RPS-BLAST 2.2.26 [Sep-21-2011]
Database: pdb70
27,921 sequences; 6,701,793 total letters
Searching..................................................done
Query= psy5717
(351 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 = 33.7 bits (76), Expect = 0.095
Identities = 23/156 (14%), Positives = 44/156 (28%), Gaps = 30/156 (19%)
Query: 205 YTHSQRPSTDEVNLCCRDSV-----------DCGRFSRHQSMAVRLSVECGHTLRTDQRP 253
+ H T E +D + DC + + ++ E H + +
Sbjct: 3 HHHHMDFETGEHQYQYKDILSVFEDAFVDNFDC-KDVQDMPKSILSKEEIDHIIMSKDAV 61
Query: 254 SMDEVNLCCRDSVDCGRFSRHQSMAVRLSVECGHTLRTEWRAESIDQQIKGNDTELKFTE 313
S Q V+ VE + ++ I + + +
Sbjct: 62 SG------TLRLFWT--LLSKQEEMVQKFVEEVLRINYKFLMSPIKTEQRQPSMMTRMYI 113
Query: 314 RQRGKMECG---FAISESNGLKNELKRLERKKMLRK 346
QR ++ FA K + RL+ LR+
Sbjct: 114 EQRDRLYNDNQVFA-------KYNVSRLQPYLKLRQ 142
>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 = 33.5 bits (76), Expect = 0.12
Identities = 23/97 (23%), Positives = 30/97 (30%), Gaps = 42/97 (43%)
Query: 152 SERPMSERPLK--DR-LKLFSP-----LRAVA----------TVKISPNKL--------- 184
S P SER LK +R L + SP L + V + +
Sbjct: 405 SRIPFSERKLKFSNRFLPVASPFHSHLLVPASDLINKDLVKNNVSFNAKDIQIPVYDTFD 464
Query: 185 --DVRTL---ILGRMEDIITKTKAVY---------TH 207
D+R L I R+ D I V TH
Sbjct: 465 GSDLRVLSGSISERIVDCII-RLPVKWETTTQFKATH 500
>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 = 31.5 bits (70), Expect = 0.21
Identities = 8/26 (30%), Positives = 15/26 (57%), Gaps = 7/26 (26%)
Query: 159 RPLKDRLKLFSP-----LRAV-ATVK 178
+ L+ LKL++ L A+ AT++
Sbjct: 23 KKLQASLKLYADDSAPAL-AIKATME 47
Score = 28.8 bits (63), Expect = 1.9
Identities = 6/18 (33%), Positives = 8/18 (44%)
Query: 332 KNELKRLERKKMLRKPCS 349
K LK+L+ L S
Sbjct: 19 KQALKKLQASLKLYADDS 36
>1is8_A GTP cyclohydrolase I; enzyme-regulatory protein complex,
hydrolase/protein binding complex; HET: PHE; 2.70A
{Rattus norvegicus} SCOP: d.96.1.1 PDB: 1is7_A* 1wpl_A*
1fb1_A
Length = 230
Score = 28.9 bits (65), Expect = 2.3
Identities = 14/48 (29%), Positives = 22/48 (45%)
Query: 48 ERPSERPMSERPSERPMSERPMSERPSERPMSERPMSERPSERPSERL 95
ER RP + RP+E+ +P++ + RP SE +E L
Sbjct: 4 ERELPRPGASRPAEKSRPPEAKGAQPADAWKAGRPRSEEDNELNLPNL 51
Score = 27.7 bits (62), Expect = 4.8
Identities = 13/42 (30%), Positives = 21/42 (50%)
Query: 112 ERPSERPMSERPSERPMSERPMSERPSERPMSERPMSERPSE 153
ER RP + RP+E+ +P++ + RP SE +E
Sbjct: 4 ERELPRPGASRPAEKSRPPEAKGAQPADAWKAGRPRSEEDNE 45
>3k1f_M Transcription initiation factor IIB; RNA polymerase II, TFIIB,
transcription factor, DNA-binding, DNA-directed RNA
polymerase; 4.30A {Saccharomyces cerevisiae}
Length = 197
Score = 28.1 bits (62), Expect = 3.5
Identities = 16/74 (21%), Positives = 25/74 (33%), Gaps = 22/74 (29%)
Query: 235 MAVRLSVECGHTLRTDQRPSMDEVNLCCRDSVDCGRFSRHQSMAVRLS------VECGHT 288
M R S++ + P+++ V C +C + R S CG
Sbjct: 1 MMTRESID---KRAGRRGPNLNIVLTCP----ECK--VYPPKIVERFSEGDVVCALCGLV 51
Query: 289 L-------RTEWRA 295
L R+EWR
Sbjct: 52 LSDKLVDTRSEWRT 65
>4apc_A Serine/threonine-protein kinase NEK1; transferase; 2.10A {Homo
sapiens}
Length = 350
Score = 28.1 bits (63), Expect = 3.9
Identities = 16/85 (18%), Positives = 40/85 (47%), Gaps = 7/85 (8%)
Query: 87 PSERPSERLMSERP-----MSERPSERPMSERPSERPMSERPSERPMSERPMSERPSERP 141
P +RPS + E+ + + S + ++E + S+ S+ ++RP S + S
Sbjct: 265 PRDRPSVNSILEKGFIAKRIEKFLSPQLIAEEFCLKTFSKFGSQPIPAKRPASGQNSISV 324
Query: 142 MSERPMSERPSER--PMSERPLKDR 164
M + +++ ++ P++ + D+
Sbjct: 325 MPAQKITKPAAKYGIPLAYKKYGDK 349
>1twf_A B220, DNA-directed RNA polymerase II largest subunit; transcription,
mRNA, multiprotein complex; HET: UTP; 2.30A
{Saccharomyces cerevisiae} SCOP: e.29.1.2 PDB: 1i3q_A
1i6h_A 1k83_A* 1nik_A 1nt9_A 1pqv_A 1r5u_A 1r9s_A*
1r9t_A* 1sfo_A* 1twa_A* 1twc_A* 1i50_A* 1twg_A* 1twh_A*
1wcm_A 1y1v_A 1y1w_A 1y1y_A 1y77_A* ...
Length = 1733
Score = 28.1 bits (62), Expect = 6.3
Identities = 31/151 (20%), Positives = 38/151 (25%), Gaps = 8/151 (5%)
Query: 10 PSDRPMSERPSERPMSERPSLRPSERPMSERPSERPMSERPSERPMSERPSERPMSERPM 69
P ++ + + P S + E P
Sbjct: 1472 PYSNESGLVNADLDVKDELMFSPLVDSGSNDAMAGGFTAYGGADYGEATSPFGAYGEAPT 1531
Query: 70 SERPSERPMSERPMSERPSERPSERLMSERPMSERPSERPMSERPSERPMSERPSERPMS 129
S P S P+ P+ S P S S P S PS P S S S
Sbjct: 1532 S--PGFGVSSPGFSPTSPTYSPTSPAYS--PTSPSYS--PTS--PSYSPTSPSYSPTSPS 1583
Query: 130 ERPMSERPSERPMSERPMSERPSERPMSERP 160
P S S S P S S S P
Sbjct: 1584 YSPTSPSYSPTSPSYSPTSPSYSPTSPSYSP 1614
>1q4k_B Serine/threonine-protein kinase PLK; six-stranded anti-parallel
beta sheet with one alpha helix, transferase; HET: TPO;
2.30A {Homo sapiens} SCOP: d.223.1.2 d.223.1.2
Length = 259
Score = 27.1 bits (59), Expect = 7.8
Identities = 10/64 (15%), Positives = 24/64 (37%), Gaps = 2/64 (3%)
Query: 65 SERPMSERPSERPMSERPMSERPSERPSERLMSERPMSERPSERPMSERPSERPMSERPS 124
E P+ ERP E+ + + ++ + + + +P + +E P+
Sbjct: 3 LENPLPERPREKEEPVVRETGEVVDCHLSDML--QQLHSVNASKPSERGLVRQEEAEDPA 60
Query: 125 ERPM 128
P+
Sbjct: 61 CIPI 64
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
0.313 0.126 0.365
Gapped
Lambda K H
0.267 0.0495 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Sequences: 27921
Number of Hits to DB: 4,831,025
Number of extensions: 273265
Number of successful extensions: 363
Number of sequences better than 10.0: 1
Number of HSP's gapped: 351
Number of HSP's successfully gapped: 46
Length of query: 351
Length of database: 6,701,793
Length adjustment: 94
Effective length of query: 257
Effective length of database: 4,077,219
Effective search space: 1047845283
Effective search space used: 1047845283
Neighboring words threshold: 11
Window for multiple hits: 40
X1: 16 ( 7.2 bits)
X2: 38 (14.6 bits)
X3: 64 (24.7 bits)
S1: 42 (21.9 bits)
S2: 58 (26.7 bits)