RPS-BLAST 2.2.26 [Sep-21-2011]
Database: pdb70
27,921 sequences; 6,701,793 total letters
Searching..................................................done
Query= psy6720
(182 letters)
>2i7n_A Pantothenate kinase 1; PANK, transferase; HET: ACO; 1.90A {Homo
sapiens} SCOP: c.55.1.14 c.55.1.14 PDB: 3smp_A* 3sms_A*
2i7p_A* 3mk6_A*
Length = 360
Score = 165 bits (419), Expect = 1e-50
Identities = 110/144 (76%), Positives = 125/144 (86%), Gaps = 5/144 (3%)
Query: 14 TSLGGGTFLGLCCLLTGCNSFEEAIELATSGDNTKVDKLVRDIYGGSYERF-----LGMF 68
TSLGGGTFLGLCCLLTGC +FEEA+E+A GD+T VDKLV+DIYGG YERF
Sbjct: 203 TSLGGGTFLGLCCLLTGCETFEEALEMAAKGDSTNVDKLVKDIYGGDYERFGLQGSAVAS 262
Query: 69 SFGHMNSKEKRESVSREDLARATLVTITNNIGSIARMSAINENINKVVFVGNFLRVNPIS 128
SFG+M SKEKR+S+S+EDLARATLVTITNNIGSIARM A+NENI++VVFVGNFLR+N +S
Sbjct: 263 SFGNMMSKEKRDSISKEDLARATLVTITNNIGSIARMCALNENIDRVVFVGNFLRINMVS 322
Query: 129 MKLLAYAMDYWSKGTQKALFLEHE 152
MKLLAYAMD+WSKG KALFLEHE
Sbjct: 323 MKLLAYAMDFWSKGQLKALFLEHE 346
>2ews_A Pantothenate kinase; PANK, structural genomics, structural genomics
consortium, S transferase; HET: ANP; 2.05A
{Staphylococcus aureus subsp} SCOP: c.55.1.14
Length = 287
Score = 127 bits (320), Expect = 1e-36
Identities = 30/142 (21%), Positives = 58/142 (40%), Gaps = 7/142 (4%)
Query: 14 TSLGGGTFLGLCCLLTGCNSFEEAIELATSGDNTKVDKLVRDIYGGSYERFLGMF---SF 70
GGG GL LL+ +++ ++A GD +D VR IY + G +F
Sbjct: 137 IGTGGGMIQGLGYLLSQITDYKQLTDMAQHGDRNTIDLKVRHIYKDTEPPIPGDLTAANF 196
Query: 71 GHMNSKEKRESVSREDLARATLVTITNNIGSIARMSAINENINKVVFVGNFLRVNPISMK 130
GH+ + + + A + + + ++A A +V++G+ N + K
Sbjct: 197 GHVLHHLDAD-FTPSNKLAAVIGVVGEVVTTMAITVAREFKTENIVYIGSSFHNNALLRK 255
Query: 131 LLAYAMDYWSKGTQKALFLEHE 152
++ DY K ++E+
Sbjct: 256 VVE---DYTVLRGCKPYYVENG 274
>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 = 44.3 bits (104), Expect = 9e-06
Identities = 31/135 (22%), Positives = 52/135 (38%), Gaps = 32/135 (23%)
Query: 22 LG----LCCLLTGCNSFEEAIELATS-GDNTKVDKLVRDIYGGSYERFLGMFSF--GHMN 74
LG L L S E +E+ G T + RD G S GM + G +
Sbjct: 1764 LGEYAALASL-ADVMSIESLVEVVFYRG-MTMQVAVPRDELGRSN---YGMIAINPGRVA 1818
Query: 75 SKEKRESVSR--EDLARAT--LVTITN-NI--------GSIARMSAINENINKVVFVGNF 121
+ +E++ E + + T LV I N N+ G + ++ V V NF
Sbjct: 1819 ASFSQEALQYVVERVGKRTGWLVEIVNYNVENQQYVAAGDL-------RALDTVTNVLNF 1871
Query: 122 LRVNPISMKLLAYAM 136
+++ I + L ++
Sbjct: 1872 IKLQKIDIIELQKSL 1886
Score = 30.8 bits (69), Expect = 0.30
Identities = 31/148 (20%), Positives = 40/148 (27%), Gaps = 44/148 (29%)
Query: 34 FEEAIELATSGDNTKVDKLVRDIYGGSYERFLG------MFSFGHMNSKEKRE---SVSR 84
+ A D +D YG S + FG K RE ++
Sbjct: 1646 WNRA------------DNHFKDTYGFSILDIVINNPVNLTIHFGGEKGKRIRENYSAMIF 1693
Query: 85 EDLARATLVTITNNIGSIARMSAINENINKVVFVGNFLRVNPISMKLLAYAMDYWSKGTQ 144
E + L T I INE+ F LL A + TQ
Sbjct: 1694 ETIVDGKLKT--EKI-----FKEINEHSTSYTFRS------EKG--LL-SATQF----TQ 1733
Query: 145 KALFLEHEVCIIGIFDHWTSHPAFIDSY 172
AL L E PA D+
Sbjct: 1734 PALTL-MEKAAFEDLKSKGLIPA--DAT 1758
Score = 28.1 bits (62), Expect = 2.0
Identities = 9/28 (32%), Positives = 12/28 (42%), Gaps = 7/28 (25%)
Query: 114 KVVFVGNFLRVNPISM----KLLAYAMD 137
K+ F FL P++ LL A D
Sbjct: 413 KLKFSNRFL---PVASPFHSHLLVPASD 437
>3hbm_A UDP-sugar hydrolase; PSEG; 1.80A {Campylobacter jejuni subsp} PDB:
3hbn_A*
Length = 282
Score = 31.3 bits (69), Expect = 0.16
Identities = 12/84 (14%), Positives = 22/84 (26%)
Query: 99 IGSIARMSAINENINKVVFVGNFLRVNPISMKLLAYAMDYWSKGTQKALFLEHEVCIIGI 158
G I R + + + V F L + I + ++ E + I
Sbjct: 15 FGHIKRDLVLAKQYSDVSFACLPLEGSLIDEIPYPVYELSSESIYELINLIKEEKFELLI 74
Query: 159 FDHWTSHPAFIDSYKPGVDFILNG 182
DH+ K +
Sbjct: 75 IDHYGISVDDEKLIKLETGVKILS 98
>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 = 30.6 bits (68), Expect = 0.29
Identities = 23/152 (15%), Positives = 45/152 (29%), Gaps = 39/152 (25%)
Query: 30 GCNSFEEAIELATSGDNTKVDKLVRDIYGGSYERFLGMFSFGHMNSKEKRESVSREDLAR 89
C+ IE + ++ L Y ++R L +F S +
Sbjct: 351 NCDKLTTIIESS-------LNVLEPAEYRKMFDR-LSVF----------PPSA---HIPT 389
Query: 90 ATLVTITNNIGSIARMSAINENINKVVFVGNF----LRVNPISMKLLAYAMDYWSKGTQK 145
L I ++ M +N+ + + + I ++L + +
Sbjct: 390 ILLSLIWFDVIKSDVMVVVNKLHKYSLVEKQPKESTISIPSIYLELKVKLEN------EY 443
Query: 146 ALFLEHEVCI-----IGIFDHWTSHPAFIDSY 172
AL H + FD P ++D Y
Sbjct: 444 AL---HRSIVDHYNIPKTFDSDDLIPPYLDQY 472
>1knw_A Diaminopimelate decarboxylase; pyridoxal-phosphate,
decarboxylation, lysin barrel, lyase; HET: PLP MES;
2.10A {Escherichia coli} SCOP: b.49.2.3 c.1.6.1 PDB:
1ko0_A*
Length = 425
Score = 29.1 bits (66), Expect = 0.89
Identities = 12/45 (26%), Positives = 22/45 (48%), Gaps = 3/45 (6%)
Query: 82 VSREDLARATLVTITNNIGSIARMSAINENINKVVFVGNFLRVNP 126
+ + L R + + I N GS+ + + + ++ V LRVNP
Sbjct: 104 IDQATLERVSELQIPVNAGSVDMLDQLGQ-VSPGHRVW--LRVNP 145
>2qee_A BH0493 protein; amidohydrolase, structural genomics, PSI-2, protein
structure initiative; 1.65A {Bacillus halodurans c-125}
PDB: 3hka_A* 2q6e_A 3hk5_A* 3hk7_A* 3hk8_A* 3hk9_A*
2q08_A* 2pnk_A*
Length = 437
Score = 27.7 bits (61), Expect = 2.4
Identities = 5/36 (13%), Positives = 19/36 (52%)
Query: 31 CNSFEEAIELATSGDNTKVDKLVRDIYGGSYERFLG 66
+ +++ ++ ++ + V D++ ++ RF+G
Sbjct: 380 IDKYDDILQAGWEVTEEEIKRDVADLFSRNFWRFVG 415
>3jvp_A Ribulokinase; PSI-II, NYSGXRC, ribulose kinase, sugar kinase,
crsytal structure, structural genomics, protein
structure initiative; HET: 5RP; 2.31A {Bacillus
halodurans} PDB: 3qdk_A*
Length = 572
Score = 26.9 bits (60), Expect = 3.9
Identities = 10/54 (18%), Positives = 21/54 (38%), Gaps = 5/54 (9%)
Query: 83 SREDLARATLVTI---TNNIGSIARMSAINENINKVVFVGNFLRVNPISMKLLA 133
E++ RA L T I + ++++ G + N + M++ A
Sbjct: 410 KPEEIYRALLEATAFGTRAI--VDAFHGRGVEVHELYACGGLPQKNHLLMQIFA 461
>3s5o_A 4-hydroxy-2-oxoglutarate aldolase, mitochondrial; beta barrel,
schiff base, hydroxyproline metabolis; HET: KPI; 1.97A
{Homo sapiens} PDB: 3s5n_A
Length = 307
Score = 26.5 bits (59), Expect = 5.2
Identities = 4/13 (30%), Positives = 8/13 (61%)
Query: 29 TGCNSFEEAIELA 41
+GC S + +E+
Sbjct: 90 SGCESTQATVEMT 102
>2wkj_A N-acetylneuraminate lyase; directed evolution, sialic acid
mimetics, aldolase, S base, carbohydrate metabolism,
N-acetylneuraminic acid LYAS; HET: KPI PYR; 1.45A
{Escherichia coli} PDB: 2wnq_A 2xfw_A* 2wpb_A* 2wnz_A*
2ygy_A* 2wo5_A* 2wnn_A* 3lbm_A 3lbc_A 3lcf_A 3lcl_A
3lcg_A 3lch_A 3lci_A 1hl2_A 1fdy_A 1fdz_A 1nal_1 3lcx_A
3lcw_A
Length = 303
Score = 26.2 bits (58), Expect = 5.8
Identities = 8/22 (36%), Positives = 10/22 (45%)
Query: 29 TGCNSFEEAIELATSGDNTKVD 50
GC S E+ +LA S D
Sbjct: 87 VGCVSTAESQQLAASAKRYGFD 108
>3g9a_B Minimizer; antibody complex, chromophore, luminescence,
photoprotein, fluorescent protein/immune system complex,
nanobody; HET: GYS; 1.61A {Lama pacos}
Length = 139
Score = 25.9 bits (58), Expect = 6.1
Identities = 9/11 (81%), Positives = 9/11 (81%)
Query: 134 YAMDYWSKGTQ 144
Y MDYW KGTQ
Sbjct: 118 YVMDYWGKGTQ 128
>3nzb_X Dihydrofolate reductase; pneumocystius carinii DHFR inhibitor
complexes, oxidoreducta oxidoreductase-oxidoreductase
inhibitor complex; HET: D2N NAP; 1.45A {Pneumocystis
carinii} PDB: 1daj_A* 1cd2_A* 1e26_A* 1klk_A* 1ly3_A*
1ly4_A* 1s3y_A* 2cd2_A* 2fzh_A* 1dyr_A* 3cd2_A* 3nz6_X*
3nz9_X* 3nza_X* 2fzi_A* 3nzc_X* 3td8_A* 4cd2_A* 1vj3_A*
Length = 206
Score = 26.2 bits (58), Expect = 6.5
Identities = 8/39 (20%), Positives = 17/39 (43%), Gaps = 4/39 (10%)
Query: 31 CNSFEEAIELATSGDNTKVDKLVRDIY--GGS--YERFL 65
S + A+EL ++ + I+ GG+ Y+ +
Sbjct: 95 AKSLDHALELLYRTYGSESSVQINRIFVIGGAQLYKAAM 133
>4aey_A D-erythro-7,8-dihydroneopterin triphosphate epime; isomerase,
pteridine biosynthesis; 3.00A {Pseudomonas aeruginosa}
Length = 156
Score = 25.8 bits (57), Expect = 6.5
Identities = 8/44 (18%), Positives = 16/44 (36%), Gaps = 10/44 (22%)
Query: 120 NFLRVNPISMKLLAYAMDYWSKGTQKALFLE-HEV-CIIGIFDH 161
F ++P +M L M + ++ + IGI +
Sbjct: 25 YFQGIDPFTMPRLEPGMAR--------IRVKDLRLRTFIGIKEE 60
>1jtp_A Single-domain antibody; immunoglobulin, heavy chain antibody, VHH,
interface, binding, antibody, hydrolase; 1.90A {Camelus
dromedarius} SCOP: b.1.1.1 PDB: 1jto_A 1mel_A 2x89_A
Length = 148
Score = 25.5 bits (57), Expect = 6.7
Identities = 6/11 (54%), Positives = 7/11 (63%)
Query: 134 YAMDYWSKGTQ 144
Y D W +GTQ
Sbjct: 118 YGYDSWGQGTQ 128
>1zvh_A Immunoglobulin heavy chain antibody variable domain; beta sandwich,
immunoglobulin fold, protein-protein heterocomplex;
1.50A {Camelus dromedarius} SCOP: b.1.1.1 PDB: 3dwt_A
1g6v_K 1zv5_A 1kxq_E
Length = 134
Score = 25.5 bits (57), Expect = 7.5
Identities = 6/11 (54%), Positives = 8/11 (72%)
Query: 134 YAMDYWSKGTQ 144
Y +YW +GTQ
Sbjct: 110 YGYNYWGQGTQ 120
>1kxt_B Immunoglobulin VHH fragment; alpha 8 beta 8, beta barrel,
hydrolase, immune system; 2.00A {Camelus dromedarius}
SCOP: b.1.1.1
Length = 127
Score = 25.1 bits (56), Expect = 8.0
Identities = 6/11 (54%), Positives = 8/11 (72%)
Query: 134 YAMDYWSKGTQ 144
Y +YW +GTQ
Sbjct: 112 YGPNYWGQGTQ 122
>3bae_H WO2 IGG2A FAB fragment heavy chain; abeta, FAB, WO2, alzheimer'S
disease, immunotherapies, APP, immune system; 1.59A {Mus
musculus} SCOP: b.1.1.2 PDB: 3bkc_H 3bkj_H 3bkm_H 3mck_H
2r0w_H* 2iqa_H 2iq9_H 1ggi_H 1ggb_H 1ggc_H 3eys_H*
2ipt_H 2ipu_H 3eyu_H* 2r0z_H* 3rkd_H 1r0a_H* 1n5y_H*
1n6q_H* 1t03_H* ...
Length = 228
Score = 25.6 bits (57), Expect = 9.8
Identities = 7/21 (33%), Positives = 8/21 (38%)
Query: 123 RVNPISMKLLAYAMDYWSKGT 143
R K DYW +GT
Sbjct: 99 RRGFYGRKYEVNHFDYWGQGT 119
>3b4u_A Dihydrodipicolinate synthase; structural genomics, PSI-2, MC
protein structure initiative, midwest center for
structural genomics; 1.20A {Agrobacterium tumefaciens
str}
Length = 294
Score = 25.7 bits (57), Expect = 10.0
Identities = 3/13 (23%), Positives = 7/13 (53%)
Query: 29 TGCNSFEEAIELA 41
+S E+A + +
Sbjct: 79 VLVDSIEDAADQS 91
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
0.322 0.139 0.426
Gapped
Lambda K H
0.267 0.0679 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Sequences: 27921
Number of Hits to DB: 2,829,107
Number of extensions: 159146
Number of successful extensions: 561
Number of sequences better than 10.0: 1
Number of HSP's gapped: 556
Number of HSP's successfully gapped: 37
Length of query: 182
Length of database: 6,701,793
Length adjustment: 88
Effective length of query: 94
Effective length of database: 4,244,745
Effective search space: 399006030
Effective search space used: 399006030
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: 54 (24.7 bits)