI E+ KH +V+
Sbjct: 70 LFTHPNPE-HVLVVGGGDGG--------VIREILKHPSVK 100
>3adn_A Spermidine synthase; aminopropyltransferase, polyamine synthase,
rossmann fold, polyamine biosynthesis, spermidine
biosynthesis, transferase; 2.90A {Escherichia coli} PDB:
3o4f_A
Length = 294
Score = 27.2 bits (61), Expect = 1.8
Identities = 16/40 (40%), Positives = 19/40 (47%), Gaps = 9/40 (22%)
Query: 40 LFLHLEPKLDVLIIGLGDFKFNHTKLIPVINEVRKHCNVE 79
L H K VLIIG GD ++ EV +H NVE
Sbjct: 78 LLAHGHAK-HVLIIGGGDGA--------MLREVTRHKNVE 108
>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 = 27.1 bits (59), Expect = 2.6
Identities = 16/97 (16%), Positives = 33/97 (34%), Gaps = 37/97 (38%)
Query: 15 LAVFNK---------CVFSWNILDDSDINM-------ESL-------------SLFLHLE 45
L+VF + W + SD+ + SL S++L L+
Sbjct: 378 LSVFPPSAHIPTILLSLI-WFDVIKSDVMVVVNKLHKYSLVEKQPKESTISIPSIYLELK 436
Query: 46 PKLDVLIIGLGDFKFNHTKLIPVINEVRKHCNVEVLP 82
KL+ + H ++ N + + +++P
Sbjct: 437 VKLE-------NEYALHRSIVDHYNIPKTFDSDDLIP 466
>3qan_A 1-pyrroline-5-carboxylate dehydrogenase 1; proline oxidation, redox
control, apoptosis, NAD binding, oxidoreductase,
PSI-biology; 1.95A {Bacillus halodurans} PDB: 3rjl_A
Length = 538
Score = 26.8 bits (60), Expect = 2.6
Identities = 9/27 (33%), Positives = 12/27 (44%), Gaps = 3/27 (11%)
Query: 90 FNFMVSEGRVAGAALV--PPVR-ISFT 113
N++ G G LV P I+FT
Sbjct: 232 INYVPGSGAEVGDYLVDHPKTSLITFT 258
>4f9i_A Proline dehydrogenase/delta-1-pyrroline-5-carboxy dehydrogenase;
proline utilization A, PUTA, flavoenzyme, structural
genomic biology; HET: FAD MES; 2.20A {Geobacter
sulfurreducens}
Length = 1026
Score = 26.5 bits (59), Expect = 3.2
Identities = 12/27 (44%), Positives = 14/27 (51%), Gaps = 3/27 (11%)
Query: 90 FNFMVSEGRVAGAALV--PPVR-ISFT 113
FNF G V G LV P + I+FT
Sbjct: 726 FNFTPGRGSVMGDYLVDHPDISLIAFT 752
>3i44_A Aldehyde dehydrogenase; oxidoreductase, structural genomics,
seattle structural genomics center for infectious
disease, ssgcid; 2.00A {Bartonella henselae}
Length = 497
Score = 26.4 bits (59), Expect = 3.7
Identities = 10/27 (37%), Positives = 14/27 (51%), Gaps = 3/27 (11%)
Query: 90 FNFMVSEGRVAGAALV--PPVR-ISFT 113
FN + +G G+ L P + ISFT
Sbjct: 221 FNLINGDGANVGSYLSAHPDLEMISFT 247
>3ty7_A Putative aldehyde dehydrogenase SAV2122; structural genomics,
PSI-biology, midwest center for structu genomics, MCSG;
HET: MSE; 2.40A {Staphylococcus aureus}
Length = 478
Score = 25.9 bits (58), Expect = 4.7
Identities = 11/27 (40%), Positives = 14/27 (51%), Gaps = 3/27 (11%)
Query: 90 FNFMVSEGRVAGAALV--PPVR-ISFT 113
FN + +G G L P VR +SFT
Sbjct: 199 FNLVNGDGAGVGNPLSEHPKVRMMSFT 225
>3uid_A Putative uncharacterized protein; SRPBCC superfamily, beta
sandwich, function, structural genomics, TB structural
genomics conso TBSGC; 1.57A {Mycobacterium smegmatis}
Length = 168
Score = 25.3 bits (55), Expect = 6.4
Identities = 7/41 (17%), Positives = 9/41 (21%)
Query: 76 CNVEVLPTERAIATFNFMVSEGRVAGAALVPPVRISFTEED 116
V F + V +FTE D
Sbjct: 79 EITAVDEPHSFSFLDGFADEDFNPNTDLPVSTNVYTFTEHD 119
>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 = 25.8 bits (56), Expect = 7.1
Identities = 20/129 (15%), Positives = 36/129 (27%), Gaps = 55/129 (42%)
Query: 17 VFNKCVFSWNILDDSDINMES-----LSLFLHLEPKLDVLIIGLGDFKFNHTKLIPVINE 71
+ +IL+DS N E LS I L ++ +N+
Sbjct: 313 AYPNTSLPPSILEDSLENNEGVPSPMLS------------ISNL-----TQEQVQDYVNK 355
Query: 72 VRKHCNVEVLPTERAIATFNFMVSEGRVAGAALV----------PP-----VRISFTEED 116
H LP + + +LV PP + ++ +
Sbjct: 356 TNSH-----LPAGKQV-------------EISLVNGAKNLVVSGPPQSLYGLNLTLRKAK 397
Query: 117 IQATKHQNR 125
+ Q+R
Sbjct: 398 APSGLDQSR 406
>1ej2_A Nicotinamide mononucleotide adenylyltransferase; dinucleotide
binding fold, structural genomics, PSI; HET: NAD; 1.90A
{Methanothermobacter thermautotrophicusorganism_taxid}
SCOP: c.26.1.3 PDB: 1m8g_A* 1hyb_A* 1m8j_A* 1m8f_A*
1m8k_A*
Length = 181
Score = 25.0 bits (54), Expect = 9.7
Identities = 11/57 (19%), Positives = 24/57 (42%)
Query: 38 LSLFLHLEPKLDVLIIGLGDFKFNHTKLIPVINEVRKHCNVEVLPTERAIATFNFMV 94
L + + ++D LII +G + +H+ P R + L A+ +++
Sbjct: 20 LQVIKSILEEVDELIICIGSAQLSHSIRDPFTAGERVMMLTKALSENGIPASRYYII 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
0.324 0.141 0.415
Gapped
Lambda K H
0.267 0.0717 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Sequences: 27921
Number of Hits to DB: 2,054,063
Number of extensions: 114189
Number of successful extensions: 316
Number of sequences better than 10.0: 1
Number of HSP's gapped: 308
Number of HSP's successfully gapped: 38
Length of query: 136
Length of database: 6,701,793
Length adjustment: 84
Effective length of query: 52
Effective length of database: 4,356,429
Effective search space: 226534308
Effective search space used: 226534308
Neighboring words threshold: 11
Window for multiple hits: 40
X1: 15 ( 7.0 bits)
X2: 38 (14.6 bits)
X3: 64 (24.7 bits)
S1: 41 (22.0 bits)
S2: 52 (23.8 bits)