RPS-BLAST 2.2.26 [Sep-21-2011]
Database: pdb70
27,921 sequences; 6,701,793 total letters
Searching..................................................done
Query= psy1578
(440 letters)
>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 = 49.5 bits (117), Expect = 2e-06
Identities = 76/488 (15%), Positives = 131/488 (26%), Gaps = 159/488 (32%)
Query: 3 RTLPENEPKDFHILPELALNDGKYKNLYRTRIKVSLR---GNTTSHS-----LHSDNPPS 54
+ E + F + L +N YK L + IK R T + L++DN
Sbjct: 72 LSKQEEMVQKF-VEEVLRIN---YKFLM-SPIKTEQRQPSMMTRMYIEQRDRLYNDNQVF 126
Query: 55 RPRTLPENEPKDFHILPELALNDVYVGEYNSALVSKLIISCDSHVPAKQIKCSGMCINTG 114
+ +P + AL +L PAK + G+ G
Sbjct: 127 AKYNVSRLQP---------------YLKLRQAL-LELR-------PAKNVLIDGV---LG 160
Query: 115 SGSTAWYYTISKLSEAKVNQLLTLSG----LDTSGCNVAE-ITERYNK-SLQFSPGLGAD 168
SG T + KV + L+ CN E + E K Q P
Sbjct: 161 SGKTW--VALDVCLSYKV--QCKMDFKIFWLNLKNCNSPETVLEMLQKLLYQIDPNW-TS 215
Query: 169 IIDSTNQNMILFGELQEEDTWFELEPAQKSYFDSMQHVNSYLQEEFHAVQNLLWKSRFIS 228
D ++ + +Q E + S + N L V + ++ +
Sbjct: 216 RSDHSSNIKLRIHSIQAEL---------RRLLKSKPYENCLL------VLLNVQNAKAWN 260
Query: 229 TFTELPKRKSKPSEPPD-ACRI-----------------HGSLTLNKVAGNLHVTAGKSL 270
F + +C+I ++L+ + L KSL
Sbjct: 261 AF--------------NLSCKILLTTRFKQVTDFLSAATTTHISLDHHSMTLTPDEVKSL 306
Query: 271 ----------ALP----GGH-IHLTMFGLGATYNFSHRIDKFSFGDPSPGIVHPLESEL- 314
LP + L++ + + D + H +L
Sbjct: 307 LLKYLDCRPQDLPREVLTTNPRRLSIIAE-SIRDGLATWDNWK---------HVNCDKLT 356
Query: 315 KITKEGVRGLANPFESR--------FLEN---PSRV------NPRTRVAFMAPSLSTFLR 357
I + + L P E R F + P+ + + + ++ +
Sbjct: 357 TIIESSLNVL-EPAEYRKMFDRLSVFPPSAHIPTILLSLIWFDVIKSDVMV--VVNKLHK 413
Query: 358 KS--KPSEPPDACRIHGSLTLNKVAGNLHVTAGKSLALPGGHIHLTMFGLGATYNFSHRI 415
S + I + L L V AL H + YN
Sbjct: 414 YSLVEKQPKESTISIPS-IYL-----ELKVKLENEYAL---HRSIV-----DHYNIPKTF 459
Query: 416 DKFSFGDP 423
D P
Sbjct: 460 DSDDLIPP 467
Score = 48.7 bits (115), Expect = 4e-06
Identities = 49/340 (14%), Positives = 90/340 (26%), Gaps = 104/340 (30%)
Query: 141 LDTSGCNVAEITERYNKSLQ-FSPGLGAD-----IIDSTNQNMILFGE-----LQEEDT- 188
+D E +Y L F + + D IL E + +D
Sbjct: 7 MDF---ETGEHQYQYKDILSVFEDAFVDNFDCKDVQDMPKS--ILSKEEIDHIIMSKDAV 61
Query: 189 -------W-FELEPAQ--KSYFDSMQHVN-SYLQEEFHAV--QNLLWKSRFISTFTELPK 235
W + + + + + + +N +L Q + +I L
Sbjct: 62 SGTLRLFWTLLSKQEEMVQKFVEEVLRINYKFLMSPIKTEQRQPSMMTRMYIEQRDRL-Y 120
Query: 236 RKSKPSEPPDACRIHGSLTLNKVAGNL----HVT------AGKS-LAL-----------P 273
++ + R+ L L + L +V +GK+ +AL
Sbjct: 121 NDNQVFAKYNVSRLQPYLKLRQALLELRPAKNVLIDGVLGSGKTWVALDVCLSYKVQCKM 180
Query: 274 GGHIH-LTMFG--------LGATYNFSHRIDK--FSFGDPSPGIVHPLES------ELKI 316
I L L ++ID S D S I + S L
Sbjct: 181 DFKIFWLN-LKNCNSPETVLEMLQKLLYQIDPNWTSRSDHSSNIKLRIHSIQAELRRLLK 239
Query: 317 TKEGVRGL-----------ANPFE--------SRFLENPSRVNPRTRVAF--------MA 349
+K L N F +RF + ++ T +
Sbjct: 240 SKPYENCLLVLLNVQNAKAWNAFNLSCKILLTTRFKQVTDFLSAATTTHISLDHHSMTLT 299
Query: 350 PS-----LSTFLRKSKPSEPPDACRIHGSLTLNKVAGNLH 384
P L +L P + + L+ +A ++
Sbjct: 300 PDEVKSLLLKYLDCRPQDLPREVLTTN-PRRLSIIAESIR 338
Score = 33.7 bits (76), Expect = 0.14
Identities = 40/219 (18%), Positives = 70/219 (31%), Gaps = 56/219 (25%)
Query: 10 PKDFHILPELAL----NDGKYK------NLYRTRIKVSLRGNTTSHSLHS---------D 50
P HI P + L D N V + ++ S+ S +
Sbjct: 382 PPSAHI-PTILLSLIWFDVIKSDVMVVVNKLHKYSLVEKQPKESTISIPSIYLELKVKLE 440
Query: 51 NPPSRPRTLPE--NEPKDF---HILPELALNDVYVGEY------------NSALVSKLII 93
N + R++ + N PK F ++P D Y + L + +
Sbjct: 441 NEYALHRSIVDHYNIPKTFDSDDLIPPY--LDQYFYSHIGHHLKNIEHPERMTLFRMVFL 498
Query: 94 SCDSHVPAKQIKCSGMCINTGSGSTAWYYTISKLSEAKVNQLLTLSGLDTSGCNVAEITE 153
+ K I+ TAW + S L N L L C+ E
Sbjct: 499 D-FRFLEQK-IRHDS---------TAWNASGSIL-----NTLQQLKFYKPYICDNDPKYE 542
Query: 154 RYNKSL-QFSPGLGADIIDSTNQNMILFGELQEEDTWFE 191
R ++ F P + ++I S +++ + E++ FE
Sbjct: 543 RLVNAILDFLPKIEENLICSKYTDLLRIALMAEDEAIFE 581
>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 = 48.5 bits (115), Expect = 4e-06
Identities = 72/473 (15%), Positives = 130/473 (27%), Gaps = 189/473 (39%)
Query: 19 LALNDGKYKNLYRTRIKVS---------LRG------NTTSHSLHSDNPPSRP------- 56
L L+ G +L + V L+ + +D+ P+ P
Sbjct: 9 LTLSHG---SL-EHVLLVPTASFFIASQLQEQFNKILPEPTEGFAADDEPTTPAELVGKF 64
Query: 57 -----RTLPENEPKDFHILPELAL----------NDVYVGEYNSALVSKLIISCDSHVPA 101
+ ++ F + L L ND++ AL +KL+ D+ +
Sbjct: 65 LGYVSSLVEPSKVGQFDQVLNLCLTEFENCYLEGNDIH------ALAAKLLQENDTTLVK 118
Query: 102 KQ--IKCSGMCINTGSGSTAWYYTISKLSEAKVNQLLTLSGL-DTSGCNVAEI------- 151
+ IK Y T +++ ++ S L G A++
Sbjct: 119 TKELIKN--------------YITARIMAKRPFDKKSN-SALFRAVGEGNAQLVAIFGGQ 163
Query: 152 --TERYNKSLQ--FS--PGLGADIIDSTNQNMILFGELQEEDTWFELEPAQKSYFDSMQH 205
T+ Y + L+ + L D+I + + EL + E + ++
Sbjct: 164 GNTDDYFEELRDLYQTYHVLVGDLIKFSAE---TLSELIRTTL--DAEKVFTQGLNILE- 217
Query: 206 VNSYLQEEFHAVQNLLWKSRFISTFTELPKRKSKPSEP---------P-----------D 245
W L + P + P
Sbjct: 218 ----------------W----------LENPSNTPDKDYLLSIPISCPLIGVIQLAHYVV 251
Query: 246 ACRIHGSLTLNKVAGNLHVTAGKSLALPGGH------------------IHLTMFGLGAT 287
++ G T ++ L G S L I + +F +G
Sbjct: 252 TAKLLG-FTPGELRSYLKGATGHSQGLVTAVAIAETDSWESFFVSVRKAITV-LFFIGVR 309
Query: 288 YNFSHRIDKFSFGDPSPGIVH-PLESELKITKEG-------VRGLANPFESRFLE--N-- 335
+ + P I+ LE+ EG + L ++ N
Sbjct: 310 ---CYEA--YPNTSLPPSILEDSLENN-----EGVPSPMLSISNLTQEQVQDYVNKTNSH 359
Query: 336 -P-------SRVN-PRTRVAFMA--PS----LSTFLRKSKPSEPPDACRIHGS 373
P S VN + V ++ P L+ LRK+K D RI S
Sbjct: 360 LPAGKQVEISLVNGAKNLV--VSGPPQSLYGLNLTLRKAKAPSGLDQSRIPFS 410
Score = 35.4 bits (81), Expect = 0.047
Identities = 43/215 (20%), Positives = 69/215 (32%), Gaps = 71/215 (33%)
Query: 3 RTLPENEPKDFHILPELALNDGKYKN---------LYRTRIKVSLRGNTTSHSLHSDNPP 53
LP + + E++L +G KN LY + ++LR L P
Sbjct: 358 SHLPAGK----QV--EISLVNG-AKNLVVSGPPQSLYG--LNLTLRKAKAPSGLDQSRIP 408
Query: 54 SRPRT-------LPENEPKDFH----------ILPELALNDVYVGEYNSALVSKLIISCD 96
R LP P FH I +L N+V + D
Sbjct: 409 FSERKLKFSNRFLPVASP--FHSHLLVPASDLINKDLVKNNV------------SFNAKD 454
Query: 97 SHVPAKQIKCSGMCINTGSGSTAWYYTISKLSEAKVNQLLTLSGLDTSGCNVAEITERYN 156
+P +T GS + S +SE V+ ++ L + + T
Sbjct: 455 IQIPVY---------DTFDGSDLRVLSGS-ISERIVDCIIRLP-VKWETTTQFKAT---- 499
Query: 157 KSLQFSPGLGADIIDSTNQN-------MILFGELQ 184
L F PG + + T++N +I+ G L
Sbjct: 500 HILDFGPGGASGLGVLTHRNKDGTGVRVIVAGTLD 534
>3pfn_A NAD kinase; structural genomics consortium, SNP, SGC, transferase;
2.70A {Homo sapiens}
Length = 365
Score = 43.6 bits (103), Expect = 7e-05
Identities = 21/105 (20%), Positives = 40/105 (38%), Gaps = 5/105 (4%)
Query: 23 DGKYKNLYRTRIKVSLRGNTTSHSLHSDNPPSRPRTLPENEPKDFHILPE--LALNDVYV 80
+G + R+R+KV + N + D LN+V +
Sbjct: 163 EGNAAVVLRSRLKVRVVKELRGKKTAVHNGLGEKGSQAAGLDMDVGKQAMQYQVLNEVVI 222
Query: 81 GEYNSALVSKLIISCDSHVPAKQIKCSGMCINTGSGSTAWYYTIS 125
S+ +S + + D H ++ G+ ++T +GSTA Y +
Sbjct: 223 DRGPSSYLSNVDVYLDGH-LITTVQGDGVIVSTPTGSTA--YAAA 264
>2pjm_A Ribose-5-phosphate isomerase A; 3D-structure, structural genomics,
pentose phosphate pathway, carbon fixation, NPPSFA;
1.78A {Methanocaldococcus jannaschii} PDB: 3ixq_A*
Length = 226
Score = 37.1 bits (87), Expect = 0.006
Identities = 22/93 (23%), Positives = 33/93 (35%), Gaps = 26/93 (27%)
Query: 101 AKQIKCSGMCINTGSGSTAWYYTISKLSEAKVNQLLTLSGLDTSGCNVAEITERYNKSLQ 160
K +K GM I G+GSTA I +L + LT+ G+ TS +
Sbjct: 15 VKLVK-DGMVIGLGTGSTA-ALFIRELGNRIREEELTVFGIPTS-----FEAKMLAMQY- 66
Query: 161 FSPGL---------------GADIIDSTNQNMI 178
+ GAD ++ T +I
Sbjct: 67 ---EIPLVTLDEYDVDIAFDGADEVEETTLFLI 96
>1xtz_A Ribose-5-phosphate isomerase; yeast; 2.10A {Saccharomyces
cerevisiae}
Length = 264
Score = 32.6 bits (75), Expect = 0.23
Identities = 7/39 (17%), Positives = 11/39 (28%), Gaps = 1/39 (2%)
Query: 107 SGMCINTGSGSTAWYYTISKLSEAKVNQLLTLSGLDTSG 145
I GSGST Y ++ + +
Sbjct: 38 DHKIIGIGSGSTV-VYVAERIGQYLHDPKFYEVASKFIC 75
>3l7o_A Ribose-5-phosphate isomerase A; RPIA; 1.70A {Streptococcus mutans}
Length = 225
Score = 31.7 bits (73), Expect = 0.32
Identities = 22/90 (24%), Positives = 38/90 (42%), Gaps = 20/90 (22%)
Query: 101 AKQIKCSGMCINTGSGSTAWYYTISKLSEAKVNQLLTLSGLDTSGCNVAEITERYNKS-- 158
A+ ++ GM + G+GSTA YY + ++ + L + G+ TS T ++
Sbjct: 13 AQYVE-DGMIVGLGTGSTA-YYFVEEVGRRVQEEGLQVIGVTTS-----SRTTAQAQALG 65
Query: 159 -----LQFSPGL-----GADIIDSTNQNMI 178
+ + GAD +D N N I
Sbjct: 66 IPLKSIDEVDSVDVTVDGADEVDP-NFNGI 94
>3kwm_A Ribose-5-phosphate isomerase A; structural genomics, IDP02119,
center for structu genomics of infectious diseases,
csgid; 2.32A {Francisella tularensis subsp}
Length = 224
Score = 29.8 bits (68), Expect = 1.3
Identities = 9/31 (29%), Positives = 16/31 (51%), Gaps = 2/31 (6%)
Query: 101 AKQIKCSGMCINTGSGSTAWYYTISKLSEAK 131
AK I + + + G+GST + I +L +
Sbjct: 21 AKSIT-TEITLGVGTGSTV-GFLIEELVNYR 49
>1lk5_A D-ribose-5-phosphate isomerase; alpha/beta structure; 1.75A
{Pyrococcus horikoshii} SCOP: c.124.1.4 d.58.40.1 PDB:
1lk7_A*
Length = 229
Score = 29.8 bits (68), Expect = 1.4
Identities = 15/45 (33%), Positives = 21/45 (46%), Gaps = 3/45 (6%)
Query: 101 AKQIKCSGMCINTGSGSTAWYYTISKLSEAKVN-QLLTLSGLDTS 144
K I+ M I G+GST Y I L E ++ + G+ TS
Sbjct: 15 LKFIE-DDMVIGLGTGSTT-AYFIKLLGEKLKRGEISDIVGVPTS 57
>1m0s_A Ribose-5-phosphate isomerase A; D-ribose 5-phosphate isomerase,
northeast structural genomics consortium, IR21,
structural genomics, PSI; HET: CIT; 1.90A {Haemophilus
influenzae} SCOP: c.124.1.4 d.58.40.1
Length = 219
Score = 29.4 bits (67), Expect = 1.6
Identities = 9/31 (29%), Positives = 13/31 (41%), Gaps = 2/31 (6%)
Query: 101 AKQIKCSGMCINTGSGSTAWYYTISKLSEAK 131
+ +K + + GSGST I L K
Sbjct: 15 LQYVK-ADRIVGVGSGSTV-NCFIEALGTIK 43
>3hhe_A Ribose-5-phosphate isomerase A; niaid, ssgcid, decode, SBRI, UW,
STRU genomics, seattle structural genomics center for
infectious; HET: 5RP; 2.30A {Bartonella henselae}
Length = 255
Score = 29.5 bits (67), Expect = 1.7
Identities = 13/44 (29%), Positives = 21/44 (47%), Gaps = 3/44 (6%)
Query: 101 AKQIKCSGMCINTGSGSTAWYYTISKLSEAKVNQLLTLSGLDTS 144
+ ++ M + GSGST I L E +V L ++ + TS
Sbjct: 36 LEFVE-DDMRLGIGSGSTV-NEFIPLLGE-RVANGLRVTCVATS 76
>1uj6_A Ribose 5-phosphate isomerase; enzyme-inhibitor complex, riken
structural genomics/proteomi initiative, RSGI,
structural genomics; HET: A5P; 1.74A {Thermus
thermophilus} SCOP: c.124.1.4 d.58.40.1 PDB: 1uj5_A*
1uj4_A*
Length = 227
Score = 29.4 bits (67), Expect = 2.0
Identities = 22/90 (24%), Positives = 35/90 (38%), Gaps = 20/90 (22%)
Query: 101 AKQIKCSGMCINTGSGSTAWYYTISKLSE-AKVNQLLTLSGLDTSGCNVAEITERYNKSL 159
++ GM + G+GSTA Y + +L+ + +L + G+ TS TE K
Sbjct: 17 IAYVQ-DGMVVGLGTGSTA-RYAVLELARRLREGELKGVVGVPTS-----RATEELAKRE 69
Query: 160 QF------SPGL-----GADIIDSTNQNMI 178
G+ GAD I +I
Sbjct: 70 GIPLVDLPPEGVDLAIDGADEIAP-GLALI 98
>1o8b_A Ribose 5-phosphate isomerase; RPIA, PSI, protein ST initiative,
MCSG, midwest center for structural genomics; HET: ABF;
1.25A {Escherichia coli} SCOP: c.124.1.4 d.58.40.1 PDB:
1lkz_A 1ks2_A* 3enq_A 3env_A* 3enw_A*
Length = 219
Score = 29.0 bits (66), Expect = 2.3
Identities = 9/31 (29%), Positives = 15/31 (48%), Gaps = 2/31 (6%)
Query: 101 AKQIKCSGMCINTGSGSTAWYYTISKLSEAK 131
+ ++ G + G+GSTA + I L K
Sbjct: 15 LQYVQ-PGTIVGVGTGSTA-AHFIDALGTMK 43
>2i2c_A Probable inorganic polyphosphate/ATP-NAD kinase 1; NADP bound of
lmnadk1, transferase; HET: DTA PG4; 1.85A {Listeria
monocytogenes egd-e} PDB: 2i1w_A* 2i2a_A* 2i2b_A*
2i29_A* 2i2d_A* 2i2e_A* 3v7u_A* 3v7w_A* 3v7y_A* 3v80_A*
3v8m_A* 3v8n_A* 3v8p_A* 4dy6_A* 2i2f_A* 2q5f_A* 3v8q_A*
3v8r_A*
Length = 272
Score = 28.7 bits (65), Expect = 3.5
Identities = 16/47 (34%), Positives = 25/47 (53%), Gaps = 3/47 (6%)
Query: 73 LALNDVYVGEYNSALVSKLIISCDSHVPAKQIKCSGMCINTGSGSTA 119
LALN+ V V ++I+ D H + G+C++T SG+TA
Sbjct: 119 LALNESTVKSSGGPFVVDVVIN-DIHFER--FRGDGLCMSTPSGTTA 162
>3uw1_A Ribose-5-phosphate isomerase A; ssgcid, seattle structural genomics
center for infectious DI isomerase, ribose isomerase;
HET: R5P; 1.71A {Burkholderia thailandensis} PDB:
3u7j_A*
Length = 239
Score = 28.3 bits (64), Expect = 3.9
Identities = 10/30 (33%), Positives = 12/30 (40%), Gaps = 1/30 (3%)
Query: 102 KQIKCSGMCINTGSGSTAWYYTISKLSEAK 131
G I G+GSTA I L+ K
Sbjct: 27 TDNVPQGAVIGVGTGSTA-NCFIDALAAVK 55
>2j9w_A VPS28, VPS28-PROV protein; NZF finger, HIV budding, protein
transport; 1.30A {Xenopus laevis}
Length = 102
Score = 27.1 bits (60), Expect = 4.9
Identities = 11/46 (23%), Positives = 15/46 (32%)
Query: 286 ATYNFSHRIDKFSFGDPSPGIVHPLESELKITKEGVRGLANPFESR 331
F +DK + + P EL T + L FE R
Sbjct: 13 IVSLFITVMDKLRLEIRAMDEIQPDLRELMETMNRMSHLPPDFEGR 58
>2f8m_A Ribose 5-phosphate isomerase; structural genomics, PSI, protein
structure initiative, STRU genomics of pathogenic
protozoa consortium; 2.09A {Plasmodium falciparum}
Length = 244
Score = 27.9 bits (63), Expect = 6.1
Identities = 11/43 (25%), Positives = 18/43 (41%), Gaps = 7/43 (16%)
Query: 95 CDSHVPAKQIKCSGMCINTGSGSTAWYYTISKLSEAKVNQLLT 137
D +V S M I G+GST +Y + ++ + L
Sbjct: 21 VDEYVQ------SNMTIGLGTGSTV-FYVLERIDNLLKSGKLK 56
>2dc1_A L-aspartate dehydrogenase; NAD, oxidoreductase; HET: CIT NAD; 1.90A
{Archaeoglobus fulgidus}
Length = 236
Score = 27.8 bits (61), Expect = 6.8
Identities = 16/60 (26%), Positives = 21/60 (35%), Gaps = 10/60 (16%)
Query: 299 FGDPSPGIVHPLESELKITKEGVRGLANPFESRFLENPSRVNPRTRVAFMAPSLSTFLRK 358
D +H + VRG E R P R NP+T A S++ LR
Sbjct: 180 VADEVEENIHEIL---------VRGEFGEMEIRVRNRPMRENPKTSY-LAALSVTRILRN 229
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 0.134 0.400
Gapped
Lambda K H
0.267 0.0778 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Sequences: 27921
Number of Hits to DB: 6,581,323
Number of extensions: 383169
Number of successful extensions: 774
Number of sequences better than 10.0: 1
Number of HSP's gapped: 760
Number of HSP's successfully gapped: 24
Length of query: 440
Length of database: 6,701,793
Length adjustment: 96
Effective length of query: 344
Effective length of database: 4,021,377
Effective search space: 1383353688
Effective search space used: 1383353688
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: 59 (26.4 bits)