RPS-BLAST 2.2.26 [Sep-21-2011]
Database: pdb70
27,921 sequences; 6,701,793 total letters
Searching..................................................done
Query= psy2336
(222 letters)
>1ll2_A Glycogenin-1; protein-substrate complex, beta-alpha-beta
rossman-like NUCL binding fold, DXD motif, non-proline
CIS peptide bond, TRAN; HET: UPG; 1.90A {Oryctolagus
cuniculus} SCOP: c.68.1.14 PDB: 1ll3_A 1ll0_A 1zcv_A
1zcu_A 1zdf_A* 1zcy_A 1zdg_A*
Length = 333
Score = 198 bits (504), Expect = 5e-63
Identities = 119/218 (54%), Positives = 149/218 (68%), Gaps = 4/218 (1%)
Query: 8 LLKVFNFVKEVDVFDSRDETNLRLLSRPDLGITFTKIHAWRLTQYSKCVFLDADVLIVQN 67
L VF+ V VD+ DS D +L L+ RP+LG+T TK+H W LTQYSKCVF+DAD L++ N
Sbjct: 51 LEIVFDEVITVDILDSGDSAHLTLMKRPELGVTLTKLHCWSLTQYSKCVFMDADTLVLAN 110
Query: 68 CDELFDREELSAAPDAGWPDCFNSGVFVFKPSESTYNALVEFALVNGSFDGGDQGLLNLY 127
D+LF+REELSAAPD GWPDCFNSGVFV++PS TYN L+ A GSFDGGDQGLLN +
Sbjct: 111 IDDLFEREELSAAPDPGWPDCFNSGVFVYQPSVETYNQLLHVASEQGSFDGGDQGLLNTF 170
Query: 128 FSDWATADSSKRLPFIYNMCSTSTYSYLPALKQFGSKVKIIHFIGSSKPWLQHFDSTTGA 187
F+ WAT D K LPFIYN+ S S YSYLPA K FG+ K++HF+G +KPW +D+ T +
Sbjct: 171 FNSWATTDIRKHLPFIYNLSSISIYSYLPAFKAFGANAKVVHFLGQTKPWNYTYDTKTKS 230
Query: 188 ILSGDS----HLTNFLQLWWDVFVVHVHPTLTTEMIFY 221
+ S FL +WWD+F V P L +
Sbjct: 231 VRSEGHDPTMTHPQFLNVWWDIFTTSVVPLLQQFGLVQ 268
>3u2u_A Glycogenin-1, GN-1, GN1; structural genomics, structural genomics
consortium, SGC, transferase, glycosyltransferase,
glycogen biosynthesis; HET: GLC UDP; 1.45A {Homo
sapiens} PDB: 3t7n_A* 3t7o_A* 3t7m_A* 3u2v_A* 3u2x_A*
3u2t_A 3rmv_A* 3rmw_A* 3u2w_A* 3qvb_A* 3q4s_A* 1zct_A*
3v8y_A 3v8z_A* 3usr_A 3v90_A 3v91_A* 3usq_A
Length = 263
Score = 192 bits (488), Expect = 1e-61
Identities = 120/209 (57%), Positives = 147/209 (70%), Gaps = 4/209 (1%)
Query: 10 KVFNFVKEVDVFDSRDETNLRLLSRPDLGITFTKIHAWRLTQYSKCVFLDADVLIVQNCD 69
VF+ V VDV DS D +L L+ RP+LG+T TK+H W LTQYSKCVF+DAD L++ N D
Sbjct: 54 TVFDEVIMVDVLDSGDSAHLTLMKRPELGVTLTKLHCWSLTQYSKCVFMDADTLVLANID 113
Query: 70 ELFDREELSAAPDAGWPDCFNSGVFVFKPSESTYNALVEFALVNGSFDGGDQGLLNLYFS 129
+LFDREELSAAPD GWPDCFNSGVFV++PS TYN L+ A GSFDGGDQG+LN +FS
Sbjct: 114 DLFDREELSAAPDPGWPDCFNSGVFVYQPSVETYNQLLHLASEQGSFDGGDQGILNTFFS 173
Query: 130 DWATADSSKRLPFIYNMCSTSTYSYLPALKQFGSKVKIIHFIGSSKPWLQHFDSTTGAIL 189
WAT D K LPFIYN+ S S YSYLPA K FG+ K++HF+G KPW +D T ++
Sbjct: 174 SWATTDIRKHLPFIYNLSSISIYSYLPAFKVFGASAKVVHFLGRVKPWNYTYDPKTKSVK 233
Query: 190 S----GDSHLTNFLQLWWDVFVVHVHPTL 214
S + FL LWW++F +V P L
Sbjct: 234 SEAHDPNMTHPEFLILWWNIFTTNVLPLL 262
>3tzt_A Glycosyl transferase family 8; structural genomics, PSI-biology,
midwest center for structu genomics, MCSG, putative
glycosyl transferase; HET: MSE CIT; 2.10A {Anaerococcus
prevotii}
Length = 276
Score = 67.6 bits (165), Expect = 8e-14
Identities = 32/161 (19%), Positives = 53/161 (32%), Gaps = 36/161 (22%)
Query: 52 YSKCVFLDADVLIVQNCDELFDRE----ELSAAPDAGWPD---------------CFNSG 92
+ ++LD D+L++ D+L + L+AA G D +NSG
Sbjct: 101 LGEILYLDPDMLVINPLDDLLRTDISDYILAAASHTGKTDMANNVNRIRLGTDTDYYNSG 160
Query: 93 VFVFKPS----ESTYNALVEFALVNGS-FDGGDQGLLNLYFSDWATADSSKRLPFIYNMC 147
+ + E + + F N DQ +LN + D L +
Sbjct: 161 LLLINLKRAREEIDPDEIFSFVEDNHMNLLLPDQDILNAMY-----GDRIYPLDDLIYNY 215
Query: 148 STSTYSYLPA-------LKQFGSKVKIIHFIGSSKPWLQHF 181
YS L ++HF G KPW ++
Sbjct: 216 DARNYSSYLIRSKKQADLAWLMDHTVVLHFCGRDKPWKKNH 256
>1g9r_A Glycosyl transferase; alpha-beta structure; HET: UPF; 2.00A
{Neisseria meningitidis} SCOP: c.68.1.4 PDB: 1ga8_A*
1ss9_A*
Length = 311
Score = 65.6 bits (160), Expect = 6e-13
Identities = 30/168 (17%), Positives = 48/168 (28%), Gaps = 41/168 (24%)
Query: 49 LTQYSKCVFLDADVLIVQNCDELFDRE----ELSAAPDAGWPD---------------CF 89
+ K ++LD DVL+ + L+D + L A+ D F
Sbjct: 93 IADCDKVLYLDIDVLVRDSLTPLWDTDLGDNWLGASIDLFVERQEGYKQKIGMADGEYYF 152
Query: 90 NSGVFVFKPS----ESTYNALVEFALVNGS-FDGGDQGLLNLYFSDWATADSSKRLPFIY 144
N+GV + + E+ DQ +LN F +
Sbjct: 153 NAGVLLINLKKWRRHDIFKMSSEWVEQYKDVMQYQDQDILNGLF-----KGGVCYANSRF 207
Query: 145 NMCST------------STYSYLPALKQFGSKVKIIHFIGSSKPWLQH 180
N T T V + H+ G +KPW +
Sbjct: 208 NFMPTNYAFMANWFASRHTDPLYRDRTNTVMPVAVSHYCGPAKPWHRD 255
>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 = 36.6 bits (84), Expect = 0.005
Identities = 45/221 (20%), Positives = 72/221 (32%), Gaps = 71/221 (32%)
Query: 14 FVKEV----DVFDSRDE--TNLRLLSRPDLGITFTKIHAWRLTQYSKCV----------F 57
F K + + F + DE T L+ + LG + + ++ Q+ + + +
Sbjct: 37 FNKILPEPTEGFAADDEPTTPAELVGKF-LGYVSSLVEPSKVGQFDQVLNLCLTEFENCY 95
Query: 58 L-DADV------LIVQNCDELFDREE-LSAAPDAGWPDCFNSGVFVFKPSESTYNALVEF 109
L D+ L+ +N L +E + A + K S S AL
Sbjct: 96 LEGNDIHALAAKLLQENDTTLVKTKELIKNYITA----RIMAKRPFDKKSNS---ALFR- 147
Query: 110 ALVNGS------FDGGDQGLLNLYFSDWATADSSKRLPFIYNMCSTSTYSYLPALKQFGS 163
A+ G+ F GG QG + YF + L +Y TY L
Sbjct: 148 AVGEGNAQLVAIF-GG-QGNTDDYFEE---------LRDLYQ-----TYHVL-------- 183
Query: 164 KVKIIHFIGSSKPWLQHFDSTTGAILSGDSHLTNFLQL--W 202
+ I S L TT L + T L + W
Sbjct: 184 ---VGDLIKFSAETLSELIRTT---LDAEKVFTQGLNILEW 218
Score = 30.4 bits (68), Expect = 0.58
Identities = 15/64 (23%), Positives = 27/64 (42%), Gaps = 15/64 (23%)
Query: 2 SFAPNELLKVFNFVKEVDVFDSRDETNLRLLS---RPDL--GITFTKIHAW-RLTQYSKC 55
SF ++ ++ V+D+ D ++LR+LS + I + W TQ+
Sbjct: 449 SFNAKDI--------QIPVYDTFDGSDLRVLSGSISERIVDCIIRLPVK-WETTTQFKAT 499
Query: 56 VFLD 59
LD
Sbjct: 500 HILD 503
Score = 26.6 bits (58), Expect = 9.7
Identities = 29/178 (16%), Positives = 47/178 (26%), Gaps = 58/178 (32%)
Query: 7 ELLKVFNFVKEVDVFDSRDETNLRLLSRPDLGITFTKIHAWRLTQYSKCVFLDADVLIVQ 66
+L K + DV++ D + G + I ++
Sbjct: 1634 DLYKTSKAAQ--DVWNRADN-----HFKDTYGFSILDI-------------------VIN 1667
Query: 67 NCDEL---FD-------REELSAAPDAGWPDCFNSGVFVFKPSESTYNALVEFALVNGSF 116
N L F RE SA D +FK + + +F
Sbjct: 1668 NPVNLTIHFGGEKGKRIRENYSAMIFETIVDGKLKTEKIFKE--------INEHSTSYTF 1719
Query: 117 DGGDQGLLNLYFSDWATADSSKRLPFIYNMCSTSTYSYLPALKQFGSKVKIIHFIGSS 174
++GLL+ T + P + + LK G F G S
Sbjct: 1720 RS-EKGLLSA------TQFTQ---PALT----LMEKAAFEDLKSKGLIPADATFAGHS 1763
>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 = 34.1 bits (77), Expect = 0.033
Identities = 35/200 (17%), Positives = 57/200 (28%), Gaps = 45/200 (22%)
Query: 1 MSFAPNELLKVFNFVKEVDVFDSRDE---TNLRLLSRPDLGITFTKIHAWRLT-QYSKCV 56
M+ P+E+ + + D E TN R LS I I T K V
Sbjct: 296 MTLTPDEVKSLLLKYLDCRPQDLPREVLTTNPRRLS-----IIAESIRDGLATWDNWKHV 350
Query: 57 FLDADVLIVQNCDELFDREELSAAPDAGWPDCFNSGVFVFKPS----------------- 99
D I+++ + + E F+ + VF PS
Sbjct: 351 NCDKLTTIIESSLNVLEPAEYR--------KMFDR-LSVFPPSAHIPTILLSLIWFDVIK 401
Query: 100 ---ESTYNALVEFALVNGSFDGGDQGLLNLYFSDWATADSSKRL--PFI--YNMCSTSTY 152
N L +++LV + ++Y ++ L + YN+ T
Sbjct: 402 SDVMVVVNKLHKYSLVEKQPKESTISIPSIYLELKVKLENEYALHRSIVDHYNIPKTFDS 461
Query: 153 SYLPALKQFGSKVKIIHFIG 172
L IG
Sbjct: 462 DDLIPPYLDQY---FYSHIG 478
Score = 28.7 bits (63), Expect = 1.9
Identities = 27/200 (13%), Positives = 47/200 (23%), Gaps = 65/200 (32%)
Query: 1 MSFAPNELLKVF--NFVKEVDVFDSRDETNLRLLSRPDLGITFTKIHAWRLTQYSKCVFL 58
+ ++L VF FV D D +D K +
Sbjct: 14 HQYQYKDILSVFEDAFVDNFDCKDVQDMP--------------------------KSILS 47
Query: 59 DADVLIVQNCDELFDREELSAAPDAGWPDCFNSGVFVF-----KPSESTYNALVEFAL-V 112
+ D + D + + +F K E VE L +
Sbjct: 48 KEE------IDHIIMS-----------KDAVSGTLRLFWTLLSKQ-EEMVQKFVEEVLRI 89
Query: 113 NGSFDGGDQGLLNLYFSDWATADSSKRLPF-IYNMCSTSTYSYLPALKQFGSKVKIIHFI 171
N F L S T + +Y Y+ ++ V +
Sbjct: 90 NYKF---------LM-SPIKTEQRQPSMMTRMYIEQRDRLYNDNQVFAKY--NVSRLQPY 137
Query: 172 GSSKPWLQHFDSTTGAILSG 191
+ L ++ G
Sbjct: 138 LKLRQALLELRPAKNVLIDG 157
>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 = 28.4 bits (62), Expect = 1.2
Identities = 8/31 (25%), Positives = 14/31 (45%), Gaps = 10/31 (32%)
Query: 15 VKEVDVFDSRDETNLRLL---SRPDLGITFT 42
+K++ + +L+L S P L I T
Sbjct: 22 LKKL-------QASLKLYADDSAPALAIKAT 45
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 0.138 0.439
Gapped
Lambda K H
0.267 0.0476 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Sequences: 27921
Number of Hits to DB: 3,478,687
Number of extensions: 195541
Number of successful extensions: 480
Number of sequences better than 10.0: 1
Number of HSP's gapped: 469
Number of HSP's successfully gapped: 12
Length of query: 222
Length of database: 6,701,793
Length adjustment: 90
Effective length of query: 132
Effective length of database: 4,188,903
Effective search space: 552935196
Effective search space used: 552935196
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: 40 (21.5 bits)
S2: 55 (25.6 bits)